Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003311.1 Hibiscus syriacus cultivar Beakdansim tig00006968_pilon, 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: 100982
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.34
Found at i:717 original size:2 final size:2
Alignment explanation
Indices: 710--736 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
700 TACATTCTCT
710 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 T
737 TGAGCTATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3939 original size:16 final size:16
Alignment explanation
Indices: 3918--3951 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
3908 CATTTAGATT
3918 TTCAACTAATTTATAA
1 TTCAACTAATTTATAA
3934 TTCAACTAATTTATAA
1 TTCAACTAATTTATAA
3950 TT
1 TT
3952 ATACATTGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (16 bp):
TTCAACTAATTTATAA
Found at i:6614 original size:29 final size:29
Alignment explanation
Indices: 6558--6613 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
6548 AACAAAATCT
**
6558 AAAGTTTAATGTCTATTATGTAACTTTTG
1 AAAGTTTAATGTCTAAAATGTAACTTTTG
*
6587 AAAGTTTAGTGTCTAAAATG-AACTTTT
1 AAAGTTTAATGTCTAAAATGTAACTTTT
6614 TAAAATAGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.34, C:0.07, G:0.14, T:0.45
Consensus pattern (29 bp):
AAAGTTTAATGTCTAAAATGTAACTTTTG
Found at i:12190 original size:12 final size:12
Alignment explanation
Indices: 12173--12197 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12163 AAAGAGTGAT
12173 AAGTTAAATTTG
1 AAGTTAAATTTG
12185 AAGTTAAATTTG
1 AAGTTAAATTTG
12197 A
1 A
12198 CTTGTCATCA
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:0.16, T:0.40
Consensus pattern (12 bp):
AAGTTAAATTTG
Found at i:13764 original size:20 final size:19
Alignment explanation
Indices: 13739--13787 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
13729 ATTGTTCATG
*
13739 GTACTATTTAAACAATATTA
1 GTACTATTCAAACAATA-TA
* *
13759 GTACTATTCATACCATATA
1 GTACTATTCAAACAATATA
13778 GTACTATTCA
1 GTACTATTCA
13788 TAAAAACGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.39, C:0.16, G:0.06, T:0.39
Consensus pattern (19 bp):
GTACTATTCAAACAATATA
Found at i:14895 original size:39 final size:40
Alignment explanation
Indices: 14778--15087 Score: 243
Period size: 39 Copynumber: 7.8 Consensus size: 40
14768 TGATTAACAA
* * *
14778 GAAAATAAATCCAA-TGATTTATTTTCTTTTACAAGACAG
1 GAAAATAAATCCAACTGATTTATTTACTTTTACAAAATAG
*
14817 GAAAA-AAATGCAAC-GA-TT-TTT--TTTTACAAAATAG
1 GAAAATAAATCCAACTGATTTATTTACTTTTACAAAATAG
14851 GAAAATAAATCCAACT-ATTTATTTACTTTTACAAAATAG
1 GAAAATAAATCCAACTGATTTATTTACTTTTACAAAATAG
* ** * *
14890 AAAAATAAATTGAA-TGATTTATTTACTTTTACAAAACAA
1 GAAAATAAATCCAACTGATTTATTTACTTTTACAAAATAG
* *
14929 GAAAATAAATCAAACGATTTGTTTCGATTTATTTCCTTTTACAAAATAG
1 GAAAATAAATCCAAC--------T-GATTTATTTACTTTTACAAAATAG
* * **
14978 GAAACTAAATCCAAC-GATTTATTTTCTTTTACAAACCAG
1 GAAAATAAATCCAACTGATTTATTTACTTTTACAAAATAG
* * * **
15017 GAAACTAAATTCAA-TAATTTATTT-CATTTT-TGAAATAG
1 GAAAATAAATCCAACTGATTTATTTAC-TTTTACAAAATAG
*
15055 GAAAATAAATCAAAC-GATTTATTTACTTTTACA
1 GAAAATAAATCCAACTGATTTATTTACTTTTACA
15088 TATCAGAATC
Statistics
Matches: 216, Mismatches: 32, Indels: 46
0.73 0.11 0.16
Matches are distributed among these distances:
34 16 0.07
35 9 0.04
36 5 0.02
37 5 0.02
38 38 0.18
39 108 0.50
48 1 0.00
49 34 0.16
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.36
Consensus pattern (40 bp):
GAAAATAAATCCAACTGATTTATTTACTTTTACAAAATAG
Found at i:15007 original size:127 final size:126
Alignment explanation
Indices: 14838--15074 Score: 332
Period size: 127 Copynumber: 1.9 Consensus size: 126
14828 AACGATTTTT
* * *
14838 TTTTACAAAATAGGAAAATAAATCCAACTATTTATTTACTTTTACAAAATAGAAAAATAAATTGA
1 TTTTACAAAATAGGAAAATAAATCCAACGATTTATTTACTTTTACAAAACAGAAAAATAAATTCA
*
14903 ATGATTTATTT-ACTTTTACAAAACAAGAAAATAAATCAAACGATTTGTTTCGATTTATTTCC
66 ATAATTTATTTCA-TTTT-CAAAACAAGAAAATAAATCAAACGATTTGTTTCGATTTATTTCC
* * * * *
14965 TTTTACAAAATAGGAAACTAAATCCAACGATTTATTTTCTTTTACAAACCAGGAAACTAAATTCA
1 TTTTACAAAATAGGAAAATAAATCCAACGATTTATTTACTTTTACAAAACAGAAAAATAAATTCA
** * *
15030 ATAATTTATTTCATTTTTGAAATAGGAAAATAAATCAAACGATTT
66 ATAATTTATTTCATTTTCAAAACAAGAAAATAAATCAAACGATTT
15075 ATTTACTTTT
Statistics
Matches: 96, Mismatches: 13, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
126 24 0.25
127 71 0.74
128 1 0.01
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.36
Consensus pattern (126 bp):
TTTTACAAAATAGGAAAATAAATCCAACGATTTATTTACTTTTACAAAACAGAAAAATAAATTCA
ATAATTTATTTCATTTTCAAAACAAGAAAATAAATCAAACGATTTGTTTCGATTTATTTCC
Found at i:15151 original size:14 final size:14
Alignment explanation
Indices: 15132--15159 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
15122 TTTACCGATT
15132 TATTTCTTTTTTCA
1 TATTTCTTTTTTCA
15146 TATTTCTTTTTTCA
1 TATTTCTTTTTTCA
15160 AACAGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (14 bp):
TATTTCTTTTTTCA
Found at i:15170 original size:110 final size:111
Alignment explanation
Indices: 15036--15252 Score: 269
Period size: 110 Copynumber: 2.0 Consensus size: 111
15026 TTCAATAATT
* * * *
15036 TATTTCATTTTTGAAATAGGAAAATAAA-TCAAACGATTTATTTACTTTTACATATCAGAATCAT
1 TATTTCATTTTTCAAACAGAAAAATAAATTCAAA-GATTTATTTACTTTTACAGATCAGAATCAT
* * *
15100 ACAAGATTCTT-AGTAAAATAAATTTACCGATTTA-TTTCTTTTTTCA
65 ACAAGATTCTTAAG-AAAATAAATTCAACAATTTATTTTCTTTTTTCA
* * * * *
15146 TATTTCTTTTTTCAAACAGAAAAATAAATTCTAAGATTTATTTCCTTTTACAGATCAGAATCGTG
1 TATTTCATTTTTCAAACAGAAAAATAAATTCAAAGATTTATTTACTTTTACAGATCAGAATCATA
**
15211 TGAGATTCTTAAGAAAATAAATTCAACAATTTATTTTCTTTT
66 CAAGATTCTTAAGAAAATAAATTCAACAATTTATTTTCTTTT
15253 ACAAAATTGG
Statistics
Matches: 90, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
110 76 0.84
111 14 0.16
ACGTcount: A:0.37, C:0.12, G:0.08, T:0.43
Consensus pattern (111 bp):
TATTTCATTTTTCAAACAGAAAAATAAATTCAAAGATTTATTTACTTTTACAGATCAGAATCATA
CAAGATTCTTAAGAAAATAAATTCAACAATTTATTTTCTTTTTTCA
Found at i:15498 original size:116 final size:115
Alignment explanation
Indices: 15290--15647 Score: 296
Period size: 116 Copynumber: 3.1 Consensus size: 115
15280 TTATTTCTTT
** * * * * * **
15290 ATTCAAGATTCCCAAGAAAATAAATTTAA-AAAGTT-CTTTCCTTAAACAAAATAGATTGTTTAA
1 ATTCAAGATTATCAAGAAAATAAATTCAACAAA-TTATTTTCCTTATA-AAGATAGAATCATTAA
* * *
15353 GATTCTCAAGAAAATAAATTTAACAATTTAATAACTT-TTGCAAA-ATAGAATC
64 GATTCTCAAGAAAATAAATTCAACAATTT-AT-ACTTCTTACAAAGATAAAATC
* * * *
15405 ATTTAAGATTATCAAGAAAATAAATTTAACAAATTA-TTTCTTTTTAAATGATAGAATCATTAAC
1 ATTCAAGATTATCAAGAAAATAAATTCAACAAATTATTTTCCTTATAAA-GATAGAATCATTAA-
* ** *
15469 GATTCTCAAGAAAATAAATTCGACAATTTATTTTTCTTACAAAGTTAAAATC
64 GATTCTCAAGAAAATAAATTCAACAATTTATACTTCTTACAAAGATAAAATC
* * * * * *
15521 ATTCAAGATTTTCAAGGAAATAAATTCAATAAATTATTTTCCTTATAAAGTTATAATCATTTAGA
1 ATTCAAGATTATCAAGAAAATAAATTCAACAAATTATTTTCCTTATAAAGATAGAATCATTAAG-
* * * * * *
15586 ATTCTTAAGGAAATAAATTCAACAATCTAT-TTTCTTAGCAAAGTTAGAATC
65 ATTCTCAAGAAAATAAATTCAACAATTTATACTTCTTA-CAAAGATAAAATC
*
15637 AATGCAAGATT
1 -ATTCAAGATT
15648 CTAACAATGA
Statistics
Matches: 200, Mismatches: 33, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
114 4 0.02
115 61 0.31
116 116 0.58
117 19 0.09
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.36
Consensus pattern (115 bp):
ATTCAAGATTATCAAGAAAATAAATTCAACAAATTATTTTCCTTATAAAGATAGAATCATTAAGA
TTCTCAAGAAAATAAATTCAACAATTTATACTTCTTACAAAGATAAAATC
Found at i:15547 original size:58 final size:57
Alignment explanation
Indices: 15349--15637 Score: 239
Period size: 58 Copynumber: 5.0 Consensus size: 57
15339 AATAGATTGT
* * * ** * *
15349 TTAAGATTCTCAAGAAAATAAATTTAACAATTTAATAACTT-TTGCAAA-ATAGAATCA
1 TTAAGATTTTCAAGAAAATAAATTCAACAAATT-AT-TTTTCTTACAAAGTTAGAATCA
* * * * *
15406 TTTAAGATTATCAAGAAAATAAATTTAACAAATTATTTCTTTTTA-AATGATAGAATCA
1 -TTAAGATTTTCAAGAAAATAAATTCAACAAATTATTT-TTCTTACAAAGTTAGAATCA
* * * *
15464 TTAACGATTCTCAAGAAAATAAATTCGACAATTTATTTTTCTTACAAAGTTAAAATCA
1 TTAA-GATTTTCAAGAAAATAAATTCAACAAATTATTTTTCTTACAAAGTTAGAATCA
* * * * *
15522 TTCAAGATTTTCAAGGAAATAAATTCAATAAATTATTTTCCTTATAAAGTTATAATCA
1 TT-AAGATTTTCAAGAAAATAAATTCAACAAATTATTTTTCTTACAAAGTTAGAATCA
* *
15580 TTTAGAATTCTT-AAGGAAATAAATTCAAC-AATCTA-TTTTCTTAGCAAAGTTAGAATCA
1 TTAAG-ATT-TTCAAGAAAATAAATTCAACAAAT-TATTTTTCTTA-CAAAGTTAGAATCA
15638 ATGCAAGATT
Statistics
Matches: 194, Mismatches: 27, Indels: 20
0.80 0.11 0.08
Matches are distributed among these distances:
57 27 0.14
58 163 0.84
59 4 0.02
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.37
Consensus pattern (57 bp):
TTAAGATTTTCAAGAAAATAAATTCAACAAATTATTTTTCTTACAAAGTTAGAATCA
Found at i:15851 original size:45 final size:45
Alignment explanation
Indices: 15801--15914 Score: 124
Period size: 45 Copynumber: 2.5 Consensus size: 45
15791 CTCAATAGTA
* **
15801 AAAAGGAACAAATCCTTTGATTTTAGTTTTTGCAATCCAA-TAATC
1 AAAAGGAACAAATCCTTTGATTTTAATTTACGCAA-CCAAGTAATC
* * * *
15846 GAAAGGAA-ATGATCTTTTAATTTTAATTTACGCAACCAAGTAATC
1 AAAAGGAACA-AATCCTTTGATTTTAATTTACGCAACCAAGTAATC
*
15891 AAAAGGAACTAATCCTTTGATTTT
1 AAAAGGAACAAATCCTTTGATTTT
15915 TTTTTTTAAA
Statistics
Matches: 54, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
44 5 0.09
45 49 0.91
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (45 bp):
AAAAGGAACAAATCCTTTGATTTTAATTTACGCAACCAAGTAATC
Found at i:16879 original size:13 final size:13
Alignment explanation
Indices: 16861--16887 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
16851 ATTCATGTAC
16861 ATGAATCAAGAAT
1 ATGAATCAAGAAT
16874 ATGAATCAAGAAT
1 ATGAATCAAGAAT
16887 A
1 A
16888 AAACAAACAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.07, G:0.15, T:0.22
Consensus pattern (13 bp):
ATGAATCAAGAAT
Found at i:22685 original size:23 final size:22
Alignment explanation
Indices: 22624--22697 Score: 73
Period size: 20 Copynumber: 3.5 Consensus size: 22
22614 TATATTTATG
* *
22624 ATATTATGTATATTTTAAAATT
1 ATATTATTTATTTTTTAAAATT
* *
22646 -T-TAATTTAATTTTTAAAATT
1 ATATTATTTATTTTTTAAAATT
*
22666 ATATTATTTATTTATTTAAAATA
1 ATATTATTTATTT-TTTAAAATT
22689 ATATT-TTTA
1 ATATTATTTA
22698 AAATTATATA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
20 15 0.36
21 2 0.05
22 12 0.29
23 13 0.31
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (22 bp):
ATATTATTTATTTTTTAAAATT
Found at i:22695 original size:37 final size:33
Alignment explanation
Indices: 22654--22726 Score: 101
Period size: 37 Copynumber: 2.1 Consensus size: 33
22644 TTTTAATTTA
22654 ATTTTTAAAATTATATTATTTATTTATTTAAAATAAT
1 ATTTTTAAAATTATA-TATTTA---ATTTAAAATAAT
*
22691 ATTTTTAAAATTATATATTTAATTTTAAATAAT
1 ATTTTTAAAATTATATATTTAATTTAAAATAAT
22724 ATT
1 ATT
22727 GTAGGAAACC
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
33 14 0.40
36 6 0.17
37 15 0.43
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (33 bp):
ATTTTTAAAATTATATATTTAATTTAAAATAAT
Found at i:22699 original size:14 final size:14
Alignment explanation
Indices: 22678--22712 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
22668 ATTATTTATT
22678 TATTTAAAATAATA
1 TATTTAAAATAATA
* *
22692 TTTTTAAAATTATA
1 TATTTAAAATAATA
22706 TATTTAA
1 TATTTAA
22713 TTTTAAATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
TATTTAAAATAATA
Found at i:22718 original size:20 final size:20
Alignment explanation
Indices: 22635--22719 Score: 67
Period size: 20 Copynumber: 4.4 Consensus size: 20
22625 TATTATGTAT
*
22635 ATTTTAAAATTTTA-ATTTA
1 ATTTTAAAATTATATATTTA
22654 ATTTTTAAAATTATATTATTTA
1 A-TTTTAAAATTATA-TATTTA
*
22676 TTTATTTAAAA-TA-ATA--T-
1 -AT-TTTAAAATTATATATTTA
22693 -TTTTAAAATTATATATTTA
1 ATTTTAAAATTATATATTTA
22712 ATTTTAAA
1 ATTTTAAA
22720 TAATATTGTA
Statistics
Matches: 53, Mismatches: 2, Indels: 21
0.70 0.03 0.28
Matches are distributed among these distances:
14 7 0.13
15 3 0.06
16 3 0.06
18 2 0.04
19 1 0.02
20 21 0.40
21 1 0.02
22 8 0.15
23 7 0.13
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTTTAAAATTATATATTTA
Found at i:22823 original size:16 final size:17
Alignment explanation
Indices: 22802--22844 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 17
22792 AATTAAATAG
22802 ATAATTTAA-AAATAAT
1 ATAATTTAAGAAATAAT
22818 ATAATTTCAAGTAAATAAT
1 ATAATTT-AAG-AAATAAT
22837 -TAATTTAA
1 ATAATTTAA
22845 TTTTAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 7 0.29
17 4 0.17
18 6 0.25
19 7 0.29
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (17 bp):
ATAATTTAAGAAATAAT
Found at i:22862 original size:22 final size:23
Alignment explanation
Indices: 22811--22864 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
22801 GATAATTTAA
* *
22811 AAATAATATAATTTCAAGTAAAT
1 AAATAATTTAATTTCAAGAAAAT
* *
22834 AATTAATTTAATTTTAA-AAAAT
1 AAATAATTTAATTTCAAGAAAAT
22856 AAATAATTT
1 AAATAATTT
22865 TTTATAATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 12 0.46
23 14 0.54
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (23 bp):
AAATAATTTAATTTCAAGAAAAT
Found at i:24704 original size:2 final size:2
Alignment explanation
Indices: 24692--24730 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
24682 TCTTAATTTG
*
24692 TA TA TA AA 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 TA T
24731 TTGTATTTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:26242 original size:2 final size:2
Alignment explanation
Indices: 26235--26265 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
26225 GAAACATTTA
26235 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 A
26266 CACACGACGA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27592 original size:14 final size:14
Alignment explanation
Indices: 27575--27613 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
27565 TAAAAGTATG
27575 AATGCAAAATGAAA
1 AATGCAAAATGAAA
*
27589 AATGCAAAGATGCAA
1 AATGCAAA-ATGAAA
27604 AATG-AAAATG
1 AATGCAAAATG
27614 CATATATGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 3 0.13
14 11 0.48
15 9 0.39
ACGTcount: A:0.59, C:0.08, G:0.18, T:0.15
Consensus pattern (14 bp):
AATGCAAAATGAAA
Found at i:29667 original size:14 final size:14
Alignment explanation
Indices: 29644--29691 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
29634 ATACTTGAAT
29644 AAAATAAATAAATAA
1 AAAAT-AATAAATAA
29659 AAAATAATAAA-AA
1 AAAATAATAAATAA
29672 AATAATAAGT-AATAA
1 AA-AATAA-TAAATAA
29687 AAAAT
1 AAAAT
29692 TTGAAAGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 4 0.13
14 16 0.53
15 10 0.33
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (14 bp):
AAAATAATAAATAA
Found at i:29669 original size:18 final size:17
Alignment explanation
Indices: 29646--29691 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
29636 ACTTGAATAA
29646 AATAAATAAATAAAAAAT
1 AATAAA-AAATAAAAAAT
* *
29664 AATAAAAAAATAATAAGT
1 AAT-AAAAAATAAAAAAT
29682 AATAAAAAAT
1 AATAAAAAAT
29692 TTGAAAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 7 0.28
18 15 0.60
19 3 0.12
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (17 bp):
AATAAAAAATAAAAAAT
Found at i:30155 original size:17 final size:15
Alignment explanation
Indices: 30135--30170 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 15
30125 TTCAAAGATA
30135 TATTTAATTTATAATT
1 TATTTAATTTA-AATT
30151 CTATTTAATTTAAATT
1 -TATTTAATTTAAATT
30167 TATT
1 TATT
30171 ACTATAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.21
16 4 0.21
17 11 0.58
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTTAATTTAAATT
Found at i:30423 original size:14 final size:15
Alignment explanation
Indices: 30393--30425 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
30383 AATAGAATAA
30393 ATAAATAAATATTAT
1 ATAAATAAATATTAT
*
30408 ATAAATATAT-TTAT
1 ATAAATAAATATTAT
30422 ATAA
1 ATAA
30426 CTTAATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAAATAAATATTAT
Found at i:30524 original size:22 final size:19
Alignment explanation
Indices: 30482--30525 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
30472 ATATCAAACG
*
30482 TAATAATAAAATAAAATAT
1 TAATAATAAAATAAAAAAT
30501 TAATAATTAAAATGAAAGAAAT
1 TAATAA-TAAAAT-AAA-AAAT
30523 TAA
1 TAA
30526 AAGTAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 6 0.29
20 6 0.29
21 3 0.14
22 6 0.29
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.30
Consensus pattern (19 bp):
TAATAATAAAATAAAAAAT
Found at i:31900 original size:25 final size:25
Alignment explanation
Indices: 31834--31903 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 25
31824 CCTGTTTGTA
*
31834 AATAATAATTATTTAATAATAATAT
1 AATAATAATAATTTAATAATAATAT
* *
31859 AAT-ATATATAATATAATAAT-ATTT
1 AATAATA-ATAATTTAATAATAATAT
31883 AATAATAATAATTTTAATAAT
1 AATAATAATAA-TTTAATAAT
31904 TTAAGTAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
24 13 0.34
25 25 0.66
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
AATAATAATAATTTAATAATAATAT
Found at i:34694 original size:59 final size:59
Alignment explanation
Indices: 34564--34842 Score: 312
Period size: 59 Copynumber: 4.7 Consensus size: 59
34554 TTTCATTCAT
* * *
34564 CATCTAGTAACACAATTCAGGTATAATTCACCCAGATTATAAAA-ATATGACTGAATTGGA
1 CATCTAGTAACACAATTCAGGTATAATTCACTCGGATTACAAAATATA-G-CTGAATTGGA
* * * * * * *
34624 CATCTAATAACATAATTCTGGTATAGTTCACTCGAATTACAAAATATAGTTGAAATGGA
1 CATCTAGTAACACAATTCAGGTATAATTCACTCGGATTACAAAATATAGCTGAATTGGA
* * * * *
34683 CATCTGGTAACACAATTCAAGTATAACTCACTCGGATTACAAAGTACAGCTGAATTGGA
1 CATCTAGTAACACAATTCAGGTATAATTCACTCGGATTACAAAATATAGCTGAATTGGA
* * *
34742 CATCTAGTAACACGATTCAGATATAATTCACTAGGATTACAAAATAT-GACTGAATTGGA
1 CATCTAGTAACACAATTCAGGTATAATTCACTCGGATTACAAAATATAG-CTGAATTGGA
* * *
34801 CATCTAAT-ACTACAATTCAGGTAAAATTCACTGGGATTACAA
1 CATCTAGTAAC-ACAATTCAGGTATAATTCACTCGGATTACAA
34843 TATGTTACTT
Statistics
Matches: 181, Mismatches: 35, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
58 3 0.02
59 138 0.76
60 37 0.20
61 3 0.02
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (59 bp):
CATCTAGTAACACAATTCAGGTATAATTCACTCGGATTACAAAATATAGCTGAATTGGA
Found at i:39687 original size:20 final size:20
Alignment explanation
Indices: 39647--39687 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
39637 TTTGATCATG
*
39647 ATATTTCAATATGCATGTAT
1 ATATTTCAATATGCATATAT
39667 ATATTTC-ATATGACATATAT
1 ATATTTCAATATG-CATATAT
39687 A
1 A
39688 ACCAAGTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (20 bp):
ATATTTCAATATGCATATAT
Found at i:39930 original size:15 final size:15
Alignment explanation
Indices: 39906--39941 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
39896 CCGTAGGACC
*
39906 ACTACGTCCCGAAGG
1 ACTACATCCCGAAGG
39921 ACTACATCCCGAAGG
1 ACTACATCCCGAAGG
39936 ACTACA
1 ACTACA
39942 ATACCCTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.33, C:0.33, G:0.19, T:0.14
Consensus pattern (15 bp):
ACTACATCCCGAAGG
Found at i:40578 original size:22 final size:21
Alignment explanation
Indices: 40547--40587 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
40537 TTTTTCATTT
40547 AGGGGGAATCGATACTCCCCCC
1 AGGGGGAATCGATAC-CCCCCC
*
40569 AGGGGTAATCGATACCCCC
1 AGGGGGAATCGATACCCCC
40588 TGAACATACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.24, C:0.34, G:0.27, T:0.15
Consensus pattern (21 bp):
AGGGGGAATCGATACCCCCCC
Found at i:45327 original size:20 final size:20
Alignment explanation
Indices: 45287--45327 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
45277 TTTGATCATG
*
45287 ATATTTCAATATGCATGTAT
1 ATATTTCAATATGCATATAT
45307 ATATTTC-ATATGACATATAT
1 ATATTTCAATATG-CATATAT
45327 A
1 A
45328 ACCAAGTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (20 bp):
ATATTTCAATATGCATATAT
Found at i:45565 original size:15 final size:15
Alignment explanation
Indices: 45545--45578 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
45535 CCGTAGGACC
*
45545 ACTACATCCCGAATG
1 ACTACATCCCGAAGG
*
45560 ACTACATCTCGAAGG
1 ACTACATCCCGAAGG
45575 ACTA
1 ACTA
45579 TAATACCCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.29, G:0.15, T:0.21
Consensus pattern (15 bp):
ACTACATCCCGAAGG
Found at i:46212 original size:22 final size:21
Alignment explanation
Indices: 46184--46224 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
46174 TTTTTCATTT
46184 AGGGGGAATCAATACTCCCCCC
1 AGGGGGAATCAATAC-CCCCCC
*
46206 AGGGGGAATCGATACCCCC
1 AGGGGGAATCAATACCCCC
46225 TGAACATACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.27, C:0.34, G:0.27, T:0.12
Consensus pattern (21 bp):
AGGGGGAATCAATACCCCCCC
Found at i:53925 original size:21 final size:22
Alignment explanation
Indices: 53892--53934 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
53882 ATATACAATA
53892 ATTTATATGATATAAAATTAAAT
1 ATTTATA-GATATAAAATTAAAT
*
53915 ATTTATA-ATATAATATTAAA
1 ATTTATAGATATAAAATTAAA
53935 AAATTAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 12 0.63
23 7 0.37
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
ATTTATAGATATAAAATTAAAT
Found at i:53980 original size:64 final size:64
Alignment explanation
Indices: 53904--54034 Score: 210
Period size: 64 Copynumber: 2.0 Consensus size: 64
53894 TTATATGATA
* **
53904 TAAAATTAAATATTTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATTAATAT
1 TAAAATTAAATATCTATAATATAATATTAAAAAATTAATATTTAATTT-TAAAAAAAATTAATAT
*
53969 TAAAATT-AATATCTATAATATAATATTAAAAAATTAATATTTTATTTTAAAAAAAATTAATAT
1 TAAAATTAAATATCTATAATATAATATTAAAAAATTAATATTTAATTTTAAAAAAAATTAATAT
54032 TAA
1 TAA
54035 TATCTATAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
63 17 0.27
64 38 0.61
65 7 0.11
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.44
Consensus pattern (64 bp):
TAAAATTAAATATCTATAATATAATATTAAAAAATTAATATTTAATTTTAAAAAAAATTAATAT
Found at i:53993 original size:26 final size:26
Alignment explanation
Indices: 53967--54053 Score: 77
Period size: 28 Copynumber: 3.2 Consensus size: 26
53957 AAAAATTAAT
*
53967 ATTAAAATTAATATCTATAATATAAT
1 ATTAAAATTAATATCTATAATATAAA
* *
53993 ATTAAAAAATTAATATTTTATTTTAA-AAAAA
1 ATT--AAAATTAATA-TCTA---TAATATAAA
*
54024 ATTAATATTAATATCTATAATATAAA
1 ATTAAAATTAATATCTATAATATAAA
54050 ATTA
1 ATTA
54054 GATATAAAAC
Statistics
Matches: 48, Mismatches: 6, Indels: 14
0.71 0.09 0.21
Matches are distributed among these distances:
25 3 0.06
26 11 0.23
28 13 0.27
29 12 0.25
31 6 0.12
32 3 0.06
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (26 bp):
ATTAAAATTAATATCTATAATATAAA
Found at i:54004 original size:40 final size:37
Alignment explanation
Indices: 53925--54009 Score: 109
Period size: 40 Copynumber: 2.2 Consensus size: 37
53915 ATTTATAATA
*
53925 TAATATTAAAAAATTAATATTTAATTTATTTAAAAAAT
1 TAATATT-AAAAATTAATATTTAATTAATTTAAAAAAT
53963 TAATATT-AAAATTAATATCTATAATATAATATTAAAAAAT
1 TAATATTAAAAATTAATAT-T-TAAT-TAAT-TTAAAAAAT
54003 TAATATT
1 TAATATT
54010 TTATTTTAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
36 11 0.26
37 1 0.02
38 11 0.26
39 3 0.07
40 16 0.38
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (37 bp):
TAATATTAAAAATTAATATTTAATTAATTTAAAAAAT
Found at i:54034 original size:57 final size:61
Alignment explanation
Indices: 53904--54053 Score: 200
Period size: 64 Copynumber: 2.5 Consensus size: 61
53894 TTATATGATA
*
53904 TAAAATTAAATATTTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATTAATAT
1 TAAAATT-AATATCTATAATATAATATTAAAAAATTAATA-TT-ATTTATTTAAAAAA-TAATAT
*
53969 TAAAATTAATATCTATAATATAATATTAAAAAATTAATA-T-TTTATTTTAAAAA-AA-AT
1 TAAAATTAATATCTATAATATAATATTAAAAAATTAATATTATTTATTTAAAAAATAATAT
* *
54026 TAATATTAATATCTATAATATAAAATTA
1 TAAAATTAATATCTATAATATAATATTA
54054 GATATAAAAC
Statistics
Matches: 81, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
57 28 0.35
58 2 0.02
60 12 0.15
62 1 0.01
64 31 0.38
65 7 0.09
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (61 bp):
TAAAATTAATATCTATAATATAATATTAAAAAATTAATATTATTTATTTAAAAAATAATAT
Found at i:54885 original size:23 final size:23
Alignment explanation
Indices: 54859--54906 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
54849 ATAAAGTACA
*
54859 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
54882 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
54905 AT
1 AT
54907 TGACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:55405 original size:23 final size:23
Alignment explanation
Indices: 55377--55449 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 23
55367 ATACTTTACA
* *
55377 ATATAAGCACTACCTATTGCATT
1 ATATAAGCGCTACCTATTACATT
* * *
55400 GTATAAACGCTACATATTACATT
1 ATATAAGCGCTACCTATTACATT
* *
55423 ATATAAGTGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
55446 ATAT
1 ATAT
55450 TTTTACCTAT
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.37, C:0.19, G:0.08, T:0.36
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:55891 original size:20 final size:21
Alignment explanation
Indices: 55866--55935 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 21
55856 ATATTTTACA
55866 ATATAAGC-A-CTAATTACATT
1 ATATAAGCTATCT-ATTACATT
55886 ATATAAACGCTATCTATTACATT
1 ATAT-AA-GCTATCTATTACATT
* *
55909 ATATAAGCGCTACCTATTACATC
1 ATATAA--GCTATCTATTACATT
55932 ATAT
1 ATAT
55936 TTTTACCTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.09
21 2 0.05
22 4 0.09
23 31 0.72
24 2 0.05
ACGTcount: A:0.40, C:0.19, G:0.06, T:0.36
Consensus pattern (21 bp):
ATATAAGCTATCTATTACATT
Found at i:55906 original size:23 final size:23
Alignment explanation
Indices: 55878--55935 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
55868 ATAAGCACTA
*
55878 ATTACATTATATAAACGCTATCT
1 ATTACATTATATAAACGCTACCT
*
55901 ATTACATTATATAAGCGCTACCT
1 ATTACATTATATAAACGCTACCT
*
55924 ATTACATCATAT
1 ATTACATTATAT
55936 TTTTACCTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (23 bp):
ATTACATTATATAAACGCTACCT
Found at i:56384 original size:23 final size:23
Alignment explanation
Indices: 56349--56421 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
56339 ATACTTTACA
*
56349 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
56372 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
56395 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
56418 ATAT
1 ATAT
56422 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:56696 original size:489 final size:489
Alignment explanation
Indices: 54980--56764 Score: 3155
Period size: 489 Copynumber: 3.7 Consensus size: 489
54970 TTATAATATG
* *
54980 TTGAAAGTGTCTATACTTTTTTATAAAAAAGATCGATACTTTTTTTAAAGTTATGTAATTTAT-T
1 TTGAAAGTGTCCATAC-TTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGT
* *
55044 TTCAA-TTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGTA
65 TTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
55108 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
130 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
*
55173 TAACCAAAGATAATAATAAATATGT-A-ATATATGTTTATTGTTTTTAATTTAATGAT-A-ATAT
195 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
** * *
55234 ACCGTAACATAAAAAATAAATCATTAGATACATATAATTACTAAATTGATATCTTAAAACTCACT
260 ACCGTAACATAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
* *
55299 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAATAAGTATAGACACTTTTATAAAAATGA
325 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAATGA
* * *
55364 TAGATACTTTACAATATAAGCACTACCTATTGCATTGTATAAACGCTACATATTACATTATATAA
390 TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAA
*
55429 GTGCTACCTATTACATCATATTTTTACCTATTATA
455 GCGCTACCTATTACATCATATTTTTACCTATTATA
*
55464 TTGAAAGTGTCCATACTTTTTAT-AAAAGGATCGATACTTTTTTTAAAATTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
*
55528 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTTATTTGCA
66 TCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
55593 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
130 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
55658 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
195 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
* *
55723 ATCATAACATAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
260 ACCGTAACATAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
*
55788 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
325 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAATGA
* *
55853 TAGATATTTTACAATATAAGCACTA---ATTACATTATATAAACGCTATCTATTACATTATATAA
390 TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAA
55915 GCGCTACCTATTACATCATATTTTTACCTATTATA
455 GCGCTACCTATTACATCATATTTTTACCTATTATA
55950 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
56015 TCAATTTTTTTAATAGTGTTTCA--TTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
56078 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATT
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATT
56143 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
196 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
* * *
56208 TCGTAACGTAAAAAATAAATCATTAGACGGCTATAATTACTAAATTAATATCTTAAAACTCACTC
261 CCGTAACATAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
*
56273 AAAAGATAACCTTAAATTAATG-TTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAATGAT
326 AAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAATGAT
56337 AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
391 AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
56402 CGCTACCTATTACATCATATTTTTACCTATTATA
456 CGCTACCTATTACATCATATTTTTACCTATTATA
*
56436 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTATTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
*
56501 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
* * *
56566 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTAAAATTTAACAATAT
130 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
*
56631 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATATAATAATAATATAT
195 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
*
56696 ACCGTAACATAAAAAATAAATCATTAGATGCCTATAATTACTAAATTAATATCTTAAAACTCACT
260 ACCGTAACATAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
56761 CAAA
325 CAAA
56765 TGATGTACAT
Statistics
Matches: 1246, Mismatches: 41, Indels: 23
0.95 0.03 0.02
Matches are distributed among these distances:
482 36 0.03
483 76 0.06
484 268 0.22
485 146 0.12
486 249 0.20
487 92 0.07
488 1 0.00
489 378 0.30
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (489 bp):
TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATT
AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
CCGTAACATAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
AAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAATGAT
AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
CGCTACCTATTACATCATATTTTTACCTATTATA
Found at i:56796 original size:25 final size:25
Alignment explanation
Indices: 56768--56859 Score: 100
Period size: 25 Copynumber: 3.8 Consensus size: 25
56758 ACTCAAATGA
56768 TGTACATACCTAAATATGTAGTTAT
1 TGTACATACCTAAATATGTAGTTAT
* *
56793 TGTACATACCTAAAT-T-TAATGAT
1 TGTACATACCTAAATATGTAGTTAT
** * * *
56816 AATATATA-CTATATTTGTAGTTAT
1 TGTACATACCTAAATATGTAGTTAT
56840 TGTACATACCTAAATATGTA
1 TGTACATACCTAAATATGTA
56860 CTGCGAATTT
Statistics
Matches: 51, Mismatches: 13, Indels: 6
0.73 0.19 0.09
Matches are distributed among these distances:
22 5 0.10
23 11 0.22
24 11 0.22
25 24 0.47
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.41
Consensus pattern (25 bp):
TGTACATACCTAAATATGTAGTTAT
Found at i:59577 original size:183 final size:183
Alignment explanation
Indices: 59269--61851 Score: 4594
Period size: 183 Copynumber: 14.1 Consensus size: 183
59259 TAAAATTACT
*
59269 GACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTA
1 GACACAATATTAAAAAGTGTCGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTA
* *
59334 TACCGGTTATATTACAAAATTATCTATTACATTATAATTATAGGTTCCGATGTGTAAATGTAGAC
66 TACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGAC
59399 ACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACC
131 ACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACC
* *
59452 GACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAATCGGTATATTTA
1 GACACAATATTAAAAAGTGTCGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTA
* *
59517 TACCGGTTATATTATAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGAC
66 TACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGAC
* *
59582 ACTTTTTGACAAGGTATAGACACATTTTTCTTCTAATCTGGACATAAAGTACC
131 ACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACC
* *
59635 GACAAAATATTAAAAAGTGTCGGTATAGGTTGTAGACCTATTCGCTCATAAAACTGGTATATTTA
1 GACACAATATTAAAAAGTGTCGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTA
*
59700 TACTGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGAC
66 TACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGAC
*
59765 ACTCTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACC
131 ACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACC
59818 GACACAATATTAAAAAGTGTCGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTA
1 GACACAATATTAAAAAGTGTCGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTA
*
59883 TACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGAC
66 TACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGAC
59948 ACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACC
131 ACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACC
60001 GACACAATATTAAAAAGTGTCGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTA
1 GACACAATATTAAAAAGTGTCGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTA
60066 TACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGAC
66 TACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGAC
* *
60131 ACTTTTTGACAAGGTATCGACATATTTTTCTTCCAATTTGGACATAAAGTACC
131 ACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACC
60184 GACACAATATTAAAAAGTGTCGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTA
1 GACACAATATTAAAAAGTGTCGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTA
*
60249 TACCGGTTATATTATAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGAC
66 TACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGAC
60314 ACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACC
131 ACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACC
60367 GACACAATATTAAAAAGTGTCGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTA
1 GACACAATATTAAAAAGTGTCGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTA
*
60432 TACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGAC
66 TACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGAC
60497 ACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACC
131 ACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACC
* * * * *
60550 GACACAATATTAAAAAGTGTTGATATAGGTTGTAGACCTATTCTCTCATAAAATCGATATATTTA
1 GACACAATATTAAAAAGTGTCGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTA
* *
60615 TACCGGTTATATTATAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGAC
66 TACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGAC
* *
60680 ACTTTTTGACAAGGTATAGACACATTTTTCTTCTAATCTGGACATAAAGTACC
131 ACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACC
* *
60733 GACAAAATATTAAAAAGTGTCGGTATAGGTTGTAGACCTATTCGCTCATAAAACTGGTATATTTA
1 GACACAATATTAAAAAGTGTCGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTA
*
60798 TACTGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGAC
66 TACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGAC
*
60863 ACTCTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACC
131 ACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACC
*
60916 GACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTA
1 GACACAATATTAAAAAGTGTCGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTA
* *
60981 TACCGGTTATATTACAAAATTATCTATTACATTATAATTATAGGTTCCGATGTGTAAATGTAGAC
66 TACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGAC
61046 ACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACC
131 ACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACC
* *
61099 GACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAATCGGTATATTTA
1 GACACAATATTAAAAAGTGTCGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTA
* *
61164 TACCGGTTATATTATAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGAC
66 TACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGAC
* *
61229 ACTTTTTGACAAGGTATAGACACATTTTTCTTCTAATCTGGACATAAAGTACC
131 ACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACC
* * *
61282 GACAAAATATTAAAAAGTGTCGGTATAGGTTGTAGACCTATTCACTCATAAAACTGGTATATTTA
1 GACACAATATTAAAAAGTGTCGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTA
*
61347 TACTGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGAC
66 TACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGAC
*
61412 ACTCTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACC
131 ACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACC
61465 GACACAATATTAAAAAGTGTCGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTA
1 GACACAATATTAAAAAGTGTCGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTA
*
61530 TACCGGTTATATTACAAAATTATCTATTACATTA-AATTCTGGGTTCCGATGTGTAAATGTCGAC
66 TACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGAC
61594 ACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACC
131 ACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACC
* * **
61647 GACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAATCAATATATTTA
1 GACACAATATTAAAAAGTGTCGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTA
* * *** *
61712 TACCGGTTATATTACAAAATTATCTATTACATTATAATTTTGGGTTCCGATGTTTTTTTCAATCG
66 TACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAT--GTCG
* **
61777 ACACTTTTTGA-AATGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTAGA
129 ACACTTTTTGACAA-GGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACC
61832 GACACAATATTAAAAAGTGT
1 GACACAATATTAAAAAGTGT
61852 GAAAACTTTG
Statistics
Matches: 2301, Mismatches: 95, Indels: 6
0.96 0.04 0.00
Matches are distributed among these distances:
182 176 0.08
183 2051 0.89
184 2 0.00
185 72 0.03
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.35
Consensus pattern (183 bp):
GACACAATATTAAAAAGTGTCGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTA
TACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGAC
ACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACC
Found at i:63068 original size:3 final size:3
Alignment explanation
Indices: 63060--63128 Score: 102
Period size: 3 Copynumber: 23.0 Consensus size: 3
63050 CTTGTTTGGG
* *
63060 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCG TCA TCT
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
* *
63108 TCA TCG TCA TCT TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA
63129 GCTTCATCTT
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (3 bp):
TCA
Found at i:64971 original size:21 final size:21
Alignment explanation
Indices: 64946--65000 Score: 110
Period size: 21 Copynumber: 2.6 Consensus size: 21
64936 GATGTTTATG
64946 GGATCGACACTTTTTATATAT
1 GGATCGACACTTTTTATATAT
64967 GGATCGACACTTTTTATATAT
1 GGATCGACACTTTTTATATAT
64988 GGATCGACACTTT
1 GGATCGACACTTT
65001 ATGGTTGCAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (21 bp):
GGATCGACACTTTTTATATAT
Found at i:65048 original size:200 final size:196
Alignment explanation
Indices: 64638--65807 Score: 1337
Period size: 200 Copynumber: 5.8 Consensus size: 196
64628 AACATTAAAC
* * * *
64638 AGTGTCGATACA-TATTATATACCAATTCTCTCATAAAACCGGAATACTTGTACCGGTTAGATTG
1 AGTGTCGACACATTATT-TAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTG
* *
64702 AAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATAT
65 AAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATAT
* *
64767 GGATCGACACTTTATGGTTG-CAGCCTGTTTGCCATTCATTCTG--GACCAAAAATATTGACACA
130 GGATCGACACTTTATGGTTGACA--CT-TTTG--ATTCATCCTGTTGACCAAAAATATCGACAC-
64829 AACTACAAA
189 -ACTACAAA
64838 AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
1 AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
64903 AAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
66 AAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
* * *
64968 GATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCAGCCTGTTTGCCATTCATTCTGGA
131 GATCGACAC----T-T-TATGG-TTGACACTTT-TGATT-CA-------T-CC--T--GT-T-GA
*
65033 CCAAAAATATCGACACA-AACAACA
173 CCAAAAATATCGACACACTACAA-A
** * * ** * *
65057 AAAGT-GTCGACA-CATTATTTAGAC-CTAT-TCTCTCATAAAACCGGTATACTTGTACCGGTTA
1 AGTGTCGAC-ACATTATT-TAGA-CCTAT-TCTCT--CATAAAACCGGTATACTTGTACCGGTTA
65118 GATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTA
60 GATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTA
* * * *
65183 TATATGGATCAACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTG--GACCAAAAATATCGA
125 TATATGGATCGACACTTTATGGTTG-ACAC--TTTT-GATTCATCCTGTTGACCAAAAATATCGA
65246 CACAAACTACAAA
186 CAC--ACTACAAA
65259 AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
1 AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
*
65324 AAAAATACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
66 AAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
* * * *
65389 GATCGACACTTTATGGTTGCACCCTATTTTCCAATCATTCTG--GACCAAAAATATCGACACAAA
131 GATCGACACTTTATGGTTG-ACAC--TTTT-GATTCATCCTGTTGACCAAAAATATCGACAC--A
65452 CTACAAA
190 CTACAAA
*
65459 AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTGTACTTGTACCGGTTAGATTGA
1 AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
* *
65524 AAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTATGGGATCGATACTTTTTATATATG
66 AAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
* * * *
65589 GATTGACA-TTGTATGGTTGCACCCTGTTTGCCATTCATTCTG--GACCAGAAATATCGACACAA
131 GATCGACACTT-TATGGTTG-ACACT-TTTG--ATTCATCCTGTTGACCAAAAATATCGACAC--
65651 ACTACAAA
189 ACTACAAA
* * * *
65659 AGTGTTGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACTGATTAGATTGA
1 AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
*
65724 AAAATTACCTATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
66 AAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
*
65789 GATCGACACTTTATTGTTG
131 GATCGACACTTTATGGTTG
65808 CACCCTGTTT
Statistics
Matches: 862, Mismatches: 58, Indels: 100
0.85 0.06 0.10
Matches are distributed among these distances:
198 1 0.00
199 5 0.01
200 629 0.73
201 8 0.01
202 14 0.02
203 9 0.01
204 3 0.00
205 5 0.01
206 10 0.01
207 2 0.00
208 3 0.00
209 1 0.00
212 1 0.00
213 1 0.00
214 2 0.00
215 9 0.01
216 4 0.00
217 6 0.01
218 9 0.01
219 14 0.02
220 2 0.00
221 124 0.14
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (196 bp):
AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
AAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
GATCGACACTTTATGGTTGACACTTTTGATTCATCCTGTTGACCAAAAATATCGACACACTACAA
A
Found at i:65129 original size:221 final size:221
Alignment explanation
Indices: 64746--65200 Score: 883
Period size: 221 Copynumber: 2.1 Consensus size: 221
64736 GATGTTTATG
64746 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCAGCCTGTTTGCCATTCATTCTGG
1 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCAGCCTGTTTGCCATTCATTCTGG
* *
64811 ACCAAAAATATTGACACAAACTACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAA
66 ACCAAAAATATCGACACAAACAACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAA
64876 CCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGT
131 CCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGT
64941 TTATGGGATCGACACTTTTTATATAT
196 TTATGGGATCGACACTTTTTATATAT
64967 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCAGCCTGTTTGCCATTCATTCTGG
1 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCAGCCTGTTTGCCATTCATTCTGG
65032 ACCAAAAATATCGACACAAACAACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAA
66 ACCAAAAATATCGACACAAACAACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAA
65097 CCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGT
131 CCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGT
65162 TTATGGGATCGACACTTTTTATATAT
196 TTATGGGATCGACACTTTTTATATAT
*
65188 GGATCAACACTTT
1 GGATCGACACTTT
65201 ATGGTTGCAC
Statistics
Matches: 231, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
221 231 1.00
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.36
Consensus pattern (221 bp):
GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCAGCCTGTTTGCCATTCATTCTGG
ACCAAAAATATCGACACAAACAACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAA
CCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGT
TTATGGGATCGACACTTTTTATATAT
Found at i:65509 original size:400 final size:400
Alignment explanation
Indices: 64619--65821 Score: 1899
Period size: 400 Copynumber: 3.0 Consensus size: 400
64609 TTTAAATTAG
** * * * *
64619 TATCGACA-AAACATTAAACAGTGTCGATACA-TATTATATACCAATTCTCTCATAAAACCGGAA
1 TATCGACACAAACAACAAA-AGTGTCGACACATTATT-TAGACCTATTCTCTCATAAAACCGGTA
* *
64682 TACTTGTACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGG
64 TACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGG
*
64747 GATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCAGCCTGTTTGCCATTCATTCTGGA
129 GATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGA
*
64812 CCAAAAATATTGACACAAACTACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAAC
194 CCAAAAATATCGACACAAACTACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAAC
64877 CGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTT
259 CGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATG-T
64942 TATGGGATCGACACTTTTTATATATGGATCGACACTTTTTATATATGGATCGACACTTTATGGTT
323 T-T---AT-G---------------GGATCGACACTTTTTATATATGGATCGACACTTTATGGTT
* * *
65007 GCAGCCTGTTTGCCATTCATTCTGGACCAAAAA
368 GCACCCTATTTGCCAATCATTCTGGACCAAAAA
65040 TATCGACACAAACAACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACAACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATA
65105 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGA
* *
65170 TCGACACTTTTTATATATGGATCAACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACC
65235 AAAAATATCGACACAAACTACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCG
196 AAAAATATCGACACAAACTACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCG
*
65300 GTATACTTGTACCGGTTAGATTGAAAAAATACATATTACATTATACTTTTGGGTTTCGATGTTTA
261 GTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTA
*
65365 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTATTTTCCAATCATTCT
326 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTATTTGCCAATCATTCT
65430 GGACCAAAAA
391 GGACCAAAAA
* *
65440 TATCGACACAAACTACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTGTA
1 TATCGACACAAACAACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATA
*
65505 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTATGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGA
* *
65570 TCGATACTTTTTATATATGGATTGACA-TTGTATGGTTGCACCCTGTTTGCCATTCATTCTGGAC
131 TCGACACTTTTTATATATGGATCGACACTT-TATGGTTGCACCCTGTTTGCCATTCATTCTGGAC
* * *
65634 CAGAAATATCGACACAAACTACAAAAGTGTTGATACATTATTTAGACCTATTCTCTCATAAAACC
195 CAAAAATATCGACACAAACTACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACC
* * *
65699 GGTATACTTGTACTGATTAGATTGAAAAATTACCTATTACATTATACTTTTGGGTTTCGATGTTT
260 GGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTT
* *
65764 ATGGGATCGACACTTTTTATATATGGATCGACACTTTATTGTTGCACCCTGTTTGCCA
325 ATGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTATTTGCCA
65822 TATTGTAAAT
Statistics
Matches: 745, Mismatches: 34, Indels: 27
0.92 0.04 0.03
Matches are distributed among these distances:
399 2 0.00
400 431 0.58
415 1 0.00
416 2 0.00
419 1 0.00
420 2 0.00
421 294 0.39
422 12 0.02
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (400 bp):
TATCGACACAAACAACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGA
TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACC
AAAAATATCGACACAAACTACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCG
GTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTA
TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTATTTGCCAATCATTCT
GGACCAAAAA
Found at i:65810 original size:200 final size:200
Alignment explanation
Indices: 64967--65822 Score: 1525
Period size: 200 Copynumber: 4.3 Consensus size: 200
64957 TTTTATATAT
*
64967 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCAGCCTGTTTGCCATTCATTCTGG
1 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGG
*
65032 ACCAAAAATATCGACACAAACAACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAA
66 ACCAAAAATATCGACACAAACTACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAA
65097 CCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGT
131 CCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGT
65162 TTATG
196 TTATG
* *
65167 GGATCGACACTTTTTATATATGGATCAACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGG
1 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGG
65232 ACCAAAAATATCGACACAAACTACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAA
66 ACCAAAAATATCGACACAAACTACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAA
*
65297 CCGGTATACTTGTACCGGTTAGATTGAAAAAATACATATTACATTATACTTTTGGGTTTCGATGT
131 CCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGT
65362 TTATG
196 TTATG
* * *
65367 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTATTTTCCAATCATTCTGG
1 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGG
65432 ACCAAAAATATCGACACAAACTACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAA
66 ACCAAAAATATCGACACAAACTACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAA
* *
65497 CCGGTGTACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGT
131 CCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGT
65562 TTATG
196 TTATG
* *
65567 GGATCGATACTTTTTATATATGGATTGACA-TTGTATGGTTGCACCCTGTTTGCCATTCATTCTG
1 GGATCGACACTTTTTATATATGGATCGACACTT-TATGGTTGCACCCTGTTTGCCATTCATTCTG
* * *
65631 GACCAGAAATATCGACACAAACTACAAAAGTGTTGATACATTATTTAGACCTATTCTCTCATAAA
65 GACCAAAAATATCGACACAAACTACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAA
* * *
65696 ACCGGTATACTTGTACTGATTAGATTGAAAAATTACCTATTACATTATACTTTTGGGTTTCGATG
130 ACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATG
65761 TTTATG
195 TTTATG
*
65767 GGATCGACACTTTTTATATATGGATCGACACTTTATTGTTGCACCCTGTTTGCCAT
1 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCAT
65823 ATTGTAAATT
Statistics
Matches: 627, Mismatches: 27, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
199 2 0.00
200 623 0.99
201 2 0.00
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.36
Consensus pattern (200 bp):
GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGG
ACCAAAAATATCGACACAAACTACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAA
CCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGT
TTATG
Found at i:65946 original size:18 final size:18
Alignment explanation
Indices: 65923--65983 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
65913 TCTCATTCAT
*
65923 AATTATATTCACATACAA
1 AATTATAATCACATACAA
**
65941 AATTATAAATCGTATACAA
1 AATTAT-AATCACATACAA
**
65960 AATTATAAATCTTATACAA
1 AATTAT-AATCACATACAA
65979 AATTA
1 AATTA
65984 ACCCTACATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
18 6 0.16
19 32 0.84
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (18 bp):
AATTATAATCACATACAA
Found at i:65959 original size:19 final size:19
Alignment explanation
Indices: 65935--65983 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
65925 TTATATTCAC
65935 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
65954 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
65973 ATACAAAATTA
1 ATACAAAATTA
65984 ACCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:67888 original size:21 final size:21
Alignment explanation
Indices: 67863--67927 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
67853 CCCCTTATGC
* *
67863 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
67884 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
67905 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
67926 CT
1 CT
67928 TGATTGTCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.17, C:0.31, G:0.11, T:0.42
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:70459 original size:181 final size:182
Alignment explanation
Indices: 70121--70594 Score: 698
Period size: 182 Copynumber: 2.6 Consensus size: 182
70111 CGTACTTACG
* * *
70121 AAAGTATCGACACTTTCAATATATCCGGTATCATTTTACCGATTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* ** *
70186 TATCATATTTTTTACCTGTTATATCGTTGTGGATCGATATTTTTTTTTAAAGTATCGACACATTA
66 TATCATA-TTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTA
* *
70251 TAGGCGCTAAAACTGTTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
130 TAGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* *
70303 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTTATCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
70368 TATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
** *
70433 AGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * * * **
70485 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTTACCGGTTTTATCATTTCAATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
70550 TGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
70595 AATTTGGATC
Statistics
Matches: 262, Mismatches: 29, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
181 97 0.37
182 165 0.63
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (182 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
Found at i:82198 original size:27 final size:27
Alignment explanation
Indices: 82168--82220 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
82158 TCTTTGTCAT
*
82168 CTTCTTCACCATCTTTGTCTTCCTTTC
1 CTTCTTCACCATCTTTCTCTTCCTTTC
* *
82195 CTTCTTCGCCTTCTTTCTCTTCCTTT
1 CTTCTTCACCATCTTTCTCTTCCTTT
82221 TCTACTACGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.04, C:0.38, G:0.04, T:0.55
Consensus pattern (27 bp):
CTTCTTCACCATCTTTCTCTTCCTTTC
Found at i:82234 original size:27 final size:27
Alignment explanation
Indices: 82179--82235 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
82169 TTCTTCACCA
* * *
82179 TCTTTGTCTTCCTTTCCTTCTTCGCCT
1 TCTTTCTCTTCCTTTCCTACTACGCCT
* *
82206 TCTTTCTCTTCCTTTTCTACTACGTCT
1 TCTTTCTCTTCCTTTCCTACTACGCCT
82233 TCT
1 TCT
82236 CCACCTTCTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.04, C:0.35, G:0.05, T:0.56
Consensus pattern (27 bp):
TCTTTCTCTTCCTTTCCTACTACGCCT
Found at i:85923 original size:17 final size:18
Alignment explanation
Indices: 85884--85923 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
85874 TTTTATGTAT
85884 TTTTTTATTGAAAATCTA
1 TTTTTTATTGAAAATCTA
*
85902 TTTTTTATTGAAAATTTA
1 TTTTTTATTGAAAATCTA
85920 TTTT
1 TTTT
85924 CGTCCCCTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (18 bp):
TTTTTTATTGAAAATCTA
Found at i:86970 original size:22 final size:23
Alignment explanation
Indices: 86932--87003 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
86922 ATAGATAAAA
*
86932 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
86955 ATATAATGT-ATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
86977 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
87000 ATAT
1 ATAT
87004 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
22 21 0.48
23 23 0.52
ACGTcount: A:0.33, C:0.06, G:0.22, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:87451 original size:23 final size:23
Alignment explanation
Indices: 87420--87492 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
87410 ATAGGTAAAA
*
87420 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
87443 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
87466 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
87489 ATAT
1 ATAT
87493 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.04, G:0.23, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:87459 original size:489 final size:489
Alignment explanation
Indices: 86509--89354 Score: 4992
Period size: 489 Copynumber: 5.8 Consensus size: 489
86499 TTTTTACCTG
* * * *
86509 TTATATTGTAAAGTATCTAT-CATTTTATAAAAGTATCTATACTTTTTTCACTGTAGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACA-T
* *
86573 TAATTTAAGGTTATCTTTTGAGAGAATTTTAAGATATTAATTTAGTAATTATAGGCATCTAATGA
65 TAATTTAAGGTTATCTTTTGAGTGAATTTTAAGATATCAATTTAGTAATTATAGGCATCTAATGA
* * * *
86638 TTTATTTTTTACGTTACAGTATATATTATTATTAAATTAGAAACAATAAAAATATATATTACATA
130 TTTATTTTTTACGTTACGGTATATATTATCATTAAATTAAAAACAATAAACATATATATTACATA
* *
86703 TTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATACTAAATAATATTTTATAAAATATCAA
195 TTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAA
* *
86768 AACAATCAAATACTTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAA
260 AACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAA
* *
86833 ACACTGTTAAAAAAATTGAAACATAAATTACATAATTTTTAAAAAAAGTATCGATCCTTTTTATA
325 ACACTATTAAAAAAATTGAAACATAAATTACATAA-CTTTAAAAAAAGTATCGATCCTTTTTATA
*
86898 AAAAGTATGGACACTTTCAATATAATAGATAAAAATATGATGTAATAGGTAGCGCTTATATAATG
389 AAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATG
86963 T-ATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
454 TAATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
86998 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
* * * *
87063 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATCAATTTAGTAATTATATGTAACTAATGAT
66 AATTTAAGGTTATCTTTTGAGTGAATTTTAAGATATCAATTTAGTAATTATAGGCATCTAATGAT
*
87128 TTATTTTTTATGTTACGGTATATATTATCATTAAATTAAAAACAATAAACATATATATTACATAT
131 TTATTTTTTACGTTACGGTATATATTATCATTAAATTAAAAACAATAAACATATATATTACATAT
*
87193 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTTTAAATATTATTTTATAAAATATCAAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAA
*
87258 ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTATGTGGAAAACATGAAA
261 ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
87323 CACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAA
326 CACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAA
87388 AAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTA
391 AAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTA
*
87453 ATAGGTAGCGTTTATATAATGTAATAGGTAGTGG
456 ATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
* *
87487 TTATATTGTAAAGTATCTATCTTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
* *
87552 AATTTAAGGTTATCTTTTGAGTGAATTTTAAGATATCAATTTAGTAATTATATGTATCTAATGAT
66 AATTTAAGGTTATCTTTTGAGTGAATTTTAAGATATCAATTTAGTAATTATAGGCATCTAATGAT
*
87617 TTATTTTTTATGTTACGGTATATATTATCATTAAATTAAAAACAATAAACATATATATTACATAT
131 TTATTTTTTACGTTACGGTATATATTATCATTAAATTAAAAACAATAAACATATATATTACATAT
*
87682 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTTTAAATATTATTTTATAAAATATCAAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAA
*
87747 ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTATGTGGAAAACATGAAA
261 ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
87812 CACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAA
326 CACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAA
87877 AAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTA
391 AAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTA
87942 ATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
456 ATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
*
87976 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
* * *
88041 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATCAATTTAGTAATTATATGTATCTAATGAT
66 AATTTAAGGTTATCTTTTGAGTGAATTTTAAGATATCAATTTAGTAATTATAGGCATCTAATGAT
* * *
88106 TTATTTTTTATGTTACGGTATATTTTATCATTAAATTAAAAAAAATAAACATATATATTACATAT
131 TTATTTTTTACGTTACGGTATATATTATCATTAAATTAAAAACAATAAACATATATATTACATAT
*
88171 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTTTAAATATTATTTTATAAAATATCAAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAA
*
88236 ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTATGTGGAAAACATGAAA
261 ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
88301 CACTATTAAAAAAATTGAAACATAAATTACATAACTTT-AAAAAAGTATCGATCCTTTTTATAAA
326 CACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAA
*
88365 AAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGATAGCGCTTATATAATGTA
391 AAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTA
* *
88430 ATATGTAGCGTTTATATAATGTAATAAGTAGTGC
456 ATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
88464 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
* * *
88529 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
66 AATTTAAGGTTATCTTTTGAGTGAATTTTAAGATATCAATTTAGTAATTATAGGCATCTAATGAT
* *
88594 TTATTTTTTACGTTGCGGTATATATTATTATTAAATTAAAAA-AATAAACATATATATTACATAT
131 TTATTTTTTACGTTACGGTATATATTATCATTAAATTAAAAACAATAAACATATATATTACATAT
*
88658 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAA
*
88723 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
261 ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
*
88788 CACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAA
326 CACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAA
88853 AAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTA
391 AAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTA
*
88918 ATAGGTAGCGTTTATATAATGTAATAGGTAGTGT
456 ATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
* *
88952 TTATATTGTAAAGTATTTATCCTTTTTATAAAAGTGTTCATACTTTTTTCACTGTGGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
* * *
89017 AATTTAAGGTTATCTTTTGAATGAATTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
66 AATTTAAGGTTATCTTTTGAGTGAATTTTAAGATATCAATTTAGTAATTATAGGCATCTAATGAT
* * * * *
89082 TTATTTTTTACGTTATGATATATATTATTATTAAATTAAAAACAAAAAATATATATATTACATAT
131 TTATTTTTTACGTTACGGTATATATTATCATTAAATTAAAAACAATAAACATATATATTACATAT
*
89147 TTATTATTATCTTTGATTAATATTGTTAAATTTAAATTCT--A-A--ATTTTATAAAATATCAAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAA
* *
89207 ATAATTAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
261 ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
89272 CACTATT-AAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAA
326 CACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTAT-AA
*
89336 AAAGTATAGACACTTTCAA
390 AAAGTATGGACACTTTCAA
89355 CATATTATAA
Statistics
Matches: 2282, Mismatches: 70, Indels: 15
0.96 0.03 0.01
Matches are distributed among these distances:
483 53 0.02
484 107 0.05
486 1 0.00
487 187 0.08
488 663 0.29
489 1233 0.54
490 38 0.02
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (489 bp):
TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
AATTTAAGGTTATCTTTTGAGTGAATTTTAAGATATCAATTTAGTAATTATAGGCATCTAATGAT
TTATTTTTTACGTTACGGTATATATTATCATTAAATTAAAAACAATAAACATATATATTACATAT
TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAA
ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
CACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAA
AAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTA
ATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
Found at i:87940 original size:23 final size:23
Alignment explanation
Indices: 87909--87981 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
87899 ATAGGTAAAA
*
87909 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
87932 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
87955 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
87978 ATAT
1 ATAT
87982 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:88428 original size:23 final size:23
Alignment explanation
Indices: 88397--88469 Score: 87
Period size: 23 Copynumber: 3.2 Consensus size: 23
88387 ATAGGTAAAA
*
88397 ATATGATGTAATAGATAGCGCTT
1 ATATAATGTAATAGATAGCGCTT
*
88420 ATATAATGTAATATG-TAGCGTTT
1 ATATAATGTAATA-GATAGCGCTT
*
88443 ATATAATGTAATA-AGTAGTGCTT
1 ATATAATGTAATAGA-TAGCGCTT
88466 ATAT
1 ATAT
88470 TGTAAAGTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.37, C:0.05, G:0.18, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGATAGCGCTT
Found at i:88916 original size:23 final size:23
Alignment explanation
Indices: 88885--88957 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
88875 ATAGGTAAAA
* *
88885 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGTTT
88908 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGTTT
*
88931 ATATAATGTAATAGGTAGTGTTT
1 ATATAATGTAATAGGTAGCGTTT
88954 ATAT
1 ATAT
88958 TGTAAAGTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGTTT
Found at i:89739 original size:4 final size:4
Alignment explanation
Indices: 89719--89755 Score: 56
Period size: 4 Copynumber: 8.8 Consensus size: 4
89709 ATCTTAAGAA
89719 AAAT AGAAT ACAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT A-AAT A-AAT AAAT AAAT AAAT AAAT AAAT AAA
89756 AATTTTTACT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
4 23 0.74
5 8 0.26
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:90965 original size:182 final size:182
Alignment explanation
Indices: 90652--91104 Score: 699
Period size: 182 Copynumber: 2.5 Consensus size: 182
90642 ACTTTTTTAC
* * * *
90652 TACCGATTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACCTGTTATATTGTTATAGATAGA
1 TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
* * * *
90717 TACATTTTTATAAAGTATCGACACTTTATTGGCGTTATAACTTCTTTTCTTTTAAATTCCAAAAG
66 TATATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAG
* * * *
90782 TGTCGATACTTATAATAAAATATCGACACTTTCAACATATCCGGTAGCTCTT
131 TGTCGATACTTATAATAAAATATCGACACTATCAACAAATACGGTAGCGCTT
90834 TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
1 TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
* *
90899 TATATTTTTATAAAATATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCTAAAAG
66 TATATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAG
* *
90964 TGTCGATATTTATAATAAAATATCGACACTATCAACAAATATGGTAGCGCTT
131 TGTCGATACTTATAATAAAATATCGACACTATCAACAAATACGGTAGCGCTT
* ** * * * *
91016 TACCTGTTTTGTCATTTATAAACAGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAA
1 TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
91081 TATATTTTTATAAAGTATCGACAC
66 TATATTTTTATAAAGTATCGACAC
91105 AAACCGACAA
Statistics
Matches: 247, Mismatches: 24, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
182 247 1.00
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.43
Consensus pattern (182 bp):
TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
TATATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAG
TGTCGATACTTATAATAAAATATCGACACTATCAACAAATACGGTAGCGCTT
Found at i:92542 original size:32 final size:31
Alignment explanation
Indices: 92500--92582 Score: 121
Period size: 32 Copynumber: 2.6 Consensus size: 31
92490 TGTTTTTTGT
92500 TGCAACCATATTTTAGGTTGGAACTTGTTTAG
1 TGCAA-CATATTTTAGGTTGGAACTTGTTTAG
*
92532 TGCAATCATATTTTAGATTGGAACTTGTTTAG
1 TGCAA-CATATTTTAGGTTGGAACTTGTTTAG
* *
92564 TGTAACGTATTTTAGGTTG
1 TGCAACATATTTTAGGTTG
92583 AAAAATCAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
31 12 0.26
32 34 0.74
ACGTcount: A:0.25, C:0.10, G:0.22, T:0.43
Consensus pattern (31 bp):
TGCAACATATTTTAGGTTGGAACTTGTTTAG
Found at i:97900 original size:11 final size:11
Alignment explanation
Indices: 97884--97908 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
97874 AGGAAAGGCG
97884 GGTTAATATAC
1 GGTTAATATAC
97895 GGTTAATATAC
1 GGTTAATATAC
97906 GGT
1 GGT
97909 ATTACCGGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (11 bp):
GGTTAATATAC
Found at i:98416 original size:181 final size:182
Alignment explanation
Indices: 98062--98534 Score: 680
Period size: 181 Copynumber: 2.6 Consensus size: 182
98052 GATCCAAATT
* * * * * * **
98062 AAAAATGTGTCGATCCAAAATGATATAACAGGTAAAACTATAACAAAATCGGTATTGAAATGATA
1 AAAAATGTATCGATCCAAAATGATATAACAGATAAAAATATGATAAAACCGGTATCAAAATGATA
* * * * *
98127 AAACCGATAAAGCGTTATCGGATATATTTAAAGTGTCGGTACTTTAATATAAAGATCGACACTTT
66 AAACCGGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTTTAATATAAAGATCGACACTTT
* *
98192 GTGAATTTAAAAGAGAAGCAGTTTTAAATCATATAAAGTGTCGATACTTTTA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCATATAAAGTGTCGATACTTTAA
* *
98244 AAAAATGTATCGATCCAAAATGATATACCAGATAAAAATATGATAAAACCAGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAATGATATAACAGATAAAAATATGATAAAACCGGTATCAAAATGATA
* *
98309 AAACCGGTAAAACGTTACCGGATATATTGAAAGTGTCAATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTTTAATATAAAGATCGACACTTT
** * *
98373 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTAA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCATATAAAGTGTCGATACTTTAA
* * *
98425 AAAAATATATCGATCCACAACGATATAACA-AGTAAAAATATGATAAAACCGGTATCAAAATGAT
1 AAAAATGTATCGATCCAAAATGATATAACAGA-TAAAAATATGATAAAACCGGTATCAAAATGAT
*
98489 AAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
65 AAAACCGGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTTT
98535 CGTAAGTACG
Statistics
Matches: 260, Mismatches: 30, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
180 1 0.00
181 165 0.63
182 94 0.36
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.28
Consensus pattern (182 bp):
AAAAATGTATCGATCCAAAATGATATAACAGATAAAAATATGATAAAACCGGTATCAAAATGATA
AAACCGGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTTTAATATAAAGATCGACACTTT
GTGAATTTAAAAGAGAAGCAGTTTTAAAGCATATAAAGTGTCGATACTTTAA
Found at i:98506 original size:17 final size:19
Alignment explanation
Indices: 98466--98506 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
98456 GTAAAAATAT
*
98466 GATAAAACCGGTATCAAAAT
1 GATAAAACCGG-ATCAAAAC
98486 GATAAAACCGG-T-AAAAC
1 GATAAAACCGGATCAAAAC
98503 GATA
1 GATA
98507 CCGGATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 8 0.40
18 1 0.05
20 11 0.55
ACGTcount: A:0.51, C:0.15, G:0.17, T:0.17
Consensus pattern (19 bp):
GATAAAACCGGATCAAAAC
Found at i:100704 original size:21 final size:20
Alignment explanation
Indices: 100677--100728 Score: 88
Period size: 21 Copynumber: 2.6 Consensus size: 20
100667 AAAGATAATC
100677 AAGAGTCGAAGAGAAACTTG
1 AAGAGTCGAAGAGAAACTTG
100697 ATAGAGTCGAAGAGAAACTTG
1 A-AGAGTCGAAGAGAAACTTG
100718 -AGAGTCGAAGA
1 AAGAGTCGAAGA
100729 TACACTTGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 11 0.35
20 1 0.03
21 19 0.61
ACGTcount: A:0.44, C:0.10, G:0.31, T:0.15
Consensus pattern (20 bp):
AAGAGTCGAAGAGAAACTTG
Found at i:100723 original size:19 final size:19
Alignment explanation
Indices: 100678--100740 Score: 90
Period size: 19 Copynumber: 3.2 Consensus size: 19
100668 AAGATAATCA
100678 AGAGTCGAAGAGAAACTTG
1 AGAGTCGAAGAGAAACTTG
100697 ATAGAGTCGAAGAGAAACTTG
1 --AGAGTCGAAGAGAAACTTG
* *
100718 AGAGTCGAAGATACACTTG
1 AGAGTCGAAGAGAAACTTG
100737 AGAG
1 AGAG
100741 GCATAAGGGG
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
19 21 0.52
21 19 0.47
ACGTcount: A:0.41, C:0.11, G:0.30, T:0.17
Consensus pattern (19 bp):
AGAGTCGAAGAGAAACTTG
Found at i:100831 original size:33 final size:30
Alignment explanation
Indices: 100772--100834 Score: 81
Period size: 33 Copynumber: 2.0 Consensus size: 30
100762 AAATAGATGG
*
100772 AGTGGTGAAAGAAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGAGGTGTTAAGGGGTGA
*
100802 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAA---GAGGTGTTAAGGGGTGA
100835 TATAAGATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 13 0.46
33 15 0.54
ACGTcount: A:0.29, C:0.00, G:0.49, T:0.22
Consensus pattern (30 bp):
AGTGGTGAAAGAAGAGGTGTTAAGGGGTGA
Done.