Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168049.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_30, 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: 11202444
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 44000 characters in sequence are not A, C, G, or T
File 53 of 64
Found at i:8379181 original size:156 final size:152
Alignment explanation
Indices: 8378870--8379148 Score: 375
Period size: 155 Copynumber: 1.8 Consensus size: 152
8378860 AAAAAATTAT
*
8378870 TCTACTTATAAAAAAAGAGTCTAATAATAAAAAAATTATTTAAATTAAAATTTATAAAAAAATTA
1 TCTAATTATAAAAAAAGAGTCTAATAATAAAAAAATTATTTAAATTAAAATTTATAAAAAAATTA
*** * * *
8378935 CTAAAAATATTTTAATTGATCCCTTTTAACATTTTTGAAATTAAAATTTCATTAAAGTTATTTTA
66 CTAAAAATATTTTAAGCCAACCCTTTTAACACTTTTGAAATTAAAATTT-ATAAAAGTTATTTTA
*
8379000 GCCAATAATTTTTAGCACTTTTTAG
130 GACAATAATTTTTA-CAC-TTTTAG
* *
8379025 TCTAATTATAAAAAAAGAGTTTAATAAT-AAAAAATTCATTTAAATTAAAATTTATAAAAACATT
1 TCTAATTATAAAAAAAGAGTCTAATAATAAAAAAATT-ATTTAAATTAAAATTTATAAAAA-AAT
*
8379089 TACTAAAGATATTTT-AGCCAACCACTTTTAACACTTTTGAAATTAAAATTT-TAAATAGTT
64 TACTAAAAATATTTTAAGCCAACC-CTTTTAACACTTTTGAAATTAAAATTTATAAA-AGTT
8379149 TAATTTCAAA
Statistics
Matches: 110, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
154 11 0.10
155 57 0.52
156 42 0.38
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.40
Consensus pattern (152 bp):
TCTAATTATAAAAAAAGAGTCTAATAATAAAAAAATTATTTAAATTAAAATTTATAAAAAAATTA
CTAAAAATATTTTAAGCCAACCCTTTTAACACTTTTGAAATTAAAATTTATAAAAGTTATTTTAG
ACAATAATTTTTACACTTTTAG
Found at i:8379909 original size:15 final size:16
Alignment explanation
Indices: 8379891--8379947 Score: 55
Period size: 15 Copynumber: 3.6 Consensus size: 16
8379881 TTTTATTTGA
8379891 ATAATTTT-ATTATAC
1 ATAATTTTAATTATAC
*
8379906 ATAATTTTAATTATATA
1 ATAATTTTAATTATA-C
* * *
8379923 AAAATATTAA-AATAC
1 ATAATTTTAATTATAC
8379938 ATAATTTTAA
1 ATAATTTTAA
8379948 AACGTAAAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
15 16 0.48
16 9 0.27
17 8 0.24
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATTTTAATTATAC
Found at i:8381439 original size:200 final size:195
Alignment explanation
Indices: 8381191--8381724 Score: 723
Period size: 200 Copynumber: 2.7 Consensus size: 195
8381181 ACTAACAATA
8381191 TTTTAGTCAATCACTTTT-AAATTTTTTGAATTAAAATTTTAAAATTTTAAGTAACTTAATTTCA
1 TTTTAGTCAATCACTTTTAAAATTTTTTGAATTAAAATTTTAAAATTTTAAGTAA-TTAATTTCA
8381255 CATAAACTCTATTTTTAATTTTAGTTGATTTAAATTAAATTAAAATTAATTAATAAAAGTTATAT
65 CATAAACTCTA-TTTTAATTTTAGTTGATTTAAATTAAATT-AAATTAATTAATAAAAGTTATAT
* * ** * * *
8381320 ATTTATATATATTTAAAATTTTATGGGAATATTTAGGTCAATCACTTTTAACACTTTTGGAGTTC
128 ATTTAT-TA-ATTAAAAAATTTATAAGAATATTTAGATCAATCACTTTTAACACTTTTGAAATTC
8381385 ACACT
191 ACACT
* *
8381390 TTTTAGTCAATCACTTTTAAAATATTTTAAATTAAAATTTTAAAATTTTAAGTAATTTAATTTCA
1 TTTTAGTCAATCACTTTTAAAATTTTTTGAATTAAAATTTTAAAATTTTAAGTAA-TTAATTTCA
* *
8381455 CATAAACTCTATTTTACTTTTAGTTAATTTAAATTTAAATTAAATTAATTAATATATTTAAAG--
65 CATAAACTCTATTTTAATTTTAGTTGATTTAAA-TTAAATTAAATTAATT-A-ATA---AAAGTT
* * * * *
8381518 ATAAATTTGTTAATTAAAAAATTTATAAGAGTATTTAGATCGATCACTTTTAACATTTTTGAAAT
124 ATATATTTATTAATTAAAAAATTTATAAGAATATTTAGATCAATCACTTTTAACACTTTTGAAAT
*
8381583 TCTCACT
189 TCACACT
* *
8381590 TTTTAGTCAATTACTTTTAAAATTTTTTGAATTAAAATTTTAAAATTTTAAATAATGTAATTTCA
1 TTTTAGTCAATCACTTTTAAAATTTTTTGAATTAAAATTTTAAAATTTTAAGTAAT-TAATTTCA
* *
8381655 CATAAACTCTAATTTTAATTTTAATTGATTTAAATTAAATTTAAATTGATTAATAAAAGTTATAT
65 CATAAACTCT-ATTTTAATTTTAGTTGATTTAAATTAAA-TTAAATTAATTAATAAAAGTTATAT
8381720 ATTTA
128 ATTTA
8381725 AGAATAAATT
Statistics
Matches: 295, Mismatches: 28, Indels: 25
0.85 0.08 0.07
Matches are distributed among these distances:
196 4 0.01
198 7 0.02
199 51 0.17
200 186 0.63
201 35 0.12
202 8 0.03
204 4 0.01
ACGTcount: A:0.40, C:0.07, G:0.06, T:0.47
Consensus pattern (195 bp):
TTTTAGTCAATCACTTTTAAAATTTTTTGAATTAAAATTTTAAAATTTTAAGTAATTAATTTCAC
ATAAACTCTATTTTAATTTTAGTTGATTTAAATTAAATTAAATTAATTAATAAAAGTTATATATT
TATTAATTAAAAAATTTATAAGAATATTTAGATCAATCACTTTTAACACTTTTGAAATTCACACT
Found at i:8396214 original size:27 final size:27
Alignment explanation
Indices: 8396169--8396229 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
8396159 AAATAATAAT
* *
8396169 AAAAATTATTATAATTACGATTGAAAA
1 AAAAATTAATATAACTACGATTGAAAA
*
8396196 AAAAATTAATGTAACTACGATTGAAAA
1 AAAAATTAATATAACTACGATTGAAAA
8396223 AAAAATT
1 AAAAATT
8396230 TCAATAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.57, C:0.05, G:0.08, T:0.30
Consensus pattern (27 bp):
AAAAATTAATATAACTACGATTGAAAA
Found at i:8400904 original size:2 final size:2
Alignment explanation
Indices: 8400897--8400935 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
8400887 GGGTTCCATT
8400897 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8400936 TCTAAGGGTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8402659 original size:7 final size:7
Alignment explanation
Indices: 8402647--8402713 Score: 57
Period size: 7 Copynumber: 9.6 Consensus size: 7
8402637 CTTCATTCTC
8402647 TATTTTT
1 TATTTTT
8402654 TATTTTT
1 TATTTTT
8402661 TA--TTT
1 TATTTTT
*
8402666 GATTTTT
1 TATTTTT
8402673 TATTTAATT
1 TATTT--TT
*
8402682 TATCTTT
1 TATTTTT
*
8402689 TATCTTT
1 TATTTTT
*
8402696 TGTTTTT
1 TATTTTT
*
8402703 TGTTTTT
1 TATTTTT
8402710 TATT
1 TATT
8402714 AATTTTAGGT
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
5 4 0.08
7 40 0.80
9 6 0.12
ACGTcount: A:0.15, C:0.03, G:0.04, T:0.78
Consensus pattern (7 bp):
TATTTTT
Found at i:8403207 original size:26 final size:27
Alignment explanation
Indices: 8403172--8403222 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
8403162 AAATATAAAA
*
8403172 ATATTAAAAATTATTTATTATTAAATT
1 ATATTAAAAATGATTTATTATTAAATT
8403199 ATATT-AAAATGATTTATTATTAAA
1 ATATTAAAAATGATTTATTATTAAA
8403223 AGTGTTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (27 bp):
ATATTAAAAATGATTTATTATTAAATT
Found at i:8403369 original size:20 final size:20
Alignment explanation
Indices: 8403344--8403382 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8403334 TTTAAAATAT
8403344 TTAAAATAGTATTATTATTC
1 TTAAAATAGTATTATTATTC
* *
8403364 TTAAAATATTATTTTTATT
1 TTAAAATAGTATTATTATT
8403383 AATATTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (20 bp):
TTAAAATAGTATTATTATTC
Found at i:8403413 original size:44 final size:46
Alignment explanation
Indices: 8403324--8403427 Score: 126
Period size: 44 Copynumber: 2.3 Consensus size: 46
8403314 TATTATTTTT
* * * *
8403324 ATATTAATATTTTA-AAATATTTAAAATAGTATTATTATTCTTAAA
1 ATATTTATATTTTATTAATATTTAAAATAGTAATATTATTATTAAA
*
8403369 ATA-TTAT-TTTTATTAATA-TTAAAATAGTAATATTTGTTATTAAA
1 ATATTTATATTTTATTAATATTTAAAATAGTAATA-TTATTATTAAA
8403413 ATATTTATATTTTAT
1 ATATTTATATTTTAT
8403428 ATTGAAAGTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
43 18 0.36
44 19 0.38
45 7 0.14
46 6 0.12
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (46 bp):
ATATTTATATTTTATTAATATTTAAAATAGTAATATTATTATTAAA
Found at i:8403430 original size:21 final size:22
Alignment explanation
Indices: 8403384--8403430 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
8403374 ATTTTTATTA
8403384 ATATTAAAATAGTAATATTTGT
1 ATATTAAAATAGTAATATTTGT
* *
8403406 -TATTAAAATATTTATATTT-T
1 ATATTAAAATAGTAATATTTGT
8403426 ATATT
1 ATATT
8403431 GAAAGTTTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (22 bp):
ATATTAAAATAGTAATATTTGT
Found at i:8403822 original size:20 final size:18
Alignment explanation
Indices: 8403787--8403826 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 18
8403777 TTTTTATGAA
8403787 AATTAAATAAAATATTTT
1 AATTAAATAAAATATTTT
8403805 AATTAATATAATAATATTTT
1 AATTAA-ATAA-AATATTTT
8403825 AA
1 AA
8403827 GTCAAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 6 0.30
19 4 0.20
20 10 0.50
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AATTAAATAAAATATTTT
Found at i:8404030 original size:167 final size:163
Alignment explanation
Indices: 8403722--8404056 Score: 360
Period size: 167 Copynumber: 2.0 Consensus size: 163
8403712 ATATACAAAG
* * ** * * **
8403722 TAAAAATATTTAAAATTAAAGTATCAAAAGACTTTTAATGTTAATGTTTTTAATTTTTTTATGAA
1 TAAAAATACTTAAAATTAAAATATCAAAAGACTTTTAACATTAATGATTTTAA-TCTTTTAAAAA
*
8403787 AATTAAATAAAATATTTTAATTAATATAATAATATTTTAAGTCAAATTAAATTGAGTTCAAACTT
65 AATTAAATAAAATATTTTAATTAATATAATAATATTTTAAGTCAAATGAAATTGAGTTCAAA--T
* * *
8403852 AAAATATTATGT-TTAGAGTCTTATTTAAGTAGAATTA
128 AAAATATTATGTATAAGA-TCTGATTTAAG-AAAATTA
*
8403889 TAAAAATACTTAAAATTAAAATATTAAAA-ATCTTTTAACATTAAT-ATTTTAA-CTTTTAAAAA
1 TAAAAATACTTAAAATTAAAATATCAAAAGA-CTTTTAACATTAATGATTTTAATCTTTTAAAAA
*
8403951 AATTAAATTAAAATATTATTTATTAATATAATAATATTTTGAATCGAGTCAAATGAAATTTGAGT
65 AATTAAA-TAAAATATT-TTAATTAATATAATAATATTTT--A---AGTCAAATGAAA-TTGAGT
*
8404016 T-TAA-AAAA-ATTATGTATAAGATCTGATTTAAGAAAATTA
122 TCAAATAAAATATTATGTATAAGATCTGATTTAAGAAAATTA
8404055 TA
1 TA
8404057 CTTAAACACA
Statistics
Matches: 143, Mismatches: 15, Indels: 21
0.80 0.08 0.12
Matches are distributed among these distances:
164 14 0.10
165 9 0.06
166 36 0.25
167 55 0.38
168 9 0.06
171 13 0.09
172 7 0.05
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (163 bp):
TAAAAATACTTAAAATTAAAATATCAAAAGACTTTTAACATTAATGATTTTAATCTTTTAAAAAA
ATTAAATAAAATATTTTAATTAATATAATAATATTTTAAGTCAAATGAAATTGAGTTCAAATAAA
ATATTATGTATAAGATCTGATTTAAGAAAATTA
Found at i:8408270 original size:19 final size:20
Alignment explanation
Indices: 8408234--8408271 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
8408224 TCTCAGATGT
* *
8408234 AATTTAAATTATTTATTTTA
1 AATTTAAATTAGTAATTTTA
8408254 AATTT-AATTAGTAATTTT
1 AATTTAAATTAGTAATTTT
8408272 TTTTGTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (20 bp):
AATTTAAATTAGTAATTTTA
Found at i:8409671 original size:20 final size:21
Alignment explanation
Indices: 8409619--8409705 Score: 61
Period size: 21 Copynumber: 4.2 Consensus size: 21
8409609 TTGTTTTTCT
* * *
8409619 TAACTTTTGATAAAATTTTGG
1 TAACTTTTAATATAATTTTGA
* *
8409640 TAACATTCAATATAA-TTTGA
1 TAACTTTTAATATAATTTTGA
* **
8409660 TAACTTTTAATATTAGCTTGA
1 TAACTTTTAATATAATTTTGA
* *
8409681 TAA-TTTATGATATAATTTTGG
1 TAACTTT-TAATATAATTTTGA
8409702 TAAC
1 TAAC
8409706 CGTTGATAAT
Statistics
Matches: 49, Mismatches: 14, Indels: 5
0.72 0.21 0.07
Matches are distributed among these distances:
20 19 0.39
21 30 0.61
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.46
Consensus pattern (21 bp):
TAACTTTTAATATAATTTTGA
Found at i:8410112 original size:22 final size:22
Alignment explanation
Indices: 8410084--8410219 Score: 89
Period size: 22 Copynumber: 6.2 Consensus size: 22
8410074 TAGAATTATG
8410084 TTATCAACGATTTACTACTAAA
1 TTATCAACGATTTACTACTAAA
* * *
8410106 CTT-TCAATGATATACTACTGAA
1 -TTATCAACGATTTACTACTAAA
*
8410128 TTATCAGCGATTTA-TATGCTAAA
1 TTATCAACGATTTACTA--CTAAA
* ** *
8410151 TTAGCATTGATTTACTACT-AT
1 TTATCAACGATTTACTACTAAA
* * *
8410172 TTATGAATGATTTACTACTATA
1 TTATCAACGATTTACTACTAAA
* * * *
8410194 TTATGAATGATTTATTTCTAAA
1 TTATCAACGATTTACTACTAAA
8410216 TTAT
1 TTAT
8410220 TGATGATTTA
Statistics
Matches: 89, Mismatches: 19, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
21 21 0.24
22 49 0.55
23 17 0.19
24 2 0.02
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.43
Consensus pattern (22 bp):
TTATCAACGATTTACTACTAAA
Found at i:8410225 original size:22 final size:21
Alignment explanation
Indices: 8410158--8410254 Score: 106
Period size: 22 Copynumber: 4.5 Consensus size: 21
8410148 AAATTAGCAT
*
8410158 TGATTTACTACTAT-TTATGAA
1 TGATTTATTACTATATTATG-A
*
8410179 TGATTTACTACTATATTATGAA
1 TGATTTATTACTATATTATG-A
* *
8410201 TGATTTATTTCTAAATTATTGA
1 TGATTTATTACTATATTA-TGA
*
8410223 TGATTTATTACTATGTTACTGA
1 TGATTTATTACTATATTA-TGA
8410245 TGATTTATTA
1 TGATTTATTA
8410255 TAAAATTATA
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
21 14 0.21
22 51 0.76
23 2 0.03
ACGTcount: A:0.32, C:0.07, G:0.10, T:0.51
Consensus pattern (21 bp):
TGATTTATTACTATATTATGA
Found at i:8410261 original size:44 final size:44
Alignment explanation
Indices: 8410178--8410263 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
8410168 CTATTTATGA
*
8410178 ATGATTTACTACTATATTATGAATGATTTATTTCTAAATTATTG
1 ATGATTTACTACTATATTATGAATGATTTATTTCAAAATTATTG
* *
8410222 ATGATTTATTACTATGTTACTG-ATGATTTATTAT-AAAATTAT
1 ATGATTTACTACTATATTA-TGAATGATTTATT-TCAAAATTAT
8410264 AATTAATTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
44 34 0.92
45 3 0.08
ACGTcount: A:0.35, C:0.06, G:0.09, T:0.50
Consensus pattern (44 bp):
ATGATTTACTACTATATTATGAATGATTTATTTCAAAATTATTG
Found at i:8410325 original size:22 final size:22
Alignment explanation
Indices: 8410299--8410394 Score: 97
Period size: 22 Copynumber: 4.4 Consensus size: 22
8410289 TAAATAACTA
*
8410299 ATTTACTACTAAATTATTATTG
1 ATTTACTACTAAATTATTAATG
*
8410321 ATTTACAACTAAATTATTAATG
1 ATTTACTACTAAATTATTAATG
** *
8410343 ATTTACTACTAAGCTATCAAT-
1 ATTTACTACTAAATTATTAATG
* *
8410364 AGTTTA-TATCTAAATTATCAGTG
1 A-TTTACTA-CTAAATTATTAATG
8410387 ATTTACTA
1 ATTTACTA
8410395 TTATGTTATT
Statistics
Matches: 61, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
21 3 0.05
22 55 0.90
23 3 0.05
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (22 bp):
ATTTACTACTAAATTATTAATG
Found at i:8410716 original size:22 final size:22
Alignment explanation
Indices: 8410691--8410775 Score: 82
Period size: 22 Copynumber: 3.9 Consensus size: 22
8410681 ATTGAAGCTT
* *
8410691 ATTTACAATTAAGTTATTATTA
1 ATTTACTATTAAGTTATCATTA
* *
8410713 ATTTACTATTAAGATATCATTG
1 ATTTACTATTAAGTTATCATTA
*
8410735 ATTTATTATTAAGTTATCAATT-
1 ATTTACTATTAAGTTATC-ATTA
* **
8410757 ATTAACTACCAAGTTATCA
1 ATTTACTATTAAGTTATCA
8410776 CTTGCTTTTA
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
21 1 0.02
22 48 0.92
23 3 0.06
ACGTcount: A:0.39, C:0.09, G:0.06, T:0.46
Consensus pattern (22 bp):
ATTTACTATTAAGTTATCATTA
Found at i:8411250 original size:43 final size:44
Alignment explanation
Indices: 8411184--8411280 Score: 117
Period size: 43 Copynumber: 2.2 Consensus size: 44
8411174 AAATTATTGG
* * * *
8411184 TGATTTACCACTAAATTATTAATGATT-ATTATAAAGTTA-TAA
1 TGATTTACTACTAAATTACTAATGATTAACTAAAAAGTTATTAA
*
8411226 TTGATTTACTACTAATTTACTAATGATTAACTAAAAAGTTATTAA
1 -TGATTTACTACTAAATTACTAATGATTAACTAAAAAGTTATTAA
*
8411271 TGATTAACTA
1 TGATTTACTA
8411281 ACTTACTACT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
43 24 0.52
44 19 0.41
45 3 0.07
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.42
Consensus pattern (44 bp):
TGATTTACTACTAAATTACTAATGATTAACTAAAAAGTTATTAA
Found at i:8411252 original size:22 final size:21
Alignment explanation
Indices: 8411077--8411280 Score: 76
Period size: 22 Copynumber: 9.4 Consensus size: 21
8411067 GTTATTAGTT
*
8411077 ATTTACTACTAAACTATTAATG
1 ATTTACTACTAAATTA-TAATG
* * *
8411099 ATTTATTTCTAATTTATAAATG
1 ATTTACTACTAAATTAT-AATG
*
8411121 ATTTGAC-ATTAAATTATGAATG
1 ATTT-ACTACTAAATTAT-AATG
* ** * *
8411143 ACTTAAAATTAAGTTATGAATG
1 ATTTACTACTAAATTAT-AATG
* * * **
8411165 CTTT-CCATTAAATTATTGGTG
1 ATTTACTACTAAATTA-TAATG
*
8411186 ATTTACCACTAAATTATTAATG
1 ATTTACTACTAAATTA-TAATG
*
8411208 A-TTATTA-TAAAGTTATAATTG
1 ATTTACTACTAAA-TTATAA-TG
*
8411229 ATTTACTACTAATTTACTAATG
1 ATTTACTACTAAATTA-TAATG
* *
8411251 ATTAACTA-AAAAGTTATTAATG
1 ATTTACTACTAAA-TTA-TAATG
*
8411273 ATTAACTA
1 ATTTACTA
8411281 ACTTACTACT
Statistics
Matches: 140, Mismatches: 31, Indels: 22
0.73 0.16 0.11
Matches are distributed among these distances:
20 7 0.05
21 27 0.19
22 99 0.71
23 7 0.05
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.43
Consensus pattern (21 bp):
ATTTACTACTAAATTATAATG
Found at i:8411281 original size:22 final size:22
Alignment explanation
Indices: 8411199--8411281 Score: 80
Period size: 22 Copynumber: 3.8 Consensus size: 22
8411189 TACCACTAAA
* *
8411199 TTATTAATGATT-ATTATAAAG
1 TTATTAATGATTAACTAAAAAG
* ** *
8411220 TTA-TAATTGATTTACTACTAAT
1 TTATTAA-TGATTAACTAAAAAG
*
8411242 TTACTAATGATTAACTAAAAAG
1 TTATTAATGATTAACTAAAAAG
8411264 TTATTAATGATTAACTAA
1 TTATTAATGATTAACTAA
8411282 CTTACTACTA
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
20 3 0.06
21 8 0.16
22 36 0.72
23 3 0.06
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.43
Consensus pattern (22 bp):
TTATTAATGATTAACTAAAAAG
Found at i:8411308 original size:22 final size:21
Alignment explanation
Indices: 8411283--8411698 Score: 112
Period size: 22 Copynumber: 19.3 Consensus size: 21
8411273 ATTAACTAAC
8411283 TTACTACTAAATTATTACTTAT
1 TTACTACTAAATTATTA-TTAT
* * *
8411305 TTACAACTAAGTTATTAGTAAT
1 TTACTACTAAATTATTA-TTAT
* * *
8411327 TTACTATTATATTATTAATGAT
1 TTACTACTAAATTATT-ATTAT
*
8411349 TTACAACTAAATTATTA--AT
1 TTACTACTAAATTATTATTAT
* * *
8411368 TTATTACTAAATTATCAATGAT
1 TTACTACTAAATTAT-TATTAT
* *
8411390 TTAC-AATGATATT-TTATATAT
1 TTACTACT-AAATTATTAT-TAT
* * *
8411411 TTACTATTATATTATCATTGAT
1 TTACTACTAAATTATTATT-AT
* *
8411433 TTACTACTTAATT-TTTTTAT
1 TTACTACTAAATTATTATTAT
* * **
8411453 TTACTACAAAATTATCACCGAT
1 TTACTACTAAATTATTA-TTAT
* *
8411475 ATA-TGACTAAATTATATATAAT
1 TTACT-ACTAAATTAT-TATTAT
* * * *
8411497 TCATTACTAAGTTATTATAGAT
1 TTACTACTAAATTATTAT-TAT
* * *
8411519 TTA-TATTAAATTATGCATGAT
1 TTACTACTAAATTAT-TATTAT
* * * *
8411540 TTATTATTAAATTATCACTGAT
1 TTACTACTAAATTATTA-TTAT
* * * * **
8411562 TAACTATTATATTATCAACAAT
1 TTACTACTAAATTAT-TATTAT
* * *
8411584 TTACTAATAAGTTA-TACTAGT
1 TTACTACTAAATTATTATTA-T
**
8411605 TTACTTTTAAATT-TTCAATTAT
1 TTACTACTAAATTATT--ATTAT
* * *
8411627 TAACTATTAAATTATCAATTAT
1 TTACTACTAAATTAT-TATTAT
* * *
8411649 TTATTACTAATTTATCATTAAT
1 TTACTACTAAATTATTATT-AT
* *
8411671 TTACTACTAAGTTATTTATGAT
1 TTACTACTAAATTA-TTATTAT
8411693 TTACTA
1 TTACTA
8411699 TTATCAATTA
Statistics
Matches: 293, Mismatches: 74, Indels: 54
0.70 0.18 0.13
Matches are distributed among these distances:
19 15 0.05
20 19 0.06
21 56 0.19
22 192 0.66
23 11 0.04
ACGTcount: A:0.38, C:0.10, G:0.04, T:0.48
Consensus pattern (21 bp):
TTACTACTAAATTATTATTAT
Found at i:8411368 original size:41 final size:41
Alignment explanation
Indices: 8411283--8411469 Score: 142
Period size: 41 Copynumber: 4.4 Consensus size: 41
8411273 ATTAACTAAC
* * * *
8411283 TTACTACTAAATTATTACTTATTTACAACTAAGTTATTAGTAAT
1 TTACTACTAAATTATCAATGATTTACAACTAA---ATTATTAAT
* * *
8411327 TTACTATTATATTATTAATGATTTACAACTAAATTATTAAT
1 TTACTACTAAATTATCAATGATTTACAACTAAATTATTAAT
* * *
8411368 TTATTACTAAATTATCAATGATTTACAA-TGATATTTTATATAT
1 TTACTACTAAATTATCAATGATTTACAACT-AAATTAT-TA-AT
* * * * * * *
8411411 TTACTATTATATTATCATTGATTTACTACTTAATTTTTTTAT
1 TTACTACTAAATTATCAATGATTTACAAC-TAAATTATTAAT
*
8411453 TTACTACAAAATTATCA
1 TTACTACTAAATTATCA
8411470 CCGATATATG
Statistics
Matches: 116, Mismatches: 22, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
40 1 0.01
41 37 0.32
42 18 0.16
43 26 0.22
44 33 0.28
45 1 0.01
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.49
Consensus pattern (41 bp):
TTACTACTAAATTATCAATGATTTACAACTAAATTATTAAT
Found at i:8411597 original size:87 final size:88
Alignment explanation
Indices: 8411504--8411701 Score: 201
Period size: 87 Copynumber: 2.3 Consensus size: 88
8411494 AATTCATTAC
* * *
8411504 TAAGTTATTATAGATTTA-TATTAAATTATGC-ATGATTTATTATTAAATTATCACTGATTAACT
1 TAAGTTATTATAGATTTACTATTAAATT-TGCAATGATTAACTATTAAATTATCAATGATTAACT
*
8411567 A-TTATATTATCAACAATTTACTAA
65 ACTAAT-TTATCAACAATTTACTAA
* * * * * *
8411591 TAAGTTA-TACTAG-TTTACTTTTAAATTTTCAATTATTAACTATTAAATTATCAATTATTTATT
1 TAAGTTATTA-TAGATTTACTATTAAATTTGCAATGATTAACTATTAAATTATCAATGATTAACT
** *
8411654 ACTAATTTATCATTAATTTACTAC
65 ACTAATTTATCAACAATTTACTAA
8411678 TAAGTTATT-TATGATTTACTATTA
1 TAAGTTATTATA-GATTTACTATTA
8411702 TCAATTAATT
Statistics
Matches: 90, Mismatches: 14, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
86 10 0.11
87 67 0.74
88 13 0.14
ACGTcount: A:0.38, C:0.09, G:0.05, T:0.49
Consensus pattern (88 bp):
TAAGTTATTATAGATTTACTATTAAATTTGCAATGATTAACTATTAAATTATCAATGATTAACTA
CTAATTTATCAACAATTTACTAA
Found at i:8411734 original size:61 final size:61
Alignment explanation
Indices: 8411637--8411763 Score: 139
Period size: 61 Copynumber: 2.1 Consensus size: 61
8411627 TAACTATTAA
* * * ** * * *
8411637 ATTATCAATTATTTATTACTAATTTATCATTAATTTACTACTAAGTTATTTA-TGATTTACT
1 ATTATCAATTAATTACTACTAAATTAAAATTAATTTACTACTAAATCA-TTACTAATTTACT
* * *
8411698 ATTATCAATTAATTACTATTAAATTAAAATTGATTTACTATTAAATCATTACTAATTTACT
1 ATTATCAATTAATTACTACTAAATTAAAATTAATTTACTACTAAATCATTACTAATTTACT
8411759 ATTAT
1 ATTAT
8411764 GTTATCATTT
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
60 3 0.06
61 51 0.94
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.50
Consensus pattern (61 bp):
ATTATCAATTAATTACTACTAAATTAAAATTAATTTACTACTAAATCATTACTAATTTACT
Found at i:8411798 original size:44 final size:43
Alignment explanation
Indices: 8411538--8412012 Score: 134
Period size: 44 Copynumber: 10.9 Consensus size: 43
8411528 ATTATGCATG
* * * * * * *
8411538 ATTTATTATTAAATTATCACTGATTAACTATTATATTATCAACA
1 ATTTACTATTAAATTATCATTTATTTATTACTA-ATTATCAATA
* * * * *
8411582 ATTTACTAATAAGTTATACTAGTTTACTT-TTA--AATTTTCAATT
1 ATTTACTATTAAATTAT-C-A-TTTATTTATTACTAATTATCAATA
* * *
8411625 ATTAACTATTAAATTATCAATTATTTATTACTAATTTATCATTA
1 ATTTACTATTAAATTATCATTTATTTATTACTAA-TTATCAATA
* * *
8411669 ATTTACTACT-AAGT-T-ATTTA-TGATTTACT-ATTATCAATTA
1 ATTTACTATTAAATTATCATTTATTTA-TTACTAATTATCAA-TA
** * * * * * *
8411709 A-TTACTATTAAATTAAAATTGATTTACTATTAAATCATTACTA
1 ATTTACTATTAAATTATCATTTATTTATTACT-AATTATCAATA
**
8411752 ATTTACTATTATGTTATCATTTATTTATTACTAAGTTATCAATA
1 ATTTACTATTAAATTATCATTTATTTATTACTAA-TTATCAATA
* * * * * **
8411796 ATTAACTACTATTAAGTCATCACTTATTTTTTA-AAATTATCTTTA
1 ATT---TACTATTAAATTATCATTTATTTATTACTAATTATCAATA
* * ** * ** *
8411841 ATTTAATACTATGTTATTATGCATTTATAACTACATTAT-AATTA
1 ATTTACTATTAAATTATCATTTATTTATTACTA-ATTATCAA-TA
* * * * * *
8411885 ATTTACCATTAAGGTATTATGCATATA-TTATTA-T-ATTTTTACTG
1 ATTTACTATTAA---ATTAT-CATTTATTTATTACTAATTATCAATA
* * * * *
8411929 ATTTACTA-AAAAGTTATCAATTATTTATTACTAAATTTTCATTT
1 ATTTACTATTAAA-TTATCATTTATTTATTACT-AATTATCAATA
* * * *
8411973 ATTTATTATTAAATTATCACTAATTTACTACTAAGTTATC
1 ATTTACTATTAAATTATCATTTATTTATTACTAA-TTATC
8412013 GATTATTACC
Statistics
Matches: 306, Mismatches: 90, Indels: 70
0.66 0.19 0.15
Matches are distributed among these distances:
39 13 0.04
40 19 0.06
41 23 0.08
42 27 0.09
43 38 0.12
44 127 0.42
45 15 0.05
46 6 0.02
47 35 0.11
48 3 0.01
ACGTcount: A:0.37, C:0.10, G:0.04, T:0.49
Consensus pattern (43 bp):
ATTTACTATTAAATTATCATTTATTTATTACTAATTATCAATA
Found at i:8411974 original size:22 final size:22
Alignment explanation
Indices: 8411942--8412012 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 22
8411932 TACTAAAAAG
*
8411942 TTATCAATTATTTATTACTAAA
1 TTATCACTTATTTATTACTAAA
* * *
8411964 TTTTCATTTATTTATTATTAAA
1 TTATCACTTATTTATTACTAAA
* * *
8411986 TTATCACTAATTTACTACTAAG
1 TTATCACTTATTTATTACTAAA
8412008 TTATC
1 TTATC
8412013 GATTATTACC
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.35, C:0.11, G:0.01, T:0.52
Consensus pattern (22 bp):
TTATCACTTATTTATTACTAAA
Found at i:8415353 original size:25 final size:25
Alignment explanation
Indices: 8415304--8415353 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
8415294 GAGTCTGATA
*
8415304 ATAAAAAAATATTTAAATTAAATTT
1 ATAAAAAAATATTTAAAATAAATTT
8415329 ATAAAAAAA-A-TTACAAATAATATTT
1 ATAAAAAAATATTTA-AAATAA-ATTT
8415354 TAATCGATCC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 3 0.14
24 6 0.27
25 13 0.59
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (25 bp):
ATAAAAAAATATTTAAAATAAATTT
Found at i:8415982 original size:21 final size:21
Alignment explanation
Indices: 8415958--8416003 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
8415948 TTAATTCCGA
* *
8415958 TAACCTTTAATAAAATTTTGT
1 TAACCTTCAATAAAATTTTGG
*
8415979 TAACCTTCAATACAATTTTGG
1 TAACCTTCAATAAAATTTTGG
8416000 TAAC
1 TAAC
8416004 ATGCAATATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (21 bp):
TAACCTTCAATAAAATTTTGG
Found at i:8416010 original size:21 final size:21
Alignment explanation
Indices: 8415966--8416011 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
8415956 GATAACCTTT
* * *
8415966 AATAAAATTTTGTTAACCTTC
1 AATAAAATTTTGGTAACATGC
*
8415987 AATACAATTTTGGTAACATGC
1 AATAAAATTTTGGTAACATGC
8416008 AATA
1 AATA
8416012 TTAATTTGGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (21 bp):
AATAAAATTTTGGTAACATGC
Found at i:8416128 original size:21 final size:20
Alignment explanation
Indices: 8416097--8416144 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
8416087 CCCGTTGATA
*
8416097 TAATTTTAATA-ATCTTTTAG
1 TAATTATAATATA-CTTTTAG
*
8416117 TAACTTATAATATACTTTTGG
1 TAA-TTATAATATACTTTTAG
8416138 TAATTAT
1 TAATTAT
8416145 TGATAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 7 0.29
21 16 0.67
22 1 0.04
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.52
Consensus pattern (20 bp):
TAATTATAATATACTTTTAG
Found at i:8416741 original size:44 final size:44
Alignment explanation
Indices: 8416461--8416944 Score: 203
Period size: 44 Copynumber: 11.0 Consensus size: 44
8416451 AACGTGCAAA
* * * *
8416461 AAATTATCAATGATTGATAATTAAGTTATCATTGATTTAGTACT
1 AAATTATCAATGATTTATTATTAAGTTATCAATGATTTACTACT
** * * * *
8416505 ATTTTATCATTGATTTATTATTAAGCTATCCATGATATACTACT
1 AAATTATCAATGATTTATTATTAAGTTATCAATGATTTACTACT
* * ** * * * *
8416549 AAATTAGCATTGAAGTACTATTAATTTATAAATGATTTACTATT
1 AAATTATCAATGATTTATTATTAAGTTATCAATGATTTACTACT
* * * * *
8416593 AAGTTATGAATGATTTATTAATAAATTATTC-ATAATTTACTACT
1 AAATTATCAATGATTTATTATTAAGTTA-TCAATGATTTACTACT
* * * * * *
8416637 AAGTTA-CTGATGATTTATTATAAAGTTA-CAACTGGTTTATTATT
1 AAATTATC-AATGATTTATTATTAAGTTATCAA-TGATTTACTACT
* * * *
8416681 AATTTAT-AGATAATTTAATATTAAGTTATCAATAATTTA-TATCT
1 AAATTATCA-ATGATTTATTATTAAGTTATCAATGATTTACTA-CT
* * **
8416725 AAATTATCAATGATTTATTATTATGTTAT-TATGCATTTACTTTT
1 AAATTATCAATGATTTATTATTAAGTTATCAATG-ATTTACTACT
** * * * * * * ** * * *
8416769 ATGTTATTATTAATTTACTATTTAGTTTTTTATTATTGACTACA
1 AAATTATCAATGATTTATTATTAAGTTATCAATGATTTACTACT
* * * * * ** * *
8416813 AAATTATTACA-GATTTATTACTAAATTAACTATGATGCATTACC
1 AAATTATCA-ATGATTTATTATTAAGTTATCAATGATTTACTACT
* * ** * *
8416857 AAGTTATCAATAATTTA-TATTTAA-TTATTTATGATTTATTATT
1 AAATTATCAATGATTTATTA-TTAAGTTATCAATGATTTACTACT
* * * * *
8416900 AAGTTATCACTGATTAACTATTAAGTTATCAATAATTTACTACT
1 AAATTATCAATGATTTATTATTAAGTTATCAATGATTTACTACT
8416944 A
1 A
8416945 CTAAGTTATA
Statistics
Matches: 316, Mismatches: 107, Indels: 34
0.69 0.23 0.07
Matches are distributed among these distances:
42 1 0.00
43 39 0.12
44 267 0.84
45 9 0.03
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.47
Consensus pattern (44 bp):
AAATTATCAATGATTTATTATTAAGTTATCAATGATTTACTACT
Found at i:8416941 original size:22 final size:22
Alignment explanation
Indices: 8416464--8416941 Score: 175
Period size: 22 Copynumber: 21.8 Consensus size: 22
8416454 GTGCAAAAAA
*
8416464 TTATCAATGATTGA-TAATTAAG
1 TTATCAATGATTTACT-ATTAAG
* * * **
8416486 TTATCATTGATTTAGTACTATT
1 TTATCAATGATTTACTATTAAG
* *
8416508 TTATCATTGATTTATTATTAAG
1 TTATCAATGATTTACTATTAAG
* * * * *
8416530 CTATCCATGATATACTACTAAA
1 TTATCAATGATTTACTATTAAG
* * ** *
8416552 TTAGCATTGAAGTACTATTAAT
1 TTATCAATGATTTACTATTAAG
*
8416574 TTATAAATGATTTACTATTAAG
1 TTATCAATGATTTACTATTAAG
* * * *
8416596 TTATGAATGATTTATTAATAAA
1 TTATCAATGATTTACTATTAAG
* *
8416618 TTATTC-ATAATTTACTACTAAG
1 TTA-TCAATGATTTACTATTAAG
* * *
8416640 TTA-CTGATGATTTATTATAAAG
1 TTATC-AATGATTTACTATTAAG
* * *
8416662 TTA-CAACTGGTTTATTATTAAT
1 TTATCAA-TGATTTACTATTAAG
* *
8416684 TTAT-AGATAATTTAATATTAAG
1 TTATCA-ATGATTTACTATTAAG
* *
8416706 TTATCAATAATTTA-TATCTAAA
1 TTATCAATGATTTACTAT-TAAG
* *
8416728 TTATCAATGATTTATTATTATG
1 TTATCAATGATTTACTATTAAG
* * *
8416750 TTAT-TATGCATTTACTTTTATG
1 TTATCAATG-ATTTACTATTAAG
* * * *
8416772 TTATTATTAATTTACTATTTAG
1 TTATCAATGATTTACTATTAAG
* ** * * ** *
8416794 TTTTTTATTATTGACTACAAAA
1 TTATCAATGATTTACTATTAAG
* * * *
8416816 TTATTACA-GATTTATTACTAAA
1 TTATCA-ATGATTTACTATTAAG
* * ** * **
8416838 TTAACTATGATGCATTACCAAG
1 TTATCAATGATTTACTATTAAG
*
8416860 TTATCAATAATTTA-TATTTAA-
1 TTATCAATGATTTACTA-TTAAG
** *
8416881 TTATTTATGATTTATTATTAAG
1 TTATCAATGATTTACTATTAAG
* *
8416903 TTATCACTGATTAACTATTAAG
1 TTATCAATGATTTACTATTAAG
*
8416925 TTATCAATAATTTACTA
1 TTATCAATGATTTACTA
8416942 CTACTAAGTT
Statistics
Matches: 335, Mismatches: 104, Indels: 34
0.71 0.22 0.07
Matches are distributed among these distances:
20 1 0.00
21 25 0.07
22 300 0.90
23 9 0.03
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.47
Consensus pattern (22 bp):
TTATCAATGATTTACTATTAAG
Found at i:8416944 original size:25 final size:23
Alignment explanation
Indices: 8416857--8416962 Score: 80
Period size: 22 Copynumber: 4.7 Consensus size: 23
8416847 ATGCATTACC
8416857 AAGTTATCAATAATTTATAT-TT
1 AAGTTATCAATAATTTATATATT
** *
8416879 AA-TTATTTATGATTTAT-TATT
1 AAGTTATCAATAATTTATATATT
* *
8416900 AAGTTATCACTGA-TTA-ACTATT
1 AAGTTATCAATAATTTATA-TATT
*
8416922 AAGTTATCAATAATTTACTACTACT
1 AAGTTATCAATAATTTA-TA-TATT
*
8416947 AAGTTAT-ATTAATTTA
1 AAGTTATCAATAATTTA
8416963 CTTTTCAATT
Statistics
Matches: 67, Mismatches: 10, Indels: 12
0.75 0.11 0.13
Matches are distributed among these distances:
20 1 0.01
21 19 0.28
22 24 0.36
23 3 0.04
24 8 0.12
25 12 0.18
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.48
Consensus pattern (23 bp):
AAGTTATCAATAATTTATATATT
Found at i:8417484 original size:22 final size:22
Alignment explanation
Indices: 8417418--8417542 Score: 92
Period size: 22 Copynumber: 5.7 Consensus size: 22
8417408 GAGTATAAAA
* * * *
8417418 AAGTTATTAATGATTGATAATT
1 AAGTTATGAATGATTTATCACT
*
8417440 AAGTTATCG-ATTATTTA-CGACT
1 AAGTTAT-GAATGATTTATC-ACT
* * *
8417462 AAGCTATTAATGATTTATTACT
1 AAGTTATGAATGATTTATCACT
* * *
8417484 AATTTATGAATAATTTATCATT
1 AAGTTATGAATGATTTATCACT
* *
8417506 AAGTTATGAATGATTTACCATT
1 AAGTTATGAATGATTTATCACT
*
8417528 AAATTATGAATGATT
1 AAGTTATGAATGATT
8417543 ATTATTAAAT
Statistics
Matches: 80, Mismatches: 19, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
22 80 1.00
ACGTcount: A:0.38, C:0.06, G:0.11, T:0.44
Consensus pattern (22 bp):
AAGTTATGAATGATTTATCACT
Found at i:8417628 original size:44 final size:44
Alignment explanation
Indices: 8417472--8417632 Score: 123
Period size: 44 Copynumber: 3.7 Consensus size: 44
8417462 AAGCTATTAA
** * * * *
8417472 TGATTTATTACTAATTTATGAATAATTTATCATTAAGTTATGAA-
1 TGATTTACCACTAATTTATGAATGATTTATTATAAATTTAT-AAT
* * *
8417516 TGATTTACCATTAAATTATGAATGA-TTATTATTAAATTGT-T-GT
1 TGATTTACCACTAATTTATGAATGATTTATTA-TAAATT-TATAAT
* * * *
8417559 TGATTTAACCCCGAAGTTATTAATGATTTATTATAAATTTATAAT
1 TGATTT-ACCACTAATTTATGAATGATTTATTATAAATTTATAAT
* *
8417604 TGATTTACTACTAATTTATAAATGATTTA
1 TGATTTACCACTAATTTATGAATGATTTA
8417633 CTAAAAAATT
Statistics
Matches: 90, Mismatches: 20, Indels: 14
0.73 0.16 0.11
Matches are distributed among these distances:
43 12 0.13
44 64 0.71
45 14 0.16
ACGTcount: A:0.37, C:0.06, G:0.09, T:0.47
Consensus pattern (44 bp):
TGATTTACCACTAATTTATGAATGATTTATTATAAATTTATAAT
Found at i:8417644 original size:22 final size:22
Alignment explanation
Indices: 8417575--8417652 Score: 84
Period size: 22 Copynumber: 3.5 Consensus size: 22
8417565 AACCCCGAAG
* * *
8417575 TTATTAATGATTTATTATAAAT
1 TTATAAATGATTTACTAAAAAT
* **
8417597 TTATAATTGATTTACTACTAAT
1 TTATAAATGATTTACTAAAAAT
*
8417619 TTATAAATGATTTACTAAAAAA
1 TTATAAATGATTTACTAAAAAT
*
8417641 TTATTAATGATT
1 TTATAAATGATT
8417653 AAATAATTTA
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.49
Consensus pattern (22 bp):
TTATAAATGATTTACTAAAAAT
Found at i:8417747 original size:19 final size:19
Alignment explanation
Indices: 8417723--8417762 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
8417713 ATTACTGGTG
*
8417723 ATTTACTACTAACTTATCA
1 ATTTACTACTAAATTATCA
**
8417742 ATTTACTGTTAAATTATCA
1 ATTTACTACTAAATTATCA
8417761 AT
1 AT
8417763 GATTTACTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.15, G:0.03, T:0.45
Consensus pattern (19 bp):
ATTTACTACTAAATTATCA
Found at i:8417963 original size:43 final size:43
Alignment explanation
Indices: 8417840--8418025 Score: 153
Period size: 43 Copynumber: 4.3 Consensus size: 43
8417830 TTTATTACGA
* * * * *
8417840 AAATT-TTACTGATTTATCAC-AATATTATTTATGATTCACTATC
1 AAATTATTAATGATTTATTACTAA-ATTATAT-TGATTTACTATT
* * * *
8417883 AAATTATTACTGATTTA-TATTAAATTATAACTAATTTACTATT
1 AAATTATTAATGATTTATTACTAAATTAT-ATTGATTTACTATT
* * *
8417926 AAGTTATCAATGATTTATTACTAAATTATATTGATTTACTTTT
1 AAATTATTAATGATTTATTACTAAATTATATTGATTTACTATT
* * * *
8417969 AAATTTTTAATGATTAACTACTAAATTATTATTGATTTACTAAT
1 AAATTATTAATGATTTATTACTAAATTA-TATTGATTTACTATT
* *
8418013 AAGTTATTTATGA
1 AAATTATTAATGA
8418026 GTGACTACTA
Statistics
Matches: 114, Mismatches: 24, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
43 68 0.60
44 46 0.40
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.48
Consensus pattern (43 bp):
AAATTATTAATGATTTATTACTAAATTATATTGATTTACTATT
Found at i:8418019 original size:22 final size:22
Alignment explanation
Indices: 8417721--8418035 Score: 150
Period size: 22 Copynumber: 14.6 Consensus size: 22
8417711 TAATTACTGG
* *
8417721 TGATTTACTACTAACTTA-TCA
1 TGATTTACTACTAAATTATTAA
** *
8417742 --ATTTACTGTTAAATTATCAA
1 TGATTTACTACTAAATTATTAA
* * *
8417762 TGATTTACTATTATATTTTTATA
1 TGATTTACTACTAAATTATTA-A
* *
8417785 T-ATTT-CTACTACATTATTAT
1 TGATTTACTACTAAATTATTAA
* * * *
8417805 TGATTTACTACTTATTTTTTTA
1 TGATTTACTACTAAATTATTAA
* * * *
8417827 TTATTTATTACGAAAATT-TTAC
1 TGATTTACTAC-TAAATTATTAA
*
8417849 TGATTTA-TCAC-AATATTATTTA
1 TGATTTACT-ACTAA-ATTATTAA
* *
8417871 TGATTCACTA-TCAAATTATTAC
1 TGATTTACTACT-AAATTATTAA
*
8417893 TGATTTA-TATTAAATTA-TAA
1 TGATTTACTACTAAATTATTAA
* * * *
8417913 CTAATTTACTATTAAGTTATCAA
1 -TGATTTACTACTAAATTATTAA
* *
8417936 TGATTTATTACTAAATTA-TAT
1 TGATTTACTACTAAATTATTAA
** *
8417957 TGATTTACTTTTAAATTTTTAA
1 TGATTTACTACTAAATTATTAA
* *
8417979 TGATTAACTACTAAATTATTAT
1 TGATTTACTACTAAATTATTAA
* * *
8418001 TGATTTACTAATAAGTTATTTA
1 TGATTTACTACTAAATTATTAA
* *
8418023 TGAGTGACTACTA
1 TGATTTACTACTA
8418036 TCAATTAATC
Statistics
Matches: 215, Mismatches: 61, Indels: 35
0.69 0.20 0.11
Matches are distributed among these distances:
19 13 0.06
20 6 0.03
21 48 0.22
22 138 0.64
23 10 0.05
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.50
Consensus pattern (22 bp):
TGATTTACTACTAAATTATTAA
Found at i:8418111 original size:22 final size:22
Alignment explanation
Indices: 8418077--8418132 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
8418067 TACTAATAAA
* **
8418077 TTATCAATAATTTATTATTAAG
1 TTATCAATAATTTAGTACCAAG
* *
8418099 TTATCATTGATTTAGTACCAAG
1 TTATCAATAATTTAGTACCAAG
8418121 TTATCAATAATT
1 TTATCAATAATT
8418133 AACAACTAAA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.38, C:0.09, G:0.07, T:0.46
Consensus pattern (22 bp):
TTATCAATAATTTAGTACCAAG
Found at i:8418319 original size:22 final size:22
Alignment explanation
Indices: 8418250--8418319 Score: 52
Period size: 22 Copynumber: 3.2 Consensus size: 22
8418240 ATTTGTTATA
* * *
8418250 TTATTAATGATTTACTAAAAAG
1 TTATCAATTATTTACTAATAAG
* * * *
8418272 TTATCAATTATTAATTACTAAA
1 TTATCAATTATTTACTAATAAG
*
8418294 TTATC-ATTCATTTACTATTAAG
1 TTATCAATT-ATTTACTAATAAG
8418316 TTAT
1 TTAT
8418320 TACTAATTTA
Statistics
Matches: 36, Mismatches: 11, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
21 3 0.08
22 33 0.92
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (22 bp):
TTATCAATTATTTACTAATAAG
Found at i:8418328 original size:22 final size:22
Alignment explanation
Indices: 8418303--8418362 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
8418293 ATTATCATTC
8418303 ATTTACTATTAAGTTATT-ACTA
1 ATTTACTATTAAGTTATTGA-TA
* *
8418325 ATTTACTACTAGGTTATTGATA
1 ATTTACTATTAAGTTATTGATA
*
8418347 A-TTACTATTAAATTAT
1 ATTTACTATTAAGTTAT
8418363 ACTGATTACA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
21 12 0.38
22 19 0.59
23 1 0.03
ACGTcount: A:0.37, C:0.08, G:0.07, T:0.48
Consensus pattern (22 bp):
ATTTACTATTAAGTTATTGATA
Found at i:8421829 original size:21 final size:22
Alignment explanation
Indices: 8421791--8421831 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
8421781 AATCAATCAC
*
8421791 TTTTAAATATTTTGAATTAAAA
1 TTTTAAATATTTTAAATTAAAA
8421813 TTTTAAA-ATTTTAAATTAA
1 TTTTAAATATTTTAAATTAA
8421832 TTTCACATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
TTTTAAATATTTTAAATTAAAA
Found at i:8423824 original size:2 final size:2
Alignment explanation
Indices: 8423817--8423842 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8423807 AATTAAGAAG
8423817 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
8423843 CTAAAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8426893 original size:2 final size:2
Alignment explanation
Indices: 8426881--8426912 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
8426871 TATTGAGAAA
*
8426881 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8426913 GTTGAAATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8431254 original size:22 final size:22
Alignment explanation
Indices: 8431229--8431272 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
8431219 ATTTTTTATC
8431229 CTTAATTCTAGAAATACAAATA
1 CTTAATTCTAGAAATACAAATA
*
8431251 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAAATACAAATA
8431273 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.48, C:0.14, G:0.07, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAAATACAAATA
Found at i:8434936 original size:25 final size:24
Alignment explanation
Indices: 8434900--8434953 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
8434890 TATCTTTCTT
** *
8434900 TAAAAAGGTTCGGTAATGAAGGCC
1 TAAAAAGGTTCGACAATGAAAGCC
*
8434924 TAAACAGGATTCGACAATGAAAGCC
1 TAAAAAGG-TTCGACAATGAAAGCC
8434949 TAAAA
1 TAAAA
8434954 TAAAAGTCAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
24 7 0.29
25 17 0.71
ACGTcount: A:0.44, C:0.15, G:0.22, T:0.19
Consensus pattern (24 bp):
TAAAAAGGTTCGACAATGAAAGCC
Found at i:8435058 original size:37 final size:37
Alignment explanation
Indices: 8435017--8435087 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
8435007 TCTGATACCA
8435017 TGTGAAAAAACTAAGAAATAAATTAGTGTGAAAATTT
1 TGTGAAAAAACTAAGAAATAAATTAGTGTGAAAATTT
8435054 TGTGAAAAAACTAAGAAATAAATTAGTGTGAAAA
1 TGTGAAAAAACTAAGAAATAAATTAGTGTGAAAA
8435088 CTAAATGTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.54, C:0.03, G:0.17, T:0.27
Consensus pattern (37 bp):
TGTGAAAAAACTAAGAAATAAATTAGTGTGAAAATTT
Found at i:8442547 original size:7 final size:7
Alignment explanation
Indices: 8442533--8442573 Score: 66
Period size: 7 Copynumber: 6.0 Consensus size: 7
8442523 TGTTGTTGTG
8442533 TTTTTCT
1 TTTTTCT
*
8442540 TCTTTCT
1 TTTTTCT
8442547 TTTTTCT
1 TTTTTCT
8442554 TTTTTCT
1 TTTTTCT
8442561 TTTTT-T
1 TTTTTCT
8442567 TTTTTCT
1 TTTTTCT
8442574 ATTGGGTGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 6 0.19
7 25 0.81
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTCT
Found at i:8442558 original size:21 final size:20
Alignment explanation
Indices: 8442533--8442573 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
8442523 TGTTGTTGTG
8442533 TTTTTCTTCTTTCTTTTTTCT
1 TTTTTCTT-TTTCTTTTTTCT
*
8442554 TTTTTCTTTTTTTTTTTTCT
1 TTTTTCTTTTTCTTTTTTCT
8442574 ATTGGGTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (20 bp):
TTTTTCTTTTTCTTTTTTCT
Found at i:8442569 original size:18 final size:19
Alignment explanation
Indices: 8442534--8442568 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
8442524 GTTGTTGTGT
8442534 TTTTCTTCTTTCTTTTTTC
1 TTTTCTTCTTTCTTTTTTC
8442553 TTTT-TTCTTT-TTTTTT
1 TTTTCTTCTTTCTTTTTT
8442569 TTTCTATTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 6 0.38
19 4 0.25
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (19 bp):
TTTTCTTCTTTCTTTTTTC
Found at i:8444080 original size:92 final size:92
Alignment explanation
Indices: 8443946--8444131 Score: 336
Period size: 92 Copynumber: 2.0 Consensus size: 92
8443936 TTAACACTTA
8443946 ATAATTGAATCTGCTGTTTCTATTTCTTTTTCCTTTTCATTTTTGTGTATCTAGATGTAGTTTTT
1 ATAATTGAATCTGCTGTTTCTATTTCTTTTTCCTTTTCATTTTTGTGTATCTAGATGTAGTTTTT
*
8444011 GTGACAAATTACTTGATAATTAGCTCC
66 GTGACAAATTACTTAATAATTAGCTCC
* * *
8444038 ATAATTGAATCTGTTGTTTCTATTTCTTTTTTCTTTTCATTTTTGTGTATCTGGATGTAGTTTTT
1 ATAATTGAATCTGCTGTTTCTATTTCTTTTTCCTTTTCATTTTTGTGTATCTAGATGTAGTTTTT
8444103 GTGACAAATTACTTAATAATTAGCTCC
66 GTGACAAATTACTTAATAATTAGCTCC
8444130 AT
1 AT
8444132 GCCATGAACA
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 90 1.00
ACGTcount: A:0.22, C:0.13, G:0.13, T:0.52
Consensus pattern (92 bp):
ATAATTGAATCTGCTGTTTCTATTTCTTTTTCCTTTTCATTTTTGTGTATCTAGATGTAGTTTTT
GTGACAAATTACTTAATAATTAGCTCC
Found at i:8444448 original size:67 final size:67
Alignment explanation
Indices: 8444359--8444497 Score: 215
Period size: 67 Copynumber: 2.1 Consensus size: 67
8444349 AGGGAAATGG
* * * *
8444359 AAAGTCCCAGATGAAATAAATAATGAATTTCTTAGCAAGGTATTCAACTAAGATTCATGTGATAT
1 AAAGTCCAAGATGAAACAAATAATAAATTTCTTAGCAAGGTATTCAACCAAGATTCATGTGATAT
8444424 AT
66 AT
** *
8444426 AAAGTCCAAGATGAAACAAATAATAAATTTCTTAGTGAGGTATTCGACCAAGATTCATGTGATAT
1 AAAGTCCAAGATGAAACAAATAATAAATTTCTTAGCAAGGTATTCAACCAAGATTCATGTGATAT
8444491 AT
66 AT
8444493 AAAGT
1 AAAGT
8444498 ATATAAGCTG
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (67 bp):
AAAGTCCAAGATGAAACAAATAATAAATTTCTTAGCAAGGTATTCAACCAAGATTCATGTGATAT
AT
Found at i:8451599 original size:26 final size:27
Alignment explanation
Indices: 8451548--8451606 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 27
8451538 TAATTAAAAC
**
8451548 TAATATATTTTTATTTAAAATATATAT
1 TAATATATTTTTATAAAAAATATATAT
8451575 TAATATA-TTTTATAAAGAAAT-TATAT
1 TAATATATTTTTATAAA-AAATATATAT
*
8451601 AAATAT
1 TAATAT
8451607 GTAAGATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 17 0.61
27 11 0.39
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (27 bp):
TAATATATTTTTATAAAAAATATATAT
Found at i:8467615 original size:17 final size:15
Alignment explanation
Indices: 8467575--8467618 Score: 52
Period size: 17 Copynumber: 2.8 Consensus size: 15
8467565 ATATCATAAA
8467575 AAAATAAAAAAAATC
1 AAAATAAAAAAAATC
* *
8467590 AACATAAAAATCAATAC
1 AAAATAAAAA-AAAT-C
8467607 AAAATAAAAAAA
1 AAAATAAAAAAA
8467619 TTAAAATCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
15 9 0.39
16 4 0.17
17 10 0.43
ACGTcount: A:0.77, C:0.09, G:0.00, T:0.14
Consensus pattern (15 bp):
AAAATAAAAAAAATC
Found at i:8468483 original size:10 final size:9
Alignment explanation
Indices: 8468468--8468494 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
8468458 AATCCAAGAC
8468468 TTTTTTTTA
1 TTTTTTTTA
8468477 TTTTTTTTA
1 TTTTTTTTA
8468486 TTTTTTTTA
1 TTTTTTTTA
8468495 AAAAATATTA
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:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:8473110 original size:41 final size:41
Alignment explanation
Indices: 8473036--8473142 Score: 126
Period size: 41 Copynumber: 2.6 Consensus size: 41
8473026 GTTTATGTTC
* **
8473036 AAGATTAATTAATTAAATGAAACGATCACAAACAATA-TTT
1 AAGATTCATTAATTAAATGAAATAATCACAAACAATATTTT
* *
8473076 AAGTATTCATTAATTAAATGAAATAATCATAAACAGTATTTT
1 AAG-ATTCATTAATTAAATGAAATAATCACAAACAATATTTT
** *
8473118 AAGATTTGTTAATTAAATGATATAA
1 AAGATTCATTAATTAAATGAAATAA
8473143 ACAAATTATA
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
40 3 0.05
41 48 0.84
42 6 0.11
ACGTcount: A:0.50, C:0.07, G:0.08, T:0.36
Consensus pattern (41 bp):
AAGATTCATTAATTAAATGAAATAATCACAAACAATATTTT
Found at i:8484959 original size:6 final size:6
Alignment explanation
Indices: 8484948--8484986 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
8484938 TAAGCCTGCG
* *
8484948 AAAGTA AAAGTA AAAGCA AAAGCA AAAGCA AAAGCA AAA
1 AAAGCA AAAGCA AAAGCA AAAGCA AAAGCA AAAGCA AAA
8484987 AATAAAACTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.69, C:0.10, G:0.15, T:0.05
Consensus pattern (6 bp):
AAAGCA
Found at i:8485768 original size:20 final size:20
Alignment explanation
Indices: 8485730--8485767 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8485720 GATTGTGTTA
*
8485730 TATATTAATTTATAATTTTG
1 TATATGAATTTATAATTTTG
8485750 TATATGAATTT-TAATTTT
1 TATATGAATTTATAATTTT
8485768 TTTTGATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (20 bp):
TATATGAATTTATAATTTTG
Found at i:8489448 original size:3 final size:3
Alignment explanation
Indices: 8489442--8489472 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
8489432 TTTAAGTCCA
*
8489442 GAT GAT GAT GAT GAT GAT GAT GGT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
8489473 CGAATTTTGG
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:0.29, C:0.00, G:0.39, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:8489846 original size:18 final size:18
Alignment explanation
Indices: 8489823--8489869 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
8489813 TTATCCACCT
* *
8489823 CAAATGTATGATTTACCA
1 CAAATGTATCACTTACCA
*
8489841 CAAATGTATCCCTTACCA
1 CAAATGTATCACTTACCA
8489859 CAAATGTATCA
1 CAAATGTATCA
8489870 TCCTCAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.30
Consensus pattern (18 bp):
CAAATGTATCACTTACCA
Found at i:8492301 original size:12 final size:12
Alignment explanation
Indices: 8492284--8492323 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
8492274 TAAAATATGT
8492284 ATAAATATAATA
1 ATAAATATAATA
8492296 ATAAATATAATA
1 ATAAATATAATA
*
8492308 ATAAAAATAA-A
1 ATAAATATAATA
8492319 ATAAA
1 ATAAA
8492324 AAAGTAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
11 6 0.22
12 21 0.78
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
ATAAATATAATA
Found at i:8492304 original size:18 final size:19
Alignment explanation
Indices: 8492283--8492323 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
8492273 ATAAAATATG
*
8492283 TATAAAT-ATAATAATAAA
1 TATAAATAATAAAAATAAA
8492301 TAT-AATAATAAAAATAAA
1 TATAAATAATAAAAATAAA
8492319 -ATAAA
1 TATAAA
8492324 AAAGTAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (19 bp):
TATAAATAATAAAAATAAA
Found at i:8492846 original size:21 final size:21
Alignment explanation
Indices: 8492822--8492874 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
8492812 AAAGCCCGGC
8492822 AAAAAAAAAAGCAAAA-A-TAG
1 AAAAAAAAAAG-AAAAGACTAG
*
8492842 TAAAAAAAAAAGAAAAGACTTG
1 -AAAAAAAAAAGAAAAGACTAG
8492864 AAAAAAAAAAG
1 AAAAAAAAAAG
8492875 GGAAGAGGAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 4 0.14
21 23 0.79
22 2 0.07
ACGTcount: A:0.77, C:0.04, G:0.11, T:0.08
Consensus pattern (21 bp):
AAAAAAAAAAGAAAAGACTAG
Found at i:8492977 original size:14 final size:13
Alignment explanation
Indices: 8492951--8492989 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
8492941 AGCAAAGGGA
8492951 AAAAAAAACAAAAG
1 AAAAAAAA-AAAAG
8492965 AAAAGAAAAAAAAG
1 AAAA-AAAAAAAAG
8492979 ATAAAAAAAAA
1 A-AAAAAAAAA
8492990 TTAAGAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 16 0.70
15 7 0.30
ACGTcount: A:0.87, C:0.03, G:0.08, T:0.03
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Found at i:8493918 original size:39 final size:40
Alignment explanation
Indices: 8493871--8493956 Score: 138
Period size: 40 Copynumber: 2.2 Consensus size: 40
8493861 GTGGAGCGAT
*
8493871 TGGATTGGGTGTGGTGGGGCGTT-GGGGGGAAGGTGGAGA
1 TGGATTGGGTGTGGTGGGACGTTGGGGGGGAAGGTGGAGA
*
8493910 TGGATTGGGTGTGGTGGGATGTTGGGGGGGAAGGTGGAGA
1 TGGATTGGGTGTGGTGGGACGTTGGGGGGGAAGGTGGAGA
*
8493950 GGGATTG
1 TGGATTG
8493957 ATGAGGGTGG
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
39 21 0.49
40 22 0.51
ACGTcount: A:0.14, C:0.01, G:0.60, T:0.24
Consensus pattern (40 bp):
TGGATTGGGTGTGGTGGGACGTTGGGGGGGAAGGTGGAGA
Found at i:8494218 original size:20 final size:20
Alignment explanation
Indices: 8494180--8494217 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8494170 GATTGTGTTA
*
8494180 TATATTAATTTATAATTTTG
1 TATATGAATTTATAATTTTG
8494200 TATATGAATTT-TAATTTT
1 TATATGAATTTATAATTTT
8494218 TTTTGTTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (20 bp):
TATATGAATTTATAATTTTG
Found at i:8494469 original size:26 final size:26
Alignment explanation
Indices: 8494441--8494489 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
8494431 TAAAAAATAA
*
8494441 AAAATATAGGTTTGAAAA-TTTTATT
1 AAAATATAAGTTTGAAAACTTTTATT
8494466 AAAATATAAGTTTGAAAACTTTTA
1 AAAATATAAGTTTGAAAACTTTTA
8494490 ATTTTTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.41
Consensus pattern (26 bp):
AAAATATAAGTTTGAAAACTTTTATT
Found at i:8497904 original size:27 final size:27
Alignment explanation
Indices: 8497866--8497917 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
8497856 GTCCAACACC
*
8497866 AAGTCAGAATGATGATGGTGGTGGTTT
1 AAGTCAGAATGATGATGGTGATGGTTT
8497893 AAGTCCAG-ATGATGATGGTGATGGT
1 AAGT-CAGAATGATGATGGTGATGGT
8497918 GATGGTATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 20 0.87
28 3 0.13
ACGTcount: A:0.27, C:0.06, G:0.37, T:0.31
Consensus pattern (27 bp):
AAGTCAGAATGATGATGGTGATGGTTT
Found at i:8498299 original size:21 final size:21
Alignment explanation
Indices: 8498274--8498314 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
8498264 ATTATCCACT
*
8498274 TCAAATGTATCCTCCACCTCC
1 TCAAATATATCCTCCACCTCC
8498295 TCAAATATATCCTCCACCTC
1 TCAAATATATCCTCCACCTC
8498315 AAATGTATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.41, G:0.02, T:0.29
Consensus pattern (21 bp):
TCAAATATATCCTCCACCTCC
Found at i:8498316 original size:18 final size:18
Alignment explanation
Indices: 8498268--8498392 Score: 78
Period size: 18 Copynumber: 6.9 Consensus size: 18
8498258 ATGGTTATTA
*
8498268 TCCACTTCAAATGTATCC
1 TCCACCTCAAATGTATCC
*
8498286 TCCACCTCCTCAAATATATCC
1 TCCA---CCTCAAATGTATCC
*
8498307 TCCACCTCAAATGTATCAG
1 TCCACCTCAAATGTATC-C
* * *
8498326 T-TACCACAAATGTACCC
1 TCCACCTCAAATGTATCC
* * *
8498343 TCCACCACAAATATATCA
1 TCCACCTCAAATGTATCC
* *
8498361 T---CCTCAAATATATCT
1 TCCACCTCAAATGTATCC
*
8498376 TTCACCTCAAATGTATC
1 TCCACCTCAAATGTATC
8498393 AAGAACAAAG
Statistics
Matches: 84, Mismatches: 15, Indels: 16
0.73 0.13 0.14
Matches are distributed among these distances:
15 13 0.15
17 1 0.01
18 53 0.63
19 1 0.01
21 16 0.19
ACGTcount: A:0.33, C:0.34, G:0.04, T:0.30
Consensus pattern (18 bp):
TCCACCTCAAATGTATCC
Found at i:8511432 original size:29 final size:29
Alignment explanation
Indices: 8511399--8511457 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 29
8511389 AAATTCACTC
*
8511399 AACATGATAACATATTA-TTGCTCATAACT
1 AACATGATAACATATTAGTT-CTCACAACT
8511428 AACATGATAACATATTAGTTCTCACAACT
1 AACATGATAACATATTAGTTCTCACAACT
8511457 A
1 A
8511458 TGACAGATGC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 26 0.93
30 2 0.07
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.32
Consensus pattern (29 bp):
AACATGATAACATATTAGTTCTCACAACT
Found at i:8517973 original size:121 final size:121
Alignment explanation
Indices: 8517848--8518090 Score: 400
Period size: 121 Copynumber: 2.0 Consensus size: 121
8517838 GGATTACTTT
* * *
8517848 AGTTGAACTAAGAATGGGCACTAATATATCTGCTGAAATTTTATCTGGGTTTGATGTTTTTCTTC
1 AGTTGAACTAAGAATGGGCACCAATATATCTGCTGAAATTTTATCTCGGTTTGATGTTTTTCTTA
*
8517913 CATATA-TATATTATATATATATTTTTTTTATGGTTTATGTATTGTGG-TTTGCATAC
66 CATATATTAT-TTATATAT-TATTTTTTTTATGGTTTACGTATTGTGGTTTTGCATAC
*
8517969 AGTTGAATTAAGAATGGGCACCAATATATCTGCTGAAATTTTATCTCGGTTTGATGTTTTTCTTA
1 AGTTGAACTAAGAATGGGCACCAATATATCTGCTGAAATTTTATCTCGGTTTGATGTTTTTCTTA
*
8518034 CATATATTATTTATTTATTATTTTTTTTATGGTTTACGTATTGTGGTTTTGCATAC
66 CATATATTATTTATATATTATTTTTTTTATGGTTTACGTATTGTGGTTTTGCATAC
8518090 A
1 A
8518091 TTTGCTACTC
Statistics
Matches: 114, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
120 27 0.24
121 84 0.74
122 3 0.03
ACGTcount: A:0.26, C:0.09, G:0.16, T:0.49
Consensus pattern (121 bp):
AGTTGAACTAAGAATGGGCACCAATATATCTGCTGAAATTTTATCTCGGTTTGATGTTTTTCTTA
CATATATTATTTATATATTATTTTTTTTATGGTTTACGTATTGTGGTTTTGCATAC
Found at i:8534033 original size:118 final size:119
Alignment explanation
Indices: 8533880--8534100 Score: 365
Period size: 118 Copynumber: 1.9 Consensus size: 119
8533870 TTGTACAAGA
8533880 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAA-ACTTATTTTCAAGAAAAATT
1 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAACACTTATTTTCAAGAAAAATT
*
8533944 GATACTTTTAACTTTTCCTCAAAAATAT-TTTTTAGAAAAAACTTATTTTTAAGG
66 GATACTTTCAACTTTT-CTCAAAAATATATTTTTAGAAAAAACTTATTTTTAAGG
* * * *
8533998 AAAATTGATATTTTTAACTTTTTCTCGAAAATATTTTTTAGAAACATTTATTTTCAAGAAAAATT
1 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAACACTTATTTTCAAGAAAAATT
8534063 GATACTTTCAACTTTTCTCAAAAATATACTTTTTAGAA
66 GATACTTTCAACTTTTCTCAAAAATATA-TTTTTAGAA
8534101 TTTTTATTTA
Statistics
Matches: 95, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
118 52 0.55
119 34 0.36
120 9 0.09
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (119 bp):
AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAACACTTATTTTCAAGAAAAATT
GATACTTTCAACTTTTCTCAAAAATATATTTTTAGAAAAAACTTATTTTTAAGG
Found at i:8534117 original size:58 final size:59
Alignment explanation
Indices: 8533875--8534100 Score: 330
Period size: 60 Copynumber: 3.8 Consensus size: 59
8533865 TGCTTTTGTA
8533875 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAG-AAAACTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAAACTTATTTT
* *
8533933 CAAGAAAAATTGATACTTTTAACTTTTCCTCAAAAATATTTTTTAGAAAAAACTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAG-AAAAACTTATTTT
* * * * * * *
8533993 TAAGGAAAATTGATATTTTTAACTTTTTCTCGAAAATATTTTTTAGAAACATTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAAACTTATTTT
8534052 CAAGAAAAATTGATACTTTCAAC-TTTTCTCAAAAATATACTTTTTAGAA
1 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATAT--TTTTTAGAA
8534101 TTTTTATTTA
Statistics
Matches: 150, Mismatches: 14, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
58 58 0.39
59 30 0.20
60 62 0.41
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.43
Consensus pattern (59 bp):
CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAAACTTATTTT
Found at i:8534124 original size:5 final size:5
Alignment explanation
Indices: 8534114--8534154 Score: 64
Period size: 5 Copynumber: 7.8 Consensus size: 5
8534104 TTATTTAAAG
8534114 AAAAT AAAAT AAAAT AAAAAT AAAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT -AAAAT -AAAAT AAAAT AAAAT AAAA
8534155 ATAAGATAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 24 0.69
6 11 0.31
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:8534135 original size:11 final size:11
Alignment explanation
Indices: 8534114--8534169 Score: 71
Period size: 11 Copynumber: 5.1 Consensus size: 11
8534104 TTATTTAAAG
8534114 AAAAT-AAAAT
1 AAAATAAAAAT
8534124 AAAATAAAAAT
1 AAAATAAAAAT
8534135 AAAA-ATAAAAT
1 AAAATA-AAAAT
8534146 AAAATAAAAAT
1 AAAATAAAAAT
*
8534157 AAGATAAGAAAT
1 AAAATAA-AAAT
8534169 A
1 A
8534170 TTAAATAATT
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
10 6 0.15
11 29 0.71
12 6 0.15
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.18
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:8534135 original size:16 final size:16
Alignment explanation
Indices: 8534114--8534163 Score: 75
Period size: 16 Copynumber: 3.1 Consensus size: 16
8534104 TTATTTAAAG
8534114 AAAAT-AAAATAAAAT
1 AAAATAAAAATAAAAT
8534129 AAAAATAAAAATAAAAT
1 -AAAATAAAAATAAAAT
*
8534146 AAAATAAAAATAAGAT
1 AAAATAAAAATAAAAT
8534162 AA
1 AA
8534164 GAAATATTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 22 0.69
17 10 0.31
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (16 bp):
AAAATAAAAATAAAAT
Found at i:8534139 original size:22 final size:22
Alignment explanation
Indices: 8534114--8534158 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
8534104 TTATTTAAAG
8534114 AAAATAAAATAAAATAAAAATA
1 AAAATAAAATAAAATAAAAATA
8534136 AAAATAAAATAAAATAAAAATA
1 AAAATAAAATAAAATAAAAATA
8534158 A
1 A
8534159 GATAAGAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (22 bp):
AAAATAAAATAAAATAAAAATA
Found at i:8535046 original size:3 final size:3
Alignment explanation
Indices: 8535016--8535187 Score: 79
Period size: 3 Copynumber: 54.3 Consensus size: 3
8535006 AAAAAATAAG
*
8535016 ATA AT- ATA TTA ATTA ATA GATAA ATA ATA ATA ATA ATA ATA ATA GATAA
1 ATA ATA ATA ATA A-TA ATA -AT-A ATA ATA ATA ATA ATA ATA ATA -AT-A
* *
8535065 ATA ATA ATA A-A GT- ATA TATA TTA ATA GATAA ATA ATA ATAA ATA TATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA -AT-A ATA ATA AT-A ATA -ATA
* * * *
8535113 TTA ATAA ATA GTA ATA ATAA ATAA ATAA ATA CA-A AAA ATA AAA ATA
1 ATA AT-A ATA ATA ATA AT-A AT-A AT-A ATA -ATA ATA ATA ATA ATA
*
8535159 CAAA ATA A-A ATA A-A ATA ATA ATA A-A ATA A
1 -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
8535188 AATGAAATGG
Statistics
Matches: 133, Mismatches: 15, Indels: 42
0.70 0.08 0.22
Matches are distributed among these distances:
2 11 0.08
3 78 0.59
4 41 0.31
5 3 0.02
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:8535069 original size:14 final size:14
Alignment explanation
Indices: 8535029--8535140 Score: 104
Period size: 14 Copynumber: 8.0 Consensus size: 14
8535019 ATATATTAAT
8535029 TAATAGATAAATAA
1 TAATAGATAAATAA
8535043 TAATA-AT-AATAA
1 TAATAGATAAATAA
8535055 TAATAGATAAATAA
1 TAATAGATAAATAA
* *
8535069 TAATAAAGTATATATAT
1 TAAT--AG-ATAAATAA
8535086 TAATAGATAAATAA
1 TAATAGATAAATAA
* * *
8535100 TAATAAATATATAT
1 TAATAGATAAATAA
* *
8535114 TAATAAAT-AGTAA
1 TAATAGATAAATAA
*
8535127 TAATAAATAAATAA
1 TAATAGATAAATAA
8535141 ATACAAAAAA
Statistics
Matches: 81, Mismatches: 11, Indels: 12
0.78 0.11 0.12
Matches are distributed among these distances:
12 10 0.12
13 14 0.17
14 43 0.53
15 2 0.02
16 2 0.02
17 10 0.12
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (14 bp):
TAATAGATAAATAA
Found at i:8535136 original size:31 final size:31
Alignment explanation
Indices: 8535009--8535139 Score: 107
Period size: 28 Copynumber: 4.3 Consensus size: 31
8534999 AAGAGAAAAA
*
8535009 AAATAAGATAATATATTAATTAATAGATAAATAAT
1 AAATAA-AT-ATATATTAATAAATAG-T-AATAAT
* * *
8535044 -AAT-AATA-ATAATAATAGATAAATAATAAT
1 AAATAAATATATATTAATAAAT-AGTAATAAT
*
8535073 AAAGT--ATATATATTAATAGATA--AATAAT
1 AAA-TAAATATATATTAATAAATAGTAATAAT
8535101 -AATAAATATATATTAATAAATAGTAATAAT
1 AAATAAATATATATTAATAAATAGTAATAAT
8535131 AAATAAATA
1 AAATAAATA
8535140 AATACAAAAA
Statistics
Matches: 81, Mismatches: 6, Indels: 22
0.74 0.06 0.20
Matches are distributed among these distances:
26 1 0.01
27 2 0.02
28 22 0.27
29 6 0.07
30 22 0.27
31 22 0.27
32 2 0.02
33 1 0.01
34 3 0.04
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.34
Consensus pattern (31 bp):
AAATAAATATATATTAATAAATAGTAATAAT
Found at i:8535137 original size:17 final size:17
Alignment explanation
Indices: 8535038--8535182 Score: 88
Period size: 17 Copynumber: 8.3 Consensus size: 17
8535028 TTAATAGATA
8535038 AATAAT-AAT-AATAAT
1 AATAATAAATAAATAAT
*
8535053 AATAATAGATAAATAAT
1 AATAATAAATAAATAAT
* * *
8535070 AATAA-AGTATATATATT
1 AATAATA-AATAAATAAT
8535087 AATAGATAAAT-AATAAT
1 AATA-ATAAATAAATAAT
*
8535104 AAATATATATTAATAAATAGT
1 -AATA-ATA--AATAAATAAT
8535125 AATAATAAATAAATAAAT
1 AATAATAAATAAAT-AAT
8535143 ACA-AA-AAATAAA-AAT
1 A-ATAATAAATAAATAAT
*
8535158 ACAAAATAAAATAAAATAAT
1 A-ATAAT-AAAT-AAATAAT
8535178 AATAA
1 AATAA
8535183 AATAAAATGA
Statistics
Matches: 103, Mismatches: 11, Indels: 28
0.73 0.08 0.20
Matches are distributed among these distances:
15 12 0.12
16 5 0.05
17 40 0.39
18 19 0.18
19 11 0.11
20 11 0.11
21 5 0.05
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.29
Consensus pattern (17 bp):
AATAATAAATAAATAAT
Found at i:8535141 original size:45 final size:43
Alignment explanation
Indices: 8535010--8535143 Score: 121
Period size: 45 Copynumber: 3.0 Consensus size: 43
8535000 AGAGAAAAAA
8535010 AATAAGATAATATATTAATTAATAGATAAATAATAAT-AAT-AATAAT
1 AATAA-AT-ATATATTAA-TAATAG-T-AATAATAATAAATAAATAAT
* * * *
8535056 AATAGATAAATAATAATAA-AGTATATATATTAATAGATAAATAAT
1 AATAAATATATATTAATAATAGTA-ATA-A-TAATAAATAAATAAT
8535101 AATAAATATATATTAATAAATAGTAATAATAAATAAATAAATA
1 AATAAATATATATTAAT-AATAGTAATAAT-AATAAATAAATA
8535144 CAAAAAATAA
Statistics
Matches: 72, Mismatches: 8, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
40 1 0.01
41 4 0.06
42 3 0.04
43 7 0.10
44 10 0.14
45 34 0.47
46 9 0.12
47 4 0.06
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (43 bp):
AATAAATATATATTAATAATAGTAATAATAATAAATAAATAAT
Found at i:8535168 original size:5 final size:5
Alignment explanation
Indices: 8535131--8535195 Score: 55
Period size: 5 Copynumber: 12.8 Consensus size: 5
8535121 TAGTAATAAT
*
8535131 AAAT- AAAT- AAATA CAA-A AAATAA AAATACA AAATA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAAT-A AAAT--A AAATA AAATA AAATA
*
8535176 ATAATA AAATA AAATG AAAT
1 A-AATA AAATA AAATA AAAT
8535196 GGGCTTACCC
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
4 11 0.21
5 26 0.50
6 10 0.19
7 5 0.10
ACGTcount: A:0.75, C:0.03, G:0.02, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:8542875 original size:22 final size:22
Alignment explanation
Indices: 8542841--8542886 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
8542831 CTTCCAAGTC
*
8542841 TTTGTTTGGTTGGAGTTTAGGG
1 TTTGTCTGGTTGGAGTTTAGGG
* * *
8542863 TTTGTCTGTTTGGATTTTTGGG
1 TTTGTCTGGTTGGAGTTTAGGG
8542885 TT
1 TT
8542887 ATTGCATGTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.07, C:0.02, G:0.35, T:0.57
Consensus pattern (22 bp):
TTTGTCTGGTTGGAGTTTAGGG
Found at i:8547801 original size:16 final size:16
Alignment explanation
Indices: 8547780--8547814 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
8547770 TTTATCAACG
8547780 ATAATAT-AATATAAAA
1 ATAATATAAAT-TAAAA
8547796 ATAATATAAATTAAAA
1 ATAATATAAATTAAAA
8547812 ATA
1 ATA
8547815 TAAAAATATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 15 0.83
17 3 0.17
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
ATAATATAAATTAAAA
Found at i:8547814 original size:24 final size:24
Alignment explanation
Indices: 8547787--8547854 Score: 77
Period size: 24 Copynumber: 2.8 Consensus size: 24
8547777 ACGATAATAT
8547787 AATATAAAAATAATATAAATTAAA
1 AATATAAAAATAATATAAATTAAA
*
8547811 AATATAAAAAT-ATCATAAGTTAAA
1 AATATAAAAATAAT-ATAAATTAAA
* *
8547835 ATTTTAAAAA-ATATATAAAT
1 AATATAAAAATA-ATATAAAT
8547855 AAATTTAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
23 2 0.05
24 33 0.89
25 2 0.05
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (24 bp):
AATATAAAAATAATATAAATTAAA
Found at i:8547857 original size:23 final size:22
Alignment explanation
Indices: 8547792--8547869 Score: 61
Period size: 24 Copynumber: 3.3 Consensus size: 22
8547782 AATATAATAT
*
8547792 AAAAATAATATAAATTAAAA-ATA
1 AAAAAT-ATATAAA-TAAAATTTA
*
8547815 TAAAAATATCATAAGTTAAAATTTTA
1 -AAAAATAT-ATAA-ATAAAA-TTTA
8547841 AAAAATATATAAAT-AAATTTA
1 AAAAATATATAAATAAAATTTA
8547862 ATAAAATA
1 A-AAAATA
8547870 AAAAATATAT
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
21 5 0.11
22 9 0.20
23 3 0.07
24 19 0.41
25 8 0.17
26 2 0.04
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (22 bp):
AAAAATATATAAATAAAATTTA
Found at i:8547875 original size:21 final size:22
Alignment explanation
Indices: 8547837--8547886 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
8547827 AAGTTAAAAT
*
8547837 TTTAA-AAAATATATAAATAAA
1 TTTAATAAAATATAAAAATAAA
*
8547858 TTTAATAAAATA-AAAAATATA
1 TTTAATAAAATATAAAAATAAA
*
8547879 TTTTATAA
1 TTTAATAA
8547887 TTTTATATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TTTAATAAAATATAAAAATAAA
Found at i:8547943 original size:11 final size:12
Alignment explanation
Indices: 8547920--8547948 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
8547910 TTTAAAATTT
8547920 TAATATAAAATA
1 TAATATAAAATA
8547932 TAATAT-AAATA
1 TAATATAAAATA
8547943 TAATAT
1 TAATAT
8547949 TTTATATGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
TAATATAAAATA
Found at i:8548344 original size:25 final size:25
Alignment explanation
Indices: 8548315--8548373 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
8548305 AACTATATGC
8548315 TATTTTTTTAAATGTCTAAAA-TATT
1 TATTTTTTTAAAT-TCTAAAATTATT
* *
8548340 TA-TTTTTTATATTTTAAAATTATT
1 TATTTTTTTAAATTCTAAAATTATT
*
8548364 TTTTTTTTTA
1 TATTTTTTTA
8548374 TTTAATAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 6 0.21
24 14 0.48
25 9 0.31
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (25 bp):
TATTTTTTTAAATTCTAAAATTATT
Found at i:8548363 original size:24 final size:22
Alignment explanation
Indices: 8548317--8548385 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 22
8548307 CTATATGCTA
* *
8548317 TTTTTTTAAATGTCTAAAATATT
1 TTTTTTTATAT-TTTAAAATATT
8548340 TATTTTTTATATTTTAAAATTATT
1 T-TTTTTTATATTTTAAAA-TATT
*
8548364 TTTTTTTTTA-TTTAATAATATT
1 TTTTTTTATATTTTAA-AATATT
8548386 AAAAATCATG
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
22 9 0.22
23 17 0.43
24 14 0.35
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (22 bp):
TTTTTTTATATTTTAAAATATT
Found at i:8548385 original size:22 final size:23
Alignment explanation
Indices: 8548331--8548385 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
8548321 TTTAAATGTC
8548331 TAAAATATTTATTTTTTATATTT
1 TAAAATATTTATTTTTTATATTT
*
8548354 TAAAATTATTT-TTTTTTTTA-TT
1 TAAAA-TATTTATTTTTTATATTT
8548376 TAATAATATT
1 TAA-AATATT
8548386 AAAAATCATG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 9 0.31
23 15 0.52
24 5 0.17
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (23 bp):
TAAAATATTTATTTTTTATATTT
Found at i:8548435 original size:30 final size:28
Alignment explanation
Indices: 8548400--8548471 Score: 85
Period size: 28 Copynumber: 2.5 Consensus size: 28
8548390 ATCATGAAAC
8548400 TTTAATTTATAAAAAAATTAAATTTTAATA
1 TTTAATTTATAAAAAAATTAAATTTT--TA
* *
8548430 TTTAATTTAT--TAAAATTAAATTTTTT
1 TTTAATTTATAAAAAAATTAAATTTTTA
8548456 TTTAATTCTATAAAAA
1 TTTAATT-TATAAAAA
8548472 TTGATATATA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
26 8 0.22
27 3 0.08
28 13 0.36
29 2 0.06
30 10 0.28
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (28 bp):
TTTAATTTATAAAAAAATTAAATTTTTA
Found at i:8548869 original size:21 final size:23
Alignment explanation
Indices: 8548843--8548900 Score: 84
Period size: 21 Copynumber: 2.6 Consensus size: 23
8548833 TGCGTATTTC
8548843 TTAAAATTATTTTTTTA-ATA-T
1 TTAAAATTATTTTTTTATATATT
* *
8548864 TTAAAACTCTTTTTTTATATATT
1 TTAAAATTATTTTTTTATATATT
8548887 TTAAAATTATTTTT
1 TTAAAATTATTTTT
8548901 ATGATTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 15 0.48
22 3 0.10
23 13 0.42
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (23 bp):
TTAAAATTATTTTTTTATATATT
Found at i:8548910 original size:22 final size:21
Alignment explanation
Indices: 8548837--8548910 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 21
8548827 CTATTTTGCG
* *
8548837 TATTTCTTAAAATTATTTTTT
1 TATTTTTTAAAATTATTTTTA
* * *
8548858 TAATATTTAAAACTCTTTTTTTA
1 TATTTTTTAAAA-T-TATTTTTA
*
8548881 TATATTTTAAAATTATTTTTA
1 TATTTTTTAAAATTATTTTTA
8548902 TGATTTTTT
1 T-ATTTTTT
8548911 TATATTAAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
21 17 0.43
22 8 0.20
23 15 0.38
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (21 bp):
TATTTTTTAAAATTATTTTTA
Found at i:8549640 original size:19 final size:20
Alignment explanation
Indices: 8549618--8549655 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8549608 TAATAAGATA
*
8549618 AAAG-ATTTAAAAATAAATC
1 AAAGAATTTAAAAAAAAATC
8549637 AAAGAATTTAAAAAAAAAT
1 AAAGAATTTAAAAAAAAAT
8549656 GTGTGGTCGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.24
Consensus pattern (20 bp):
AAAGAATTTAAAAAAAAATC
Found at i:8551457 original size:17 final size:17
Alignment explanation
Indices: 8551437--8551488 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 17
8551427 ATTAGTTTAC
8551437 TTAATAAATAAATATAT
1 TTAATAAATAAATATAT
* *
8551454 TTAATAATTTAATTATAT
1 TTAATAA-ATAAATATAT
8551472 TTATTATAAAATAAATA
1 TTA--AT-AAATAAATA
8551489 AAATATTACT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
17 7 0.26
18 11 0.41
20 7 0.26
21 2 0.07
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TTAATAAATAAATATAT
Found at i:8551958 original size:24 final size:25
Alignment explanation
Indices: 8551912--8551958 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
8551902 AATAAATTAG
* *
8551912 TAAAATATAAAACTTATTATTATAT
1 TAAAAAATAAAACATATTATTATAT
8551937 TAAAAAATAAAA-ATATTATTAT
1 TAAAAAATAAAACATATTATTAT
8551959 GTTAGAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (25 bp):
TAAAAAATAAAACATATTATTATAT
Found at i:8557195 original size:18 final size:18
Alignment explanation
Indices: 8557162--8557196 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8557152 TAATTCTATT
* *
8557162 AATAAAAAGATTAAAAAA
1 AATAAAAAAATGAAAAAA
8557180 AATAAAAAAATGAAAAA
1 AATAAAAAAATGAAAAA
8557197 TGAGAATAAA
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:0.80, C:0.00, G:0.06, T:0.14
Consensus pattern (18 bp):
AATAAAAAAATGAAAAAA
Found at i:8557971 original size:20 final size:21
Alignment explanation
Indices: 8557929--8557973 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
8557919 TTTTGGTATT
* *
8557929 TTTTATTTATTTTATTTAGTA
1 TTTTACTTATTTTATTAAGTA
8557950 TTTTACTTATTTT-TTAAGTA
1 TTTTACTTATTTTATTAAGTA
8557970 TTTT
1 TTTT
8557974 TGCATGATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.71
Consensus pattern (21 bp):
TTTTACTTATTTTATTAAGTA
Found at i:8570619 original size:18 final size:16
Alignment explanation
Indices: 8570576--8570618 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 16
8570566 AGTATTTTAG
8570576 AAAGAAAATAGTCGAA
1 AAAGAAAATAGTCGAA
*
8570592 AAATGTAAAATAGTTGACA
1 AAA-G-AAAATAGTCGA-A
8570611 AAAGAAAA
1 AAAGAAAA
8570619 ACAAAGTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
16 3 0.13
17 5 0.22
18 11 0.48
19 4 0.17
ACGTcount: A:0.63, C:0.05, G:0.16, T:0.16
Consensus pattern (16 bp):
AAAGAAAATAGTCGAA
Found at i:8575893 original size:2 final size:2
Alignment explanation
Indices: 8575886--8575924 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
8575876 TTCCATTAGA
8575886 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8575925 ATGAGAATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8577741 original size:72 final size:73
Alignment explanation
Indices: 8577650--8578225 Score: 409
Period size: 72 Copynumber: 8.0 Consensus size: 73
8577640 TTATGAATAG
* * *** **
8577650 CAACATCCACTGCA-TTTTTTATCTTAAAAATATGGCCTTCATTAAAATTTTAAATTTTTGAAAA
1 CAACATTCACTACATTTTTTTATCTTAAAAATATAATCTTTGTTAAAATTTTAAATTTTTGAAAA
8577714 TAAAATTT
66 TAAAATTT
* * * * * * **
8577722 TAACATTCAATAC-TTTTTTTATTTTACAAATATGATCTTTGTTAAAATTTTAAAATTTCAAAAA
1 CAACATTCACTACATTTTTTTATCTTAAAAATATAATCTTTGTTAAAATTTTAAATTTTTGAAAA
*
8577786 TAAAGTTT
66 TAAAATTT
** * * * * * * **
8577794 CAATTTTCACTAC-GTGTCTTATTTTAAAAACACAATCTTTACTAAAATTTTAAATTTTT-AAAA
1 CAACATTCACTACATTTTTTTATCTTAAAAATATAATCTTTGTTAAAATTTTAAATTTTTGAAAA
*
8577857 TTAAAGTTT
66 -TAAAATTT
* ** * *
8577866 CAACATCCACTACATTTTTTTTATCTTAAAAACGTAATTTTTGTTAAAATTTTAAGTTTTTGAAA
1 CAACATTCACTACA-TTTTTTTATCTTAAAAATATAATCTTTGTTAAAATTTTAAATTTTTGAAA
8577931 ATAAAATTT
65 ATAAAATTT
* * * * *
8577940 CAACATTCACTACAATTTTTTATCTTAAAAATGTAATTTTTGTTAAAATTTCAAGTTTTTGAAAA
1 CAACATTCACTACATTTTTTTATCTTAAAAATATAATCTTTGTTAAAATTTTAAATTTTTGAAAA
8578005 TAAAATTT
66 TAAAATTT
* * * * ** * * *
8578013 CAACATCCACTACA-CTTTTTATGC-TCAAAACACGATATTTGTTAAAATTCCTAAATTTGT-AA
1 CAACATTCACTACATTTTTTTAT-CTTAAAAATATAATCTTTGTTAAAATT-TTAAATTTTTGAA
*
8578075 AATAAAGTTT
64 AATAAAATTT
* * * * * * * * *
8578085 CAAAATCCACT--ATGTTTCTTATCTTAAAAATGTAATTTTTATTAAAATTTCAAAATTTCGAAA
1 CAACATTCACTACAT-TTTTTTATCTTAAAAATATAATCTTTGTTAAAATTTTAAATTTTTGAAA
8578148 ATAAAATTT
65 ATAAAATTT
* * * * * ** * * * *
8578157 TAGCATCCAC--CGTGTTTGTTATCTTAAAAACGTAATTTTTATTAAAATTCTAAAATTTTGAAA
1 CAACATTCACTACAT-TTTTTTATCTTAAAAATATAATCTTTGTTAAAATTTTAAATTTTTGAAA
*
8578220 AAAAAA
65 ATAAAA
8578226 AAAAAACACT
Statistics
Matches: 406, Mismatches: 86, Indels: 24
0.79 0.17 0.05
Matches are distributed among these distances:
70 1 0.00
71 10 0.02
72 259 0.64
73 76 0.19
74 56 0.14
75 4 0.01
ACGTcount: A:0.40, C:0.12, G:0.06, T:0.43
Consensus pattern (73 bp):
CAACATTCACTACATTTTTTTATCTTAAAAATATAATCTTTGTTAAAATTTTAAATTTTTGAAAA
TAAAATTT
Found at i:8583592 original size:44 final size:44
Alignment explanation
Indices: 8583437--8583598 Score: 166
Period size: 45 Copynumber: 3.7 Consensus size: 44
8583427 GCCATAAAGT
* * * *
8583437 TTTTTGAAAAAGAACCTTTGAAACTTTGGATGTGAATTCCAAAA
1 TTTTTGAATAAGAATCTTTGAAATTTTGGATGTGAATCCCAAAA
* * * * *
8583481 TTTTTCAA-ATGTAAATCTTTGAAATGTTGGATATGAAACCCAAAAA
1 TTTTTGAATAAG--AATCTTTGAAATTTTGGATGTGAATCCC-AAAA
* * *
8583527 ATTTTGAATAAAAATCTTTGAAATTTTGGATGTGAATCCCAAAT
1 TTTTTGAATAAGAATCTTTGAAATTTTGGATGTGAATCCCAAAA
*
8583571 TTTTTGAATAAGAATCATTG-AATTTTGG
1 TTTTTGAATAAGAATCTTTGAAATTTTGG
8583599 CTATGAACCT
Statistics
Matches: 95, Mismatches: 19, Indels: 9
0.77 0.15 0.07
Matches are distributed among these distances:
43 10 0.11
44 27 0.28
45 47 0.49
46 10 0.11
47 1 0.01
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (44 bp):
TTTTTGAATAAGAATCTTTGAAATTTTGGATGTGAATCCCAAAA
Found at i:8583819 original size:35 final size:35
Alignment explanation
Indices: 8583752--8583819 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
8583742 GAATTTGAAG
** * *
8583752 TTCTTGCAAATGTGAAAGTTTTACGAATTTTTGAT
1 TTCTTGCAAACCTGAAAGTTTTACAAAGTTTTGAT
8583787 TTCTTGCAAACCTGAAA-TTCTTACAAAGTTTTG
1 TTCTTGCAAACCTGAAAGTT-TTACAAAGTTTTG
8583820 TAAATCTTCC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 2 0.07
35 26 0.93
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.43
Consensus pattern (35 bp):
TTCTTGCAAACCTGAAAGTTTTACAAAGTTTTGAT
Found at i:8583968 original size:17 final size:17
Alignment explanation
Indices: 8583917--8584026 Score: 55
Period size: 17 Copynumber: 6.5 Consensus size: 17
8583907 TAATCTTGCA
* *
8583917 AATCTAAAAGTCTTGTG
1 AATCTAAAATTCTTATG
*
8583934 AATCT-GAATTCTTATG
1 AATCTAAAATTCTTATG
* *
8583950 AATCTAAAATTTTTTTG
1 AATCTAAAATTCTTATG
* * *
8583967 AATATTTAAATTCTTACG
1 AAT-CTAAAATTCTTATG
* *
8583985 AAAT-TGAAATTCTTGTG
1 -AATCTAAAATTCTTATG
* * * *
8584002 -ATTTGAAATTTTTGTG
1 AATCTAAAATTCTTATG
8584018 AATCTAAAA
1 AATCTAAAA
8584027 CTTTCGTGAA
Statistics
Matches: 71, Mismatches: 17, Indels: 10
0.72 0.17 0.10
Matches are distributed among these distances:
15 2 0.03
16 25 0.35
17 32 0.45
18 9 0.13
19 3 0.04
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (17 bp):
AATCTAAAATTCTTATG
Found at i:8584009 original size:16 final size:16
Alignment explanation
Indices: 8583988--8584018 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8583978 TCTTACGAAA
8583988 TTGAAATTCTTGTGAT
1 TTGAAATTCTTGTGAT
*
8584004 TTGAAATTTTTGTGA
1 TTGAAATTCTTGTGA
8584019 ATCTAAAACT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.03, G:0.19, T:0.52
Consensus pattern (16 bp):
TTGAAATTCTTGTGAT
Found at i:8585127 original size:23 final size:21
Alignment explanation
Indices: 8585077--8585127 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 21
8585067 TTCTTTTTTC
8585077 TTTTTATTTTTTGATTTTATT
1 TTTTTATTTTTTGATTTTATT
*
8585098 TGATTTTATTTTTTGTTTCTCTATT
1 T--TTTTATTTTTTGATT-T-TATT
8585123 TTTTT
1 TTTTT
8585128 TACATTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
21 1 0.04
23 18 0.72
24 1 0.04
25 5 0.20
ACGTcount: A:0.12, C:0.04, G:0.06, T:0.78
Consensus pattern (21 bp):
TTTTTATTTTTTGATTTTATT
Found at i:8585312 original size:21 final size:21
Alignment explanation
Indices: 8585282--8585336 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
8585272 TTAATTTGCG
* *
8585282 TGATATTTTATCTTAATTACA
1 TGATAGTTTATATTAATTACA
8585303 TGATAGTTTATATTAATTACA
1 TGATAGTTTATATTAATTACA
8585324 TGATA--TTATATTA
1 TGATAGTTTATATTA
8585337 TTATTTGCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 8 0.25
21 24 0.75
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.51
Consensus pattern (21 bp):
TGATAGTTTATATTAATTACA
Found at i:8585479 original size:14 final size:13
Alignment explanation
Indices: 8585454--8585478 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8585444 GACTTAATAA
8585454 ATTTTTTTAAAAT
1 ATTTTTTTAAAAT
8585467 ATTTTTTTAAAA
1 ATTTTTTTAAAA
8585479 AAATCCTACT
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
ATTTTTTTAAAAT
Found at i:8588058 original size:4 final size:4
Alignment explanation
Indices: 8588049--8588074 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
8588039 TATTATTATT
8588049 ATTA ATTA ATTA ATTA ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA AT
8588075 CTTTAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:8588998 original size:16 final size:17
Alignment explanation
Indices: 8588977--8589011 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
8588967 GCATGTTTTC
8588977 TTTTTTCTTTTTCT-TT
1 TTTTTTCTTTTTCTATT
*
8588993 TTTTTTTTTTTTCTATT
1 TTTTTTCTTTTTCTATT
8589010 TT
1 TT
8589012 GATTTTGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.89
Consensus pattern (17 bp):
TTTTTTCTTTTTCTATT
Found at i:8589011 original size:13 final size:13
Alignment explanation
Indices: 8588972--8589004 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
8588962 ATTTGGCATG
8588972 TTTTCTTTTTTCT
1 TTTTCTTTTTTCT
8588985 TTTTCTTTTTT-T
1 TTTTCTTTTTTCT
8588997 TTTT-TTTT
1 TTTTCTTTT
8589005 CTATTTTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 4 0.20
12 5 0.25
13 11 0.55
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (13 bp):
TTTTCTTTTTTCT
Found at i:8589022 original size:12 final size:11
Alignment explanation
Indices: 8589007--8589069 Score: 60
Period size: 12 Copynumber: 5.7 Consensus size: 11
8588997 TTTTTTTTCT
8589007 ATTTTGATTTTG
1 ATTTT-ATTTTG
8589019 ATTTTA-TTT-
1 ATTTTATTTTG
*
8589028 ATTTTATGTTG
1 ATTTTATTTTG
*
8589039 ATTTTTATTTTT
1 A-TTTTATTTTG
8589051 ATTTTTATTTTG
1 A-TTTTATTTTG
8589063 -TTTTATT
1 ATTTTATT
8589070 ATTATTATTA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
9 6 0.14
10 12 0.27
11 2 0.05
12 24 0.55
ACGTcount: A:0.17, C:0.00, G:0.08, T:0.75
Consensus pattern (11 bp):
ATTTTATTTTG
Found at i:8589023 original size:26 final size:25
Alignment explanation
Indices: 8588994--8589056 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 25
8588984 TTTTTCTTTT
*
8588994 TTTTTTTTTTTCTATTTTGATTTTGA
1 TTTTTTTTTTT-TATGTTGATTTTGA
* *
8589020 TTTTATTTATTTTATGTTGATTTTTA
1 TTTT-TTTTTTTTATGTTGATTTTGA
*
8589046 TTTTTATTTTT
1 TTTTTTTTTTT
8589057 ATTTTGTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
25 5 0.16
26 20 0.65
27 6 0.19
ACGTcount: A:0.14, C:0.02, G:0.06, T:0.78
Consensus pattern (25 bp):
TTTTTTTTTTTTATGTTGATTTTGA
Found at i:8589045 original size:21 final size:22
Alignment explanation
Indices: 8588997--8589048 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
8588987 TTCTTTTTTT
* *
8588997 TTTTTTTTCTATTTTGATTTTGA
1 TTTTTATT-TATTTTGATGTTGA
8589020 -TTTTATTTATTTT-ATGTTGA
1 TTTTTATTTATTTTGATGTTGA
8589040 TTTTTATTT
1 TTTTTATTT
8589049 TTATTTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 6 0.23
21 14 0.54
22 6 0.23
ACGTcount: A:0.15, C:0.02, G:0.08, T:0.75
Consensus pattern (22 bp):
TTTTTATTTATTTTGATGTTGA
Done.