Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, 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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 53 of 130
Found at i:11590360 original size:55 final size:55
Alignment explanation
Indices: 11590266--11590422 Score: 169
Period size: 54 Copynumber: 2.9 Consensus size: 55
11590256 CAATCTTGAA
* * *
11590266 AAAATTTTC-AAATGCTTTAAGGAAAAGTTAAAAGTATCAATTTTTCTTA-AAAAT
1 AAAA-TTTCAAAATGATTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTAGAAAAT
* ** * *
11590320 AAAATTTTCAAAAAT-ATTTTAGGGAAAGTTGAAATTATCAATTTCTC-TAGAAAAT
1 AAAA-TTTC-AAAATGATTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTAGAAAAT
* *
11590375 AAAATTTCCAAATGCTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTT
1 AAAATTTCAAAATGATTTAAGAAAAAGTTGAAAGTATCAATTTTTCTT
11590423 GTATGAAAGC
Statistics
Matches: 85, Mismatches: 13, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
53 4 0.05
54 41 0.48
55 36 0.42
56 4 0.05
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.37
Consensus pattern (55 bp):
AAAATTTCAAAATGATTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTAGAAAAT
Found at i:11593168 original size:21 final size:21
Alignment explanation
Indices: 11593144--11593184 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
11593134 ACTAAAGAGA
11593144 ATGCAAAATTGAAACAAGAAT
1 ATGCAAAATTGAAACAAGAAT
* * *
11593165 ATGCTAAATTGGAAGAAGAA
1 ATGCAAAATTGAAACAAGAA
11593185 AGTACCCAAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.54, C:0.07, G:0.20, T:0.20
Consensus pattern (21 bp):
ATGCAAAATTGAAACAAGAAT
Found at i:11600543 original size:7 final size:8
Alignment explanation
Indices: 11600524--11600604 Score: 75
Period size: 8 Copynumber: 10.8 Consensus size: 8
11600514 TACTATGCTT
11600524 AAAAAATG
1 AAAAAATG
11600532 AAAAAATG
1 AAAAAATG
11600540 AAAAAATG
1 AAAAAATG
**
11600548 AAAAAACA
1 AAAAAATG
11600556 AAAAAAT-
1 AAAAAATG
11600563 AAAAAAT-
1 AAAAAATG
11600570 -AAAAA--
1 AAAAAATG
*
11600575 AATAAATG
1 AAAAAATG
11600583 AAAAAA-G
1 AAAAAATG
*
11600590 AGAAAAAAG
1 A-AAAAATG
11600599 AAAAAA
1 AAAAAA
11600605 AAAAGGAGGA
Statistics
Matches: 63, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
6 9 0.14
7 9 0.14
8 43 0.68
9 2 0.03
ACGTcount: A:0.81, C:0.01, G:0.09, T:0.09
Consensus pattern (8 bp):
AAAAAATG
Found at i:11600596 original size:35 final size:33
Alignment explanation
Indices: 11600543--11600608 Score: 87
Period size: 35 Copynumber: 1.9 Consensus size: 33
11600533 AAAAATGAAA
11600543 AAATGAAAAAACAAAAAAATAAAAAATAAAAAAAT
1 AAATGAAAAAACAAAAAAA-AAAAAA-AAAAAAAT
* * *
11600578 AAATGAAAAAAGAGAAAAAAGAAAAAAAAAA
1 AAATGAAAAAACAAAAAAAAAAAAAAAAAAA
11600609 GGAGGACTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 6 0.21
34 5 0.18
35 17 0.61
ACGTcount: A:0.83, C:0.02, G:0.08, T:0.08
Consensus pattern (33 bp):
AAATGAAAAAACAAAAAAAAAAAAAAAAAAAAT
Found at i:11601660 original size:41 final size:41
Alignment explanation
Indices: 11601589--11601724 Score: 143
Period size: 42 Copynumber: 3.2 Consensus size: 41
11601579 ATGATCGTCA
*
11601589 AGGAGC-ATTTACTTTTCCAAAAGTTATGGTGCCTCTGTTTAG
1 AGGAGCAATTTAC-TTT-CAAAAGTTGTGGTGCCTCTGTTTAG
*
11601631 AGGAGCAATTTACTTTCAAAAGTTGTGGTGCCTCTATTTAG
1 AGGAGCAATTTACTTTCAAAAGTTGTGGTGCCTCTGTTTAG
** **
11601672 AGGAGCTTTGTTTA-TTGT-TTAAGTTGTGGTGCCTCTGTTTAG
1 AGGAGC--AATTTACTT-TCAAAAGTTGTGGTGCCTCTGTTTAG
11601714 AGGAGCCAATT
1 AGGAG-CAATT
11601725 ATTTTTCTAA
Statistics
Matches: 80, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
41 31 0.39
42 37 0.46
43 12 0.15
ACGTcount: A:0.23, C:0.14, G:0.24, T:0.39
Consensus pattern (41 bp):
AGGAGCAATTTACTTTCAAAAGTTGTGGTGCCTCTGTTTAG
Found at i:11601750 original size:42 final size:41
Alignment explanation
Indices: 11601702--11601926 Score: 210
Period size: 41 Copynumber: 5.5 Consensus size: 41
11601692 AAGTTGTGGT
* * *
11601702 GCCTCTGTTTAGAGGAGCCAATTATTTTTCTAAAGTCGTTAA
1 GCCTCTGATTAGAGGAGCCATTTATTTTTC-AAAGTCATTAA
* * *
11601744 GTCTCTGATTAGATGAGCCATTTATTTTCCAAAGTCATTAA
1 GCCTCTGATTAGAGGAGCCATTTATTTTTCAAAGTCATTAA
* *
11601785 GCCTCTGATTGGAGGAGCCATTTATTTTTCAAAGTCATTGA
1 GCCTCTGATTAGAGGAGCCATTTATTTTTCAAAGTCATTAA
* * *
11601826 GCCTTTAATTAGAGGAGCCATTTA-TTTTCAAGGTCA-TAGA
1 GCCTCTGATTAGAGGAGCCATTTATTTTTCAAAGTCATTA-A
* ** *
11601866 GCCTCT-ATTTAGAAGAGCTTTGTTTATTTTT-AAAGTCGTTGAA
1 GCCTCTGA-TTAGAGGAGC--CATTTATTTTTCAAAGTCATT-AA
11601909 -CCTCT-ACTTAGAGGAGCC
1 GCCTCTGA-TTAGAGGAGCC
11601927 TTGATCAAAA
Statistics
Matches: 151, Mismatches: 25, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
39 2 0.01
40 26 0.17
41 67 0.44
42 49 0.32
43 6 0.04
44 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (41 bp):
GCCTCTGATTAGAGGAGCCATTTATTTTTCAAAGTCATTAA
Found at i:11602186 original size:23 final size:21
Alignment explanation
Indices: 11602159--11602297 Score: 69
Period size: 23 Copynumber: 6.4 Consensus size: 21
11602149 TCTTATTTAT
*
11602159 TTATTTATTTATTGCTATTATTA
1 TTATTTATTTATT-ATA-TATTA
*
11602182 TTATTTA-TTAATATATATTA
1 TTATTTATTTATTATATATTA
* *
11602202 TTATTTATCTATTAATGTATATAAA
1 TTATTTATTTATT-A--TATAT-TA
11602227 TT-TTTA-TTATTAACTATCATCTA
1 TTATTTATTTATT-A-TAT-AT-TA
*
11602250 TTATTTATCTATTA-ATA-TA
1 TTATTTATTTATTATATATTA
11602269 -TATATT-TTTATTGATATATT-
1 TTAT-TTATTTATT-ATATATTA
11602289 TTATTTATT
1 TTATTTATT
11602298 ATTTATCTAT
Statistics
Matches: 91, Mismatches: 11, Indels: 30
0.69 0.08 0.23
Matches are distributed among these distances:
18 8 0.09
19 5 0.05
20 17 0.19
21 12 0.13
22 10 0.11
23 18 0.20
24 14 0.15
25 7 0.08
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (21 bp):
TTATTTATTTATTATATATTA
Found at i:11602298 original size:46 final size:47
Alignment explanation
Indices: 11602186--11602308 Score: 139
Period size: 46 Copynumber: 2.6 Consensus size: 47
11602176 TTATTATTAT
11602186 TTATTAA-TAT-ATATTATTATTTATCTATTAATGTATATAAATTTTTA
1 TTATTAACTATCAT-TTATTATTTATCTATTAA-GTATATAAATTTTTA
* *
11602233 TTATTAACTATCATCTATTATTTATCTATTAA-TATATATATTTTTA
1 TTATTAACTATCATTTATTATTTATCTATTAAGTATATAAATTTTTA
* *
11602279 TTGA-TATA-TTTTATTTATTATTTATCTATT
1 TT-ATTA-ACTATCATTTATTATTTATCTATT
11602309 CATTTTTTTT
Statistics
Matches: 67, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
46 36 0.54
47 9 0.13
48 20 0.30
49 2 0.03
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (47 bp):
TTATTAACTATCATTTATTATTTATCTATTAAGTATATAAATTTTTA
Found at i:11603214 original size:59 final size:54
Alignment explanation
Indices: 11603140--11603471 Score: 208
Period size: 51 Copynumber: 6.0 Consensus size: 54
11603130 TTTAAAATGA
* * *
11603140 TTTTCTTTAAATAAAATTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAAT
1 TTTTCTTAAAATAAAA-TT-AAAAAAAA-AATTTTA-GAAAAAGTTGAAAGTATCAAT
11603198 TTTTCTTAAAAATAAAATTAAAAAAAAAATTTTAGAAAAAGTTGAAAGTATCAAT
1 TTTTCTT-AAAATAAAATTAAAAAAAAAATTTTAGAAAAAGTTGAAAGTATCAAT
** * *** *** * *
11603253 TTCCCTT-GAA-AAAATT-TTTAAATGCTTTAAGAAAAAGTTGAAATTATCAAT
1 TTTTCTTAAAATAAAATTAAAAAAAAAATTTTAGAAAAAGTTGAAAGTATCAAT
**
11603304 TTTTCTTAAAAATAAAATTTAAAAAAAAAAAACATTTTAGGGAAAGTTGAAAGTATCAAT
1 TTTTCTT-AAAATAAAA-TT---AAAAAAAAA-ATTTTAGAAAAAGTTGAAAGTATCAAT
** ** *** *** * *
11603364 TTCCCTT-GCA-AAAATT-TTCAAATGCTTTAAGGAAAAGTTGAAAGTATCAAT
1 TTTTCTTAAAATAAAATTAAAAAAAAAATTTTAGAAAAAGTTGAAAGTATCAAT
** * ** *
11603415 TTTTCTTAAAAATAAAATTTCAAAAAATATTTTAGGGAAAGTTGAAAGTATTAAT
1 TTTTCTT-AAAATAAAATTAAAAAAAAAATTTTAGAAAAAGTTGAAAGTATCAAT
11603470 TT
1 TT
11603472 CCCTAGAAAA
Statistics
Matches: 208, Mismatches: 52, Indels: 31
0.71 0.18 0.11
Matches are distributed among these distances:
51 61 0.29
52 9 0.04
53 5 0.02
54 10 0.05
55 55 0.26
56 8 0.04
57 12 0.06
58 10 0.05
59 11 0.05
60 27 0.13
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.36
Consensus pattern (54 bp):
TTTTCTTAAAATAAAATTAAAAAAAAAATTTTAGAAAAAGTTGAAAGTATCAAT
Found at i:11603246 original size:55 final size:58
Alignment explanation
Indices: 11603140--11603494 Score: 234
Period size: 55 Copynumber: 6.4 Consensus size: 58
11603130 TTTAAAATGA
* * *
11603140 TTTTCTTTAAATAAAATTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAAT
1 TTTTCTTAAAATAAAATTTCAAAAAAAATAATTTTAGGAAAAAGTTGAAAGTATCAAT
11603198 TTTTCTTAAAAATAAAA-TT-AAAAAAAA-AATTTTA-GAAAAAGTTGAAAGTATCAAT
1 TTTTCTT-AAAATAAAATTTCAAAAAAAATAATTTTAGGAAAAAGTTGAAAGTATCAAT
** * ** ** * *
11603253 TTCCCTT-GAA-AAAATTT----TTAAAT-GCTTTAAGAAAAAGTTGAAATTATCAAT
1 TTTTCTTAAAATAAAATTTCAAAAAAAATAATTTTAGGAAAAAGTTGAAAGTATCAAT
* * *
11603304 TTTTCTTAAAAATAAAATTTAAAAAAAAAAAACATTTTAGG-GAAAGTTGAAAGTATCAAT
1 TTTTCTT-AAAATAAAATTT-CAAAAAAAATA-ATTTTAGGAAAAAGTTGAAAGTATCAAT
** ** * ** *
11603364 TTCCCTTGCAA-AAATTTTC-----AAATGCTTTAAGG-AAAAGTTGAAAGTATCAAT
1 TTTTCTTAAAATAAAATTTCAAAAAAAATAATTTTAGGAAAAAGTTGAAAGTATCAAT
* *
11603415 TTTTCTTAAAAATAAAATTTC--AAAAAAT-ATTTTAGG-GAAAGTTGAAAGTATTAAT
1 TTTTCTT-AAAATAAAATTTCAAAAAAAATAATTTTAGGAAAAAGTTGAAAGTATCAAT
** *
11603470 TTCCCTAGAAAATAAAATTTTCAAA
1 TTTTCT-TAAAATAAAA-TTTCAAA
11603495 TGCTTTAAGA
Statistics
Matches: 229, Mismatches: 45, Indels: 46
0.72 0.14 0.14
Matches are distributed among these distances:
50 7 0.03
51 54 0.24
52 9 0.04
53 13 0.06
54 7 0.03
55 61 0.27
56 14 0.06
57 8 0.03
58 16 0.07
59 13 0.06
60 22 0.10
61 5 0.02
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.35
Consensus pattern (58 bp):
TTTTCTTAAAATAAAATTTCAAAAAAAATAATTTTAGGAAAAAGTTGAAAGTATCAAT
Found at i:11603362 original size:111 final size:107
Alignment explanation
Indices: 11603179--11603526 Score: 511
Period size: 111 Copynumber: 3.2 Consensus size: 107
11603169 ATTTTTAGGG
**
11603179 AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAA-TTAAAAAAAAAATTTTAGAAAAAGTTGA
1 AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTAAAAAAAAAATTTTAGGGAAAGTTGA
*
11603243 AAGTATCAATTTCCCTTGAAAAAATTTTTAAATGCTTTAAGA
66 AAGTATCAATTTCCCTTGAAAAAATTTTCAAATGCTTTAAGA
*
11603285 AAAAGTTGAAATTATCAATTTTTCTTAAAAATAAAATTTAAAAAAAAAAAACATTTTAGGGAAAG
1 AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTT---AAAAAAAAA-ATTTTAGGGAAAG
* *
11603350 TTGAAAGTATCAATTTCCCTTGCAAAAATTTTCAAATGCTTTAAGG
62 TTGAAAGTATCAATTTCCCTTGAAAAAATTTTCAAATGCTTTAAGA
* *
11603396 AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTT-CAAAAAATATTTTAGGGAAAGTTGA
1 AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTAAAAAAAAAATTTTAGGGAAAGTTGA
* *
11603460 AAGTATTAATTTCCCTAGAAAATAAAATTTTCAAATGCTTTAAGA
66 AAGTATCAATTTCCCTTG--AA-AAAATTTTCAAATGCTTTAAGA
* *
11603505 AAAAATTGAAAATATCAATTTT
1 AAAAGTTGAAAGTATCAATTTT
11603527 CTTTGTATAA
Statistics
Matches: 219, Mismatches: 15, Indels: 13
0.89 0.06 0.05
Matches are distributed among these distances:
106 68 0.31
107 8 0.04
108 1 0.00
109 41 0.19
110 9 0.04
111 92 0.42
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.34
Consensus pattern (107 bp):
AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTAAAAAAAAAATTTTAGGGAAAGTTGA
AAGTATCAATTTCCCTTGAAAAAATTTTCAAATGCTTTAAGA
Found at i:11603401 original size:51 final size:51
Alignment explanation
Indices: 11603346--11603525 Score: 164
Period size: 55 Copynumber: 3.4 Consensus size: 51
11603336 CATTTTAGGG
*
11603346 AAAGTTGAAAGTATCAATTTCCCTTGCAAAAATTTTCAAATGCTTTAAGGA
1 AAAGTTGAAAGTATCAATTTCCCTTGAAAAAATTTTCAAATGCTTTAAGGA
** * * * * *
11603397 AAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTCAAAAAAT-ATTTTAGGG
1 AAAGTTGAAAGTATCAATTTCCCTT-GAAA-AAATTTTC---AAATGCTTTAAGGA
* * *
11603452 AAAGTTGAAAGTATTAATTTCCCTAGAAAATAAAATTTTCAAATGCTTTAAGAA
1 AAAGTTGAAAGTATCAATTTCCCTTG--AA-AAAATTTTCAAATGCTTTAAGGA
* *
11603506 AAAATTGAAAATATCAATTT
1 AAAGTTGAAAGTATCAATTT
11603526 TCTTTGTATA
Statistics
Matches: 99, Mismatches: 21, Indels: 15
0.73 0.16 0.11
Matches are distributed among these distances:
51 23 0.23
52 2 0.02
53 11 0.11
54 22 0.22
55 27 0.27
56 13 0.13
57 1 0.01
ACGTcount: A:0.46, C:0.09, G:0.11, T:0.34
Consensus pattern (51 bp):
AAAGTTGAAAGTATCAATTTCCCTTGAAAAAATTTTCAAATGCTTTAAGGA
Found at i:11607810 original size:44 final size:43
Alignment explanation
Indices: 11607726--11607810 Score: 100
Period size: 44 Copynumber: 2.0 Consensus size: 43
11607716 CTTGAATAAT
***
11607726 CCCTAAATAAAAAATTGAAAGGGATTATTCAAGGTGTTTTTGG
1 CCCTAAATAAAAAATTGAAAGGGATTATTCAAGACATTTTTGG
* *
11607769 CCCTTAATAAAAAAATTG-AAGGGAATTATTGAAGACATTTTT
1 CCCTAAAT-AAAAAATTGAAAGGG-ATTATTCAAGACATTTTT
11607811 TGGCTAAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
43 12 0.34
44 23 0.66
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.33
Consensus pattern (43 bp):
CCCTAAATAAAAAATTGAAAGGGATTATTCAAGACATTTTTGG
Found at i:11608092 original size:23 final size:23
Alignment explanation
Indices: 11608061--11608105 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
11608051 GGTATTTTTA
*
11608061 GCCAGAAATGCCTTCAATAATTG
1 GCCAAAAATGCCTTCAATAATTG
11608084 GCCAAAAATGCCTTCAATAATT
1 GCCAAAAATGCCTTCAATAATT
11608106 TTCTCATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (23 bp):
GCCAAAAATGCCTTCAATAATTG
Found at i:11610144 original size:15 final size:15
Alignment explanation
Indices: 11610124--11610154 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11610114 CAGATTGACC
*
11610124 ACAAAAGAAAAGAAA
1 ACAAAAAAAAAGAAA
11610139 ACAAAAAAAAAGAAA
1 ACAAAAAAAAAGAAA
11610154 A
1 A
11610155 TAACTTTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.84, C:0.06, G:0.10, T:0.00
Consensus pattern (15 bp):
ACAAAAAAAAAGAAA
Found at i:11622122 original size:116 final size:116
Alignment explanation
Indices: 11621918--11622149 Score: 437
Period size: 116 Copynumber: 2.0 Consensus size: 116
11621908 GGTTTAAAAG
11621918 AAACCACAAAAACAAGTTTGGATACAAAAGCTAAAAATATTTCTTAAGAATTAAAAATAAAAGTG
1 AAACCACAAAAACAAGTTTGGATACAAAAGCTAAAAATATTTCTTAAGAATTAAAAATAAAAGTG
*
11621983 AAAAATATGTATATAACAAAATGAATACTTTTTATGTTATATTACTTTTTA
66 AAAAATATGTATATAACAAAATGAATACTTTTTATGTTATATTACATTTTA
* *
11622034 AAACCATAAAAACGAGTTTGGATACAAAAGCTAAAAATATTTCTTAAGAATTAAAAATAAAAGTG
1 AAACCACAAAAACAAGTTTGGATACAAAAGCTAAAAATATTTCTTAAGAATTAAAAATAAAAGTG
11622099 AAAAATATGTATATAACAAAATGAATACTTTTTATGTTATATTACATTTTA
66 AAAAATATGTATATAACAAAATGAATACTTTTTATGTTATATTACATTTTA
11622150 GTAATTTATT
Statistics
Matches: 113, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
116 113 1.00
ACGTcount: A:0.50, C:0.08, G:0.09, T:0.33
Consensus pattern (116 bp):
AAACCACAAAAACAAGTTTGGATACAAAAGCTAAAAATATTTCTTAAGAATTAAAAATAAAAGTG
AAAAATATGTATATAACAAAATGAATACTTTTTATGTTATATTACATTTTA
Found at i:11631649 original size:3 final size:3
Alignment explanation
Indices: 11631593--11631630 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
11631583 TAGTAACAGC
11631593 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
11631631 AGTTTCATGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:11631918 original size:3 final size:3
Alignment explanation
Indices: 11631910--11631955 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
11631900 ATTCATTGTG
* * *
11631910 ATT ATT ATT ACT ATT ATT ATT ATT ATT ATTT ATA ATA ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT
11631956 TTAAACATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:11632032 original size:25 final size:26
Alignment explanation
Indices: 11631977--11632049 Score: 69
Period size: 25 Copynumber: 2.8 Consensus size: 26
11631967 TATCATTATT
*
11631977 TTAATATAAAAATAATA-AATAATAAA
1 TTAA-ATAAAAATATTATAATAATAAA
* *
11632003 ATAAATAAAAATATTATAA-AATATA
1 TTAAATAAAAATATTATAATAATAAA
* *
11632028 TTAAATTAATATATATATAATA
1 TTAAATAAAAATAT-TATAATA
11632050 TTTCATATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
25 27 0.71
26 10 0.26
27 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (26 bp):
TTAAATAAAAATATTATAATAATAAA
Found at i:11632040 original size:20 final size:20
Alignment explanation
Indices: 11631977--11632040 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 20
11631967 TATCATTATT
*
11631977 TTAATATAAAA-ATAATAAA
1 TTAATATAAAATATATTAAA
* *
11631996 -T-A-ATAAAATAAATAAAA
1 TTAATATAAAATATATTAAA
* *
11632013 ATATTATAAAATATATTAAA
1 TTAATATAAAATATATTAAA
11632033 TTAATATA
1 TTAATATA
11632041 TATATAATAT
Statistics
Matches: 33, Mismatches: 8, Indels: 7
0.69 0.17 0.15
Matches are distributed among these distances:
16 6 0.18
17 6 0.18
18 2 0.06
20 19 0.58
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
TTAATATAAAATATATTAAA
Found at i:11632320 original size:16 final size:16
Alignment explanation
Indices: 11632276--11632323 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
11632266 TTTATTATAG
* *
11632276 TAATTTAACATGTAGT
1 TAATTTAATATGTAAT
11632292 TACATTT--TATGTAAT
1 TA-ATTTAATATGTAAT
11632307 TAATTTAATATGTAAT
1 TAATTTAATATGTAAT
11632323 T
1 T
11632324 TAATAGAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
14 4 0.15
15 8 0.30
16 11 0.41
17 4 0.15
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (16 bp):
TAATTTAATATGTAAT
Found at i:11635620 original size:34 final size:34
Alignment explanation
Indices: 11635582--11635666 Score: 116
Period size: 34 Copynumber: 2.5 Consensus size: 34
11635572 ATCCATATCT
*
11635582 AGTAAATTTTATAACTTACTAGAAATGAATTTCA
1 AGTAAATTTTATAACTTACAAGAAATGAATTTCA
* * *
11635616 AGTAAGTTTTATAACTTACAAGAAATGGATTTCC
1 AGTAAATTTTATAACTTACAAGAAATGAATTTCA
* *
11635650 AGTAAATTATAAAACTT
1 AGTAAATTTTATAACTT
11635667 TTCGAAAAAG
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 44 1.00
ACGTcount: A:0.44, C:0.09, G:0.11, T:0.36
Consensus pattern (34 bp):
AGTAAATTTTATAACTTACAAGAAATGAATTTCA
Found at i:11637248 original size:132 final size:132
Alignment explanation
Indices: 11637023--11637266 Score: 344
Period size: 132 Copynumber: 1.8 Consensus size: 132
11637013 TAAAATAACA
* * *
11637023 CTATATTAACGGCGTTTGTATTTGGAAACACCGCTATATTAACGGAGTTTGTATATGAAAAACAC
1 CTATATTAACGACGTTTGTATTTGGAAACACCGCTACATTAACAGAGTTTGTATATGAAAAACAC
11637088 CACTATTTTAGTAACGTTTATATATGGAAAATGCCACTATTTTAGCGATGTTTCTTATAAAACGC
66 CACTATTTTAGTAACGTTTATATATGGAAAATGCCACTATTTTAGCGATGTTTCTTATAAAACGC
11637153 TG
131 TG
** * ** *
11637155 CTATATTAACGACGTTTGTATTTGGAAATGCCTCTACATTAACAGCTTTTGTATATGAAAAACAT
1 CTATATTAACGACGTTTGTATTTGGAAACACCGCTACATTAACAGAGTTTGTATATGAAAAACAC
** * * * * *
11637220 TGCTATTTTAGTGATGTTTGTATATGGAAAATGTCGCTATTTTAGCG
66 CACTATTTTAGTAACGTTTATATATGGAAAATGCCACTATTTTAGCG
11637267 GCATTTATAT
Statistics
Matches: 96, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
132 96 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (132 bp):
CTATATTAACGACGTTTGTATTTGGAAACACCGCTACATTAACAGAGTTTGTATATGAAAAACAC
CACTATTTTAGTAACGTTTATATATGGAAAATGCCACTATTTTAGCGATGTTTCTTATAAAACGC
TG
Found at i:11637278 original size:34 final size:34
Alignment explanation
Indices: 11637240--11637306 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
11637230 GTGATGTTTG
* * *
11637240 TATATGGAAAATGTCGCTATTTTAGCGGCATTTA
1 TATATGAAAAATGTCACTATTTTAGCAGCATTTA
*
11637274 TATATGAAAAATGTTACTATTTTAGCAGCATTT
1 TATATGAAAAATGTCACTATTTTAGCAGCATTT
11637307 GTACTTTGAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.40
Consensus pattern (34 bp):
TATATGAAAAATGTCACTATTTTAGCAGCATTTA
Found at i:11639609 original size:13 final size:13
Alignment explanation
Indices: 11639591--11639616 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11639581 TGCTTAATAG
11639591 AATGAATAATTTC
1 AATGAATAATTTC
11639604 AATGAATAATTTC
1 AATGAATAATTTC
11639617 TTTACTAAAA
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:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
AATGAATAATTTC
Found at i:11643556 original size:187 final size:187
Alignment explanation
Indices: 11643323--11644058 Score: 994
Period size: 187 Copynumber: 4.0 Consensus size: 187
11643313 CATCTTTAAT
* * * *
11643323 AATTTTCTTTTATAAATTGTTTGGGATTATTAAAGGCATCTTCTAGTAAAAAATACCTTCAATGT
1 AATTTT-TTTTATAAATTATTTGAGATTATTAAAGGCATCTTCTAGTAGAAAATACCTTCAATAT
* * *
11643388 TCCA-TAACTAAAATTTTTAGACAGTTATTGAAGGCATTTATTCTAAAAAAATGCTTTCACTAAT
65 TCCACT-ACTAAAATTTTTAGACAGTTATTGAAGGCGTTTATTCTAAGAAAATGCCTTCACTAAT
* *
11643452 TCATCTAAATTTTTGAAGGAATTTATTGAAGGCATTTTTTGCATTATACGCCTTCAATA
129 TCATTTAAATTTTTGAAAGAATTTATTGAAGGCATTTTTTGCATTATACGCCTTCAATA
* * *
11643511 AATTTTTTTTATAAATTATTTTAGATTATTAAAGGCATTTTCTAGTAGAAAATGCCTTCAATATT
1 AATTTTTTTTATAAATTATTTGAGATTATTAAAGGCATCTTCTAGTAGAAAATACCTTCAATATT
* * * *
11643576 TCACTACTAAAATTTTTAGATAGTTATTGAAGGCGTTTATTCTAAGAAAATGCTTTCACTAATTT
66 CCACTACTAAAATTTTTAGACAGTTATTGAAGGCGTTTATTCTAAGAAAATGCCTTCACTAATTC
* * * * * * * *
11643641 GTTTGAATTTTTAAAATAATTTATTAAAGGTATTTTTTGCATTATATGCCTTTAATA
131 ATTTAAATTTTTGAAAGAATTTATTGAAGGCATTTTTTGCATTATACGCCTTCAATA
* * *
11643698 ATTTTTTTTTATAAATTATTTGAGATTATTAAAGGCGTCTTCTAGTAGAAAATAGCTTC------
1 AATTTTTTTTATAAATTATTTGAGATTATTAAAGGCATCTTCTAGTAGAAAATACCTTCAATATT
* *
11643757 CCACTACTAAAATTTTTAGACAGTTATTGAAGGTGTTTATTCCAAGAAAATGCCTTCACTAATTC
66 CCACTACTAAAATTTTTAGACAGTTATTGAAGGCGTTTATTCTAAGAAAATGCCTTCACTAATTC
11643822 ATTTAAATTTTTGAAAGAATTTATTGAAGGCATTTTTTGCATTATACGCCTTCAAT-
131 ATTTAAATTTTTGAAAGAATTTATTGAAGGCATTTTTTGCATTATACGCCTTCAATA
* * ***
11643878 AA---TTTTTGTAAATTGTTTCG-GATTATTAAAGGTGCCTTCTAGTAGAAAATACCTTCAATAT
1 AATTTTTTTTATAAATTATTT-GAGATTATTAAAGGCATCTTCTAGTAGAAAATACCTTCAATAT
* *
11643939 TCCACTACTAAAATTTTTAGATAGTTATTGAAGGTGTTTATTCTAAGAAAATGCCTTCACTAATT
65 TCCACTACTAAAATTTTTAGACAGTTATTGAAGGCGTTTATTCTAAGAAAATGCCTTCACTAATT
* * *
11644004 CATTTAAATTTTTGAAGGAATTTATTGAAGGCATTTTTCT-CATCATATGCCTTCA
130 CATTTAAATTTTTGAAAGAATTTATTGAAGGCATTTTT-TGCATTATACGCCTTCA
11644059 CTAATAAATT
Statistics
Matches: 486, Mismatches: 53, Indels: 23
0.86 0.09 0.04
Matches are distributed among these distances:
177 47 0.10
178 1 0.00
180 1 0.00
181 107 0.22
183 112 0.23
184 1 0.00
187 210 0.43
188 7 0.01
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (187 bp):
AATTTTTTTTATAAATTATTTGAGATTATTAAAGGCATCTTCTAGTAGAAAATACCTTCAATATT
CCACTACTAAAATTTTTAGACAGTTATTGAAGGCGTTTATTCTAAGAAAATGCCTTCACTAATTC
ATTTAAATTTTTGAAAGAATTTATTGAAGGCATTTTTTGCATTATACGCCTTCAATA
Found at i:11643849 original size:62 final size:59
Alignment explanation
Indices: 11643766--11644034 Score: 151
Period size: 62 Copynumber: 4.4 Consensus size: 59
11643756 CCCACTACTA
* *
11643766 AAATTTTT-AGACAGTTATTGAAGGTGTTTATTCCAAGAAAATGCCTTCACTAATTCATTT
1 AAATTTTTGAGA-ATTTATTGAAGGTGTTTATTCC-AGAAAATGCCTTCAATAATTCATTT
** * * ** * * *
11643826 AAATTTTTGAAAGAATTTATTGAAGGCATTTTTTGCATTATACGCCTTCAATAATT-TTTGT
1 AAATTTTTG--AGAATTTATTGAAGGTGTTTATTCCAGAAAATGCCTTCAATAATTCATT-T
* * *
11643887 AAATTGTTTCG-G-A-TTATTAAAGGTGCCTTCTAGT--AGAAAATACCTTCAAT-ATTCCACTA
1 AAATT-TTT-GAGAATTTATTGAAGGTG--TT-TATTCCAGAAAATGCCTTCAATAATT-CA-T-
*
11643946 CTA
58 -TT
* * *
11643949 AAATTTTT-AGATAGTTATTGAAGGTGTTTATTCTAAGAAAATGCCTTCACTAATTCATTT
1 AAATTTTTGAGA-ATTTATTGAAGGTGTTTATTC-CAGAAAATGCCTTCAATAATTCATTT
11644009 AAATTTTTGAAGGAATTTATTGAAGG
1 AAATTTTTG-A-GAATTTATTGAAGG
11644035 CATTTTTCTC
Statistics
Matches: 155, Mismatches: 29, Indels: 48
0.67 0.12 0.21
Matches are distributed among these distances:
58 12 0.08
59 12 0.08
60 26 0.17
61 29 0.19
62 39 0.25
63 34 0.22
64 3 0.02
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (59 bp):
AAATTTTTGAGAATTTATTGAAGGTGTTTATTCCAGAAAATGCCTTCAATAATTCATTT
Found at i:11644028 original size:364 final size:367
Alignment explanation
Indices: 11643316--11644056 Score: 1060
Period size: 364 Copynumber: 2.0 Consensus size: 367
11643306 TGTAAAACAT
* *
11643316 CTTTAATAATTTTCTTTTATAAATTGTTTGGGATTATTAAAGGCATCTTCTAGTAAAAAATACCT
1 CTTTAATAATTTTCTTTTATAAATTATTTGAGATTATTAAAGGCATCTTCTAGTAAAAAATACCT
* *
11643381 TCAATGTTCCATAACTAAAATTTTTAGACAGTTATTGAAGGCATTTATTCTAAAAAAATGCTTTC
66 TC-----TCCATAACTAAAATTTTTAGACAGTTATTGAAGGCATTTATTCCAAAAAAATGCCTTC
*
11643446 ACTAATTCATCTAAATTTTTGAAGGAATTTATTGAAGGCATTTTTTGCATTATACGCCTTCAATA
126 ACTAATTCATCTAAATTTTTGAAAGAATTTATTGAAGGCATTTTTTGCATTATACGCCTTCAATA
* ** *
11643511 AATTTTTTTTATAAATTATTTTAGATTATTAAAGGCATTTTCTAGTAGAAAATGCCTTCAATATT
191 AA--TTTTTTATAAATTATTTCAGATTATTAAAGGCACCTTCTAGTAGAAAATACCTTCAATATT
* * *
11643576 TCACTACTAAAATTTTTAGATAGTTATTGAAGGCGTTTATTCTAAGAAAATGCTTTCACTAATTT
254 CCACTACTAAAATTTTTAGATAGTTATTGAAGGCGTTTATTCTAAGAAAATGCCTTCACTAATTC
* * * * *
11643641 GTTTGAATTTTTAAAATAATTTATTAAAGGTATTTTT-TGCATTATATGC
319 ATTTAAATTTTTAAAAGAATTTATTAAAGGCATTTTTCT-CATCATATGC
* * * *
11643690 CTTTAATAATTTTTTTTTATAAATTATTTGAGATTATTAAAGGCGTCTTCTAGTAGAAAATAGCT
1 CTTTAATAATTTTCTTTTATAAATTATTTGAGATTATTAAAGGCATCTTCTAGTAAAAAATACCT
** *
11643755 TC-CCACT-ACTAAAATTTTTAGACAGTTATTGAAGGTGTTTATTCCAAGAAAATGCCTTCACTA
66 TCTCCA-TAACTAAAATTTTTAGACAGTTATTGAAGGCATTTATTCCAAAAAAATGCCTTCACTA
*
11643818 ATTCATTTAAATTTTTGAAAGAATTTATTGAAGGCATTTTTTGCATTATACGCCTTCAAT-AA-T
130 ATTCATCTAAATTTTTGAAAGAATTTATTGAAGGCATTTTTTGCATTATACGCCTTCAATAAATT
* * * **
11643881 TTTTGTAAATTGTTTCGGATTATTAAAGGTGCCTTCTAGTAGAAAATACCTTCAATATTCCACTA
195 TTTTATAAATTATTTCAGATTATTAAAGGCACCTTCTAGTAGAAAATACCTTCAATATTCCACTA
*
11643946 CTAAAATTTTTAGATAGTTATTGAAGGTGTTTATTCTAAGAAAATGCCTTCACTAATTCATTTAA
260 CTAAAATTTTTAGATAGTTATTGAAGGCGTTTATTCTAAGAAAATGCCTTCACTAATTCATTTAA
* * *
11644011 ATTTTTGAAGGAATTTATTGAAGGCATTTTTCTCATCATATGC
325 ATTTTTAAAAGAATTTATTAAAGGCATTTTTCTCATCATATGC
11644054 CTT
1 CTT
11644057 CACTAATAAA
Statistics
Matches: 331, Mismatches: 34, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
364 154 0.47
365 1 0.00
367 2 0.01
368 112 0.34
369 1 0.00
374 61 0.18
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (367 bp):
CTTTAATAATTTTCTTTTATAAATTATTTGAGATTATTAAAGGCATCTTCTAGTAAAAAATACCT
TCTCCATAACTAAAATTTTTAGACAGTTATTGAAGGCATTTATTCCAAAAAAATGCCTTCACTAA
TTCATCTAAATTTTTGAAAGAATTTATTGAAGGCATTTTTTGCATTATACGCCTTCAATAAATTT
TTTATAAATTATTTCAGATTATTAAAGGCACCTTCTAGTAGAAAATACCTTCAATATTCCACTAC
TAAAATTTTTAGATAGTTATTGAAGGCGTTTATTCTAAGAAAATGCCTTCACTAATTCATTTAAA
TTTTTAAAAGAATTTATTAAAGGCATTTTTCTCATCATATGC
Found at i:11644653 original size:28 final size:28
Alignment explanation
Indices: 11644599--11644664 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 28
11644589 TGTAGTCTGT
* * *
11644599 TGAATGGTAATGTGTGACATCGTTATGC
1 TGAATGGTATTGTATGACATCGGTATGC
* *
11644627 TGAATGGTATTGTATGATATTGGTATGC
1 TGAATGGTATTGTATGACATCGGTATGC
*
11644655 TGAATTGTAT
1 TGAATGGTAT
11644665 GCTGCATGGT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.26, C:0.06, G:0.27, T:0.41
Consensus pattern (28 bp):
TGAATGGTATTGTATGACATCGGTATGC
Found at i:11644679 original size:12 final size:12
Alignment explanation
Indices: 11644624--11644832 Score: 66
Period size: 12 Copynumber: 17.1 Consensus size: 12
11644614 GACATCGTTA
11644624 TGCTGAATGGTAT
1 TGCTGAATGGT-T
* *
11644637 TGTATGATATTGGTA
1 TG-CTGA-A-TGGTT
* *
11644652 TGCTGAATTGTA
1 TGCTGAATGGTT
*
11644664 TGCTGCATGGTT
1 TGCTGAATGGTT
* *
11644676 TGCTAAATGCTT
1 TGCTGAATGGTT
*
11644688 TACT-ATATGGTT
1 TGCTGA-ATGGTT
*
11644700 TGCTGAATGATT
1 TGCTGAATGGTT
11644712 TGCTGAAT-GTT
1 TGCTGAATGGTT
****
11644723 T-CTGAACACAT
1 TGCTGAATGGTT
* *
11644734 TGTTGATTGGTT
1 TGCTGAATGGTT
*
11644746 TGCTAAATGGTGT
1 TGCTGAATGGT-T
** ****
11644759 TTATGAAAACAT
1 TGCTGAATGGTT
**
11644771 TGCTGAATCATT
1 TGCTGAATGGTT
11644783 TGCT-ATATGGTT
1 TGCTGA-ATGGTT
*
11644795 TGCTAAATGGTGT
1 TGCTGAATGGT-T
* *
11644808 TTCTCAATGGTT
1 TGCTGAATGGTT
*
11644820 TTCTGAATGGTT
1 TGCTGAATGGTT
11644832 T
1 T
11644833 TTATGAACAC
Statistics
Matches: 140, Mismatches: 45, Indels: 23
0.67 0.22 0.11
Matches are distributed among these distances:
10 5 0.04
11 7 0.05
12 95 0.68
13 20 0.14
14 6 0.04
15 3 0.02
16 4 0.03
ACGTcount: A:0.23, C:0.10, G:0.23, T:0.44
Consensus pattern (12 bp):
TGCTGAATGGTT
Found at i:11644771 original size:37 final size:37
Alignment explanation
Indices: 11644699--11644947 Score: 175
Period size: 37 Copynumber: 6.8 Consensus size: 37
11644689 ACTATATGGT
* * *
11644699 TTGCTGAATGATTTGCTGAA---TGTTTCTGAACACA
1 TTGCTGATTGGTTTGCTGAATGGTGTTTATGAACACA
* * *
11644733 TTGTTGATTGGTTTGCTAAATGGTGTTTATGAAAACA
1 TTGCTGATTGGTTTGCTGAATGGTGTTTATGAACACA
* ** ** * ****
11644770 TTGCTGAATCATTTGCT-ATATGGT-TTGCTAAATGGTG
1 TTGCTGATTGGTTTGCTGA-ATGGTGTTTATGAA-CACA
* * * * *
11644807 TTTCTCAATGGTTTTCTGAATGGTTTTTATGAACACA
1 TTGCTGATTGGTTTGCTGAATGGTGTTTATGAACACA
* * *
11644844 TTGTTGATTGGTTTGATGAATGGTGTTTTTCGAACACA
1 TTGCTGATTGGTTTGCTGAATGGTGTTTAT-GAACACA
* * *
11644882 TTGCTGATTGGTTTGTTGAATGGTGTTTTTTGAACCCA
1 TTGCTGATTGGTTTGCTGAATGGTG-TTTATGAACACA
*
11644920 TTGCTGATTGGTTTACTGAATGGTGTTT
1 TTGCTGATTGGTTTGCTGAATGGTGTTT
11644948 TTGTACGTAG
Statistics
Matches: 164, Mismatches: 42, Indels: 15
0.74 0.19 0.07
Matches are distributed among these distances:
34 16 0.10
36 6 0.04
37 72 0.44
38 65 0.40
39 5 0.03
ACGTcount: A:0.22, C:0.10, G:0.24, T:0.45
Consensus pattern (37 bp):
TTGCTGATTGGTTTGCTGAATGGTGTTTATGAACACA
Found at i:11644890 original size:38 final size:37
Alignment explanation
Indices: 11644823--11644950 Score: 179
Period size: 38 Copynumber: 3.4 Consensus size: 37
11644813 AATGGTTTTC
*
11644823 TGAATGGT-TTTTATGAACACATTGTTGATTGGTTTGA
1 TGAATGGTGTTTT-TGAACACATTGCTGATTGGTTTGA
*
11644860 TGAATGGTGTTTTTCGAACACATTGCTGATTGGTTTGT
1 TGAATGGTGTTTTT-GAACACATTGCTGATTGGTTTGA
*
11644898 TGAATGGTGTTTTTTGAACCCATTGCTGATTGGTTT-A
1 TGAATGGTG-TTTTTGAACACATTGCTGATTGGTTTGA
11644935 CTGAATGGTGTTTTTG
1 -TGAATGGTGTTTTTG
11644951 TACGTAGTAT
Statistics
Matches: 83, Mismatches: 4, Indels: 8
0.87 0.04 0.08
Matches are distributed among these distances:
37 15 0.18
38 63 0.76
39 5 0.06
ACGTcount: A:0.20, C:0.09, G:0.26, T:0.46
Consensus pattern (37 bp):
TGAATGGTGTTTTTGAACACATTGCTGATTGGTTTGA
Found at i:11645019 original size:61 final size:62
Alignment explanation
Indices: 11644923--11645042 Score: 179
Period size: 61 Copynumber: 2.0 Consensus size: 62
11644913 GAACCCATTG
* * *
11644923 CTGATTGGTTTACTGAATGGTGTTTTTGTACGTAGTATGATGTTGGTTGTATGTAATTATTA
1 CTGATTGGTTTACTGAATGGTGTTTTTATACGTAGTATGATATTAGTTGTATGTAATTATTA
* * *
11644985 CTGATTGGTTTGCTG-ATGGTGTTTTTATACGTAGTATGGTATTAGTTGTATTTAATTA
1 CTGATTGGTTTACTGAATGGTGTTTTTATACGTAGTATGATATTAGTTGTATGTAATTA
11645043 CGTACAATGT
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
61 38 0.73
62 14 0.27
ACGTcount: A:0.21, C:0.05, G:0.25, T:0.49
Consensus pattern (62 bp):
CTGATTGGTTTACTGAATGGTGTTTTTATACGTAGTATGATATTAGTTGTATGTAATTATTA
Found at i:11648487 original size:126 final size:127
Alignment explanation
Indices: 11648262--11648506 Score: 309
Period size: 126 Copynumber: 1.9 Consensus size: 127
11648252 CTAATAAAAT
* *
11648262 ATTATTGAAGGCATTTTTCACCAAAACCACCTTCATTAATCCCACCTAAAAATTTATAGTGTGGA
1 ATTATTGAAGGCATTTTTCACCAAAACCACCTTCAATAATCCCAACTAAAAATTTATAGTGTGGA
* * * * *
11648327 ATATTAAAGACGTTTTGGGCCAAAAATGCCTTTAAGCATCTGTTCCA-ACTTTTTTGTATGG
66 ATATTAAAGACGCTTTCGACCAAAAATACCTTTAAGAATCTGTTCCATACTTTTTTGTATGG
* ** * *
11648388 ATTATTGAAGGCATTTTTGA-CAACAACTGCCTTTAATAATCCCAACTAAAAATTTATTGAT-TG
1 ATTATTGAAGGCATTTTTCACCAA-AACCACCTTCAATAATCCCAACTAAAAATTTATAG-TGTG
* *
11648451 GATTATTGAAA-ATGCTTTCGACCAAAAATACCTTTAAGAATCTGTTCCATACTTTT
64 GAATATT-AAAGACGCTTTCGACCAAAAATACCTTTAAGAATCTGTTCCATACTTTT
11648507 CCTATAGATT
Statistics
Matches: 101, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
125 3 0.03
126 88 0.87
127 10 0.10
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (127 bp):
ATTATTGAAGGCATTTTTCACCAAAACCACCTTCAATAATCCCAACTAAAAATTTATAGTGTGGA
ATATTAAAGACGCTTTCGACCAAAAATACCTTTAAGAATCTGTTCCATACTTTTTTGTATGG
Found at i:11648552 original size:126 final size:126
Alignment explanation
Indices: 11648262--11648553 Score: 283
Period size: 126 Copynumber: 2.3 Consensus size: 126
11648252 CTAATAAAAT
* * * *
11648262 ATTATTGAAGGCATTTTTC-ACCAAAAC-CACCTTCATTAATCCCACCTAAAAATTTATAGTGTG
1 ATTATTGAAGGCA-TTTTCAACAAAAACTC-CCTTGAATAATCCCAACTAAAAATTTATAGTGTG
* * * * * ** *
11648325 GAATATTAAAGACGTTTTGGGCCAAAAATGCCTTTAAGCATCTGTTCCAACTTTTTTGTATGG
64 GAATATTAAAGACGCTTTCGACCAAAAATACCTTTAAGAATCTGTTCCAACTTTTTCCTATAG
** * * * *
11648388 ATTATTGAAGGCATTTTTGACAACAACTGCCTTTAATAATCCCAACTAAAAATTTATTGAT-TGG
1 ATTATTGAAGGCATTTTCAACAAAAACTCCCTTGAATAATCCCAACTAAAAATTTATAG-TGTGG
* *
11648452 ATTATTGAAA-ATGCTTTCGACCAAAAATACCTTTAAGAATCTGTTCCATAC-TTTTCCTATAG
65 AATATT-AAAGACGCTTTCGACCAAAAATACCTTTAAGAATCTGTTCCA-ACTTTTTCCTATAG
*
11648514 ATTGTT-AAGGGCATTTTCAACAAGAAAC-CCCTTGAATAAT
1 ATTATTGAA-GGCATTTTCAACAA-AAACTCCCTTGAATAAT
11648554 TCCTAACAAA
Statistics
Matches: 135, Mismatches: 24, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
125 6 0.04
126 120 0.89
127 9 0.07
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.35
Consensus pattern (126 bp):
ATTATTGAAGGCATTTTCAACAAAAACTCCCTTGAATAATCCCAACTAAAAATTTATAGTGTGGA
ATATTAAAGACGCTTTCGACCAAAAATACCTTTAAGAATCTGTTCCAACTTTTTCCTATAG
Found at i:11648807 original size:123 final size:124
Alignment explanation
Indices: 11648567--11648800 Score: 300
Period size: 123 Copynumber: 1.9 Consensus size: 124
11648557 TAACAAAATG
*
11648567 TTATTGAAGGCATTTTTGACCAAAACTGCCTTTAATAATCCCACCTAAAAATTTATTGTGTAGAA
1 TTATTGAAGGCATTTTTGACCAAAACTGCCTTCAATAATCCCACCTAAAAATTTATTGTGTAGAA
* * * **
11648632 TATGAAAGGCGTTTTGGACCAAAAATGCATTCAAGAATCCGTTCCAACTTTTTTTTGGA
66 TATGAAAGACCTTTCGGACCAAAAACACATTCAAGAATCCGTTCCAACTTTTTTTTGGA
*
11648691 TTATTGAAGGCATTTTTGA-CAAACACTGCCTTCAATAATTCC-CCTAAAAATTTATTGAT-T-G
1 TTATTGAAGGCATTTTTGACCAAA-ACTGCCTTCAATAATCCCACCTAAAAATTTATTG-TGTAG
* *
11648752 AATTATTG-AAGACACTTTCGG-TCAAAAACACATTCAAGAATCCTTTCCA
64 AA-TA-TGAAAGAC-CTTTCGGACCAAAAACACATTCAAGAATCCGTTCCA
11648801 TATTTTTCCT
Statistics
Matches: 96, Mismatches: 9, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
122 3 0.03
123 50 0.52
124 43 0.45
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.34
Consensus pattern (124 bp):
TTATTGAAGGCATTTTTGACCAAAACTGCCTTCAATAATCCCACCTAAAAATTTATTGTGTAGAA
TATGAAAGACCTTTCGGACCAAAAACACATTCAAGAATCCGTTCCAACTTTTTTTTGGA
Found at i:11661626 original size:4 final size:4
Alignment explanation
Indices: 11661609--11661641 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
11661599 TTACAGATGT
*
11661609 AAGA AA-A AAAA AAGA AAGA AAGA AAGA AAGA AA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AA
11661642 TAATGAAGGA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
3 3 0.11
4 24 0.89
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:11664222 original size:49 final size:52
Alignment explanation
Indices: 11664122--11664222 Score: 129
Period size: 53 Copynumber: 2.0 Consensus size: 52
11664112 AATAAATTTA
* *
11664122 AAGAAAAAGTTAAAATATTAATTTCTTCTTAAAATAAGAATAATTTCAAAAAG
1 AAGAAAAAGTTAAAACATTAATTTCTTCTT-AAATAAGAATAATTTAAAAAAG
*
11664175 AAGAAAAAGTTAAAAGCATTACTTT-TT-TT-AA-AAGAATAATTTAAAAAA
1 AAGAAAAAGTTAAAA-CATTAATTTCTTCTTAAATAAGAATAATTTAAAAAA
11664223 TTTGAGAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
49 16 0.36
50 2 0.05
52 2 0.05
53 17 0.39
54 7 0.16
ACGTcount: A:0.55, C:0.05, G:0.08, T:0.32
Consensus pattern (52 bp):
AAGAAAAAGTTAAAACATTAATTTCTTCTTAAATAAGAATAATTTAAAAAAG
Found at i:11664270 original size:54 final size:53
Alignment explanation
Indices: 11664197--11664915 Score: 398
Period size: 54 Copynumber: 13.2 Consensus size: 53
11664187 AAAGCATTAC
*
11664197 TTTT-TTTAA-AAGAATAATTTAAAAAATTTGAGAAAAAAGTTGAAATATCAA
1 TTTTCTTTAATAAAAATAATTTAAAAAATTTGAGAAAAAAGTTGAAATATCAA
* * * *
11664248 TTTTCTTTGAATAAAAATAATTT-TAAAATTTGAGAAAAAA-ATAAAATATTAAAA
1 TTTTCTTT-AATAAAAATAATTTAAAAAATTTGAGAAAAAAGTTGAAATA-T-CAA
* * * * * *
11664302 TTTCCTTAAAATAAAAGTAATTCCAAGAAAATTTGAGGAAAAA-TTGAAATATAAA
1 TTTTCTT-TAATAAAAATAATT-TAA-AAAATTTGAGAAAAAAGTTGAAATATCAA
* * * * * * *
11664357 TTTTCTTCAA-AAGAATAATTTCAAAATTTTGAGAAAAAAGATGGAATAACAAA
1 TTTTCTTTAATAAAAATAATTTAAAAAATTTGAGAAAAAAGTTGAAATATC-AA
* * * * * *
11664410 TTTTTCTTAAATAAAAATAATTT-CAAATTTTAAGAAAAAA-AT-AAAGTATTAA
1 -TTTTCTTTAATAAAAATAATTTAAAAAATTTGAGAAAAAAGTTGAAA-TATCAA
* * * *
11664462 TTTTTTCTTAAGGTAAAAATAATTTCAAGAAAATTTGA-ATGAAAAGTAGAAATATTAAA
1 TTTTCT-TTAA--TAAAAATAATTT-AA-AAAATTTGAGA-AAAAAGTTGAAATA-TCAA
* * * * *
11664521 TTTTGC-TCAAAAGAAAATAATTTCAAAATTTTGAGAAAAAAAAGTTGGAATA-CTAA
1 TTTT-CTTTAATA-AAAATAATTTAAAAAATTTGAG--AAAAAAGTTGAAATATC-AA
* * * *
11664577 TTTTTCCTTAAATAAAAATAATTT-TAAAATTTGAGAAAAACGTT-AAAGTATTAA
1 -TTTT-CTTTAATAAAAATAATTTAAAAAATTTGAGAAAAAAGTTGAAA-TATCAA
* * *
11664631 TATTTC-CTAA-ACAAAATAGTTTCAAAAAATTTGAGAAAAAAGTTGAAATATTAAA
1 T-TTTCTTTAATA-AAAATAATTT-AAAAAATTTGAGAAAAAAGTTGAAATA-TCAA
* *
11664686 TTTTCCTTACACAAAAATAATTTAAAAAAATTTGAGAAAAAAGTT-AAAGTATCAAA
1 TTTTCTTTA-ATAAAAATAATTT-AAAAAATTTGAGAAAAAAGTTGAAA-TATC-AA
* * * * *
11664742 TTTTCATTAAGCAAAAATAATTT-CAAATTTTGA-AAAAAAGTTGAAAGATCAA
1 TTTTCTTTAA-TAAAAATAATTTAAAAAATTTGAGAAAAAAGTTGAAATATCAA
* * * * * *
11664794 TTTTTTCCTTAAAATTAAAATAATTTCAAAAAATTAGAGGAAAGAGTTGAAATATTAA
1 --TTTT-CTT-TAATAAAAATAATTT-AAAAAATTTGAGAAAAAAGTTGAAATATCAA
* * * * * *
11664852 TTTTTCCTTAA-AAAAACAATTTCAAAAAGTTGAGAAAAAAATTAAAATATCAAA
1 -TTTTCTTTAATAAAAATAATTTAAAAAATTTGAGAAAAAAGTTGAAATATC-AA
*
11664906 TTTTCCTTAA
1 TTTTCTTTAA
11664916 AAGAAAACAC
Statistics
Matches: 518, Mismatches: 95, Indels: 108
0.72 0.13 0.15
Matches are distributed among these distances:
51 24 0.05
52 36 0.07
53 80 0.15
54 133 0.26
55 55 0.11
56 74 0.14
57 81 0.16
58 25 0.05
59 10 0.02
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (53 bp):
TTTTCTTTAATAAAAATAATTTAAAAAATTTGAGAAAAAAGTTGAAATATCAA
Found at i:11664606 original size:111 final size:107
Alignment explanation
Indices: 11664125--11664916 Score: 522
Period size: 111 Copynumber: 7.3 Consensus size: 107
11664115 AAATTTAAAG
* * *
11664125 AAAAAGTTAAAATATTAATTTCTT-CTTAAAATAAGAATAATTTCAAAAA---GA-AGAAAAAGT
1 AAAAAGTTGAAATA-TAATTT-TTCCTT-AAATAAAAATAATTTAAAAAATTTGAGA-AAAAAG-
* * * * *
11664185 TAAAAGCATT-ACTTTT-TTTAAAAGAATAATTTAAAAAATTTGAG-A
61 TAAAA-TATTAAATTTTCTTAAAAAAAATAATTTCAAAAATTTGAGAA
* * * *
11664230 AAAAAGTTGAAATATCAA-TTTTCTTTGAATAAAAATAATTT-TAAAATTTGAGAAAAAAATAAA
1 AAAAAGTTGAAATAT-AATTTTTCCTTAAATAAAAATAATTTAAAAAATTTGAGAAAAAAGTAAA
* * *
11664293 ATATTAAAATTTCCTTAAAATAAAAGTAATTCCAAGAAAATTTGAG-G
65 ATATT-AAATTTTCTTAAAA-AAAA-TAATTTC-A-AAAATTTGAGAA
* * * * * **
11664340 AAAAA-TTGAAATATAAATTTT-CTTCAA-AAGAATAATTTCAAAATTTTGAGAAAAAAGATGGA
1 AAAAAGTTGAAATATAATTTTTCCTTAAATAAAAATAATTTAAAAAATTTGAGAAAAAAG-TAAA
** * *
11664402 ATAACAAATTTTTCTTAAATAAAAATAATTTC-AAATTTTAAGAA
65 ATATTAAA-TTTTCTTAAA-AAAAATAATTTCAAAAATTTGAGAA
* * *
11664446 AAAAA--T-AAAGTATTAATTTTTTCTTAAGGTAAAAATAATTTCAAGAAAATTTGA-ATGAAAA
1 AAAAAGTTGAAA-TA-TAATTTTTCCTTAA-ATAAAAATAATTT-AA-AAAATTTGAGA-AAAAA
* *
11664507 GTAGAAATATTAAATTTTGCTCAAAAGAAAATAATTTCAAAATTTTGAGAAA
60 GTA-AAATATTAAATTTT-CTTAAAA-AAAATAATTTCAAAAATTTGAG-AA
* * *
11664559 AAAAAGTTGGAATACTAATTTTTCCTTAAATAAAAATAATTT-TAAAATTTGAGAAAAACGTTAA
1 AAAAAGTTGAAATA-TAATTTTTCCTTAAATAAAAATAATTTAAAAAATTTGAGAAAAAAG-TAA
* * * *
11664623 AGTATT-AATATTTCCTAAACAAAATAGTTTCAAAAAATTTGAG-A
64 AATATTAAAT-TTTCTTAAAAAAAATAATTTC-AAAAATTTGAGAA
* * *
11664667 AAAAAGTTGAAATATTAAATTTTCCTTACACAAAAATAATTTAAAAAAATTTGAGAAAAAAGTTA
1 AAAAAGTTGAAATA-TAATTTTTCCTTAAATAAAAATAATTT-AAAAAATTTGAGAAAAAAG-TA
* * * *
11664732 AAGTATCAAATTTTCATTAAGCAAAAATAATTTC--AAATTT-TGAA
63 AAATATTAAATTTTC-TTAA-AAAAAATAATTTCAAAAATTTGAGAA
* * * * *
11664776 AAAAAGTTGAAAGATCAATTTTTTCCTTAAAATTAAAATAATTTCAAAAAATTAGAGGAAAGAGT
1 AAAAAGTTGAAATAT-AA-TTTTTCCTT-AAATAAAAATAATTT-AAAAAATTTGAGAAAAAAG-
* * * *
11664841 TGAAATATTAATTTTTCCTT-AAAAAAACAATTTCAAAAAGTTGAGAA
61 TAAAATATTAAATTTT-CTTAAAAAAAATAATTTCAAAAATTTGAGAA
* *
11664888 AAAAA-TTAAAATATCAAATTTTCCTTAAA
1 AAAAAGTTGAAATAT-AATTTTTCCTTAAA
11664917 AGAAAACACT
Statistics
Matches: 547, Mismatches: 88, Indels: 100
0.74 0.12 0.14
Matches are distributed among these distances:
102 4 0.01
103 18 0.03
104 13 0.02
105 37 0.07
106 18 0.03
107 17 0.03
108 75 0.14
109 88 0.16
110 87 0.16
111 122 0.22
112 31 0.06
113 7 0.01
114 12 0.02
115 16 0.03
116 2 0.00
ACGTcount: A:0.52, C:0.06, G:0.09, T:0.33
Consensus pattern (107 bp):
AAAAAGTTGAAATATAATTTTTCCTTAAATAAAAATAATTTAAAAAATTTGAGAAAAAAGTAAAA
TATTAAATTTTCTTAAAAAAAATAATTTCAAAAATTTGAGAA
Found at i:11676032 original size:21 final size:22
Alignment explanation
Indices: 11676006--11676047 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
11675996 AAATGCAATA
*
11676006 AATTAA-ATGTAAAAAAATGAC
1 AATTAACAAGTAAAAAAATGAC
*
11676027 AATTAACAAGTAAAAATATGA
1 AATTAACAAGTAAAAAAATGA
11676048 AATAAAGAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.62, C:0.05, G:0.10, T:0.24
Consensus pattern (22 bp):
AATTAACAAGTAAAAAAATGAC
Found at i:11679876 original size:18 final size:18
Alignment explanation
Indices: 11679849--11679888 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
11679839 TAGATATAGG
* *
11679849 ATAAACATGAAAATAAAT
1 ATAAAAATGAAAATAAAA
11679867 ATAAAAATGAAAATAAAA
1 ATAAAAATGAAAATAAAA
11679885 ATAA
1 ATAA
11679889 TGAAAAACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.20
Consensus pattern (18 bp):
ATAAAAATGAAAATAAAA
Found at i:11680169 original size:305 final size:306
Alignment explanation
Indices: 11679601--11680170 Score: 928
Period size: 305 Copynumber: 1.9 Consensus size: 306
11679591 TAATGGATAT
**
11679601 CTACGTCTTTGCATAATTTTCTATTTCACAAAAAGTATGTAAAAAGGGGCAACTGTAGATATCCA
1 CTACGTCTTTGCATAATTTTCTATTTCACAAAAAGTATGTAAAAAGGGGCAACCATAGATATCCA
* *
11679666 TTTAAATCCAGAGCTTCTGAATTTTTCATCCAAGTTTTTCTTAGATCACAACCCAATTGCTCAAA
66 TTTAAATCCAGAGCTTCTGAATTTATCATCCAAGTTCTTCTTAGATCACAACCCAATTGCTCAAA
*
11679731 TTATTATTATTGGACTATAATAATTTGATTTTCATGGGCCATCTGACTTAGGTCTAATTAAAATT
131 TTATTATTATTGGACTATAATAATTTGATTTTCATGGGCCATCTGACTTAGGTATAATTAAAATT
* * *
11679796 TGGCTTATTTCTTTTGTTGGTATTATTATGCTTTAAATAGGATTAGATATAGGATAAACATGAAA
196 TGGCTTATTTCTTTTGTTGGTATTATTATGCTTCAAATAGGATAAGATATAGGATAAAAATGAAA
11679861 ATAAATATAAAAATGAAAATAAAAATAATGAAAAACAAATAGTTAA
261 ATAAATATAAAAATGAAAATAAAAATAATGAAAAACAAATAGTTAA
* * * * *
11679907 CTACGTCTTTGCATAA-TTTCTATTTCATAAAAATTATGTAAATATGGGTAACCATAGATATCCA
1 CTACGTCTTTGCATAATTTTCTATTTCACAAAAAGTATGTAAAAAGGGGCAACCATAGATATCCA
* * * *
11679971 TTTAAATCCAGAGCTTCTGAATTTATGATCCATGTTCTTCTTGGATCACAACCCAGTTGCTCAAA
66 TTTAAATCCAGAGCTTCTGAATTTATCATCCAAGTTCTTCTTAGATCACAACCCAATTGCTCAAA
* * *
11680036 TTATTATTATTGGACTGTAATAATTTGATTTTCATGGGCCATTTGAGTTAGGTATAATTAAAATT
131 TTATTATTATTGGACTATAATAATTTGATTTTCATGGGCCATCTGACTTAGGTATAATTAAAATT
*
11680101 TGGCTTATTTCTTTTGTTGGTATTATTATGCTTCAGATAGGATAAGATATTA-GATAAAAATGAA
196 TGGCTTATTTCTTTTGTTGGTATTATTATGCTTCAAATAGGATAAGATA-TAGGATAAAAATGAA
11680165 AATAAA
260 AATAAA
11680171 AAAATGAAAA
Statistics
Matches: 242, Mismatches: 21, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
305 224 0.93
306 18 0.07
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (306 bp):
CTACGTCTTTGCATAATTTTCTATTTCACAAAAAGTATGTAAAAAGGGGCAACCATAGATATCCA
TTTAAATCCAGAGCTTCTGAATTTATCATCCAAGTTCTTCTTAGATCACAACCCAATTGCTCAAA
TTATTATTATTGGACTATAATAATTTGATTTTCATGGGCCATCTGACTTAGGTATAATTAAAATT
TGGCTTATTTCTTTTGTTGGTATTATTATGCTTCAAATAGGATAAGATATAGGATAAAAATGAAA
ATAAATATAAAAATGAAAATAAAAATAATGAAAAACAAATAGTTAA
Found at i:11682503 original size:7 final size:7
Alignment explanation
Indices: 11682493--11682541 Score: 50
Period size: 7 Copynumber: 7.3 Consensus size: 7
11682483 ATAAAAAGAT
11682493 AAAATTA
1 AAAATTA
11682500 AAAA--A
1 AAAATTA
*
11682505 CAAAATCA
1 -AAAATTA
11682513 -AAATTA
1 AAAATTA
11682519 AAAATTA
1 AAAATTA
11682526 AAAATTA
1 AAAATTA
*
11682533 AAAAATA
1 AAAATTA
11682540 AA
1 AA
11682542 TTTAATAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
5 1 0.03
6 9 0.25
7 25 0.69
8 1 0.03
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (7 bp):
AAAATTA
Found at i:11682699 original size:3 final size:3
Alignment explanation
Indices: 11682686--11682747 Score: 108
Period size: 3 Copynumber: 20.7 Consensus size: 3
11682676 TATTTTCCAA
11682686 ATT AGTT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-T
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
11682731 ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT AT
11682748 CGATGAGATG
Statistics
Matches: 57, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.04
3 52 0.91
4 3 0.05
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:11682940 original size:16 final size:16
Alignment explanation
Indices: 11682919--11682953 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
11682909 ATTTAAATTA
11682919 CATGAATCAAAGTATT
1 CATGAATCAAAGTATT
*
11682935 CATGAATCAAATTATT
1 CATGAATCAAAGTATT
11682951 CAT
1 CAT
11682954 AAATTTAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (16 bp):
CATGAATCAAAGTATT
Found at i:11683010 original size:21 final size:21
Alignment explanation
Indices: 11682986--11683025 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
11682976 TTCATAAGCC
*
11682986 TAATTAATTGTGGATAATGTA
1 TAATTAATTATGGATAATGTA
11683007 TAATTAATTATGGATAATG
1 TAATTAATTATGGATAATG
11683026 CACTTCATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.42
Consensus pattern (21 bp):
TAATTAATTATGGATAATGTA
Found at i:11683277 original size:36 final size:36
Alignment explanation
Indices: 11683230--11683301 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
11683220 TTAAGTAAAG
11683230 ATAGTTTTGGATTGACTGTTGTACGATGTTCTTCAA
1 ATAGTTTTGGATTGACTGTTGTACGATGTTCTTCAA
11683266 ATAGTTTTGGATTGACTGTTGTACGATGTTCTTCAA
1 ATAGTTTTGGATTGACTGTTGTACGATGTTCTTCAA
11683302 GGAATTACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.22, C:0.11, G:0.22, T:0.44
Consensus pattern (36 bp):
ATAGTTTTGGATTGACTGTTGTACGATGTTCTTCAA
Found at i:11690450 original size:144 final size:143
Alignment explanation
Indices: 11690302--11690652 Score: 395
Period size: 144 Copynumber: 2.4 Consensus size: 143
11690292 TCAAGGCCAG
* * * ** *
11690302 ATTTTTGTGAAATGTTTCAGATTTTAATTTTATAATATTTTATGATTTTCGGTGCATTTAAAATG
1 ATTTTTGTGAAAT-TTTCAGATCTTAATTTCATAATATTTTATAATTTTTAGTGCATTTAAAATC
* ** * *
11690367 ACAATAGTACCTTGAGAAG-GAAAAATTACCAAAATATCCTTATAGGGGTTTTTTCATAATTTAG
65 ACAACAGTACCCCGAGAAGTGAAAAATTACCAAAATACCCTTATAGGGG-TATTTCATAATTTAG
* *
11690431 CTTTTCTGAGCTCGA
129 CCTTTCTAAGCTCGA
* * * *
11690446 A-TTTTGATGAAACTTTTTAGATCTTAATTTCATAATATTTCATAATTTTTAGTGCATCTGAAAT
1 ATTTTTG-TGAAA-TTTTCAGATCTTAATTTCATAATATTTTATAATTTTTAGTGCATTTAAAAT
* * ** * * *
11690510 CATAGCAGTACCCCGAGAAGTGTGAAATTATCAAAATACCCTTATAGGGGTATTTCGTAATTTGG
64 CACAACAGTACCCCGAGAAGTGAAAAATTACCAAAATACCCTTATAGGGGTATTTCATAATTTAG
11690575 CCTTTCTAAGCTCGA
129 CCTTTCTAAGCTCGA
*
11690590 ATTTTCT-TGAAACTTTCTAGATCTTAATTTCATAATATTTTATAATTTTTAGTGC-TTTAAAAT
1 ATTTT-TGTGAAATTTTC-AGATCTTAATTTCATAATATTTTATAATTTTTAGTGCATTTAAAAT
11690653 TCTAAAAATG
Statistics
Matches: 172, Mismatches: 29, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
143 14 0.08
144 128 0.74
145 29 0.17
146 1 0.01
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (143 bp):
ATTTTTGTGAAATTTTCAGATCTTAATTTCATAATATTTTATAATTTTTAGTGCATTTAAAATCA
CAACAGTACCCCGAGAAGTGAAAAATTACCAAAATACCCTTATAGGGGTATTTCATAATTTAGCC
TTTCTAAGCTCGA
Found at i:11694179 original size:14 final size:14
Alignment explanation
Indices: 11694153--11694248 Score: 83
Period size: 14 Copynumber: 7.1 Consensus size: 14
11694143 TTAGTTTTGG
*
11694153 GGTTTAGGGTTTAA
1 GGTTTAAGGTTTAA
* *
11694167 GGTTTGAGATTT-A
1 GGTTTAAGGTTTAA
*
11694180 GGATTTAAGATTTAA
1 GG-TTTAAGGTTTAA
*
11694195 GGTTTAAGGTTTGA
1 GGTTTAAGGTTTAA
*
11694209 TGTTTAAGGTTTAA
1 GGTTTAAGGTTTAA
**
11694223 GGTTTGGGGTTT-A
1 GGTTTAAGGTTTAA
11694236 GGTTT--GGTTTAA
1 GGTTTAAGGTTTAA
11694248 G
1 G
11694249 ATTTCATGGA
Statistics
Matches: 68, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
11 5 0.07
12 2 0.03
13 9 0.13
14 49 0.72
15 3 0.04
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.45
Consensus pattern (14 bp):
GGTTTAAGGTTTAA
Found at i:11694234 original size:21 final size:21
Alignment explanation
Indices: 11694153--11694240 Score: 79
Period size: 21 Copynumber: 4.2 Consensus size: 21
11694143 TTAGTTTTGG
* * *
11694153 GGTTTAGGGTTTAAGGTTTGA
1 GGTTTAAGGTTTGAGGTTTAA
* * * * *
11694174 GATTTAGGATTTAAGATTTAA
1 GGTTTAAGGTTTGAGGTTTAA
*
11694195 GGTTTAAGGTTTGATGTTTAA
1 GGTTTAAGGTTTGAGGTTTAA
*
11694216 GGTTTAAGGTTTGGGGTTT-A
1 GGTTTAAGGTTTGAGGTTTAA
11694236 GGTTT
1 GGTTT
11694241 GGTTTAAGAT
Statistics
Matches: 55, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
20 6 0.11
21 49 0.89
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.45
Consensus pattern (21 bp):
GGTTTAAGGTTTGAGGTTTAA
Found at i:11694766 original size:48 final size:48
Alignment explanation
Indices: 11694689--11694782 Score: 125
Period size: 48 Copynumber: 2.0 Consensus size: 48
11694679 AATCATCATA
* *
11694689 GCCGAACTTTCAAAGTATCATCAAACTCACCTTTACATCCCATTTTTG
1 GCCGAACCTTCAAAGTATCACCAAACTCACCTTTACATCCCATTTTTG
* * * * *
11694737 GCCGAACCTTCAAAGTATTACCAAGCTCACTTTTTCATGCCATTTT
1 GCCGAACCTTCAAAGTATCACCAAACTCACCTTTACATCCCATTTT
11694783 ACTTAGACAT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.34
Consensus pattern (48 bp):
GCCGAACCTTCAAAGTATCACCAAACTCACCTTTACATCCCATTTTTG
Found at i:11696851 original size:29 final size:30
Alignment explanation
Indices: 11696819--11696896 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 30
11696809 AATTAACAAA
* * *
11696819 TTTATAATTTAGATATCATATTAGATA-TT
1 TTTATAATTTAAATATCAAATTAAATATTT
* *
11696848 TTTAAAATTCAAATATCAAATTAAATATTT
1 TTTATAATTTAAATATCAAATTAAATATTT
*
11696878 TATTATAATTTAAAAATCA
1 T-TTATAATTTAAATATCA
11696897 TTCATGACAT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
29 22 0.56
30 3 0.08
31 14 0.36
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (30 bp):
TTTATAATTTAAATATCAAATTAAATATTT
Found at i:11698301 original size:2 final size:2
Alignment explanation
Indices: 11698294--11698328 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
11698284 CCCAGTTTTC
11698294 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 T
11698329 TTCGCCTTTA
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11699953 original size:27 final size:26
Alignment explanation
Indices: 11699901--11699958 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
11699891 ATAAAATAAG
*
11699901 ATAATATTATTTAATCTAATCTTATTT
1 ATAATATTATTTAATCTAATCCTA-TT
11699928 ATAATATTATATT-ATC-ATATCCTATT
1 ATAATATTAT-TTAATCTA-ATCCTATT
11699954 ATAAT
1 ATAAT
11699959 TTTGTATACC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 8 0.29
27 18 0.64
28 2 0.07
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.52
Consensus pattern (26 bp):
ATAATATTATTTAATCTAATCCTATT
Found at i:11711018 original size:11 final size:11
Alignment explanation
Indices: 11711000--11711030 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
11710990 AATCTCATAA
11711000 GAGATTTGTTT
1 GAGATTTGTTT
*
11711011 GGGATTTGTTT
1 GAGATTTGTTT
11711022 GAGATTTGT
1 GAGATTTGT
11711031 CAGATATTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.32, T:0.52
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:11711142 original size:52 final size:52
Alignment explanation
Indices: 11711055--11711200 Score: 190
Period size: 52 Copynumber: 2.8 Consensus size: 52
11711045 TGGACAAAAA
* * *
11711055 AACTTGCAAAAGAAGAATTCTAAGA-GAAAGAGGATTCTTAATAGGTAAGTTT
1 AACTTGCAAGAGAAGAATTCTAAGAGGAAAG-GGATTCTTAATAGGCAAGCTT
*
11711107 AACTTGCAAGAGAAGAATTCTAAAAGGAAAGGGATTCTTAATAGGCAAGCTT
1 AACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGCTT
* *
11711159 GACTT--ATAGAAGAAGAATTCTAAGAGGAGAGGGATTCTTAAT
1 AACTTGCA-AG-AGAAGAATTCTAAGAGGAAAGGGATTCTTAAT
11711201 GAGCAAGTTT
Statistics
Matches: 84, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
50 1 0.01
51 2 0.02
52 76 0.90
53 5 0.06
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.25
Consensus pattern (52 bp):
AACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGCTT
Found at i:11712531 original size:226 final size:224
Alignment explanation
Indices: 11712139--11712573 Score: 717
Period size: 226 Copynumber: 1.9 Consensus size: 224
11712129 CTTGTAAGTA
* * * *
11712139 TTTAAAATTTAAAAATGCGTATTAATATAGATAGAATTTTATGCATAAGATGTTGAAACTTGAGA
1 TTTAAAATTAAAAAATGCATATTAATATAGATAGAATTTTATGCATAAGATGTTGAAACATAAGA
* * * *
11712204 ATAAGGAATATGGATTGTAAGTATTGATATTCGAATTCTAAACTTGTTGATGCTATCTTTCAAAA
66 ATAAGGAAAATGGATTGTAAGTACTGATATTCAAATTCTAAACTTGTTGATGCTACCTTTCAAAA
* * *
11712269 ATGATTATATGAATCAATTGAGTTAAACTCTTAGTTCATATTAATATAAAGAGTTTTGATTTTAC
131 ATGATTATATAAATCAATTAAGTTAAAATCTTAGTTCATATTAATATAAAGAGTTTTGATTTTAC
11712334 ATTAACGAAAAAAAGTACTGATATAATTT
196 ATTAACGAAAAAAAGTACTGATATAATTT
11712363 TTTAAAATTAAAAAATGCATATTAATATAGATAGAATTTTTAATGCATAAGATGTTGAAACATAA
1 TTTAAAATTAAAAAATGCATATTAATATAGATAGAA-TTTT-ATGCATAAGATGTTGAAACATAA
* *
11712428 GAATAAGGAAAATGGATTGTAAGTACTGATATTCAAATTTTAAACTTGTTGATGCTACCTTTTAA
64 GAATAAGGAAAATGGATTGTAAGTACTGATATTCAAATTCTAAACTTGTTGATGCTACCTTTCAA
* *
11712493 GAATGATTATATAAATCGATTAAGTTAAAATCTTAGTTCATATTAATATAAAGAGTTTTGATTTT
129 AAATGATTATATAAATCAATTAAGTTAAAATCTTAGTTCATATTAATATAAAGAGTTTTGATTTT
11712558 ACATTAACGAAAAAAA
194 ACATTAACGAAAAAAA
11712574 AGTAATCAAT
Statistics
Matches: 194, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
224 34 0.18
225 4 0.02
226 156 0.80
ACGTcount: A:0.42, C:0.07, G:0.14, T:0.37
Consensus pattern (224 bp):
TTTAAAATTAAAAAATGCATATTAATATAGATAGAATTTTATGCATAAGATGTTGAAACATAAGA
ATAAGGAAAATGGATTGTAAGTACTGATATTCAAATTCTAAACTTGTTGATGCTACCTTTCAAAA
ATGATTATATAAATCAATTAAGTTAAAATCTTAGTTCATATTAATATAAAGAGTTTTGATTTTAC
ATTAACGAAAAAAAGTACTGATATAATTT
Found at i:11713818 original size:21 final size:21
Alignment explanation
Indices: 11713774--11713818 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
11713764 TATATTCATA
* *
11713774 AAATTGAATTTATGAATTTAT
1 AAATTGAATTTATAAATATAT
11713795 AAATTGAATATTATAAATAT-T
1 AAATTGAAT-TTATAAATATAT
11713816 AAA
1 AAA
11713819 ATATTTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (21 bp):
AAATTGAATTTATAAATATAT
Found at i:11713820 original size:22 final size:20
Alignment explanation
Indices: 11713772--11713820 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 20
11713762 TTTATATTCA
*
11713772 TAAAATTGAATTTATGAATT
1 TAAAATTGAATTTATAAATT
11713792 TATAAATTGAATATTATAAATAT
1 TA-AAATTGAAT-TTATAAAT-T
11713815 TAAAAT
1 TAAAAT
11713821 ATTTAAATAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 2 0.08
21 9 0.36
22 11 0.44
23 3 0.12
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (20 bp):
TAAAATTGAATTTATAAATT
Found at i:11715634 original size:320 final size:319
Alignment explanation
Indices: 11715043--11716407 Score: 1360
Period size: 320 Copynumber: 4.3 Consensus size: 319
11715033 AAGTGCTAAA
* * *
11715043 CACACATATCATTCATGAAAATCAAATTCAATCATTC-GAACAAGTTTAATACCATGTATTTAAG
1 CACACATATCAAT-ATGAAAATCAAGTTCAATCATTCAG-ACAAGTTTAATATCATGTATTTAAG
* * * * *
11715107 CTATCTAAACTATTAAAATAGAAATATAATTGA-AAAATTACATTTTTAC-CTTTTAACAACATA
64 CTATCTAAACTGTTAAAATA-AAAAATAACT-ATAAAATCACATTTTTACTC-TTTAACAACACA
* * * **
11715170 AAATA-TCCTAAACAGACATAAACAATAACTTTTTCACAC--GTCAA-TCGTGGAAAAGAACATC
126 AAA-AGTCCTAAACAAACATAAACAATAACTTTTTCACACATATCAACT-GT-GAAAACAAGTTC
* * * * * * *
11715231 AATCATTTGGATAATTTTAATATCATATATTGAAGCTATCCAAACTGTTAAAA-AGGAACAACAA
188 AATCATTCGAACAAGTTTAATATCATATATTGAAGCTATCTAAACAGTTAAAATA-GAACAATAA
* * * *
11715295 CTGCAAATTTGC-T-TTTTTACCTTTTAACACCACAAAAAGTCCTAAACATATATAAA-TGATAA
252 CTGCAAA-CT-CATATTTTTACTTTTTAACAGCACAAAAAGTCCTAAACATATATAAACCG-TAA
11715357 CTTTTT
314 CTTTTT
*
11715363 CACACATATCAATAGTAAAAATCAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTTAAGC
1 CACACATATCAATA-TGAAAATCAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTTAAGC
* * * *
11715428 TATGTAAATTGTTAAAATAAAAATATAACTATAAAATTACTTTTTTACTCTTTAACAACACAAAA
65 TATCTAAACTGTTAAAATAAAAA-ATAACTATAAAATCACATTTTTACTCTTTAACAACACAAAA
* * *
11715493 AGTCCTAAACAAACATAAACAGTAACTTTTTCACACATATCAACTGTGAAAA-AATTTCAATTAT
129 AGTCCTAAACAAACATAAACAATAACTTTTTCACACATATCAACTGTGAAAACAAGTTCAATCAT
* * * *
11715557 TTGGACAAGTTTAATATCATATATTGAAGCTATGTAAACAGTTAAAATA-AACCAATAACTGTAA
194 TCGAACAAGTTTAATATCATATATTGAAGCTATCTAAACAGTTAAAATAGAA-CAATAACTGCAA
*** * *
11715621 ACTCATATTTTTACTTTTTATTGGCACAAAAAGTCCTAAACAAATATAAAATCGTAACTTTTT
258 ACTCATATTTTTACTTTTTAACAGCACAAAAAGTCCTAAACATATAT-AAACCGTAACTTTTT
* * *
11715684 CACACATATCAACCATAAAAATCAAGTTCAATCATTC-GAACAAGTTTAATATCATGTATTGAAG
1 CACACATATCAA-TATGAAAATCAAGTTCAATCATTCAG-ACAAGTTTAATATCATGTATTTAAG
* * * * ** * *
11715748 CTATGTAAACTGTTAAAATAAAACAATAACTACACACTCACATTTTTGTTTTTTAACAGCACAAA
64 CTATCTAAACTGTTAAAATAAAA-AATAACTATAAAATCACATTTTTACTCTTTAACAACACAAA
* * * **** * * * *
11715813 AAG-CCTAATCAGATATAAATTGCAACTTTTTCATACATAACAAC-ATCAAAACCAAGTTCAATC
128 AAGTCCTAAACAAACATAAACAATAACTTTTTCACACATATCAACTGTGAAAA-CAAGTTCAATC
* * * * *
11715876 ATTCAAACAAGTTTAATATCATGTATTAAAGCTATCTAAACAATTAAAATAGAACAATAGCTGCA
192 ATTCGAACAAGTTTAATATCATATATTGAAGCTATCTAAACAGTTAAAATAGAACAATAACTGCA
* * * *
11715941 AACTCACATTTTTACTTTTTAACGGCATAAAAAGTCCTAAACAGATATAAACCGTAACTTTTT
257 AACTCATATTTTTACTTTTTAACAGCACAAAAAGTCCTAAACATATATAAACCGTAACTTTTT
* * * * * *
11716004 CACACATATCAACCATGAAAACCAAGTTCAATAATTCAAATAAGTTTAATATGATGTATTTAAGC
1 CACACATATCAA-TATGAAAATCAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTTAAGC
* * * * ** * * * *
11716069 TATCTAAACTGTTAAAATAGAACAATAACTGTAAACTCATATTTTTGTTTTTTAATAGCATAAAA
65 TATCTAAACTGTTAAAATA-AAAAATAACTATAAAATCACATTTTTACTCTTTAACAACACAAAA
* * * * * * *
11716134 AGTCGTAAACAAATATATATAAAAACTTTTTCACACATATCAACCATG-GAGACCAAGTTCAATC
129 AGTCCTAAACAAACATAAACAATAACTTTTTCACACATATCAA-C-TGTGAAAACAAGTTCAATC
* * * * * *
11716198 ATTCGAACAAATTTAATATCATATATTTAAGCTATCTACACTGTTAAAATAGAATAATAACTGTA
192 ATTCGAACAAGTTTAATATCATATATTGAAGCTATCTAAACAGTTAAAATAGAACAATAACTGCA
* * * *
11716263 AACTCATATTTTTGCTTTTTAATAGCATAAAAAGTTCTAAACATATATAAACCGTAACTTTTT
257 AACTCATATTTTTACTTTTTAACAGCACAAAAAGTCCTAAACATATATAAACCGTAACTTTTT
* * * * * * * *
11716326 CACACATATCAATCATGAAAAGCAAGTTCAATCTTTGAAACAAATTTAATATCATATATTGAAGT
1 CACACATATCAAT-ATGAAAATCAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTTAAGC
*
11716391 TATCTAAACTCTTAAAA
65 TATCTAAACTGTTAAAA
11716408 CAGAATAATA
Statistics
Matches: 890, Mismatches: 127, Indels: 54
0.83 0.12 0.05
Matches are distributed among these distances:
318 1 0.00
319 15 0.02
320 396 0.44
321 271 0.30
322 204 0.23
323 3 0.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.33
Consensus pattern (319 bp):
CACACATATCAATATGAAAATCAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTTAAGCT
ATCTAAACTGTTAAAATAAAAAATAACTATAAAATCACATTTTTACTCTTTAACAACACAAAAAG
TCCTAAACAAACATAAACAATAACTTTTTCACACATATCAACTGTGAAAACAAGTTCAATCATTC
GAACAAGTTTAATATCATATATTGAAGCTATCTAAACAGTTAAAATAGAACAATAACTGCAAACT
CATATTTTTACTTTTTAACAGCACAAAAAGTCCTAAACATATATAAACCGTAACTTTTT
Found at i:11716456 original size:161 final size:160
Alignment explanation
Indices: 11715043--11716436 Score: 1251
Period size: 161 Copynumber: 8.7 Consensus size: 160
11715033 AAGTGCTAAA
* * * * * *
11715043 CACACATATCATTCATGAAAATCAAATTCAATCATTCGAACAAGTTTAATACCATGTATTTAAGC
1 CACACATATCAATCATGAAAACCAAGTTCAATC-TTTGAACAAGTTTAATATCATGTATTGAAGC
* * * * * * * *
11715108 TATCTAAACTATTAAAATAGAA-ATATAATTGAAAAATTACATTTTTACCTTTTAACAACATAAA
65 TATCTAAACTGTTAAAATAGAACA-ATAACTGCAAACTCATATTTTTACTTTTTAACAGCATAAA
* * *
11715172 ATA-TCCTAAACAGACATAAACAATAACTTTTT
129 A-AGTCCTAAACAAATATAAACAGTAACTTTTT
* * * ** * * * *
11715204 CACAC--GTCAATCGTGGAAAA-GAACATCAATCATTTGGATAATTTTAATATCATATATTGAAG
1 CACACATATCAATCAT-GAAAACCAAGTTCAATC-TTTGAACAAGTTTAATATCATGTATTGAAG
* * * * * *
11715266 CTATCCAAACTGTTAAAA-AGGAACAACAACTGCAAATTTGC-T-TTTTTACCTTTTAACACCAC
64 CTATCTAAACTGTTAAAATA-GAACAATAACTGCAAA-CT-CATATTTTTACTTTTTAACAGCAT
* *
11715328 AAAAAGTCCTAAACATATATAAA-TGATAACTTTTT
126 AAAAAGTCCTAAACAAATATAAACAG-TAACTTTTT
* * * * *
11715363 CACACATATCAAT-AGTAAAAATCAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTTAAG
1 CACACATATCAATCA-TGAAAACCAAGTTCAATCTTTGA-ACAAGTTTAATATCATGTATTGAAG
* * * ** * * * * *
11715427 CTATGTAAATTGTTAAAATA-AAAATATAACTATAAAATTACT-TTTTTACTCTTTAACAACACA
64 CTATCTAAACTGTTAAAATAGAACA-ATAACTGCAAACTCA-TATTTTTACTTTTTAACAGCATA
*
11715490 AAAAGTCCTAAACAAACATAAACAGTAACTTTTT
127 AAAAGTCCTAAACAAATATAAACAGTAACTTTTT
* * * * *
11715524 CACACATATCAA-CTGTGAAAA--AATTTCAATTATTTGGACAAGTTTAATATCATATATTGAAG
1 CACACATATCAATC-ATGAAAACCAAGTTCAA-TCTTTGAACAAGTTTAATATCATGTATTGAAG
* * * *** *
11715586 CTATGTAAACAGTTAAAATA-AACCAATAACTGTAAACTCATATTTTTACTTTTTATTGGCACAA
64 CTATCTAAACTGTTAAAATAGAA-CAATAACTGCAAACTCATATTTTTACTTTTTAACAGCATAA
11715650 AAAGTCCTAAACAAATATAAA-ATCGTAACTTTTT
128 AAAGTCCTAAACAAATATAAACA--GTAACTTTTT
* * * *
11715684 CACACATATCAACCATAAAAATCAAGTTCAATCATTCGAACAAGTTTAATATCATGTATTGAAGC
1 CACACATATCAATCATGAAAACCAAGTTCAATC-TTTGAACAAGTTTAATATCATGTATTGAAGC
* * * * * ** *
11715749 TATGTAAACTGTTAAAATAAAACAATAACTACACACTCACATTTTTGTTTTTTAACAGCACAAAA
65 TATCTAAACTGTTAAAATAGAACAATAACTGCAAACTCATATTTTTACTTTTTAACAGCATAAAA
* * ** *
11715814 AG-CCTAATCAGATATAAATTGCAACTTTTT
130 AGTCCTAAACAAATATAAACAGTAACTTTTT
* * * ** *
11715844 CATACATAACAA-CATCAAAACCAAGTTCAATCATTCAAACAAGTTTAATATCATGTATTAAAGC
1 CACACATATCAATCATGAAAACCAAGTTCAATC-TTTGAACAAGTTTAATATCATGTATTGAAGC
** * * *
11715908 TATCTAAACAATTAAAATAGAACAATAGCTGCAAACTCACATTTTTACTTTTTAACGGCATAAAA
65 TATCTAAACTGTTAAAATAGAACAATAACTGCAAACTCATATTTTTACTTTTTAACAGCATAAAA
* *
11715973 AGTCCTAAACAGATATAAACCGTAACTTTTT
130 AGTCCTAAACAAATATAAACAGTAACTTTTT
* * ** * * *
11716004 CACACATATCAACCATGAAAACCAAGTTCAATAATTCAAATAAGTTTAATATGATGTATTTAAGC
1 CACACATATCAATCATGAAAACCAAGTTCAAT-CTTTGAACAAGTTTAATATCATGTATTGAAGC
* ** *
11716069 TATCTAAACTGTTAAAATAGAACAATAACTGTAAACTCATATTTTTGTTTTTTAATAGCATAAAA
65 TATCTAAACTGTTAAAATAGAACAATAACTGCAAACTCATATTTTTACTTTTTAACAGCATAAAA
* * * **
11716134 AGTCGTAAACAAATATATATAAAAACTTTTT
130 AGTCCTAAACAAATATAAACAGTAACTTTTT
* * * * * * *
11716165 CACACATATCAACCATGGAGACCAAGTTCAATCATTCGAACAAATTTAATATCATATATTTAAGC
1 CACACATATCAATCATGAAAACCAAGTTCAATC-TTTGAACAAGTTTAATATCATGTATTGAAGC
* * * * *
11716230 TATCTACACTGTTAAAATAGAATAATAACTGTAAACTCATATTTTTGCTTTTTAATAGCATAAAA
65 TATCTAAACTGTTAAAATAGAACAATAACTGCAAACTCATATTTTTACTTTTTAACAGCATAAAA
* * *
11716295 AGTTCTAAACATATATAAACCGTAACTTTTT
130 AGTCCTAAACAAATATAAACAGTAACTTTTT
* * * *
11716326 CACACATATCAATCATGAAAAGCAAGTTCAATCTTTGAAACAAATTTAATATCATATATTGAAGT
1 CACACATATCAATCATGAAAACCAAGTTCAATCTTTG-AACAAGTTTAATATCATGTATTGAAGC
* * * * * *
11716391 TATCTAAACTCTTAAAACAGAATAATAATTGCAAATTTATATTTTT
65 TATCTAAACTGTTAAAATAGAACAATAACTGCAAACTCATATTTTT
11716437 GCCCTTTAAT
Statistics
Matches: 1024, Mismatches: 174, Indels: 70
0.81 0.14 0.06
Matches are distributed among these distances:
158 4 0.00
159 319 0.31
160 104 0.10
161 504 0.49
162 91 0.09
163 2 0.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.33
Consensus pattern (160 bp):
CACACATATCAATCATGAAAACCAAGTTCAATCTTTGAACAAGTTTAATATCATGTATTGAAGCT
ATCTAAACTGTTAAAATAGAACAATAACTGCAAACTCATATTTTTACTTTTTAACAGCATAAAAA
GTCCTAAACAAATATAAACAGTAACTTTTT
Found at i:11722055 original size:17 final size:16
Alignment explanation
Indices: 11722029--11722068 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
11722019 TGTACCCACT
11722029 CAAAAAAAAAAAAAAG
1 CAAAAAAAAAAAAAAG
*
11722045 CAAATAAAAAAATAAAG
1 CAAA-AAAAAAAAAAAG
*
11722062 GAAAAAA
1 CAAAAAA
11722069 TCTTCTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.82, C:0.05, G:0.07, T:0.05
Consensus pattern (16 bp):
CAAAAAAAAAAAAAAG
Found at i:11724519 original size:16 final size:18
Alignment explanation
Indices: 11724484--11724520 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
11724474 CGAATTGTAT
*
11724484 AAATACAAATCTATAAAA
1 AAATACAAATCTAAAAAA
11724502 AAATA-AAAT-TAAAAAA
1 AAATACAAATCTAAAAAA
11724518 AAA
1 AAA
11724521 GAGAGCTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 9 0.50
17 4 0.22
18 5 0.28
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.19
Consensus pattern (18 bp):
AAATACAAATCTAAAAAA
Found at i:11726497 original size:15 final size:16
Alignment explanation
Indices: 11726460--11726498 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
11726450 ATGTTCTTAG
11726460 GTTTAA-TTTAATTTA
1 GTTTAATTTTAATTTA
*
11726475 GTTGAATTTTAATTT-
1 GTTTAATTTTAATTTA
11726490 GTTTAATTT
1 GTTTAATTT
11726499 GCATGTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (16 bp):
GTTTAATTTTAATTTA
Found at i:11742256 original size:123 final size:118
Alignment explanation
Indices: 11742043--11742267 Score: 348
Period size: 123 Copynumber: 1.9 Consensus size: 118
11742033 TTTTTTTTAG
11742043 GGAAAATTGATACTTTCAACTTTTCGCCAAAAATATTTTTTTGGAAATTTAGATTTTCAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCGCCAAAAATATTTTTTTGGAAATTTAGATTTTCAAGGAAA
11742108 ATTGATACTTTCAACTTTTCCCCAAAAATAT-TTTTTGGAAATTTATTTCTAA
66 ATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTGGAAATTTATTTCTAA
*
11742160 GGAAAATTGATACTTTCAACTTTTC-CCTAAAAATATTTTTATTTTGGAAATTTA-TTTTTCTTT
1 GGAAAATTGATACTTTCAACTTTTCGCC-AAAAATA--TTT-TTTTGGAAATTTAGATTTTC---
11742223 TAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTT
59 -AAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTT
11742268 TTAGAATTTT
Statistics
Matches: 98, Mismatches: 1, Indels: 11
0.89 0.01 0.10
Matches are distributed among these distances:
116 2 0.02
117 32 0.33
119 8 0.08
120 13 0.13
123 38 0.39
124 5 0.05
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.44
Consensus pattern (118 bp):
GGAAAATTGATACTTTCAACTTTTCGCCAAAAATATTTTTTTGGAAATTTAGATTTTCAAGGAAA
ATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTGGAAATTTATTTCTAA
Found at i:11742291 original size:66 final size:66
Alignment explanation
Indices: 11742038--11742298 Score: 270
Period size: 66 Copynumber: 4.2 Consensus size: 66
11742028 AATGATTTTT
* * * *
11742038 TTTAGGGAAAATTGATACTTTCAACTTTTCGCC-AAAA-ATATTT-TTTTGGAAATTTAGATTTT
1 TTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTATTTTAGAAATTTA-TTTTT
11742100 C-
65 CA
*
11742101 ---AAGGAAAATTGATACTTTCAACTTTTCCCC-AAAA-ATA-TT-TTTTGGAAATTTA--TTTC
1 TTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTATTTTAGAAATTTATTTTTC
11742157 -
66 A
* * *
11742157 --TAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTATTTTGGAAATTTATTTTTC
1 TTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTATTTTAGAAATTTATTTTTC
*
11742220 T
66 A
*
11742221 TTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATATTT-TTTTAGAATTTTTTATTTT
1 TTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTATTTTAGAA--ATTTATTTT
11742285 T-A
64 TCA
*
11742287 TTTAAAGAAAAT
1 TTTAAGGAAAAT
11742299 AAAATAATAA
Statistics
Matches: 176, Mismatches: 10, Indels: 21
0.85 0.05 0.10
Matches are distributed among these distances:
56 4 0.02
57 29 0.16
58 4 0.02
59 17 0.10
60 37 0.21
61 13 0.07
63 4 0.02
65 7 0.04
66 52 0.30
67 9 0.05
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.46
Consensus pattern (66 bp):
TTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTATTTTAGAAATTTATTTTTC
A
Found at i:11742368 original size:8 final size:8
Alignment explanation
Indices: 11742348--11742386 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
11742338 CTAATCTAAT
11742348 AAATAAA-
1 AAATAAAC
11742355 AAATAAAC
1 AAATAAAC
11742363 AAAT--A-
1 AAATAAAC
11742368 AAATAAAC
1 AAATAAAC
11742376 AAATAAAC
1 AAATAAAC
11742384 AAA
1 AAA
11742387 GAAATAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
5 4 0.14
6 1 0.04
7 8 0.29
8 15 0.54
ACGTcount: A:0.79, C:0.08, G:0.00, T:0.13
Consensus pattern (8 bp):
AAATAAAC
Found at i:11742372 original size:13 final size:13
Alignment explanation
Indices: 11742354--11742382 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
11742344 TAATAAATAA
11742354 AAAATAAACAAAT
1 AAAATAAACAAAT
11742367 AAAATAAACAAAT
1 AAAATAAACAAAT
11742380 AAA
1 AAA
11742383 CAAAGAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (13 bp):
AAAATAAACAAAT
Found at i:11742381 original size:21 final size:20
Alignment explanation
Indices: 11742348--11742400 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 20
11742338 CTAATCTAAT
11742348 AAATAAAAAATAAACAAATA
1 AAATAAAAAATAAACAAATA
*
11742368 AAATAAACAAATAAACAAAGAA
1 AAATAAA-AAATAAACAAA-TA
11742390 ATAATAAAAAA
1 A-AATAAAAAA
11742401 AAATTCAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 7 0.24
21 11 0.38
22 5 0.17
23 6 0.21
ACGTcount: A:0.79, C:0.06, G:0.02, T:0.13
Consensus pattern (20 bp):
AAATAAAAAATAAACAAATA
Found at i:11742781 original size:19 final size:20
Alignment explanation
Indices: 11742743--11742786 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
11742733 ACACCGGTGC
*
11742743 CGGATTCTGGAAATTTTCGT
1 CGGAATCTGGAAATTTTCGT
11742763 CGGAATCTGGAAA-TTTCGT
1 CGGAATCTGGAAATTTTCGT
11742782 CGGAA
1 CGGAA
11742787 GTTGGCCGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (20 bp):
CGGAATCTGGAAATTTTCGT
Found at i:11742885 original size:31 final size:32
Alignment explanation
Indices: 11742844--11742908 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 32
11742834 ACTGGTCACC
11742844 GAAAACTTC-AATGTTAGCCGGAATTGTT-GCCG
1 GAAAACTTCAAAT-TTAGCCGGAATT-TTCGCCG
*
11742876 GAAAA-TTCAAATTTCGCCGGAATTTTCGCCG
1 GAAAACTTCAAATTTAGCCGGAATTTTCGCCG
11742907 GA
1 GA
11742909 TTCTGGAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
30 2 0.07
31 20 0.67
32 8 0.27
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (32 bp):
GAAAACTTCAAATTTAGCCGGAATTTTCGCCG
Found at i:11743412 original size:23 final size:24
Alignment explanation
Indices: 11743386--11743449 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 24
11743376 CTAAAAAAAA
*
11743386 ATAAAAAAT-AAATAA-ATATATAC
1 ATAAAAAATAAAATAATA-AAATAC
*
11743409 AT-AATAATAAAATAATAAAATAC
1 ATAAAAAATAAAATAATAAAATAC
* *
11743432 ATAAAATACAAAATAATA
1 ATAAAAAATAAAATAATA
11743450 CAGGACAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
22 5 0.15
23 15 0.45
24 13 0.39
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (24 bp):
ATAAAAAATAAAATAATAAAATAC
Found at i:11743437 original size:9 final size:9
Alignment explanation
Indices: 11743411--11743451 Score: 50
Period size: 8 Copynumber: 4.7 Consensus size: 9
11743401 ATATATACAT
11743411 AATA-ATAA
1 AATACATAA
11743419 AATA-ATAA
1 AATACATAA
11743427 AATACATAA
1 AATACATAA
*
11743436 AATACAAAA
1 AATACATAA
11743445 TAATACA
1 -AATACA
11743452 GGACAAATTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
8 12 0.40
9 12 0.40
10 6 0.20
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.22
Consensus pattern (9 bp):
AATACATAA
Found at i:11743448 original size:35 final size:34
Alignment explanation
Indices: 11743383--11743449 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 34
11743373 AATCTAAAAA
* *
11743383 AAAATAAAAAATAAATAAATATATACATAATAAT
1 AAAATAAAAAATAAATAAATATAAAAATAATAAT
*
11743417 AAAATAATAAAATACATAAA-ATACAAAATAATA
1 AAAATAA-AAAATAAATAAATATA-AAAATAATA
11743450 CAGGACAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
34 10 0.36
35 18 0.64
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (34 bp):
AAAATAAAAAATAAATAAATATAAAAATAATAAT
Found at i:11743449 original size:24 final size:23
Alignment explanation
Indices: 11743405--11743449 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
11743395 AAATAAATAT
11743405 ATACATAATAATAAAATAATAAA
1 ATACATAATAATAAAATAATAAA
11743428 ATACATAA-AATACAAAATAATA
1 ATACATAATAAT--AAAATAATA
11743450 CAGGACAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 3 0.15
23 8 0.40
24 9 0.45
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (23 bp):
ATACATAATAATAAAATAATAAA
Found at i:11743625 original size:1 final size:1
Alignment explanation
Indices: 11743621--11743675 Score: 65
Period size: 1 Copynumber: 55.0 Consensus size: 1
11743611 GGTTTTGTTG
* * * * *
11743621 TTTTTTTTTTTGTTTTTTTGTTTTTTTTGTTTTTTTGTTTTTTTTGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
11743676 ACCAAAGCTC
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (1 bp):
T
Found at i:11743636 original size:9 final size:9
Alignment explanation
Indices: 11743624--11743674 Score: 88
Period size: 9 Copynumber: 5.9 Consensus size: 9
11743614 TTTGTTGTTT
11743624 TTTTTTTTG
1 TTTTTTTTG
11743633 -TTTTTTTG
1 TTTTTTTTG
11743641 TTTTTTTTG
1 TTTTTTTTG
11743650 -TTTTTTTG
1 TTTTTTTTG
11743658 TTTTTTTTG
1 TTTTTTTTG
11743667 TTTTTTTT
1 TTTTTTTT
11743675 TACCAAAGCT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
8 16 0.40
9 24 0.60
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:11743644 original size:17 final size:17
Alignment explanation
Indices: 11743624--11743673 Score: 100
Period size: 17 Copynumber: 2.9 Consensus size: 17
11743614 TTTGTTGTTT
11743624 TTTTTTTTGTTTTTTTG
1 TTTTTTTTGTTTTTTTG
11743641 TTTTTTTTGTTTTTTTG
1 TTTTTTTTGTTTTTTTG
11743658 TTTTTTTTGTTTTTTT
1 TTTTTTTTGTTTTTTT
11743674 TTACCAAAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (17 bp):
TTTTTTTTGTTTTTTTG
Found at i:11743662 original size:8 final size:8
Alignment explanation
Indices: 11743613--11743673 Score: 88
Period size: 8 Copynumber: 7.5 Consensus size: 8
11743603 CATTTTTCGG
*
11743613 TTTTGTTG
1 TTTTGTTT
11743621 TTTT-TTT
1 TTTTGTTT
11743628 TTTTGTTT
1 TTTTGTTT
11743636 TTTTGTTTT
1 TTTTG-TTT
11743645 TTTTGTTT
1 TTTTGTTT
11743653 TTTTGTTTT
1 TTTTG-TTT
11743662 TTTTGTTT
1 TTTTGTTT
11743670 TTTT
1 TTTT
11743674 TTACCAAAGC
Statistics
Matches: 49, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
7 6 0.12
8 27 0.55
9 16 0.33
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (8 bp):
TTTTGTTT
Found at i:11743730 original size:42 final size:41
Alignment explanation
Indices: 11743682--11744482 Score: 1201
Period size: 42 Copynumber: 19.4 Consensus size: 41
11743672 TTTTACCAAA
11743682 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATT
* *
11743724 ACTCCTCTAAACAGAGGTACCACGACTTT-AGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGA-AAAGTAAATT
* * *
11743765 GCTCCTCTAAACAGAGGTACCATGACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
* *
11743806 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATT
*
11743848 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
11743890 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
11743932 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATT
*
11743972 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGCAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATT
*
11744014 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
*
11744056 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
11744098 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATT
11744138 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATT
11744178 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATT
*
11744220 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
* *
11744262 GCTCCTCTCAACAGAGGTACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
11744304 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATT
* *
11744344 ACTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATT
*
11744384 GCTCCTCTAAATAGAGGCACCACGACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATT
*
11744426 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
11744468 GCTCCTCTAAACAGA
1 GCTCCTCTAAACAGA
11744483 TTGCTCCTCT
Statistics
Matches: 713, Mismatches: 27, Indels: 38
0.92 0.03 0.05
Matches are distributed among these distances:
40 179 0.25
41 109 0.15
42 421 0.59
43 4 0.01
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.23
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
Found at i:11743981 original size:124 final size:123
Alignment explanation
Indices: 11743682--11744647 Score: 1260
Period size: 124 Copynumber: 7.7 Consensus size: 123
11743672 TTTTACCAAA
*
11743682 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTACTCCTCTAAACAGAGGTACCAC
1 GCTCCTCTAAACAGAGGCA--ACGAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCAC
* * *
11743747 G-ACTTT-AGAAAGTAAATTGCTCCTCTAAACAGAGGTACCATGACTTT-GAAAAATAAATT
63 GAACTTTGA-AAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
* *
11743806 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAAATAAATTGCTCCTCTAAACAGAGGTACCAC
1 GCTCCTCTAAACAGAGGCA--ACGACTTTG-AAAAGTAAATTGCTCCTCTAAACAGAGGTACCAC
11743871 G-ACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
63 GAACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
*
11743932 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG-
1 GCTCCTCTAAACAGAGGCAACG-ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGA
* *
11743996 ACTTTGAAAAAGCAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATT
65 ACTTTG-AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
* *
11744056 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGG--CAAC
1 GCTCCTCTAAACAGAGG--CAACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGTACCAC
11744119 GAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA--ACGAACTTT-GAAAAGTAAATT
63 GAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAAAGTAAATT
11744178 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGTACCAC
1 GCTCCTCTAAACAGAGGCA--ACGACTTTG-AAAAGTAAATTGCTCCTCTAAACAGAGGTACCAC
* *
11744243 G-ACTTTGGAAAAGTAAATTGCTCCTCTCAACAGAGGTACCACGACTTTGGAAAAGTAAATT
63 GAACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
* *
11744304 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTACTCCTCTAAACAGAGG--CAACGA
1 GCTCCTCTAAACAGAGGCAACG-ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGA
* * *
11744367 ACTTTGAAAAATAAATTGCTCCTCTAAATAGAGGCACCACGACTTTGAAAAAGTAAATT
65 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
*
11744426 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGATTGCTCCT
1 GCTCCTCTAAACAGAGG--CAACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGA--G-----
* *
11744491 CTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGA
56 GT--AC-----C-ACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGG
11744556 AAAAGTAAATT
113 AAAAGTAAATT
* *
11744567 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGG--CAAC
1 GCTCCTCTAAACAGAGG--CAACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGTACCAC
11744630 GAACTTTGAAAAGTAAAT
63 GAACTTTGAAAAGTAAAT
11744648 ACTCCTAGAC
Statistics
Matches: 766, Mismatches: 34, Indels: 84
0.87 0.04 0.10
Matches are distributed among these distances:
120 1 0.00
121 1 0.00
122 138 0.18
123 25 0.03
124 317 0.41
125 65 0.08
126 98 0.13
130 1 0.00
135 1 0.00
139 1 0.00
141 118 0.15
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.23
Consensus pattern (123 bp):
GCTCCTCTAAACAGAGGCAACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGAA
CTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
Found at i:11744226 original size:206 final size:206
Alignment explanation
Indices: 11743682--11744647 Score: 1448
Period size: 206 Copynumber: 4.6 Consensus size: 206
11743672 TTTTACCAAA
* *
11743682 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTACTCCTCTAAACAGAGGTACCAC
1 GCTCCTCTAAACAGAGGCA-CACGAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGG--CAAC
* *
11743747 G-ACTTT-AGAAAGTAAATTGCTCCTCTAAACAGAGGTACCATGACTTTGAAAAA-TAAATTGCT
62 GAACTTTGA-AAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCT
* * * *
11743809 CCTCTCAACAGAGGCACCACGACTTTGAAAAAATAAATTGCTCCTCTAAACAGAGGTACCACGAC
126 CCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGAC
11743874 TTTGGAAAAGTAAATT
191 TTTGGAAAAGTAAATT
11743890 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
1 GCTCCTCTAAACAGAGGCA-CACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
*
11743955 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGCAAATTGCTCCT
64 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCT
11744020 CTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTTT
129 CTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTTT
11744085 GGAAAAGTAAATT
194 GGAAAAGTAAATT
11744098 GCTCCTCTAAACAGAGGCA-ACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAA
1 GCTCCTCTAAACAGAGGCACACG-ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAA
11744162 CTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTC
65 CTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTC
*
11744227 TAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTCAACAGAGGTACCACGACTTTG
130 TAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTTTG
11744292 GAAAAGTAAATT
195 GAAAAGTAAATT
*
11744304 GCTCCTCTAAACAGAGGCA-ACGAACTTTGAAAAGTAAATTACTCCTCTAAACAGAGGCAACGAA
1 GCTCCTCTAAACAGAGGCACACG-ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAA
* *
11744368 CTTTGAAAAATAAATTGCTCCTCTAAATAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTC
65 CTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTC
*
11744433 TAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGATTGCTCCTCTAAACA
130 TAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGA--G-----GT--AC-
11744498 GAGGCAACGAACTTT-GAAAAGTAAATT
185 ----C-ACG-ACTTTGGAAAAGTAAATT
*
11744525 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGTACCAC
1 GCTCCTCTAAACAGAGGCA-CACGACTTTG-AAAAGTAAATTGCTCCTCTAAACAGAGG--CAAC
11744590 G-ACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCA--ACGAACTTTG-AAAAGTAAAT
62 GAACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAAAGTAAAT
11744648 ACTCCTAGAC
Statistics
Matches: 710, Mismatches: 20, Indels: 41
0.92 0.03 0.05
Matches are distributed among these distances:
206 358 0.50
207 56 0.08
208 160 0.23
213 1 0.00
215 2 0.00
220 1 0.00
221 34 0.05
222 11 0.02
223 43 0.06
224 11 0.02
225 33 0.05
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.23
Consensus pattern (206 bp):
GCTCCTCTAAACAGAGGCACACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAAC
TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCT
AAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGG
AAAAGTAAATT
Found at i:11744487 original size:17 final size:17
Alignment explanation
Indices: 11744465--11744499 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
11744455 GGAAAAGTAA
11744465 ATTGCTCCTCTAAACAG
1 ATTGCTCCTCTAAACAG
11744482 ATTGCTCCTCTAAACAG
1 ATTGCTCCTCTAAACAG
11744499 A
1 A
11744500 GGCAACGAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.29, G:0.11, T:0.29
Consensus pattern (17 bp):
ATTGCTCCTCTAAACAG
Found at i:11744532 original size:57 final size:58
Alignment explanation
Indices: 11744423--11744539 Score: 193
Period size: 57 Copynumber: 2.0 Consensus size: 58
11744413 GAAAAAGTAA
*
11744423 ATTGCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAG
1 ATTGCTCCTCTAAACAGAGG-ACAACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAG
11744482 ATTGCTCCTCTAAACAGAGG-CAACGAACTTT-GAAAAGTAAATTGCTCCTCTAAACAG
1 ATTGCTCCTCTAAACAGAGGACAACG-ACTTTGGAAAAGTAAATTGCTCCTCTAAACAG
11744539 A
1 A
11744540 GGCACCACGA
Statistics
Matches: 56, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
57 31 0.55
58 5 0.09
59 20 0.36
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (58 bp):
ATTGCTCCTCTAAACAGAGGACAACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAG
Found at i:11744554 original size:99 final size:100
Alignment explanation
Indices: 11744381--11744581 Score: 343
Period size: 99 Copynumber: 2.0 Consensus size: 100
11744371 TGAAAAATAA
* *
11744381 ATTGCTCCTCTAAATAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGTAC
1 ATTGCTCCTCTAAACAGAGGCA-CACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCAC
*
11744446 CACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAG
65 CACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAG
11744482 ATTGCTCCTCTAAACAGAGGCA-ACGAACTTTG-AAAAGTAAATTGCTCCTCTAAACAGAGGCAC
1 ATTGCTCCTCTAAACAGAGGCACACG-ACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCAC
11744545 CACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAG
65 CACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAG
11744581 A
1 A
11744582 GGTACCACGA
Statistics
Matches: 96, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
99 69 0.72
100 6 0.06
101 21 0.22
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.24
Consensus pattern (100 bp):
ATTGCTCCTCTAAACAGAGGCACACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACC
ACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAG
Found at i:11744573 original size:42 final size:40
Alignment explanation
Indices: 11744482--11744647 Score: 255
Period size: 42 Copynumber: 4.0 Consensus size: 40
11744472 CTCTAAACAG
11744482 ATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAA
1 ATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAA
11744522 ATTGCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAAAGTAA
1 ATTGCTCCTCTAAACAGAGGCA--ACGAACTTTG-AAAAGTAA
*
11744564 ATTGCTCCTCTAAACAGAGGTACCACG-ACTTTGGAAAAGTAA
1 ATTGCTCCTCTAAACAGAGG--CAACGAACTTT-GAAAAGTAA
11744606 ATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAA
1 ATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAA
11744646 AT
1 AT
11744648 ACTCCTAGAC
Statistics
Matches: 117, Mismatches: 2, Indels: 14
0.88 0.02 0.11
Matches are distributed among these distances:
40 37 0.32
41 11 0.09
42 67 0.57
43 1 0.01
44 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (40 bp):
ATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAA
Found at i:11744599 original size:141 final size:141
Alignment explanation
Indices: 11744345--11744623 Score: 540
Period size: 141 Copynumber: 2.0 Consensus size: 141
11744335 AAGTAAATTA
*
11744345 CTCCTCTAAACAGAGGCAACGAACTTTGAAAAATAAATTGCTCCTCTAAATAGAGGCACCACGAC
1 CTCCTCTAAACAGAGGCAACGAACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGAC
11744410 TTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTC
66 TTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTC
11744475 TAAACAGATTG
131 TAAACAGATTG
*
11744486 CTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGAC
1 CTCCTCTAAACAGAGGCAACGAACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGAC
11744551 TTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTC
66 TTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTC
11744616 TAAACAGA
131 TAAACAGA
11744624 GGCAACGAAC
Statistics
Matches: 136, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
141 136 1.00
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.23
Consensus pattern (141 bp):
CTCCTCTAAACAGAGGCAACGAACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGAC
TTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTC
TAAACAGATTG
Found at i:11745853 original size:7 final size:8
Alignment explanation
Indices: 11745834--11745864 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
11745824 TTTGGATCTT
11745834 TTTTTTCA
1 TTTTTTCA
11745842 TTTTTTCA
1 TTTTTTCA
11745850 TTTTTTCA
1 TTTTTTCA
11745858 TTTTTTC
1 TTTTTTC
11745865 TTCTTTCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTTCA
Found at i:11745879 original size:17 final size:17
Alignment explanation
Indices: 11745858--11745919 Score: 74
Period size: 16 Copynumber: 3.7 Consensus size: 17
11745848 CATTTTTTCA
11745858 TTTTTTCTTCTTTCTTT
1 TTTTTTCTTCTTTCTTT
*
11745875 CTTTTTCTT-TTTCTTT
1 TTTTTTCTTCTTTCTTT
* *
11745891 TTTTTTCATC-ATCTTT
1 TTTTTTCTTCTTTCTTT
11745907 TTTTTTCATTCTT
1 TTTTTTC-TTCTT
11745920 CACCTATTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
16 26 0.72
17 10 0.28
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTTTCTTCTTTCTTT
Found at i:11745892 original size:7 final size:7
Alignment explanation
Indices: 11745834--11745893 Score: 57
Period size: 8 Copynumber: 7.9 Consensus size: 7
11745824 TTTGGATCTT
11745834 TTTTTTC
1 TTTTTTC
11745841 ATTTTTTC
1 -TTTTTTC
11745849 ATTTTTTC
1 -TTTTTTC
11745857 ATTTTTTC
1 -TTTTTTC
*
11745865 TTCTTTC
1 TTTTTTC
*
11745872 TTTCTTTT
1 TTT-TTTC
11745880 TCTTTTTC
1 T-TTTTTC
11745888 TTTTTT
1 TTTTTT
11745894 TTTCATCATC
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
7 13 0.28
8 31 0.67
9 2 0.04
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTTTTC
Found at i:11749855 original size:59 final size:56
Alignment explanation
Indices: 11749725--11750182 Score: 594
Period size: 59 Copynumber: 7.7 Consensus size: 56
11749715 TTTTTTTTAG
11749725 GGAAAATTGATACTTTCAACTTTTCGCCAAAAATATTTTTTTGGAAATTTCGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTTC-CCAAAAAT-TTTTTTTGGAAATTT--ATTTCT-AA
* * *
11749785 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAAATTTATTTATAA
1 GGAAAATTGATACTTTCAACTTTTCC-CAAAAA--TTTTTTTTGGAAATTTATTTCTAA
11749844 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTT-CCCAAAAAT-TTTTTTTGGAAATTTATTTCTAA
* * *
11749902 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTACTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCC--AAAA-ATTTTTTTTGGAAATTTATTTCTAA
*
11749961 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTT-CCCAAAAATTTTTTTTGGAAATTTATTTCTAA
*
11750018 GGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCAAAAATTTTTTTTGGAAATTTATTTCTAA
11750074 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTATTTTGGAAATTTATTTTTCTTTTA
1 GGAAAATTGATACTTTCAACTTTTCCC--AAAA-A-TTTT-TTTTGGAAATTTA--TTTC---TA
11750139 A
56 A
11750140 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTT
1 GGAAAATTGATACTTTCAACTTTT-CCCAAAAAT-T-TTTTTT
11750183 TAGAATTTTT
Statistics
Matches: 362, Mismatches: 13, Indels: 42
0.87 0.03 0.10
Matches are distributed among these distances:
56 59 0.16
57 48 0.13
58 53 0.15
59 86 0.24
60 42 0.12
61 27 0.07
63 5 0.01
64 6 0.02
65 6 0.02
66 27 0.07
67 3 0.01
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.44
Consensus pattern (56 bp):
GGAAAATTGATACTTTCAACTTTTCCCAAAAATTTTTTTTGGAAATTTATTTCTAA
Found at i:11749964 original size:117 final size:116
Alignment explanation
Indices: 11749725--11750183 Score: 658
Period size: 117 Copynumber: 3.9 Consensus size: 116
11749715 TTTTTTTTAG
*
11749725 GGAAAATTGATACTTTCAACTTTTCGCCAAAAATATTTTTTTGGAAATTTCGATTT-TCAAGGAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTT--ATTTCT-AAGGAA
*** *
11749789 AATTGATACTTTCAACTTTT-CCTCAAAAACCCTTTTTTTGAAAATTTATTTATAA
63 AATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTTTG-AAATTTATTTCTAA
11749844 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTCTAAGGAAAAT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTCTAAGGAAAAT
* *
11749909 TGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTACTTCTGA
66 TGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTTGAAATTTATTTCTAA
11749961 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAATTTATTTCTAAGGAAAAT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTCTAAGGAAAAT
*
11750025 TGATACTTTCAACTTTTCCC-AAAAATA-TTTTTTGGAAATTTATTTCTAA
66 TGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTCTAA
*
11750074 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTATTTTGGAAATTTATTTTTCTTTTA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTT-TTTTGGAAATTTA--TTTC---TA
*
11750139 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTT
58 AGGAAAATTGATACTTTCAACTTTTCCCTAAAAATAT-TTTTTTT
11750184 AGAATTTTTT
Statistics
Matches: 313, Mismatches: 12, Indels: 24
0.90 0.03 0.07
Matches are distributed among these distances:
113 53 0.17
115 7 0.02
116 51 0.16
117 94 0.30
118 12 0.04
119 53 0.17
122 30 0.10
123 7 0.02
125 6 0.02
ACGTcount: A:0.34, C:0.14, G:0.08, T:0.44
Consensus pattern (116 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTCTAAGGAAAAT
TGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTCTAA
Found at i:11750282 original size:8 final size:8
Alignment explanation
Indices: 11750262--11750300 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
11750252 CTAATCTAAT
11750262 AAATAAA-
1 AAATAAAC
11750269 AAATAAAC
1 AAATAAAC
11750277 AAAT--A-
1 AAATAAAC
11750282 AAATAAAC
1 AAATAAAC
11750290 AAATAAAC
1 AAATAAAC
11750298 AAA
1 AAA
11750301 GAAATAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
5 4 0.14
6 1 0.04
7 8 0.29
8 15 0.54
ACGTcount: A:0.79, C:0.08, G:0.00, T:0.13
Consensus pattern (8 bp):
AAATAAAC
Found at i:11750286 original size:13 final size:13
Alignment explanation
Indices: 11750268--11750318 Score: 61
Period size: 13 Copynumber: 4.0 Consensus size: 13
11750258 TAATAAATAA
11750268 AAAATAAACAAAT
1 AAAATAAACAAAT
11750281 AAAATAAACAAAT
1 AAAATAAACAAAT
* *
11750294 -AAACAAAGAAAT
1 AAAATAAACAAAT
11750306 AATAATAAA-AAAT
1 AA-AATAAACAAAT
11750319 TCAAAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
12 10 0.30
13 18 0.55
14 5 0.15
ACGTcount: A:0.76, C:0.06, G:0.02, T:0.16
Consensus pattern (13 bp):
AAAATAAACAAAT
Found at i:11750295 original size:21 final size:20
Alignment explanation
Indices: 11750262--11750300 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
11750252 CTAATCTAAT
11750262 AAATAAAAAATAAACAAATA
1 AAATAAAAAATAAACAAATA
11750282 AAATAAACAAATAAACAAA
1 AAATAAA-AAATAAACAAA
11750301 GAAATAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.79, C:0.08, G:0.00, T:0.13
Consensus pattern (20 bp):
AAATAAAAAATAAACAAATA
Found at i:11750681 original size:19 final size:20
Alignment explanation
Indices: 11750643--11750686 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
11750633 ACACCGGTGC
*
11750643 CGGATTCTGGAAATTTTCGT
1 CGGAATCTGGAAATTTTCGT
11750663 CGGAATCTGGAAA-TTTCGT
1 CGGAATCTGGAAATTTTCGT
11750682 CGGAA
1 CGGAA
11750687 GTTGGCCGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (20 bp):
CGGAATCTGGAAATTTTCGT
Found at i:11750761 original size:19 final size:19
Alignment explanation
Indices: 11750719--11750766 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
11750709 TCTGGGATTC
* *
11750719 TTCGCCGGAAACTGGACTG
1 TTCGCCGGAAACTGCAATG
* *
11750738 GTCGCCGGAAACTTCAATG
1 TTCGCCGGAAACTGCAATG
11750757 TTCGCCGGAA
1 TTCGCCGGAA
11750767 TTGTTGCCGG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.23, C:0.27, G:0.29, T:0.21
Consensus pattern (19 bp):
TTCGCCGGAAACTGCAATG
Found at i:11750779 original size:31 final size:31
Alignment explanation
Indices: 11750741--11750799 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
11750731 TGGACTGGTC
* *
11750741 GCCGGAAACTTC-AATGTTCGCCGGAATTGTT
1 GCCGGAAAATTCAAAT-TTCACCGGAATTGTT
11750772 GCCGGAAAATTCAAATTTCACCGGAATT
1 GCCGGAAAATTCAAATTTCACCGGAATT
11750800 TTCGTCGGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 22 0.88
32 3 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (31 bp):
GCCGGAAAATTCAAATTTCACCGGAATTGTT
Found at i:11751312 original size:33 final size:33
Alignment explanation
Indices: 11751233--11751318 Score: 79
Period size: 35 Copynumber: 2.6 Consensus size: 33
11751223 ATCAGAACAG
11751233 ATAATAAT-AAATATATAACTATATACATATAA
1 ATAATAATAAAATATATAACTATATACATATAA
* * *
11751265 ATCTAAT-CTAAAAATATATATA-TATATATATATAC
1 A--TAATAAT-AAAATATATA-ACTATATACATATAA
*
11751300 ATAATAATAAAATACATAA
1 ATAATAATAAAATATATAA
11751319 AATACATAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
32 2 0.05
33 14 0.33
34 5 0.12
35 21 0.49
36 1 0.02
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (33 bp):
ATAATAATAAAATATATAACTATATACATATAA
Found at i:11751320 original size:9 final size:9
Alignment explanation
Indices: 11751302--11751343 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 9
11751292 ATATATACAT
11751302 AATA-ATAA
1 AATACATAA
11751310 AATACATAA
1 AATACATAA
11751319 AATACATAA
1 AATACATAA
*
11751328 AATACAAAA
1 AATACATAA
11751337 TAATACA
1 -AATACA
11751344 GGACAAATTG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
8 4 0.13
9 21 0.68
10 6 0.19
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (9 bp):
AATACATAA
Found at i:11751329 original size:18 final size:19
Alignment explanation
Indices: 11751300--11751343 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
11751290 ATATATATAC
*
11751300 ATAATA-ATAAAATACATA
1 ATAATACATAAAATACAAA
11751318 A-AATACATAAAATACAAA
1 ATAATACATAAAATACAAA
11751336 ATAATACA
1 ATAATACA
11751344 GGACAAATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 4 0.17
18 13 0.57
19 6 0.26
ACGTcount: A:0.68, C:0.09, G:0.00, T:0.23
Consensus pattern (19 bp):
ATAATACATAAAATACAAA
Found at i:11751759 original size:10 final size:10
Alignment explanation
Indices: 11751746--11751770 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
11751736 TAAAATTTAG
11751746 AAAAAAAAGA
1 AAAAAAAAGA
11751756 AAAAAAAAGA
1 AAAAAAAAGA
11751766 AAAAA
1 AAAAA
11751771 CATATTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:11755773 original size:3 final size:3
Alignment explanation
Indices: 11755765--11755802 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
11755755 ATCACTTCTC
11755765 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
11755803 TTTAAACATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:11761111 original size:25 final size:25
Alignment explanation
Indices: 11761078--11761125 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
11761068 TAAAAATTAA
*
11761078 AAAATATAAGTTTGAAAATTTTATT
1 AAAACATAAGTTTGAAAATTTTATT
11761103 AAAACATAAGTTTGAAAATTTTA
1 AAAACATAAGTTTGAAAATTTTA
11761126 ATTTTTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.50, C:0.02, G:0.08, T:0.40
Consensus pattern (25 bp):
AAAACATAAGTTTGAAAATTTTATT
Found at i:11764538 original size:6 final size:6
Alignment explanation
Indices: 11764530--11764573 Score: 79
Period size: 6 Copynumber: 7.3 Consensus size: 6
11764520 GGTTTGATAA
*
11764530 TGATGA TGATGG TGATGG TGATGG TGATGG TGATGG TGATGG TG
1 TGATGG TGATGG TGATGG TGATGG TGATGG TGATGG TGATGG TG
11764574 TAAATTTTGG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.18, C:0.00, G:0.48, T:0.34
Consensus pattern (6 bp):
TGATGG
Found at i:11764969 original size:18 final size:18
Alignment explanation
Indices: 11764945--11764993 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
11764935 TTCACATCCT
*
11764945 CAAATGTATCATCTACCT
1 CAAATGTATCATCTACCA
* *
11764963 TAAATGTATCATTTACCA
1 CAAATGTATCATCTACCA
11764981 CAAATGTATCATC
1 CAAATGTATCATC
11764994 CTCAAATATA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.37, C:0.22, G:0.06, T:0.35
Consensus pattern (18 bp):
CAAATGTATCATCTACCA
Found at i:11766364 original size:50 final size:52
Alignment explanation
Indices: 11766267--11766410 Score: 136
Period size: 50 Copynumber: 2.8 Consensus size: 52
11766257 AAACTTGCTC
** ** * *
11766267 ATTAAGAATCC-CTCTCCTCTTAG-ATTCTTCTCTTGTAAGTTACAACTTTCCT
1 ATTAAGAATCCTCT-TTATCTTAGAATTCTTCTCTTACAAGTCA-AACTTACCT
*
11766319 ATTAAG-ATCCTTTTTAT-TTAGAATT-TTCTCTTACAGAGTCAAACTTACCT
1 ATTAAGAATCCTCTTTATCTTAGAATTCTTCTCTTACA-AGTCAAACTTACCT
* * *
11766369 ATTAAGAATTCTCTTTCTCTTAGAATTCTTCTTTTACAAGTC
1 ATTAAGAATCCTCTTTATCTTAGAATTCTTCTCTTACAAGTC
11766411 TTCTTGTCCA
Statistics
Matches: 75, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
50 26 0.35
51 21 0.28
52 19 0.25
53 9 0.12
ACGTcount: A:0.26, C:0.22, G:0.08, T:0.44
Consensus pattern (52 bp):
ATTAAGAATCCTCTTTATCTTAGAATTCTTCTCTTACAAGTCAAACTTACCT
Found at i:11766447 original size:11 final size:11
Alignment explanation
Indices: 11766431--11766466 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
11766421 TCAAGCAATA
11766431 TCTAACAAATC
1 TCTAACAAATC
11766442 TCTAACAAATC
1 TCTAACAAATC
* *
11766453 CCAAACAAATC
1 TCTAACAAATC
11766464 TCT
1 TCT
11766467 TATAGGATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (11 bp):
TCTAACAAATC
Found at i:11766903 original size:31 final size:31
Alignment explanation
Indices: 11766819--11766903 Score: 116
Period size: 31 Copynumber: 2.7 Consensus size: 31
11766809 TTTGAACCTT
* *
11766819 CAACTCTGATACCACTTGTTGGAAAACACCA
1 CAACTCTGATACCATTTGTTGGGAAACACCA
* * *
11766850 CATCTCTGATACCATTTGTTGGGGAATACCA
1 CAACTCTGATACCATTTGTTGGGAAACACCA
*
11766881 CAACTTTGATACCATTTGTTGGG
1 CAACTCTGATACCATTTGTTGGG
11766904 CTAAAAGCTT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.31
Consensus pattern (31 bp):
CAACTCTGATACCATTTGTTGGGAAACACCA
Found at i:11767474 original size:52 final size:52
Alignment explanation
Indices: 11767388--11767543 Score: 224
Period size: 52 Copynumber: 3.0 Consensus size: 52
11767378 TATAACCATA
* * *
11767388 CAAACTTGCCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCTTGTAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCTTGCAAGT
* * *
11767440 CAAACTTGCCTATTAAAAATCCCTTTCCTTTTAGAATTCTTCTCTTACAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCTTGCAAGT
* *
11767492 CAAACTTACCTATTAAGAATCCTCTTT-CTCTTAGAATTCTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATCC-CTTTCCTCTTAGAATTCTTCTCTTGCAAGT
11767544 TTTCTTGTCC
Statistics
Matches: 92, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
52 88 0.96
53 4 0.04
ACGTcount: A:0.27, C:0.26, G:0.08, T:0.40
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCTTGCAAGT
Found at i:11769688 original size:16 final size:19
Alignment explanation
Indices: 11769654--11769694 Score: 54
Period size: 16 Copynumber: 2.4 Consensus size: 19
11769644 GAATTTTCTA
11769654 TTATTATTCAATTACAATT
1 TTATTATTCAATTACAATT
11769673 TTATT-TTC-ATTA-AATT
1 TTATTATTCAATTACAATT
11769689 TT-TTAT
1 TTATTAT
11769695 ATTTCAACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 2 0.10
16 7 0.33
17 4 0.19
18 3 0.14
19 5 0.24
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (19 bp):
TTATTATTCAATTACAATT
Found at i:11769806 original size:50 final size:49
Alignment explanation
Indices: 11769693--11769829 Score: 179
Period size: 50 Copynumber: 2.8 Consensus size: 49
11769683 TAAATTTTTT
** **
11769693 ATATTTCAACTTTTTATTAAAGGTTTTTTAATTTA--TTTAAAAAAATTA
1 ATATTTCAACTTTTTA-TAAATATTTTCAAATTTATTTTTAAAAAAATTA
*
11769741 ATATTTCAACTTTTTTATAAATATTTTCAAATTTATTTTTAAAAAAATTG
1 ATATTTCAAC-TTTTTATAAATATTTTCAAATTTATTTTTAAAAAAATTA
*
11769791 ATATTTCAACATTTTTATAAATATTTTCAAAATTATTTT
1 ATATTTCAAC-TTTTTATAAATATTTTCAAATTTATTTT
11769830 CAACTTCATT
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
48 24 0.30
49 6 0.08
50 49 0.62
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.53
Consensus pattern (49 bp):
ATATTTCAACTTTTTATAAATATTTTCAAATTTATTTTTAAAAAAATTA
Found at i:11770735 original size:122 final size:121
Alignment explanation
Indices: 11770509--11770738 Score: 324
Period size: 122 Copynumber: 1.9 Consensus size: 121
11770499 GTTTGGCATG
*
11770509 AAAAATACCTTAAATAATCTTGTTCAAATTTTTTTGGATTATTTAAAGCTTTTTTGGCAAAAAAC
1 AAAAATACCTTAAATAATCATGTTCAAATTTTTTTGGATTATTTAAAGCTTTTTTGGCAAAAAAC
*
11770574 AATACCTTAAATAATCTCCTAAATAAATTAACTATTATTATTTTAGGTTTTTTTGGTA
66 -A-ACCTTAAATAATCTCCTAAATAAATTAACTAGTATTATTTTAGGTTTTTTTGGTA
*
11770632 AAAAATACCTTAAATAATCATGTTC-AATTTTTTTAGGGATTATTT-AAGGTATTTTTGGCAAGA
1 AAAAATACCTTAAATAATCATGTTCAAATTTTTTT--GGATTATTTAAAGCT-TTTTTGGCAA-A
* *
11770695 AAAC-GCCTTAAATAATCTCCTAAATAAATTGA-TCAGTATTATTT
62 AAACAACCTTAAATAATCTCCTAAATAAATTAACT-AGTATTATTT
11770739 AAAACGTTTT
Statistics
Matches: 97, Mismatches: 5, Indels: 11
0.86 0.04 0.10
Matches are distributed among these distances:
121 1 0.01
122 44 0.45
123 28 0.29
124 19 0.20
125 5 0.05
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.42
Consensus pattern (121 bp):
AAAAATACCTTAAATAATCATGTTCAAATTTTTTTGGATTATTTAAAGCTTTTTTGGCAAAAAAC
AACCTTAAATAATCTCCTAAATAAATTAACTAGTATTATTTTAGGTTTTTTTGGTA
Found at i:11771108 original size:185 final size:181
Alignment explanation
Indices: 11770757--11771502 Score: 651
Period size: 185 Copynumber: 4.1 Consensus size: 181
11770747 TTCTCTTCAA
* * * * * *
11770757 AAATAA-TCACAAATTTTTTTTGAGATTATTTAAAGCGTTTT-TGGTCAAAAATACCTTAAATGA
1 AAATAATTCAAAAAATTTATTTGAGATTATTTAAAGCGTTTTCTGATAAAAAATACCTTAAATAA
* * * * *
11770820 TCATGTTCAATTTTTTTAGGGATTACTTAAGG--TGTTTTTGGCAAAAAAAGCCTTAAATAATCT
66 TCCTGTTCAATTTTTTTAGAGATTATTTAAGGCAT-TTTTTGCCAAAAACA-CCTTAAATAATCT
11770883 CCTAAATAAATTGA-TCAGTATTATTTAAGGTGTTTTTTGGTCA-AAAATACCTT
129 CCTAAATAAATTGACT-AGTATTATTTAAGGTG-TTTTTGGTCAGAAAATACCTT
* *
11770936 AAATAATTCAATAACATTTATTTGAAATTATTTAAAGCGTTTTCTGATAAAAAAAATACCTTAAA
1 AAATAATTCAA-AAAATTTATTTGAGATTATTTAAAGCGTTTTCTGAT--AAAAAATACCTTAAA
* *
11771001 TGATCCTGTTCAATTTTTTTAGAGATTATTTAAGGCATTTTTTGCCAGAAAACACCTTAAATGAT
63 TAATCCTGTTCAATTTTTTTAGAGATTATTTAAGGCATTTTTTGCCA-AAAACACCTTAAATAAT
* * * * *
11771066 CT-TTAAAATAAATTGACTAGCATTATTTAAGATGTCTTTTGGT-AGAAAATGCTTT
127 CTCCT-AAATAAATTGACTAGTATTATTTAAGGTGT-TTTTGGTCAGAAAATACCTT
* * * * *
11771121 AAATAATCTCAAAAAAATTTTGTTTGAGATTATTTAAGGTGTTTTCTAATAAAAAAACACCTTAA
1 AAATAAT-TC-AAAAAA-TTTATTTGAGATTATTTAAAGCGTTTTCTGAT-AAAAAATACCTTAA
* ** ** * * *
11771186 ATAATCTTGTT-TTTTTTTTTTTAGATTATTTAAGGTATTTTCTAT-CGAAAAACACCTTAACTA
62 ATAATCCTGTTCAATTTTTTTAGAGATTATTTAAGGCATTTT-T-TGCCAAAAACACCTTAAATA
* * * *
11771249 ATCTCCTAAATAAAATTGACCAGTATTATTGAAGGTGTTTTCTGGTCATAAAA-ACCTC
125 ATCTCCTAAAT-AAATTGACTAGTATTATTTAAGGTGTTTT-TGGTCAGAAAATACCTT
* * * * * *
11771307 AAATAATCCAAAAAATTTTTTTTAGATTATTT-AAGATGTTTTCTGACTAAAAGA-GCCTTAAAT
1 AAATAATTCAAAAAATTTATTTGAGATTATTTAAAG-CGTTTTCTGA-TAAAAAATACCTTAAAT
* ** * * ** *
11771370 AATGCTGTTCAATTTTTTTTTAGATTATTTATGACATTTTTTGATAGAAAATACCTTAAATAAAT
64 AATCCTGTTCAATTTTTTTAGAGATTATTTAAGGCATTTTTTGCCA-AAAACACCTTAAAT-AAT
* * ** * *
11771435 -TCCTAAATAAATTGGCTAATATTATTTAAGGCATTTTCTAGTC--AAAATGCCTT
127 CTCCTAAATAAATTGACTAGTATTATTTAAGGTGTTTT-TGGTCAGAAAATACCTT
*
11771488 AAATAATGCAAAAAA
1 AAATAATTCAAAAAA
11771503 AAATATTTTT
Statistics
Matches: 467, Mismatches: 72, Indels: 54
0.79 0.12 0.09
Matches are distributed among these distances:
179 6 0.01
180 7 0.01
181 45 0.10
182 50 0.11
183 74 0.16
184 59 0.13
185 117 0.25
186 74 0.16
187 35 0.07
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.40
Consensus pattern (181 bp):
AAATAATTCAAAAAATTTATTTGAGATTATTTAAAGCGTTTTCTGATAAAAAATACCTTAAATAA
TCCTGTTCAATTTTTTTAGAGATTATTTAAGGCATTTTTTGCCAAAAACACCTTAAATAATCTCC
TAAATAAATTGACTAGTATTATTTAAGGTGTTTTTGGTCAGAAAATACCTT
Found at i:11771191 original size:63 final size:61
Alignment explanation
Indices: 11771119--11771350 Score: 170
Period size: 63 Copynumber: 3.8 Consensus size: 61
11771109 AGAAAATGCT
* *
11771119 TTAAATAATCTCAAAAAAATTTTGTTTGAGATTATTTAAGGTGTTTTCTAATAAAAAAACACC
1 TTAAATAATCTC-AAAAAATTTTGTTTTAGATTATTTAAGGTGTTTTCT-ATCAAAAAACACC
****** * * *
11771182 TTAAATAATCT-TGTTTTTTTTTTTTTAGATTATTTAAGGTATTTTCTATCGAAAAACACC
1 TTAAATAATCTCAAAAAATTTTGTTTTAGATTATTTAAGGTGTTTTCTATCAAAAAACACC
* * *** * * *
11771242 TTAACTAATCTCCTAAATAAA-ATTG-ACCAGTATTATTGAAGGTGTTTTCTGGTCATAAAA-AC
1 TTAAATAATCT-C-AAA-AAATTTTGTTTTAG-ATTATTTAAGGTGTTTTCT-ATCAAAAAACAC
11771304 C
61 C
* *
11771305 TCAAATAATC-CAAAAAATTTT-TTTTAGATTATTTAAGATGTTTTCT
1 TTAAATAATCTCAAAAAATTTTGTTTTAGATTATTTAAGGTGTTTTCT
11771351 GACTAAAAGA
Statistics
Matches: 125, Mismatches: 36, Indels: 20
0.69 0.20 0.11
Matches are distributed among these distances:
59 20 0.16
60 28 0.22
61 28 0.22
62 2 0.02
63 41 0.33
64 6 0.05
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (61 bp):
TTAAATAATCTCAAAAAATTTTGTTTTAGATTATTTAAGGTGTTTTCTATCAAAAAACACC
Found at i:11771218 original size:61 final size:60
Alignment explanation
Indices: 11771138--11771252 Score: 167
Period size: 61 Copynumber: 1.9 Consensus size: 60
11771128 CTCAAAAAAA
*
11771138 TTTTGTTTGAGATTATTTAAGGTGTTTTCTAATAAAAAAACACCTTAAATAATCTTGTTTT
1 TTTTGTTTGAGATTATTTAAGGTATTTTCT-ATAAAAAAACACCTTAAATAATCTTGTTTT
* * ** *
11771199 TTTTTTTTTAGATTATTTAAGGTATTTTCTATCGAAAAACACCTTAACTAATCT
1 TTTTGTTTGAGATTATTTAAGGTATTTTCTATAAAAAAACACCTTAAATAATCT
11771253 CCTAAATAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
60 21 0.44
61 27 0.56
ACGTcount: A:0.32, C:0.10, G:0.10, T:0.48
Consensus pattern (60 bp):
TTTTGTTTGAGATTATTTAAGGTATTTTCTATAAAAAAACACCTTAAATAATCTTGTTTT
Found at i:11771512 original size:123 final size:124
Alignment explanation
Indices: 11771385--11771618 Score: 312
Period size: 123 Copynumber: 1.9 Consensus size: 124
11771375 TGTTCAATTT
* * * * * *
11771385 TTTTTTAGATTATTT-ATGACATTTTTTGATAGAAAATACCTTAAATAAAT-TCCTAAATAAATT
1 TTTTTGAGATTATTTGA-GACATTTTCTAACAAAAAAAACCTTAAAT-AATCTCCTAAATAAATT
* * * *
11771448 GGCTAATATTATTTAAGGCATTTTCTAG-TCAAAATGCCTTAAATAATGCAAAAAAAAATA
64 GACTAACATTATTTAAGGCATTTTCTAGTTAAAAACGCCTTAAATAATGCAAAAAAAAATA
*
11771508 TTTTTGAGATTATTTGAGACATTTTCTAACAAAAAAAATCTTAAATAATCTCCTAAATAAATTGA
1 TTTTTGAGATTATTTGAGACATTTTCTAACAAAAAAAACCTTAAATAATCTCCTAAATAAATTGA
* *
11771573 CTAGCATTATTTAAGGCGTTTTCTAGTTAAAAACGCCTTAAATAAT
66 CTAACATTATTTAAGGCATTTTCTAGTTAAAAACGCCTTAAATAAT
11771619 CCTGTTCAAT
Statistics
Matches: 95, Mismatches: 13, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
122 3 0.03
123 74 0.78
124 18 0.19
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.38
Consensus pattern (124 bp):
TTTTTGAGATTATTTGAGACATTTTCTAACAAAAAAAACCTTAAATAATCTCCTAAATAAATTGA
CTAACATTATTTAAGGCATTTTCTAGTTAAAAACGCCTTAAATAATGCAAAAAAAAATA
Found at i:11771679 original size:61 final size:62
Alignment explanation
Indices: 11771601--11771745 Score: 152
Period size: 61 Copynumber: 2.3 Consensus size: 62
11771591 TTTTCTAGTT
* * *
11771601 AAAAACGCCTTAAATAATCCTGTTCAATTTTTTATA-AAATT-TTTAAA-GGTATTTTTAGCC
1 AAAAACACCTTAAATAATCCTGGTCAATTTATTA-AGAAATTATTTAAAGGGTATTTTTAGCC
* ** * * *
11771661 AGAAAATACCTTAAATAATGTTGGTCAATTTATTAAGGACATTATTTAAAGGGTTTTTTTTGCC
1 A-AAAACACCTTAAATAATCCTGGTCAATTTATTAA-GAAATTATTTAAAGGGTATTTTTAGCC
11771725 AAAAACACCTTAATATAATCC
1 AAAAACACCTTAA-ATAATCC
11771746 CAAAAAAAAA
Statistics
Matches: 67, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
60 2 0.03
61 27 0.40
62 4 0.06
63 17 0.25
64 17 0.25
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (62 bp):
AAAAACACCTTAAATAATCCTGGTCAATTTATTAAGAAATTATTTAAAGGGTATTTTTAGCC
Found at i:11773881 original size:64 final size:62
Alignment explanation
Indices: 11773800--11773990 Score: 158
Period size: 64 Copynumber: 3.0 Consensus size: 62
11773790 CCCATTCAAT
*
11773800 TTTTTAA-AAGATTATTTAAGGCATTCTCTAGCAAAAAATATCTTAAATAATCCTTCAAAAAAA
1 TTTTTAACCAGATTATTTAAGGCATT-TCTAGCAAAAAATATCTTAAATAATCCTT-AAAAAAA
*** * * * * * **
11773863 TTTTTATGGAGATTATTTAAGGCATATT-TTGTCAGAAAACATGTTGAATAATCC-T--ATTAA
1 TTTTTAACCAGATTATTTAAGGCAT-TTCTAG-CAAAAAATATCTTAAATAATCCTTAAAAAAA
* *
11773923 TTTTTAACCAGTATTATTTAAGGCATTTTCTAGCCAAAAATACCTTAAATAATCCTTTACAAAAA
1 TTTTTAACCAG-ATTATTTAAGGCA-TTTCTAGCAAAAAATATCTTAAATAATCC-TTA-AAAAA
11773988 A
62 A
11773989 TT
1 TT
11773991 GTACTGGATT
Statistics
Matches: 96, Mismatches: 21, Indels: 19
0.71 0.15 0.14
Matches are distributed among these distances:
60 11 0.11
61 31 0.32
62 3 0.03
63 10 0.10
64 35 0.36
65 1 0.01
66 5 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (62 bp):
TTTTTAACCAGATTATTTAAGGCATTTCTAGCAAAAAATATCTTAAATAATCCTTAAAAAAA
Done.