Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167926.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_19, 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: 20060819
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 113000 characters in sequence are not A, C, G, or T
File 89 of 117
Found at i:16184819 original size:17 final size:17
Alignment explanation
Indices: 16184766--16184819 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
16184756 ATTTATCTAC
16184766 TTTTATTTAT-T-ATTA
1 TTTTATTTATCTAATTA
* *
16184781 TTATTATTTATCTATTTC
1 TT-TTATTTATCTAATTA
*
16184799 TTTTATTTATCTAATAA
1 TTTTATTTATCTAATTA
16184816 TTTT
1 TTTT
16184820 TTTTGTTATC
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
15 2 0.06
16 8 0.26
17 17 0.55
18 4 0.13
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTATTTATCTAATTA
Found at i:16184822 original size:20 final size:21
Alignment explanation
Indices: 16184794--16184836 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
16184784 TTATTTATCT
16184794 ATTTCTTTTAT-TTATCTAATA
1 ATTTCTTTT-TGTTATCTAATA
*
16184815 ATTT-TTTTTGTTATCTATTA
1 ATTTCTTTTTGTTATCTAATA
16184835 AT
1 AT
16184837 ATATTTATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 15 0.75
21 4 0.20
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.65
Consensus pattern (21 bp):
ATTTCTTTTTGTTATCTAATA
Found at i:16185579 original size:9 final size:9
Alignment explanation
Indices: 16185567--16185614 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
16185557 TGGTATTTTC
16185567 TTATTTATT
1 TTATTTATT
16185576 TTATTT-TAT
1 TTATTTAT-T
*
16185585 TTATTTGTT
1 TTATTTATT
*
16185594 TTACTTATT
1 TTATTTATT
16185603 TT-TTTATT
1 TTATTTATT
16185611 TTAT
1 TTAT
16185615 CAAAAATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
8 8 0.24
9 24 0.73
10 1 0.03
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (9 bp):
TTATTTATT
Found at i:16185580 original size:17 final size:17
Alignment explanation
Indices: 16185560--16185612 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 17
16185550 AAATTTTTGG
16185560 TATTTTCTTATTTATTT
1 TATTTTCTTATTTATTT
16185577 TA--TT-TTATTTATTT
1 TATTTTCTTATTTATTT
*
16185591 GT-TTTACTTATTT-TTT
1 -TATTTTCTTATTTATTT
16185607 TATTTT
1 TATTTT
16185613 ATCAAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 11
0.69 0.05 0.26
Matches are distributed among these distances:
14 10 0.34
15 4 0.14
16 7 0.24
17 8 0.28
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.77
Consensus pattern (17 bp):
TATTTTCTTATTTATTT
Found at i:16190352 original size:674 final size:673
Alignment explanation
Indices: 16189065--16190414 Score: 2448
Period size: 674 Copynumber: 2.0 Consensus size: 673
16189055 GCATAAGTAG
* * *
16189065 AAGCTTTGTCTGACGAATGCAGGAAATAAGCTCAACAGAGTGAGTTACGGAAAGACATGTGTATA
1 AAGCTTTATCTGACGAATGCAAGAAACAAGCTCAACAGAGTGAGTTACGGAAAGACATGTGTATA
* * *
16189130 GAAAAACAAAGGTATCTAAGGCATTTGTTTGATTAGATATGCATTGTTGCAGACAAAGCATCAAA
66 GAAAAACAAAGGCATCTAAGGCATTTGTTTGATCAGATATGCATTATTGCAGACAAAGCATCAAA
* * * *
16189195 AATGAAAGAAAAAGTGGAAAGTTTGAAGGCTATGGTGCAACCAGTGGGAGTGCATGGGTGACATT
131 AATGAAAGAAAAAATGGAAAGTTTGAAGGCTATGGTGCAACCAGTGAGAGTGAATGGGCGACATT
16189260 TACTTGTATCCTAGATGAGGCACAAAATCATTACCAACAAGCTAGGAAGTTTATAAGGAGGCATT
196 TACTTGTATCCTAGATGAGGCACAAAATCATTACCAACAAGCTAGGAAGTTTATAAGGAGGCATT
16189325 AGAAATAAAGAATGATGGTTAGGACTTTAGAATATTGCTTTGACTTTATTAGGATGTAATTTTGA
261 AGAAATAAAGAATGATGGTTAGGACTTTAGAATATTGCTTTGACTTTATTAGGATGTAATTTTGA
16189390 AATTTTATTTAATAAAGTTTCAAATGGAGATTTTTTTTATCAATATTGATGATGTGGCAAACATT
326 AATTTTATTTAATAAAGTTTCAAATGGAGATTTTTTTTATCAATATTGATGATGTGGCAAACATT
16189455 AGTATATTTCATGCATACATTTGCATATCATACATAGTTTCTAGTTGTAATTATGATGCTAAAAG
391 AGTATATTTCATGCATACATTTGCATATCATACATAGTTTCTAGTTGTAATTATGATGCTAAAAG
16189520 TTCAAGGATAGCTCTATCCAGTAAAAACTCCGTCCACTGATATAATACAAGAGCCAGGGCTAAAC
456 TTCAAGGATAGCTCTATCCAGTAAAAACTCCGTCCACTGATATAATACAAGAGCCAGGGCTAAAC
16189585 AAATAGAGCAAAAAAGTTCTCACCGATTTGAAAAACTAAAAAAAGCTCAGGAAAAGATTGAGAAT
521 AAATAGAGCAAAAAAGTTCTCACCGATTTGAAAAACTAAAAAAAGCTCAGGAAAAGATTGAGAAT
* *
16189650 GAGTTAAGTAAAATTTTGGATACTCTCAACAAATTAAATAAGGAGAAAGGAGTAGGAGAGAACAC
586 GAGTTAAGTAAAATTTTGGATACTCTCAACAAATTAAATAAGGAGAAAAGAGTAGAAGAGAACAC
16189715 AAGCCAATAAGGCCCTACATCGT
651 AAGCCAATAAGGCCCTACATCGT
* * * * *
16189738 AAGCTTTATCTGATGAATGCAAGAAACAAGTTTAACAGGGTGAGTTATGGAAAGACATGTGTATA
1 AAGCTTTATCTGACGAATGCAAGAAACAAGCTCAACAGAGTGAGTTACGGAAAGACATGTGTATA
* * *
16189803 GAAAAACAAAGGCATCTAAGGCATTTGTTTGATCAGATATGCATTATTGCAGACAATGCATTAGA
66 GAAAAACAAAGGCATCTAAGGCATTTGTTTGATCAGATATGCATTATTGCAGACAAAGCATCAAA
*
16189868 AATGGAAGAAAAAATGGAAAGTTTGAAGGCTATGGTGCAACCAGTGAGAGTGAATGGGCGACATT
131 AATGAAAGAAAAAATGGAAAGTTTGAAGGCTATGGTGCAACCAGTGAGAGTGAATGGGCGACATT
*
16189933 TACTTGATTTCCTAGATGAGGCACAAAATCATTACCAACAAGCTAGGAAGTTTATAAGGAGGCAT
196 TACTTG-TATCCTAGATGAGGCACAAAATCATTACCAACAAGCTAGGAAGTTTATAAGGAGGCAT
*
16189998 TAGAAATAAAGAATGATGTTTAGGACTTTAGAATATTGCTTTGACTTTATTAGGATGTAATTTTG
260 TAGAAATAAAGAATGATGGTTAGGACTTTAGAATATTGCTTTGACTTTATTAGGATGTAATTTTG
16190063 AAATTTTATTTAATAAAGTTTCAAATGGAGATTTTTTTTATCAATATTGATGATGTGGCAAACAT
325 AAATTTTATTTAATAAAGTTTCAAATGGAGATTTTTTTTATCAATATTGATGATGTGGCAAACAT
16190128 TAGTATATTTCATGCATACATTTGCATATCATACATAGTTTCTAGTTGTAATTATGATGCTAAAA
390 TAGTATATTTCATGCATACATTTGCATATCATACATAGTTTCTAGTTGTAATTATGATGCTAAAA
16190193 GTTCAAGGATAGCTCTATCCAGTAAAAACTCCGTCCACTGATATAATACAAGAGCCAGGGCTAAA
455 GTTCAAGGATAGCTCTATCCAGTAAAAACTCCGTCCACTGATATAATACAAGAGCCAGGGCTAAA
16190258 CAAATAGAGCAAAAAAGTTCTCACCGATTTGAAAAACTAAAAAAAGCTCAGGAAAAGATTGAGAA
520 CAAATAGAGCAAAAAAGTTCTCACCGATTTGAAAAACTAAAAAAAGCTCAGGAAAAGATTGAGAA
*
16190323 TGAGTTAAGTAAAATTTTGGATACTCTCAACAAATTAAATAAGGGGAAAAGAGTAGAAGAGAACA
585 TGAGTTAAGTAAAATTTTGGATACTCTCAACAAATTAAATAAGGAGAAAAGAGTAGAAGAGAACA
* **
16190388 TAAGCCAATAAGGCTTTACATCGT
650 CAAGCCAATAAGGCCCTACATCGT
16190412 AAG
1 AAG
16190415 AAGTGACTGA
Statistics
Matches: 649, Mismatches: 27, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
673 182 0.28
674 467 0.72
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.28
Consensus pattern (673 bp):
AAGCTTTATCTGACGAATGCAAGAAACAAGCTCAACAGAGTGAGTTACGGAAAGACATGTGTATA
GAAAAACAAAGGCATCTAAGGCATTTGTTTGATCAGATATGCATTATTGCAGACAAAGCATCAAA
AATGAAAGAAAAAATGGAAAGTTTGAAGGCTATGGTGCAACCAGTGAGAGTGAATGGGCGACATT
TACTTGTATCCTAGATGAGGCACAAAATCATTACCAACAAGCTAGGAAGTTTATAAGGAGGCATT
AGAAATAAAGAATGATGGTTAGGACTTTAGAATATTGCTTTGACTTTATTAGGATGTAATTTTGA
AATTTTATTTAATAAAGTTTCAAATGGAGATTTTTTTTATCAATATTGATGATGTGGCAAACATT
AGTATATTTCATGCATACATTTGCATATCATACATAGTTTCTAGTTGTAATTATGATGCTAAAAG
TTCAAGGATAGCTCTATCCAGTAAAAACTCCGTCCACTGATATAATACAAGAGCCAGGGCTAAAC
AAATAGAGCAAAAAAGTTCTCACCGATTTGAAAAACTAAAAAAAGCTCAGGAAAAGATTGAGAAT
GAGTTAAGTAAAATTTTGGATACTCTCAACAAATTAAATAAGGAGAAAAGAGTAGAAGAGAACAC
AAGCCAATAAGGCCCTACATCGT
Found at i:16193002 original size:25 final size:24
Alignment explanation
Indices: 16192974--16193023 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
16192964 GAAAATGGTG
*
16192974 AAAGGTGAAAAAAAGAAAAAGAAAA
1 AAAGGGGAAAAAAAGAAAAA-AAAA
* *
16192999 AAAGGGGGAAAAATGAAAAAAAAA
1 AAAGGGGAAAAAAAGAAAAAAAAA
16193023 A
1 A
16193024 GAGAAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.74, C:0.00, G:0.22, T:0.04
Consensus pattern (24 bp):
AAAGGGGAAAAAAAGAAAAAAAAA
Found at i:16193042 original size:20 final size:20
Alignment explanation
Indices: 16193020--16193056 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
16193010 AATGAAAAAA
16193020 AAAAGA-GAAAAAAAAGATG
1 AAAAGAGGAAAAAAAAGATG
16193039 AAAAGAGGAAAAAAAAGA
1 AAAAGAGGAAAAAAAAGA
16193057 CTAAAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.03
Consensus pattern (20 bp):
AAAAGAGGAAAAAAAAGATG
Found at i:16193042 original size:32 final size:33
Alignment explanation
Indices: 16192974--16193054 Score: 92
Period size: 33 Copynumber: 2.5 Consensus size: 33
16192964 GAAAATGGTG
* * *
16192974 AAAGGTGAAAAAAAGAAAAAGAAAAAAAGGGGGA
1 AAAGATGAAAAAAA-AAAAAGAAAAAAAAGAGGA
* *
16193008 AAA-ATGAAAAAAAAAAGAGAAAAAAAAGATGA
1 AAAGATGAAAAAAAAAAAAGAAAAAAAAGAGGA
*
16193040 AAAGAGGAAAAAAAA
1 AAAGATGAAAAAAAA
16193055 GACTAAAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
32 18 0.45
33 19 0.47
34 3 0.08
ACGTcount: A:0.74, C:0.00, G:0.22, T:0.04
Consensus pattern (33 bp):
AAAGATGAAAAAAAAAAAAGAAAAAAAAGAGGA
Found at i:16193050 original size:33 final size:32
Alignment explanation
Indices: 16192980--16193054 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
16192970 GGTGAAAGGT
* * *
16192980 GAAAAAAAGAAAAAGAAAAAAAGGGGGAAAAAT
1 GAAAAAAA-AAAAAGAAAAAAAAGAGGAAAAAG
* *
16193013 GAAAAAAAAAAGAGAAAAAAAAGATGAAAAGAG
1 GAAAAAAAAAAAAGAAAAAAAAGAGGAAAA-AG
16193046 GAAAAAAAA
1 GAAAAAAAA
16193055 GACTAAAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
32 18 0.50
33 18 0.50
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (32 bp):
GAAAAAAAAAAAAGAAAAAAAAGAGGAAAAAG
Found at i:16194883 original size:41 final size:40
Alignment explanation
Indices: 16194828--16194960 Score: 160
Period size: 42 Copynumber: 3.2 Consensus size: 40
16194818 GGAGCAATTT
* * *
16194828 ATTTATTTTCCAAAGTCT-TGGTACCTCTGTTTAGAGGAGTA
1 ATTTATTTTTCAAAGT-TGTGGTGCCTCTGTTTAGAAGAG-A
* *
16194869 ATTTATTTTTCAAAGTTGTGGTTGCTTCTATTTAGAAGAGCA
1 ATTTATTTTTCAAAGTTGTGG-TGCCTCTGTTTAGAAGAG-A
* *
16194911 ATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAGAAGAGC
1 ATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAAGAGA
16194951 ATTTATTTTT
1 ATTTATTTTT
16194961 GAAGGCCATG
Statistics
Matches: 79, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
40 10 0.13
41 34 0.43
42 35 0.44
ACGTcount: A:0.24, C:0.12, G:0.19, T:0.45
Consensus pattern (40 bp):
ATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAAGAGA
Found at i:16195098 original size:44 final size:41
Alignment explanation
Indices: 16194996--16195173 Score: 209
Period size: 40 Copynumber: 4.2 Consensus size: 41
16194986 CGGAGAATTT
16194996 ATTTATTTTTCAAAGTCGTTTGAGCCTCTGATTAGAGGAGCC
1 ATTTATTTTTCAAAGTCGTTTGAGCCTCTGATTAGA-GAGCC
* *
16195038 ATTTATTTTTTCAAAGTCG-TTGAGCCTTTTGACTAGATTGAGCC
1 ATTTA-TTTTTCAAAGTCGTTTGAGCC-TCTGATTAGA--GAGCC
* * *
16195082 AGTTTATTTTCCAAAGTTGTTTGAACCTCTGATTAGAGAGCC
1 A-TTTATTTTTCAAAGTCGTTTGAGCCTCTGATTAGAGAGCC
*
16195124 A-TTATTTTTCAAAGTC-TGTTGAGCCTCTGATTAGGGGAGCC
1 ATTTATTTTTCAAAGTCGT-TTGAGCCTCTGATTA-GAGAGCC
16195165 ATTTATTTT
1 ATTTATTTT
16195174 CAAGGTTGTT
Statistics
Matches: 116, Mismatches: 12, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
39 1 0.01
40 27 0.23
41 7 0.06
42 25 0.22
43 21 0.18
44 25 0.22
45 10 0.09
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.41
Consensus pattern (41 bp):
ATTTATTTTTCAAAGTCGTTTGAGCCTCTGATTAGAGAGCC
Found at i:16202575 original size:18 final size:18
Alignment explanation
Indices: 16202552--16202613 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 18
16202542 TTAGATTCGT
* **
16202552 AAGAATTTTCAGGTTTGC
1 AAGAATTTTCAAGTTCAC
16202570 AAGAATTTTCAAGTTCAC
1 AAGAATTTTCAAGTTCAC
* * *
16202588 AAGAATTTCCAAATTCAT
1 AAGAATTTTCAAGTTCAC
16202606 AAGAATTT
1 AAGAATTT
16202614 GACTTCTAAG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (18 bp):
AAGAATTTTCAAGTTCAC
Found at i:16202625 original size:15 final size:15
Alignment explanation
Indices: 16202600--16202656 Score: 71
Period size: 15 Copynumber: 3.7 Consensus size: 15
16202590 GAATTTCCAA
16202600 ATTCATAAGAATTTG
1 ATTCATAAGAATTTG
* *
16202615 ACTTC-TAAGAAGTTA
1 A-TTCATAAGAATTTG
16202630 AGTTCATAAGAATTTG
1 A-TTCATAAGAATTTG
16202646 ATTCATAAGAA
1 ATTCATAAGAA
16202657 CTCATATTCA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
15 23 0.66
16 12 0.34
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.35
Consensus pattern (15 bp):
ATTCATAAGAATTTG
Found at i:16203043 original size:108 final size:108
Alignment explanation
Indices: 16202910--16203150 Score: 340
Period size: 108 Copynumber: 2.2 Consensus size: 108
16202900 TTAAAGATTT
*
16202910 CATCCAAAATTTCAAAGCTTCTCATTCAAGTTCAAAGATTCACATTGGATAAATTTTAAAGTTTC
1 CATCCAAAATTTCAAAGCTTTTCATTCAAGTTCAAAGATTCACATTGGATAAATTTTAAAGTTTC
* * * * *
16202975 ACTTTTAAATTCTAAAGTTCTCATTCAAACAATCTGGGGTTCA
66 ACATCTAAATTCAAAAATTCTCATTCAAAAAATCTGGGGTTCA
* * * *
16203018 CATCCAAAAGTTCAAAGCTTTTCATTCAAGTTCAAAGATTCACATTTGATAGATTTTAGAGTTTC
1 CATCCAAAATTTCAAAGCTTTTCATTCAAGTTCAAAGATTCACATTGGATAAATTTTAAAGTTTC
* *
16203083 TCATCTAAATTCAAAAATTCTCATTCAAAAAATTTGGGGTTCA
66 ACATCTAAATTCAAAAATTCTCATTCAAAAAATCTGGGGTTCA
* *
16203126 CATTCGAAATTTCAAAG-TTTCTCAT
1 CATCCAAAATTTCAAAGCTTT-TCAT
16203151 CCGAAAACTT
Statistics
Matches: 117, Mismatches: 15, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
107 3 0.03
108 114 0.97
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (108 bp):
CATCCAAAATTTCAAAGCTTTTCATTCAAGTTCAAAGATTCACATTGGATAAATTTTAAAGTTTC
ACATCTAAATTCAAAAATTCTCATTCAAAAAATCTGGGGTTCA
Found at i:16203063 original size:20 final size:20
Alignment explanation
Indices: 16203025--16203063 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
16203015 TCACATCCAA
* **
16203025 AAGTTCAAAGCTTTTCATTC
1 AAGTTCAAAGATTCACATTC
16203045 AAGTTCAAAGATTCACATT
1 AAGTTCAAAGATTCACATT
16203064 TGATAGATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (20 bp):
AAGTTCAAAGATTCACATTC
Found at i:16203221 original size:27 final size:21
Alignment explanation
Indices: 16203209--16203401 Score: 181
Period size: 25 Copynumber: 8.5 Consensus size: 21
16203199 ACTCAATGAA
16203209 AAAGATTCTCATTTAAAACTT
1 AAAGATTCTCATTTAAAACTT
16203230 AAAGATTCTCATTTAAAACTTCTT
1 AAAGATTCTCATTTAAAA---CTT
* *
16203254 AAAGATTTTCATTTAAAATTTTCCT
1 AAAGATTCTCATTTAAAA----CTT
16203279 AAAGATTCTCATTTAAAACTCT
1 AAAGATTCTCATTTAAAACT-T
*
16203301 AAAGAGTCTCATTTAAAACTTCTT
1 AAAGATTCTCATTTAAAA---CTT
16203325 AAAGATTCTCATTTAAAATTTTCTT
1 AAAGATTCTCATTTAAAA----CTT
16203350 AAAGATTCTCATTTAAAACTT
1 AAAGATTCTCATTTAAAACTT
* * * *
16203371 AAA-ATTTTTATTTGAAACTC
1 AAAGATTCTCATTTAAAACTT
16203391 AAAGATTCTCA
1 AAAGATTCTCA
16203402 CATTTTTAAC
Statistics
Matches: 148, Mismatches: 14, Indels: 20
0.81 0.08 0.11
Matches are distributed among these distances:
20 16 0.11
21 30 0.20
22 18 0.12
24 38 0.26
25 46 0.31
ACGTcount: A:0.39, C:0.15, G:0.05, T:0.41
Consensus pattern (21 bp):
AAAGATTCTCATTTAAAACTT
Found at i:16203259 original size:24 final size:24
Alignment explanation
Indices: 16203209--16203370 Score: 226
Period size: 25 Copynumber: 6.9 Consensus size: 24
16203199 ACTCAATGAA
16203209 AAAGATTCTCATTTAAAA---CTT
1 AAAGATTCTCATTTAAAACTTCTT
16203230 AAAGATTCTCATTTAAAACTTCTT
1 AAAGATTCTCATTTAAAACTTCTT
* * *
16203254 AAAGATTTTCATTTAAAATTTTCCT
1 AAAGATTCTCATTTAAAA-CTTCTT
16203279 AAAGATTCTCATTTAAAAC-TC-T
1 AAAGATTCTCATTTAAAACTTCTT
*
16203301 AAAGAGTCTCATTTAAAACTTCTT
1 AAAGATTCTCATTTAAAACTTCTT
*
16203325 AAAGATTCTCATTTAAAATTTTCTT
1 AAAGATTCTCATTTAAAA-CTTCTT
16203350 AAAGATTCTCATTTAAAACTT
1 AAAGATTCTCATTTAAAACTT
16203371 AAAATTTTTA
Statistics
Matches: 125, Mismatches: 9, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
21 18 0.14
22 19 0.15
23 4 0.03
24 40 0.32
25 44 0.35
ACGTcount: A:0.39, C:0.15, G:0.05, T:0.41
Consensus pattern (24 bp):
AAAGATTCTCATTTAAAACTTCTT
Found at i:16203320 original size:71 final size:70
Alignment explanation
Indices: 16203209--16203373 Score: 294
Period size: 71 Copynumber: 2.3 Consensus size: 70
16203199 ACTCAATGAA
* *
16203209 AAAGATTCTCATTTAAAACTTAAAGATTCTCATTTAAAACTTCTTAAAGATTTTCATTTAAAATT
1 AAAGATTCTCATTTAAAACTTAAAGAGTCTCATTTAAAACTTCTTAAAGATTCTCATTTAAAATT
16203274 TTCCT
66 TTCCT
16203279 AAAGATTCTCATTTAAAACTCTAAAGAGTCTCATTTAAAACTTCTTAAAGATTCTCATTTAAAAT
1 AAAGATTCTCATTTAAAACT-TAAAGAGTCTCATTTAAAACTTCTTAAAGATTCTCATTTAAAAT
*
16203344 TTTCTT
65 TTTCCT
16203350 AAAGATTCTCATTTAAAACTTAAA
1 AAAGATTCTCATTTAAAACTTAAA
16203374 ATTTTTATTT
Statistics
Matches: 91, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
70 24 0.26
71 67 0.74
ACGTcount: A:0.40, C:0.15, G:0.05, T:0.41
Consensus pattern (70 bp):
AAAGATTCTCATTTAAAACTTAAAGAGTCTCATTTAAAACTTCTTAAAGATTCTCATTTAAAATT
TTCCT
Found at i:16204627 original size:7 final size:7
Alignment explanation
Indices: 16204617--16204745 Score: 95
Period size: 7 Copynumber: 17.7 Consensus size: 7
16204607 ATTTTACATT
16204617 TTTTTCA
1 TTTTTCA
16204624 TTTTTTCA
1 -TTTTTCA
16204632 TTTTTCA
1 TTTTTCA
16204639 TTTTTCA
1 TTTTTCA
16204646 TTTTTCA
1 TTTTTCA
*
16204653 TTTTTTTA
1 -TTTTTCA
16204661 CTTTTTCA
1 -TTTTTCA
16204669 -TTTTCTA
1 TTTTTC-A
**
16204676 TTTCTTTT
1 TTT-TTCA
16204684 TTTTTCA
1 TTTTTCA
16204691 TTTTT--
1 TTTTTCA
**
16204696 TCCTTCA
1 TTTTTCA
*
16204703 TTTTTTCTT
1 -TTTTTC-A
16204712 TTTTTC-
1 TTTTTCA
16204718 TTTTTCA
1 TTTTTCA
16204725 TTTTTTTCA
1 --TTTTTCA
16204734 TTTTTCA
1 TTTTTCA
16204741 TTTTT
1 TTTTT
16204746 TCCTTATTTG
Statistics
Matches: 98, Mismatches: 12, Indels: 23
0.74 0.09 0.17
Matches are distributed among these distances:
5 3 0.03
6 11 0.11
7 41 0.42
8 34 0.35
9 9 0.09
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTTCA
Found at i:16204642 original size:22 final size:23
Alignment explanation
Indices: 16204607--16204745 Score: 116
Period size: 22 Copynumber: 6.3 Consensus size: 23
16204597 TTTTTCTCTT
*
16204607 ATTTTACATTTTTTTCATTTTTTC
1 ATTTTTCA-TTTTTTCATTTTTTC
16204631 ATTTTTCA-TTTTTCA-TTTTTC
1 ATTTTTCATTTTTTCATTTTTTC
* * *
16204652 ATTTTTTTACTTTTTCATTTTCT-
1 A-TTTTTCATTTTTTCATTTTTTC
*
16204675 ATTTCTT-TTTTTTTCATTTTTTC
1 ATTT-TTCATTTTTTCATTTTTTC
* *
16204698 ---CTTCATTTTTTCTTTTTTTC
1 ATTTTTCATTTTTTCATTTTTTC
16204718 -TTTTTCATTTTTTTCA-TTTTTC
1 ATTTTTCA-TTTTTTCATTTTTTC
16204740 ATTTTT
1 ATTTTT
16204746 TCCTTATTTG
Statistics
Matches: 94, Mismatches: 11, Indels: 21
0.75 0.09 0.17
Matches are distributed among these distances:
19 2 0.02
20 14 0.15
21 7 0.07
22 38 0.40
23 22 0.23
24 11 0.12
ACGTcount: A:0.12, C:0.14, G:0.00, T:0.75
Consensus pattern (23 bp):
ATTTTTCATTTTTTCATTTTTTC
Found at i:16204703 original size:34 final size:34
Alignment explanation
Indices: 16204665--16204730 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
16204655 TTTTTACTTT
16204665 TTCATTTTCTATTTCTTTT-TTTTTCATTTTTTCC
1 TTCATTTTCTATTT-TTTTCTTTTTCATTTTTTCC
* *
16204699 TTCATTTTTTCTTTTTTTCTTTTTCATTTTTT
1 TTCATTTTCTATTTTTTTCTTTTTCATTTTTT
16204731 TCATTTTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 4 0.14
34 25 0.86
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (34 bp):
TTCATTTTCTATTTTTTTCTTTTTCATTTTTTCC
Found at i:16204765 original size:50 final size:48
Alignment explanation
Indices: 16204596--16204771 Score: 168
Period size: 50 Copynumber: 3.6 Consensus size: 48
16204586 TTGAGTCTTT
*
16204596 TTTTTTCTCTTATTTTACATTTTTTTCATTTTTTCA--TTTTTCATTTTTCA
1 TTTTTTC-CTTATTTTTCA-TTTTTTC--TTTTTCATTTTTTTCATTTTTCA
* * *
16204646 -TTTTTCATT-TTTTT-ACTTTTTCATTTTCTATTTCTTTT--TTTTTCA
1 TTTTTTCCTTATTTTTCATTTTTTCTTTTTC-ATTT-TTTTCATTTTTCA
*
16204691 TTTTTTCCTTCATTTTTTCTTTTTTTCTTTTTCATTTTTTTCATTTTTCA
1 TTTTTTCCTT-A-TTTTTCATTTTTTCTTTTTCATTTTTTTCATTTTTCA
16204741 TTTTTTCCTTATTTGTCTCATTTTTTCTTTT
1 TTTTTTCCTTATTT-T-TCATTTTTTCTTTT
16204772 ATTATTGATA
Statistics
Matches: 104, Mismatches: 9, Indels: 26
0.75 0.06 0.19
Matches are distributed among these distances:
43 5 0.05
44 1 0.01
45 13 0.12
46 10 0.10
47 8 0.08
48 9 0.09
49 17 0.16
50 41 0.39
ACGTcount: A:0.10, C:0.15, G:0.01, T:0.74
Consensus pattern (48 bp):
TTTTTTCCTTATTTTTCATTTTTTCTTTTTCATTTTTTTCATTTTTCA
Found at i:16207772 original size:15 final size:15
Alignment explanation
Indices: 16207752--16207780 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
16207742 TGACAATGAT
16207752 GCATGATATGATAAC
1 GCATGATATGATAAC
16207767 GCATGATATGATAA
1 GCATGATATGATAA
16207781 TGCAAATGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (15 bp):
GCATGATATGATAAC
Found at i:16213621 original size:13 final size:13
Alignment explanation
Indices: 16213603--16213628 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16213593 GATAAACATG
16213603 AACCCTTGGATGA
1 AACCCTTGGATGA
16213616 AACCCTTGGATGA
1 AACCCTTGGATGA
16213629 GATTTCATCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (13 bp):
AACCCTTGGATGA
Found at i:16214286 original size:145 final size:140
Alignment explanation
Indices: 16213864--16214406 Score: 439
Period size: 145 Copynumber: 3.7 Consensus size: 140
16213854 TTAAAACACT
* * * * **
16213864 AAAAATCATGAAATATTATAGAATTATGATTTGAAAAATTTTATGAAATTTTGAGCTC-AGAAAG
1 AAAAATCATGAAATATTATA-AAATAGGATTTGAAAAGTTTCACAAAATTTTGAGCTCGA-AAAG
* * ** * *
16213928 GCTAAATTACAAAATACCCTTATAA-GAGTATTTTAGTAATTTCACACTTTTTAGAGTATTGTTA
64 GC-AAATTAAAAAATACCCCTATAAGGA-TATTTTAGTAATTTCACACTTTCCA-AGTACTATTA
*
16213992 TAATTTCAAATATATC
126 TGATTTCAAAT-TATC
* ** ** *
16214008 AAAAATCATGAAATATTATAAAACTAGGATCTGAAAAGTTTCGTAAAATTTCAAGCTTGGAAAAG
1 AAAAATCATGAAATATTATAAAA-TAGGATTTGAAAAGTTTCACAAAATTTTGAGC-TCGAAAAG
* * * * *
16214073 TCAAATTAAGAAAATACCCCTCA-AAGGGTATTTTGGTAATTTCACACTTTCCAGGATACTACTA
64 GCAAATTAA-AAAATACCCCT-ATAAGGATATTTTAGTAATTTCACACTTTCCAAG-TACTATTA
* * *
16214137 TGATTCCAAACTCACC
126 TGATTTCAAA-TTATC
* * *
16214153 AAAAATCATGAAATGTTACAAAAGT-GAGATTTGAAAAGTTTTACAAAATTTTGAGCTCGAAAAG
1 AAAAATCATGAAATATTATAAAA-TAG-GATTTGAAAAGTTTCACAAAATTTTGAGCTCGAAAAG
* * *
16214217 GCAAAATTAGAAAAATACCCCTATAAGGATATTTTAGTAATTTCACACTTCCCATAGTACCATTG
64 GC-AAATTA-AAAAATACCCCTATAAGGATATTTTAGTAATTTCACACTTTCCA-AGTACTATTA
*
16214282 TGATTTTAAATTTATC
126 TGATTTCAAA-TTATC
* * * * * * * *
16214298 AAAAATTATGAAATATTATAGGATTAAGG-TCTGGAAAGGTTTCACAAAAATCTGAACTCGAAAA
1 AAAAATCATGAAATATTATA-AAAT-AGGAT-TTGAAAAGTTTCACAAAATTTTGAGCTCGAAAA
* *
16214362 GGTCAAATTACAAAAATACCCCTTATAAGGGTATTTTGGTAATTT
63 GG-CAAATTA-AAAAATACCCC-TATAAGGATATTTTAGTAATTT
16214407 GACTTTTTTC
Statistics
Matches: 318, Mismatches: 62, Indels: 35
0.77 0.15 0.08
Matches are distributed among these distances:
143 2 0.01
144 61 0.19
145 179 0.56
146 54 0.17
147 22 0.07
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (140 bp):
AAAAATCATGAAATATTATAAAATAGGATTTGAAAAGTTTCACAAAATTTTGAGCTCGAAAAGGC
AAATTAAAAAATACCCCTATAAGGATATTTTAGTAATTTCACACTTTCCAAGTACTATTATGATT
TCAAATTATC
Found at i:16214300 original size:290 final size:291
Alignment explanation
Indices: 16213864--16214406 Score: 663
Period size: 290 Copynumber: 1.9 Consensus size: 291
16213854 TTAAAACACT
* * * **
16213864 AAAAATCATGAAATATTATAGAATTATGATTTGAAAAATTTTATGAAATTTTGAGCTCAGAAAGG
1 AAAAATCATGAAATATTACAAAATGATGATTTGAAAAATTTTACAAAATTTTGAGCTCAGAAAGG
* * * *** ***
16213929 CTAAATTACAAAATACCCTTATAAGAGTATTTTAGTAATTTCACACTTTTTAGAGTATTGTTATA
66 CAAAATTAAAAAATACCCCTATAAGAGTATTTTAGTAATTTCACACTTCCCAGAGTACCATTATA
**
16213994 ATTTCAAATATATCAAAAATCATGAAATATTATAAAACT-AGGATCT-GAAAAGTTTC-GTAAAA
131 ATTTCAAATATATCAAAAATCATGAAATATTATAAAACTAAGG-TCTGGAAAAGTTTCACAAAAA
* *
16214056 TTTCAAGCTTGGAAAA-GTCAAATTA-AGAAAATACCCCTCA-AAGGGTATTTTGGTAATTTCAC
195 TCTCAA-C-TCGAAAAGGTCAAATTACA-AAAATACCCCTCATAAGGGTATTTTGGTAATTTCAC
16214118 ACTTTCCAGGATACTACTATGATTCCAAACTCACC
257 ACTTTCCAGGATACTACTATGATTCCAAACTCACC
* *
16214153 AAAAATCATGAAATGTTACAAAAGTGA-GATTTGAAAAGTTTTACAAAATTTTGAGCTC-GAAAA
1 AAAAATCATGAAATATTACAAAA-TGATGATTTGAAAAATTTTACAAAATTTTGAGCTCAG-AAA
*
16214216 GGCAAAATTAGAAAAATACCCCTATAAG-GATATTTTAGTAATTTCACACTTCCCATAGTACCAT
64 GGCAAAATTA-AAAAATACCCCTATAAGAG-TATTTTAGTAATTTCACACTTCCCAGAGTACCAT
* * * * * ** * *
16214280 TGTGATTTTAAATTTATCAAAAATTATGAAATATTATAGGATTAAGGTCTGGAAAGGTTTCACAA
127 TATAATTTCAAATATATCAAAAATCATGAAATATTATAAAACTAAGGTCTGGAAAAGTTTCACAA
* *
16214345 AAATCTGAACTCGAAAAGGTCAAATTACAAAAATACCCCTTATAAGGGTATTTTGGTAATTT
192 AAATCTCAACTCGAAAAGGTCAAATTACAAAAATACCCCTCATAAGGGTATTTTGGTAATTT
16214407 GACTTTTTTC
Statistics
Matches: 212, Mismatches: 32, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
288 1 0.00
289 61 0.29
290 88 0.42
291 34 0.16
292 28 0.13
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (291 bp):
AAAAATCATGAAATATTACAAAATGATGATTTGAAAAATTTTACAAAATTTTGAGCTCAGAAAGG
CAAAATTAAAAAATACCCCTATAAGAGTATTTTAGTAATTTCACACTTCCCAGAGTACCATTATA
ATTTCAAATATATCAAAAATCATGAAATATTATAAAACTAAGGTCTGGAAAAGTTTCACAAAAAT
CTCAACTCGAAAAGGTCAAATTACAAAAATACCCCTCATAAGGGTATTTTGGTAATTTCACACTT
TCCAGGATACTACTATGATTCCAAACTCACC
Found at i:16215226 original size:21 final size:20
Alignment explanation
Indices: 16215202--16215257 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 20
16215192 CTCTACTCTC
16215202 TTTTAGTT-TTTAGTTCTTATT
1 TTTTAGTTCTTTAG-T-TTATT
16215223 TTTTAGTTCTTTAGTTTA-T
1 TTTTAGTTCTTTAGTTTATT
16215242 TTTT--TTCTTTAGTTTA
1 TTTTAGTTCTTTAGTTTA
16215258 GTTATTTCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
17 12 0.35
19 5 0.15
20 3 0.09
21 9 0.26
22 5 0.15
ACGTcount: A:0.14, C:0.05, G:0.09, T:0.71
Consensus pattern (20 bp):
TTTTAGTTCTTTAGTTTATT
Found at i:16215251 original size:17 final size:17
Alignment explanation
Indices: 16215229--16215267 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
16215219 TATTTTTTAG
* *
16215229 TTCTTTAGTTTATTTTT
1 TTCTTTAGTTTAGTTAT
16215246 TTCTTTAGTTTAGTTAT
1 TTCTTTAGTTTAGTTAT
16215263 TTCTT
1 TTCTT
16215268 AGGTGACAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.13, C:0.08, G:0.08, T:0.72
Consensus pattern (17 bp):
TTCTTTAGTTTAGTTAT
Found at i:16216447 original size:24 final size:24
Alignment explanation
Indices: 16216409--16216545 Score: 102
Period size: 24 Copynumber: 5.6 Consensus size: 24
16216399 TTCCATATTT
* *
16216409 TTTCATTAATTCAAGTCAAAATTG
1 TTTCATTTATACAAGTCAAAATTG
*
16216433 TTTCATTTATACAAG-CAAAATTTTT
1 TTTCATTTATACAAGTCAAAA--TTG
* * *
16216458 TTTCATATATATAAGTCTAAATTG
1 TTTCATTTATACAAGTCAAAATTG
* *
16216482 TATCATTTATACAAGTCTAAATTTG
1 TTTCATTTATACAAGTC-AAAATTG
*
16216507 TTGT-ATTTATACAAATCCACAAA-T-
1 TT-TCATTTATACAAGT-CA-AAATTG
*
16216531 TTTCATTTCTACAAG
1 TTTCATTTATACAAG
16216546 ATAAACTTTT
Statistics
Matches: 88, Mismatches: 17, Indels: 16
0.73 0.14 0.13
Matches are distributed among these distances:
23 6 0.07
24 40 0.45
25 34 0.39
26 8 0.09
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (24 bp):
TTTCATTTATACAAGTCAAAATTG
Found at i:16216514 original size:25 final size:25
Alignment explanation
Indices: 16216405--16216520 Score: 107
Period size: 24 Copynumber: 4.8 Consensus size: 25
16216395 ATAATTCCAT
* *
16216405 ATTT-TTTCATTAATTCAAGTC-AA
1 ATTTGTTTCATTTATACAAGTCTAA
* *
16216428 AATTGTTTCATTTATACAAG-CAAA
1 ATTTGTTTCATTTATACAAGTCTAA
* * *
16216452 ATTTTTTTTCATATATATAAGTCTAA
1 A-TTTGTTTCATTTATACAAGTCTAA
*
16216478 A-TTGTATCATTTATACAAGTCTAA
1 ATTTGTTTCATTTATACAAGTCTAA
16216502 ATTTGTTGT-ATTTATACAA
1 ATTTGTT-TCATTTATACAA
16216521 ATCCACAAAT
Statistics
Matches: 74, Mismatches: 13, Indels: 10
0.76 0.13 0.10
Matches are distributed among these distances:
23 4 0.05
24 36 0.49
25 29 0.39
26 5 0.07
ACGTcount: A:0.36, C:0.10, G:0.07, T:0.47
Consensus pattern (25 bp):
ATTTGTTTCATTTATACAAGTCTAA
Found at i:16217706 original size:60 final size:59
Alignment explanation
Indices: 16217348--16217820 Score: 550
Period size: 59 Copynumber: 7.8 Consensus size: 59
16217338 TTTTTTGTAG
*
16217348 GGAAAATTGATACTTTCAACTTTTTCCC-AAAAATA--TTTTTTGAAAATTTCGATTT-TCAA
1 GGAAAATTGATACTTTCAAC-TTTTCCCTAAAAATATTTTTTTTGGAAATTT--ATTTCT-AA
* *
16217407 GGAAAATTGATACTTTCAACTTTT-CCTCAAAAACCA-TTTTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCT-AAAAA-TATTTTTTTTGGAAATTTATTTCTAA
* *
16217466 GGAAAATTCATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTTGGAAATTTATTTTTCTTTTA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTTTGGAAATTTA--TTTC---TA
16217531 A
59 A
* *
16217532 GGAAAATTAATACTTTCAATTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTTTCTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTA--TTTC---TAA
** *
16217596 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTAAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTCTAA
* ** *
16217655 GGAAAATTGATACTTTCAACTTTTCTCTAAAAATATTTTTTTTTTTAAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTTGGAAATTTATTTCTAA
16217715 GGAAAATTGATACTTTCAACTTTTTCCC-AAAAATA--TTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAAC-TTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTCTAA
*
16217772 GGAAAATTGATACTTTCAATTTTTCCCTAAAAATATATTTTTTTTGGAA
1 GGAAAATTGATACTTTCAACTTTTCCCT-AAAA-ATATTTTTTTTGGAA
16217821 TTTTTTATTT
Statistics
Matches: 374, Mismatches: 19, Indels: 40
0.86 0.04 0.09
Matches are distributed among these distances:
56 7 0.02
57 40 0.11
58 9 0.02
59 98 0.26
60 55 0.15
61 45 0.12
62 4 0.01
63 4 0.01
64 77 0.21
66 35 0.09
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.47
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTCTAA
Found at i:16217907 original size:12 final size:12
Alignment explanation
Indices: 16217892--16217934 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
16217882 AACATAATCT
16217892 AATAAATAAAAA
1 AATAAATAAAAA
*
16217904 AATAAAATAAACA
1 AAT-AAATAAAAA
* *
16217917 AATAAACAAAGA
1 AATAAATAAAAA
16217929 AATAAA
1 AATAAA
16217935 GAAATAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
12 16 0.59
13 11 0.41
ACGTcount: A:0.79, C:0.05, G:0.02, T:0.14
Consensus pattern (12 bp):
AATAAATAAAAA
Found at i:16217913 original size:25 final size:26
Alignment explanation
Indices: 16217879--16217934 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
16217869 AGAATATTAC
* * *
16217879 ATAAACATAATCTAATAAATAAAAAA
1 ATAAACATAAACAAATAAACAAAAAA
*
16217905 ATAAA-ATAAACAAATAAACAAAGAA
1 ATAAACATAAACAAATAAACAAAAAA
16217930 ATAAA
1 ATAAA
16217935 GAAATAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 21 0.81
26 5 0.19
ACGTcount: A:0.73, C:0.07, G:0.02, T:0.18
Consensus pattern (26 bp):
ATAAACATAAACAAATAAACAAAAAA
Found at i:16218868 original size:16 final size:17
Alignment explanation
Indices: 16218835--16218868 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
16218825 ATATAATTAG
*
16218835 ATAAGTAAAATACAAAA
1 ATAAATAAAATACAAAA
16218852 ATAAATAAAAT-CAAAA
1 ATAAATAAAATACAAAA
16218868 A
1 A
16218869 GATAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.74, C:0.06, G:0.03, T:0.18
Consensus pattern (17 bp):
ATAAATAAAATACAAAA
Found at i:16218922 original size:16 final size:16
Alignment explanation
Indices: 16218901--16219005 Score: 60
Period size: 16 Copynumber: 6.6 Consensus size: 16
16218891 ATATAGTAAT
16218901 AATACATAAATAATAA
1 AATACATAAATAATAA
*
16218917 AATACACATAAATATTAA
1 AAT--ACATAAATAATAA
* *
16218935 CAAAAAATAAATAA-ATA
1 -AATACATAAATAATA-A
* * *
16218952 AATATATACAT-ATATT
1 AATACATAAATAATA-A
16218968 AATACAT-AATAAT--
1 AATACATAAATAATAA
*
16218981 AATA-ATAAATAATAC
1 AATACATAAATAATAA
16218996 AATACATAAA
1 AATACATAAA
16219006 ATACAAAAGA
Statistics
Matches: 69, Mismatches: 10, Indels: 20
0.70 0.10 0.20
Matches are distributed among these distances:
12 2 0.03
13 10 0.14
15 7 0.10
16 27 0.39
17 9 0.13
18 12 0.17
19 2 0.03
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.28
Consensus pattern (16 bp):
AATACATAAATAATAA
Found at i:16218979 original size:35 final size:34
Alignment explanation
Indices: 16218873--16218996 Score: 103
Period size: 35 Copynumber: 3.6 Consensus size: 34
16218863 CAAAAAGATA
* * *
16218873 AAATATATATATATATACATATAGTAATAATACAT
1 AAATAAATAAATATATACATATATTAATAATA-AT
* * *
16218908 AAAT-AATAAA-ATACACATAAATATTAACAAAAAAT
1 AAATAAATAAATATATACAT--ATATTAA-TAATAAT
16218943 AAATAAATAAATATATACATATATTAATACATAAT
1 AAATAAATAAATATATACATATATTAATA-ATAAT
16218978 -AATAATAATAAATA-ATACA
1 AAAT-A-AATAAATATATACA
16218997 ATACATAAAA
Statistics
Matches: 72, Mismatches: 9, Indels: 16
0.74 0.09 0.16
Matches are distributed among these distances:
33 7 0.10
34 8 0.11
35 33 0.46
36 17 0.24
37 7 0.10
ACGTcount: A:0.62, C:0.06, G:0.01, T:0.31
Consensus pattern (34 bp):
AAATAAATAAATATATACATATATTAATAATAAT
Found at i:16219114 original size:21 final size:20
Alignment explanation
Indices: 16219067--16219116 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
16219057 TTTGGATCAA
*
16219067 GCCCAATTGATCTGGGCCAG
1 GCCCAATTGATCTGGACCAG
*
16219087 GCCCAATTGATCTGGACCTG
1 GCCCAATTGATCTGGACCAG
16219107 GACCCAATTG
1 G-CCCAATTG
16219117 GGTGTCTACA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 19 0.70
21 8 0.30
ACGTcount: A:0.22, C:0.30, G:0.26, T:0.22
Consensus pattern (20 bp):
GCCCAATTGATCTGGACCAG
Found at i:16220125 original size:29 final size:29
Alignment explanation
Indices: 16220093--16220169 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
16220083 TTATTTTTTG
* *
16220093 ATTTTTAAGAATTTAATCTTTATAATATT
1 ATTTTTAAGAATTTAATCTTTAAAAAATT
* * * *
16220122 ATTTTAAAAAATTAAATTTTTAAAAAATT
1 ATTTTTAAGAATTTAATCTTTAAAAAATT
16220151 ATTTTTTAAAGAATTTAAT
1 A-TTTTT-AAGAATTTAAT
16220170 TCCAATATAT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
29 24 0.65
30 4 0.11
31 9 0.24
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (29 bp):
ATTTTTAAGAATTTAATCTTTAAAAAATT
Found at i:16220144 original size:16 final size:15
Alignment explanation
Indices: 16220093--16220170 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
16220083 TTATTTTTTG
* *
16220093 ATTTTTAAGAATTTA
1 ATTTTTAAAAAATTA
* * *
16220108 ATCTTTATAATATT-
1 ATTTTTAAAAAATTA
16220122 A-TTTTAAAAAATTAA
1 ATTTTTAAAAAATT-A
16220137 ATTTTTAAAAAATTA
1 ATTTTTAAAAAATTA
* *
16220152 TTTTTTAAAGAATTTA
1 ATTTTTAAA-AAATTA
16220168 ATT
1 ATT
16220171 CCAATATATT
Statistics
Matches: 48, Mismatches: 11, Indels: 7
0.73 0.17 0.11
Matches are distributed among these distances:
13 9 0.19
14 1 0.02
15 19 0.40
16 19 0.40
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (15 bp):
ATTTTTAAAAAATTA
Found at i:16220245 original size:29 final size:28
Alignment explanation
Indices: 16220191--16220245 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
16220181 ATTAAAGATT
16220191 GAATTAAAATATTAAAAAAATATTATAA
1 GAATTAAAATATTAAAAAAATATTATAA
* * *
16220219 GAATTAAATATCTTTAAATAATATTAT
1 GAATTAAA-ATATTAAAAAAATATTAT
16220246 TATGGATCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 8 0.35
29 15 0.65
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (28 bp):
GAATTAAAATATTAAAAAAATATTATAA
Found at i:16222973 original size:18 final size:18
Alignment explanation
Indices: 16222942--16222988 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
16222932 AATATTAGAG
*
16222942 TAAT-TTTATAATTAAAA
1 TAATATTTATGATTAAAA
*
16222959 TAATATTTATGATTACAA
1 TAATATTTATGATTAAAA
*
16222977 TATTA-TTATGAT
1 TAATATTTATGAT
16222989 ATCATATCAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 11 0.42
18 15 0.58
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (18 bp):
TAATATTTATGATTAAAA
Found at i:16227372 original size:29 final size:29
Alignment explanation
Indices: 16227339--16227394 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
16227329 AAACCGATCA
16227339 AATT-ATTATT-TTATTAATAAAATATTTTT
1 AATTAATTATTATT-TTAA-AAAATATTTTT
*
16227368 AATTAATTATTATTTTAAAATATATTT
1 AATTAATTATTATTTTAAAAAATATTT
16227395 AAAAAATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
29 12 0.50
30 10 0.42
31 2 0.08
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (29 bp):
AATTAATTATTATTTTAAAAAATATTTTT
Found at i:16228217 original size:2 final size:2
Alignment explanation
Indices: 16228212--16228258 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
16228202 TGTGTGTGTG
*
16228212 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16228254 TA TA T
1 TA TA T
16228259 GGAGGATAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:16228484 original size:20 final size:20
Alignment explanation
Indices: 16228432--16228486 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
16228422 GGTTCTATCC
16228432 ATATAATATATATATATATAT
1 ATATAATAT-TATATATATAT
* ** *
16228453 ATATCAGGTTATATATATGT
1 ATATAATATTATATATATAT
*
16228473 ATATTATATTATAT
1 ATATAATATTATAT
16228487 GGGAAGAACA
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 21 0.78
21 6 0.22
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (20 bp):
ATATAATATTATATATATAT
Found at i:16228707 original size:21 final size:21
Alignment explanation
Indices: 16228647--16228723 Score: 66
Period size: 21 Copynumber: 3.4 Consensus size: 21
16228637 ATAATATATG
16228647 TAAAA-TTTAATAACTTTTGA
1 TAAAATTTTAATAACTTTTGA
*
16228667 TATAATTTTGATTTCGATAACTTTTGA
1 TAAAATTTT-A-----ATAACTTTTGA
*
16228694 TAAAATTTTAATAACTTTCGA
1 TAAAATTTTAATAACTTTTGA
*
16228715 TACAATTTT
1 TAAAATTTT
16228724 CGTAATCATT
Statistics
Matches: 46, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
20 4 0.09
21 21 0.46
22 1 0.02
26 1 0.02
27 19 0.41
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.48
Consensus pattern (21 bp):
TAAAATTTTAATAACTTTTGA
Found at i:16228749 original size:21 final size:20
Alignment explanation
Indices: 16228690--16228750 Score: 52
Period size: 21 Copynumber: 3.0 Consensus size: 20
16228680 TCGATAACTT
*
16228690 TTGATAAAATTTTAA-TAACT
1 TTGATAAAA-TTTAAGTAACA
* **
16228710 TTCGATACAATTTTCGTAATCA
1 TT-GATAAAATTTAAGTAA-CA
16228732 TTGATAAAATTTAAGTAAC
1 TTGATAAAATTTAAGTAAC
16228751 CTCTTAATGT
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
20 6 0.19
21 22 0.71
22 3 0.10
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (20 bp):
TTGATAAAATTTAAGTAACA
Found at i:16228815 original size:21 final size:21
Alignment explanation
Indices: 16228777--16228816 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
16228767 AATAATTAAC
*
16228777 CTTTTAGTAACTTATGATAGA
1 CTTTTAGTAACGTATGATAGA
16228798 CTTTTAGTAATCGT-TGATA
1 CTTTTAGTAA-CGTATGATA
16228817 AATTTTGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (21 bp):
CTTTTAGTAACGTATGATAGA
Found at i:16229209 original size:66 final size:63
Alignment explanation
Indices: 16229136--16229311 Score: 174
Period size: 66 Copynumber: 2.7 Consensus size: 63
16229126 GATATATTAT
* *
16229136 TAAATTATCAATGATTTACTATTAAATTAATATTGATATACTATTAACTTA-TGAATGATTTAGT
1 TAAATTAT-AATGATTTACTATTAAATTAATA-TGATTTACTATTAAATTACTG-ATGATTT-GT
*
16229200 AC
62 AA
* ** *
16229202 TAAATTATGAATGATTTACCATTAAATTGTTAATAATTTACTATTAAATTACTGATGATTTGTAA
1 TAAATTAT-AATGATTTACTATTAAATTAAT-ATGATTTACTATTAAATTACTGATGATTTGTAA
* * *
16229267 TAAAGTTATAACGGATATACTATTAATTTAATGATGATTTACTAT
1 TAAA-TTATAA-TGATTTACTATTAAATTAAT-ATGATTTACTAT
16229312 AAAAATGTCA
Statistics
Matches: 90, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
65 9 0.10
66 78 0.87
67 3 0.03
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (63 bp):
TAAATTATAATGATTTACTATTAAATTAATATGATTTACTATTAAATTACTGATGATTTGTAA
Found at i:16229250 original size:44 final size:44
Alignment explanation
Indices: 16229134--16229262 Score: 136
Period size: 44 Copynumber: 2.9 Consensus size: 44
16229124 GTGATATATT
* * *
16229134 ATTAAATTATCAATGATTTACTATTAAATTAAT-ATTGATATACT
1 ATTAAATTATCAATGATTTACTATTAAATT-ATGAATGATTTACC
* * * *
16229178 ATTAACTTATGAATGATTTAGTACTAAATTATGAATGATTTACC
1 ATTAAATTATCAATGATTTACTATTAAATTATGAATGATTTACC
* * *
16229222 ATTAAATTGTTAATAATTTACTATTAAATTACTG-ATGATTT
1 ATTAAATTATCAATGATTTACTATTAAATTA-TGAATGATTT
16229263 GTAATAAAGT
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
43 2 0.03
44 66 0.94
45 2 0.03
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.45
Consensus pattern (44 bp):
ATTAAATTATCAATGATTTACTATTAAATTATGAATGATTTACC
Found at i:16229262 original size:22 final size:21
Alignment explanation
Indices: 16229105--16229311 Score: 121
Period size: 22 Copynumber: 9.4 Consensus size: 21
16229095 TATTATACCA
** *
16229105 ATTTACTATTAAGCTATCAGTG
1 ATTTACTATTAAATTATGA-TG
* * *
16229127 ATATATTATTAAATTATCAATG
1 ATTTACTATTAAATTAT-GATG
16229149 ATTTACTATTAAATTAAT-ATTG
1 ATTTACTATTAAATT-ATGA-TG
* *
16229171 ATATACTATTAACTTATGAATG
1 ATTTACTATTAAATTATG-ATG
* *
16229193 ATTTAGTACTAAATTATGAATG
1 ATTTACTATTAAATTATG-ATG
* * * *
16229215 ATTTACCATTAAATTGTTAATA
1 ATTTACTATTAAATT-ATGATG
16229237 ATTTACTATTAAATTACTGATG
1 ATTTACTATTAAATTA-TGATG
* * * *
16229259 ATTT-GTAATAAAGTTATAACGG
1 ATTTACTATTAAA-TTATGA-TG
* *
16229281 ATATACTATTAATTTAATGATG
1 ATTTACTATTAAATT-ATGATG
16229303 ATTTACTAT
1 ATTTACTAT
16229312 AAAAATGTCA
Statistics
Matches: 140, Mismatches: 34, Indels: 22
0.71 0.17 0.11
Matches are distributed among these distances:
21 11 0.08
22 116 0.83
23 13 0.09
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (21 bp):
ATTTACTATTAAATTATGATG
Found at i:16229545 original size:22 final size:21
Alignment explanation
Indices: 16229496--16229545 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
16229486 ATTCATTATC
16229496 AAGTTATCATTAATTTATATT
1 AAGTTATCATTAATTTATATT
*
16229517 AAATTATCCA-TAATTTACTATT
1 AAGTTAT-CATTAATTTA-TATT
16229539 AAGTTAT
1 AAGTTAT
16229546 TGATGATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 13 0.52
22 12 0.48
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.48
Consensus pattern (21 bp):
AAGTTATCATTAATTTATATT
Found at i:16229628 original size:22 final size:22
Alignment explanation
Indices: 16229499--16229732 Score: 124
Period size: 22 Copynumber: 10.6 Consensus size: 22
16229489 CATTATCAAG
16229499 TTATCATTAATTTA-TATTAAA
1 TTATCATTAATTTACTATTAAA
16229520 TTATCCA-TAATTTACTATTAAGTTA
1 TTAT-CATTAATTTACTATTAA---A
* * * *
16229545 TTGATGATTAA-CTACTACTAAG
1 TT-ATCATTAATTTACTATTAAA
* * *
16229567 TTAT-ATTGATTTACTTTTAGA
1 TTATCATTAATTTACTATTAAA
* **
16229588 TT-TCAATAATAAACTATTAAA
1 TTATCATTAATTTACTATTAAA
*
16229609 TTATCATTGATTTACTATTAAA
1 TTATCATTAATTTACTATTAAA
* *
16229631 TTAT-TTATAATTTACTGTTAAA
1 TTATCAT-TAATTTACTATTAAA
* *
16229653 TTTATCAATTAA-CTACTACTAAA
1 -TTATC-ATTAATTTACTATTAAA
* * * *
16229676 TTGA-AATTTACTTACTATTAAG
1 TT-ATCATTAATTTACTATTAAA
* *
16229698 TTATCACTAATTTACTATTAAG
1 TTATCATTAATTTACTATTAAA
* *
16229720 TTATAATTGATTT
1 TTATCATTAATTT
16229733 TTTGTTAAGT
Statistics
Matches: 157, Mismatches: 39, Indels: 33
0.69 0.17 0.14
Matches are distributed among these distances:
20 5 0.03
21 40 0.25
22 78 0.50
23 13 0.08
24 3 0.02
25 13 0.08
26 5 0.03
ACGTcount: A:0.38, C:0.09, G:0.05, T:0.47
Consensus pattern (22 bp):
TTATCATTAATTTACTATTAAA
Found at i:16230091 original size:22 final size:22
Alignment explanation
Indices: 16230066--16230119 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
16230056 GATAATTAAT
* * *
16230066 TTATCAATTATTTATTGCTAAA
1 TTATCAATGATTTACTACTAAA
*
16230088 TTATCAAAGATTTACTACTAAA
1 TTATCAATGATTTACTACTAAA
16230110 TTATCAATGA
1 TTATCAATGA
16230120 CATTTACTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.41, C:0.11, G:0.06, T:0.43
Consensus pattern (22 bp):
TTATCAATGATTTACTACTAAA
Found at i:16230190 original size:22 final size:23
Alignment explanation
Indices: 16230137--16230190 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
16230127 TTTTATTTAA
*
16230137 TGAATGATTTATCATTAAGTTAT
1 TGAATGATTTATCATTAAGTTAG
*
16230160 TAAAT-ATTTATCATTAAGTT-G
1 TGAATGATTTATCATTAAGTTAG
16230181 TGAATGATTT
1 TGAATGATTT
16230191 CTATTAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 4 0.15
22 19 0.70
23 4 0.15
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.48
Consensus pattern (23 bp):
TGAATGATTTATCATTAAGTTAG
Found at i:16230495 original size:44 final size:45
Alignment explanation
Indices: 16230399--16230495 Score: 103
Period size: 44 Copynumber: 2.2 Consensus size: 45
16230389 ATTTATTAGT
* *
16230399 AAATTATCAATGATTTAGTATTACATTTTTATATATTTAGTATTA
1 AAATTATCAATGACTTAGTATTACATTTTTATATATTTACTATTA
* * *
16230444 AGA-TATCATTGACTTATTACTTA-ATTTTTGAT-TATTTACTA-TA
1 AAATTATCAATGACTTAGTA-TTACATTTTT-ATATATTTACTATTA
16230487 AAATTATCA
1 AAATTATCA
16230496 CTAATTTACC
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
43 4 0.09
44 32 0.74
45 7 0.16
ACGTcount: A:0.37, C:0.07, G:0.06, T:0.49
Consensus pattern (45 bp):
AAATTATCAATGACTTAGTATTACATTTTTATATATTTACTATTA
Found at i:16230587 original size:22 final size:20
Alignment explanation
Indices: 16230530--16230587 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 20
16230520 GATCATGATC
16230530 AAGTTATTACTGATTTATATT
1 AAGTTATTA-TGATTTATATT
* *
16230551 AAATTATGCATGATTTATTATT
1 AAGTTAT-TATGATTTA-TATT
16230573 AAGTTATTATAGATT
1 AAGTTATTAT-GATT
16230588 AACTATTATG
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
21 15 0.50
22 15 0.50
ACGTcount: A:0.36, C:0.03, G:0.10, T:0.50
Consensus pattern (20 bp):
AAGTTATTATGATTTATATT
Found at i:16230681 original size:22 final size:22
Alignment explanation
Indices: 16230656--16230698 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
16230646 AATGATTAAC
16230656 TACTAAATTATCAATT-ATTTAT
1 TACTAAATTATC-ATTGATTTAT
*
16230678 TACTAATTTATCATTGATTTA
1 TACTAAATTATCATTGATTTA
16230699 CTATCAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.37, C:0.09, G:0.02, T:0.51
Consensus pattern (22 bp):
TACTAAATTATCATTGATTTAT
Found at i:16230797 original size:21 final size:22
Alignment explanation
Indices: 16230733--16230812 Score: 72
Period size: 22 Copynumber: 3.7 Consensus size: 22
16230723 AATTTGATAT
* * * *
16230733 ACTATTAAATTATTACTAATTT
1 ACTACTAAATTATCAATAATTA
* * *
16230755 ACTATTAAATTATCATTGATT-
1 ACTACTAAATTATCAATAATTA
* *
16230776 ATTACTAAGTTATCAATAATTA
1 ACTACTAAATTATCAATAATTA
16230798 ACTACTAAATTATCA
1 ACTACTAAATTATCA
16230813 CTTATTTTTT
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
21 16 0.34
22 31 0.66
ACGTcount: A:0.42, C:0.11, G:0.03, T:0.44
Consensus pattern (22 bp):
ACTACTAAATTATCAATAATTA
Found at i:16231916 original size:3 final size:3
Alignment explanation
Indices: 16231903--16231952 Score: 84
Period size: 3 Copynumber: 16.7 Consensus size: 3
16231893 ATGTATATAG
16231903 TTA TATA TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
16231948 TTA TT
1 TTA TT
16231953 TTAATATATT
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 2 0.04
3 40 0.89
4 3 0.07
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:16232376 original size:25 final size:25
Alignment explanation
Indices: 16232348--16232401 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
16232338 CTGGGAGTGA
16232348 GAAAAAATTTT-TAAAAATTTTTGG
1 GAAAAAATTTTCTAAAAATTTTTGG
* **
16232372 CGAAAAATTTTTCTGGAAATTTTTGG
1 -GAAAAAATTTTCTAAAAATTTTTGG
16232398 GAAA
1 GAAA
16232402 TTTCCAGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.41, C:0.04, G:0.17, T:0.39
Consensus pattern (25 bp):
GAAAAAATTTTCTAAAAATTTTTGG
Found at i:16232476 original size:31 final size:32
Alignment explanation
Indices: 16232410--16232477 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
16232400 AATTTCCAGA
*
16232410 TTCCGACAAAAATTCCGAACGAAATTTGAATT
1 TTCCGACAAAAATTCCGAACGAAATTTGAAGT
* *
16232442 TTCCGACAACAATTCCG-GCGAACA-TTGAAGT
1 TTCCGACAAAAATTCCGAACGAA-ATTTGAAGT
16232473 TTCCG
1 TTCCG
16232478 GTGACCTGCC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 15 0.47
32 17 0.53
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (32 bp):
TTCCGACAAAAATTCCGAACGAAATTTGAAGT
Found at i:16232579 original size:20 final size:19
Alignment explanation
Indices: 16232535--16232579 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
16232525 CCGGCCAACT
*
16232535 TCCGACGAAATTTCCAGAT
1 TCCGACGAAATTTCCAGAA
* *
16232554 TTCGACGACATTTTCCAGAA
1 TCCGACGA-AATTTCCAGAA
16232574 TCCGAC
1 TCCGAC
16232580 ACCGGTGTTC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (19 bp):
TCCGACGAAATTTCCAGAA
Found at i:16232952 original size:26 final size:26
Alignment explanation
Indices: 16232905--16232954 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
16232895 CAGGTTTTTT
*
16232905 TTTTTTTTCATTTATTCGTTTATTTG
1 TTTTTTTTCATTTATTCATTTATTTG
*
16232931 TTTTTTTT-ATTTTATTTATTTATT
1 TTTTTTTTCA-TTTATTCATTTATT
16232955 AGATTATGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 1 0.05
26 20 0.95
ACGTcount: A:0.14, C:0.04, G:0.04, T:0.78
Consensus pattern (26 bp):
TTTTTTTTCATTTATTCATTTATTTG
Found at i:16232995 original size:5 final size:5
Alignment explanation
Indices: 16232978--16233059 Score: 59
Period size: 5 Copynumber: 16.8 Consensus size: 5
16232968 TTAACATTCT
* *
16232978 TTTTA TCTTTA TTTTA TTTTTA TTTTG TTTT- TTAT- TTTTA -TTTA TTTTCA
1 TTTTA T-TTTA TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT-A
*
16233028 CTTTCA TTTT- TTTTA TTTTA --TTA TTTTA TTTT
1 -TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
16233060 CTTTACATAA
Statistics
Matches: 63, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
3 3 0.05
4 14 0.22
5 31 0.49
6 12 0.19
7 3 0.05
ACGTcount: A:0.16, C:0.05, G:0.01, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:16232998 original size:6 final size:6
Alignment explanation
Indices: 16232977--16233020 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
16232967 TTTAACATTC
*
16232977 TTTTTA TCTTTA -TTTTA TTTTTA TTTTGT- TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTT-TA TTTTTA TTTTTA TTT
16233021 ATTTTCACTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 5 0.15
6 27 0.82
7 1 0.03
ACGTcount: A:0.14, C:0.02, G:0.02, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:16233037 original size:29 final size:28
Alignment explanation
Indices: 16232977--16233058 Score: 78
Period size: 29 Copynumber: 2.9 Consensus size: 28
16232967 TTTAACATTC
* * **
16232977 TTTTTATCTTTATTTTATTTTTATTTTGT
1 TTTTTATTTTTA-TTTATTTTCATTTCAT
16233006 TTTTTATTTTTATTTATTTTCACTTTCAT
1 TTTTTATTTTTATTTATTTTCA-TTTCAT
*
16233035 TTTTTTTATTTTA-TTATTTT-ATTT
1 TTTTTAT-TTTTATTTATTTTCATTT
16233059 TCTTTACATA
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
27 3 0.07
28 10 0.22
29 28 0.61
30 5 0.11
ACGTcount: A:0.16, C:0.05, G:0.01, T:0.78
Consensus pattern (28 bp):
TTTTTATTTTTATTTATTTTCATTTCAT
Found at i:16233165 original size:59 final size:59
Alignment explanation
Indices: 16233088--16233313 Score: 321
Period size: 59 Copynumber: 3.8 Consensus size: 59
16233078 ATTTTCAAAA
* * *
16233088 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCGAAATTTCC
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTCC
16233147 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAATTT-C
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTCC
* * * * *
16233204 AAAAAAAAGGGTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAGATCAAAATTTCC
1 AAAAAATA--TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTCC
* *
16233265 AAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAA
1 -AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAA
16233314 AAATAATAAA
Statistics
Matches: 147, Mismatches: 15, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
57 8 0.05
58 6 0.04
59 84 0.57
60 41 0.28
61 1 0.01
62 7 0.05
ACGTcount: A:0.45, C:0.08, G:0.14, T:0.34
Consensus pattern (59 bp):
AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTCC
Found at i:16233208 original size:118 final size:120
Alignment explanation
Indices: 16233067--16233374 Score: 388
Period size: 118 Copynumber: 2.5 Consensus size: 120
16233057 TTTCTTTACA
16233067 TAAAAATTAAAATTTTCAAAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTG
1 TAAAAA-TAAAATTTTC--AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTT-
* * *
16233132 AAA-ATCGAAATTTCC-AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
62 AAAGATCAAAATTTCCAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCT
*** *
16233189 TAAAAATAAAA-TTTCAAAAAAAAGGGTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAG
1 TAAAAATAAAATTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAG
16233253 ATCAAAATTTCCAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCT
66 ATCAAAATTTCCAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCT
* *
16233308 TAAAAAAAATAATAAAATAAATTTTCAAAAAAAATATTTTTGGGGGAAAGTTAAAAGTATCAATT
1 T-----AAA-AAT---A-AAATTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATT
16233373 TT
56 TT
16233375 CCCTACACAA
Statistics
Matches: 160, Mismatches: 13, Indels: 18
0.84 0.07 0.09
Matches are distributed among these distances:
117 3 0.02
118 52 0.32
119 41 0.26
120 4 0.03
121 5 0.03
122 6 0.04
124 3 0.02
125 3 0.02
128 1 0.01
129 3 0.02
130 39 0.24
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.34
Consensus pattern (120 bp):
TAAAAATAAAATTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAG
ATCAAAATTTCCAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCT
Found at i:16233428 original size:13 final size:13
Alignment explanation
Indices: 16233412--16233437 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16233402 CATTCCTTTC
16233412 TATTTTGATTTTT
1 TATTTTGATTTTT
16233425 TATTTTGATTTTT
1 TATTTTGATTTTT
16233438 CTTTAACTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (13 bp):
TATTTTGATTTTT
Found at i:16234751 original size:57 final size:57
Alignment explanation
Indices: 16234440--16234995 Score: 722
Period size: 57 Copynumber: 9.6 Consensus size: 57
16234430 TTTTTTGTAG
*
16234440 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTCGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTT--ATTTCT-AA
* *
16234499 GGAAAATTGATACTTTCAACTTTT-CCTCAAAAATCCTTTTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCT-AAAAAT--ATTTTTTGGAAATTTATTTCTAA
* * *
16234558 GGAAAATTGATACTTTCAATTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTGGAAA-TTT-ATTTCT-AA
*
16234618 GGAAAATTGATACTTTCAAC-TTT---T--AACT-TTTTTTGGAAATTTATTTTTCTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTA--TTTC---TAA
16234673 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTA-TTCTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTC-TAA
* *
16234730 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTGGAAATTTATTTCTAA
* * *
16234789 GAAAAATTGATACTTTCAACTCTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTCTAA
* *
16234846 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTGGAAATTTATTTCTAA
*
16234904 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTCTAA
16234961 GGAAAATTGATACTTTCAAC-TTTCCCTAAAAATAT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATAT
16234996 ATATTTTTTG
Statistics
Matches: 442, Mismatches: 29, Indels: 55
0.84 0.06 0.10
Matches are distributed among these distances:
50 1 0.00
51 3 0.01
52 13 0.03
54 3 0.01
55 22 0.05
56 18 0.04
57 131 0.30
58 65 0.15
59 124 0.28
60 31 0.07
61 16 0.04
62 15 0.03
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.44
Consensus pattern (57 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTCTAA
Found at i:16234763 original size:27 final size:27
Alignment explanation
Indices: 16234675--16234763 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 27
16234665 TCTTTTAAGG
16234675 AAAATTGATACTTTCAACTTTTCCCTA
1 AAAATTGATACTTTCAACTTTTCCCTA
** * * * *
16234702 AAAA-T-ATTTTTTGGAAATTTATTCTTAA
1 AAAATTGATACTTT-CAACTTT-TCCCT-A
16234730 GGAAAATTGATACTTTCAACTTTTCCCTA
1 --AAAATTGATACTTTCAACTTTTCCCTA
16234759 AAAAT
1 AAAAT
16234764 ATTTTTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 14
0.62 0.17 0.20
Matches are distributed among these distances:
25 5 0.12
26 6 0.14
27 12 0.28
28 1 0.02
29 1 0.02
30 7 0.16
31 6 0.14
32 5 0.12
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.42
Consensus pattern (27 bp):
AAAATTGATACTTTCAACTTTTCCCTA
Found at i:16234793 original size:115 final size:115
Alignment explanation
Indices: 16234440--16235011 Score: 776
Period size: 115 Copynumber: 4.9 Consensus size: 115
16234430 TTTTTTGTAG
16234440 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTCGATTTTCAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTT--ATTTT-AAGGAAAA
*
16234505 TTGATACTTTCAACTTTT-CCTCAAAAAT-CCTTTTTTTGAAAATTTATTTCTAA
63 TTGATACTTTCAACTTTTCCCT-AAAAATACTTTTTTTTG-AAATTTATTTCTAA
* *
16234558 GGAAAATTGATACTTTCAATTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTTTCAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAA-TTT-ATTTT-AAGGAAA
*
16234623 ATTGATACTTTCAAC-TTT---T----A-ACTTTTTTTGGAAATTTATTTTTCTTTTAA
62 ATTGATACTTTCAACTTTTCCCTAAAAATACTTTTTTTTGAAATTTA--TTTC---TAA
*
16234673 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTCTTAAGGAAAATT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATT-TTAAGGAAAATT
* *
16234738 GATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTCTGA
65 GATACTTTCAACTTTTCCCTAAAAATACTTTTTTTTGAAATTTATTTCTAA
* *
16234789 GAAAAATTGATACTTTCAACTCTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAAGGAAAATT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTT-TAAGGAAAATT
*
16234854 GATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTTGAAATTTATTTCTGA
65 GATACTTTCAACTTTTCCCTAAAAATACTTTTTTTTGAAATTTATTTCTAA
16234904 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAAGGAAAATT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTT-TAAGGAAAATT
*
16234969 GATACTTTCAAC-TTTCCCTAAAAATA-TATATTTTTTGGAATTT
65 GATACTTTCAACTTTTCCCTAAAAATACT-T-TTTTTTGAAATTT
16235012 TTTATTTTTA
Statistics
Matches: 417, Mismatches: 16, Indels: 44
0.87 0.03 0.09
Matches are distributed among these distances:
110 7 0.02
111 9 0.02
112 29 0.07
113 8 0.02
114 25 0.06
115 136 0.33
116 103 0.25
118 37 0.09
119 43 0.10
120 4 0.01
121 16 0.04
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.45
Consensus pattern (115 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTTAAGGAAAATTG
ATACTTTCAACTTTTCCCTAAAAATACTTTTTTTTGAAATTTATTTCTAA
Found at i:16234909 original size:231 final size:227
Alignment explanation
Indices: 16234440--16235011 Score: 784
Period size: 231 Copynumber: 2.5 Consensus size: 227
16234430 TTTTTTGTAG
16234440 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTCGATTTTCAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTT--ATTTT-AAGGAAAA
** *
16234505 TTGATACTTTCAACTTTT-CCTCAAAAAT-CCTTTTTTTGAAAATTTATTTCTAAGGAAAATTGA
63 TTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTTTTG-AAATTTATTTCTAAGAAAAATTGA
* * *
16234568 TACTTTCAATTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTTTCAAGGAAAATTGATACTT
126 TACTTTCAACTCTTCCCCAAAAATATTTTTTTGGAAATTTTGATTTTCAAGGAAAATTGATACTT
*
16234633 TCAACTTTTAACTTTTTTTGGAAATTTATTTTTCTTTTAA
191 TCAACTTTTAAATTTTTTTGGAAATTTA-TTTTC--TTAA
*
16234673 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTCTTAAGGAAAATT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATT-TTAAGGAAAATT
*
16234738 GATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTCTGAGAAAAATTGATACT
65 GATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTCTAAGAAAAATTGATACT
16234803 TTCAACTCTTCCCCAAAAATA-TTTTTTGGAAA-TTT-A-TTTCTAAGGAAAATTGATACTTTCA
130 TTCAACTCTTCCCCAAAAATATTTTTTTGGAAATTTTGATTTTC-AAGGAAAATTGATACTTTCA
* *
16234864 ACTTTTCCCTAAAAATATTTTTTTTGAAATTTA-TTTC-TGA
194 AC-TTT---T---AA-ATTTTTTTGGAAATTTATTTTCTTAA
16234904 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAAGGAAAATT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTT-TAAGGAAAATT
* *
16234969 GATACTTTCAAC-TTTCCCTAAAAATATATATTTTTTGGAATTT
65 GATACTTTCAACTTTTCCCTAAAAATAT-TTTTTTTTGAAATTT
16235012 TTTATTTTTA
Statistics
Matches: 311, Mismatches: 14, Indels: 30
0.88 0.04 0.08
Matches are distributed among these distances:
227 4 0.01
228 23 0.07
229 6 0.02
230 26 0.08
231 169 0.54
232 14 0.05
233 48 0.15
234 4 0.01
235 2 0.01
236 15 0.05
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.45
Consensus pattern (227 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTTAAGGAAAATTG
ATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTCTAAGAAAAATTGATACTT
TCAACTCTTCCCCAAAAATATTTTTTTGGAAATTTTGATTTTCAAGGAAAATTGATACTTTCAAC
TTTTAAATTTTTTTGGAAATTTATTTTCTTAA
Found at i:16235108 original size:20 final size:19
Alignment explanation
Indices: 16235083--16235149 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 19
16235073 CTAATCTAAT
*
16235083 AAATAAAAAATAAAATAAAC
1 AAATAAAAAA-AAAATAAAA
*
16235103 AAATAAACAAAGAAATAAAA
1 AAATAAA-AAAAAAATAAAA
*
16235123 AAAGAAAAAGAGAAAA-AAAA
1 AAATAAAAA-A-AAAATAAAA
16235143 AAA-AAAA
1 AAATAAAA
16235150 CTGGAGCGGC
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
19 6 0.15
20 28 0.70
21 6 0.15
ACGTcount: A:0.84, C:0.03, G:0.06, T:0.07
Consensus pattern (19 bp):
AAATAAAAAAAAAATAAAA
Found at i:16235126 original size:12 final size:12
Alignment explanation
Indices: 16235080--16235129 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
16235070 AACCTAATCT
*
16235080 AATAAATAAA-A
1 AATAAAAAAAGA
*
16235091 AATAAAATAAACA
1 AATAAAA-AAAGA
*
16235104 AATAAACAAAGA
1 AATAAAAAAAGA
16235116 AATAAAAAAAGA
1 AATAAAAAAAGA
16235128 AA
1 AA
16235130 AAGAGAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
11 6 0.18
12 20 0.61
13 7 0.21
ACGTcount: A:0.80, C:0.04, G:0.04, T:0.12
Consensus pattern (12 bp):
AATAAAAAAAGA
Found at i:16235516 original size:19 final size:19
Alignment explanation
Indices: 16235464--16235519 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
16235454 AGAACACCGG
* * *
16235464 TGGAATTTTCGCCGGATTC
1 TGGAAATTTCACCGGAATC
**
16235483 TGGAAAAAGTCACCGGAATC
1 TGG-AAATTTCACCGGAATC
16235503 TGGAAATTTCACCGGAA
1 TGGAAATTTCACCGGAA
16235520 GTTGGCCGAA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (19 bp):
TGGAAATTTCACCGGAATC
Found at i:16235705 original size:26 final size:25
Alignment explanation
Indices: 16235651--16235703 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
16235641 AATCTGGAAA
*
16235651 TTTCCCAGAAATTTCCAGAAAAAAT
1 TTTCCCAAAAATTTCCAGAAAAAAT
*
16235676 TTTCGCCAAAAATTTCTA-AAAAAAT
1 TTTC-CCAAAAATTTCCAGAAAAAAT
16235701 TTT
1 TTT
16235704 TCTCACTCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.34
Consensus pattern (25 bp):
TTTCCCAAAAATTTCCAGAAAAAAT
Found at i:16236055 original size:24 final size:24
Alignment explanation
Indices: 16235996--16236055 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
16235986 TAATTAGAAA
* *
16235996 AGATAAATAAAAAAAAATATTATG
1 AGATAAATAAAAAAAAATAATATC
* *
16236020 GGATAAAT-AAAAAGAATAATATC
1 AGATAAATAAAAAAAAATAATATC
*
16236043 AGATATATAAAAA
1 AGATAAATAAAAA
16236056 TACGAAAATA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
23 18 0.62
24 11 0.38
ACGTcount: A:0.65, C:0.02, G:0.10, T:0.23
Consensus pattern (24 bp):
AGATAAATAAAAAAAAATAATATC
Found at i:16236085 original size:22 final size:22
Alignment explanation
Indices: 16236060--16236114 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
16236050 TAAAAATACG
16236060 AAAATAAATAAAATAA-AAGATA
1 AAAATAAATAAAATAATAAG-TA
*
16236082 AAAATAAAAAAAATAATAAGTA
1 AAAATAAATAAAATAATAAGTA
16236104 AATAATAAATA
1 AA-AATAAATA
16236115 TATAGGATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 19 0.66
23 10 0.34
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (22 bp):
AAAATAAATAAAATAATAAGTA
Found at i:16236466 original size:14 final size:12
Alignment explanation
Indices: 16236427--16236471 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 12
16236417 CAACTTTTTC
*
16236427 TTTTGTTTTCTT
1 TTTTTTTTTCTT
16236439 TTTTTTTTTACTT
1 TTTTTTTTT-CTT
16236452 TTTTTTTTGCTCTT
1 TTTTTTTT--TCTT
16236466 TTTTTT
1 TTTTTT
16236472 CTTAAAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 8 0.28
13 11 0.38
14 9 0.31
15 1 0.03
ACGTcount: A:0.02, C:0.09, G:0.04, T:0.84
Consensus pattern (12 bp):
TTTTTTTTTCTT
Found at i:16236496 original size:135 final size:130
Alignment explanation
Indices: 16236351--16236599 Score: 306
Period size: 135 Copynumber: 1.9 Consensus size: 130
16236341 TGTTTTTTAC
16236351 CAAAGCTCCTCTAAACAGAGGCTCAACGACTCCGAAAAACATGAATAAAGCTCCTCTAAATAGAG
1 CAAAGCTCCTCTAAACAGAGGCTCAACGACTCCGAAAAAC--G----AAGCTCCTCTAAATAGAG
16236416 GCAACTTTTTCTT-TT-GTTTTCT-TTTTTTTTTTACTTTTTTTTTTGCTCTTTTTTTTCTTAAA
60 GCAACTTTTTCTTGTTCGTTTTCTGTTTTTTTTTTACTTTTTTTTTTG-T-TTTTTTTTCTTAAA
16236478 AAAAAGGT
123 AAAAAGGT
* * * ** *
16236486 CAAAGCTCCTCTAAGCAGAGGTTCAATGACTTTGAGAAACGAAGCTCCTCTAAATAGAGGCAACT
1 CAAAGCTCCTCTAAACAGAGGCTCAACGACTCCGAAAAACGAAGCTCCTCTAAATAGAGGCAACT
* * * **
16236551 TTTTTTTGTTCTTTTTTTGTTTTTTTTTTTGTTTTTTTTTTGTTTTTTT
66 TTTTCTTGTTCGTTTTCTGTTTTTTTTTTACTTTTTTTTTTGTTTTTTT
16236600 GTTTTTTTTT
Statistics
Matches: 100, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
129 30 0.30
130 8 0.08
131 6 0.06
132 21 0.21
133 1 0.01
135 34 0.34
ACGTcount: A:0.24, C:0.16, G:0.13, T:0.46
Consensus pattern (130 bp):
CAAAGCTCCTCTAAACAGAGGCTCAACGACTCCGAAAAACGAAGCTCCTCTAAATAGAGGCAACT
TTTTCTTGTTCGTTTTCTGTTTTTTTTTTACTTTTTTTTTTGTTTTTTTTTCTTAAAAAAAAGGT
Found at i:16236556 original size:1 final size:1
Alignment explanation
Indices: 16236550--16236613 Score: 74
Period size: 1 Copynumber: 64.0 Consensus size: 1
16236540 TAGAGGCAAC
* * * * * *
16236550 TTTTTTTTGTTCTTTTTTTGTTTTTTTTTTTGTTTTTTTTTTGTTTTTTTGTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
16236614 ACCAAAGCTC
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 51 1.00
ACGTcount: A:0.00, C:0.02, G:0.08, T:0.91
Consensus pattern (1 bp):
T
Found at i:16236566 original size:12 final size:11
Alignment explanation
Indices: 16236550--16236613 Score: 94
Period size: 11 Copynumber: 5.7 Consensus size: 11
16236540 TAGAGGCAAC
16236550 TTTTTTTTGTT
1 TTTTTTTTGTT
*
16236561 CTTTTTTTGTTT
1 TTTTTTTTG-TT
16236573 TTTTTTTTGTT
1 TTTTTTTTGTT
16236584 TTTTTTTTGTT
1 TTTTTTTTGTT
16236595 TTTTTGTTT-TT
1 TTTTT-TTTGTT
16236606 TTTTTTTT
1 TTTTTTTT
16236614 ACCAAAGCTC
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
10 3 0.06
11 33 0.67
12 13 0.27
ACGTcount: A:0.00, C:0.02, G:0.08, T:0.91
Consensus pattern (11 bp):
TTTTTTTTGTT
Found at i:16236580 original size:23 final size:22
Alignment explanation
Indices: 16236550--16236613 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 22
16236540 TAGAGGCAAC
16236550 TTTTTTTTGTTCTTTTTTTGTTT
1 TTTTTTTTGTT-TTTTTTTGTTT
16236573 TTTTTTTTGTTTTTTTTTTGTTT
1 TTTTTTTTG-TTTTTTTTTGTTT
16236596 TTTTGTTTT-TTTTTTTTT
1 TTTT-TTTTGTTTTTTTTT
16236614 ACCAAAGCTC
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
22 9 0.23
23 24 0.62
24 6 0.15
ACGTcount: A:0.00, C:0.02, G:0.08, T:0.91
Consensus pattern (22 bp):
TTTTTTTTGTTTTTTTTTGTTT
Found at i:16236586 original size:31 final size:31
Alignment explanation
Indices: 16236551--16236611 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
16236541 AGAGGCAACT
16236551 TTTTTTTGTTCTTTTTTTGTTTTTTTTTTTG
1 TTTTTTTGTTCTTTTTTTGTTTTTTTTTTTG
* *
16236582 TTTTTTTTTTGTTTTTTTGTTTTTTTTTTT
1 TTTTTTTGTTCTTTTTTTGTTTTTTTTTTT
16236612 TTACCAAAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.00, C:0.02, G:0.08, T:0.90
Consensus pattern (31 bp):
TTTTTTTGTTCTTTTTTTGTTTTTTTTTTTG
Found at i:16236760 original size:82 final size:81
Alignment explanation
Indices: 16236620--16237363 Score: 1057
Period size: 82 Copynumber: 9.1 Consensus size: 81
16236610 TTTTACCAAA
16236620 GCTCCTCTAAACAGAGGCTCAACG-ACTTTGAGAAACA-TAAATTGCTCCTCTAAACAGAGGCAC
1 GCTCCTCTAAACAGAGG--CAACGAACTTTG-GAAA-AGTAAATTGCTCCTCTAAACAGAGGCA-
*
16236683 CACGACTTTTGGAAAGTAAATT
61 CACGAC-TTTGAAAAGTAAATT
*
16236705 GCTCCTCTAAACAGAGGCAACGAAC-TTGGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACG
1 GCTCCTCTAAACAGAGGCAACGAACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCA-CACG
16236769 ACTTTGAAAAGTAAATT
65 ACTTTGAAAAGTAAATT
16236786 GCTCCTCTAAACAGAGGCAACGAACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCA-ACGA
1 GCTCCTCTAAACAGAGGCAACGAACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACACG-
16236850 ACTTTGGAAAAGTAAATT
65 ACTTT-GAAAAGTAAATT
*
16236868 GCTCCTCTAAACAGAGGCAACGAACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACG
1 GCTCCTCTAAACAGAGGCAACGAACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCA-CACG
16236932 ACTTTGAAAAAGTAAATT
65 ACTTTG-AAAAGTAAATT
* *
16236950 GCTCCTCTAAACAGAGGCAACGAACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGACA-ACAA
1 GCTCCTCTAAACAGAGGCAACGAACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACAC-G
*
16237014 ACTTTAAAAAGTAAATT
65 ACTTTGAAAAGTAAATT
*
16237031 GCTCCTCTAAACAGAGGTACCACG-ACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCA-AC
1 GCTCCTCTAAACAGAGG--CAACGAACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACAC
16237094 GAACTTTGAAAAGTAAATT
64 G-ACTTTGAAAAGTAAATT
*
16237113 GCTCCTCTAAACAGAGGTACCACG-ACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCA-AC
1 GCTCCTCTAAACAGAGG--CAACGAACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACAC
16237176 GAACTTTGAAAAGTAAATT
64 G-ACTTTGAAAAGTAAATT
* * *
16237195 GCTCCTCTAAACAGAGGTACCACG-ACTTT-GAAAAATAAATTGCTCCTCTAAACAGAGGTACCA
1 GCTCCTCTAAACAGAGG--CAACGAACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCA-CA
*
16237258 TGACTTTGGAAAAGTAAATT
63 CGACTTT-GAAAAGTAAATT
*
16237278 GCTCCTCTAAACAGAGGCAACGAACTTT-GAAAAATAAATTGCTCCTCTAAACAGAGGCA-ACGA
1 GCTCCTCTAAACAGAGGCAACGAACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACACG-
*
16237341 ACTTGGAAAAGTAAATT
65 ACTTTGAAAAGTAAATT
16237358 GCTCCT
1 GCTCCT
16237364 AGACAATCAT
Statistics
Matches: 622, Mismatches: 19, Indels: 41
0.91 0.03 0.06
Matches are distributed among these distances:
80 23 0.04
81 143 0.23
82 362 0.58
83 75 0.12
84 2 0.00
85 17 0.03
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (81 bp):
GCTCCTCTAAACAGAGGCAACGAACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACACGA
CTTTGAAAAGTAAATT
Found at i:16236869 original size:123 final size:122
Alignment explanation
Indices: 16236620--16237363 Score: 1109
Period size: 123 Copynumber: 6.0 Consensus size: 122
16236610 TTTTACCAAA
*
16236620 GCTCCTCTAAACAGAGGCT-CAACGACTTTGAGAAACATAAATTGCTCCTCTAAACAGAGGCACC
1 GCTCCTCTAAACAGAGG-TACAACGACTTTGA-AAA-GTAAATTGCTCCTCTAAACAGAGGCA--
16236684 ACGACTTTTGG-AAAGTAAATTGCTCCTCTAAACAGAGGCAACGAAC-TTGGAAAAGTAAATT
61 ACGAC-TTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGGAAAAGTAAATT
*
16236745 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAA
1 GCTCCTCTAAACAGAGGTACAACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACG-A
16236810 CTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGGAAAAGTAAATT
65 CTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGGAAAAGTAAATT
*
16236868 GCTCCTCTAAACAGAGG--CAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCAC
1 GCTCCTCTAAACAGAGGTACAACG-ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGG--CAAC
*
16236931 GACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGGAAAAGTAAATT
63 GACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGGAAAAGTAAATT
* * *
16236991 GCTCCTCTAAACAGA-G-ACAACAAACTTTAAAAAGTAAATTGCTCCTCTAAACAGAGGTACCAC
1 GCTCCTCTAAACAGAGGTACAAC-GACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGG--CAAC
16237054 GACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTT-GAAAAGTAAATT
63 GACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGGAAAAGTAAATT
*
16237113 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
1 GCTCCTCTAAACAGAGGTACAACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCAACG-
* *
16237178 ACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACG-ACTTT-GAAAAATAAATT
64 ACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGG--CAACGAACTTTGGAAAAGTAAATT
* *
16237236 GCTCCTCTAAACAGAGGTACCATGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
1 GCTCCTCTAAACAGAGGTACAACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCAACG-
*
16237301 ACTTT-GAAAAATAAATTGCTCCTCTAAACAGAGGCAACGAAC-TTGGAAAAGTAAATT
64 ACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGGAAAAGTAAATT
16237358 GCTCCT
1 GCTCCT
16237364 AGACAATCAT
Statistics
Matches: 584, Mismatches: 18, Indels: 37
0.91 0.03 0.06
Matches are distributed among these distances:
121 18 0.03
122 151 0.26
123 343 0.59
124 44 0.08
125 28 0.05
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (122 bp):
GCTCCTCTAAACAGAGGTACAACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAC
TTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGGAAAAGTAAATT
Found at i:16237061 original size:205 final size:201
Alignment explanation
Indices: 16236620--16237363 Score: 1117
Period size: 205 Copynumber: 3.6 Consensus size: 201
16236610 TTTTACCAAA
16236620 GCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACA-TAAATTGCTCCTCTAAACAGAGGCACC
1 GCTCCTCTAAACAGAGG-TCAACGACTTTG-GAAA-AGTAAATTGCTCCTCTAAACAGAGGCA--
*
16236684 ACG-ACTTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTGGAAAAGTAAATTGCT
61 ACGAAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTGGAAAAGTAAATTGCT
* *
16236748 CCTCTAAACAGAGGTACCACG-ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACT
125 CCTCTAAACAGAGG--CAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGACAAC-AACT
*
16236812 TTGGAAAAGTAAATT
187 TTGAAAAAGTAAATT
16236827 GCTCCTCTAAACAGAGG-CAACGAACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
1 GCTCCTCTAAACAGAGGTCAACG-ACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
* *
16236891 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACG-ACTTTGAAAAAGTAAATTGCTCC
65 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGG--CAACGAAC-TTGGAAAAGTAAATTGCTCC
16236955 TCTAAACAGAGGCAACGAACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGACAACAAACTTT-
127 TCTAAACAGAGGCAACGAACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGACAAC-AACTTTG
16237019 AAAAAGTAAATT
190 AAAAAGTAAATT
*
16237031 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
1 GCTCCTCTAAACAGAGGT-CAACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
*
16237096 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACG-ACTTTGGAAAAGTAAATTGCTCC
65 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGG--CAACGAAC-TTGGAAAAGTAAATTGCTCC
* *
16237160 TCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTTTG
127 TCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGA-G-ACAACAACTTTG
16237225 AAAAA-TAAATT
190 AAAAAGTAAATT
* *
16237236 GCTCCTCTAAACAGAGGTACCATGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
1 GCTCCTCTAAACAGAGGT-CAACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
*
16237301 ACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCAACGAACTTGGAAAAGTAAATTGCTCCT
65 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTGGAAAAGTAAATTGCTCCT
16237364 AGACAATCAT
Statistics
Matches: 509, Mismatches: 14, Indels: 32
0.92 0.03 0.06
Matches are distributed among these distances:
203 63 0.12
204 67 0.13
205 343 0.67
206 19 0.04
207 17 0.03
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (201 bp):
GCTCCTCTAAACAGAGGTCAACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAA
CTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTGGAAAAGTAAATTGCTCCTCTA
AACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGACAACAACTTTGAAAAAG
TAAATT
Found at i:16238620 original size:30 final size:29
Alignment explanation
Indices: 16238584--16238655 Score: 90
Period size: 30 Copynumber: 2.3 Consensus size: 29
16238574 TTTGAATCTC
16238584 TTTTTTTCATTTTCTCATTTTTTCCTTCTTT
1 TTTTTTTCATTTTCTC-TTTTTT-CTTCTTT
* *
16238615 TTTTTTCTCATTTTTTCTTTTTTTTTCTTT
1 TTTTTT-TCATTTTCTCTTTTTTCTTCTTT
16238645 TTTTTTATCAT
1 TTTTTT-TCAT
16238656 CTTTTTTTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
30 16 0.43
31 12 0.32
32 9 0.24
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (29 bp):
TTTTTTTCATTTTCTCTTTTTTCTTCTTT
Found at i:16238622 original size:10 final size:10
Alignment explanation
Indices: 16238609--16238650 Score: 66
Period size: 10 Copynumber: 4.2 Consensus size: 10
16238599 CATTTTTTCC
16238609 TTCTTTTTTT
1 TTCTTTTTTT
**
16238619 TTCTCATTTT
1 TTCTTTTTTT
16238629 TTCTTTTTTT
1 TTCTTTTTTT
16238639 TTCTTTTTTT
1 TTCTTTTTTT
16238649 TT
1 TT
16238651 ATCATCTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.02, C:0.12, G:0.00, T:0.86
Consensus pattern (10 bp):
TTCTTTTTTT
Found at i:16238637 original size:18 final size:17
Alignment explanation
Indices: 16238614--16238647 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
16238604 TTTCCTTCTT
16238614 TTTTTTTCTCATTTTTTC
1 TTTTTTTCTC-TTTTTTC
*
16238632 TTTTTTTTTCTTTTTT
1 TTTTTTTCTCTTTTTT
16238648 TTTATCATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTTTTCTCTTTTTTC
Found at i:16242667 original size:113 final size:111
Alignment explanation
Indices: 16242482--16243094 Score: 906
Period size: 113 Copynumber: 5.3 Consensus size: 111
16242472 TTTTTTGTAG
16242482 GGAAAATTGATACTTTCAACTTTT-CCCAAAAATA-TTTTTTGAAATTTCGATTTTCAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTT--A-TTTCAAGGAAAA
16242545 TTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTGAAATTTATTTCTAA
63 TTGATACTTTCAACTTTTCC-CAAAAATTTTTTTTGAAATTTATTTCTAA
16242595 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTATTTCAAGGAAAATT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGAAATTTATTTCAAGGAAAATT
16242660 GATACTTTCAACTTTTCCCAAAAATATTTTTTTGGAAATTTATTTCTAA
65 GATACTTTCAACTTTTCCCAAAAAT-TTTTTTT-GAAATTTATTTCTAA
* *
16242709 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAATTTATTCTTAAGGAAAATT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTATT-TCAAGGAAAATT
*
16242774 GATACTTTCAACTTTTCCCTAAAAATATTTTTTGAAATTTATTTCTAA
65 GATACTTTCAACTTTTCCC-AAAAATTTTTTTTGAAATTTATTTCTAA
* *
16242822 GGAAAATTGATACTTTCAACTCTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAAGGAAAATT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTATTTC-AAGGAAAATT
16242887 GATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTGAAATTTATTTTTCTTTTAA
65 GATACTTTCAACTTTTCCC--AAAA-A--TTTTTTTTGAAATTTA--TTTC---TAA
* * *
16242944 GGAAAATTGATACTTTCAACTTTTCCCTAAAAAGATTTTTTTTGAAATTTATTTCTGAGGAAAAT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGAAATTTATTTC-AAGGAAAAT
*
16243009 TGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
64 TGATACTTTCAACTTTT-CCCAAAAAT-TTTTTTTGAAATTTATTTCTAA
*
16243059 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATAT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATAT
16243095 ATATTTTTTG
Statistics
Matches: 464, Mismatches: 16, Indels: 39
0.89 0.03 0.08
Matches are distributed among these distances:
112 8 0.02
113 173 0.37
114 101 0.22
115 44 0.09
116 13 0.03
117 15 0.03
118 4 0.01
119 5 0.01
120 14 0.03
121 1 0.00
122 39 0.08
123 44 0.09
124 3 0.01
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (111 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTATTTCAAGGAAAATTG
ATACTTTCAACTTTTCCCAAAAATTTTTTTTGAAATTTATTTCTAA
Found at i:16242741 original size:27 final size:27
Alignment explanation
Indices: 16242711--16242799 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 27
16242701 ATTTCTAAGG
16242711 AAAATTGATACTTTCAACTTTTCCCTA
1 AAAATTGATACTTTCAACTTTTCCCTA
** * * * *
16242738 AAAA-T-ATTTTTTTGAAATTTATTCTTAA
1 AAAATTGA-TACTTTCAACTTT-TCCCT-A
16242766 GGAAAATTGATACTTTCAACTTTTCCCTA
1 --AAAATTGATACTTTCAACTTTTCCCTA
16242795 AAAAT
1 AAAAT
16242800 ATTTTTTGAA
Statistics
Matches: 43, Mismatches: 12, Indels: 14
0.62 0.17 0.20
Matches are distributed among these distances:
25 1 0.02
26 10 0.23
27 12 0.28
28 1 0.02
29 1 0.02
30 7 0.16
31 10 0.23
32 1 0.02
ACGTcount: A:0.37, C:0.15, G:0.06, T:0.43
Consensus pattern (27 bp):
AAAATTGATACTTTCAACTTTTCCCTA
Found at i:16242826 original size:170 final size:169
Alignment explanation
Indices: 16242482--16243094 Score: 968
Period size: 170 Copynumber: 3.5 Consensus size: 169
16242472 TTTTTTGTAG
16242482 GGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTT-GAAATTTCGATTT-TCAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTGGAAATTT--ATTTCT-AAGGAAAA
16242545 TTGATACTTTCAACTTTT-CCTCAAAAAT-TTTTTTTGAAATTTATT-TCTAAGGAAAATTGATA
63 TTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTTGAAATTTATTCT-TAAGGAAAATTGATA
*
16242607 CTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTATTTC-AA
126 CTTTCAACTTTTCCCTAAAAATA--TTTTTTGAAATTTATTTCTAA
16242652 GGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGGAAATTTATTTCTAAGGAAAATT
1 GGAAAATTGATACTTTCAACTTTTCCCAAAAATA-TTTTTTGGAAATTTATTTCTAAGGAAAATT
16242717 GATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAATTTATTCTTAAGGAAAATTGATACTTT
65 GATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAATTTATTCTTAAGGAAAATTGATACTTT
16242782 CAACTTTTCCCTAAAAATATTTTTTGAAATTTATTTCTAA
130 CAACTTTTCCCTAAAAATATTTTTTGAAATTTATTTCTAA
*
16242822 GGAAAATTGATACTTTCAACTCTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAAGGAAAATT
1 GGAAAATTGATACTTTCAACT-TTTCCCAAAAATATTTTTTGGAAATTTATTTCTAAGGAAAATT
16242887 GATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTGAAATTTATTTTTCTTTTAAGGAAAATT
65 GATACTTTCAACTTTTCCCTAAAAATA---TTTTTTTGAAATTTA---TTC--TTAAGGAAAATT
* *
16242952 GATACTTTCAACTTTTCCCTAAAAAGATTTTTTTTGAAATTTATTTCTGA
122 GATACTTTCAACTTTTCCCT-AAAA-ATATTTTTTGAAATTTATTTCTAA
16243002 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAAGGAAAATT
1 GGAAAATTGATACTTTCAACTTTT-CCCAAAAATATTTTTTGGAAATTTATTTCTAAGGAAAATT
16243067 GATACTTTCAACTTTTCCCTAAAAATAT
65 GATACTTTCAACTTTTCCCTAAAAATAT
16243095 ATATTTTTTG
Statistics
Matches: 419, Mismatches: 5, Indels: 31
0.92 0.01 0.07
Matches are distributed among these distances:
169 18 0.04
170 150 0.36
171 76 0.18
172 8 0.02
173 15 0.04
176 3 0.01
177 1 0.00
178 32 0.08
179 6 0.01
180 110 0.26
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (169 bp):
GGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTGGAAATTTATTTCTAAGGAAAATTG
ATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAATTTATTCTTAAGGAAAATTGATACTTTC
AACTTTTCCCTAAAAATATTTTTTGAAATTTATTTCTAA
Found at i:16243093 original size:57 final size:57
Alignment explanation
Indices: 16242482--16243094 Score: 947
Period size: 57 Copynumber: 10.6 Consensus size: 57
16242472 TTTTTTGTAG
16242482 GGAAAATTGATACTTTCAACTTTTCCC-AAAAATA-TTTTTTGAAATTTCGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAATTT--ATTTCT-AA
16242539 GGAAAATTGATACTTTCAACTTTT-CCTCAAAAAT-TTTTTTTGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTTGAAATTTATTTCTAA
*
16242595 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTATTTC-AA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTGAAATTTATTTCTAA
16242652 GGAAAATTGATACTTTCAACTTTTCCC-AAAAATATTTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTT-GAAATTTATTTCTAA
16242709 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAATTTA-TTCTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAATTTATTTC-TAA
16242766 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAATTTATTTCTAA
* * *
16242822 GGAAAATTGATACTTTCAACTCTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAATTTATTTCTAA
16242879 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTGAAATTTATTTTTCTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA---TTTTTTTGAAATTTA--TTTC---TAA
* *
16242944 GGAAAATTGATACTTTCAACTTTTCCCTAAAAAGATTTTTTTTGAAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTGAAATTTATTTCTAA
* *
16243002 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAATTTATTTCTAA
16243059 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATAT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATAT
16243095 ATATTTTTTG
Statistics
Matches: 521, Mismatches: 14, Indels: 42
0.90 0.02 0.07
Matches are distributed among these distances:
55 7 0.01
56 110 0.21
57 242 0.46
58 87 0.17
60 14 0.03
61 4 0.01
62 4 0.01
63 16 0.03
65 37 0.07
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (57 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAATTTATTTCTAA
Found at i:16243724 original size:31 final size:31
Alignment explanation
Indices: 16243678--16243744 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
16243668 ACTGGGTTGG
** * *
16243678 TCGTCGAAAACTTCAATGTTGGTCGAAATTT
1 TCGTCGAAAACTTCAAACTTCGCCGAAATTT
16243709 TCGTCGGAAAA-TTCAAACTTCGCCGAAATTT
1 TCGTC-GAAAACTTCAAACTTCGCCGAAATTT
16243740 TCGTC
1 TCGTC
16243745 CGAATCTGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 26 0.84
32 5 0.16
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (31 bp):
TCGTCGAAAACTTCAAACTTCGCCGAAATTT
Found at i:16244133 original size:23 final size:23
Alignment explanation
Indices: 16244091--16244151 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
16244081 TAATTAGAAA
* *
16244091 AGATAAATCAAAAAAAAATATTATG
1 AGATAAAT--AAAAAAAATAATATC
* *
16244116 GGATAAATAAAAAGAATAATATC
1 AGATAAATAAAAAAAATAATATC
*
16244139 AGATATATAAAAA
1 AGATAAATAAAAA
16244152 TACGAAAATA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
23 23 0.77
25 7 0.23
ACGTcount: A:0.64, C:0.03, G:0.10, T:0.23
Consensus pattern (23 bp):
AGATAAATAAAAAAAATAATATC
Found at i:16244152 original size:29 final size:26
Alignment explanation
Indices: 16244120--16244194 Score: 62
Period size: 32 Copynumber: 2.6 Consensus size: 26
16244110 ATTATGGGAT
16244120 AAATAAAAAGAATAATATCAGATAT-ATAA
1 AAATAAAAA-AATAATAT-A-A-ATGATAA
*
16244149 AAATACGAAAATAAATAAAATAAATGATAA
1 AAAT---AAAA-AAATAATATAAATGATAA
16244179 AAATAAAAAAATAATA
1 AAATAAAAAAATAATA
16244195 AGTAAATAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 13
0.72 0.04 0.24
Matches are distributed among these distances:
26 7 0.18
27 4 0.10
29 6 0.15
30 9 0.23
31 1 0.03
32 11 0.28
33 1 0.03
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (26 bp):
AAATAAAAAAATAATATAAATGATAA
Found at i:16244182 original size:18 final size:17
Alignment explanation
Indices: 16244161--16244249 Score: 56
Period size: 18 Copynumber: 5.0 Consensus size: 17
16244151 ATACGAAAAT
*
16244161 AAATAAAATAAATGATAA
1 AAATAAAA-AAATAATAA
16244179 AAATAAAAAAATAATAA
1 AAATAAAAAAATAATAA
* *
16244196 GTAAAT-AATAAATATATAGG
1 --AAATAAAAAAATA-ATA-A
* *
16244216 ATATACATAAAATAA-AA
1 AAATA-AAAAAATAATAA
*
16244233 AAATAAAATAATAATAA
1 AAATAAAAAAATAATAA
16244250 CCAAGATACA
Statistics
Matches: 54, Mismatches: 10, Indels: 15
0.68 0.13 0.19
Matches are distributed among these distances:
16 7 0.13
17 14 0.26
18 19 0.35
19 8 0.15
20 6 0.11
ACGTcount: A:0.71, C:0.01, G:0.04, T:0.24
Consensus pattern (17 bp):
AAATAAAAAAATAATAA
Found at i:16244200 original size:21 final size:22
Alignment explanation
Indices: 16244156--16244209 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
16244146 TAAAAATACG
*
16244156 AAAATAAATAAAATAAATGATA
1 AAAATAAATAAAATAAAAGATA
16244178 AAAATAAA-AAAATAATAAG-TA
1 AAAATAAATAAAATAA-AAGATA
16244199 AATAATAAATA
1 AA-AATAAATA
16244210 TATAGGATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 11 0.39
22 16 0.57
23 1 0.04
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (22 bp):
AAAATAAATAAAATAAAAGATA
Found at i:16249128 original size:24 final size:24
Alignment explanation
Indices: 16249098--16249145 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
16249088 GTGGAAATTC
16249098 CCTAATTGACAATAAGTGGAAAGA
1 CCTAATTGACAATAAGTGGAAAGA
* *
16249122 CCTAATTGGCAATAGGTGGAAAGA
1 CCTAATTGACAATAAGTGGAAAGA
16249146 TTCAACTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.42, C:0.12, G:0.25, T:0.21
Consensus pattern (24 bp):
CCTAATTGACAATAAGTGGAAAGA
Found at i:16254369 original size:18 final size:18
Alignment explanation
Indices: 16254338--16254384 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
16254328 AATATTAGAG
*
16254338 TAAT-TTTATAATTAAAA
1 TAATATTTATGATTAAAA
*
16254355 TAATATTTATGATTACAA
1 TAATATTTATGATTAAAA
*
16254373 TATTA-TTATGAT
1 TAATATTTATGAT
16254385 ATCATATCAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 11 0.42
18 15 0.58
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (18 bp):
TAATATTTATGATTAAAA
Found at i:16258606 original size:101 final size:100
Alignment explanation
Indices: 16258410--16258598 Score: 267
Period size: 101 Copynumber: 1.9 Consensus size: 100
16258400 TTGTACAAGA
*
16258410 AAAATTGATACTTTCAACTTTTCTCCAAAATATTTTTCTAAAACTTTAATTTCTAAAAAAATTGA
1 AAAATTGATAATTTCAACTTTTCTCCAAAATATTTTTCTAAAACTTTAATTTCTAAAAAAATTGA
16258475 TACTTTCAACTTTTCCTCAAAAAACCTTTTTTTAG
66 TACTTTCAACTTTTCCTCAAAAAACCTTTTTTTAG
** *
16258510 AAAATTGATAATTTCAACTTTTTCTTGAAAATATTTTT-TAGAAAAC-TTAGTTTC-AAGAAAAA
1 AAAATTGATAATTTCAAC-TTTTCTCCAAAATATTTTTCT--AAAACTTTAATTTCTAA-AAAAA
* *
16258572 TTGATACTTTTAACTTTTTCTCAAAAA
62 TTGATACTTTCAACTTTTCCTCAAAAA
16258599 TATTTTTTAG
Statistics
Matches: 79, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
100 20 0.25
101 54 0.68
102 5 0.06
ACGTcount: A:0.39, C:0.14, G:0.05, T:0.43
Consensus pattern (100 bp):
AAAATTGATAATTTCAACTTTTCTCCAAAATATTTTTCTAAAACTTTAATTTCTAAAAAAATTGA
TACTTTCAACTTTTCCTCAAAAAACCTTTTTTTAG
Found at i:16258686 original size:58 final size:58
Alignment explanation
Indices: 16258510--16258664 Score: 247
Period size: 58 Copynumber: 2.7 Consensus size: 58
16258500 CTTTTTTTAG
* * *
16258510 AAAATTGATAATTTCAACTTTTTCTTGAAAATATTTTTTAGAAAACTTAGTTTCAAGA
1 AAAATTGATACTTTTAACTTTTTCTTAAAAATATTTTTTAGAAAACTTAGTTTCAAGA
* *
16258568 AAAATTGATACTTTTAACTTTTTCTCAAAAATATTTTTTAGAAAACTTATTTTCAAGA
1 AAAATTGATACTTTTAACTTTTTCTTAAAAATATTTTTTAGAAAACTTAGTTTCAAGA
* *
16258626 AAAATTGATACTTTTATCTTTTCCTTAAAAATATTTTTT
1 AAAATTGATACTTTTAACTTTTTCTTAAAAATATTTTTT
16258665 TAAAAATTTT
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 89 1.00
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (58 bp):
AAAATTGATACTTTTAACTTTTTCTTAAAAATATTTTTTAGAAAACTTAGTTTCAAGA
Found at i:16258744 original size:18 final size:17
Alignment explanation
Indices: 16258689--16258762 Score: 59
Period size: 18 Copynumber: 4.5 Consensus size: 17
16258679 AAAGAAAATC
16258689 AATAAATAA-AATAA-A
1 AATAAATAATAATAATA
*
16258704 AAT-AA-AATAAGGAAT-
1 AATAAATAATAA-TAATA
* * *
16258719 ACTAAATAATTATAATCT
1 AATAAATAATAATAAT-A
16258737 AATAAATAATAATAATA
1 AATAAATAATAATAATA
16258754 AATAAATAA
1 AATAAATAA
16258763 AAAATCTTTG
Statistics
Matches: 45, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
13 2 0.04
14 4 0.09
15 7 0.16
16 5 0.11
17 13 0.29
18 14 0.31
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.27
Consensus pattern (17 bp):
AATAAATAATAATAATA
Found at i:16259214 original size:13 final size:14
Alignment explanation
Indices: 16259196--16259224 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
16259186 TTTGAAATTC
16259196 AAAAAAAAATT-TA
1 AAAAAAAAATTCTA
16259209 AAAAAAAAATTCTA
1 AAAAAAAAATTCTA
16259223 AA
1 AA
16259225 CACAATCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAAAAAAATTCTA
Found at i:16259553 original size:24 final size:23
Alignment explanation
Indices: 16259497--16259601 Score: 106
Period size: 24 Copynumber: 4.4 Consensus size: 23
16259487 TGTATATACC
*
16259497 AATAGATAAATAA-TAGATAATAGTT
1 AATAGATAAA-AATTATAT-ATA-TT
*
16259522 AATA-ATAAAAATTCATATACATT
1 AATAGATAAAAATT-ATATATATT
*
16259545 AATAGATAAATAATAATATATATT
1 AATAGATAAA-AATTATATATATT
16259569 AATAGATAAAAATATATATATATT
1 AATAGATAAAAAT-TATATATATT
*
16259593 AATAAATAA
1 AATAGATAA
16259602 TAATAATAAT
Statistics
Matches: 69, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
23 11 0.16
24 48 0.70
25 10 0.14
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (23 bp):
AATAGATAAAAATTATATATATT
Found at i:16259597 original size:20 final size:19
Alignment explanation
Indices: 16259553--16259635 Score: 64
Period size: 20 Copynumber: 4.3 Consensus size: 19
16259543 TTAATAGATA
*
16259553 AATAATAATATATATTAAT
1 AATAAAAATATATATTAAT
*
16259572 AGATAAAAATATATATATATT
1 A-ATAAAAATATATAT-TAAT
*
16259593 AATAAATAATA-ATAATAAT
1 AATAAA-AATATATATTAAT
* *
16259612 AACAATAAATA-A-ATAAAT
1 AATAA-AAATATATATTAAT
16259630 AATAAA
1 AATAAA
16259636 TAAGATACAA
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
17 1 0.02
18 8 0.15
19 13 0.25
20 22 0.42
21 8 0.15
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (19 bp):
AATAAAAATATATATTAAT
Found at i:16259606 original size:24 final size:24
Alignment explanation
Indices: 16259474--16259623 Score: 100
Period size: 24 Copynumber: 6.4 Consensus size: 24
16259464 AATAGATAAA
* *
16259474 TAATAAAT-A-AATATGTATATAC
1 TAATAAATAATAATATATATATAT
* * *
16259496 CAATAGATAAATAATAGATA-ATAGT
1 TAATAAAT-AATAATATATATATA-T
* *
16259521 TAAT-AATAAAAAT-TCATATACAT
1 TAATAAATAATAATAT-ATATATAT
*
16259544 TAATAGATAAATAATA-ATATATAT
1 TAATAAAT-AATAATATATATATAT
* *
16259568 TAATAGATAAAAATATATATATAT
1 TAATAAATAATAATATATATATAT
*
16259592 TAATAAATAATAATA-ATA-ATAA
1 TAATAAATAATAATATATATATAT
*
16259614 CAATAAATAA
1 TAATAAATAA
16259624 ATAAATAATA
Statistics
Matches: 100, Mismatches: 18, Indels: 20
0.72 0.13 0.14
Matches are distributed among these distances:
22 18 0.18
23 22 0.22
24 46 0.46
25 14 0.14
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.33
Consensus pattern (24 bp):
TAATAAATAATAATATATATATAT
Found at i:16259630 original size:48 final size:47
Alignment explanation
Indices: 16259474--16259624 Score: 159
Period size: 48 Copynumber: 3.2 Consensus size: 47
16259464 AATAGATAAA
* **
16259474 TAATAAAT--AAATATGTATATACCAATAGATAAATAATAGATAATAGT
1 TAATAAATAAAAATATATATATATTAATAGATAAATAATA-ATAATA-T
*
16259521 TAAT-AATAAAAAT-TCATATACATTAATAGATAAATAATAATATATAT
1 TAATAAATAAAAATAT-ATATATATTAATAGATAAATAATAATA-ATAT
* * *
16259568 TAATAGATAAAAATATATATATATTAATAAAT-AATAATAATAATAA
1 TAATAAATAAAAATATATATATATTAATAGATAAATAATAATAATAT
*
16259614 CAATAAATAAA
1 TAATAAATAAA
16259625 TAAATAATAA
Statistics
Matches: 88, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
46 15 0.17
47 23 0.26
48 49 0.56
49 1 0.01
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (47 bp):
TAATAAATAAAAATATATATATATTAATAGATAAATAATAATAATAT
Found at i:16259631 original size:34 final size:35
Alignment explanation
Indices: 16259545--16259637 Score: 82
Period size: 37 Copynumber: 2.5 Consensus size: 35
16259535 CATATACATT
* *
16259545 AATAGATAAATAAT-AATATATATTAATAGATAAA
1 AATAAATAAATAATAAATATATAATAATAGATAAA
* *
16259579 AATATATATATATTAATAAATAATAATAATAATA-ACAATA
1 AATA-A-ATA-AATAATAAAT-AT-ATAATAATAGATAA-A
16259619 AATAAATAAATAATAAATA
1 AATAAATAAATAATAAATA
16259638 AGATACAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
34 4 0.09
36 4 0.09
37 14 0.30
38 6 0.13
39 6 0.13
40 13 0.28
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.32
Consensus pattern (35 bp):
AATAAATAAATAATAAATATATAATAATAGATAAA
Found at i:16259638 original size:34 final size:34
Alignment explanation
Indices: 16259545--16259638 Score: 91
Period size: 34 Copynumber: 2.7 Consensus size: 34
16259535 CATATACATT
* * *
16259545 AATAGATAAATAATAATATATATTAATAGATAAA
1 AATAAATAAATAATAATAAATAATAATAGATAAA
* * *
16259579 AATATATATATATTAATAAATAATAATA-ATAATAA
1 AATAAATAAATAATAATAAATAATAATAGAT-A-AA
16259614 CAATAAATAAATAAATAATAAATAA
1 -AATAAATAAAT-AATAATAAATAA
16259639 GATACAAAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
33 2 0.04
34 24 0.50
35 2 0.04
36 9 0.19
37 11 0.23
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.32
Consensus pattern (34 bp):
AATAAATAAATAATAATAAATAATAATAGATAAA
Found at i:16260047 original size:87 final size:86
Alignment explanation
Indices: 16259843--16260231 Score: 311
Period size: 86 Copynumber: 4.5 Consensus size: 86
16259833 AAATTTTGAT
* * * * * * * * *
16259843 CAAAGCTCCTTTAAATAGAGGTTCAACGACTTTAAAACAAATAAACAAAGTTTTCTCTAAACAAA
1 CAAAGTTCCTCTAAACAGAGGCTCAACAACTTTGAAA-AAATAAACAAAG-CTCCTCTAAACAGA
* * *
16259908 GGCTCCACGACCTTGAA-AATAA
64 GGCTCAACAACTTTGAACAATAA
** * * * * * * *
16259930 -ATGGCTCTTCTAATCAGAGGCTCAATAACTTTTGGAAAAATAAATAAAGCTCCTCTAAACAGAA
1 CAAAGTTCCTCTAAACAGAGGCTCAACAAC-TTTGAAAAAATAAACAAAGCTCCTCTAAACAGAG
*
16259994 GCTCAACAACTTTGGACAATAA
65 GCTCAACAACTTTGAACAATAA
** * **
16260016 CAAACCTCCTCTAAACAGAGGCTCAACAACTTTAAAAAAATAAACAAAGCTCCTCTAAGTAGAGG
1 CAAAGTTCCTCTAAACAGAGGCTCAACAACTTTGAAAAAATAAACAAAGCTCCTCTAAACAGAGG
** * *
16260081 CTCAATGACTTAGAAAAATAAA
66 CTCAACAACTTTGAACAAT-AA
** * *
16260103 CAAAGTTCCTCTAAGTAGAGGCTCAACGAC-TTGAAAAAATAAACAAAGCTCTTCTAAACAGAGG
1 CAAAGTTCCTCTAAACAGAGGCTCAACAACTTTGAAAAAATAAACAAAGCTCCTCTAAACAGAGG
*
16260167 CTCCACAACTTTTGAACAATAA
66 CTCAACAAC-TTTGAACAATAA
** * * * *
16260189 -ATTGTTTCTCTAAACAGAGACACCACAACTTTTG-AAAAATAAA
1 CAAAGTTCCTCTAAACAGAGGCTCAACAAC-TTTGAAAAAATAAA
16260232 TTACTACTTG
Statistics
Matches: 235, Mismatches: 60, Indels: 15
0.76 0.19 0.05
Matches are distributed among these distances:
85 43 0.18
86 126 0.54
87 66 0.28
ACGTcount: A:0.43, C:0.21, G:0.12, T:0.23
Consensus pattern (86 bp):
CAAAGTTCCTCTAAACAGAGGCTCAACAACTTTGAAAAAATAAACAAAGCTCCTCTAAACAGAGG
CTCAACAACTTTGAACAATAA
Found at i:16260099 original size:43 final size:43
Alignment explanation
Indices: 16259843--16260177 Score: 259
Period size: 43 Copynumber: 7.7 Consensus size: 43
16259833 AAATTTTGAT
* * * * *
16259843 CAAAGCTCCTTTAAATAGAGGTTCAACGACTTTAAAACAAATAAA
1 CAAAGCTCCTCTAAACAGAGGCTCAACAAC-TTAGAA-AAATAAA
* * * * *
16259888 CAAAGTTTTCTCTAAACAAAGGCTCCACGACCTT-G-AAAAT-AA
1 CAAAG-CTCCTCTAAACAGAGGCTCAAC-AACTTAGAAAAATAAA
** * * * *
16259930 -ATGGCTCTTCTAATCAGAGGCTCAATAACTTTTGGAAAAATAAA
1 CAAAGCTCCTCTAAACAGAGGCTCAACAAC--TTAGAAAAATAAA
* * * * *
16259974 TAAAGCTCCTCTAAACAGAAGCTCAACAACTTTGGACAAT-AA
1 CAAAGCTCCTCTAAACAGAGGCTCAACAACTTAGAAAAATAAA
* *
16260016 CAAACCTCCTCTAAACAGAGGCTCAACAACTTTAAAAAAATAAA
1 CAAAGCTCCTCTAAACAGAGGCTCAACAAC-TTAGAAAAATAAA
** **
16260060 CAAAGCTCCTCTAAGTAGAGGCTCAATGACTTAGAAAAATAAA
1 CAAAGCTCCTCTAAACAGAGGCTCAACAACTTAGAAAAATAAA
* ** *
16260103 CAAAGTTCCTCTAAGTAGAGGCTCAACGACTT-GAAAAAATAAA
1 CAAAGCTCCTCTAAACAGAGGCTCAACAACTTAG-AAAAATAAA
* *
16260146 CAAAGCTCTTCTAAACAGAGGCTCCACAACTT
1 CAAAGCTCCTCTAAACAGAGGCTCAACAACTT
16260178 TTGAACAATA
Statistics
Matches: 229, Mismatches: 50, Indels: 24
0.76 0.17 0.08
Matches are distributed among these distances:
39 2 0.01
40 15 0.07
41 4 0.02
42 33 0.14
43 99 0.43
44 30 0.13
45 28 0.12
46 17 0.07
47 1 0.00
ACGTcount: A:0.43, C:0.21, G:0.13, T:0.23
Consensus pattern (43 bp):
CAAAGCTCCTCTAAACAGAGGCTCAACAACTTAGAAAAATAAA
Found at i:16260587 original size:44 final size:44
Alignment explanation
Indices: 16260499--16260605 Score: 103
Period size: 43 Copynumber: 2.4 Consensus size: 44
16260489 TTCTCATCTG
* ** * *
16260499 AGTTCAAAAGTTCACATTTAACATATTTGGAATTCACATTCAAAA
1 AGTTCAAAACTTTTCATTTAACATATTTAGAATTCACA-TCCAAA
* *
16260544 AGTAT-AAAGCTTTTCATTTAA-AT-TTTAGAGATTCATATCCAAA
1 AGT-TCAAAACTTTTCATTTAACATATTTAGA-ATTCACATCCAAA
16260587 AGTTCAAAACTTTTCATTT
1 AGTTCAAAACTTTTCATTT
16260606 TGGTTTGAAG
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
42 1 0.02
43 26 0.51
44 8 0.16
45 15 0.29
46 1 0.02
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.38
Consensus pattern (44 bp):
AGTTCAAAACTTTTCATTTAACATATTTAGAATTCACATCCAAA
Found at i:16261931 original size:8 final size:8
Alignment explanation
Indices: 16261899--16261997 Score: 58
Period size: 8 Copynumber: 11.6 Consensus size: 8
16261889 AATTTGAGTC
16261899 TTTC-TTT
1 TTTCATTT
*
16261906 TTTC-TCT
1 TTTCATTT
16261913 TTTCATCTTT
1 TTTCA--TTT
16261923 TTTCATTT
1 TTTCATTT
16261931 TTTCATTTTT
1 TTTCA--TTT
*
16261941 TTTAATTT
1 TTTCATTT
*
16261949 TTCTCTTTTT
1 TT-TC-ATTT
*
16261959 TTTCTTTTT
1 TTTC-ATTT
*
16261968 TTTTATTT
1 TTTCATTT
16261976 TTTCATTT
1 TTTCATTT
*
16261984 TCTTCATTC
1 T-TTCATTT
16261993 TTTCA
1 TTTCA
16261998 CCCATTGTGG
Statistics
Matches: 75, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
7 10 0.13
8 28 0.37
9 18 0.24
10 19 0.25
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTCATTT
Found at i:16261933 original size:18 final size:18
Alignment explanation
Indices: 16261901--16261995 Score: 79
Period size: 18 Copynumber: 5.3 Consensus size: 18
16261891 TTTGAGTCTT
*
16261901 TCTTTTTTC-TCTTTTCA
1 TCTTTTTTCATTTTTTCA
16261918 TCTTTTTTCATTTTTTCA
1 TCTTTTTTCATTTTTTCA
* *
16261936 TTTTTTTTAATTTTTCTC-
1 TCTTTTTTCATTTTT-TCA
* **
16261954 TTTTTTTTC-TTTTTTTT
1 TCTTTTTTCATTTTTTCA
*
16261971 TATTTTTTCATTTTCTTCA
1 TCTTTTTTCATTTT-TTCA
16261990 TTCTTT
1 -TCTTT
16261996 CACCCATTGT
Statistics
Matches: 63, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
16 1 0.02
17 22 0.35
18 32 0.51
19 4 0.06
20 4 0.06
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (18 bp):
TCTTTTTTCATTTTTTCA
Found at i:16261967 original size:17 final size:17
Alignment explanation
Indices: 16261903--16261986 Score: 59
Period size: 17 Copynumber: 4.8 Consensus size: 17
16261893 TGAGTCTTTC
16261903 TTTTTTCTCTTTTCATC--
1 TTTTTTCT-TTTTC-TCTT
16261920 TTTTTTCATTTTT-TCATT
1 TTTTTTC-TTTTTCTC-TT
*
16261938 TTTTTTAATTTTTCTCTT
1 TTTTTT-CTTTTTCTCTT
*
16261956 TTTTTTCTTTTT-TTTT
1 TTTTTTCTTTTTCTCTT
*
16261972 ATTTTTTCATTTTCT
1 -TTTTTTCTTTTTCT
16261987 TCATTCTTTC
Statistics
Matches: 55, Mismatches: 4, Indels: 15
0.74 0.05 0.20
Matches are distributed among these distances:
15 2 0.04
16 3 0.05
17 27 0.49
18 21 0.38
19 2 0.04
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTTCTTTTTCTCTT
Found at i:16261989 original size:9 final size:9
Alignment explanation
Indices: 16261912--16261991 Score: 74
Period size: 9 Copynumber: 8.9 Consensus size: 9
16261902 CTTTTTTCTC
16261912 TTTTCATCTT
1 TTTTCAT-TT
16261922 TTTTCA-TT
1 TTTTCATTT
16261930 TTTTCATTTT
1 TTTTCA-TTT
*
16261940 TTTTAATTT
1 TTTTCATTT
* *
16261949 TTCTCTTTT
1 TTTTCATTT
*
16261958 TTTTCTTTT
1 TTTTCATTT
*
16261967 TTTTTA-TT
1 TTTTCATTT
16261975 TTTTCATTT
1 TTTTCATTT
*
16261984 TCTTCATT
1 TTTTCATT
16261992 CTTTCACCCA
Statistics
Matches: 58, Mismatches: 9, Indels: 7
0.78 0.12 0.09
Matches are distributed among these distances:
8 15 0.26
9 30 0.52
10 13 0.22
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTTCATTT
Found at i:16264635 original size:15 final size:16
Alignment explanation
Indices: 16264610--16264640 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
16264600 TTTCTTTTTC
16264610 TTTCTTTCTTCTTTAT
1 TTTCTTTCTTCTTTAT
16264626 TTTC-TTCTTCTTTAT
1 TTTCTTTCTTCTTTAT
16264641 CTCTTCTCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTCTTTCTTCTTTAT
Done.