Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 59 of 190
Found at i:9784061 original size:13 final size:12
Alignment explanation
Indices: 9784040--9784085 Score: 58
Period size: 11 Copynumber: 3.7 Consensus size: 12
9784030 TTGATCATTT
9784040 AAAAAAAAAAGC
1 AAAAAAAAAAGC
9784052 AAATAAAAAAAGGAC
1 AAA-AAAAAAA-G-C
9784067 AAAAAAAAAA-C
1 AAAAAAAAAAGC
9784078 AAAAAAAA
1 AAAAAAAA
9784086 TGTTGCCTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
11 9 0.29
12 3 0.10
13 7 0.23
14 8 0.26
15 4 0.13
ACGTcount: A:0.85, C:0.07, G:0.07, T:0.02
Consensus pattern (12 bp):
AAAAAAAAAAGC
Found at i:9784069 original size:15 final size:13
Alignment explanation
Indices: 9784040--9784085 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
9784030 TTGATCATTT
9784040 AAAAAAAAAAGCA
1 AAAAAAAAAAGCA
* *
9784053 AATAAAAAAAGGA
1 AAAAAAAAAAGCA
9784066 CAAAAAAAAAA-CA
1 -AAAAAAAAAAGCA
9784079 AAAAAAA
1 AAAAAAA
9784086 TGTTGCCTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
12 7 0.25
13 12 0.43
14 9 0.32
ACGTcount: A:0.85, C:0.07, G:0.07, T:0.02
Consensus pattern (13 bp):
AAAAAAAAAAGCA
Found at i:9784127 original size:124 final size:124
Alignment explanation
Indices: 9783822--9784160 Score: 610
Period size: 124 Copynumber: 2.7 Consensus size: 124
9783812 ATAAAAAAAC
* *
9783822 AAAAAAACAAAAAAAA-GTTGCCTCTATTTAGAGGAGTTTTGTTTATGTTTCTCAAAGTCATTGA
1 AAAAAAACAAAAAAAATGTTGCCTCTATTTAGAGGAGCTTTGTTTATGTTTCTCAAAATCATTGA
*
9783886 GCTTCTGCTTAGAGGAGCTTTGATCATTTAAAAAAAAAAGCAAAAAAAAAAAAAGGACAA
66 GCCTCTGCTTAGAGGAGCTTTGATCATTTAAAAAAAAAAGC-AAAAAAAAAAAAGGACAA
9783946 AAAAAAACAAAAAAAATGTTGCCTCTATTTAGAGGAGCTTTGTTTATGTTTCTCAAAATCATTGA
1 AAAAAAACAAAAAAAATGTTGCCTCTATTTAGAGGAGCTTTGTTTATGTTTCTCAAAATCATTGA
*
9784011 GCCTCTGCTTAGAGGAGCTTTGATCATTTAAAAAAAAAAGC-AAATAAAAAAAGGACAAA
66 GCCTCTGCTTAGAGGAGCTTTGATCATTTAAAAAAAAAAGCAAAAAAAAAAAAGGAC-AA
9784070 AAAAAAACAAAAAAAATGTTGCCTCTATTTAGAGGAGCTTTGTTTATGTTTCTCAAAATCATTGA
1 AAAAAAACAAAAAAAATGTTGCCTCTATTTAGAGGAGCTTTGTTTATGTTTCTCAAAATCATTGA
9784135 GCCTCTGCTTAGAGGAGCTTTGATCA
66 GCCTCTGCTTAGAGGAGCTTTGATCA
9784161 AAATTTTTTT
Statistics
Matches: 209, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
123 14 0.07
124 109 0.52
125 86 0.41
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (124 bp):
AAAAAAACAAAAAAAATGTTGCCTCTATTTAGAGGAGCTTTGTTTATGTTTCTCAAAATCATTGA
GCCTCTGCTTAGAGGAGCTTTGATCATTTAAAAAAAAAAGCAAAAAAAAAAAAGGACAA
Found at i:9784383 original size:22 final size:24
Alignment explanation
Indices: 9784347--9784405 Score: 61
Period size: 23 Copynumber: 2.5 Consensus size: 24
9784337 CAGTTGTAGG
* *
9784347 GATTTTTATTCATTTTTAT-TTTA-
1 GATTTTT-TTTATTTTCATATTTAT
9784370 GATTTTTTTTA-TTTCATATTTAT
1 GATTTTTTTTATTTTCATATTTAT
*
9784393 CATTTTTTTTATT
1 GATTTTTTTTATT
9784406 ATCTGATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 5 0.17
22 7 0.23
23 17 0.57
24 1 0.03
ACGTcount: A:0.20, C:0.05, G:0.03, T:0.71
Consensus pattern (24 bp):
GATTTTTTTTATTTTCATATTTAT
Found at i:9784653 original size:18 final size:18
Alignment explanation
Indices: 9784630--9784668 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
9784620 GAAAAAGATA
*
9784630 GAGGAGGAATCTGAATAG
1 GAGGAGGAATCCGAATAG
9784648 GAGGAGGAATCCGAATAG
1 GAGGAGGAATCCGAATAG
9784666 GAG
1 GAG
9784669 AAAAAAAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.38, C:0.08, G:0.41, T:0.13
Consensus pattern (18 bp):
GAGGAGGAATCCGAATAG
Found at i:9786585 original size:117 final size:115
Alignment explanation
Indices: 9786427--9786753 Score: 440
Period size: 117 Copynumber: 2.8 Consensus size: 115
9786417 TTCCTTAAAT
* * *
9786427 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCCAAAGAATATTTTT
1 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTACAAAAAATATTTTT
* * *
9786492 GAGAAAAAGTTGGAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGG
64 GAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAGG
* * * *
9786544 GTTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTAAAAAAAAAACATTTTT
1 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT--ACAAAAAATATTTTT
* *
9786609 AAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAGG
64 GAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAGG
* * *
9786661 ATTTTTGAGGAGAAGTTGAAAGTATCAATTTTTCTTTAAAAATAAATTTTCAAAAAATCAATTTT
1 ATTTTTGAGGAAAAGTTGAAAGTATCAA-TTTTCCTTAAAAATAAATTTACAAAAAAT--ATTTT
9786726 TGA-AGAAAAGTTGAAAGTATCAATTTTC
63 TGAGA-AAAAGTTGAAAGTATCAATTTTC
9786754 TCTGCACAAG
Statistics
Matches: 183, Mismatches: 21, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
115 3 0.02
116 9 0.05
117 122 0.67
118 49 0.27
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (115 bp):
ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTACAAAAAATATTTTTGA
GAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAGG
Found at i:9786754 original size:59 final size:58
Alignment explanation
Indices: 9786427--9786753 Score: 408
Period size: 59 Copynumber: 5.6 Consensus size: 58
9786417 TTCCTTAAAT
* * * * *
9786427 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCCAAAGAA-T
1 ATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTTCAAAAAAGA
* * *
9786486 ATTTTTG-AGAAAAAGTTGGAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGG
1 ATTTTTGAAG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAGA
* ** *
9786544 GTTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTAAAAAAAAAA
1 ATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAGA
* *
9786602 CATTTTT-AAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAGG
1 -ATTTTTGAA-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAGA
* * * *
9786661 ATTTTTGAGGAGAAGTTGAAAGTATCAATTTTTCTTTAAAAATAAATTTTCAAAAAATCA
1 ATTTTTGAAGAAAAGTTGAAAGTATCAA-TTTTCCTTAAAAATAAATTTTCAAAAAA-GA
9786721 ATTTTTGAAGAAAAGTTGAAAGTATCAATTTTC
1 ATTTTTGAAGAAAAGTTGAAAGTATCAATTTTC
9786754 TCTGCACAAG
Statistics
Matches: 232, Mismatches: 28, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
57 9 0.04
58 78 0.34
59 119 0.51
60 26 0.11
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (58 bp):
ATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAGA
Found at i:9787356 original size:23 final size:22
Alignment explanation
Indices: 9787301--9787357 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 22
9787291 TTCTGTTCTA
*
9787301 TTTTTTTTA-TAT-ATATTTTG
1 TTTTTTTTATTGTAATATTTTG
*
9787321 TTTTGTATT-TTGTAATATTTTGG
1 TTTT-TTTTATTGTAATATTTT-G
9787344 TTTTTTTTATTGTA
1 TTTTTTTTATTGTA
9787358 TTTCGTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
20 4 0.14
21 5 0.17
22 10 0.34
23 10 0.34
ACGTcount: A:0.18, C:0.00, G:0.11, T:0.72
Consensus pattern (22 bp):
TTTTTTTTATTGTAATATTTTG
Found at i:9787381 original size:24 final size:23
Alignment explanation
Indices: 9787347--9787399 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 23
9787337 ATTTTGGTTT
9787347 TTTTTATTGTATTTCGTATTTTA
1 TTTTTATTGTATTTCGTATTTTA
*
9787370 TTTTTATATGTATTTCGTTTTTTA
1 TTTTTAT-TGTATTTCGTATTTTA
9787394 TATTTT
1 T-TTTT
9787400 TTTTCCTGGA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 7 0.26
24 16 0.59
25 4 0.15
ACGTcount: A:0.17, C:0.04, G:0.08, T:0.72
Consensus pattern (23 bp):
TTTTTATTGTATTTCGTATTTTA
Found at i:9787390 original size:43 final size:42
Alignment explanation
Indices: 9787301--9787397 Score: 99
Period size: 43 Copynumber: 2.3 Consensus size: 42
9787291 TTCTGTTCTA
* *
9787301 TTTTTTTTATATATATTTTGTTTTGTATTTTGTAATATTTTGG
1 TTTTTTTTAT-TATATTTCGTTTTGTATTTTGTAATATTTTCG
* *
9787344 TTTTTTTTATTGTATTTCGTATTT-TATTTT-TATATGTATTTCG
1 TTTTTTTTATTATATTTCGT-TTTGTATTTTGTA-ATAT-TTTCG
*
9787387 TTTTTTATATT
1 TTTTTTTTATT
9787398 TTTTTTCCTG
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
41 2 0.04
42 17 0.37
43 27 0.59
ACGTcount: A:0.18, C:0.02, G:0.09, T:0.71
Consensus pattern (42 bp):
TTTTTTTTATTATATTTCGTTTTGTATTTTGTAATATTTTCG
Found at i:9792078 original size:18 final size:18
Alignment explanation
Indices: 9792055--9792089 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9792045 TAGAAAATAA
*
9792055 TTATATTATCTTATTTTT
1 TTATATTATATTATTTTT
*
9792073 TTATATTTTATTATTTT
1 TTATATTATATTATTTT
9792090 ATACGTATCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (18 bp):
TTATATTATATTATTTTT
Found at i:9797432 original size:39 final size:39
Alignment explanation
Indices: 9797378--9797457 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
9797368 TCGCACTAAA
*
9797378 GAAGAGAGCCATTTGATGGAATTAATTTTCAGTTATATT
1 GAAGAGAGCCATTTGATGGAATTAATTTTAAGTTATATT
*
9797417 GAAGAGAGCCATTTGATGGAATTCATTTTAAGTTATATT
1 GAAGAGAGCCATTTGATGGAATTAATTTTAAGTTATATT
9797456 GA
1 GA
9797458 TGCCTCATGG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.34, C:0.07, G:0.21, T:0.38
Consensus pattern (39 bp):
GAAGAGAGCCATTTGATGGAATTAATTTTAAGTTATATT
Found at i:9798797 original size:8 final size:9
Alignment explanation
Indices: 9798773--9798799 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
9798763 ATGAATACTT
9798773 CTCTTTTTG
1 CTCTTTTTG
9798782 CTCTTTTTG
1 CTCTTTTTG
9798791 CTCTTTTTG
1 CTCTTTTTG
9798800 AGTCCCCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.00, C:0.22, G:0.11, T:0.67
Consensus pattern (9 bp):
CTCTTTTTG
Found at i:9804914 original size:19 final size:19
Alignment explanation
Indices: 9804892--9804944 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
9804882 CAGTTTAAGA
9804892 TTTAGGGTTTGATTTAGCG
1 TTTAGGGTTTGATTTAGCG
* * *
9804911 TTTAAGG-TTAATTTTAGGG
1 TTTAGGGTTTGA-TTTAGCG
9804930 TTTAGGGTTTGATTT
1 TTTAGGGTTTGATTT
9804945 GCATGGGGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
18 3 0.11
19 21 0.78
20 3 0.11
ACGTcount: A:0.19, C:0.02, G:0.28, T:0.51
Consensus pattern (19 bp):
TTTAGGGTTTGATTTAGCG
Found at i:9807573 original size:144 final size:140
Alignment explanation
Indices: 9807040--9807573 Score: 408
Period size: 144 Copynumber: 3.8 Consensus size: 140
9807030 ATTTTTGTGA
* * * *
9807040 TTTTAATGCACCAAAAATTAT-AA-AA--T-AATCATGATCTAAAAGTTTTCATGAAAAACCAAC
1 TTTTAATGCACCAAAAATCATAAATAATTTAAAACATGATCTAGAAGTTTTCA-CAAAAACCAA-
* * * ** * *
9807100 CTTGAAAAGGTAAAATTATGAAAATACCCTTAAAGGATA-CTTAGGTAATTTCACACCTTTTGAG
64 CTTGAGAAGATTAAATTACAAAAATACCCTTAAAGGGTATTTTA-GTAATTTCACACCTTTTGAG
*
9807164 GTATGATCAAGGT
128 GTAAGATCAAGGT
* * * * * **
9807177 TTTTGAAT-CATCAAATACCATGAAATAACTTCAAAACTTGATCTA-AAGTGTTTCACAAAAAAT
1 TTTT-AATGCACCAAAAATCAT-AAATAA-TTTAAAACATGATCTAGAAGT-TTTCACAAAAACC
* * * *
9807240 AGACTTTG-GAAAAGTTAAATTACAAAAATACCGC-T-AAGGGTATTTTAATAATTTCATAACTT
62 A-AC-TTGAGAAGA-TTAAATTACAAAAATACC-CTTAAAGGGTATTTTAGTAATTTCACACCTT
* ***
9807302 TTGAGATGCTATCAAGGT
123 TTGAGGTAAGATCAAGGT
* * * ** *
9807320 TTTTAATGGACCAAAAATCATAATATAATATAAAATCATGATCT-GGAGCTTTTCGTGAAAAACT
1 TTTTAATGCACCAAAAATCATAA-ATAATTTAAAA-CATGATCTAGAAG-TTTTC-ACAAAAACC
* * * * * * *
9807384 AGCTGTGAGAAGGTTGAATTAAAAAAATACCCCTAAAAGGTATTTTAGTAATTTCACACCTATTG
62 AACT-TGAGAAGATTAAATTACAAAAATACCCTTAAAGGGTATTTTAGTAATTTCACACCTTTTG
9807449 AGGTAAGATCAAGGT
126 AGGTAAGATCAAGGT
* *
9807464 TCTTAATGCACCAAAAATCATCAAATAATGTTTAAACATGATCTAGAAGTTTTCACAAAGAACCA
1 TTTTAATGCACCAAAAATCAT-AAATAAT-TTAAAACATGATCTAGAAGTTTTCACAAA-AACCA
* *
9807529 ACTTCGAGAAGATTAAATTACAATAATACCCTTAAAGGGCATTTT
63 ACTT-GAGAAGATTAAATTACAAAAATACCCTTAAAGGGTATTTT
9807574 GATACTTTTA
Statistics
Matches: 302, Mismatches: 66, Indels: 51
0.72 0.16 0.12
Matches are distributed among these distances:
137 13 0.04
138 3 0.01
139 2 0.01
140 2 0.01
142 12 0.04
143 99 0.33
144 161 0.53
145 10 0.03
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.31
Consensus pattern (140 bp):
TTTTAATGCACCAAAAATCATAAATAATTTAAAACATGATCTAGAAGTTTTCACAAAAACCAACT
TGAGAAGATTAAATTACAAAAATACCCTTAAAGGGTATTTTAGTAATTTCACACCTTTTGAGGTA
AGATCAAGGT
Found at i:9808153 original size:21 final size:21
Alignment explanation
Indices: 9808108--9808166 Score: 59
Period size: 24 Copynumber: 2.7 Consensus size: 21
9808098 AAGAAAAAGG
9808108 AAAAATAAATAAATAAAGACAATA
1 AAAAATAAAT-AATAAAG--AATA
9808132 AAGAAATAAATAATAAAG-ATA
1 AA-AAATAAATAATAAAGAATA
9808153 AAAGAAT-AATAATA
1 AAA-AATAAATAATA
9808167 GTAAAGATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
20 8 0.24
21 8 0.24
24 9 0.27
25 8 0.24
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.19
Consensus pattern (21 bp):
AAAAATAAATAATAAAGAATA
Found at i:9808160 original size:17 final size:16
Alignment explanation
Indices: 9808073--9808164 Score: 55
Period size: 17 Copynumber: 5.5 Consensus size: 16
9808063 CAGATAATCA
*
9808073 AATAATTAAAGATAAAG
1 AATAA-TAAAGAAAAAG
9808090 AATAGGAT-AAGAAAAAGG
1 AATA--ATAAAGAAAAA-G
* *
9808108 AAAAATAAATAAATAA-
1 AATAATAAAGAAA-AAG
* *
9808124 AGACAATAAAGAAATA-
1 A-ATAATAAAGAAAAAG
9808140 AATAATAAAGATAAAAG
1 AATAATAAAGA-AAAAG
9808157 AATAATAA
1 AATAATAA
9808165 TAGTAAAGAT
Statistics
Matches: 59, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
15 9 0.15
16 8 0.14
17 34 0.58
18 7 0.12
19 1 0.02
ACGTcount: A:0.70, C:0.01, G:0.12, T:0.17
Consensus pattern (16 bp):
AATAATAAAGAAAAAG
Found at i:9808228 original size:14 final size:13
Alignment explanation
Indices: 9808191--9808227 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
9808181 AAAGAAAATG
9808191 AAAAATAAAATACA
1 AAAAATAAAATA-A
*
9808205 TAAAATAAAATAA
1 AAAAATAAAATAA
9808218 AAAAATAAAA
1 AAAAATAAAA
9808228 AGTAAAATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAAATAAAATAA
Found at i:9808228 original size:19 final size:20
Alignment explanation
Indices: 9808192--9808235 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
9808182 AAGAAAATGA
*
9808192 AAAATAAAATACATAAAA-T
1 AAAATAAAATAAATAAAAGT
9808211 AAAATAAAA-AAATAAAAAGT
1 AAAATAAAATAAAT-AAAAGT
9808231 AAAAT
1 AAAAT
9808236 GTAAACATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 3 0.14
19 13 0.59
20 6 0.27
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.18
Consensus pattern (20 bp):
AAAATAAAATAAATAAAAGT
Found at i:9808422 original size:15 final size:15
Alignment explanation
Indices: 9808390--9808423 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
9808380 TAAGGGGAGA
* *
9808390 GAAAGGAAACGAATG
1 GAAAGGAAACAAAAG
9808405 GAAAGGAAACAAAAG
1 GAAAGGAAACAAAAG
9808420 GAAA
1 GAAA
9808424 TGGGGAATCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.06, G:0.29, T:0.03
Consensus pattern (15 bp):
GAAAGGAAACAAAAG
Found at i:9808554 original size:5 final size:5
Alignment explanation
Indices: 9808544--9808576 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
9808534 AATTGGGGGA
9808544 AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAA
1 AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAA
9808577 AGAATAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (5 bp):
AAAGG
Found at i:9809541 original size:15 final size:15
Alignment explanation
Indices: 9809521--9809554 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
9809511 TTATATTTAT
9809521 TTTTCTTTTT-TTTCC
1 TTTTCTTTTTCTTT-C
9809536 TTTTCTTTTTCTTTC
1 TTTTCTTTTTCTTTC
9809551 TTTT
1 TTTT
9809555 TTTGGCAGCG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 15 0.83
16 3 0.17
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTCTTTTTCTTTC
Found at i:9810635 original size:11 final size:11
Alignment explanation
Indices: 9810619--9810648 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
9810609 AATAAGCTTT
9810619 ATAAAATAATA
1 ATAAAATAATA
9810630 ATAAAATAATA
1 ATAAAATAATA
9810641 A-AAAATAA
1 ATAAAATAA
9810649 GAAAAAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.37
11 12 0.63
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
ATAAAATAATA
Found at i:9810647 original size:10 final size:10
Alignment explanation
Indices: 9810621--9810655 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
9810611 TAAGCTTTAT
9810621 AAAATAATAA
1 AAAATAATAA
9810631 TAAAATAATAA
1 -AAAATAATAA
*
9810642 AAAATAAGAA
1 AAAATAATAA
9810652 AAAA
1 AAAA
9810656 CAATTTATCC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 13 0.57
11 10 0.43
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (10 bp):
AAAATAATAA
Found at i:9811729 original size:20 final size:19
Alignment explanation
Indices: 9811704--9811753 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 19
9811694 CTTTCAATAA
9811704 AAAAAAAAAGCCAAACAAAT-
1 AAAAAAAAA-CCAAA-AAATG
9811724 AAAAAACAAACCAAAAAATG
1 AAAAAA-AAACCAAAAAATG
9811744 AAAAGAAAAA
1 AAAA-AAAAA
9811754 TTTTCATATG
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
19 4 0.15
20 18 0.67
21 5 0.19
ACGTcount: A:0.78, C:0.12, G:0.06, T:0.04
Consensus pattern (19 bp):
AAAAAAAAACCAAAAAATG
Found at i:9812581 original size:16 final size:15
Alignment explanation
Indices: 9812562--9812591 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
9812552 GCATCATTTT
9812562 TAAAAAAAATCAAAAA
1 TAAAAAAAAT-AAAAA
9812578 TAAAAAAAATAAAA
1 TAAAAAAAATAAAA
9812592 TTTTCAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.13
Consensus pattern (15 bp):
TAAAAAAAATAAAAA
Found at i:9814079 original size:778 final size:776
Alignment explanation
Indices: 9812472--9814079 Score: 2567
Period size: 778 Copynumber: 2.1 Consensus size: 776
9812462 TTGGACGTCA
* *
9812472 TCATTCTGCCTAAATTCAAGGTCCCTGAATTTGAAAAATATGATAGCACAAAATCTCCCACTTGC
1 TCATTCTGCCTAAATTCAAGGTCCCTGAATTTGAAAAATATGATGGCACAAAATCCCCCACTTGC
*
9812537 ATTCATGCATCATATGCATCATTTTTAAAAAAAATCAAAAATAAAAAAAATAAAATTTTCAACAT
66 ATTCATGCATCATATGCACCATTTTTAAAAAAAATCAAAAATAAAAAAAATAAAATTTTCAACAT
*
9812602 ATGGCATTCTGATTTTTTAAAAAAATTTATTGTAATAAAGGTTCAAGAACAGCTCACCCACCAAA
131 ATGGCATTCTGATTTTTTAAAAAAATTTATGGTAATAAAGGTTCAAGAACAGCTCACCCACCAAA
*
9812667 AATTTTGACTCAACCTACTTTCCATTCATACAACACTAGAGCTCAAACAAAAATCCTGGAACAAG
196 AATTTTGACTCAACCTACTTTCCATTCATACAACACTAGAGCTCAAACAAAAATCATGGAACAAG
* * * *
9812732 AACAGGATAGTCAATTTCAAAGGATAGAGAAGGCTTAAGGAGAACTAAAAGAGGATATTGATAAG
261 AACAGGATAGTAAATTTCAAAGGATAGAGAAGGCTTAAGAAGAACTAAAAGAGGACATTGAGAAG
* * *
9812797 ATAATGGACATGCTCAAGAAACTTAATAAAGGAAAAGCAGTGAAAGGAAATCATAGCTTTCAAGA
326 ATAATAGACATGCTCAAGAAACTTAATAAAAGAAAAGCAGTGAAAAGAAATCATAGCTTTCAAGA
* * * *
9812862 GCTATCGTTAGACATGCTCAATCCTTTTAACCCTCTAGGGTTTGAGCCATGACCAACCTAACATT
391 GCAATCGCTAGACATGCTCAATCCTTTTAACCCTCTAGGGTTTAAGCCATGACCAACCCAACATT
*
9812927 CTCAAGGAACCAGAGTGCGAATTCTTACTCCTGGAAGATATTCCAATCTTTATCCAGGAATGACA
456 CTCAAGGAACCAGAGTGCAAATTCTTACTCCTGGAAGATATTCCAATCTTTATCCAGGAATGACA
* *
9812992 TCCACACCTGCTTTAGAATAATTCTAAAATTTTACCAATCCTGTTATGATAGAAAAACCACCTGA
521 TCCACACCTGCTCTAGAACAATTCTAAAATTTTACCAATCCTGTTATGATAGAAAAACCACCTGA
* * * * * *
9813057 GCTAATCTTGGTTTTTGATTTAGATGATCCTAATAAGAGAGAAAAGATAAGGATGAAGACACTTG
586 GCCAATCTTGGTTCTTAATTTAGATGATCCCAATAAGAGAGAAAAGATAAGGATGAAAAAACTTG
* *
9813122 AAAAAGTAAAAGATACCAATGCCAAACAGAAGATAAAAGTATTAGAAGAAAGACTTAAAGCCATA
651 AAAAAGTAAAAGATACCAATGCCAAACAGAAGATAAAAGTATTAGAAAAAAAACTTAAAGCCATA
* *
9813187 GAGGAAATAAATTTTTATGGCTCTATGGATGCAACCGAGCTTTGTTTGGTCTTGGACGTGG
716 GAGGAAATAAATTTTTATGGCTCTATGGATGCAACCGAGCTTTGTTTGGTCCTAGACGTGG
*
9813248 TCATTCTACCTAAATTCAAGGTCCCTGAATTTGAAAAATATGATGGCACAAAATCCCCCACTTGC
1 TCATTCTGCCTAAATTCAAGGTCCCTGAATTTGAAAAATATGATGGCACAAAATCCCCCACTTGC
* **
9813313 ATTCATGCATCATGTGCACCATTTTTTTCAAAAAATCAAAAATAAAAGAAAATAAAATTTTCAAC
66 ATTCATGCATCATATGCACCA-TTTTTAAAAAAAATCAAAAATAAAA-AAAATAAAATTTTCAAC
* **
9813378 ATATGGCATTCTGA-TTTTTAAAAAATATTTATGGTAATAAAGGTTCAAGAATAGCTCTTCCACC
129 ATATGGCATTCTGATTTTTTAAAAAA-ATTTATGGTAATAAAGGTTCAAGAACAGCTCACCCACC
*
9813442 AAAAATTTTGACTCAACCTACTTTCCATTCATACAACACTAGAGCTCAAACAAGAATCATGGAAC
193 AAAAATTTTGACTCAACCTACTTTCCATTCATACAACACTAGAGCTCAAACAAAAATCATGGAAC
* *
9813507 AAGAACAGGGTAGTAAATTTGAAAGGATAGAGAAGGCTTAAGAAGAACTAAAAGAGGACATTGAG
258 AAGAACAGGATAGTAAATTTCAAAGGATAGAGAAGGCTTAAGAAGAACTAAAAGAGGACATTGAG
9813572 AAGATAATAGACATGCTCAAGAAACTTAATAAAAGAAAAGCAGTGAAAAGAAATCATAGCTTTCA
323 AAGATAATAGACATGCTCAAGAAACTTAATAAAAGAAAAGCAGTGAAAAGAAATCATAGCTTTCA
* ** * *
9813637 AGAGCAATCGCTAGACATGGTGGATCCTTTTGACCCTTTAGGGTTTAAGCCATGACCAACCCAAC
388 AGAGCAATCGCTAGACATGCTCAATCCTTTTAACCCTCTAGGGTTTAAGCCATGACCAACCCAAC
* * * * **
9813702 CTTCTCAAGGAACTAGAGTGCAAATTAC-TACTCTTGGAGGATATTCCAATCTTTATTTAGGAAT
453 ATTCTCAAGGAACCAGAGTGCAAATT-CTTACTCCTGGAAGATATTCCAATCTTTATCCAGGAAT
*
9813766 GACATCCACACCTGCTCTAGAACAATT-TCAAAATTTTACCAATCCTGTTATGATGGAAAAACCA
517 GACATCCACACCTGCTCTAGAACAATTCT-AAAATTTTACCAATCCTGTTATGATAGAAAAACCA
* * * *
9813830 CTTGAGCCAATCTTGGTTCTTAATTTGGATGATCCCAATGAGAGAGAAAAGATAGGGAT-AAAAA
581 CCTGAGCCAATCTTGGTTCTTAATTTAGATGATCCCAATAAGAGAGAAAAGATAAGGATGAAAAA
* * *
9813894 AGCTTGAAAAAGTAAAAGATACCAATGCCTAACAGAAGATGAAAGTATTAGAAAAAAAACTTAAG
646 A-CTTGAAAAAGTAAAAGATACCAATGCCAAACAGAAGATAAAAGTATTAGAAAAAAAACTTAAA
*
9813959 GCCATAGAGGAAATGAATTTTTATGGCTCTATGGATGCAACCGAGCTTTGTTTGGTCCTAGACGT
710 GCCATAGAGGAAATAAATTTTTATGGCTCTATGGATGCAACCGAGCTTTGTTTGGTCCTAGACGT
9814024 GG
775 GG
*** *
9814026 TCATTCTGCCTAAATTCAAGGTTTTTGAATTTGAAAAATATGATGGAACAAAAT
1 TCATTCTGCCTAAATTCAAGGTCCCTGAATTTGAAAAATATGATGGCACAAAAT
9814080 GCCTAATGAC
Statistics
Matches: 762, Mismatches: 64, Indels: 10
0.91 0.08 0.01
Matches are distributed among these distances:
776 81 0.11
777 39 0.05
778 641 0.84
779 1 0.00
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (776 bp):
TCATTCTGCCTAAATTCAAGGTCCCTGAATTTGAAAAATATGATGGCACAAAATCCCCCACTTGC
ATTCATGCATCATATGCACCATTTTTAAAAAAAATCAAAAATAAAAAAAATAAAATTTTCAACAT
ATGGCATTCTGATTTTTTAAAAAAATTTATGGTAATAAAGGTTCAAGAACAGCTCACCCACCAAA
AATTTTGACTCAACCTACTTTCCATTCATACAACACTAGAGCTCAAACAAAAATCATGGAACAAG
AACAGGATAGTAAATTTCAAAGGATAGAGAAGGCTTAAGAAGAACTAAAAGAGGACATTGAGAAG
ATAATAGACATGCTCAAGAAACTTAATAAAAGAAAAGCAGTGAAAAGAAATCATAGCTTTCAAGA
GCAATCGCTAGACATGCTCAATCCTTTTAACCCTCTAGGGTTTAAGCCATGACCAACCCAACATT
CTCAAGGAACCAGAGTGCAAATTCTTACTCCTGGAAGATATTCCAATCTTTATCCAGGAATGACA
TCCACACCTGCTCTAGAACAATTCTAAAATTTTACCAATCCTGTTATGATAGAAAAACCACCTGA
GCCAATCTTGGTTCTTAATTTAGATGATCCCAATAAGAGAGAAAAGATAAGGATGAAAAAACTTG
AAAAAGTAAAAGATACCAATGCCAAACAGAAGATAAAAGTATTAGAAAAAAAACTTAAAGCCATA
GAGGAAATAAATTTTTATGGCTCTATGGATGCAACCGAGCTTTGTTTGGTCCTAGACGTGG
Found at i:9817639 original size:34 final size:34
Alignment explanation
Indices: 9817572--9817669 Score: 88
Period size: 34 Copynumber: 2.9 Consensus size: 34
9817562 AGTATTTTTG
* * * ** *
9817572 GAAAAGACATTTGCATTTCATGTGCATCTTTTAA
1 GAAAAGAAATTTACATCTCATAAGCATCATTTAA
* *
9817606 GATAAGAAATTTTCATCTCATAAGCATCATTTAA
1 GAAAAGAAATTTACATCTCATAAGCATCATTTAA
* * **
9817640 GAAAAGACATTTACATTTCATTTGCATCAT
1 GAAAAGAAATTTACATCTCATAAGCATCAT
9817670 AATGGTGTTC
Statistics
Matches: 51, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
34 51 1.00
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (34 bp):
GAAAAGAAATTTACATCTCATAAGCATCATTTAA
Found at i:9818226 original size:99 final size:99
Alignment explanation
Indices: 9818113--9819091 Score: 1197
Period size: 99 Copynumber: 9.9 Consensus size: 99
9818103 GGGTGATTTG
* * * *
9818113 CATTTTCTTGATGGTGATATTCAAGTTTCCTTCAGTGATGATATCCGAAGTCATTTGCATATTCT
1 CATTTTCTCGATGGTGATATTCGAGTTTCCTTCGGTGGTGATATCCGAAGTCATTTGCATATTCT
9818178 CGGTGGTGATATCCGAGTGTTAAGGCTTAAATTA
66 CGGTGGTGATATCCGAGTGTTAAGGCTTAAATTA
* * *
9818212 CATTTTTTCAATGGTGATATTCGAGTTTCTTTCGGTGGTGATATCCGAAGTCATTTGCATATTCT
1 CATTTTCTCGATGGTGATATTCGAGTTTCCTTCGGTGGTGATATCCGAAGTCATTTGCATATTCT
**
9818277 CAATGGTGATATCCGAGTGTTAAGGCTTAAATTA
66 CGGTGGTGATATCCGAGTGTTAAGGCTTAAATTA
* * *
9818311 CTTTTTCTCGATGGTGATATTCGAGTTTTCCTTCGGTGGTGATATCCAAAATCATTTGCAT-TTC
1 CATTTTCTCGATGGTGATATTCGAG-TTTCCTTCGGTGGTGATATCCGAAGTCATTTGCATATTC
* *
9818375 TAGGTGGTGATATCCGAGTGTTAAGTG-TTAAATTG
65 TCGGTGGTGATATCCGAGTGTTAAG-GCTTAAATTA
* * * * *
9818410 TATTTTCTCAATAGTGATATTCGAGTTTCCTTCGGTGGCGATATCTGAAGTCATTTGCATATTCT
1 CATTTTCTCGATGGTGATATTCGAGTTTCCTTCGGTGGTGATATCCGAAGTCATTTGCATATTCT
* ** * * *
9818475 CGATGGTGATATTAGAGTGTTAAGGCTTGATTTG
66 CGGTGGTGATATCCGAGTGTTAAGGCTTAAATTA
* * * * *
9818509 CATATTCTCGATGGTGATATTTGAGTTTCCTTCGGTAGTGATATCCGAAATAATTTGCATATTCT
1 CATTTTCTCGATGGTGATATTCGAGTTTCCTTCGGTGGTGATATCCGAAGTCATTTGCATATTCT
** * * * *
9818574 CAATGGTGATATCTGAGTGTTAAGGTTTGATTTA
66 CGGTGGTGATATCCGAGTGTTAAGGCTTAAATTA
* * * * *
9818608 TATTTTCTCGATGGTGATATTCGAGTTTTCTTCGATGGCGATATCCGAAGTAATTTGCATATTCT
1 CATTTTCTCGATGGTGATATTCGAGTTTCCTTCGGTGGTGATATCCGAAGTCATTTGCATATTCT
* * *
9818673 TGGTAGTGATATCCAAGTGTTAAGGCTTAAATTA
66 CGGTGGTGATATCCGAGTGTTAAGGCTTAAATTA
* * *
9818707 CATTTTCTCGATGGTGATATTCGAGTTTCCTTCGGTGGTAACATCCGAAGTAATTTGCATATTCT
1 CATTTTCTCGATGGTGATATTCGAGTTTCCTTCGGTGGTGATATCCGAAGTCATTTGCATATTCT
* *
9818772 CGGTGGTGATATCCGAGTGTTAAGACATAAATTA
66 CGGTGGTGATATCCGAGTGTTAAGGCTTAAATTA
* * ** ** * * *
9818806 CATTTTCTTGATAGTGATATTTAAGTTTCCTTTAGTGGCGATATCCAAAGTAATTTGCATATTCT
1 CATTTTCTCGATGGTGATATTCGAGTTTCCTTCGGTGGTGATATCCGAAGTCATTTGCATATTCT
** * *
9818871 TAGTGGTGATATCCGATTGATAAGGCTTAAATTA
66 CGGTGGTGATATCCGAGTGTTAAGGCTTAAATTA
* * * * * * *
9818905 TATCTTCTCGATGGTGATATTTGAGTTTCCTTCGATGGCGATATCCGAAGTTATTTGCATATTTT
1 CATTTTCTCGATGGTGATATTCGAGTTTCCTTCGGTGGTGATATCCGAAGTCATTTGCATATTCT
* * * *
9818970 TGGTGGTGATATCTGAGTGTTAAAGCTTGAATTA
66 CGGTGGTGATATCCGAGTGTTAAGGCTTAAATTA
* * * * * * **
9819004 CATTTTTTCAATGATGATATTCGAGTTTCCTTCGATGATGATATCCGAAGTCAATCACATATTCT
1 CATTTTCTCGATGGTGATATTCGAGTTTCCTTCGGTGGTGATATCCGAAGTCATTTGCATATTCT
9819069 CGGTGGTGATATCCGAGTGTTAA
66 CGGTGGTGATATCCGAGTGTTAA
9819092 AAATCATTTG
Statistics
Matches: 752, Mismatches: 124, Indels: 8
0.85 0.14 0.01
Matches are distributed among these distances:
98 32 0.04
99 687 0.91
100 33 0.04
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.40
Consensus pattern (99 bp):
CATTTTCTCGATGGTGATATTCGAGTTTCCTTCGGTGGTGATATCCGAAGTCATTTGCATATTCT
CGGTGGTGATATCCGAGTGTTAAGGCTTAAATTA
Found at i:9819285 original size:48 final size:48
Alignment explanation
Indices: 9819215--9819345 Score: 183
Period size: 49 Copynumber: 2.7 Consensus size: 48
9819205 ATTCAATTTA
* * *
9819215 AAAGTTGTTGAACTTCTGCTTAGAGGAGCTTTTTCAAGATAAATTTTT
1 AAAGTTGTTGAGCCTCTACTTAGAGGAGCTTTTTCAAGATAAATTTTT
* *
9819263 AAAGTTGTTGAGCCTCTACTTAGAGGAGCTCTTTCCAAGATGAATTTTT
1 AAAGTTGTTGAGCCTCTACTTAGAGGAGCT-TTTTCAAGATAAATTTTT
*
9819312 AAAGTTGTTGAGCCTTTGA-TTAGAGGAGCTTTTT
1 AAAGTTGTTGAGCCTCT-ACTTAGAGGAGCTTTTT
9819346 AAATTTTGAA
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
48 30 0.41
49 43 0.58
50 1 0.01
ACGTcount: A:0.27, C:0.12, G:0.21, T:0.40
Consensus pattern (48 bp):
AAAGTTGTTGAGCCTCTACTTAGAGGAGCTTTTTCAAGATAAATTTTT
Found at i:9819511 original size:14 final size:15
Alignment explanation
Indices: 9819492--9819522 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
9819482 ATTTTATTTA
9819492 TTTTT-CTTTTCTTT
1 TTTTTCCTTTTCTTT
9819506 TTTTTCCTTTTCTTT
1 TTTTTCCTTTTCTTT
9819521 TT
1 TT
9819523 CTGTTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTTCCTTTTCTTT
Found at i:9819516 original size:21 final size:22
Alignment explanation
Indices: 9819493--9819532 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
9819483 TTTTATTTAT
9819493 TTTTC-TTTTCT-TTTTTTTCC
1 TTTTCTTTTTCTGTTTTTTTCC
9819513 TTTTCTTTTTCTGTTTTTTT
1 TTTTCTTTTTCTGTTTTTTT
9819533 TGGTAGCGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 6 0.33
22 7 0.39
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (22 bp):
TTTTCTTTTTCTGTTTTTTTCC
Found at i:9820424 original size:12 final size:12
Alignment explanation
Indices: 9820407--9820441 Score: 63
Period size: 11 Copynumber: 3.0 Consensus size: 12
9820397 CGGTTCAAGT
9820407 AAATTTTTTTTA
1 AAATTTTTTTTA
9820419 AAA-TTTTTTTA
1 AAATTTTTTTTA
9820430 AAATTTTTTTTA
1 AAATTTTTTTTA
9820442 TTAATATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
AAATTTTTTTTA
Found at i:9820595 original size:11 final size:11
Alignment explanation
Indices: 9820579--9820608 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
9820569 AATAAGCCTT
9820579 ATAAAATAATA
1 ATAAAATAATA
9820590 ATAAAATAATA
1 ATAAAATAATA
9820601 A-AAAATAA
1 ATAAAATAA
9820609 GAAAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.37
11 12 0.63
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
ATAAAATAATA
Found at i:9820607 original size:10 final size:10
Alignment explanation
Indices: 9820581--9820615 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
9820571 TAAGCCTTAT
9820581 AAAATAATAA
1 AAAATAATAA
9820591 TAAAATAATAA
1 -AAAATAATAA
*
9820602 AAAATAAGAA
1 AAAATAATAA
9820612 AAAA
1 AAAA
9820616 AAATTTATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 13 0.57
11 10 0.43
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (10 bp):
AAAATAATAA
Found at i:9830066 original size:13 final size:13
Alignment explanation
Indices: 9830048--9830073 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9830038 AGGATTAGTG
9830048 GGTAGTAGTTGTT
1 GGTAGTAGTTGTT
9830061 GGTAGTAGTTGTT
1 GGTAGTAGTTGTT
9830074 AAACGTGGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.38, T:0.46
Consensus pattern (13 bp):
GGTAGTAGTTGTT
Found at i:9830765 original size:3 final size:3
Alignment explanation
Indices: 9830757--9830787 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
9830747 ATATTAAAAC
*
9830757 ATT ATT ATT ATT ATT ATT ATT GTT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
9830788 CTACTACTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:9834815 original size:32 final size:32
Alignment explanation
Indices: 9834770--9834832 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
9834760 TATTTTTGAT
*
9834770 AAATTTAATAATTTATGTATTTATATGATATA
1 AAATTTAATAATTTATATATTTATATGATATA
*
9834802 AAATATTAA-AATTTATATATTTATATTATAT
1 AAAT-TTAATAATTTATATATTTATATGATAT
9834833 TTTATATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 24 0.86
33 4 0.14
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (32 bp):
AAATTTAATAATTTATATATTTATATGATATA
Found at i:9834845 original size:32 final size:32
Alignment explanation
Indices: 9834770--9834856 Score: 88
Period size: 32 Copynumber: 2.8 Consensus size: 32
9834760 TATTTTTGAT
* * *
9834770 AAATTTAATAATTTATGTATTTATATGATATA
1 AAATATAAAAATTTATATATTTATATGATATA
* * *
9834802 AAATATTAAAATTTATATATTTATATTATATT
1 AAATATAAAAATTTATATATTTATATGATATA
**
9834834 TTATATAAAAA-TTATAT-TTTATA
1 AAATATAAAAATTTATATATTTATA
9834857 ATTCGTATCA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
30 6 0.13
31 6 0.13
32 34 0.74
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (32 bp):
AAATATAAAAATTTATATATTTATATGATATA
Found at i:9834955 original size:15 final size:14
Alignment explanation
Indices: 9834933--9834971 Score: 60
Period size: 15 Copynumber: 2.7 Consensus size: 14
9834923 AAAATTATAA
9834933 ATTATATTATTTAT
1 ATTATATTATTTAT
*
9834947 ATATATATTTTTTAT
1 AT-TATATTATTTAT
9834962 ATTATATTAT
1 ATTATATTAT
9834972 CGTGTTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
ATTATATTATTTAT
Found at i:9838343 original size:19 final size:19
Alignment explanation
Indices: 9838294--9838343 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
9838284 ATTTTAATAA
9838294 AAATAATATTATAATCATT
1 AAATAATATTATAATCATT
9838313 AAATACA-ATTATAAT-ATTT
1 AAATA-ATATTATAATCA-TT
*
9838332 AAATAATTTTAT
1 AAATAATATTAT
9838344 TTTATTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 2 0.07
19 24 0.89
20 1 0.04
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (19 bp):
AAATAATATTATAATCATT
Found at i:9838444 original size:12 final size:14
Alignment explanation
Indices: 9838434--9838493 Score: 52
Period size: 14 Copynumber: 4.2 Consensus size: 14
9838424 ATTATTAAAA
9838434 TTTTAATTAAATAT
1 TTTTAATTAAATAT
* *
9838448 TTTTAATTTATTATT
1 TTTTAATTAAATA-T
9838463 ATTTTATATTAAATAT
1 -TTTTA-ATTAAATAT
*
9838479 TATT--TTAAATAT
1 TTTTAATTAAATAT
9838491 TTT
1 TTT
9838494 GTGTTATCAA
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
12 10 0.27
14 11 0.30
15 4 0.11
16 6 0.16
17 6 0.16
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTTAATTAAATAT
Found at i:9838479 original size:17 final size:16
Alignment explanation
Indices: 9838433--9838486 Score: 67
Period size: 17 Copynumber: 3.4 Consensus size: 16
9838423 AATTATTAAA
9838433 ATTTTAATTAAATA-T
1 ATTTTAATTAAATATT
* *
9838448 -TTTTAATTTATTATT
1 ATTTTAATTAAATATT
9838463 ATTTTATATTAAATATT
1 ATTTTA-ATTAAATATT
9838480 ATTTTAA
1 ATTTTAA
9838487 ATATTTTGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
14 11 0.34
15 1 0.03
16 6 0.19
17 14 0.44
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTTTAATTAAATATT
Found at i:9844587 original size:21 final size:20
Alignment explanation
Indices: 9844556--9844609 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
9844546 TCCTTTATTA
9844556 TTTAA-TTTTAATTCCAATT
1 TTTAATTTTTAATTCCAATT
* *
9844575 TTTAATTTTTTAATTCTATTT
1 TTTAA-TTTTTAATTCCAATT
*
9844596 TTTAATCTTTAATT
1 TTTAATTTTTAATT
9844610 TTTTAGAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.17
20 8 0.27
21 17 0.57
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTAATTTTTAATTCCAATT
Found at i:9845343 original size:98 final size:98
Alignment explanation
Indices: 9845170--9845348 Score: 304
Period size: 98 Copynumber: 1.8 Consensus size: 98
9845160 TCTATCTTAC
9845170 GTCTTGGCTTCAATTAAAAAAAAACTATTAAGCTTCAATTACAAGTCTAGACATATCCCATCAAG
1 GTCTTGGCTTCAATTAAAAAAAAACTATTAAGCTTCAATTACAAGTCTAGACATATCCCATCAAG
*
9845235 CAAAAGGAAGACAAGGGCATGATCCCTCATCAT
66 CAAAAAGAAGACAAGGGCATGATCCCTCATCAT
* * * * *
9845268 GTCTTGGCTTCAATTAAAAAAGAATTATTAAGCTTTAATTATAAGTCTAGACTTATCCCATCAAG
1 GTCTTGGCTTCAATTAAAAAAAAACTATTAAGCTTCAATTACAAGTCTAGACATATCCCATCAAG
9845333 CAAAAAGAAGACAAGG
66 CAAAAAGAAGACAAGG
9845349 ACTTGGTTCC
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 75 1.00
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (98 bp):
GTCTTGGCTTCAATTAAAAAAAAACTATTAAGCTTCAATTACAAGTCTAGACATATCCCATCAAG
CAAAAAGAAGACAAGGGCATGATCCCTCATCAT
Found at i:9847462 original size:145 final size:146
Alignment explanation
Indices: 9847133--9847462 Score: 386
Period size: 145 Copynumber: 2.3 Consensus size: 146
9847123 GCCAATCACA
* * *
9847133 AAAATATCTCTAAAGGGTATTTTTGTAATTTCACACC--TCTAGGGGTACTGCTGTTACTTCAAA
1 AAAATATCCCTAAAGGGTATTTTTGTAATTTCACACCTTTCTAGGGGTACTGCTATGACTTCAAA
* * *
9847196 TGCACCAAAAACCATTAAATATTATGAAATTAAGATTTGAAAAGTTTCATGAAAAGCCAAGCCCG
66 TGCACCAAAAACCATCAAATATTATGAAATTAAGATGTAAAAAGTTTCATGAAAAGCCAAGCCCG
9847261 AAAAGGCCAAATTATG
131 AAAAGGCCAAATTATG
* * * * *
9847277 AAAATA-CCCATAATAAGATATTTTTGTAATTTCTCA-CTTTCTA-GGGTATTGCTATGATTTCA
1 AAAATATCCC-TAA-AGGGTATTTTTGTAATTTCACACCTTTCTAGGGGTACTGCTATGACTTCA
* * *
9847339 AATGTATCAAAAGCCATCAAATATTATGAAATTAAGATGTAAAAAGTTTCATGAAAATG-CAA-C
64 AATGCACCAAAAACCATCAAATATTATGAAATTAAGATGTAAAAAGTTTCATGAAAA-GCCAAGC
* ** * *
9847402 CTTGGGAATGTCAAATTATG
128 C-CGAAAAGGCCAAATTATG
* *
9847422 AAAATATCCCTAAAGGGCATTTTGGTAATTTCACACCTTTC
1 AAAATATCCCTAAAGGGTATTTTTGTAATTTCACACCTTTC
9847463 AAGGTGTGAT
Statistics
Matches: 154, Mismatches: 24, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
143 2 0.01
144 29 0.19
145 115 0.75
146 8 0.05
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.32
Consensus pattern (146 bp):
AAAATATCCCTAAAGGGTATTTTTGTAATTTCACACCTTTCTAGGGGTACTGCTATGACTTCAAA
TGCACCAAAAACCATCAAATATTATGAAATTAAGATGTAAAAAGTTTCATGAAAAGCCAAGCCCG
AAAAGGCCAAATTATG
Found at i:9849431 original size:59 final size:60
Alignment explanation
Indices: 9849350--9849509 Score: 155
Period size: 59 Copynumber: 2.7 Consensus size: 60
9849340 TGGAATGGGG
* ** **
9849350 TTATTCAAGGCA-TTTCTAGCCAAAAATGCCTTAAATAAT-TTTGTTCCA-TTTTTGTAGGA
1 TTATTCAAGG-AGTTTCTGGCCAAAAACACCTTAAATAATCCCT-TTCCATTTTTTGTAGGA
* * * *
9849409 TTATTCAAGGTGTTTCTGGCCAAAAACACCTTGAATAATCCCTTTCCATTTTTTTTGGGA
1 TTATTCAAGGAGTTTCTGGCCAAAAACACCTTAAATAATCCCTTTCCATTTTTTGTAGGA
* * * *
9849469 TTATTCAAGGAGTTTTTGGCTAGAAAACACATTGAATAATC
1 TTATTCAAGGAGTTTCTGGCCA-AAAACACCTTAAATAATC
9849510 TCATACAAAA
Statistics
Matches: 84, Mismatches: 13, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
59 38 0.45
60 29 0.35
61 17 0.20
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (60 bp):
TTATTCAAGGAGTTTCTGGCCAAAAACACCTTAAATAATCCCTTTCCATTTTTTGTAGGA
Found at i:9849505 original size:61 final size:59
Alignment explanation
Indices: 9849393--9849509 Score: 162
Period size: 60 Copynumber: 1.9 Consensus size: 59
9849383 AATAATTTTG
* *
9849393 TTCCATTTTTGTAGGATTATTCAAGGTGTTTCTGGCCAAAAACACCTTGAATAATCCCT
1 TTCCATTTTTGTAGGATTATTCAAGGAGTTTCTGGCCAAAAACACATTGAATAATCCCT
* * * *
9849452 TTCCATTTTTTTTGGGATTATTCAAGGAGTTTTTGGCTAGAAAACACATTGAATAATC
1 TTCCA-TTTTTGTAGGATTATTCAAGGAGTTTCTGGCCA-AAAACACATTGAATAATC
9849510 TCATACAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
59 5 0.10
60 28 0.56
61 17 0.34
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.39
Consensus pattern (59 bp):
TTCCATTTTTGTAGGATTATTCAAGGAGTTTCTGGCCAAAAACACATTGAATAATCCCT
Found at i:9849641 original size:58 final size:58
Alignment explanation
Indices: 9849578--9849692 Score: 135
Period size: 59 Copynumber: 1.9 Consensus size: 58
9849568 AATTTTTTTA
* *
9849578 TTTTTTAGGGAATTATTCAAGG-TATTTTTTGC-AAAAAAAGTCTTCAATAATCTCTTCCC
1 TTTTTTA-GG-ATTATTCAAGGCT-TTTTTAGCTAAAAAAAGCCTTCAATAATCTCTTCCC
* * *
9849637 TTTTTTTAGGATTATTCAAGGCTTTTTTAGCTAGAAAATGCCTTGAATAATCTCTT
1 -TTTTTTAGGATTATTCAAGGCTTTTTTAGCTAAAAAAAGCCTTCAATAATCTCTT
9849693 AGAAAAATTG
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
58 18 0.38
59 23 0.48
60 7 0.15
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.44
Consensus pattern (58 bp):
TTTTTTAGGATTATTCAAGGCTTTTTTAGCTAAAAAAAGCCTTCAATAATCTCTTCCC
Found at i:9849657 original size:179 final size:181
Alignment explanation
Indices: 9849342--9849717 Score: 440
Period size: 179 Copynumber: 2.1 Consensus size: 181
9849332 GATGTTTTTG
* * *
9849342 GAATGGGGTTATTCAAGGCATTTCTAGCCAAAAATGCCTTAAATAATTTTGTTCCATTTTTGTAG
1 GAATAGGGTTATTCAAGGCATTTATAGCCAAAAATACCTTAAATAATTTTGTTCCATTTTTGTAG
* * * * *
9849407 GATTATTCAAGGTGTTTCTGGCCAAAAACACCTTGAATAATCCCTTTCCATTTTTTTTGGGATTA
66 GATTATTCAAGGTATTTCTGGCCAAAAAAACCTTCAATAATCCCTTTCCACTTTTTTTAGGATTA
*
9849472 TTCAAGGAGTTTTTGGCTAGAAAACACATTGAATAATCTCATACAAAAAATT
131 TTCAAGGAGTTTTTAGCTAGAAAACACATTGAATAATCTCATA-AAAAAATT
* * * * *
9849524 GAATAGGGTTATTCAATGCATTTATGGCTAAAAATACCTTGAATAATTTT-TT-TATTTTT-TAG
1 GAATAGGGTTATTCAAGGCATTTATAGCCAAAAATACCTTAAATAATTTTGTTCCATTTTTGTA-
* * * *
9849586 GGAATTATTCAAGGTATTTTTTG-CAAAAAAAGTCTTCAATAATCTC-TTCC-CTTTTTTTAGGA
65 GG-ATTATTCAAGGTATTTCTGGCCAAAAAAA-CCTTCAATAATCCCTTTCCACTTTTTTTAGGA
** ** * * *
9849648 TTATTCAAGGCTTTTTTAGCTAGAAAATGCCTTGAATAATCTCTTAGAAAAATT
128 TTATTCAAGGAGTTTTTAGCTAGAAAACACATTGAATAATCTCATAAAAAAATT
*
9849702 GAATAGGTTTATTCAA
1 GAATAGGGTTATTCAA
9849718 AATGTTTCTG
Statistics
Matches: 165, Mismatches: 26, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
178 22 0.13
179 51 0.31
180 19 0.12
181 30 0.18
182 43 0.26
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.39
Consensus pattern (181 bp):
GAATAGGGTTATTCAAGGCATTTATAGCCAAAAATACCTTAAATAATTTTGTTCCATTTTTGTAG
GATTATTCAAGGTATTTCTGGCCAAAAAAACCTTCAATAATCCCTTTCCACTTTTTTTAGGATTA
TTCAAGGAGTTTTTAGCTAGAAAACACATTGAATAATCTCATAAAAAAATT
Found at i:9850107 original size:63 final size:63
Alignment explanation
Indices: 9850040--9850162 Score: 151
Period size: 63 Copynumber: 2.0 Consensus size: 63
9850030 TTTTTTTTTG
* * *
9850040 GATTATTCAAGGTATTTT-TGGCC-AGAACACGCCTTGAATAATCTTTTAAAAAAAATTAAAAAA
1 GATTATTCAAAGTATTTTCTAGCCTA-AA-ACGCCTTGAATAATCCTTTAAAAAAAATTAAAAAA
* * * *
9850103 GATTATTCAAAGTGTTTTCTAGCCTAAAATGCTTTGAATAATCCTTTACAAAAAATTAAA
1 GATTATTCAAAGTATTTTCTAGCCTAAAACGCCTTGAATAATCCTTTAAAAAAAATTAAA
9850163 GTGGATTAGT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
63 44 0.86
64 6 0.12
65 1 0.02
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.34
Consensus pattern (63 bp):
GATTATTCAAAGTATTTTCTAGCCTAAAACGCCTTGAATAATCCTTTAAAAAAAATTAAAAAA
Found at i:9850327 original size:61 final size:62
Alignment explanation
Indices: 9850165--9850329 Score: 178
Period size: 61 Copynumber: 2.7 Consensus size: 62
9850155 AAATTAAAGT
* * * * * *
9850165 GGATTAGTCAAGGCGTTTCTGGCAAAAAATTA-CTTGAATAAT-CCTTTTCATTTTTTATTGA
1 GGATTATTCAAGGTGTTTTTGGCCAAAAA-TACCTTGAATAATCCCCTTTCAATTTTTATTGA
* * *
9850226 GGATTATTCAAGGTATTTTTGG-CAGAAAACACATTGAATAATCCCCTTT-AATTTTTATTG-
1 GGATTATTCAAGGTGTTTTTGGCCA-AAAATACCTTGAATAATCCCCTTTCAATTTTTATTGA
*
9850286 GAGATTATTCAAGGTGTTTTTGGCCAAAAATACCTTAAATAATC
1 G-GATTATTCAAGGTGTTTTTGGCCAAAAATACCTTGAATAATC
9850330 TCTTGCTAAA
Statistics
Matches: 86, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
60 3 0.03
61 76 0.88
62 7 0.08
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (62 bp):
GGATTATTCAAGGTGTTTTTGGCCAAAAATACCTTGAATAATCCCCTTTCAATTTTTATTGA
Found at i:9851238 original size:103 final size:102
Alignment explanation
Indices: 9851125--9851331 Score: 296
Period size: 103 Copynumber: 2.0 Consensus size: 102
9851115 TTCTTTAAAA
* *
9851125 TTGTTTGAAAATGGCTT-CTCCTAAATA-AAGGCTTTGAAAC-TTTAGAAAATCTTGTTTGAAAA
1 TTGTTTGAAAATGGCTTCCT-CTAAACAGAA-GCTTTGAAACTTTTA-AAAATCTTCTTTGAAAA
9851187 TGGCTCT-CCCTAAACATAGGCTTTGAAACTTTTAAAAAATC
63 TGGCTCTCCCCTAAACATAGGCTTTGAAAC-TTT-AAAAATC
* *
9851228 TTGTTTGAAAATGGCTTCCTCTAAACAGAAGTTTTGAAACTTTTAAATATCTTCTTTGAAAATGG
1 TTGTTTGAAAATGGCTTCCTCTAAACAGAAGCTTTGAAACTTTTAAAAATCTTCTTTGAAAATGG
*
9851293 CTTTCCCCTAAACATAGGCTTTGAAACTTTAAAAATC
66 CTCTCCCCTAAACATAGGCTTTGAAACTTTAAAAATC
9851330 TT
1 TT
9851332 ATAATATTTT
Statistics
Matches: 95, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
102 9 0.09
103 56 0.59
104 30 0.32
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.37
Consensus pattern (102 bp):
TTGTTTGAAAATGGCTTCCTCTAAACAGAAGCTTTGAAACTTTTAAAAATCTTCTTTGAAAATGG
CTCTCCCCTAAACATAGGCTTTGAAACTTTAAAAATC
Found at i:9851242 original size:52 final size:49
Alignment explanation
Indices: 9851125--9851331 Score: 270
Period size: 51 Copynumber: 4.0 Consensus size: 49
9851115 TTCTTTAAAA
* *
9851125 TTGTTTGAAAATGGCTTCTCCTAAATAAAGGCTTTGAAACTTTAGAAAATC
1 TTGTTTGAAAATGGCTTC-CCTAAACATAGGCTTTGAAACTTTA-AAAATC
9851176 TTGTTTGAAAATGGCTCTCCCTAAACATAGGCTTTGAAACTTTTAAAAAATC
1 TTGTTTGAAAATGGCT-TCCCTAAACATAGGCTTTGAAAC-TTT-AAAAATC
* * * *
9851228 TTGTTTGAAAATGGCTTCCTCTAAACAGAAGTTTTGAAACTTTTAAATATC
1 TTGTTTGAAAATGGCTTCC-CTAAACATAGGCTTTGAAAC-TTTAAAAATC
*
9851279 TTCTTTGAAAATGGCTTTCCCCTAAACATAGGCTTTGAAACTTTAAAAATC
1 TTGTTTGAAAATGGC-TT-CCCTAAACATAGGCTTTGAAACTTTAAAAATC
9851330 TT
1 TT
9851332 ATAATATTTT
Statistics
Matches: 139, Mismatches: 11, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
51 69 0.50
52 67 0.48
53 3 0.02
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.37
Consensus pattern (49 bp):
TTGTTTGAAAATGGCTTCCCTAAACATAGGCTTTGAAACTTTAAAAATC
Found at i:9851777 original size:18 final size:18
Alignment explanation
Indices: 9851750--9851799 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
9851740 TTCCATCAAA
*
9851750 TGATGCGAATGCAAATGT
1 TGATGTGAATGCAAATGT
*
9851768 TGATGTGAATGTAAATGT
1 TGATGTGAATGCAAATGT
**
9851786 CAATGTGAATGCAA
1 TGATGTGAATGCAA
9851800 GAATGTGAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.30
Consensus pattern (18 bp):
TGATGTGAATGCAAATGT
Found at i:9852016 original size:21 final size:21
Alignment explanation
Indices: 9851991--9852046 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
9851981 TTTCTTATGC
*
9851991 TGCAAGTGCCAATGCAAGTGA
1 TGCAAGTGCGAATGCAAGTGA
* *
9852012 TGCAAGTGCGAATACTAGTGA
1 TGCAAGTGCGAATGCAAGTGA
*
9852033 TGCAAATGCGAATG
1 TGCAAGTGCGAATG
9852047 TCTTTTTATG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.34, C:0.16, G:0.29, T:0.21
Consensus pattern (21 bp):
TGCAAGTGCGAATGCAAGTGA
Found at i:9852222 original size:41 final size:41
Alignment explanation
Indices: 9852150--9852230 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
9852140 GTAAGTATGA
* **
9852150 ATGCAAGTGATGCAAGTGTGAATATCCTTTTTATGATACAG
1 ATGCAAGTGATGCAAATGCAAATATCCTTTTTATGATACAG
* * *
9852191 ATGCAAGTGATGCAAATGCAAATGTCTTTTTTGTGATACA
1 ATGCAAGTGATGCAAATGCAAATATCCTTTTTATGATACA
9852231 AATGTGAATG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.35
Consensus pattern (41 bp):
ATGCAAGTGATGCAAATGCAAATATCCTTTTTATGATACAG
Found at i:9852340 original size:42 final size:42
Alignment explanation
Indices: 9852279--9852361 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
9852269 AGTACAAATA
* *
9852279 CGAGTGATGCAAATATGAATGTCTTTTTTTGTGATGTAGATG
1 CGAGTGATGCAAATATGAATGTCCTTTTTTGTGATGCAGATG
*
9852321 CGAGTGATGCAAATGTGAATGTCCTTTTTTGTGATGCAGAT
1 CGAGTGATGCAAATATGAATGTCCTTTTTTGTGATGCAGAT
9852362 ATGAATACAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.25, C:0.10, G:0.27, T:0.39
Consensus pattern (42 bp):
CGAGTGATGCAAATATGAATGTCCTTTTTTGTGATGCAGATG
Found at i:9852442 original size:128 final size:127
Alignment explanation
Indices: 9852028--9852441 Score: 481
Period size: 126 Copynumber: 3.3 Consensus size: 127
9852018 TGCGAATACT
* ** * *
9852028 AGTGATGCAAATGCGAATGT-CTTTTTATGTGATACAGATGCAAGCAATGTAAATGCAAATATCT
1 AGTGATGCAAATACGAATGTCCTTTTT-TGTGATACAGATGCAAGTGATGCAAATGCAAATGTCT
* * * * * * * *
9852092 TTTTTGTGATGTAGATGTAAATGTAAATGTCTTTCGCATGACGCATATGTAAGTATGAATGCA
65 TTTTTGTGATGCAGATGTGAATGCAAATGTCTTTCTCATGATGCACATGCAAGTATGAATGCG
* ** * *
9852155 AGTGATGCAAGTGTGAATATCC-TTTTTATGATACAGATGCAAGTGATGCAAATGCAAATGTCTT
1 AGTGATGCAAATACGAATGTCCTTTTTTGTGATACAGATGCAAGTGATGCAAATGCAAATGTCTT
* * * ** *
9852219 TTTTGTGATACAAATGTGAATGCAAATGTCTTTCTCATGATGCACATACAAGTACAAATACG
66 TTTTGTGATGCAGATGTGAATGCAAATGTCTTTCTCATGATGCACATGCAAGTATGAATGCG
* * ** * **
9852281 AGTGATGCAAATATGAATGTCTTTTTTTGTGATGTAGATGCGAGTGATGCAAATGTGAATGTCCT
1 AGTGATGCAAATACGAATGTCCTTTTTTGTGATACAGATGCAAGTGATGCAAATGCAAATGT-CT
* * * *
9852346 TTTTTGTGATGCAGATATGAATACAAATGTCTTTCTCATGATGCACACGCAAGTATGAATGTG
65 TTTTTGTGATGCAGATGTGAATGCAAATGTCTTTCTCATGATGCACATGCAAGTATGAATGCG
9852409 AGTGATGCAAATACGAATGTCCTTTTTTGTGAT
1 AGTGATGCAAATACGAATGTCCTTTTTTGTGAT
9852442 GCAAATGTGA
Statistics
Matches: 240, Mismatches: 44, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
126 99 0.41
127 54 0.22
128 87 0.36
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.35
Consensus pattern (127 bp):
AGTGATGCAAATACGAATGTCCTTTTTTGTGATACAGATGCAAGTGATGCAAATGCAAATGTCTT
TTTTGTGATGCAGATGTGAATGCAAATGTCTTTCTCATGATGCACATGCAAGTATGAATGCG
Found at i:9852783 original size:127 final size:127
Alignment explanation
Indices: 9852554--9852866 Score: 455
Period size: 127 Copynumber: 2.5 Consensus size: 127
9852544 ATCATGCAAG
* * * *
9852554 TGATGCAAATGTGAATCTCTTTTTTGTGATGCAGATGTGAATGCAAATGTTTTTCTTATTATGCA
1 TGATGCAAATGTGAATGTCTTTTTTGTGATGCAGATGTGAATGCAAATGTCTTTCTCATTATACA
* * *
9852619 CATGCAAGTATGAATGCAAGTGATGCAAATGCAAATATCTTTTTTTGTGATACAAATACAAA
66 CACGCAAGTATGAATGCAAGTGATACAAATACAAATATCTTTTTTTGTGATACAAATACAAA
* * * *
9852681 TGATGCAAATGCGAATGTCTTTTTTGTGATGTAGATGTGAATGCAAATATCTTTCTCATTATATA
1 TGATGCAAATGTGAATGTCTTTTTTGTGATGCAGATGTGAATGCAAATGTCTTTCTCATTATACA
* * * * *
9852746 CACGCAAGTATGAATGCGAGTGATACAAATACGAATATCTTTTTTTGTGATATAGATACAAG
66 CACGCAAGTATGAATGCAAGTGATACAAATACAAATATCTTTTTTTGTGATACAAATACAAA
* * *
9852808 TGATACAAATGTGAATGTCTTCTTTGTGATGCAGATGTGAATGCAAATGTCTTTTTCAT
1 TGATGCAAATGTGAATGTCTTTTTTGTGATGCAGATGTGAATGCAAATGTCTTTCTCAT
9852867 ATGTAAATGC
Statistics
Matches: 164, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
127 164 1.00
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (127 bp):
TGATGCAAATGTGAATGTCTTTTTTGTGATGCAGATGTGAATGCAAATGTCTTTCTCATTATACA
CACGCAAGTATGAATGCAAGTGATACAAATACAAATATCTTTTTTTGTGATACAAATACAAA
Found at i:9853095 original size:144 final size:146
Alignment explanation
Indices: 9852917--9853209 Score: 358
Period size: 156 Copynumber: 2.0 Consensus size: 146
9852907 TTTTTTTTAT
*
9852917 AGCATGTATATTCGATGTCTTTCTCAAACAAGTGATGCAAATACAAA-TG-TCTCTTTTTTTTTT
1 AGCATGTAGATTCGATGTCTTTCTCAAACAAGTGATGCAAATACAAATTGTTCTCTTTTTTTTTT
** *
9852980 GGTGATGTA-AATCCGATGTCTTTCTCATGATGCACACGTAAGTACAAATGCGAGTGATGCAAAT
66 GGTGATGTAGAATCAAATGTCTTTCTCATGATGCACACGCAAGTACAAATGCGAGTGATGCAAAT
9853044 ATGAATTTTTTTATAGC
131 ATG-ATTTTTTTATAGC
* ** * * *
9853061 AGCATGTAGATTTGATGTCTTTCTCATGCAAGTGATGCAAATGCAAATGTTGTTATTTTTTTTTT
1 AGCATGTAGATTCGATGTCTTTCTCAAACAAGTGATGCAAATACAAA--TTG-T-TCTCTTTTTT
* *
9853126 TTTTGGTGATGTAGTTGTGAATCAAATGTCTTTCTCTTGATGCACATGCAAGTACAAATGCGAGT
62 TTTTGGTGATGTA-----GAATCAAATGTCTTTCTCATGATGCACACGCAAGTACAAATGCGAGT
*
9853191 GATGCAAATGTGATTTTTT
122 GATGCAAATATGATTTTTT
9853210 CAACATGCCA
Statistics
Matches: 124, Mismatches: 13, Indels: 13
0.83 0.09 0.09
Matches are distributed among these distances:
144 42 0.34
147 2 0.02
150 21 0.17
155 7 0.06
156 52 0.42
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.40
Consensus pattern (146 bp):
AGCATGTAGATTCGATGTCTTTCTCAAACAAGTGATGCAAATACAAATTGTTCTCTTTTTTTTTT
GGTGATGTAGAATCAAATGTCTTTCTCATGATGCACACGCAAGTACAAATGCGAGTGATGCAAAT
ATGATTTTTTTATAGC
Found at i:9854694 original size:140 final size:133
Alignment explanation
Indices: 9854361--9854740 Score: 383
Period size: 133 Copynumber: 2.8 Consensus size: 133
9854351 TTTTTTTTTA
* * * * * * *
9854361 TTTTTTTAGAAATATTTGACTTCAAT-TTTAGCATTCTACTTTCTTTG-ATTCTATTTTTTTAAA
1 TTTTTTT-GAAACATTTGACTTC-ATCTTTAACAATCAACTTT-TTTGAATTCTATTCTCTTGAA
* * *
9854424 GCTTCATTCACTTTTTGCCTCGAACTTTCATTTTCGAA-GTGCATTTCTTTTTTTTTTTTTGTTT
63 GCTTCATTCACTTTTTGCCTTGGACTTTCATCTTC-AAGGTGCATTTCTTTTTTTTTTTTTGTTT
*
9854488 TTCCTTC
127 TTACTTC
* *
9854495 TTTTTTTGGAACATTTGACTTCATCTTTAACAATCAACTTTTTTGAATTCTATTTTCTTGAAGCT
1 TTTTTTTGAAACATTTGACTTCATCTTTAACAATCAACTTTTTTGAATTCTATTCTCTTGAAGCT
* * *
9854560 TCATTCATTTTTTGCCTTGGACTTTCATCTTCAAGGTGTATTTCTTTTTTTTTCTCTGTTATTTA
66 TCATTCACTTTTTGCCTTGGACTTTCATCTTCAAGGTGCATTTCTTTTTTTTT-T-T-TT-GTT-
* *
9854625 TTTATTTAT
126 TTTACTT-C
* * *
9854634 TTATTTTTGAAACATTTGATTTCATCTTTAGCAATCTA-TTTTGTTGAATTCTATTCTCTTGAAG
1 TT-TTTTTGAAACATTTGACTTCATCTTTAACAATCAACTTTT-TTGAATTCTATTCTCTTGAAG
* * * *
9854698 CTTAATTCACTTTTTG-CTATAGACTTTTATCTTCGAGGTGCAT
64 CTTCATTCACTTTTTGCCT-TGGACTTTCATCTTCAAGGTGCAT
9854741 GTTAGATGTT
Statistics
Matches: 207, Mismatches: 27, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
132 8 0.04
133 88 0.43
134 8 0.04
135 1 0.00
136 2 0.01
137 2 0.01
138 5 0.02
139 8 0.04
140 85 0.41
ACGTcount: A:0.20, C:0.16, G:0.10, T:0.55
Consensus pattern (133 bp):
TTTTTTTGAAACATTTGACTTCATCTTTAACAATCAACTTTTTTGAATTCTATTCTCTTGAAGCT
TCATTCACTTTTTGCCTTGGACTTTCATCTTCAAGGTGCATTTCTTTTTTTTTTTTTGTTTTTAC
TTC
Found at i:9859488 original size:7 final size:7
Alignment explanation
Indices: 9859476--9859517 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
9859466 TTTTAATTCC
9859476 AATTTTT
1 AATTTTT
9859483 AATTTTTT
1 AA-TTTTT
*
9859491 AA-TTCT
1 AATTTTT
9859497 AATTTTT
1 AATTTTT
*
9859504 AATCTTT
1 AATTTTT
9859511 AATTTTT
1 AATTTTT
9859518 TAAAAAATAG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
6 5 0.17
7 17 0.59
8 7 0.24
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.67
Consensus pattern (7 bp):
AATTTTT
Found at i:9859492 original size:21 final size:20
Alignment explanation
Indices: 9859461--9859514 Score: 74
Period size: 21 Copynumber: 2.7 Consensus size: 20
9859451 TCTTTTTTTA
9859461 TTTAA-TTTTAATTCCAATT
1 TTTAATTTTTAATTCCAATT
*
9859480 TTTAATTTTTTAATTCTAATT
1 TTTAA-TTTTTAATTCCAATT
*
9859501 TTTAATCTTTAATT
1 TTTAATTTTTAATT
9859515 TTTTAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 5 0.16
20 8 0.26
21 18 0.58
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTAATTTTTAATTCCAATT
Found at i:9859501 original size:14 final size:15
Alignment explanation
Indices: 9859482--9859520 Score: 55
Period size: 13 Copynumber: 2.7 Consensus size: 15
9859472 TTCCAATTTT
9859482 TAATTTTTTAAT-TC
1 TAATTTTTTAATCTC
*
9859496 TAA-TTTTTAATCTT
1 TAATTTTTTAATCTC
9859510 TAATTTTTTAA
1 TAATTTTTTAA
9859521 AAAATAGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 8 0.36
14 7 0.32
15 7 0.32
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (15 bp):
TAATTTTTTAATCTC
Found at i:9862256 original size:144 final size:145
Alignment explanation
Indices: 9861944--9862262 Score: 342
Period size: 144 Copynumber: 2.2 Consensus size: 145
9861934 ATCCTTAAGA
* * * * * * * *
9861944 GGTATTTTCATAATTTCACACCACCTGGGGTATTGCT-ATGATTTCAACTGTACAAAAAATCATC
1 GGTATTTTCATAATTTTATACCTCCCGAGGCATTG-TAATGATTTCAAATGTACAAAAAACCATC
** * * * *
9862008 AAAGATTATGAAAATTATGATTTGGAAAGTTTTATGAATATCCAACCTTAGGAAAGTCAAATTAT
65 AAAGATTATGAAAATTAAAATTTGAAAAGTTTTATAAAAATCCAACCTTAGGAAAGTCAAAATAT
* *
9862073 GAAAATACCCCTAATG
130 GAAAATACCCCAAAAG
* * *
9862089 GGTATTTTCATAATTTTATACCTCTCGAGGCATTGTAATGATTTCAAATGTGCTAAAAACCATCA
1 GGTATTTTCATAATTTTATACCTCCCGAGGCATTGTAATGATTTCAAATGTACAAAAAACCATCA
* * *
9862154 AATATTATG-AAATTAAAATTTGAAAAGTTTTATAAAAATCCAACCTTGGGAAGGTCAAAAT-TG
66 AAGATTATGAAAATTAAAATTTGAAAAGTTTTATAAAAATCCAACCTTAGGAAAGTCAAAATATG
*
9862217 AAAAATACCTCAAAAG
131 -AAAATACCCCAAAAG
* *
9862233 GGTACTTTT-GTTA-TTTATCACCTCCCGAGG
1 GGTA-TTTTCATAATTTTAT-ACCTCCCGAGG
9862263 TGTGATTTAG
Statistics
Matches: 144, Mismatches: 26, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
143 7 0.05
144 73 0.51
145 64 0.44
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (145 bp):
GGTATTTTCATAATTTTATACCTCCCGAGGCATTGTAATGATTTCAAATGTACAAAAAACCATCA
AAGATTATGAAAATTAAAATTTGAAAAGTTTTATAAAAATCCAACCTTAGGAAAGTCAAAATATG
AAAATACCCCAAAAG
Found at i:9863365 original size:19 final size:19
Alignment explanation
Indices: 9863341--9863388 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
9863331 CTTGATGAGG
9863341 ATTTTGACAATACTTCCAA
1 ATTTTGACAATACTTCCAA
9863360 ATTTTGACAATACTTCCAA
1 ATTTTGACAATACTTCCAA
9863379 ATTTTGACAA
1 ATTTTGACAA
9863389 CAATTATCAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.38
Consensus pattern (19 bp):
ATTTTGACAATACTTCCAA
Found at i:9863724 original size:54 final size:53
Alignment explanation
Indices: 9863632--9863789 Score: 163
Period size: 54 Copynumber: 2.9 Consensus size: 53
9863622 AAAGGAAAAA
** * * ****
9863632 TAAATAAAAATAATTTTAAAAAATGAGGAAATTTTTGAATTGTTGTTTTTTCCT
1 TAAATAAAAATAATTTTAAAAAATGAGGAAA-AATTGAAATATCAAATTTTCCT
* *
9863686 TTAATAAAAATAATTTTAAAGAATGAGGAAAAAGTTGAAATATCAAATTTTCCT
1 TAAATAAAAATAATTTTAAAAAATGAGGAAAAA-TTGAAATATCAAATTTTCCT
** * * *
9863740 TAAATAAAAAGGATTTCAAAAAATGAGGAAAAATTGAAATTTCAATTTTT
1 TAAATAAAAATAATTTTAAAAAATGAGGAAAAATTGAAATATCAAATTTT
9863790 TTTGAAAATT
Statistics
Matches: 86, Mismatches: 17, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
53 15 0.17
54 71 0.83
ACGTcount: A:0.47, C:0.04, G:0.11, T:0.37
Consensus pattern (53 bp):
TAAATAAAAATAATTTTAAAAAATGAGGAAAAATTGAAATATCAAATTTTCCT
Found at i:9866706 original size:58 final size:57
Alignment explanation
Indices: 9866584--9866721 Score: 154
Period size: 57 Copynumber: 2.4 Consensus size: 57
9866574 GTGCAGGGAG
* * ** * *
9866584 AATTAATACTTTCAACTTTTTCCAAAAAATATTTTTTTGAAACTTTAATTTCGAAGAC
1 AATTGATACTTTCAAC-TTTTCCCAAAAATACATTTTTGAAACTTTAATTTCAAAGAA
* * *
9866642 AA-TGATACTTTCAACTTTTCCTCAAAAATCCATTTTTGAAAAC-TTATTTTTAAAGAA
1 AATTGATACTTTCAACTTTTCC-CAAAAATACATTTTTG-AAACTTTAATTTCAAAGAA
9866699 AATTGATACTTTCAACTTTTCCC
1 AATTGATACTTTCAACTTTTCCC
9866722 CAAACCTTTT
Statistics
Matches: 68, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
56 6 0.09
57 37 0.54
58 25 0.37
ACGTcount: A:0.36, C:0.17, G:0.05, T:0.42
Consensus pattern (57 bp):
AATTGATACTTTCAACTTTTCCCAAAAATACATTTTTGAAACTTTAATTTCAAAGAA
Found at i:9866846 original size:59 final size:59
Alignment explanation
Indices: 9866759--9866871 Score: 165
Period size: 59 Copynumber: 1.9 Consensus size: 59
9866749 AGAAAAAAAA
* * *
9866759 CTTATTTTCAAGAAAAATTGGTATTTTCAACTTTTCCTCAAAAATATTCTTTTGGAAAG
1 CTTATTTTAAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTCTTTTGGAAAG
* *
9866818 CTTATTTTAAA-AGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTG
1 CTTATTTTAAAGA-AAAATTGATACTTTCAACTTTTCCTCAAAAATATTCTTTTG
9866872 AATTTTATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
58 1 0.02
59 47 0.98
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (59 bp):
CTTATTTTAAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTCTTTTGGAAAG
Found at i:9867860 original size:43 final size:43
Alignment explanation
Indices: 9867794--9867904 Score: 127
Period size: 43 Copynumber: 2.5 Consensus size: 43
9867784 AAAAGGAAAA
* *
9867794 AAAAATATTAATAGATAATTAAAAAGAA-AATA-ATCAGATATAT
1 AAAAATATTAATAGATAAATAAAAAGAATAATAGAT-AAATA-AT
* *
9867837 CAAAATATTAATAGATAAATAAAAATAATAATAGATAAATAAT
1 AAAAATATTAATAGATAAATAAAAAGAATAATAGATAAATAAT
9867880 AATAAATATATAACTAGATAAATAA
1 AA-AAATAT-TAA-TAGATAAATAA
9867905 TATATATATT
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
43 28 0.48
44 14 0.24
45 5 0.09
46 11 0.19
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (43 bp):
AAAAATATTAATAGATAAATAAAAAGAATAATAGATAAATAAT
Found at i:9867861 original size:20 final size:20
Alignment explanation
Indices: 9867794--9867924 Score: 100
Period size: 23 Copynumber: 6.0 Consensus size: 20
9867784 AAAAGGAAAA
*
9867794 AAAAATATTAATAGATAATT
1 AAAAATATTAATAGATAAAT
* * *
9867814 AAAAAGAAAATAATCAGATATAT
1 -AAAA-ATATTAAT-AGATAAAT
*
9867837 CAAAATATTAATAGATAAAT
1 AAAAATATTAATAGATAAAT
*
9867857 AAAAATAATAATAGATAAATAAT
1 AAAAATATTAATAGAT--A-AAT
9867880 AATAAATATATAACTAGATAAAT
1 AA-AAATAT-TAA-TAGATAAAT
9867903 AATATATATATTAATAGATAAA
1 AA-A-A-ATATTAATAGATAAA
9867925 AAATAATAAT
Statistics
Matches: 89, Mismatches: 11, Indels: 18
0.75 0.09 0.15
Matches are distributed among these distances:
20 21 0.24
21 10 0.11
22 10 0.11
23 26 0.29
24 10 0.11
25 7 0.08
26 5 0.06
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (20 bp):
AAAAATATTAATAGATAAAT
Found at i:9867863 original size:14 final size:13
Alignment explanation
Indices: 9867846--9868079 Score: 94
Period size: 14 Copynumber: 17.1 Consensus size: 13
9867836 TCAAAATATT
9867846 AATAGATAAATAAA
1 AATA-ATAAATAAA
9867860 AATAAT-AATAGATA
1 AATAATAAATA-A-A
9867874 AATAAT-AATAAA
1 AATAATAAATAAA
* *
9867886 TAT-ATAACTAGATA
1 AATAATAAATA-A-A
* *
9867900 AATAATATAT-AT
1 AATAATAAATAAA
* *
9867912 ATTAATAGATAAAA
1 AATAATAAAT-AAA
9867926 AATAAT-AATAAAA
1 AATAATAAAT-AAA
*
9867939 AATATATATATTAATA
1 AATA-ATA-AATAA-A
*
9867955 AATAGT-AATAATA
1 AATAATAAATAA-A
9867968 AATAAATAAATAATA
1 AAT-AATAAATAA-A
9867983 AATACATAAGATACAA
1 AATA-ATAA-ATA-AA
9867999 AAT-A-AAATATAA
1 AATAATAAATA-AA
*
9868011 AAT-ATAAAGTATA
1 AATAATAAA-TAAA
9868024 AAT-ATAAATAAA
1 AATAATAAATAAA
9868036 AATAATAAAATATAA
1 AATAAT-AAATA-AA
9868051 AAT-ATAAAATACAA
1 AATAAT-AAATA-AA
*
9868065 AATAAAAAAATAAA
1 AAT-AATAAATAAA
9868079 A
1 A
9868080 TGGGCTTACC
Statistics
Matches: 176, Mismatches: 20, Indels: 48
0.72 0.08 0.20
Matches are distributed among these distances:
11 2 0.01
12 33 0.19
13 41 0.23
14 53 0.30
15 31 0.18
16 15 0.09
17 1 0.01
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (13 bp):
AATAATAAATAAA
Found at i:9867869 original size:63 final size:68
Alignment explanation
Indices: 9867791--9867936 Score: 169
Period size: 63 Copynumber: 2.2 Consensus size: 68
9867781 CAAAAAAGGA
* * * * *
9867791 AAAAAAAATATTAATAGATAATTAAAAAGAAA-ATA-ATC-AGATATATCA-A-A-ATATTAATA
1 AAAAAAAATAATAATAGATAAATAAAAAGAAATATATAACTAGATAAATAATATATATATTAATA
9867850 GAT
66 GAT
* *
9867853 AAATAAAAATAATAATAGATAAATAATAATAAATATATAACTAGATAAATAATATATATATTAAT
1 AAA-AAAAATAATAATAGATAAATAAAAAGAAATATATAACTAGATAAATAATATATATATTAAT
9867918 AGAT
65 AGAT
9867922 AAAAAATAATAATAA
1 AAAAAA-AATAATAA
9867937 AAAATATATA
Statistics
Matches: 69, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
62 3 0.04
63 25 0.36
64 3 0.04
65 2 0.03
66 8 0.12
67 1 0.01
68 4 0.06
69 23 0.33
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (68 bp):
AAAAAAAATAATAATAGATAAATAAAAAGAAATATATAACTAGATAAATAATATATATATTAATA
GAT
Found at i:9867878 original size:4 final size:4
Alignment explanation
Indices: 9867846--9868004 Score: 70
Period size: 4 Copynumber: 41.5 Consensus size: 4
9867836 TCAAAATATT
* * * *
9867846 AATA GATA AATA AAAA TAAT- AATA GATA AAT- AAT- AATA AATA TATA
1 AATA AATA AATA AATA -AATA AATA AATA AATA AATA AATA AATA AATA
* * * * * *
9867892 ACTA GATA AAT- AATA TATA TATT AATA GATA AA-A AAT- AAT- AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
* * *
9867936 AA-A AATA TATA TATT AATA AATA GTAAT- AATA AATA AATA AAT- AATA
1 AATA AATA AATA AATA AATA AATA --AATA AATA AATA AATA AATA AATA
* *
9867983 AATA CATA AGATA CA-A AATA AA
1 AATA AATA A-ATA AATA AATA AA
9868005 ATATAAAATA
Statistics
Matches: 116, Mismatches: 26, Indels: 26
0.69 0.15 0.15
Matches are distributed among these distances:
3 32 0.28
4 76 0.66
5 5 0.04
6 3 0.03
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (4 bp):
AATA
Found at i:9867881 original size:7 final size:7
Alignment explanation
Indices: 9867846--9868044 Score: 99
Period size: 7 Copynumber: 29.3 Consensus size: 7
9867836 TCAAAATATT
9867846 AATAGATA
1 AATA-ATA
9867854 AATAA-A
1 AATAATA
9867860 AATAAT-
1 AATAATA
9867866 AATAGATA
1 AATA-ATA
9867874 AATAAT-
1 AATAATA
9867880 AATAA-A
1 AATAATA
*
9867886 TAT-ATA
1 AATAATA
*
9867892 ACTAGATA
1 AATA-ATA
9867900 AATAATA
1 AATAATA
*
9867907 TAT-AT-
1 AATAATA
*
9867912 ATTAATA
1 AATAATA
* *
9867919 GATAAAA
1 AATAATA
9867926 AATAAT-
1 AATAATA
*
9867932 AATAAAA
1 AATAATA
9867939 AATATATA
1 AATA-ATA
*
9867947 TATTAATA
1 -AATAATA
*
9867955 AATAGT-
1 AATAATA
9867961 AATAATA
1 AATAATA
9867968 AATAAATA
1 AAT-AATA
9867976 AATAATA
1 AATAATA
9867983 AATACATA
1 AATA-ATA
9867991 AGATACA-A
1 A-ATA-ATA
9867999 AAT-A-A
1 AATAATA
9868004 AAT-ATA
1 AATAATA
9868010 AA-ATATA
1 AATA-ATA
9868017 AAGT-ATA
1 AA-TAATA
9868024 AAT-ATA
1 AATAATA
9868030 AATAA-A
1 AATAATA
9868036 AATAATA
1 AATAATA
9868043 AA
1 AA
9868045 ATATAAAATA
Statistics
Matches: 150, Mismatches: 18, Indels: 47
0.70 0.08 0.22
Matches are distributed among these distances:
5 8 0.05
6 49 0.33
7 53 0.35
8 32 0.21
9 8 0.05
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.29
Consensus pattern (7 bp):
AATAATA
Found at i:9867899 original size:46 final size:46
Alignment explanation
Indices: 9867839--9867991 Score: 150
Period size: 49 Copynumber: 3.2 Consensus size: 46
9867829 AGATATATCA
9867839 AAATAT-TAATAGATAAATAAA-AATAATAATAGATAAATAATAAT
1 AAATATATAATAGATAAATAAATAATAATAATAGATAAATAATAAT
*
9867883 AAATATATAACTAGATAAATAATATATATATTAATAGATAAAAAATAATAAT
1 AAATATATAA-TAGATAAATAA-ATA-ATAATAATAGAT---AAATAATAAT
* * * * *
9867935 AAA-AAATATATATATTAATAAATAGTAATAATAAATAAATAAATAAT
1 AAATATATA-ATAGATAAATAAATAATAATAATAGATAAAT-AATAAT
*
9867982 AAATACATAA
1 AAATATATAA
9867992 GATACAAAAT
Statistics
Matches: 90, Mismatches: 8, Indels: 19
0.77 0.07 0.16
Matches are distributed among these distances:
44 6 0.07
45 3 0.03
46 15 0.17
47 11 0.12
48 5 0.06
49 20 0.22
50 3 0.03
51 13 0.14
52 14 0.16
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (46 bp):
AAATATATAATAGATAAATAAATAATAATAATAGATAAATAATAAT
Found at i:9867935 original size:69 final size:72
Alignment explanation
Indices: 9867841--9867976 Score: 183
Period size: 69 Copynumber: 1.9 Consensus size: 72
9867831 ATATATCAAA
* * *
9867841 ATATTAATAGATAAATAAAAATAATAATAGATA-A-ATAATAATAAATA-T-ATAACTAGATAAA
1 ATATTAATAGATAAATAAAAATAATAAAAAATATATATAATAATAAATAGTAATAA-TAAATAAA
9867902 TAATATAT
65 TAATATAT
*
9867910 ATATTAATAGATAAA-AAATAATAATAAAAAATATATATATTAATAAATAGTAATAATAAATAAA
1 ATATTAATAGATAAATAAA-AATAATAAAAAATATATATAATAATAAATAGTAATAATAAATAAA
9867974 TAA
65 TAA
9867977 ATAATAAATA
Statistics
Matches: 58, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
68 3 0.05
69 27 0.47
70 1 0.02
71 12 0.21
72 11 0.19
73 4 0.07
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.32
Consensus pattern (72 bp):
ATATTAATAGATAAATAAAAATAATAAAAAATATATATAATAATAAATAGTAATAATAAATAAAT
AATATAT
Found at i:9867957 original size:29 final size:27
Alignment explanation
Indices: 9867845--9868073 Score: 97
Period size: 29 Copynumber: 8.5 Consensus size: 27
9867835 ATCAAAATAT
*
9867845 TAATAGATAAATAAA-A-ATAATAATAGA
1 TAATA-ATAAA-AAATATATAATAATAAA
*
9867872 TAAATAATAATAAATATATAACTAGATAAA
1 T-AATAATAAAAAATATATAA-TA-ATAAA
* * * *
9867902 TAAT-ATATATATTA-ATAGATAAAAAA
1 TAATAATAAAAAATATATA-ATAATAAA
9867928 TAATAATAAAAAATATATATATTAATAAA
1 TAATAATAAAAAATATATA-A-TAATAAA
* * *
9867957 TAGTAATAATAAATAAATAAATAATAAA
1 TAATAATAAAAAATATAT-AATAATAAA
* * *
9867985 TACATAAGATACAA-A-ATAA-AAT--A
1 TA-ATAATAAAAAATATATAATAATAAA
* *
9868008 TAA-AATATAAAGTATA-AAT-ATAAA
1 TAATAATAAAAAATATATAATAATAAA
* *
9868032 TAAAAATAATAAAATATAAAAT-ATAAAA
1 TAATAATAA-AAAATATATAATAAT-AAA
*
9868060 TACAAAATAAAAAA
1 TA-ATAATAAAAAA
9868074 ATAAAATGGG
Statistics
Matches: 156, Mismatches: 25, Indels: 41
0.70 0.11 0.18
Matches are distributed among these distances:
21 6 0.04
22 6 0.04
23 4 0.03
24 4 0.03
25 7 0.04
26 20 0.13
27 25 0.16
28 38 0.24
29 40 0.26
30 6 0.04
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (27 bp):
TAATAATAAAAAATATATAATAATAAA
Found at i:9868050 original size:40 final size:38
Alignment explanation
Indices: 9867999--9868074 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 38
9867989 TAAGATACAA
* *
9867999 AATAAAATATAAAATATAAAGTATAAATATAAATAAAAAT
1 AATAAAATATAAAATATAAAATACAAA-ATAAA-AAAAAT
9868039 AATAAAATATAAAATATAAAATACAAAATAAAAAAA
1 AATAAAATATAAAATATAAAATACAAAATAAAAAAA
9868075 TAAAATGGGC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
38 4 0.12
39 5 0.15
40 25 0.74
ACGTcount: A:0.74, C:0.01, G:0.01, T:0.24
Consensus pattern (38 bp):
AATAAAATATAAAATATAAAATACAAAATAAAAAAAAT
Found at i:9868052 original size:7 final size:7
Alignment explanation
Indices: 9868000--9868080 Score: 98
Period size: 7 Copynumber: 12.0 Consensus size: 7
9867990 AAGATACAAA
9868000 ATAAAAT
1 ATAAAAT
9868007 ATAAAAT
1 ATAAAAT
*
9868014 ATAAAGT
1 ATAAAAT
9868021 AT-AAAT
1 ATAAAAT
9868027 AT-AAAT
1 ATAAAAT
9868033 A-AAAAT
1 ATAAAAT
9868039 AATAAAAT
1 -ATAAAAT
9868047 ATAAAAT
1 ATAAAAT
9868054 ATAAAAT
1 ATAAAAT
*
9868061 ACAAAAT
1 ATAAAAT
*
9868068 A-AAAAA
1 ATAAAAT
9868074 ATAAAAT
1 ATAAAAT
9868081 GGGCTTACCC
Statistics
Matches: 65, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
6 19 0.29
7 41 0.63
8 5 0.08
ACGTcount: A:0.73, C:0.01, G:0.01, T:0.25
Consensus pattern (7 bp):
ATAAAAT
Found at i:9868078 original size:8 final size:7
Alignment explanation
Indices: 9867961--9868079 Score: 60
Period size: 7 Copynumber: 16.0 Consensus size: 7
9867951 AATAAATAGT
*
9867961 AATAATA
1 AATAAAA
9867968 AATAAATA
1 AATAAA-A
*
9867976 AATAATA
1 AATAAAA
9867983 AATACATAA
1 AATA-A-AA
* *
9867992 GATACAA
1 AATAAAA
9867999 AATAAAA
1 AATAAAA
*
9868006 TATAAAA
1 AATAAAA
* *
9868013 TATAAAG
1 AATAAAA
*
9868020 TATAAATA
1 AATAAA-A
9868028 TAA-ATAAA
1 -AATA-AAA
9868036 AATAATAA
1 AATAA-AA
*
9868044 AATATAA
1 AATAAAA
*
9868051 AATATAA
1 AATAAAA
*
9868058 AATACAA
1 AATAAAA
9868065 AATAAAAA
1 AAT-AAAA
9868073 AATAAAA
1 AATAAAA
9868080 TGGGCTTACC
Statistics
Matches: 89, Mismatches: 14, Indels: 18
0.74 0.12 0.15
Matches are distributed among these distances:
7 60 0.67
8 22 0.25
9 7 0.08
ACGTcount: A:0.72, C:0.03, G:0.02, T:0.24
Consensus pattern (7 bp):
AATAAAA
Found at i:9868442 original size:40 final size:41
Alignment explanation
Indices: 9868302--9868558 Score: 247
Period size: 42 Copynumber: 6.1 Consensus size: 41
9868292 CATAAACAAA
* * *
9868302 GCTCCTCTAATCAAAGGCTTAACAACTTTGAAAATGAATAAA--
1 GCTCCTCTAATCAGAGGCTCAACGACTTTG-AAA--AATAAATG
** * * * *
9868344 GCTTTTCTAATTAGAGGCTTAACAACTTTATAAATGAATAAA--
1 GCTCCTCTAATCAGAGGCTCAACGACTTT-GAAA--AATAAATG
* * *
9868386 GCTCCTCTAAAT-AGAGGCTCAATGACTTTGGAAAAT-AACG
1 GCTCCTCT-AATCAGAGGCTCAACGACTTTGAAAAATAAATG
9868426 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATGG
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAAT-G
9868468 TTGCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAATG
1 --GCTCCTCTAATCAGAGGCTCAACGAC-TTTGAAAAATAAATG
* *
9868512 GCTCCTCTAATTAGAGGCTCACCGACTTTGAAAAATAAATG
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATG
9868553 GCTCCT
1 GCTCCT
9868559 TGACAATCAT
Statistics
Matches: 188, Mismatches: 17, Indels: 21
0.83 0.08 0.09
Matches are distributed among these distances:
38 2 0.01
39 6 0.03
40 30 0.16
41 25 0.13
42 81 0.43
43 3 0.02
44 27 0.14
45 14 0.07
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (41 bp):
GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATG
Found at i:9868543 original size:86 final size:84
Alignment explanation
Indices: 9868386--9868553 Score: 257
Period size: 86 Copynumber: 2.0 Consensus size: 84
9868376 AATGAATAAA
* *
9868386 GCTCCTCTAAATAGAGGCTCAATGACTTTGGAAAATAACGGCTCCTCTAATCAGAGGCTCAACGA
1 GCTCCTCTAAATAGAGGCTCAACGACTTTGAAAAATAACGGCTCCTCTAATCAGAGGCTCAACGA
9868451 CTTTGAAAAATAAATGGTT
66 CTTTGAAAAATAAATGGTT
* * *
9868470 GCTCCTCT-AATCAGAGGCTCAACGACTTTTGAAAAATAAATGGCTCCTCTAATTAGAGGCTCAC
1 GCTCCTCTAAAT-AGAGGCTCAACGAC-TTTGAAAAAT-AACGGCTCCTCTAATCAGAGGCTCAA
9868534 CGACTTTGAAAAATAAATGG
63 CGACTTTGAAAAATAAATGG
9868554 CTCCTTGACA
Statistics
Matches: 76, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
83 3 0.04
84 21 0.28
85 9 0.12
86 43 0.57
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (84 bp):
GCTCCTCTAAATAGAGGCTCAACGACTTTGAAAAATAACGGCTCCTCTAATCAGAGGCTCAACGA
CTTTGAAAAATAAATGGTT
Found at i:9869569 original size:10 final size:10
Alignment explanation
Indices: 9869554--9869618 Score: 94
Period size: 10 Copynumber: 6.2 Consensus size: 10
9869544 TGAGTCTTTC
9869554 TTTTTCATTT
1 TTTTTCATTT
*
9869564 TTTTTCTTTTT
1 TTTTTC-ATTT
9869575 TCTTTTCATTTT
1 T-TTTTCA-TTT
9869587 TTTTTCATTT
1 TTTTTCATTT
9869597 TTTTTCATTT
1 TTTTTCATTT
9869607 TTTTTCATTT
1 TTTTTCATTT
9869617 TT
1 TT
9869619 CATTTTCATT
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
10 31 0.62
11 10 0.20
12 9 0.18
ACGTcount: A:0.08, C:0.11, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTCATTT
Found at i:9869575 original size:11 final size:11
Alignment explanation
Indices: 9869561--9869611 Score: 59
Period size: 12 Copynumber: 4.5 Consensus size: 11
9869551 TTCTTTTTCA
9869561 TTTTTTTTCTT
1 TTTTTTTTCTT
*
9869572 TTTTCTTTTCAT
1 TTTT-TTTTCTT
*
9869584 TTTTTTTTC-A
1 TTTTTTTTCTT
9869594 TTTTTTTTCATT
1 TTTTTTTTC-TT
9869606 TTTTTT
1 TTTTTT
9869612 CATTTTTCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
10 9 0.26
11 9 0.26
12 16 0.47
ACGTcount: A:0.06, C:0.10, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:9869596 original size:33 final size:32
Alignment explanation
Indices: 9869554--9869639 Score: 113
Period size: 33 Copynumber: 2.7 Consensus size: 32
9869544 TGAGTCTTTC
9869554 TTTTTCATTTTTTTTCTTTTTTCTTTTCATTTT
1 TTTTTCATTTTTTTTCTTTTTT-TTTTCATTTT
*
9869587 TTTTTCATTTTTTTTC-ATTTTTTTTCATTTT
1 TTTTTCATTTTTTTTCTTTTTTTTTTCATTTT
*
9869618 TCATTTTCATTTCTTTT-TTTTT
1 T--TTTTCATTTTTTTTCTTTTT
9869640 ATTTCAAGCA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
31 11 0.23
32 4 0.09
33 32 0.68
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (32 bp):
TTTTTCATTTTTTTTCTTTTTTTTTTCATTTT
Found at i:9869634 original size:10 final size:10
Alignment explanation
Indices: 9869550--9869634 Score: 62
Period size: 10 Copynumber: 7.8 Consensus size: 10
9869540 GCCTTGAGTC
9869550 TTTCTTTTTCA
1 TTTC-TTTTCA
* *
9869561 TTTTTTTTCTTT
1 TTTCTTTTC--A
9869573 TTTCTTTTCA
1 TTTCTTTTCA
*
9869583 TTTTTTTTTCA
1 -TTTCTTTTCA
*
9869594 TTTTTTTTCA
1 TTTCTTTTCA
*
9869604 TTTTTTTTCA
1 TTTCTTTTCA
9869614 TTTTTCATTTTCA
1 --TTTC-TTTTCA
9869627 TTTCTTTT
1 TTTCTTTT
9869635 TTTTTATTTC
Statistics
Matches: 62, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
10 29 0.47
11 16 0.26
12 11 0.18
13 6 0.10
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTCTTTTCA
Found at i:9869636 original size:38 final size:35
Alignment explanation
Indices: 9869556--9869643 Score: 99
Period size: 38 Copynumber: 2.5 Consensus size: 35
9869546 AGTCTTTCTT
* **
9869556 TTTCA-TTTTTTT-TCTTTTTTCTTTTCATTTTTT
1 TTTCATTTTTTTTATTTTTTTTCTTTTCATTTTCA
9869589 TTTCATTTTTTTTCATTTTTTTTCATTTTTCATTTTCA
1 TTTCATTTTTTTT-ATTTTTTTTC--TTTTCATTTTCA
*
9869627 TTTCTTTTTTTTTATTT
1 TTTCATTTTTTTTATTT
9869644 CAAGCATAGT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
33 5 0.11
34 7 0.15
36 8 0.17
37 4 0.09
38 22 0.48
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (35 bp):
TTTCATTTTTTTTATTTTTTTTCTTTTCATTTTCA
Found at i:9869637 original size:27 final size:27
Alignment explanation
Indices: 9869587--9869643 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
9869577 TTTTCATTTT
*
9869587 TTTTTCATTTTTTTTCATTTTTTTTCA
1 TTTTTCATTTTATTTCATTTTTTTTCA
*
9869614 TTTTTCATTTTCATTTC-TTTTTTTTTA
1 TTTTTCATTTT-ATTTCATTTTTTTTCA
9869641 TTT
1 TTT
9869644 CAAGCATAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 23 0.85
28 4 0.15
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.79
Consensus pattern (27 bp):
TTTTTCATTTTATTTCATTTTTTTTCA
Found at i:9880077 original size:58 final size:58
Alignment explanation
Indices: 9880012--9880292 Score: 327
Period size: 59 Copynumber: 4.8 Consensus size: 58
9880002 TGCTTTTGTG
* *
9880012 CAAGGAAAATTGATACTTTTAACTTTTTCC-CAAAAATATTTTTTTG-AAACTTTAATTT
1 CAAGGAAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTTGAAAAC-TTATTTT
* * ****
9880070 CGAGGAAAATTGATACTTTAAAC-TTTCCTCAAAAACCCATTTTTGAAAACTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAACTTATTTT
* * *
9880127 TAAGAAAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTAGAAAAAAAACTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTTG----AAAACTTATTTT
* * *
9880189 CAAGGAAAATTGATATTTTCAACTTTTCCTCAAAAATATTCTTTTCGAAAGCTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATT-TTTTTGAAAACTTATTTT
*
9880248 AAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
9880293 TGAATTTTAT
Statistics
Matches: 189, Mismatches: 24, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
56 5 0.03
57 38 0.20
58 44 0.23
59 49 0.26
62 47 0.25
63 6 0.03
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (58 bp):
CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAACTTATTTT
Found at i:9880683 original size:9 final size:9
Alignment explanation
Indices: 9880671--9880696 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
9880661 CCTTCCTCTT
9880671 CTTCTCTCC
1 CTTCTCTCC
9880680 CTTCTCTCC
1 CTTCTCTCC
9880689 CTTCTCTC
1 CTTCTCTC
9880697 TAAAACCTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (9 bp):
CTTCTCTCC
Found at i:9881272 original size:20 final size:20
Alignment explanation
Indices: 9881213--9881308 Score: 75
Period size: 20 Copynumber: 4.5 Consensus size: 20
9881203 AAAGAAAGAA
* * *
9881213 AAAAATATTAATAGATAATT
1 AAAAATAATAACAGATAAAT
* *
9881233 AAAAAGAAAATAATCAGATATAT
1 -AAAA-ATAATAA-CAGATAAAT
* *
9881256 CAAAATATTAACAGATAAAT
1 AAAAATAATAACAGATAAAT
*
9881276 AAAAATAATAATAGATAAAT
1 AAAAATAATAACAGATAAAT
9881296 AGATAAATAATAA
1 A-A-AAATAATAA
9881309 TAAATATATA
Statistics
Matches: 59, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
20 26 0.44
21 10 0.17
22 17 0.29
23 6 0.10
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.26
Consensus pattern (20 bp):
AAAAATAATAACAGATAAAT
Found at i:9881288 original size:26 final size:24
Alignment explanation
Indices: 9881258--9881334 Score: 73
Period size: 26 Copynumber: 3.0 Consensus size: 24
9881248 AGATATATCA
9881258 AAATATTAACAGATAAATAAAAAT
1 AAATATTAACAGATAAATAAAAAT
* * *
9881282 AATAATAGATAAATAGATAAATAATAAT
1 -A-AAT--ATTAACAGATAAATAAAAAT
9881310 AAATATATAACTAGATAAATAAAAA
1 AAATAT-TAAC-AGATAAATAAAAA
9881335 ATATATATAA
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
24 2 0.05
25 3 0.07
26 18 0.44
27 1 0.02
28 17 0.41
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (24 bp):
AAATATTAACAGATAAATAAAAAT
Found at i:9881314 original size:4 final size:4
Alignment explanation
Indices: 9881270--9881460 Score: 64
Period size: 4 Copynumber: 48.2 Consensus size: 4
9881260 ATATTAACAG
* * * *
9881270 ATAA ATAA AAATA AT-A ATAG ATAA ATAG ATAA AT-A AT-A ATAA ATAT
1 ATAA ATAA ATA-A ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
* * * *
9881316 ATAA CTAG ATAA ATAA A-AA ATATA TATAA ATATTA ACAGA TTAA A-AA
1 ATAA ATAA ATAA ATAA ATAA ATA-A -ATAA ATA--A ATA-A ATAA ATAA
* * *
9881363 TATAT ATTA ATAA ATAGTA AT-A ATAA ATAA ATAA AT-A ATAA ATAC ATAA
1 -ATAA ATAA ATAA ATA--A ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
* * * * *
9881412 GATAC A-AA ATAA A-AT ATAA A-AT ATAA AAAA AT-A AT-A ATAA AAAA
1 -ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
9881456 ATAA A
1 ATAA A
9881461 ATGGGCTTAC
Statistics
Matches: 135, Mismatches: 33, Indels: 38
0.66 0.16 0.18
Matches are distributed among these distances:
3 32 0.24
4 84 0.62
5 10 0.07
6 9 0.07
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (4 bp):
ATAA
Found at i:9881327 original size:22 final size:22
Alignment explanation
Indices: 9881278--9881341 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
9881268 AGATAAATAA
* *
9881278 AAATAATAATAGATAAATAGAT
1 AAATAATAATAAATATATAGAT
9881300 AAATAATAATAAATATATA-ACT
1 AAATAATAATAAATATATAGA-T
* *
9881322 AGATAAATAAAAAATATATA
1 AAAT-AATAATAAATATATA
9881342 TAAATATTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 1 0.03
22 21 0.58
23 14 0.39
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.28
Consensus pattern (22 bp):
AAATAATAATAAATATATAGAT
Found at i:9881390 original size:27 final size:26
Alignment explanation
Indices: 9881304--9881406 Score: 70
Period size: 27 Copynumber: 4.0 Consensus size: 26
9881294 ATAGATAAAT
* *
9881304 AATAATAAATATATA--ACTAGATA-
1 AATAATAAATATATATTAATAAATAG
* * *
9881327 AATAAAAAATATATATAAATATTAACAG
1 AATAATAAATATATATTAATA--AATAG
*
9881355 ATTAA-AAATATATATTAATAAATAG
1 AATAATAAATATATATTAATAAATAG
* *
9881380 TAATAATAAATAAATAAATAATAAATA
1 -AATAATAAATATAT-ATTAATAAATA
9881407 CATAAGATAC
Statistics
Matches: 62, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
23 14 0.23
25 7 0.11
26 4 0.06
27 23 0.37
28 14 0.23
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (26 bp):
AATAATAAATATATATTAATAAATAG
Found at i:9881421 original size:85 final size:83
Alignment explanation
Indices: 9881250--9881431 Score: 194
Period size: 85 Copynumber: 2.1 Consensus size: 83
9881240 AAATAATCAG
9881250 ATATATCA-AAATATTAACAGATAAATAAAAATAATAATAGATAAATAGATAAATAATAATAAAT
1 ATATAT-ATAAATATTAACAGAT--ATAAAAATAATAATAGATAAATAGATAAATAATAATAAAT
* *
9881314 ATATAACTAGATAAATAAAAA
63 ATATAAATACATAAATAAAAA
*
9881335 ATATATATAAATATTAACAGAT-TAAAAATATATATTA-ATAAATAG-T-AATAATAAATAAATA
1 ATATATATAAATATTAACAGATATAAAAATA-ATAATAGATAAATAGATAAATAAT-AATAAAT-
*
9881396 AATAATAAATACATAAGATACAAA
63 -AT-ATAAATACATAA-ATAAAAA
*
9881420 ATAAAATATAAA
1 AT-ATATATAAA
9881432 ATATAAAAAA
Statistics
Matches: 84, Mismatches: 5, Indels: 15
0.81 0.05 0.14
Matches are distributed among these distances:
80 6 0.07
81 8 0.10
82 16 0.19
83 7 0.08
84 11 0.13
85 28 0.33
86 8 0.10
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.29
Consensus pattern (83 bp):
ATATATATAAATATTAACAGATATAAAAATAATAATAGATAAATAGATAAATAATAATAAATATA
TAAATACATAAATAAAAA
Found at i:9881439 original size:14 final size:14
Alignment explanation
Indices: 9881420--9881462 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
9881410 AAGATACAAA
*
9881420 ATAAAATATAAAAT
1 ATAAAAAATAAAAT
9881434 ATAAAAAAATAATAAT
1 AT-AAAAAATAA-AAT
9881450 A-AAAAAATAAAAT
1 ATAAAAAATAAAAT
9881463 GGGCTTACCC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 3 0.12
14 11 0.42
15 8 0.31
16 4 0.15
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
ATAAAAAATAAAAT
Found at i:9882990 original size:612 final size:609
Alignment explanation
Indices: 9881817--9882990 Score: 1591
Period size: 609 Copynumber: 1.9 Consensus size: 609
9881807 GACCTAATTA
* * * * * * *
9881817 TATCATTACACTAGTTTTAAGTCCTAACAAACAAGCAATGAGAACTTAAAAATAACCAAGAGAAA
1 TATCATTAAACCAATTTTAAGTCCTAACAAACAAGCAAGGAGAACCTAAAAATAACCAAAAAAAA
* * * * *
9881882 GCTTATATTGATCCTATCTCTATGACCTAGACTAAACTATTCCCAAAACTGGTTAAAAATAATAT
66 GCCTATATTGATACTATCTCTATGACCTACACTAAACTATTCCCAAAACTAGTCAAAAATAATAT
* * ** * * *
9881947 GATATCATCGATTTATCTAGAACCACTAAAACCATGATATCTAAAATGGTATGATACCAATGCCA
131 GATATCATCGATTCATCTAGAACAACTAAAACCACCATATCCAAAATGGTATGATACCAATACAA
* * * * * **
9882012 CTTACAATTATCATAATGGGAATATGGGTCATTTTATATAAACTTGCCCTACTTTCAAGTGCAAG
196 CATACAAGTATCATAATGGAAATATGAGTCATTTTATAAAAACTTGCCCTACTTTCAAGCACAAG
* * * ** * *
9882077 GTTCAAAGTTTAATCCAAATGGGCTTGGAAAGCTTCGATGAATCAAGGGGTTAAATGTCAATTAA
261 GTGCAAAGTTTAATCCAAATAGGCTTGGAAAGCTTCAACAAATCAAAGGGTTAAATGTCAATAAA
* **
9882142 CATCCTTTGTTTGATCACAAAAGCATAATTTTGGGAAGGATGAGAAAGTTATGGCTAGCAGGAAG
326 AATCCTTTGCATGATCACAAAAGCATAATTTTGGGAAGGATGAGAAAGTTATGGCTAGCAGGAAG
* * * *
9882207 TTACTTATCATCTTAGGATTTCTTTTAAAGTAATGATAGGATATCTTTTATGTAATATGATTTTA
391 TTACTTATCATCTTAAGATTTCCTTTAAAGTAATGATAGGATATCTTTTATCTAATAGGATTTTA
*
9882272 TTTTTTATCATTTTAATAAAATGGCAAGTATGATGCATTTCATTACATTTTCTCTTTCATCGAAA
456 TTTTTTATCATTTTAATAAAATGGCAAGTATGATGCATTTCATTACATTTTCTCTTTCATCCAAA
*
9882337 CTAATATTCTATGCTTTGTTATTTCCCATATCCTTTTATTCCCATTCGTAACTAGTTTTCATTAC
521 CTAATATTCTATGCTTTGTTATTTCCCATATACTTTTATTCCCATTCGTAACTAGTTTTCATTAC
9882402 ATTTTATGCATATCAACGTAGTTT
586 ATTTTATGCATATCAACGTAGTTT
* **
9882426 TATCATTAAACCAATTTTAAAG-CCTAACAACCAAGCAAGGA-AACCTCGAAATAACCAAAAAAA
1 TATCATTAAACCAATTTT-AAGTCCTAACAAACAAGCAAGGAGAACCTAAAAATAACCAAAAAAA
* * * *
9882489 GAGCCTGTATTGATACTATCTCTATGACTTACACTAAACTATTCCTAAAACTAGTCAAAAGTAAT
65 -AGCCTATATTGATACTATCTCTATGACCTACACTAAACTATTCCCAAAACTAGTCAAAAATAAT
* * * * *
9882554 CTGATATCATCTG-TTCATTTGGAACAACTAAAATCACCATATCCAAAATGGTATGATGCCAATA
129 ATGATATCATC-GATTCATCTAGAACAACTAAAACCACCATATCCAAAATGGTATGATACCAATA
* * * * *
9882618 CAACATGC-GGTATCATAATGGAAATATGAGTTATTTTATAAAAACTTGCTCTATTTTCAAGCAC
193 CAACATACAAGTATCATAATGGAAATATGAGTCATTTTATAAAAACTTGCCCTACTTTCAAGCAC
* ** * *
9882682 AAGGTGCAAAGTTTGATCCAAATAGGCTTGGTGAGCTTTAACAAATCAGAAGGGTTGAATGTCAA
258 AAGGTGCAAAGTTTAATCCAAATAGGCTTGGAAAGCTTCAACAAATCA-AAGGGTTAAATGTCAA
* * *
9882747 TAAAAATCTTTTGCATGATCACACAAAGGCATAATTTTGGGAAGGATGAGAATGTTATGGCTAGT
322 TAAAAATCCTTTGCATGATCACA-AAA-GCATAATTTTGGGAAGGATGAGAAAGTTATGGCTAGC
* * * *
9882812 TGGAAGTTACTTATCATCTTAAGATTTCCTTTAAAGTAATGCTAGGATTTTTTTTTATCTAATAG
385 AGGAAGTTACTTATCATCTTAAGATTTCCTTTAAAGTAATGATAGGA-TATCTTTTATCTAATAG
* *
9882877 GATTTTATTTTTTATCATTTTAATAAAATGGCAAGTATGATGTATTTCATTATATTTTCTCTTTC
449 GATTTTATTTTTTATCATTTTAATAAAATGGCAAGTATGATGCATTTCATTACATTTTCTCTTTC
*
9882942 ATCCAAACTATTATTCTATGCTTTGTTATTTCCCATATACTTTTATTCC
514 ATCCAAACTAATATTCTATGCTTTGTTATTTCCCATATACTTTTATTCC
9882991 ACTCACAAAT
Statistics
Matches: 484, Mismatches: 74, Indels: 11
0.85 0.13 0.02
Matches are distributed among these distances:
608 102 0.21
609 175 0.36
610 7 0.01
611 78 0.16
612 122 0.25
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.36
Consensus pattern (609 bp):
TATCATTAAACCAATTTTAAGTCCTAACAAACAAGCAAGGAGAACCTAAAAATAACCAAAAAAAA
GCCTATATTGATACTATCTCTATGACCTACACTAAACTATTCCCAAAACTAGTCAAAAATAATAT
GATATCATCGATTCATCTAGAACAACTAAAACCACCATATCCAAAATGGTATGATACCAATACAA
CATACAAGTATCATAATGGAAATATGAGTCATTTTATAAAAACTTGCCCTACTTTCAAGCACAAG
GTGCAAAGTTTAATCCAAATAGGCTTGGAAAGCTTCAACAAATCAAAGGGTTAAATGTCAATAAA
AATCCTTTGCATGATCACAAAAGCATAATTTTGGGAAGGATGAGAAAGTTATGGCTAGCAGGAAG
TTACTTATCATCTTAAGATTTCCTTTAAAGTAATGATAGGATATCTTTTATCTAATAGGATTTTA
TTTTTTATCATTTTAATAAAATGGCAAGTATGATGCATTTCATTACATTTTCTCTTTCATCCAAA
CTAATATTCTATGCTTTGTTATTTCCCATATACTTTTATTCCCATTCGTAACTAGTTTTCATTAC
ATTTTATGCATATCAACGTAGTTT
Found at i:9885208 original size:22 final size:22
Alignment explanation
Indices: 9885113--9885208 Score: 88
Period size: 22 Copynumber: 4.3 Consensus size: 22
9885103 TCTAAAAAAT
9885113 TTTTTAAA-GTGAATCTTTAAA
1 TTTTTAAATGTGAATCTTTAAA
**
9885134 TTTTTAGTTGAT-AATCTTTGAAAA
1 TTTTTAAATG-TGAATCTTT--AAA
* * *
9885158 TTTTTTGAATATGAGTCTTTAAA
1 -TTTTTAAATGTGAATCTTTAAA
*
9885181 ATTTTAAATGTGAATCTTTAAA
1 TTTTTAAATGTGAATCTTTAAA
9885203 TTTTTA
1 TTTTTA
9885209 GTTAAGACTC
Statistics
Matches: 57, Mismatches: 12, Indels: 11
0.71 0.15 0.14
Matches are distributed among these distances:
21 6 0.11
22 31 0.54
23 4 0.07
24 4 0.07
25 12 0.21
ACGTcount: A:0.34, C:0.04, G:0.10, T:0.51
Consensus pattern (22 bp):
TTTTTAAATGTGAATCTTTAAA
Found at i:9885368 original size:17 final size:17
Alignment explanation
Indices: 9885323--9885427 Score: 86
Period size: 17 Copynumber: 6.2 Consensus size: 17
9885313 TGGAATTTCA
* *
9885323 CTTGCAAATCTTTGACTT
1 CTTGCAAATC-TTAAATT
* * *
9885341 TTTGTAAATCTTCAATT
1 CTTGCAAATCTTAAATT
*
9885358 CTTGCAAATC-TAAAAT
1 CTTGCAAATCTTAAATT
* *
9885374 CTTACAAATCTTTAATT
1 CTTGCAAATCTTAAATT
* *
9885391 ATTGCAAATCTTAAAAT
1 CTTGCAAATCTTAAATT
**
9885408 CTTGTTAATCTTAAATT
1 CTTGCAAATCTTAAATT
9885425 CTT
1 CTT
9885428 AAGAACCTAA
Statistics
Matches: 67, Mismatches: 19, Indels: 3
0.75 0.21 0.03
Matches are distributed among these distances:
16 13 0.19
17 46 0.69
18 8 0.12
ACGTcount: A:0.33, C:0.16, G:0.06, T:0.45
Consensus pattern (17 bp):
CTTGCAAATCTTAAATT
Found at i:9885396 original size:33 final size:34
Alignment explanation
Indices: 9885346--9885410 Score: 105
Period size: 33 Copynumber: 1.9 Consensus size: 34
9885336 GACTTTTTGT
*
9885346 AAATCTTCAATTCTTGCAAATC-TAAAATCTTAC
1 AAATCTTCAATTATTGCAAATCTTAAAATCTTAC
*
9885379 AAATCTTTAATTATTGCAAATCTTAAAATCTT
1 AAATCTTCAATTATTGCAAATCTTAAAATCTT
9885411 GTTAATCTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 20 0.69
34 9 0.31
ACGTcount: A:0.40, C:0.17, G:0.03, T:0.40
Consensus pattern (34 bp):
AAATCTTCAATTATTGCAAATCTTAAAATCTTAC
Found at i:9885418 original size:50 final size:52
Alignment explanation
Indices: 9885327--9885428 Score: 118
Period size: 50 Copynumber: 2.0 Consensus size: 52
9885317 ATTTCACTTG
* * * * *
9885327 CAAATCTTTGACTTTTTGTAAATCTTCAATTCTTGCAAATC-TAAAATCTTA
1 CAAATCTTTGAATTATTGCAAATCTTAAAATCTTGCAAATCTTAAAATCTTA
** *
9885378 CAAATCTTT-AATTATTGCAAATCTTAAAATCTTGTTAATCTTAAATTCTTA
1 CAAATCTTTGAATTATTGCAAATCTTAAAATCTTGCAAATCTTAAAATCTTA
9885429 AGAACCTAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
50 24 0.57
51 18 0.43
ACGTcount: A:0.35, C:0.16, G:0.05, T:0.44
Consensus pattern (52 bp):
CAAATCTTTGAATTATTGCAAATCTTAAAATCTTGCAAATCTTAAAATCTTA
Found at i:9885783 original size:22 final size:22
Alignment explanation
Indices: 9885758--9885804 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
9885748 AATCCTTGAG
*
9885758 TTTCAAATTGTGAACCTTTGGA
1 TTTCAAATTGAGAACCTTTGGA
* *
9885780 TTTCAAGTTGAGAACTTTTGGA
1 TTTCAAATTGAGAACCTTTGGA
9885802 TTT
1 TTT
9885805 TGAATCTTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.45
Consensus pattern (22 bp):
TTTCAAATTGAGAACCTTTGGA
Found at i:9886970 original size:55 final size:53
Alignment explanation
Indices: 9886838--9887007 Score: 170
Period size: 54 Copynumber: 3.2 Consensus size: 53
9886828 AAAATATATA
* * *
9886838 TAAATAAAAATAGTTTCAA-AAAT-AGGAAAAAGTTAAATTAT-AAATTTTTCCT
1 TAAACAAAAATAATTTCAAGAAATGAGAAAAAAG-TAAATTATCAAA-TTTTCCT
* * * *
9886890 TAAATAAAAATAATTTTTACG-AATGAGAAAAAAGTCGAATTATCAAATTTTCCT
1 TAAACAAAAATAA-TTTCAAGAAATGAGAAAAAAGT-AAATTATCAAATTTTCCT
*
9886944 TAAAACAAAAATAATTTCAAGAAATGAGGAAAAAAATAAATTATC-AATATTTCCT
1 T-AAACAAAAATAATTTCAAGAAATGA-GAAAAAAGTAAATTATCAAAT-TTTCCT
9886999 TAAACAAAA
1 TAAACAAAA
9887008 GGAATTTTGT
Statistics
Matches: 99, Mismatches: 10, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
52 12 0.12
53 8 0.08
54 38 0.38
55 33 0.33
56 8 0.08
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.31
Consensus pattern (53 bp):
TAAACAAAAATAATTTCAAGAAATGAGAAAAAAGTAAATTATCAAATTTTCCT
Found at i:9894260 original size:18 final size:17
Alignment explanation
Indices: 9894225--9894264 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
9894215 TAAGGTAACA
* *
9894225 AAAAAGAAGCATATAGT
1 AAAAAGAAGCAAAGAGT
9894242 AAAAAGAAGCAAAAGAGT
1 AAAAAGAAGC-AAAGAGT
9894260 AAAAA
1 AAAAA
9894265 TAAAAGTAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.68, C:0.05, G:0.17, T:0.10
Consensus pattern (17 bp):
AAAAAGAAGCAAAGAGT
Found at i:9894286 original size:23 final size:23
Alignment explanation
Indices: 9894243--9894288 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
9894233 GCATATAGTA
*
9894243 AAAAGAAGCAAAAGAGTAAAAAT
1 AAAAGAAGCAAAAGAGAAAAAAT
*
9894266 AAAAGTAG-AAAAGAAGAAAAAAT
1 AAAAGAAGCAAAAG-AGAAAAAAT
9894289 TAGCTAGAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.72, C:0.02, G:0.17, T:0.09
Consensus pattern (23 bp):
AAAAGAAGCAAAAGAGAAAAAAT
Found at i:9898268 original size:38 final size:38
Alignment explanation
Indices: 9898226--9898363 Score: 111
Period size: 38 Copynumber: 3.6 Consensus size: 38
9898216 CCTAAAATCG
*
9898226 AAACCTTAAATGAAATCCTAAACCTTAGGTAGGACTCA
1 AAACCTTAAATGAAACCCTAAACCTTAGGTAGGACTCA
* * * *
9898264 AAACCCTAAAACGAAACCCTAAAACC-TAGGT-GAAACTTGA
1 AAA-CCTTAAATGAAACCCT-AAACCTTAGGTAG-GAC-TCA
* * * * * *
9898304 AATCC-TAAGTAAAACCCTAAACCTTAGGTAAGACCCG
1 AAACCTTAAATGAAACCCTAAACCTTAGGTAGGACTCA
*
9898341 AAACCCTAAATGAAACCCTAAAC
1 AAACCTTAAATGAAACCCTAAAC
9898364 TCTAAGCGAA
Statistics
Matches: 75, Mismatches: 18, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
37 9 0.12
38 35 0.47
39 22 0.29
40 9 0.12
ACGTcount: A:0.45, C:0.25, G:0.12, T:0.18
Consensus pattern (38 bp):
AAACCTTAAATGAAACCCTAAACCTTAGGTAGGACTCA
Found at i:9898282 original size:13 final size:13
Alignment explanation
Indices: 9898264--9898288 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9898254 GTAGGACTCA
9898264 AAACCCTAAAACG
1 AAACCCTAAAACG
9898277 AAACCCTAAAAC
1 AAACCCTAAAAC
9898289 CTAGGTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.32, G:0.04, T:0.08
Consensus pattern (13 bp):
AAACCCTAAAACG
Found at i:9900150 original size:3 final size:3
Alignment explanation
Indices: 9900142--9900168 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
9900132 TAATAAAAGT
9900142 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
9900169 TATTATACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:9903018 original size:26 final size:23
Alignment explanation
Indices: 9902973--9903034 Score: 63
Period size: 26 Copynumber: 2.6 Consensus size: 23
9902963 TTTATTTCTT
9902973 TATTTTTTTTATT-TTCTTATTGAAA
1 TATTTTTTTT-TTGTTCTTA-T-AAA
*
9902998 GTATTTTTTTTTTGTTTTTATAAA
1 -TATTTTTTTTTTGTTCTTATAAA
*
9903022 TATATTTTTTTTG
1 TATTTTTTTTTTG
9903035 AAAACTTGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
23 12 0.36
24 3 0.09
25 3 0.09
26 15 0.45
ACGTcount: A:0.21, C:0.02, G:0.06, T:0.71
Consensus pattern (23 bp):
TATTTTTTTTTTGTTCTTATAAA
Found at i:9903192 original size:8 final size:8
Alignment explanation
Indices: 9903179--9903216 Score: 76
Period size: 8 Copynumber: 4.8 Consensus size: 8
9903169 ATAGAAACTT
9903179 AAAAATTC
1 AAAAATTC
9903187 AAAAATTC
1 AAAAATTC
9903195 AAAAATTC
1 AAAAATTC
9903203 AAAAATTC
1 AAAAATTC
9903211 AAAAAT
1 AAAAAT
9903217 AATAAATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.24
Consensus pattern (8 bp):
AAAAATTC
Found at i:9903576 original size:3 final size:3
Alignment explanation
Indices: 9903564--9903604 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
9903554 GAAAAAATTG
9903564 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9903605 GTATACCATA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:9903643 original size:15 final size:13
Alignment explanation
Indices: 9903569--9903645 Score: 79
Period size: 12 Copynumber: 5.9 Consensus size: 13
9903559 AATTGATAAA
9903569 ATAATAATAATA-
1 ATAATAATAATAT
9903581 ATAATAATAATA-
1 ATAATAATAATAT
9903593 ATAATAATAATAGT
1 ATAATAATAATA-T
*
9903607 ATACCATAATATTAT
1 ATA--ATAATAATAT
*
9903622 ATTATAAT-ATAT
1 ATAATAATAATAT
*
9903634 ATTATAATAATA
1 ATAATAATAATA
9903646 ACAAAAGTAC
Statistics
Matches: 57, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
12 35 0.61
13 8 0.14
14 3 0.05
15 3 0.05
16 8 0.14
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (13 bp):
ATAATAATAATAT
Found at i:9904031 original size:121 final size:120
Alignment explanation
Indices: 9903879--9904108 Score: 320
Period size: 119 Copynumber: 1.9 Consensus size: 120
9903869 ATCAGGATTG
* * *
9903879 AGTCGAGGTCAAAAATAAATAACCGAAATGAAACCATGAATCATAAAACAAATGATATGGACTAA
1 AGTCAAGGTCAAAAATAAATAACCGAAATGAAACCATGAATCAT--AACAAATGACATAGACTAA
*
9903944 GCTAAAATCAGGTGATCGAGACGAAACCACGAATCAAAA-TAAAGCGACTAGGAGCA
64 GCCAAAATCAGGTGATCGAGACGAAACCACGAATCAAAAGTAAAGCGACTAGGAGCA
* * * *
9904000 AGTCAAGGTCGAAAATAAATGACC-AAGATGAAACCATGAATCATAAGAAATGACCTAGACTAAG
1 AGTCAAGGTCAAAAATAAATAACCGAA-ATGAAACCATGAATCATAACAAATGACATAGACTAAG
* * *
9904064 CCAAGATCAGGTGATCGGGACGAAACCACGGATCAAAAGTAAAGC
65 CCAAAATCAGGTGATCGAGACGAAACCACGAATCAAAAGTAAAGC
9904109 AACCAAGATT
Statistics
Matches: 96, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
119 50 0.52
120 8 0.08
121 38 0.40
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.15
Consensus pattern (120 bp):
AGTCAAGGTCAAAAATAAATAACCGAAATGAAACCATGAATCATAACAAATGACATAGACTAAGC
CAAAATCAGGTGATCGAGACGAAACCACGAATCAAAAGTAAAGCGACTAGGAGCA
Found at i:9904188 original size:120 final size:119
Alignment explanation
Indices: 9903908--9904316 Score: 421
Period size: 120 Copynumber: 3.4 Consensus size: 119
9903898 TAACCGAAAT
* * * * * *
9903908 GAAACCATGAATCATAAAACAAATGATATGGACTAAGCTAAAATCAGGTGATCGAGACGAAACCA
1 GAAACCATGAGTCAT--AAGAAATGATCTAGACTAAGCCAAGATCAGGTGATCGAGACGAAACCA
* * * * * * ** *
9903973 CGAATCAAAATAAAGCGACTAGGAGC-AAGTCAAGGTCGAAAATAAATGACCAAGAT
64 CGGATCAAAATAAAGCGACCAAGA-CTAAGTTAAGGTAGAAAATAAATGATCGGGAC
* * *
9904029 GAAACCATGAATCATAAGAAATGACCTAGACTAAGCCAAGATCAGGTGATCGGGACGAAACCACG
1 GAAACCATGAGTCATAAGAAATGATCTAGACTAAGCCAAGATCAGGTGATCGAGACGAAACCACG
* * * * * *
9904094 GATCAAAAGTAAAGCAACCAAGATTGAGTTGAGGTTGAAAATAAATGATTGGGAC
66 GATCAAAA-TAAAGCGACCAAGACTAAGTTAAGGTAGAAAATAAATGATCGGGAC
* * * *
9904149 AAAACTATGAGTCATAAGAAATGATCTAGACTGAA-CCAAGATCAAGTGATCGAGACAAAACCA-
1 GAAACCATGAGTCATAAGAAATGATCTAGACT-AAGCCAAGATCAGGTGATCGAGACGAAACCAC
* * *
9904212 TGAGTCAAAAATGAAGCGACCAAGACTAAGTTAAGGTAAAAAATAAATGATCGGGAC
65 GGA-TC-AAAATAAAGCGACCAAGACTAAGTTAAGGTAGAAAATAAATGATCGGGAC
* * *
9904269 GAAACCATGAGTTATAAGAAATGAT-TGGACTAATCCAAGATCAGGTGA
1 GAAACCATGAGTCATAAGAAATGATCTAGACTAAGCCAAGATCAGGTGA
9904317 GTGAATAATG
Statistics
Matches: 240, Mismatches: 42, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
118 2 0.01
119 70 0.29
120 147 0.61
121 21 0.09
ACGTcount: A:0.45, C:0.15, G:0.22, T:0.18
Consensus pattern (119 bp):
GAAACCATGAGTCATAAGAAATGATCTAGACTAAGCCAAGATCAGGTGATCGAGACGAAACCACG
GATCAAAATAAAGCGACCAAGACTAAGTTAAGGTAGAAAATAAATGATCGGGAC
Found at i:9916589 original size:3 final size:3
Alignment explanation
Indices: 9916583--9916615 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
9916573 GAAAGAAAAA
*
9916583 AAT AAT -AT AAT AAT AAT AAT AAT ATT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
9916616 GTATACCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:9916640 original size:12 final size:12
Alignment explanation
Indices: 9916610--9916652 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
9916600 AATAATATTA
*
9916610 ATAATAGTATACC
1 ATAATA-TATACT
9916623 ATAATATAT-CTT
1 ATAATATATAC-T
9916635 ATAATATATACT
1 ATAATATATACT
9916647 ATAATA
1 ATAATA
9916653 ATAAAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 1 0.04
12 19 0.70
13 7 0.26
ACGTcount: A:0.49, C:0.09, G:0.02, T:0.40
Consensus pattern (12 bp):
ATAATATATACT
Found at i:9919067 original size:21 final size:20
Alignment explanation
Indices: 9919035--9919073 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
9919025 AAACCCAAGA
9919035 TTTTAATTTGATTTTGATTT
1 TTTTAATTTGATTTTGATTT
9919055 TTTTAACTTTGATTTTGAT
1 TTTTAA-TTTGATTTTGAT
9919074 CTTACTTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.21, C:0.03, G:0.10, T:0.67
Consensus pattern (20 bp):
TTTTAATTTGATTTTGATTT
Done.