Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 190 of 190
Found at i:33116139 original size:44 final size:44
Alignment explanation
Indices: 33116073--33116327 Score: 254
Period size: 44 Copynumber: 5.8 Consensus size: 44
33116063 CAAGAAGCAA
* *
33116073 TTTATTTTTTC-AAAGTCTTTGAGCCTCTGTTTAGAGGAGCTTTG
1 TTTA-TTTTTCAAAAGTCATTGAGCCTCTGATTAGAGGAGCTTTG
* * * *
33116117 TTTATTTTTCAAAAGTCATTGAGCCTCTGCTTAAAGGACCTTTA
1 TTTATTTTTCAAAAGTCATTGAGCCTCTGATTAGAGGAGCTTTG
* * * * * *
33116161 TTTATTTTACTAAAAGTTATTGAGCCTCTGTTTAAATGAGCTTTA
1 TTTATTTTTC-AAAAGTCATTGAGCCTCTGATTAGAGGAGCTTTG
* * *
33116206 TTTATTTTTCAAAA-TCGTTGAGCCTTTGATTAGAAGAGCTTTAG
1 TTTATTTTTCAAAAGTCATTGAGCCTCTGATTAGAGGAGCTTT-G
*
33116250 -TTATTTTT-TAAAGT--TGTGAGCCTCTGATTAGAGGAGCTTTG
1 TTTATTTTTCAAAAGTCAT-TGAGCCTCTGATTAGAGGAGCTTTG
* *
33116291 TTTATTTTTTC-AAAGTCGTTGAGCCTCTGCTTAGAGG
1 TTTA-TTTTTCAAAAGTCATTGAGCCTCTGATTAGAGG
33116328 CACTTAATCA
Statistics
Matches: 179, Mismatches: 22, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
41 2 0.01
42 28 0.16
43 47 0.26
44 62 0.35
45 40 0.22
ACGTcount: A:0.24, C:0.13, G:0.18, T:0.44
Consensus pattern (44 bp):
TTTATTTTTCAAAAGTCATTGAGCCTCTGATTAGAGGAGCTTTG
Found at i:33116581 original size:20 final size:20
Alignment explanation
Indices: 33116552--33116629 Score: 72
Period size: 20 Copynumber: 4.0 Consensus size: 20
33116542 TTTAATATAT
*
33116552 TTTAT-TATTATTATTATTA
1 TTTATCTATTAATATTATTA
*
33116571 TTTATCAATTAATA-TATTTA
1 TTTATCTATTAATATTA-TTA
*
33116591 TTTATTTATTAATATATATT-
1 TTTATCTATTAATAT-TATTA
* *
33116611 TTTTTCTATTATTATTATT
1 TTTATCTATTAATATTATT
33116630 TTTTGACTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
19 11 0.23
20 33 0.69
21 2 0.04
22 2 0.04
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTATCTATTAATATTATTA
Found at i:33116632 original size:20 final size:19
Alignment explanation
Indices: 33116543--33116633 Score: 64
Period size: 20 Copynumber: 4.7 Consensus size: 19
33116533 ATATATATTT
*
33116543 TTAATATATTTTATTAT-TA
1 TTAATATATTTT-TTTTCTA
* * *
33116562 TT-AT-TATTATTTATCAA
1 TTAATATATTTTTTTTCTA
33116579 TTAATATATTTATTTATT-TA
1 TTAATATATTT-TTT-TTCTA
33116599 TTAATATATATTTTTTTCTA
1 TTAATATAT-TTTTTTTCTA
*
33116619 TTATTATTATTTTTT
1 TTAATA-TATTTTTT
33116634 GACTTTATCT
Statistics
Matches: 58, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
16 4 0.07
17 8 0.14
18 4 0.07
19 8 0.14
20 28 0.48
21 6 0.10
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (19 bp):
TTAATATATTTTTTTTCTA
Found at i:33116941 original size:11 final size:9
Alignment explanation
Indices: 33116900--33116933 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
33116890 TTAAAAAATT
33116900 TTTTTTGAA
1 TTTTTTGAA
*
33116909 TTTTTTGGAG
1 TTTTTT-GAA
33116919 TTTTTTGAA
1 TTTTTTGAA
33116928 TTTTTT
1 TTTTTT
33116934 CAGAATTTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.71
Consensus pattern (9 bp):
TTTTTTGAA
Found at i:33117412 original size:5 final size:6
Alignment explanation
Indices: 33117393--33117429 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
33117383 GTATTCCTTA
33117393 TTTATT TTTATT TTTATT TTTA-T TTTA-T TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTT
33117430 TTAAATGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 10 0.33
6 20 0.67
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTATT
Found at i:33117603 original size:57 final size:58
Alignment explanation
Indices: 33117438--33117848 Score: 413
Period size: 57 Copynumber: 7.1 Consensus size: 58
33117428 TTTTAAATGA
* ** *
33117438 TTTTCTT-AAAATAAAATTCTAGAAAAAATATTTTTGAGGAAAAGTTAAAAGTATTAAT
1 TTTTCTTGAAAAT-AAATTTTTTAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAAT
* * * *
33117496 TTTCCTTGAAAATAAATTTTTTAAAAAATATTTTTTAAGAAAAGTGAAAAGTATCAAT
1 TTTTCTTGAAAATAAATTTTTTAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAAT
* *
33117554 TTTTCTTGAACAT-AATTTTTTAAAAAATATTTTTGAGGAAAAGGTAAAAGTATCAAT
1 TTTTCTTGAAAATAAATTTTTTAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAAT
* * * * *
33117611 TTTTTTTAAAAATAAAATTTTTAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAAT
1 TTTTCTTGAAAAT-AAATTTTTTAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAAT
* * * * *
33117670 TTTTCTTAAAAATAATTTTTTTTTAAAAAATATTTTTGAGAAAAAATTGAAAGTATCAAT
1 TTTTCTTGAAAATAA--ATTTTTTAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAAT
* * * ** * *
33117730 TTTTCTCGAAATTAAAGTTTCAAAAAAATATTTTAG-GGAAAAGTTGAAAGTATCAAT
1 TTTTCTTGAAAATAAATTTTTTAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAAT
* ** * * * * *
33117787 TTTCCTT-AAAATAGAA-ACTCT--CAAATATTTTTAAGGAAAAGCTGAAAGTATCAAT
1 TTTTCTTGAAAATA-AATTTTTTAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAAT
33117842 TTTTCTT
1 TTTTCTT
33117849 ATACAAAAGC
Statistics
Matches: 300, Mismatches: 46, Indels: 17
0.83 0.13 0.05
Matches are distributed among these distances:
54 9 0.03
55 26 0.09
56 7 0.02
57 76 0.25
58 73 0.24
59 57 0.19
60 52 0.17
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.40
Consensus pattern (58 bp):
TTTTCTTGAAAATAAATTTTTTAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAAT
Found at i:33117633 original size:15 final size:14
Alignment explanation
Indices: 33117613--33117646 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
33117603 GTATCAATTT
33117613 TTTTTAAAAATAAAA
1 TTTTTAAAAA-AAAA
*
33117628 TTTTTAAAAAAATA
1 TTTTTAAAAAAAAA
33117642 TTTTT
1 TTTTT
33117647 GAGAAAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TTTTTAAAAAAAAA
Found at i:33128222 original size:136 final size:136
Alignment explanation
Indices: 33127969--33128222 Score: 325
Period size: 136 Copynumber: 1.9 Consensus size: 136
33127959 CACTTGTGTC
* * * * * *
33127969 ACGGACCTAAGAAGGAGTCTTGAATCCCACATCGAATATAATAGAAGGGTCATTGAGGTATTAAA
1 ACGGACCTAAGAAGAAGTCTTAAATCCCACATCGAACATAATAGAAGAGTCATAGAGGTATAAAA
* * ** * *
33128034 GGATTCACACTATCTCTTCCTTGTGAGGTACTTTTTGTAAGACAAAATCGTGAGGCTAGAAGGAG
66 GGATTCACACTACCTCTCCCTTGTGAGACACCTTTTGTAAGACAAAACCGTGAGGCTAGAAGGAG
33128099 AATGTG
131 AATGTG
*
33128105 ACGGACCTAAGAAGAAGTCTTAAATCTCACATCGAACATAATATG-AGAGTCACTAG-GGTATAA
1 ACGGACCTAAGAAGAAGTCTTAAATCCCACATCGAACATAATA-GAAGAGTCA-TAGAGGTAT-A
* *
33128168 AAAGG-TTCACACTACCTCTCCCTTGTGAGACACCTTTTGTAGGATAAAACCGTGA
63 AAAGGATTCACACTACCTCTCCCTTGTGAGACACCTTTTGTAAGACAAAACCGTGA
33128223 AGCCAAAGGA
Statistics
Matches: 100, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
136 92 0.92
137 8 0.08
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (136 bp):
ACGGACCTAAGAAGAAGTCTTAAATCCCACATCGAACATAATAGAAGAGTCATAGAGGTATAAAA
GGATTCACACTACCTCTCCCTTGTGAGACACCTTTTGTAAGACAAAACCGTGAGGCTAGAAGGAG
AATGTG
Found at i:33131509 original size:14 final size:15
Alignment explanation
Indices: 33131490--33131523 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
33131480 CAACTTTGTG
33131490 TTCATGT-CGGGTGA
1 TTCATGTACGGGTGA
33131504 TTCATGTACCGGGTGA
1 TTCATGTA-CGGGTGA
33131520 TTCA
1 TTCA
33131524 CGGCAGTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
16 11 0.61
ACGTcount: A:0.18, C:0.18, G:0.29, T:0.35
Consensus pattern (15 bp):
TTCATGTACGGGTGA
Found at i:33131966 original size:14 final size:16
Alignment explanation
Indices: 33131946--33131982 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
33131936 GTTATTTTAC
33131946 ATTTTTAA-TATA-AT
1 ATTTTTAATTATATAT
*
33131960 TTTTTTAATTATATAT
1 ATTTTTAATTATATAT
33131976 ATTTTTA
1 ATTTTTA
33131983 CAAGTTGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
14 7 0.37
15 4 0.21
16 8 0.42
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTTTTAATTATATAT
Found at i:33132831 original size:14 final size:14
Alignment explanation
Indices: 33132812--33132842 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
33132802 ATTAACTAAC
33132812 CAATTAATTAAATT
1 CAATTAATTAAATT
*
33132826 CAATTAATTCAATT
1 CAATTAATTAAATT
33132840 CAA
1 CAA
33132843 ATCTAGTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (14 bp):
CAATTAATTAAATT
Found at i:33133021 original size:20 final size:20
Alignment explanation
Indices: 33132993--33133030 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
33132983 AAATCTTTGG
*
33132993 ATAATGAGTAATCTAGTTGA
1 ATAACGAGTAATCTAGTTGA
33133013 ATAACGAGTAATCTAGTT
1 ATAACGAGTAATCTAGTT
33133031 TGACAAGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.08, G:0.18, T:0.34
Consensus pattern (20 bp):
ATAACGAGTAATCTAGTTGA
Found at i:33133164 original size:29 final size:27
Alignment explanation
Indices: 33133108--33133168 Score: 77
Period size: 29 Copynumber: 2.2 Consensus size: 27
33133098 AATTTTAGAT
* *
33133108 AAATAAATTATTTAATCTTTTAAATTA
1 AAATAAAATATTTAATCTTATAAATTA
*
33133135 AAATAAAATATATTATATCTTATAATTTA
1 AAATAAAATAT-TTA-ATCTTATAAATTA
33133164 AAATA
1 AAATA
33133169 TATAACTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 10 0.34
28 3 0.10
29 16 0.55
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.44
Consensus pattern (27 bp):
AAATAAAATATTTAATCTTATAAATTA
Found at i:33133530 original size:6 final size:7
Alignment explanation
Indices: 33133509--33133533 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
33133499 AGAAATAAAC
33133509 TTTATTT
1 TTTATTT
33133516 TTTATTT
1 TTTATTT
33133523 TTTATTT
1 TTTATTT
33133530 TTTA
1 TTTA
33133534 CCTTTACTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTATTT
Found at i:33133994 original size:19 final size:19
Alignment explanation
Indices: 33133970--33134008 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
33133960 TATCTTATCG
33133970 TCGATTCGAAGACCCTTCA
1 TCGATTCGAAGACCCTTCA
33133989 TCGATTCGAAGACCCTTCA
1 TCGATTCGAAGACCCTTCA
33134008 T
1 T
33134009 TCGAACAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (19 bp):
TCGATTCGAAGACCCTTCA
Found at i:33135436 original size:22 final size:22
Alignment explanation
Indices: 33135411--33135457 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
33135401 AATCGAACCA
33135411 AATTCGAGTTTTCTTCAAATCG
1 AATTCGAGTTTTCTTCAAATCG
* *
33135433 AATTTGAGTTTTCTTCGAATCG
1 AATTCGAGTTTTCTTCAAATCG
33135455 AAT
1 AAT
33135458 CCAAATAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.43
Consensus pattern (22 bp):
AATTCGAGTTTTCTTCAAATCG
Found at i:33135740 original size:23 final size:25
Alignment explanation
Indices: 33135704--33135750 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
33135694 AATATTATTC
33135704 AAAAATTAAATT-AAT-TAAAATAT
1 AAAAATTAAATTAAATATAAAATAT
33135727 AAAAA-TAAATTTAAATATAAAATA
1 AAAAATTAAA-TTAAATATAAAATA
33135751 AAATTATATG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 4 0.19
23 7 0.33
24 3 0.14
25 7 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (25 bp):
AAAAATTAAATTAAATATAAAATAT
Found at i:33135755 original size:18 final size:18
Alignment explanation
Indices: 33135711--33135752 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
33135701 TTCAAAAATT
*
33135711 AAATTAATTAAAATATAA
1 AAATAAATTAAAATATAA
*
33135729 AAATAAATTTAAATAT-A
1 AAATAAATTAAAATATAA
33135746 AAATAAA
1 AAATAAA
33135753 ATTATATGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
AAATAAATTAAAATATAA
Found at i:33138333 original size:343 final size:340
Alignment explanation
Indices: 33137706--33138370 Score: 1005
Period size: 343 Copynumber: 1.9 Consensus size: 340
33137696 AACAGAGCAA
*
33137706 GCAAACACCAGATTCAGAGAAATTTACAAAATAAGACCTGTCTTTTTGAAATCATTTCTTATTAG
1 GCAAACACCAGATTCAGAGAAATTTACAAAATAAGACATGTCTTTTTGAAATCATTTCTTATTAG
* * * * * *
33137771 ATCTGTATTATAAGAAAAAAAAAACCCAGATCCATGATGTAAAAAAAGCTGAAAACTGAAGCAGC
66 ATCTGCATAAAAAAAAAAAAAAAACCCAGATCCAGGATGTAAAAAAAGCTAAAAACTGAAGCAGC
*
33137836 AACAATGACTAAAAGAAATATACCTTGCTCTTGGTGACAGTCATCGACATTAATAGCAGGGAACA
131 AACAATGACTAAAAGAAATATACCTTGCTCTTGGTGACAGTAATCGACATTAATAGCAGGGAACA
* * *
33137901 ACAAGGTTCCATTAGCTTGCATCTGATAGAGCCCCTTAACTCCAGTTGTAGTTTCGTCAAAAACA
196 ACAAGGTTCCATTAGCTTGCAACTGATAAAGACCCTTAACTCCAGTTGTAGTTTCGTCAAAAACA
** *
33137966 CCAACCAATCTCTCTTTAATCTTCGTATACTTCTTGGGATCTGTCTT-CAACCAATATCTAATCA
261 CCAACCAATCTCTCCCTAATCTTCGTATACTTCTTGCGATCTGT-TTGCAACCAATATCTAATCA
33138030 AGATGTTCTTAGATCT
325 AGATGTTCTTAGATCT
33138046 GCAAACACCAGATTC-GAAGAAATTTACAAAATAAGACATGTCTTTTTGAAATCATTT-TTATTA
1 GCAAACACCAGATTCAG-AGAAATTTACAAAATAAGACATGTCTTTTTGAAATCATTTCTTATTA
*
33138109 GATCTGCATAAAAAAAAAAAAAAAACAAACCAGATCCAGGATGTAAAAAAAGTTAAAAACTGAAG
65 GATCTGCATAAAAAAAAAAAAAAAAC---CCAGATCCAGGATGTAAAAAAAGCTAAAAACTGAAG
* ** * * *
33138174 TAGCAGTAATGACTGAAAGAAATATACCTTGCTCTTGCTTGACAGTAATTGACATTAATAGCAGG
127 CAGCAACAATGACTAAAAGAAATATACCTTGCTCTTG-GTGACAGTAATCGACATTAATAGCAGG
*
33138239 GAACAACAAGGTTCCATTAGCTTGCAACTGATAAAGACTCTTAACTCCAGTTGTAGTTT-GCTCA
191 GAACAACAAGGTTCCATTAGCTTGCAACTGATAAAGACCCTTAACTCCAGTTGTAGTTTCG-TCA
* * * *
33138303 GAAACACCAACCAATCTCTCCCTCATCTTCGTATACTTCTTGCGATCTGTTTGCAACCCATCTCT
255 AAAACACCAACCAATCTCTCCCTAATCTTCGTATACTTCTTGCGATCTGTTTGCAACCAATATCT
33138368 AAT
320 AAT
33138371 TATCGTCAAA
Statistics
Matches: 292, Mismatches: 26, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
339 29 0.10
340 54 0.18
342 69 0.24
343 140 0.48
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.28
Consensus pattern (340 bp):
GCAAACACCAGATTCAGAGAAATTTACAAAATAAGACATGTCTTTTTGAAATCATTTCTTATTAG
ATCTGCATAAAAAAAAAAAAAAAACCCAGATCCAGGATGTAAAAAAAGCTAAAAACTGAAGCAGC
AACAATGACTAAAAGAAATATACCTTGCTCTTGGTGACAGTAATCGACATTAATAGCAGGGAACA
ACAAGGTTCCATTAGCTTGCAACTGATAAAGACCCTTAACTCCAGTTGTAGTTTCGTCAAAAACA
CCAACCAATCTCTCCCTAATCTTCGTATACTTCTTGCGATCTGTTTGCAACCAATATCTAATCAA
GATGTTCTTAGATCT
Found at i:33147181 original size:19 final size:18
Alignment explanation
Indices: 33147135--33147183 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
33147125 ATAATGAGAA
33147135 ACTCGAGCTCGAGTTCGAT
1 ACTCGA-CTCGAGTTCGAT
* * *
33147154 TCACAACTCGCAGTTCGAT
1 ACTCGACTCG-AGTTCGAT
33147173 ACTCGACTCGA
1 ACTCGACTCGA
33147184 ACTTAATAGA
Statistics
Matches: 23, Mismatches: 6, Indels: 3
0.72 0.19 0.09
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.24
Consensus pattern (18 bp):
ACTCGACTCGAGTTCGAT
Found at i:33147850 original size:18 final size:18
Alignment explanation
Indices: 33147806--33147847 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
33147796 TTCAAAAATT
*
33147806 AAATTAATTGAAATATAA
1 AAATAAATTGAAATATAA
*
33147824 AAATAAATTTAAATAT-A
1 AAATAAATTGAAATATAA
33147841 AAATAAA
1 AAATAAA
33147848 ATTATATGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (18 bp):
AAATAAATTGAAATATAA
Found at i:33148458 original size:14 final size:16
Alignment explanation
Indices: 33148428--33148460 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
33148418 GCAACTTGAA
33148428 AAAAAAATATATAATT
1 AAAAAAATATATAATT
33148444 AAAAAAAT-TAT-ATT
1 AAAAAAATATATAATT
33148458 AAA
1 AAA
33148461 GATGTAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 3 0.18
16 8 0.47
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AAAAAAATATATAATT
Found at i:33150428 original size:333 final size:336
Alignment explanation
Indices: 33149807--33150447 Score: 916
Period size: 333 Copynumber: 1.9 Consensus size: 336
33149797 AAAAGAGCAA
* *
33149807 GCAAACACCAGATTCAGAGAAATTTACAAAATAAGACCTGTCTTTTTGAAATCATTTTTATTAGA
1 GCAAACACCAGATTCAGAGAAATTTACAAAATAAGACATGTCTTTTTGAAATCATTTTAATTAGA
* *
33149872 TCTGTATTATAAAAAAAAAAAAAAAAGCCCCAGATCCATGATGTAAAAAAAGCTGAAAACTGAAG
66 TCTG--TCAT----AAAAAAAAAAAA--CCCAGATCCATGATGTAAAAAAAGCTAAAAACTGAAG
* *
33149937 CAGCAACAATGACTAAAAGAAATATACCTTGCTCTTGGTGACAGTCATCGACATTAATAAAAGGG
123 CAGCAACAATGACTAAAAGAAATATACCTTGCTCTTGCTGACAGTAATCGACATTAATAAAAGGG
* * * * *
33150002 AACAACAAGGTTCCATTAGCTTGCATCTGATAGAGCCTCTTAACTCCAGTTGTAGTTTCGTCAAA
188 AACAACAAGGTTCCATCAGCTTGCAACTGATAAAGACTCTTAACTACAGTTGTAGTTTCGTCAAA
** *
33150067 AACACCAACCAATCTCTCTTTAATCTTCGTATACTTCTTGGGATCTGTCTTCAACCAATATCTAA
253 AACACCAACCAATCTCTCCCTAATCTTCGTATACTTCTTGCGATCTGTCTTCAACCAATATCTAA
33150132 TCAAGATCTTATTAGATCT
318 TCAAGATCTTATTAGATCT
33150151 GCAAACACCAGATTC-GAAGAAATTTACAAAATAAGACATGTCTTTTTGAAATCATTTTAATTAG
1 GCAAACACCAGATTCAG-AGAAATTTACAAAATAAGACATGTCTTTTTGAAATCATTTTAATTAG
* * * *
33150215 ATCTG-CAT-AAAAAAAAAAA-CCAGATCCA-GAATGTAGAAAAAGTTAAAAACTGAAGTAGCAG
65 ATCTGTCATAAAAAAAAAAAACCCAGATCCATG-ATGTAAAAAAAGCTAAAAACTGAAGCAGCAA
* * * **
33150276 TAATGACTGAAAGAAATATACCTTGCTCTTGCTGACAGTAATTGACATTAATAGCAGGGAACAAC
129 CAATGACTAAAAGAAATATACCTTGCTCTTGCTGACAGTAATCGACATTAATAAAAGGGAACAAC
*
33150341 AAGGTTCCATCAGCTTGCAACTGATAAAGACTCTTAACTACAGTTGTAGTTT-GCTCAGAAACAC
194 AAGGTTCCATCAGCTTGCAACTGATAAAGACTCTTAACTACAGTTGTAGTTTCG-TCAAAAACAC
*
33150405 CAACCAATCTCTCCCTCATCTTCGTATACTTCTTGCGATCTGT
258 CAACCAATCTCTCCCTAATCTTCGTATACTTCTTGCGATCTGT
33150448 TAGCAACCCA
Statistics
Matches: 269, Mismatches: 25, Indels: 17
0.86 0.08 0.05
Matches are distributed among these distances:
332 2 0.01
333 188 0.70
336 11 0.04
341 2 0.01
343 1 0.00
344 65 0.24
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.28
Consensus pattern (336 bp):
GCAAACACCAGATTCAGAGAAATTTACAAAATAAGACATGTCTTTTTGAAATCATTTTAATTAGA
TCTGTCATAAAAAAAAAAAACCCAGATCCATGATGTAAAAAAAGCTAAAAACTGAAGCAGCAACA
ATGACTAAAAGAAATATACCTTGCTCTTGCTGACAGTAATCGACATTAATAAAAGGGAACAACAA
GGTTCCATCAGCTTGCAACTGATAAAGACTCTTAACTACAGTTGTAGTTTCGTCAAAAACACCAA
CCAATCTCTCCCTAATCTTCGTATACTTCTTGCGATCTGTCTTCAACCAATATCTAATCAAGATC
TTATTAGATCT
Found at i:33152564 original size:10 final size:10
Alignment explanation
Indices: 33152549--33152579 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
33152539 GTTACAAACT
33152549 TACAATAACA
1 TACAATAACA
33152559 TACAATAACA
1 TACAATAACA
33152569 TACAATAACA
1 TACAATAACA
33152579 T
1 T
33152580 CTTTTGTCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.58, C:0.19, G:0.00, T:0.23
Consensus pattern (10 bp):
TACAATAACA
Found at i:33152723 original size:80 final size:80
Alignment explanation
Indices: 33152590--33152750 Score: 322
Period size: 80 Copynumber: 2.0 Consensus size: 80
33152580 CTTTTGTCCT
33152590 TTATTTTCTTCTCAACTGAAAGGAGAAAAGGCTAGGGGGTGCCACAAGTCAGTGTCACGACTAGA
1 TTATTTTCTTCTCAACTGAAAGGAGAAAAGGCTAGGGGGTGCCACAAGTCAGTGTCACGACTAGA
33152655 ATGGTTACAATAACA
66 ATGGTTACAATAACA
33152670 TTATTTTCTTCTCAACTGAAAGGAGAAAAGGCTAGGGGGTGCCACAAGTCAGTGTCACGACTAGA
1 TTATTTTCTTCTCAACTGAAAGGAGAAAAGGCTAGGGGGTGCCACAAGTCAGTGTCACGACTAGA
33152735 ATGGTTACAATAACA
66 ATGGTTACAATAACA
33152750 T
1 T
33152751 CTTTTGTCCT
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 81 1.00
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (80 bp):
TTATTTTCTTCTCAACTGAAAGGAGAAAAGGCTAGGGGGTGCCACAAGTCAGTGTCACGACTAGA
ATGGTTACAATAACA
Found at i:33152832 original size:60 final size:60
Alignment explanation
Indices: 33152739--33152857 Score: 220
Period size: 60 Copynumber: 2.0 Consensus size: 60
33152729 ACTAGAATGG
*
33152739 TTACAATAACATCTTTTGTCCTTTATTTTCTTCTCTCCATTTGAGCTTTCCAACAACCAT
1 TTACAAAAACATCTTTTGTCCTTTATTTTCTTCTCTCCATTTGAGCTTTCCAACAACCAT
*
33152799 TTACAAAAACATCTTTTGTCCTTTCTTTTCTTCTCTCCATTTGAGCTTTCCAACAACCA
1 TTACAAAAACATCTTTTGTCCTTTATTTTCTTCTCTCCATTTGAGCTTTCCAACAACCA
33152858 CCAACTGCGA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.24, C:0.28, G:0.05, T:0.44
Consensus pattern (60 bp):
TTACAAAAACATCTTTTGTCCTTTATTTTCTTCTCTCCATTTGAGCTTTCCAACAACCAT
Found at i:33152887 original size:2 final size:2
Alignment explanation
Indices: 33152880--33152904 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
33152870 ATGAGAATAA
33152880 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
33152905 AAATACCACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:33153140 original size:20 final size:20
Alignment explanation
Indices: 33153105--33153150 Score: 60
Period size: 18 Copynumber: 2.3 Consensus size: 20
33153095 TTAATTTACT
33153105 AAAATATTATATTTATATAATA
1 AAAATATTATATTTATAT--TA
33153127 AAAATA-TA-ATTTATATTA
1 AAAATATTATATTTATATTA
33153145 AAAATA
1 AAAATA
33153151 ATATTCACTC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.33
20 8 0.33
21 2 0.08
22 6 0.25
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
AAAATATTATATTTATATTA
Found at i:33155679 original size:12 final size:12
Alignment explanation
Indices: 33155662--33155686 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33155652 TTATTAATTT
33155662 AAGTTTTATTAA
1 AAGTTTTATTAA
33155674 AAGTTTTATTAA
1 AAGTTTTATTAA
33155686 A
1 A
33155687 TTATAATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
AAGTTTTATTAA
Found at i:33155702 original size:27 final size:27
Alignment explanation
Indices: 33155651--33155702 Score: 63
Period size: 27 Copynumber: 1.9 Consensus size: 27
33155641 ACTCTACCAA
*
33155651 TTTATTAATTTAAGTTTTATTAAAAGT
1 TTTATTAATTTAAGTTTTATAAAAAGT
33155678 TTTATTAAATTATAA-TTTTA-AAAAA
1 TTTATT-AATT-TAAGTTTTATAAAAA
33155703 TTTCACAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
27 10 0.45
28 9 0.41
29 3 0.14
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (27 bp):
TTTATTAATTTAAGTTTTATAAAAAGT
Found at i:33157072 original size:42 final size:42
Alignment explanation
Indices: 33156984--33157072 Score: 115
Period size: 42 Copynumber: 2.1 Consensus size: 42
33156974 TCTAGTGTTG
* ** * * *
33156984 GATGAGCAGGAAATGGGGGTTGTTCTAGCTGATGATTATTAT
1 GATGAGCAGGAAATGAGAATTGTTCTAGCTGATGATGATGAC
*
33157026 GATGAGCAGGAAATGAGAATTGTTCTAGTTGATGATGATGAC
1 GATGAGCAGGAAATGAGAATTGTTCTAGCTGATGATGATGAC
33157068 GATGA
1 GATGA
33157073 TGAAGAATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.30, C:0.07, G:0.33, T:0.30
Consensus pattern (42 bp):
GATGAGCAGGAAATGAGAATTGTTCTAGCTGATGATGATGAC
Found at i:33158522 original size:23 final size:23
Alignment explanation
Indices: 33158492--33158535 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
33158482 GCCAAGAATG
33158492 CTACTAACTTCTGGCTATATTTT
1 CTACTAACTTCTGGCTATATTTT
33158515 CTACTAACTTCTGGCTATATT
1 CTACTAACTTCTGGCTATATT
33158536 CTTTGTGTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (23 bp):
CTACTAACTTCTGGCTATATTTT
Found at i:33165316 original size:29 final size:29
Alignment explanation
Indices: 33165283--33165338 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
33165273 TTGAGACGTC
33165283 GGATGAGTGGATG-CCTGAGTCCTAGAGCT
1 GGATGAGTGGATGTCC-GAGTCCTAGAGCT
*
33165312 GGATGAGTGGATGTCCGGGTCCTAGAG
1 GGATGAGTGGATGTCCGAGTCCTAGAG
33165339 ATGTGCGGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 23 0.92
30 2 0.08
ACGTcount: A:0.20, C:0.16, G:0.41, T:0.23
Consensus pattern (29 bp):
GGATGAGTGGATGTCCGAGTCCTAGAGCT
Found at i:33166067 original size:19 final size:18
Alignment explanation
Indices: 33166041--33166094 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 18
33166031 TTAATTAATT
33166041 TTATATTTATATTAAAAA
1 TTATATTTATATTAAAAA
33166059 TTAATATTTTATATTTAAAAAA
1 TT-ATA-TTTATA-TT-AAAAA
33166081 TTATATTT-TATTAA
1 TTATATTTATATTAA
33166095 TTTTGAATCT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
17 2 0.06
18 4 0.12
19 5 0.16
20 9 0.28
21 5 0.16
22 7 0.22
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TTATATTTATATTAAAAA
Found at i:33166078 original size:21 final size:20
Alignment explanation
Indices: 33166041--33166091 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 20
33166031 TTAATTAATT
33166041 TTATA-TTTATATT-AAAAA
1 TTATATTTTATATTAAAAAA
33166059 TTAATATTTTATATTTAAAAAA
1 TT-ATATTTTATA-TTAAAAAA
33166081 TTATATTTTAT
1 TTATATTTTAT
33166092 TAATTTTGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
18 2 0.07
19 3 0.10
20 6 0.21
21 11 0.38
22 7 0.24
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTATATTTTATATTAAAAAA
Found at i:33166092 original size:26 final size:23
Alignment explanation
Indices: 33166033--33166092 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 23
33166023 TTAATTAATT
33166033 AATTAATTTTATATTTATATTAAA
1 AATTAATTTTAT-TTTATATTAAA
33166057 AATTAA---TATTTTATATTTAAAA
1 AATTAATTTTATTTTATA-TT-AAA
33166079 AATTATATTTTATT
1 AATTA-ATTTTATT
33166093 AATTTTGAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
20 6 0.20
21 5 0.17
22 8 0.27
23 1 0.03
24 6 0.20
26 4 0.13
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
AATTAATTTTATTTTATATTAAA
Found at i:33166829 original size:2 final size:2
Alignment explanation
Indices: 33166822--33166850 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
33166812 GCACAAGAGA
33166822 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
33166851 CATACTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:33168388 original size:5 final size:6
Alignment explanation
Indices: 33168352--33168389 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
33168342 TAATAAAATC
33168352 TTTATAT TTTAATT TTTAAT TTTAAT TTTAA- TTTAAT T
1 TTTA-AT TTTAA-T TTTAAT TTTAAT TTTAAT TTTAAT T
33168390 ATTTTTAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
5 5 0.17
6 14 0.48
7 10 0.34
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTAAT
Found at i:33170862 original size:3 final size:3
Alignment explanation
Indices: 33170854--33170885 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
33170844 TGAGCAGGAA
*
33170854 GAT GAT GAT TAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
33170886 AGAATTTCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
GAT
Found at i:33170973 original size:30 final size:30
Alignment explanation
Indices: 33170938--33171037 Score: 78
Period size: 30 Copynumber: 3.2 Consensus size: 30
33170928 GGAAGAAGCA
33170938 GAAGAAGAAAATGATTATGATGACTTTCAG
1 GAAGAAGAAAATGATTATGATGACTTTCAG
* **
33170968 GAAGAAAGAAAA-GA-TAGTGAGCTGGAGTTGGAG
1 GAAG-AAGAAAATGATTA-TGA--T-GACTTTCAG
* * * *
33171001 GAAGAAGAAAATGATGATGAGGACTATCAC
1 GAAGAAGAAAATGATTATGATGACTTTCAG
33171031 GAAGAAG
1 GAAGAAG
33171038 GAGAAGATAA
Statistics
Matches: 53, Mismatches: 10, Indels: 14
0.69 0.13 0.18
Matches are distributed among these distances:
29 2 0.04
30 20 0.38
31 7 0.13
32 8 0.15
33 15 0.28
34 1 0.02
ACGTcount: A:0.45, C:0.06, G:0.31, T:0.18
Consensus pattern (30 bp):
GAAGAAGAAAATGATTATGATGACTTTCAG
Found at i:33171008 original size:63 final size:63
Alignment explanation
Indices: 33170938--33171068 Score: 172
Period size: 63 Copynumber: 2.1 Consensus size: 63
33170928 GGAAGAAGCA
* * * * ** *
33170938 GAAGAAGAAAATGATTATGATGACTTTCAGGAAGAAAGAAAAGATAGTGAGCTGGAGTTGGAG
1 GAAGAAGAAAATGATGATGAGGACTATCACGAAGAAAGAAAAGATAAAGAGCAGGAGTTGGAG
* * *
33171001 GAAGAAGAAAATGATGATGAGGACTATCACGAAGAAGGAGAAGATAAAGAGCAGGAGTTGGTG
1 GAAGAAGAAAATGATGATGAGGACTATCACGAAGAAAGAAAAGATAAAGAGCAGGAGTTGGAG
33171064 GAAGA
1 GAAGA
33171069 GGAGGAAAAT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.44, C:0.05, G:0.34, T:0.17
Consensus pattern (63 bp):
GAAGAAGAAAATGATGATGAGGACTATCACGAAGAAAGAAAAGATAAAGAGCAGGAGTTGGAG
Found at i:33185931 original size:2 final size:2
Alignment explanation
Indices: 33185924--33185953 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
33185914 TTAATCTAAC
33185924 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
33185954 AGACACGAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33186108 original size:27 final size:27
Alignment explanation
Indices: 33186078--33186137 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
33186068 ATAAACTATT
* *
33186078 TAAATTTAATATGTTTGGATAATTATG
1 TAAATTTAATATATTTGAATAATTATG
*
33186105 TAAATTTAATATATTTGAATAATTATT
1 TAAATTTAATATATTTGAATAATTATG
33186132 TAAATT
1 TAAATT
33186138 CAAATCAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (27 bp):
TAAATTTAATATATTTGAATAATTATG
Found at i:33186440 original size:2 final size:2
Alignment explanation
Indices: 33186433--33186463 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
33186423 ATCATAGCTT
33186433 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
33186464 TGTATGTGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:33187187 original size:15 final size:17
Alignment explanation
Indices: 33187167--33187200 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
33187157 TACATAAATT
33187167 TTAAATT-TAAA-TATA
1 TTAAATTATAAATTATA
33187182 TTAAATTATAAATTATA
1 TTAAATTATAAATTATA
33187199 TT
1 TT
33187201 TTTCTAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 4 0.24
17 6 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAAATTATAAATTATA
Found at i:33187893 original size:18 final size:17
Alignment explanation
Indices: 33187870--33187904 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
33187860 TTCATCACTT
33187870 TTTTTTATATTATATTTC
1 TTTTTTATATTAT-TTTC
*
33187888 TTTTTTTTATTATTTTC
1 TTTTTTATATTATTTTC
33187905 CTCTATTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTTTATATTATTTTC
Found at i:33188222 original size:3 final size:3
Alignment explanation
Indices: 33188214--33188241 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
33188204 AGTTCAATCA
33188214 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
33188242 TGATATTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:33191924 original size:2 final size:2
Alignment explanation
Indices: 33191919--33191952 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
33191909 TGTGTGTTAA
*
33191919 AT AT AT AT AT AT AT AT AT AT AT AT CT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33191953 GCTTGCTTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33192094 original size:20 final size:20
Alignment explanation
Indices: 33192069--33192110 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
33192059 AACATCGAAG
33192069 TCCTTTTTGATAATGATACT
1 TCCTTTTTGATAATGATACT
33192089 TCCTTTTTGATAATGATACT
1 TCCTTTTTGATAATGATACT
33192109 TC
1 TC
33192111 TACCATCTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.24, C:0.17, G:0.10, T:0.50
Consensus pattern (20 bp):
TCCTTTTTGATAATGATACT
Found at i:33193105 original size:2 final size:2
Alignment explanation
Indices: 33193098--33193132 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
33193088 TTGTAAATAG
33193098 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
33193133 GCGGAGATCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:33198231 original size:26 final size:25
Alignment explanation
Indices: 33198172--33198236 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
33198162 ATTTGATGTA
33198172 TTATTAATGAATAAAAATTATAATT
1 TTATTAATGAATAAAAATTATAATT
* *
33198197 TT-TTAATGAATCATATAA-TATTATT
1 TTATTAATGAAT-A-AAAATTATAATT
33198222 TTATTAATGAATAAA
1 TTATTAATGAATAAA
33198237 TGTCAAACTT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
24 10 0.29
25 12 0.35
26 12 0.35
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.46
Consensus pattern (25 bp):
TTATTAATGAATAAAAATTATAATT
Found at i:33198851 original size:18 final size:18
Alignment explanation
Indices: 33198805--33198852 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
33198795 TTATATTTTT
*
33198805 ATATTAATATAAATTATA
1 ATATTAATATAAAATATA
* *
33198823 ATTTTAGTATAAAATATA
1 ATATTAATATAAAATATA
*
33198841 ATATAAATATAA
1 ATATTAATATAA
33198853 TATTTTACAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (18 bp):
ATATTAATATAAAATATA
Found at i:33200284 original size:18 final size:18
Alignment explanation
Indices: 33200241--33200286 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
33200231 CAAATAATGA
*
33200241 TTTATAT-TTA-ATATAT
1 TTTATATATTATATAAAT
33200257 TATTAT-TATTATATAAAT
1 T-TTATATATTATATAAAT
33200275 TTTATATATTAT
1 TTTATATATTAT
33200287 CATTAATCAG
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
16 2 0.08
17 11 0.44
18 12 0.48
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTATATATTATATAAAT
Found at i:33205434 original size:14 final size:14
Alignment explanation
Indices: 33205415--33205444 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
33205405 AATTTATAAA
*
33205415 TTTTATTTATTATT
1 TTTTATATATTATT
33205429 TTTTATATATTATT
1 TTTTATATATTATT
33205443 TT
1 TT
33205445 AAGATATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTATATATTATT
Found at i:33205513 original size:17 final size:17
Alignment explanation
Indices: 33205488--33205531 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
33205478 TAGTTTTATT
*
33205488 TATAAAAATTTAAAAAA
1 TATATAAATTTAAAAAA
33205505 TATATAAA-TTAAAAAA
1 TATATAAATTTAAAAAA
33205521 TATATATAATT
1 TATATA-AATT
33205532 CCGTTTGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 14 0.58
17 9 0.38
18 1 0.04
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TATATAAATTTAAAAAA
Found at i:33205525 original size:18 final size:17
Alignment explanation
Indices: 33205488--33205529 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
33205478 TAGTTTTATT
* *
33205488 TATAAAAATTTAAAAAA
1 TATATAAATTAAAAAAA
33205505 TATATAAATTAAAAAATA
1 TATATAAATTAAAAAA-A
33205523 TATATAA
1 TATATAA
33205530 TTCCGTTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TATATAAATTAAAAAAA
Found at i:33206850 original size:21 final size:22
Alignment explanation
Indices: 33206817--33206862 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
33206807 GAGTTAAAAT
*
33206817 TTTAATAAAAATTATAAATAAA
1 TTTAATAAAAATTAAAAATAAA
*
33206839 TTTAAT-AAAATTAAAAATATA
1 TTTAATAAAAATTAAAAATAAA
33206860 TTT
1 TTT
33206863 TATATTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
TTTAATAAAAATTAAAAATAAA
Found at i:33206864 original size:22 final size:22
Alignment explanation
Indices: 33206814--33206864 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
33206804 AATGAGTTAA
*
33206814 AATTTTAATAAAAATTATAAAT
1 AATTTTAATAAAAATTAAAAAT
*
33206836 AAATTTAAT-AAAATTAAAAAT
1 AATTTTAATAAAAATTAAAAAT
33206857 ATATTTTA
1 A-ATTTTA
33206865 TATTTTTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
AATTTTAATAAAAATTAAAAAT
Found at i:33217805 original size:16 final size:17
Alignment explanation
Indices: 33217785--33217823 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
33217775 TATATATAAT
33217785 TATTATTAAAATTTTAA
1 TATTATTAAAATTTTAA
*
33217802 -ATTA-TAATATTTTAA
1 TATTATTAAAATTTTAA
33217817 TATTATT
1 TATTATT
33217824 TTTTATGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
15 10 0.53
16 8 0.42
17 1 0.05
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TATTATTAAAATTTTAA
Found at i:33217844 original size:21 final size:23
Alignment explanation
Indices: 33217803--33217844 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
33217793 AAATTTTAAA
33217803 TTATAATATTTTAATATTATTTT
1 TTATAATATTTTAATATTATTTT
*
33217826 TTATGATA-TTTAA-ATTATT
1 TTATAATATTTTAATATTATT
33217845 AAATTTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 5 0.28
23 7 0.39
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (23 bp):
TTATAATATTTTAATATTATTTT
Found at i:33217969 original size:17 final size:18
Alignment explanation
Indices: 33217937--33217973 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
33217927 TTAAAATTTT
33217937 TATTTTTAAAGTAATAAA
1 TATTTTTAAAGTAATAAA
33217955 TATTTTTAAAG-AATAAA
1 TATTTTTAAAGTAATAAA
33217972 TA
1 TA
33217974 AAAAAAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.43
Consensus pattern (18 bp):
TATTTTTAAAGTAATAAA
Found at i:33221827 original size:2 final size:2
Alignment explanation
Indices: 33221822--33221855 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
33221812 CGTTAATCTA
33221822 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
33221856 GGACACAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33222010 original size:27 final size:27
Alignment explanation
Indices: 33221964--33222039 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 27
33221954 CAAGTAATTC
33221964 TATTTA-ATAAATTATTTAAATTTAATA
1 TATTTAGAT-AATTATTTAAATTTAATA
* * *
33221991 TGTTTGGATAATTATGTAAATTTAATA
1 TATTTAGATAATTATTTAAATTTAATA
33222018 TATTTAGATAATTATTTAAATT
1 TATTTAGATAATTATTTAAATT
33222040 CAAATCAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
27 40 0.95
28 2 0.05
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (27 bp):
TATTTAGATAATTATTTAAATTTAATA
Found at i:33222342 original size:2 final size:2
Alignment explanation
Indices: 33222335--33222371 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
33222325 ATCATAGCTT
33222335 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
33222372 TGTATGTGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:33223316 original size:2 final size:2
Alignment explanation
Indices: 33223309--33223334 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
33223299 ACTCTACATA
33223309 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
33223335 AGAGAGAGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:33223339 original size:2 final size:2
Alignment explanation
Indices: 33223334--33223372 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
33223324 GTGTGTGTGT
33223334 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
33223373 CTTAATAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:33227842 original size:2 final size:2
Alignment explanation
Indices: 33227837--33227888 Score: 86
Period size: 2 Copynumber: 26.0 Consensus size: 2
33227827 TGTGTGTTAA
*
33227837 AT AT AT AT AT AT AT AT AT AT CT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
33227879 CT AT AT AT AT
1 AT AT AT AT AT
33227889 GCTTGCTTGT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33229692 original size:2 final size:2
Alignment explanation
Indices: 33229685--33229709 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
33229675 GCTTCCGGTG
33229685 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
33229710 GCAGAGATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:33234813 original size:26 final size:26
Alignment explanation
Indices: 33234754--33234815 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 26
33234744 ATTTGATGTA
33234754 TTATTAATGAA-TAAAAATTATAATT
1 TTATTAATGAATTAAAAATTATAATT
* *
33234779 TT-TTAATGAATTATATAA-TATTATT
1 TTATTAATGAATTA-AAAATTATAATT
33234804 TTATTAATGAAT
1 TTATTAATGAAT
33234816 AAATGTCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 8 0.25
25 12 0.38
26 12 0.38
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (26 bp):
TTATTAATGAATTAAAAATTATAATT
Found at i:33235443 original size:18 final size:18
Alignment explanation
Indices: 33235398--33235445 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
33235388 TTATATTTTT
*
33235398 ATATTAATATAAATTATA
1 ATATTAATATAAAATATA
* *
33235416 ATTTTCATATAAAATATA
1 ATATTAATATAAAATATA
*
33235434 ATATAAATATAA
1 ATATTAATATAA
33235446 TATTTTACAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (18 bp):
ATATTAATATAAAATATA
Found at i:33236867 original size:18 final size:18
Alignment explanation
Indices: 33236824--33236869 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
33236814 CAAATAGTGA
*
33236824 TTTATAT-TTA-ATATAT
1 TTTATATATTATATAAAT
33236840 TATTAT-TATTATATAAAT
1 T-TTATATATTATATAAAT
33236858 TTTATATATTAT
1 TTTATATATTAT
33236870 CATTAATCAG
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
16 2 0.08
17 11 0.44
18 12 0.48
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTATATATTATATAAAT
Found at i:33242012 original size:14 final size:14
Alignment explanation
Indices: 33241993--33242022 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
33241983 AATTTATAAA
*
33241993 TTTTATTTATTATT
1 TTTTATATATTATT
33242007 TTTTATATATTATT
1 TTTTATATATTATT
33242021 TT
1 TT
33242023 AAGATATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTATATATTATT
Found at i:33243429 original size:21 final size:22
Alignment explanation
Indices: 33243396--33243441 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
33243386 GAGTTAAAAT
*
33243396 TTTAATAAAAATTATAAATAAA
1 TTTAATAAAAATTAAAAATAAA
*
33243418 TTTAAT-AAAATTAAAAATATA
1 TTTAATAAAAATTAAAAATAAA
33243439 TTT
1 TTT
33243442 TTATATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
TTTAATAAAAATTAAAAATAAA
Found at i:33249272 original size:21 final size:19
Alignment explanation
Indices: 33249248--33249330 Score: 59
Period size: 18 Copynumber: 4.3 Consensus size: 19
33249238 TAATCCGATT
33249248 TAAAATTATAATAATAAAATA
1 TAAAATTATAATAAT--AATA
*
33249269 TAAAA--ATAAT-ATAATT
1 TAAAATTATAATAATAATA
33249285 TAAAATTATAATAATTATTATA
1 TAAAATTATAATAA-TA--ATA
33249307 TATAAATT-TAATAA-AATA
1 TA-AAATTATAATAATAATA
*
33249325 AAAAAT
1 TAAAAT
33249331 ATTTTTTATA
Statistics
Matches: 52, Mismatches: 3, Indels: 18
0.71 0.04 0.25
Matches are distributed among these distances:
16 8 0.15
17 4 0.08
18 11 0.21
19 6 0.12
20 3 0.06
21 5 0.10
22 10 0.19
23 5 0.10
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAAATTATAATAATAATA
Found at i:33249277 original size:37 final size:37
Alignment explanation
Indices: 33249218--33249299 Score: 119
Period size: 37 Copynumber: 2.2 Consensus size: 37
33249208 CTAACACAAC
* * * *
33249218 ATAAAAATGAAATATAAAAATAATCCGATTTAAAATT
1 ATAATAATAAAATATAAAAATAATACAATTTAAAATT
*
33249255 ATAATAATAAAATATAAAAATAATATAATTTAAAATT
1 ATAATAATAAAATATAAAAATAATACAATTTAAAATT
33249292 ATAATAAT
1 ATAATAAT
33249300 TATTATATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (37 bp):
ATAATAATAAAATATAAAAATAATACAATTTAAAATT
Found at i:33249312 original size:24 final size:24
Alignment explanation
Indices: 33249251--33249320 Score: 60
Period size: 23 Copynumber: 3.1 Consensus size: 24
33249241 TCCGATTTAA
*
33249251 AATTATAATA-ATAAAA-TATAA-
1 AATTATTATATATAAAATTATAAT
* * *
33249272 AAATAATATAATTTAAAATTATAAT
1 AATTATTAT-ATATAAAATTATAAT
33249297 AATTATTATATAT-AAATT-TAAT
1 AATTATTATATATAAAATTATAAT
33249319 AA
1 AA
33249321 AATAAAAAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
21 6 0.16
22 7 0.18
23 10 0.26
24 8 0.21
25 7 0.18
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
AATTATTATATATAAAATTATAAT
Found at i:33249394 original size:13 final size:13
Alignment explanation
Indices: 33249378--33249403 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33249368 ATAATTTACG
33249378 TATAAAAATATAA
1 TATAAAAATATAA
33249391 TATAAAAATATAA
1 TATAAAAATATAA
33249404 ATTTTAATAT
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
TATAAAAATATAA
Found at i:33250050 original size:18 final size:17
Alignment explanation
Indices: 33250009--33250055 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
33249999 ACTAACAAAT
* *
33250009 AAATTTTTAAAATTATA
1 AAATTTTTAAAATGAGA
33250026 AAATTTTTAAAATGAGA
1 AAATTTTTAAAATGAGA
*
33250043 AAAGTTTTCAAAA
1 AAA-TTTTTAAAA
33250056 ACTCTCTACT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 18 0.69
18 8 0.31
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.38
Consensus pattern (17 bp):
AAATTTTTAAAATGAGA
Found at i:33258032 original size:2 final size:2
Alignment explanation
Indices: 33258025--33258067 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
33258015 TTGGAGATCA
* *
33258025 AC AC AC AC AC AC AC AC AC AC AC AC AC GC AC AC AC GC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
33258067 A
1 A
33258068 TGCATAGTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.47, C:0.49, G:0.05, T:0.00
Consensus pattern (2 bp):
AC
Found at i:33259981 original size:2 final size:2
Alignment explanation
Indices: 33259974--33259999 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
33259964 CCATCCTTTG
33259974 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
33260000 TTACAATTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:33262283 original size:16 final size:16
Alignment explanation
Indices: 33262264--33262302 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
33262254 TACATTTAAT
*
33262264 TATATATATTTTTATA
1 TATATATAATTTTATA
*
33262280 TATATTTAATTTTATA
1 TATATATAATTTTATA
*
33262296 TTTATAT
1 TATATAT
33262303 TTAAATAATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TATATATAATTTTATA
Found at i:33262295 original size:12 final size:13
Alignment explanation
Indices: 33262257--33262305 Score: 50
Period size: 12 Copynumber: 3.8 Consensus size: 13
33262247 TAAATTTTAC
33262257 ATTTAATTATATAT
1 ATTTAATT-TATAT
33262271 ATTT--TTATATAT
1 ATTTAATT-TATAT
33262283 ATTTAATTT-TAT
1 ATTTAATTTATAT
33262295 ATTTATATTTA
1 ATTTA-ATTTA
33262306 AATAATATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
12 20 0.65
13 5 0.16
14 6 0.19
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
ATTTAATTTATAT
Found at i:33262303 original size:18 final size:17
Alignment explanation
Indices: 33262271--33262306 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
33262261 AATTATATAT
33262271 ATTTTTATATATATTTA
1 ATTTTTATATATATTTA
*
33262288 ATTTTATATTTATATTTA
1 ATTTT-TATATATATTTA
33262306 A
1 A
33262307 ATAATATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
ATTTTTATATATATTTA
Found at i:33266101 original size:21 final size:22
Alignment explanation
Indices: 33266072--33266117 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
33266062 AAAAAATATA
*
33266072 AAATATATTTTTAA-TTTTATT
1 AAATATATTTATAATTTTTATT
*
33266093 AAATTTATTTATAATTTTTATT
1 AAATATATTTATAATTTTTATT
33266115 AAA
1 AAA
33266118 ATTTTAACTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
AAATATATTTATAATTTTTATT
Found at i:33267424 original size:18 final size:17
Alignment explanation
Indices: 33267399--33267442 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
33267389 AATCAAACCG
33267399 AATTATATATATTTTTT-
1 AATT-TATATATTTTTTA
33267416 AATTTATATATTTTTTA
1 AATTTATATATTTTTTA
*
33267433 AATTTTTATA
1 AATTTATATA
33267443 AATAAAACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 12 0.48
17 13 0.52
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
AATTTATATATTTTTTA
Found at i:33267425 original size:16 final size:17
Alignment explanation
Indices: 33267399--33267433 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
33267389 AATCAAACCG
33267399 AATTATATATATTTTTT
1 AATTATATATATTTTTT
33267416 AATT-TATATATTTTTT
1 AATTATATATATTTTTT
33267432 AA
1 AA
33267434 ATTTTTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
AATTATATATATTTTTT
Found at i:33272662 original size:18 final size:18
Alignment explanation
Indices: 33272639--33272684 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
33272629 CTGATTAATG
*
33272639 ATAATATATAAAATTTAT
1 ATAATATATAAAATATAT
33272657 ATAATA-ATAATAATATAT
1 ATAATATATAA-AATATAT
33272675 -TAA-ATATAAA
1 ATAATATATAAA
33272685 TCATTATTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
16 2 0.08
17 11 0.44
18 12 0.48
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
ATAATATATAAAATATAT
Found at i:33273420 original size:13 final size:13
Alignment explanation
Indices: 33273396--33273430 Score: 54
Period size: 12 Copynumber: 2.7 Consensus size: 13
33273386 TATTTAATGT
33273396 TAAAATTTTAAAA
1 TAAAATTTTAAAA
33273409 -AAAATTTATAAAA
1 TAAAATTT-TAAAA
33273422 TAAAATTTT
1 TAAAATTTT
33273431 TATTATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 7 0.35
13 6 0.30
14 7 0.35
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TAAAATTTTAAAA
Found at i:33273858 original size:21 final size:21
Alignment explanation
Indices: 33273832--33273875 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
33273822 TTGGTATTTA
33273832 TAAAT-ACTGATTAAAAATAAT
1 TAAATAACTGATTAAAAA-AAT
**
33273853 TAAATAACTTTTTAAAAAAAT
1 TAAATAACTGATTAAAAAAAT
33273874 TA
1 TA
33273876 CATTTTACGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (21 bp):
TAAATAACTGATTAAAAAAAT
Done.