Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167826.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_1, 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: 36299135
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Warning! 357000 characters in sequence are not A, C, G, or T
File 42 of 402
Found at i:8280076 original size:20 final size:21
Alignment explanation
Indices: 8280036--8280077 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
8280026 TGTGATTTTT
*
8280036 TTGCATGATATTTTAATATTA
1 TTGCATGATAATTTAATATTA
*
8280057 TTGCATGCTAATTT-ATATTA
1 TTGCATGATAATTTAATATTA
8280077 T
1 T
8280078 ATTTGCATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.31, C:0.07, G:0.10, T:0.52
Consensus pattern (21 bp):
TTGCATGATAATTTAATATTA
Found at i:8280090 original size:20 final size:19
Alignment explanation
Indices: 8280067--8280139 Score: 52
Period size: 17 Copynumber: 4.1 Consensus size: 19
8280057 TTGCATGCTA
8280067 ATTTATATTATATTTGCATG
1 ATTTATA-TATATTTGCATG
*
8280087 ATTT-TATCTA--T--ATG
1 ATTTATATATATTTGCATG
*
8280101 ATTAATATTATATTTGCATG
1 ATTTATA-TATATTTGCATG
*
8280121 -TTTA-ATCTATTTGCATG
1 ATTTATATATATTTGCATG
8280138 AT
1 AT
8280140 ATTTTATATT
Statistics
Matches: 41, Mismatches: 5, Indels: 16
0.66 0.08 0.26
Matches are distributed among these distances:
14 6 0.15
15 2 0.05
16 4 0.10
17 11 0.27
18 6 0.15
19 5 0.12
20 7 0.17
ACGTcount: A:0.30, C:0.07, G:0.10, T:0.53
Consensus pattern (19 bp):
ATTTATATATATTTGCATG
Found at i:8280161 original size:20 final size:20
Alignment explanation
Indices: 8280136--8280184 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
8280126 TCTATTTGCA
8280136 TGATATTTTATATTATTACT
1 TGATATTTTATATTATTACT
*
8280156 TGATATTTTATATTATTATT
1 TGATATTTTATATTATTACT
8280176 TGATATTTT
1 TGATATTTT
8280185 TGCACAGATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.63
Consensus pattern (20 bp):
TGATATTTTATATTATTACT
Found at i:8280277 original size:53 final size:53
Alignment explanation
Indices: 8280213--8280348 Score: 218
Period size: 53 Copynumber: 2.6 Consensus size: 53
8280203 TGATCTTGGT
* * * *
8280213 ATGATTTTATATTTAATTACATATTTATTTGCATGATTTATATTATTATTTAC
1 ATGATTATATATTTAATTGCATATCTATTTGCATGATTTATATTATTAATTAC
* *
8280266 ATGATTATATATTTAATTGCATATCTATTTGCATGATTTATATTGTTAATTGC
1 ATGATTATATATTTAATTGCATATCTATTTGCATGATTTATATTATTAATTAC
8280319 ATGATTATATATTTAATTGCATATCTATTT
1 ATGATTATATATTTAATTGCATATCTATTT
8280349 ATTTGTGTGA
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.08, T:0.54
Consensus pattern (53 bp):
ATGATTATATATTTAATTGCATATCTATTTGCATGATTTATATTATTAATTAC
Found at i:8280315 original size:33 final size:32
Alignment explanation
Indices: 8280259--8280320 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
8280249 TTTATATTAT
8280259 TATTTACATGATTATATATTTAATTGCATATC
1 TATTTACATGATTATATATTTAATTGCATATC
*
8280291 TATTTGCATGATT-TATATTGTTAATTGCAT
1 TATTTACATGATTATATA-T-TTAATTGCAT
8280321 GATTATATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 4 0.15
32 13 0.48
33 10 0.37
ACGTcount: A:0.31, C:0.08, G:0.10, T:0.52
Consensus pattern (32 bp):
TATTTACATGATTATATATTTAATTGCATATC
Found at i:8280328 original size:20 final size:21
Alignment explanation
Indices: 8280294--8280340 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
8280284 GCATATCTAT
8280294 TTGCATGATTTATAT-TGTTAA
1 TTGCATGATTTATATAT-TTAA
8280315 TTGCATGA-TTATATATTTAA
1 TTGCATGATTTATATATTTAA
8280335 TTGCAT
1 TTGCAT
8280341 ATCTATTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.30, C:0.06, G:0.13, T:0.51
Consensus pattern (21 bp):
TTGCATGATTTATATATTTAA
Found at i:8280352 original size:20 final size:20
Alignment explanation
Indices: 8280228--8280340 Score: 75
Period size: 21 Copynumber: 6.0 Consensus size: 20
8280218 TTTATATTTA
* *
8280228 ATTACATATTTATTTGCATG
1 ATTATATATTTAATTGCATG
* *
8280248 ATT-TATATTATTATTTACATG
1 ATTATATA-T-TTAATTGCATG
8280269 ATTATATATTTAATTGC---
1 ATTATATATTTAATTGCATG
*
8280286 A-TATCTA--T--TTGCATG
1 ATTATATATTTAATTGCATG
8280301 ATT-TATATTGTTAATTGCATG
1 ATTATATA-T-TTAATTGCATG
8280322 ATTATATATTTAATTGCAT
1 ATTATATATTTAATTGCAT
8280341 ATCTATTTAT
Statistics
Matches: 73, Mismatches: 6, Indels: 28
0.68 0.06 0.26
Matches are distributed among these distances:
12 4 0.05
14 1 0.01
15 4 0.05
16 6 0.08
17 1 0.01
19 4 0.05
20 20 0.27
21 25 0.34
22 8 0.11
ACGTcount: A:0.32, C:0.07, G:0.09, T:0.52
Consensus pattern (20 bp):
ATTATATATTTAATTGCATG
Found at i:8280441 original size:24 final size:24
Alignment explanation
Indices: 8280414--8280480 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 24
8280404 TTATTATTGC
* *
8280414 ATGATTTTATATTTATTGTATGAT
1 ATGATATTATATTTATTGCATGAT
8280438 ATGATATTATATGTTATTGCATGAT
1 ATGATATTATAT-TTATTGCATGAT
*
8280463 -TAATATTATATTTGATTG
1 ATGATATTATATTT-ATTG
8280481 ATATCGAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
23 2 0.05
24 25 0.66
25 11 0.29
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.54
Consensus pattern (24 bp):
ATGATATTATATTTATTGCATGAT
Found at i:8280444 original size:19 final size:19
Alignment explanation
Indices: 8280407--8280445 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
8280397 ATTATTATTA
* *
8280407 TTATTGCATGATTTTATAT
1 TTATTGCATGATATGATAT
*
8280426 TTATTGTATGATATGATAT
1 TTATTGCATGATATGATAT
8280445 T
1 T
8280446 ATATGTTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.28, C:0.03, G:0.13, T:0.56
Consensus pattern (19 bp):
TTATTGCATGATATGATAT
Found at i:8280600 original size:20 final size:19
Alignment explanation
Indices: 8280572--8280628 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 19
8280562 TCATATTTTT
8280572 ATGGTTATTGATATATTTTGC
1 ATGG-TATT-ATATATTTTGC
*
8280593 ATGGTATTTTATATTATTGC
1 ATGGTATTATATATT-TTGC
*
8280613 ATGATATTATATATTT
1 ATGGTATTATATATTT
8280629 ACATGATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 7 0.22
20 21 0.66
21 4 0.12
ACGTcount: A:0.28, C:0.04, G:0.14, T:0.54
Consensus pattern (19 bp):
ATGGTATTATATATTTTGC
Found at i:8280624 original size:18 final size:18
Alignment explanation
Indices: 8280583--8280648 Score: 55
Period size: 18 Copynumber: 3.5 Consensus size: 18
8280573 TGGTTATTGA
*
8280583 TATATT-TTGCATGGTATTT
1 TATATTATTGCAT-G-ATAT
8280602 TATATTATTGCATGATAT
1 TATATTATTGCATGATAT
*
8280620 TATA-TATTTACATGATTAT
1 TATATTA-TTGCATGA-TAT
8280639 TATTATTATT
1 TA-TATTATT
8280649 ATTATTATTA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
17 2 0.05
18 14 0.35
19 12 0.30
20 10 0.25
21 2 0.05
ACGTcount: A:0.30, C:0.05, G:0.09, T:0.56
Consensus pattern (18 bp):
TATATTATTGCATGATAT
Found at i:8280642 original size:3 final size:3
Alignment explanation
Indices: 8280634--8280660 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
8280624 TATTTACATG
8280634 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
8280661 GCATAATAAT
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:8284045 original size:305 final size:303
Alignment explanation
Indices: 8283143--8284053 Score: 976
Period size: 305 Copynumber: 3.0 Consensus size: 303
8283133 GAAACACTCC
* * ** *
8283143 TAATAATCCATAGAAAAAATATGAAACCGATTCTTGAAGGTATTTTTGGCTGAACTCACCTTTAA
1 TAATAATCCATAGGAAAAATATGAAATCGATTCTTGAAGGTATTTTTGGC-GAAAGCACCTTCAA
* * * *
8283208 TAATCCAATCAATAAATTTTTAGTT-AGGATTATTTAAGGCGGTTTTTGTCAAAAAAGCCTTCAA
65 TAATCCAATCAATAAATTTTTAGTTGA-AATTATTAAAGGCGATTTTTGTCAAAAATGCCTTCAA
* ** * * *
8283272 TAATCCATACACAAAAGTTGAAACGGATTCTTGAAGGTGTTTTTGGCTCAAAATGCTTTTAATAT
129 TAATCCATACA-AAAAGTTGGAACAAATTCTTAAAGGTGTTTTTGTCTCAAAATGCCTTTAATAT
* * * * * * * *
8283337 TTCATACGATAAATTTGAATA-GTGGGATTATTGAAAGCGATTTTGGTCAAAAATGCCTTTAGTA
193 TCCACACAATAAATTT--TTAGGTGGGATTATTGAAAGTGATTTTGGTCAAAAATACATTTAATA
* * * *
8283401 ACATTTTGTTATGGATTACTCAAGGTAATTTT-TTTATAAAAAAATGCCCT
256 ACATTTTATTATGGATTATTCAAGGT-GTTTTCTTGAT--AAAAATGCCCT
* * *
8283451 TAATAATCTATAGGAAAAATATGGAATGGATTCTTGAAGGTATTTTTGGCCGAAAGCACCTTCAA
1 TAATAATCCATAGGAAAAATATGAAATCGATTCTTGAAGGTATTTTTGG-CGAAAGCACCTTCAA
* * ** * * ***
8283516 TAATCCATTCAATTAATTTTTAGTTGGTATTATTAAAGGCCATTTTTTTTTTAAATCGCCTTCAA
65 TAATCCAATCAATAAATTTTTAGTTGAAATTATTAAAGGCGATTTTTGTCAAAAAT-GCCTTCAA
8283581 TAATCCATACAAGAAAGTTGGAAACAAATTCTTGAAA-GTGTTTTTGGTC-CAAAATG-CTTTAA
129 TAATCCATACAA-AAAGTTGG-AACAAATTCTT-AAAGGTGTTTTT-GTCTCAAAATGCCTTTAA
* * *
8283643 TATTCCACACAATAAATTTTTAGGTGGGATTATT-AAATGTGATATTGGTCAAAAACATATTTAA
190 TATTCCACACAATAAATTTTTAGGTGGGATTATTGAAA-GTGATTTTGGTCAAAAATACATTTAA
* * ** * *
8283707 TAA-TTTTTATTA-GGTATTATTCATGACGTTTTCTTGCTAAATATGCCCT
254 TAACATTTTATTATGG-ATTATTCAAGGTGTTTTCTTGATAAAAATGCCCT
** * * *
8283756 TAATAATCCATAGGAAAAATATGAAATTAATTTTTGAAGGCATTTTTGGTCGAAAGCGCCTTCAA
1 TAATAATCCATAGGAAAAATATGAAATCGATTCTTGAAGGTATTTTTGG-CGAAAGCACCTTCAA
* * * * *
8283821 TGATCCAATCAATAAATTTTTAGTTGAAATTATTGAAGGTGATTTTTGTCAAAAATGCTTTTAAT
65 TAATCCAATCAATAAATTTTTAGTTGAAATTATTAAAGGCGATTTTTGTCAAAAATGCCTTCAAT
* * * *
8283886 AATCCATACAAAATATTTGGAACAAATTCTTAAAGGCGTTTTTATCTCAAAACGCCTTTAATATT
130 AATCCATACAAAA-AGTTGGAACAAATTCTTAAAGGTGTTTTTGTCTCAAAATGCCTTTAATATT
* * * * *
8283951 CCACACAATATATTTTTAGGTGAGATTATTGAAGGTGATTTTGGTAAAAAATACATTCAATAACA
194 CCACACAATAAATTTTTAGGTGGGATTATTGAAAGTGATTTTGGTCAAAAATACATTTAATAACA
* *
8284016 TTTTATTATGGATAATTCAAGGTGTTTTCTTGTTAAAA
259 TTTTATTATGGATTATTCAAGGTGTTTTCTTGATAAAA
8284054 CGCCTTCATT
Statistics
Matches: 497, Mismatches: 88, Indels: 39
0.80 0.14 0.06
Matches are distributed among these distances:
302 5 0.01
303 26 0.05
304 85 0.17
305 142 0.29
306 8 0.02
307 23 0.05
308 132 0.27
309 48 0.10
310 24 0.05
311 4 0.01
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (303 bp):
TAATAATCCATAGGAAAAATATGAAATCGATTCTTGAAGGTATTTTTGGCGAAAGCACCTTCAAT
AATCCAATCAATAAATTTTTAGTTGAAATTATTAAAGGCGATTTTTGTCAAAAATGCCTTCAATA
ATCCATACAAAAAGTTGGAACAAATTCTTAAAGGTGTTTTTGTCTCAAAATGCCTTTAATATTCC
ACACAATAAATTTTTAGGTGGGATTATTGAAAGTGATTTTGGTCAAAAATACATTTAATAACATT
TTATTATGGATTATTCAAGGTGTTTTCTTGATAAAAATGCCCT
Found at i:8287462 original size:28 final size:28
Alignment explanation
Indices: 8287408--8287462 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 28
8287398 TTCAGCATAC
* * * *
8287408 CAATATCATATAATAACATTTAGCAAAA
1 CAATATCACACAATAACATTCAACAAAA
*
8287436 CAATATCACACAATACCATTCAACAAA
1 CAATATCACACAATAACATTCAACAAA
8287463 CCATAATGTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.53, C:0.22, G:0.02, T:0.24
Consensus pattern (28 bp):
CAATATCACACAATAACATTCAACAAAA
Found at i:8288497 original size:186 final size:186
Alignment explanation
Indices: 8288212--8289034 Score: 751
Period size: 186 Copynumber: 4.5 Consensus size: 186
8288202 AAAAGATGAT
* * *
8288212 TTTAATAATCTCAAAAATTTTTTTAAAAAAATTATTGAAGGCGTTTGTTCTCAAAAAATACCTTC
1 TTTAATAATCTCAAAAATTTTTTAAAAAAAATTATTGAAGGCATTTGTTCTCAAAAAAGACCTTC
* * *
8288277 AATAATTATGTACAAAAATTAAAACAAATTAGTGAAGGTATTTTT-TCGGAATAAACACCTTCAC
66 AATAATTATGTACAAAAATTAAAACGAATTAGTGAAGGCATTTTTCT-AGAATAAACACCTTCAC
* * *
8288341 TAACCATCTTAAATTTTGTGTAGAT-GAATATTGAAGGCATTTTAT-ACTAAAAGCACC
130 TAACCATCTTAAAATTTGAGTAG-TGGAATATTGAAGGCATTTT-TCACTAAAAACACC
* * *
8288398 TTTAATAATCTCAAAAA-TTTTTAAAAGAAAATTATTGAATGCATTTGTTCTAAAAAAAGGCCTT
1 TTTAATAATCTCAAAAATTTTTTAAAA-AAAATTATTGAAGGCATTTGTTCTCAAAAAAGACCTT
* **
8288462 CAATAATTATGTACAAAAATTAAAACGAATTAGTGAAGGCATTTTTCTAGAATGAATGCCTTCAC
65 CAATAATTATGTACAAAAATTAAAACGAATTAGTGAAGGCATTTTTCTAGAATAAACACCTTCAC
* ** **
8288527 TAACCA-CTTAAAATTTGAGTAGTGGAATATTGAAAGTGTTTTTCACTAAAAAACATT
130 TAACCATCTTAAAATTTGAGTAGTGGAATATTGAAGGCATTTTTCACT-AAAAACACC
* * * *
8288584 TTTAATAATCCCAAAAATTTTTTTAAAAAAAAATTATTAAAGGCATTTATTCTCAAAAAAGACAT
1 TTTAATAATCTCAAAAA-TTTTTT-AAAAAAAATTATTGAAGGCATTTGTTCTCAAAAAAGACCT
* ** *
8288649 TCAATAATTATGTACAAAAATTAAAATGAATTAGTGAAGGCATTTTTCTAGAGCAAACACATTCA
64 TCAATAATTATGTACAAAAATTAAAACGAATTAGTGAAGGCATTTTTCTAGAATAAACACCTTCA
* * * * *
8288714 CTAATCGTCTTAAAATTTGAGTATTGGTATATTGAAGGCATTTTTCACTAGAAAACGCC
129 CTAACCATCTTAAAATTTGAGTAGTGGAATATTGAAGGCATTTTTCACTA-AAAACACC
* * * * * *
8288773 TTTAATAATGTC--------CTT----AAATTTATTGAAGG----TGTTAATGCAAGAAATACCT
1 TTTAATAATCTCAAAAATTTTTTAAAAAAAATTATTGAAGGCATTTGTT-CT-CAAAAAAGACCT
* * * * *
8288822 TCAATAAATT-TCTTCAAAAATTAAAACAAATTAGTGAAAGCATTTTTCTAGAATAAACACATTC
64 TCAAT-AATTATGTACAAAAATTAAAACGAATTAGTGAAGGCATTTTTCTAGAATAAACACCTTC
* * * * * * * * ** *
8288886 AATAACTATCTTAAAATTTTATTAGTAGAATATTGAAAGCA-TTTTCTACTTGAATATGCT
128 ACTAACCATCTTAAAATTTGAGTAGTGGAATATTGAAGGCATTTTTC-AC-TAAAAACACC
* ** * * *
8288946 TTTAATAATC-CTAAATAA-TTTTTAAAAAGAAATTATTAAAGGTGTTTTTTCTTAAAAAAAATA
1 TTTAATAATCTC-AAA-AATTTTTTAAAAA-AAATTATTGAAGGCATTTGTTC-T-CAAAAAAGA
*
8289009 CCTTCAATAATTATCTACAAAAATTA
61 CCTTCAATAATTATGTACAAAAATTA
8289035 TTGAAGGTGT
Statistics
Matches: 517, Mismatches: 85, Indels: 66
0.77 0.13 0.10
Matches are distributed among these distances:
171 3 0.01
172 7 0.01
173 108 0.21
174 5 0.01
175 12 0.02
180 2 0.00
181 2 0.00
184 2 0.00
185 41 0.08
186 145 0.28
187 1 0.00
188 99 0.19
189 59 0.11
190 31 0.06
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.36
Consensus pattern (186 bp):
TTTAATAATCTCAAAAATTTTTTAAAAAAAATTATTGAAGGCATTTGTTCTCAAAAAAGACCTTC
AATAATTATGTACAAAAATTAAAACGAATTAGTGAAGGCATTTTTCTAGAATAAACACCTTCACT
AACCATCTTAAAATTTGAGTAGTGGAATATTGAAGGCATTTTTCACTAAAAACACC
Found at i:8294394 original size:262 final size:265
Alignment explanation
Indices: 8293925--8294461 Score: 1008
Period size: 262 Copynumber: 2.0 Consensus size: 265
8293915 TATTTAATTA
8293925 AATTGATATGTTCTTTATATATCATAGGTTATGATTTCTTAACTTCTCAATGTCTTTATATATAT
1 AATTGATATGTTCTTTATATATCATAGGTTATGATTTCTTAACTTCTCAATGTC-TTATATATAT
8293990 ATATTCTAAACTAATATCTTTTATATATTCACTTTTATGATGCAGATAAGCTATAATACAGAGGA
65 ATATTCTAAACTAATATCTTTTATATATTCACTTTTATGATGCAGATAAGCTATAATACAGAGGA
*
8294055 GTAGATTGAAAGAAATACATATCAGAGATATTAGTTCAAAACCATCTGCGGCACCTGTTGATATT
130 GTAGATTGAAAGAAATACATATCAAAGATATTAGTTCAAAACCATCTGCGGCACCTGTTGATATT
8294120 AGCTATGGACTGAATCCTTTGTAAGGGAATAAATATACTGTCAGATCTAACTCAGTCACTTCCAA
195 AGCTATGGACTGAATCCTTTGTAAGGGAATAAATATACTGTCAGATCTAACTCAGTCACTTCCAA
8294185 CTCTTC
260 CTCTTC
* *
8294191 AATTGATATGTTCTTTATATATCGTAGGTTATGATTTCTTAACTTTTCAATGTC-T-T-TATATA
1 AATTGATATGTTCTTTATATATCATAGGTTATGATTTCTTAACTTCTCAATGTCTTATATATATA
8294253 TATTCTAAACTAATATCTTTTATATATTCACTTTTATGATGCAGATAAGCTATAATACAGAGGAG
66 TATTCTAAACTAATATCTTTTATATATTCACTTTTATGATGCAGATAAGCTATAATACAGAGGAG
*
8294318 TAGATTGAAAGAAATACATATCAAAGATATTAGTTCAGAACCATCTGCGGCACCTGTTGATATTA
131 TAGATTGAAAGAAATACATATCAAAGATATTAGTTCAAAACCATCTGCGGCACCTGTTGATATTA
8294383 GCTATGGACTGAATCCTTTGTAAGGGAATAAATATACTGTCAGATCTAACTCAGTCACTTCCAAC
196 GCTATGGACTGAATCCTTTGTAAGGGAATAAATATACTGTCAGATCTAACTCAGTCACTTCCAAC
8294448 TCTTC
261 TCTTC
8294453 AATTGATAT
1 AATTGATAT
8294462 TGGATCTGGC
Statistics
Matches: 267, Mismatches: 4, Indels: 4
0.97 0.01 0.01
Matches are distributed among these distances:
262 213 0.80
263 1 0.00
264 1 0.00
266 52 0.19
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (265 bp):
AATTGATATGTTCTTTATATATCATAGGTTATGATTTCTTAACTTCTCAATGTCTTATATATATA
TATTCTAAACTAATATCTTTTATATATTCACTTTTATGATGCAGATAAGCTATAATACAGAGGAG
TAGATTGAAAGAAATACATATCAAAGATATTAGTTCAAAACCATCTGCGGCACCTGTTGATATTA
GCTATGGACTGAATCCTTTGTAAGGGAATAAATATACTGTCAGATCTAACTCAGTCACTTCCAAC
TCTTC
Found at i:8304937 original size:17 final size:18
Alignment explanation
Indices: 8304905--8304938 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
8304895 ATTTAAATAG
*
8304905 CGATCGCGGTAATATTTT
1 CGATCGCGGCAATATTTT
8304923 CGATCGC-GCAATATTT
1 CGATCGCGGCAATATTT
8304939 ATCATGTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.35
Consensus pattern (18 bp):
CGATCGCGGCAATATTTT
Found at i:8305042 original size:6 final size:6
Alignment explanation
Indices: 8305031--8305058 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
8305021 ATAAAATGTA
8305031 ATAATT ATAATT ATAATT ATAATT ATAA
1 ATAATT ATAATT ATAATT ATAATT ATAA
8305059 AAACTCTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
ATAATT
Found at i:8305466 original size:18 final size:18
Alignment explanation
Indices: 8305439--8305496 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 18
8305429 CCTTTGTTCT
8305439 TGATACATTTGAGGTGGA
1 TGATACATTTGAGGTGGA
*
8305457 TGATATATTTGAGGAGGTGGA
1 TGATACATTT---GAGGTGGA
*
8305478 GGATACATTTGAGGTGGA
1 TGATACATTTGAGGTGGA
8305496 T
1 T
8305497 AATAACCATA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 17 0.52
21 16 0.48
ACGTcount: A:0.28, C:0.03, G:0.36, T:0.33
Consensus pattern (18 bp):
TGATACATTTGAGGTGGA
Found at i:8305475 original size:21 final size:21
Alignment explanation
Indices: 8305449--8305491 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
8305439 TGATACATTT
* *
8305449 GAGGTGGATGATATATTTGAG
1 GAGGTGGAGGATACATTTGAG
8305470 GAGGTGGAGGATACATTTGAG
1 GAGGTGGAGGATACATTTGAG
8305491 G
1 G
8305492 TGGATAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.28, C:0.02, G:0.42, T:0.28
Consensus pattern (21 bp):
GAGGTGGAGGATACATTTGAG
Found at i:8305514 original size:39 final size:38
Alignment explanation
Indices: 8305440--8305516 Score: 93
Period size: 39 Copynumber: 2.0 Consensus size: 38
8305430 CTTTGTTCTT
* * *
8305440 GATACATTTGAGGTGGATGATATATTTGAGGAGGTGGAG
1 GATACATTTGAGGTGGATAATACATATGA-GAGGTGGAG
8305479 GATACATTTGAGGTGGATAATAACCATATGA-AGGTGGA
1 GATACATTTGAGGTGGATAAT-A-CATATGAGAGGTGGA
8305517 TAACCATGAG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
39 27 0.82
40 1 0.03
41 5 0.15
ACGTcount: A:0.32, C:0.05, G:0.34, T:0.29
Consensus pattern (38 bp):
GATACATTTGAGGTGGATAATACATATGAGAGGTGGAG
Found at i:8306541 original size:15 final size:16
Alignment explanation
Indices: 8306517--8306549 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
8306507 CATCGATTGA
*
8306517 AAATACAATAATAAAT
1 AAATACAATAAAAAAT
8306533 AAATA-AATAAAAAAT
1 AAATACAATAAAAAAT
8306548 AA
1 AA
8306550 TTTAATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (16 bp):
AAATACAATAAAAAAT
Found at i:8309323 original size:26 final size:26
Alignment explanation
Indices: 8309274--8309322 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
8309264 TTTCAAAAAT
**
8309274 TAAAAGTTTTCAAACTTATATTTTAA
1 TAAAAGTTTTCAAACCCATATTTTAA
8309300 TAAAA-TTTTCAAACCCATATTTT
1 TAAAAGTTTTCAAACCCATATTTT
8309323 TTATTTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.41, C:0.12, G:0.02, T:0.45
Consensus pattern (26 bp):
TAAAAGTTTTCAAACCCATATTTTAA
Found at i:8309883 original size:39 final size:38
Alignment explanation
Indices: 8309840--8309932 Score: 107
Period size: 39 Copynumber: 2.4 Consensus size: 38
8309830 CCACCCCTAT
* * *
8309840 CAATCTCTCTCCACCTTC-CCTCCAACATCCCACCAAACC
1 CAATC-CTCCCCACCCTCTCCT-CAACACCCCACCAAACC
* *
8309879 CAATCCCTCCCCACCCTCTCCTCAACGCCCCACCACACC
1 CAAT-CCTCCCCACCCTCTCCTCAACACCCCACCAAACC
8309918 CAATCCTCCCCACCC
1 CAATCCTCCCCACCC
8309933 ATCCAATCTC
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
38 11 0.23
39 32 0.68
40 4 0.09
ACGTcount: A:0.23, C:0.60, G:0.01, T:0.16
Consensus pattern (38 bp):
CAATCCTCCCCACCCTCTCCTCAACACCCCACCAAACC
Found at i:8309940 original size:18 final size:20
Alignment explanation
Indices: 8309906--8309949 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
8309896 CTCCTCAACG
8309906 CCCCACCACACCCAATC-CT
1 CCCCACCACACCCAATCTCT
*
8309925 CCCCACC-CATCCAATCTCT
1 CCCCACCACACCCAATCTCT
8309944 CCCCAC
1 CCCCAC
8309950 GTGCCTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.23, C:0.64, G:0.00, T:0.14
Consensus pattern (20 bp):
CCCCACCACACCCAATCTCT
Found at i:8312047 original size:3 final size:3
Alignment explanation
Indices: 8312039--8312066 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
8312029 TAGATAGTAG
8312039 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
8312067 GAACAACAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:8314472 original size:7 final size:7
Alignment explanation
Indices: 8314462--8314515 Score: 90
Period size: 7 Copynumber: 7.7 Consensus size: 7
8314452 TTTTGATTTT
8314462 ATTTTCA
1 ATTTTCA
8314469 ATTTTCA
1 ATTTTCA
8314476 ATTTTCA
1 ATTTTCA
*
8314483 ATTTTTA
1 ATTTTCA
*
8314490 ATTTTTA
1 ATTTTCA
8314497 ATTTTCA
1 ATTTTCA
8314504 ATTTTCA
1 ATTTTCA
8314511 ATTTT
1 ATTTT
8314516 GATTTTGATT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 45 1.00
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.63
Consensus pattern (7 bp):
ATTTTCA
Found at i:8314573 original size:15 final size:15
Alignment explanation
Indices: 8314533--8314578 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
8314523 ATTTTATTTG
*
8314533 TTTTTTATT-TTCTT
1 TTTTTTATTATTCTA
8314547 TTTTGTTATTATTCTA
1 TTTT-TTATTATTCTA
*
8314563 TTTTTTCTTATT-TA
1 TTTTTTATTATTCTA
8314577 TT
1 TT
8314579 GCTTTTTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 8 0.29
15 12 0.43
16 8 0.29
ACGTcount: A:0.13, C:0.07, G:0.02, T:0.78
Consensus pattern (15 bp):
TTTTTTATTATTCTA
Found at i:8314663 original size:24 final size:26
Alignment explanation
Indices: 8314636--8314695 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 26
8314626 TTTAAAGATT
*
8314636 TTTATTTGCAT-TATTT-TTATGATA
1 TTTAATTGCATGTATTTATTATGATA
* *
8314660 TTTAATTGTATGTTTTTATTATGATA
1 TTTAATTGCATGTATTTATTATGATA
8314686 TTT--TTGCATG
1 TTTAATTGCATG
8314696 AATATATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 15 0.50
25 4 0.13
26 11 0.37
ACGTcount: A:0.23, C:0.03, G:0.12, T:0.62
Consensus pattern (26 bp):
TTTAATTGCATGTATTTATTATGATA
Found at i:8314707 original size:16 final size:15
Alignment explanation
Indices: 8314683--8314727 Score: 60
Period size: 13 Copynumber: 3.1 Consensus size: 15
8314673 TTTTATTATG
8314683 ATAT-TTTTGCATGA
1 ATATATTTTGCATGA
8314697 ATATATATTTGCATG-
1 ATATAT-TTTGCATGA
8314712 ATA-ATTTTGCATGA
1 ATATATTTTGCATGA
8314726 AT
1 AT
8314728 TTAATTTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 8 0.29
14 8 0.29
15 4 0.14
16 8 0.29
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.47
Consensus pattern (15 bp):
ATATATTTTGCATGA
Found at i:8314719 original size:29 final size:31
Alignment explanation
Indices: 8314680--8314745 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 31
8314670 TGTTTTTATT
*
8314680 ATGATATTTTTGCATGAA-T-ATATATTTGC
1 ATGATAATTTTGCATGAATTAATATATTTGC
*
8314709 ATGATAATTTTGCATGAATTTAATTTATTTGC
1 ATGATAATTTTGCATGAA-TTAATATATTTGC
8314741 ATGAT
1 ATGAT
8314746 TTACAATGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
29 17 0.53
31 1 0.03
32 14 0.44
ACGTcount: A:0.32, C:0.06, G:0.14, T:0.48
Consensus pattern (31 bp):
ATGATAATTTTGCATGAATTAATATATTTGC
Found at i:8314757 original size:19 final size:19
Alignment explanation
Indices: 8314717--8314759 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
8314707 GCATGATAAT
* *
8314717 TTTGCATGAATTTAATTTA
1 TTTGCATGAATTTAAATGA
8314736 TTTGCATG-ATTTACAATGA
1 TTTGCATGAATTTA-AATGA
8314755 TTTGC
1 TTTGC
8314760 TTGCATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.28, C:0.09, G:0.14, T:0.49
Consensus pattern (19 bp):
TTTGCATGAATTTAAATGA
Found at i:8315604 original size:2 final size:2
Alignment explanation
Indices: 8315593--8315621 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
8315583 AACATTCTTC
8315593 AT AT -T 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
8315622 TTCCTTGGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:8326885 original size:27 final size:27
Alignment explanation
Indices: 8326855--8326909 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
8326845 GACTTAAAAG
8326855 TATGTCATGGAAGACAATGAAAAACAT
1 TATGTCATGGAAGACAATGAAAAACAT
8326882 TATGTCATGGAAGACAATGAAAAACAT
1 TATGTCATGGAAGACAATGAAAAACAT
8326909 T
1 T
8326910 CTTGAGAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.47, C:0.11, G:0.18, T:0.24
Consensus pattern (27 bp):
TATGTCATGGAAGACAATGAAAAACAT
Found at i:8328944 original size:73 final size:72
Alignment explanation
Indices: 8328820--8328992 Score: 206
Period size: 73 Copynumber: 2.4 Consensus size: 72
8328810 GACCTGATTG
* * * ** * *
8328820 ATCCTTTCCATGAGGGGATCAATTGGTTTATGTTTAAGTGCCATTTACACCTTTGAAAAT-CATG
1 ATCCCTTCCATGAGGGGATCGATTGGTTCATGTTTAAGAACCAATTACACCTTTGAAAATGCA-C
8328884 ACCCGATC
65 ACCCGATC
**
8328892 AATCCCTTCCATGAGGGGATCGATTGGTTCATGTTTTGGAACCAATTACACCTTTGAAAATGCAC
1 -ATCCCTTCCATGAGGGGATCGATTGGTTCATGTTTAAGAACCAATTACACCTTTGAAAATGCAC
8328957 ACCCGATC
65 ACCCGATC
* *
8328965 AT-CCTTTCATTGAGGGGATTGATTGGTT
1 ATCCCTTCCA-TGAGGGGATCGATTGGTT
8328993 TAAGGGGGTG
Statistics
Matches: 87, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
71 6 0.07
72 19 0.22
73 60 0.69
74 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (72 bp):
ATCCCTTCCATGAGGGGATCGATTGGTTCATGTTTAAGAACCAATTACACCTTTGAAAATGCACA
CCCGATC
Found at i:8333672 original size:26 final size:27
Alignment explanation
Indices: 8333643--8333700 Score: 82
Period size: 26 Copynumber: 2.1 Consensus size: 27
8333633 CACAAATAAT
*
8333643 ATCCAAATATCAAGATCATT-CATGTA
1 ATCCAAATATCAAGAGCATTACATGTA
*
8333669 ATCCTAATATCAAGAGCATTCACATGTA
1 ATCCAAATATCAAGAGCATT-ACATGTA
8333697 ATCC
1 ATCC
8333701 CATAAATTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 18 0.64
28 10 0.36
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (27 bp):
ATCCAAATATCAAGAGCATTACATGTA
Found at i:8336202 original size:59 final size:60
Alignment explanation
Indices: 8336086--8336286 Score: 284
Period size: 59 Copynumber: 3.4 Consensus size: 60
8336076 TGCTTTTATA
** **
8336086 CAAGGAAAATTGATACTTTCAAC-TTTTC-CTTAAAGCATTTTTTAGAAATTTTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAAATATTTTTTAGAAATTTTTATTTT
*
8336144 CAAGGAAAATTGGTACTTTCAACTTTTTCTCAAAAAATATTTTTTAGAAA-TTTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAAATATTTTTTAGAAATTTTTATTTT
* * *
8336203 CAAGGAAAATTAATACTTTCAACTTTTCCTCAAAAAATATATTTTTTGAAATTTTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAAATAT-TTTTTAGAAATTTTTATTTT
8336264 CAAAGG-AAATTGATACTTTCAAC
1 C-AAGGAAAATTGATACTTTCAAC
8336287 AAAATTTTTA
Statistics
Matches: 128, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
58 22 0.17
59 51 0.40
60 25 0.20
61 26 0.20
62 4 0.03
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.44
Consensus pattern (60 bp):
CAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAAATATTTTTTAGAAATTTTTATTTT
Found at i:8336300 original size:61 final size:60
Alignment explanation
Indices: 8336086--8336326 Score: 266
Period size: 59 Copynumber: 4.0 Consensus size: 60
8336076 TGCTTTTATA
* **
8336086 CAAGGAAAATTGATACTTTCAACTTTTCCT--TAAA-GCATTTTTTAGAAATTTTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTT-CTAAAAAATATATTTTTTAGAAATTTTTATTTT
* *
8336144 CAAGGAAAATTGGTACTTTCAACTTTTTCTCAAAAA-ATATTTTTTAGAAA-TTTTATTTT
1 CAAGGAAAATTGATACTTTCAAC-TTTTCTAAAAAATATATTTTTTAGAAATTTTTATTTT
*
8336203 CAAGGAAAATTAATACTTTCAACTTTTCCTCAAAAAATATATTTTTT-GAAATTTTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTT-CT-AAAAAATATATTTTTTAGAAATTTTTATTTT
*
8336264 CAAAGG-AAATTGATACTTTCAACAAAATTTT-TAAAAAATATATATTTTT-TAAATTTTTATTT
1 C-AAGGAAAATTGATACTTTCAAC----TTTTCTAAAAAATATAT-TTTTTAGAAATTTTTATTT
8336326 T
60 T
8336327 TGAAGAGATC
Statistics
Matches: 161, Mismatches: 9, Indels: 21
0.84 0.05 0.11
Matches are distributed among these distances:
58 28 0.17
59 36 0.22
60 24 0.15
61 35 0.22
62 15 0.09
63 19 0.12
65 4 0.02
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.46
Consensus pattern (60 bp):
CAAGGAAAATTGATACTTTCAACTTTTCTAAAAAATATATTTTTTAGAAATTTTTATTTT
Found at i:8336382 original size:22 final size:22
Alignment explanation
Indices: 8336352--8336394 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
8336342 AAATAAAAAA
*
8336352 ATTTTAATTGAATGAATAAATT
1 ATTTCAATTGAATGAATAAATT
*
8336374 ATTTCAATTTAATGAATAAAT
1 ATTTCAATTGAATGAATAAAT
8336395 AAATAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (22 bp):
ATTTCAATTGAATGAATAAATT
Found at i:8336407 original size:14 final size:14
Alignment explanation
Indices: 8336388--8336414 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8336378 CAATTTAATG
8336388 AATAAATAAATAAA
1 AATAAATAAATAAA
8336402 AATAAATAAATAA
1 AATAAATAAATAA
8336415 TAAAACTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (14 bp):
AATAAATAAATAAA
Found at i:8336429 original size:16 final size:17
Alignment explanation
Indices: 8336388--8336439 Score: 63
Period size: 16 Copynumber: 3.1 Consensus size: 17
8336378 CAATTTAATG
8336388 AATAAATAAATAAAAATA
1 AATAAAT-AATAAAAATA
*
8336406 AATAAATAATAAAACT-
1 AATAAATAATAAAAATA
*
8336422 AATGAATAA-AAAAATA
1 AATAAATAATAAAAATA
8336438 AA
1 AA
8336440 AAAAACCTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 5 0.17
16 10 0.33
17 8 0.27
18 7 0.23
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (17 bp):
AATAAATAATAAAAATA
Found at i:8336437 original size:21 final size:20
Alignment explanation
Indices: 8336383--8336440 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 20
8336373 TATTTCAATT
*
8336383 TAATGAATAAATAAAT-AAA
1 TAATGAATAAAAAAATAAAA
* *
8336402 -AATAAAT-AAATAATAAAA
1 TAATGAATAAAAAAATAAAA
8336420 CTAATGAATAAAAAAATAAAA
1 -TAATGAATAAAAAAATAAAA
8336441 AAAACCTTTG
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
17 5 0.17
18 9 0.30
20 6 0.20
21 10 0.33
ACGTcount: A:0.72, C:0.02, G:0.03, T:0.22
Consensus pattern (20 bp):
TAATGAATAAAAAAATAAAA
Found at i:8337654 original size:89 final size:89
Alignment explanation
Indices: 8337483--8337877 Score: 422
Period size: 89 Copynumber: 4.4 Consensus size: 89
8337473 CACCCTAAAG
* * * * * *
8337483 CAGAGGTTC-ACAACTTTTTAGAGAATAAACAAAACTTCTCTAAAT-AGAGGCTCAATGGCTTTT
1 CAGAGGCTCAACAACTTTTGA-AAAATAAACAAAGCTCCTCT-AATCAGAGGCTCAATGACTTTT
* *
8337546 TGAAAAAGAAACGAAGCTCCTCTAAT
64 TGAAAAATAAACAAAGCTCCTCTAAT
* ** * * * * *
8337572 CAGAGGTTCAATGACTTTTTGAAAAATAAATAAAGCTCCTTTAGTCAGAGGCTCAACGAC-TTTG
1 CAGAGGCTCAACAAC-TTTTGAAAAATAAACAAAGCTCCTCTAATCAGAGGCTCAATGACTTTTT
8337636 GAAAAATAAACAAAGCTCCTCTAAT
65 GAAAAATAAACAAAGCTCCTCTAAT
* ** * *
8337661 CAGAGGCTTAACAAC-TACGAAAAAATAAACAAAGCTTCTCTAATCAAAGGCTCAATGACTTTTT
1 CAGAGGCTCAACAACTTTTG-AAAAATAAACAAAGCTCCTCTAATCAGAGGCTCAATGACTTTTT
* *
8337725 GAAAAACAAACAAAGCTCTTCTAAT
65 GAAAAATAAACAAAGCTCCTCTAAT
* * * * *
8337750 CAGAGGCTCAACGACTTTTGAAAAATAAATAAAGCTCCTCTAATCATAGGCTCAATAAC-TTTTA
1 CAGAGGCTCAACAACTTTTGAAAAATAAACAAAGCTCCTCTAATCAGAGGCTCAATGACTTTTTG
* * *
8337814 AAAAATAAATAAAGCTCCTATAAA
66 AAAAATAAACAAAGCTCCTCTAAT
*
8337838 CAGAGGCTCAACAACTTTTAAAAAAATAAACAAAGCTCCT
1 CAGAGGCTCAACAACTTTT-GAAAAATAAACAAAGCTCCT
8337878 TGACAATCAT
Statistics
Matches: 253, Mismatches: 46, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
87 2 0.01
88 74 0.29
89 140 0.55
90 32 0.13
91 5 0.02
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.25
Consensus pattern (89 bp):
CAGAGGCTCAACAACTTTTGAAAAATAAACAAAGCTCCTCTAATCAGAGGCTCAATGACTTTTTG
AAAAATAAACAAAGCTCCTCTAAT
Found at i:8337655 original size:44 final size:45
Alignment explanation
Indices: 8337506--8337877 Score: 396
Period size: 44 Copynumber: 8.4 Consensus size: 45
8337496 CTTTTTAGAG
* * * *
8337506 AATAAACAAAACTTCTCTAAAT-AGAGGCTCAATGGCTTTTTGAAA
1 AATAAACAAAGCTCCTCT-AATCAGAGGCTCAACGACTTTTTGAAA
* * * *
8337551 AAGAAACGAAGCTCCTCTAATCAGAGGTTCAATGACTTTTTGAAA
1 AATAAACAAAGCTCCTCTAATCAGAGGCTCAACGACTTTTTGAAA
* * * *
8337596 AATAAATAAAGCTCCTTTAGTCAGAGGCTCAACGAC-TTTGGAAA
1 AATAAACAAAGCTCCTCTAATCAGAGGCTCAACGACTTTTTGAAA
* * **
8337640 AATAAACAAAGCTCCTCTAATCAGAGGCTTAACAAC--TACGAAAA
1 AATAAACAAAGCTCCTCTAATCAGAGGCTCAACGACTTTTTG-AAA
* * *
8337684 AATAAACAAAGCTTCTCTAATCAAAGGCTCAATGACTTTTTGAAA
1 AATAAACAAAGCTCCTCTAATCAGAGGCTCAACGACTTTTTGAAA
* *
8337729 AACAAACAAAGCTCTTCTAATCAGAGGCTCAACGAC-TTTTGAAA
1 AATAAACAAAGCTCCTCTAATCAGAGGCTCAACGACTTTTTGAAA
* * ** *
8337773 AATAAATAAAGCTCCTCTAATCATAGGCTCAATAAC-TTTTAAAA
1 AATAAACAAAGCTCCTCTAATCAGAGGCTCAACGACTTTTTGAAA
* * * * **
8337817 AATAAATAAAGCTCCTATAAACAGAGGCTCAACAACTTTTAAAAA
1 AATAAACAAAGCTCCTCTAATCAGAGGCTCAACGACTTTTTGAAA
8337862 AATAAACAAAGCTCCT
1 AATAAACAAAGCTCCT
8337878 TGACAATCAT
Statistics
Matches: 276, Mismatches: 46, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
43 2 0.01
44 152 0.55
45 120 0.43
46 2 0.01
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (45 bp):
AATAAACAAAGCTCCTCTAATCAGAGGCTCAACGACTTTTTGAAA
Found at i:8337726 original size:133 final size:134
Alignment explanation
Indices: 8337548--8337878 Score: 441
Period size: 133 Copynumber: 2.5 Consensus size: 134
8337538 TGGCTTTTTG
* * * *
8337548 AAAAAGAAACGAAGCTCCTCTAATCAGAGGTTCAATGACTTTTTGAAAAATAAATAAAGCTCCTT
1 AAAAATAAACAAAGCTCCTCTAATCAGAGGCTCAATGACTTTTTGAAAAATAAACAAAGCTCCTT
* *
8337613 -TAGTCAGAGGCTCAACGACTTTGGAAAAATAAACAAAGCTCCTCTAATCAGAGGCTTAACAACT
66 CTAATCAGAGGCTCAACGACTTTGGAAAAATAAACAAAGCTCCTCTAATCAGAGGCTCAACAACT
8337677 ACGA
131 ACGA
* * *
8337681 AAAAATAAACAAAGCTTCTCTAATCAAAGGCTCAATGACTTTTTGAAAAACAAACAAAGCT-CTT
1 AAAAATAAACAAAGCTCCTCTAATCAGAGGCTCAATGACTTTTTGAAAAATAAACAAAGCTCCTT
* * * *
8337745 CTAATCAGAGGCTCAACGACTTTTGAAAAATAAATAAAGCTCCTCTAATCATAGGCTCAATAACT
66 CTAATCAGAGGCTCAACGACTTTGGAAAAATAAACAAAGCTCCTCTAATCAGAGGCTCAACAACT
***
8337810 TTTA
131 ACGA
* * * ** **
8337814 AAAAATAAATAAAGCTCCTATAAACAGAGGCTCAACAACTTTTAAAAAAATAAACAAAGCTCCTT
1 AAAAATAAACAAAGCTCCTCTAATCAGAGGCTCAATGACTTTTTGAAAAATAAACAAAGCTCCTT
8337879 GACAATCATG
Statistics
Matches: 170, Mismatches: 26, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
132 3 0.02
133 164 0.96
134 3 0.02
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.24
Consensus pattern (134 bp):
AAAAATAAACAAAGCTCCTCTAATCAGAGGCTCAATGACTTTTTGAAAAATAAACAAAGCTCCTT
CTAATCAGAGGCTCAACGACTTTGGAAAAATAAACAAAGCTCCTCTAATCAGAGGCTCAACAACT
ACGA
Found at i:8338870 original size:20 final size:20
Alignment explanation
Indices: 8338847--8338889 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
8338837 TTGAGTCCTC
* *
8338847 TTTTTTCATTTTTTTATTTT
1 TTTTTTCATTTTCTCATTTT
8338867 TTTTTTCATTTTCTCATTTT
1 TTTTTTCATTTTCTCATTTT
8338887 TTT
1 TTT
8338890 CCTTTTGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.81
Consensus pattern (20 bp):
TTTTTTCATTTTCTCATTTT
Found at i:8349471 original size:59 final size:60
Alignment explanation
Indices: 8349346--8349620 Score: 350
Period size: 58 Copynumber: 4.7 Consensus size: 60
8349336 TGCTTCTATA
* ** **
8349346 CAAGGAAAATTGATACTTTCAA-TTTT-TTCTTAAAGCATTTTTTAGAAATTTTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTAGAAATTTTTATTTT
8349404 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTAGAAA-TTTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTAGAAATTTTTATTTT
* * *
8349463 TAAGGAAAATTGATACTTTCAACTTTTCCTC-AAAAATATCTTTTAGAAA-ATTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTAGAAATTTTTATTTT
* *
8349521 CAAGCAAAATTGATACTTTTAACTTTTCCTCAAAAAATAAATTTTTT-GAAATTTTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAAT--ATTTTTTAGAAATTTTTATTTT
* **
8349582 CAA-AAGAAATTGATACTTTCAAC-TTTCCTTTAAAAATAT
1 CAAGGA-AAATTGATACTTTCAACTTTTCCTCAAAAAATAT
8349621 GTATATATTT
Statistics
Matches: 193, Mismatches: 17, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
58 77 0.40
59 49 0.25
60 34 0.18
61 33 0.17
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (60 bp):
CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTAGAAATTTTTATTTT
Found at i:8349553 original size:117 final size:118
Alignment explanation
Indices: 8349346--8349620 Score: 373
Period size: 117 Copynumber: 2.3 Consensus size: 118
8349336 TGCTTCTATA
* * * * *
8349346 CAAGGAAAATTGATACTTTCAATTTTTTCTTAAAGCAT-TTTTTAGAAATTTTTATTTTCAAGGA
1 CAAGGAAAATTGATACTTTCAACTTTTCCTTAAA-AATATTTTTAGAAATATTTATTTTCAAGCA
8349410 AAATTGATACTTTCAACTTTTCCTCAAAAAAT-ATTTTTTAGAAA-TTTTATTTT
65 AAATTGATACTTTCAACTTTTCCTCAAAAAATAATTTTTT-GAAATTTTTATTTT
* *
8349463 TAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATCTTTTAGAAA-ATTTATTTTCAAGCA
1 CAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATAT-TTTTAGAAATATTTATTTTCAAGCA
*
8349527 AAATTGATACTTTTAACTTTTCCTCAAAAAATAAATTTTTTGAAATTTTTATTTT
65 AAATTGATACTTTCAACTTTTCCTCAAAAAAT-AATTTTTTGAAATTTTTATTTT
*
8349582 CAA-AAGAAATTGATACTTTCAAC-TTTCCTTTAAAAATAT
1 CAAGGA-AAATTGATACTTTCAACTTTTCC-TTAAAAATAT
8349621 GTATATATTT
Statistics
Matches: 140, Mismatches: 11, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
116 2 0.01
117 75 0.54
118 19 0.14
119 44 0.31
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (118 bp):
CAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTAGAAATATTTATTTTCAAGCAA
AATTGATACTTTCAACTTTTCCTCAAAAAATAATTTTTTGAAATTTTTATTTT
Found at i:8350847 original size:72 final size:72
Alignment explanation
Indices: 8350719--8350883 Score: 215
Period size: 72 Copynumber: 2.3 Consensus size: 72
8350709 CCTAGACCTG
* ** * *
8350719 ATCGATCCCTTCCATGAGGGGATCGATTGGTTTATGTTTAGGTGCCATTTATGCCTTTGAAAAT-
1 ATCGATCCCTTCCATGA-GGGATCGATTGGTTCATGTTTAGGAACCAATTACGCCTTTGAAAATG
8350783 CATGACCCA
65 CAT-ACCCA
* *
8350792 ATCGATCCTTTCCATGAGGGATCGATTGGTTCATGTTTTGGAACCAATTACGCCTTTGAAAATGC
1 ATCGATCCCTTCCATGAGGGATCGATTGGTTCATGTTTAGGAACCAATTACGCCTTTGAAAATGC
*
8350857 CTACCCA
66 ATACCCA
* *
8350864 ATCAATCCCTTCCTTGAGGG
1 ATCGATCCCTTCCATGAGGG
8350884 GATTGATCAG
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
72 62 0.77
73 18 0.22
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.33
Consensus pattern (72 bp):
ATCGATCCCTTCCATGAGGGATCGATTGGTTCATGTTTAGGAACCAATTACGCCTTTGAAAATGC
ATACCCA
Found at i:8353498 original size:19 final size:19
Alignment explanation
Indices: 8353474--8353512 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
8353464 AATGGTTCAA
*
8353474 GTTGGTTAAAAATGAGCTT
1 GTTGGTTAAAAATAAGCTT
8353493 GTTGGTTAAAAATAAGCTT
1 GTTGGTTAAAAATAAGCTT
8353512 G
1 G
8353513 ACTAGTTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.36
Consensus pattern (19 bp):
GTTGGTTAAAAATAAGCTT
Found at i:8357359 original size:20 final size:21
Alignment explanation
Indices: 8357323--8357374 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
8357313 CCCGAAATTA
8357323 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTA-TTTTTAAAAT
*
8357345 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTAAAAT
8357366 AT-AAATATT
1 ATAAAATATT
8357375 TAAAAATATC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 7 0.24
21 11 0.38
22 11 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAAAATATTATTTTTAAAAT
Found at i:8357365 original size:21 final size:22
Alignment explanation
Indices: 8357323--8357374 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
8357313 CCCGAAATTA
8357323 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
8357345 ATAAAATATTATTTTTT-AAAT
1 ATAAAATATTATTTTTTAAAAT
8357366 AT-AAATATT
1 ATAAAATATT
8357375 TAAAAATATC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 7 0.23
21 6 0.20
22 17 0.57
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:8357409 original size:30 final size:30
Alignment explanation
Indices: 8357341--8357410 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
8357331 TTATTTTTTA
* * *
8357341 AAATATAAAATATTATTTTTTAAATATAAAT
1 AAATA-AAAATATCATTATATAAATATAAAT
** *
8357372 ATTTAAAAATATCATTATATAAATATATAT
1 AAATAAAAATATCATTATATAAATATAAAT
8357402 AAATAAAAA
1 AAATAAAAA
8357411 ATTAAAAAAT
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
30 28 0.90
31 3 0.10
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (30 bp):
AAATAAAAATATCATTATATAAATATAAAT
Found at i:8358067 original size:21 final size:22
Alignment explanation
Indices: 8358023--8358068 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
8358013 TTTAAATTTT
* **
8358023 TTTTAATATATTATTTTTGTTA
1 TTTTAATATATTATTCTTAATA
8358045 TTTTAAT-TATTATTCTTAATA
1 TTTTAATATATTATTCTTAATA
8358066 TTT
1 TTT
8358069 ATGCATGTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTTAATATATTATTCTTAATA
Found at i:8358125 original size:7 final size:7
Alignment explanation
Indices: 8358111--8358147 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
8358101 GTTGTTTTAT
8358111 AATAATA
1 AATAATA
*
8358118 ACTAATA
1 AATAATA
8358125 AATAATA
1 AATAATA
8358132 AATAATA
1 AATAATA
8358139 AATAATA
1 AATAATA
8358146 AA
1 AA
8358148 ATATAATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (7 bp):
AATAATA
Found at i:8358645 original size:203 final size:199
Alignment explanation
Indices: 8358238--8358645 Score: 470
Period size: 203 Copynumber: 2.0 Consensus size: 199
8358228 AAAATTGATA
* * *
8358238 AAAAATAAGAAAAGAAAAATTTTATCCAATGATGGGATTCAAAAGTATTCTGAGTAGTGATGCCT
1 AAAAATAAGAAAAAAAAAATTTTATCCAATGATAGGATTCAAAAGTATTCCGAGTAGTGATGCCT
* *
8358303 ATGAAATCTCTATGTGAGAAAAGTTTTTTAAATACTACTAGTGTATTGAAGTATTTATAAAAATT
66 ACGAAATCTCTAGGTGAG-AAAGTTTTTTAAATACTACTAGTGTATTGAAGTATTTATAAAAATT
* * * * * * * *
8358368 TTTCAATATAATAAAATTTTTCTTTTTGTTCATAATAACTAAAATTAATTAATAAATTAAGAATA
130 CTTCAATATAATAAAA-TTTCCTTTTTCTTCAAAATAACTAAAATTAAATAAAAAAATAAGAAAA
*
8358433 AGTAAT
194 AATAAT
8358439 AAAAATAAGAAAAAAAGAAATTTTATCCAATGATAGGATTCTAAAAGTATTCCGAGTAGTGATGC
1 AAAAATAAGAAAAAAA-AAATTTTATCCAATGATAGGATTC-AAAAGTATTCCGAGTAGTGATGC
* * *
8358504 TTTACGAAATC-CTTAGGTGAG-AAGTTTTTTTAAATATTATTAGTGTATTGGAA-TATTTATAG
64 -CTACGAAATCTC-TAGGTGAGAAAG-TTTTTTAAATACTACTAGTGTATT-GAAGTATTTATA-
* *
8358566 AAAA-TCTTCAATATAATAAAA-TTCCTTTTTCTTCAAAATTA-T-AATTTAAAAATAAAAAAAT
124 AAAATTCTTCAATATAATAAAATTTCCTTTTTCTTCAAAATAACTAAAATT--AAATAAAAAAAT
*
8358627 AATAAAACAATAAAT
187 AAGAAAA-AAT-AAT
8358642 AAAA
1 AAAA
8358646 TTTTTGAAAA
Statistics
Matches: 176, Mismatches: 20, Indels: 20
0.81 0.09 0.09
Matches are distributed among these distances:
199 4 0.02
200 1 0.01
201 45 0.26
202 28 0.16
203 76 0.43
204 22 0.12
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.36
Consensus pattern (199 bp):
AAAAATAAGAAAAAAAAAATTTTATCCAATGATAGGATTCAAAAGTATTCCGAGTAGTGATGCCT
ACGAAATCTCTAGGTGAGAAAGTTTTTTAAATACTACTAGTGTATTGAAGTATTTATAAAAATTC
TTCAATATAATAAAATTTCCTTTTTCTTCAAAATAACTAAAATTAAATAAAAAAATAAGAAAAAA
TAAT
Found at i:8367408 original size:6 final size:6
Alignment explanation
Indices: 8367397--8367469 Score: 60
Period size: 6 Copynumber: 11.7 Consensus size: 6
8367387 GTTTAATATT
* * *
8367397 TTTTTA TTTTTA TTTTTA TTTTACTT TTCTTTA TTTTTA TTTTCA CTTTTA
1 TTTTTA TTTTTA TTTTTA TTTT--TA TT-TTTA TTTTTA TTTTTA TTTTTA
8367448 -TTTTA -TTTTA TTATTTTA TTTT
1 TTTTTA TTTTTA -T-TTTTA TTTT
8367470 CTTTAAATAA
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
5 10 0.18
6 32 0.57
7 4 0.07
8 8 0.14
9 2 0.04
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:8367412 original size:5 final size:5
Alignment explanation
Indices: 8367398--8367469 Score: 60
Period size: 5 Copynumber: 13.8 Consensus size: 5
8367388 TTTAATATTT
*
8367398 TTTTA TTTTTA TTTTTA TTTTA CTTTT- CTTTA TTTTTA TTTTCA CTTTTA
1 TTTTA -TTTTA -TTTTA TTTTA -TTTTA TTTTA -TTTTA TTTT-A -TTTTA
8367448 TTTTA TTTTA --TTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTT
8367470 CTTTAAATAA
Statistics
Matches: 57, Mismatches: 2, Indels: 15
0.77 0.03 0.20
Matches are distributed among these distances:
3 3 0.05
4 3 0.05
5 26 0.46
6 21 0.37
7 4 0.07
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:8367418 original size:17 final size:17
Alignment explanation
Indices: 8367398--8367469 Score: 67
Period size: 17 Copynumber: 4.2 Consensus size: 17
8367388 TTTAATATTT
8367398 TTTTATTTTTATTTTTA
1 TTTTATTTTTATTTTTA
* * *
8367415 TTTTACTTTTCTTTAT-
1 TTTTATTTTTATTTTTA
* *
8367431 TTTTATTTTCACTTTTA
1 TTTTATTTTTATTTTTA
8367448 TTTTA-TTTTATTATTTTA
1 TTTTATTTTTA-T-TTTTA
8367466 TTTT
1 TTTT
8367470 CTTTAAATAA
Statistics
Matches: 42, Mismatches: 10, Indels: 5
0.74 0.18 0.09
Matches are distributed among these distances:
16 15 0.36
17 18 0.43
18 9 0.21
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTATTTTTATTTTTA
Found at i:8367439 original size:33 final size:31
Alignment explanation
Indices: 8367393--8367470 Score: 97
Period size: 33 Copynumber: 2.5 Consensus size: 31
8367383 ATTTGTTTAA
* *
8367393 TATT-TTTTTATTTTTATTTTTATTTTACTTT
1 TATTATTTTTATTTTCACTTTTATTTTA-TTT
*
8367424 TCTTTATTTTTATTTTCACTTTTATTTTATTT
1 T-ATTATTTTTATTTTCACTTTTATTTTATTT
8367456 TATTA-TTTTATTTTC
1 TATTATTTTTATTTTC
8367471 TTTAAATAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
30 10 0.24
31 4 0.10
32 6 0.15
33 21 0.51
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (31 bp):
TATTATTTTTATTTTCACTTTTATTTTATTT
Found at i:8367444 original size:22 final size:21
Alignment explanation
Indices: 8367405--8367474 Score: 88
Period size: 21 Copynumber: 3.2 Consensus size: 21
8367395 TTTTTTTATT
8367405 TTTATTTTTATTTTACTTTTC
1 TTTATTTTTATTTTACTTTTC
*
8367426 TTTATTTTTATTTTCACTTTTAT
1 TTTATTTTTATTTT-ACTTTT-C
8367449 TTTATTTTATTATTTTA-TTTTC
1 TTTA-TTT-TTATTTTACTTTTC
8367471 TTTA
1 TTTA
8367475 AATAAAATCA
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
21 14 0.33
22 10 0.23
23 8 0.19
24 4 0.09
25 7 0.16
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTATTTTTATTTTACTTTTC
Found at i:8367461 original size:13 final size:13
Alignment explanation
Indices: 8367445--8367469 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8367435 ATTTTCACTT
8367445 TTATTTTATTTTA
1 TTATTTTATTTTA
8367458 TTATTTTATTTT
1 TTATTTTATTTT
8367470 CTTTAAATAA
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:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTATTTTATTTTA
Found at i:8367474 original size:17 final size:17
Alignment explanation
Indices: 8367393--8367474 Score: 54
Period size: 17 Copynumber: 5.1 Consensus size: 17
8367383 ATTTGTTTAA
*
8367393 TATTTTTTTATTTT-TAT
1 TATTATTTTATTTTCT-T
*
8367410 TTTTATTTTACTTTTCTT
1 TATTATTTTA-TTTTCTT
*
8367428 TA-T-TTTTATTTTCACT
1 TATTATTTTATTTTC-TT
8367444 T-TTATTTTA---T-TT
1 TATTATTTTATTTTCTT
8367456 TATTATTTTATTTTCTT
1 TATTATTTTATTTTCTT
8367473 TA
1 TA
8367475 AATAAAATCA
Statistics
Matches: 50, Mismatches: 5, Indels: 20
0.67 0.07 0.27
Matches are distributed among these distances:
12 2 0.04
13 8 0.16
14 1 0.02
15 5 0.10
16 9 0.18
17 18 0.36
18 6 0.12
19 1 0.02
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (17 bp):
TATTATTTTATTTTCTT
Found at i:8367538 original size:59 final size:59
Alignment explanation
Indices: 8367486--8367950 Score: 409
Period size: 59 Copynumber: 7.7 Consensus size: 59
8367476 ATAAAATCAA
* * **
8367486 AAAAAAAATATTTTTGGGGAAAAGTTTAAAGTATCAATTTTCCTTGAAAATAAGCTTTC
1 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC
* * * * * *
8367545 CAAAACAATATTTTTAGGGAAAAGTTGAAAGTCTCAATTTTTCTTAAAAATAAATTTTC
1 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC
* * *
8367604 AAAAAAAA-AGTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTATCAATTTTCCTTAAAAATA
1 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTA--AA--------AATAA-A
* *
8367668 AATTT
55 ATTTC
** * * * *
8367673 TCAAAAAA-AGGTTTTGAGGAAAAGTTGAAAGTAGCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAAAATA-TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC
* * * *
8367732 AAAAAAAAAAGGTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAAAATA-TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC
** * * * ** * *
8367792 AAAAAAGGTTTTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTTC
1 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-ATTTC
* * ** *
8367852 -AAAAAAATATTTTTGGAGAAAAGTTGGAAGTATCAATTTTCCTCGAAATTAAAATTTC
1 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC
*
8367910 -TAAAAAATA-TTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
8367951 CTACAAAAGC
Statistics
Matches: 342, Mismatches: 50, Indels: 30
0.81 0.12 0.07
Matches are distributed among these distances:
57 30 0.09
58 44 0.13
59 150 0.44
60 67 0.20
68 6 0.02
69 10 0.03
70 35 0.10
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.35
Consensus pattern (59 bp):
AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC
Found at i:8367634 original size:58 final size:58
Alignment explanation
Indices: 8367486--8367648 Score: 193
Period size: 58 Copynumber: 2.8 Consensus size: 58
8367476 ATAAAATCAA
* * * *
8367486 AAAAAAAATATTTTTGGGGAAAAGTTTAAAGTATCAATTTTCCTTGAAAATAAGCTTTCC
1 AAAAAAAA-A-TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGATTTCC
* * * * * *
8367546 AAAACAATATTTTTAGGGAAAAGTTGAAAGTCTCAATTTTTCTTAAAAATAA-ATTTTC
1 AAAAAAAAATTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGATTTCC
8367604 AAAAAAAAAGTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTA
1 AAAAAAAAA-TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTA
8367649 TCAATTTTCC
Statistics
Matches: 86, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
58 42 0.49
59 38 0.44
60 6 0.07
ACGTcount: A:0.44, C:0.09, G:0.13, T:0.35
Consensus pattern (58 bp):
AAAAAAAAATTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGATTTCC
Found at i:8367652 original size:13 final size:13
Alignment explanation
Indices: 8367634--8367661 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
8367624 AAGTTGAAAG
8367634 TATCAATTTTCCT
1 TATCAATTTTCCT
8367647 TATCAATTTTCCT
1 TATCAATTTTCCT
8367660 TA
1 TA
8367662 AAAATAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.21, G:0.00, T:0.54
Consensus pattern (13 bp):
TATCAATTTTCCT
Found at i:8367696 original size:70 final size:71
Alignment explanation
Indices: 8367578--8367718 Score: 248
Period size: 70 Copynumber: 2.0 Consensus size: 71
8367568 GTTGAAAGTC
* *
8367578 TCAATTTTTCTTAAAAATAAATTTTCAAAAAAAAAGTTTTGAGGAAAAGTTGAAAGTATCAATTT
1 TCAATTTTCCTTAAAAATAAATTTTCAAAAAAAAAGTTTTGAGGAAAAGTTGAAAGTAGCAATTT
8367643 TCCTTA
66 TCCTTA
*
8367649 TCAATTTTCCTTAAAAATAAATTTTC-AAAAAAAGGTTTTGAGGAAAAGTTGAAAGTAGCAATTT
1 TCAATTTTCCTTAAAAATAAATTTTCAAAAAAAAAGTTTTGAGGAAAAGTTGAAAGTAGCAATTT
8367713 TCCTTA
66 TCCTTA
8367719 AAAATAAATT
Statistics
Matches: 67, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
70 42 0.63
71 25 0.37
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.37
Consensus pattern (71 bp):
TCAATTTTCCTTAAAAATAAATTTTCAAAAAAAAAGTTTTGAGGAAAAGTTGAAAGTAGCAATTT
TCCTTA
Found at i:8367712 original size:128 final size:132
Alignment explanation
Indices: 8367517--8367778 Score: 406
Period size: 130 Copynumber: 2.0 Consensus size: 132
8367507 AAGTTTAAAG
* * * * * **
8367517 TATCAATTTTCCTTGAAAATAAGCTTTCCAAAACAATATTTTTAGGGAAAAGTTGAAAGTCTCAA
1 TATCAATTTTCCTTAAAAATAAGATTTCCAAAAAAAGATTTTGAGGGAAAAGTTGAAAGTAGCAA
*
8367582 TTTTTCTTAAAAATAAATTTTC-AAAAAAAAA-GTTTTGAGGAAAAGTTGAAAGTATCAATTTTC
66 TTTTCCTTAAAAATAAATTTTCAAAAAAAAAAGGTTTTGAGGAAAAGTTGAAAGTATCAATTTTC
8367645 CT
131 CT
* *
8367647 TATCAATTTTCCTTAAAAATAA-ATTTTCAAAAAAAGGTTTTGA-GGAAAAGTTGAAAGTAGCAA
1 TATCAATTTTCCTTAAAAATAAGATTTCCAAAAAAAGATTTTGAGGGAAAAGTTGAAAGTAGCAA
8367710 TTTTCCTTAAAAATAAATTTTCAAAAAAAAAAGGTTTTGAGGAAAAGTTGAAAGTATCAATTTTC
66 TTTTCCTTAAAAATAAATTTTCAAAAAAAAAAGGTTTTGAGGAAAAGTTGAAAGTATCAATTTTC
8367775 CT
131 CT
8367777 TA
1 TA
8367779 AAAATAAATT
Statistics
Matches: 120, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
128 39 0.32
129 24 0.20
130 57 0.47
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (132 bp):
TATCAATTTTCCTTAAAAATAAGATTTCCAAAAAAAGATTTTGAGGGAAAAGTTGAAAGTAGCAA
TTTTCCTTAAAAATAAATTTTCAAAAAAAAAAGGTTTTGAGGAAAAGTTGAAAGTATCAATTTTC
CT
Found at i:8383285 original size:193 final size:193
Alignment explanation
Indices: 8382956--8383344 Score: 742
Period size: 193 Copynumber: 2.0 Consensus size: 193
8382946 TGAGATTACT
*
8382956 TGATAGTGCATAATATCTCATGTGGATCGTGCATAATAACCTATGTTGATAAGAAATCTTTGAAT
1 TGATAGTGCATAATATCTCATGTGGATCGTGCATAATAACCTATGTTGATAAAAAATCTTTGAAT
*
8383021 TTAGATAATAAAATGGATGAAATTACTTGATAGAATATGATAGCTCATGTTGAAAACCACATGTG
66 TTAGATAATAAAATGGATGAAATTACTTGATAGAATATGATAGCTCATGTTGAAAACCACAAGTG
8383086 TTGAAGAGTTAAAAAAAGTAAGAAGATAAAATTTACCACAATTGAAAAGATAAATGAATTGCA
131 TTGAAGAGTTAAAAAAAGTAAGAAGATAAAATTTACCACAATTGAAAAGATAAATGAATTGCA
*
8383149 TGATAGTGCATAATATTTCATGTGGATCGTGCATAATAACCTATGTTGATAAAAAATCTTTGAAT
1 TGATAGTGCATAATATCTCATGTGGATCGTGCATAATAACCTATGTTGATAAAAAATCTTTGAAT
*
8383214 TTAGATAATAAAATGGATGAAATTACTTGATAGAATATGATAGCTCATGTTGACAACCACAAGTG
66 TTAGATAATAAAATGGATGAAATTACTTGATAGAATATGATAGCTCATGTTGAAAACCACAAGTG
8383279 TTGAAGAGTTAAAAAAAGTAAGAAGATAAAATTTACCACAATTGAAAAGATAAATGAATTGCA
131 TTGAAGAGTTAAAAAAAGTAAGAAGATAAAATTTACCACAATTGAAAAGATAAATGAATTGCA
8383342 TGA
1 TGA
8383345 CATTCATTGT
Statistics
Matches: 192, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
193 192 1.00
ACGTcount: A:0.43, C:0.09, G:0.17, T:0.30
Consensus pattern (193 bp):
TGATAGTGCATAATATCTCATGTGGATCGTGCATAATAACCTATGTTGATAAAAAATCTTTGAAT
TTAGATAATAAAATGGATGAAATTACTTGATAGAATATGATAGCTCATGTTGAAAACCACAAGTG
TTGAAGAGTTAAAAAAAGTAAGAAGATAAAATTTACCACAATTGAAAAGATAAATGAATTGCA
Found at i:8386592 original size:10 final size:11
Alignment explanation
Indices: 8386572--8386596 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
8386562 ATAAACAAGG
8386572 AAAAAGAAAAA
1 AAAAAGAAAAA
8386583 AAAAAGAAAAA
1 AAAAAGAAAAA
8386594 AAA
1 AAA
8386597 TCTTAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:8387324 original size:38 final size:38
Alignment explanation
Indices: 8387251--8387324 Score: 87
Period size: 38 Copynumber: 1.9 Consensus size: 38
8387241 AAATTCATTA
* ** **
8387251 AATCTTCCAATAGTTTGGTAAGATTTAATTTAAAATGC
1 AATCCTCCAATAGTTTGGTAAGATAAAATACAAAATGC
8387289 AATCCTCCAATAGTTTGGT-AGAATAAAATACAAAAT
1 AATCCTCCAATAGTTTGGTAAG-ATAAAATACAAAAT
8387325 ACTTTGTTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
37 2 0.07
38 28 0.93
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.34
Consensus pattern (38 bp):
AATCCTCCAATAGTTTGGTAAGATAAAATACAAAATGC
Found at i:8387598 original size:38 final size:36
Alignment explanation
Indices: 8387556--8387633 Score: 93
Period size: 38 Copynumber: 2.1 Consensus size: 36
8387546 AAAAATTAGT
*
8387556 AAAATAAAATAAATAAATAAATAAAAACTTAAAAAATA
1 AAAATAAAATAAATAAA-AAATAAAAA-TTAAAAAAAA
*** *
8387594 AAAATGGCATAAATAAAAATTAAAAATTAAAAAAAA
1 AAAATAAAATAAATAAAAAATAAAAATTAAAAAAAA
8387630 AAAA
1 AAAA
8387634 AACATGCGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
36 13 0.37
37 8 0.23
38 14 0.40
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.19
Consensus pattern (36 bp):
AAAATAAAATAAATAAAAAATAAAAATTAAAAAAAA
Found at i:8388084 original size:24 final size:22
Alignment explanation
Indices: 8388057--8388139 Score: 76
Period size: 23 Copynumber: 3.5 Consensus size: 22
8388047 AAATCCATAA
8388057 ATATTTCCTCTTAAAAATTAACTC
1 ATATTT-CTC-TAAAAATTAACTC
* * *
8388081 ATATTTTCTCCATAAATTCACTC
1 ATA-TTTCTCTAAAAATTAACTC
*
8388104 ATCCTTTCTCTAAAAATTAACTC
1 AT-ATTTCTCTAAAAATTAACTC
8388127 ATAAATTTCTCTA
1 AT--ATTTCTCTA
8388140 CAATATTGTG
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
23 30 0.64
24 14 0.30
25 3 0.06
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (22 bp):
ATATTTCTCTAAAAATTAACTC
Found at i:8388103 original size:23 final size:23
Alignment explanation
Indices: 8388069--8388129 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
8388059 ATTTCCTCTT
*
8388069 AAAAATTAACTCATATTTTCTCC
1 AAAAATTAACTCATACTTTCTCC
* * * *
8388092 ATAAATTCACTCATCCTTTCTCT
1 AAAAATTAACTCATACTTTCTCC
8388115 AAAAATTAACTCATA
1 AAAAATTAACTCATA
8388130 AATTTCTCTA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.38
Consensus pattern (23 bp):
AAAAATTAACTCATACTTTCTCC
Found at i:8388360 original size:3 final size:3
Alignment explanation
Indices: 8388352--8388406 Score: 58
Period size: 3 Copynumber: 18.0 Consensus size: 3
8388342 GGAAAGAAAC
* * *
8388352 ATA ATA ATA ATA ATA ATA GTA GCATT ATC A-A ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA --ATA ATA ATA ATA ATA ATA ATA ATA
8388398 ATA ATA ATA
1 ATA ATA ATA
8388407 CACCAGTTGA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
2 1 0.02
3 42 0.95
5 1 0.02
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:8393114 original size:23 final size:22
Alignment explanation
Indices: 8393080--8393147 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 22
8393070 TTATTAAATA
8393080 TAAAATTAAATCAATTTAATTT
1 TAAAATTAAATCAATTTAATTT
* *
8393102 TGATAATTCAATC-ATGTTAAATTT
1 T-AAAATTAAATCAAT-TT-AATTT
8393126 TAAAATTAAATCAATTTAATTT
1 TAAAATTAAATCAATTTAATTT
8393148 CAATCTTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
22 8 0.21
23 22 0.58
24 8 0.21
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.46
Consensus pattern (22 bp):
TAAAATTAAATCAATTTAATTT
Found at i:8393150 original size:38 final size:39
Alignment explanation
Indices: 8393106--8393201 Score: 98
Period size: 37 Copynumber: 2.6 Consensus size: 39
8393096 TAATTTTGAT
*
8393106 AATTCAATCATGTTAAATTTTAAAATTAAATC-AATTTA
1 AATTCAATCATGTTAAATTTTAAAATTAAAACTAATTTA
* *
8393144 ATTTCAATC-T-TT-ATTTGTTAAAATTAAAACTAATTTA
1 AATTCAATCATGTTAAATT-TTAAAATTAAAACTAATTTA
8393181 AATTCGAAT-ATG--AAATTTTAA
1 AATTC-AATCATGTTAAATTTTAA
8393202 GTTTACACTT
Statistics
Matches: 47, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
35 3 0.06
36 14 0.30
37 15 0.32
38 15 0.32
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (39 bp):
AATTCAATCATGTTAAATTTTAAAATTAAAACTAATTTA
Found at i:8394371 original size:14 final size:14
Alignment explanation
Indices: 8394348--8394383 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
8394338 TGTCATGACT
*
8394348 TAAAGCAATTTTAA
1 TAAAGTAATTTTAA
8394362 TAAAGTAATTTTAA
1 TAAAGTAATTTTAA
8394376 TAAAGTAA
1 TAAAGTAA
8394384 AACTAAGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.36
Consensus pattern (14 bp):
TAAAGTAATTTTAA
Found at i:8404786 original size:19 final size:18
Alignment explanation
Indices: 8404734--8404788 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
8404724 AACATTTAAA
*
8404734 TAAAAAATTCAAAAAAAT
1 TAAAAAATTCAGAAAAAT
*
8404752 TAAAAAATAT-ATGAAAAGT
1 TAAAAAAT-TCA-GAAAAAT
8404771 TAAAAACATTCAGAAAAA
1 TAAAAA-ATTCAGAAAAA
8404789 AATCTATAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
18 9 0.30
19 18 0.60
20 3 0.10
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.22
Consensus pattern (18 bp):
TAAAAAATTCAGAAAAAT
Found at i:8404839 original size:15 final size:15
Alignment explanation
Indices: 8404804--8404839 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
8404794 ATAAAATTCC
8404804 GAAAAAAAAGAAAAA
1 GAAAAAAAAGAAAAA
**
8404819 TTAAAAAAAGAAAAA
1 GAAAAAAAAGAAAAA
8404834 GAAAAA
1 GAAAAA
8404840 GAATCTAAAA
Statistics
Matches: 17, Mismatches: 4, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.06
Consensus pattern (15 bp):
GAAAAAAAAGAAAAA
Found at i:8404856 original size:25 final size:24
Alignment explanation
Indices: 8404782--8404858 Score: 75
Period size: 25 Copynumber: 3.0 Consensus size: 24
8404772 AAAAACATTC
8404782 AGAAAAAAATCTATAAAATTCCGAAAA
1 AGAAAAAAATCTA-AAAATT--GAAAA
* **
8404809 AAAAGAAAAAT-TAAAAAAAGAAAA
1 AGAA-AAAAATCTAAAAATTGAAAA
8404833 AGAAAAAGAATCTAAAAATTGAAAA
1 AGAAAAA-AATCTAAAAATTGAAAA
8404858 A
1 A
8404859 ATTTAAAATT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
23 3 0.07
24 11 0.27
25 12 0.29
26 4 0.10
27 5 0.12
28 6 0.15
ACGTcount: A:0.71, C:0.05, G:0.09, T:0.14
Consensus pattern (24 bp):
AGAAAAAAATCTAAAAATTGAAAA
Found at i:8405321 original size:22 final size:22
Alignment explanation
Indices: 8405296--8405339 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
8405286 CTAAATCTTC
*
8405296 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAAGGATACAAATA
8405318 CTTAATTCTAAGGATACAAATA
1 CTTAATTCTAAGGATACAAATA
8405340 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:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAAGGATACAAATA
Found at i:8409235 original size:22 final size:22
Alignment explanation
Indices: 8409207--8409250 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
8409197 CTAAATCTTC
*
8409207 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
8409229 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
8409251 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:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:8415049 original size:190 final size:187
Alignment explanation
Indices: 8414723--8415108 Score: 661
Period size: 190 Copynumber: 2.1 Consensus size: 187
8414713 TTGAATTTTG
*
8414723 AATTA-AT-TAGAGAATTATCATGTTAACCCTTATTTTAATTCTGTTAATCAATCAACATATATA
1 AATTATATATAGAGAATTATCATGTTAACCCTTATTTTAATTCCGTTAATCAATCAACATATATA
8414786 TATATATGGTGTTTGATAAATATTATTAAATTATTTGTATACTGCACATATTATCAATATCTTTT
66 TATATATGGTGTTTGATAAATATTATTAAATTATTTGTATACTGCACATATTATCAATATCTTTT
*
8414851 TCAATATAAATAAA-AATTTTTTTTTACCTGAATCGTAAAAATTTCTAAAATCGATC
131 TCAATATAAATAAACAAATTTTTTTTACCTGAATCGTAAAAATTTCTAAAATCGATC
8414907 AATTATATATAGAGAATTATCATGTTAACCCTTATTTTAATTCCGTTAATCAATCAACATATATA
1 AATTATATATAGAGAATTATCATGTTAACCCTTATTTTAATTCCGTTAATCAATCAAC----ATA
* *
8414972 TATATATATATGGTGTTTGATAAATATTATTAAATTATTTGTTTACTGTACATATTATCAATATC
62 TATATATATATGGTGTTTGATAAATATTATTAAATTATTTGTATACTGCACATATTATCAATATC
*
8415037 TTTTTCAATATAAATAAACAAATTTTTTTTACCTGAATCGTAAAAATTTCTAAAATCGGTC
127 TTTTTCAATATAAATAAACAAATTTTTTTTACCTGAATCGTAAAAATTTCTAAAATCGATC
8415098 AATTATTATAT
1 AATTA-TATAT
8415109 TTCATGTGAC
Statistics
Matches: 189, Mismatches: 5, Indels: 8
0.94 0.02 0.04
Matches are distributed among these distances:
184 5 0.03
185 2 0.01
186 48 0.25
190 84 0.44
191 45 0.24
192 5 0.03
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.44
Consensus pattern (187 bp):
AATTATATATAGAGAATTATCATGTTAACCCTTATTTTAATTCCGTTAATCAATCAACATATATA
TATATATGGTGTTTGATAAATATTATTAAATTATTTGTATACTGCACATATTATCAATATCTTTT
TCAATATAAATAAACAAATTTTTTTTACCTGAATCGTAAAAATTTCTAAAATCGATC
Found at i:8420955 original size:3 final size:3
Alignment explanation
Indices: 8420947--8420994 Score: 53
Period size: 3 Copynumber: 15.7 Consensus size: 3
8420937 TACATCCATA
* *
8420947 AAT AAT AAT AAT AAT AAT AAT AATT AA- AAT AAC AAA AAT AAT ATAT
1 AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT A-AT
8420993 AA
1 AA
8420995 AAAAATTCAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
2 2 0.05
3 31 0.79
4 6 0.15
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:8421009 original size:11 final size:12
Alignment explanation
Indices: 8420993--8421019 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
8420983 AATAATATAT
8420993 AAAAAAATTCAA
1 AAAAAAATTCAA
8421005 AAAAAAATTCAA
1 AAAAAAATTCAA
8421017 AAA
1 AAA
8421020 TTTTTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAAAAATTCAA
Found at i:8421896 original size:19 final size:19
Alignment explanation
Indices: 8421872--8421915 Score: 72
Period size: 19 Copynumber: 2.3 Consensus size: 19
8421862 TAAACCGGAT
8421872 AAGAAAAAAGAGAAAGA-AA
1 AAGAAAAAA-AGAAAGATAA
8421891 AAGAAAAAAAGAAAGATAA
1 AAGAAAAAAAGAAAGATAA
8421910 AAGAAA
1 AAGAAA
8421916 GAAACAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (19 bp):
AAGAAAAAAAGAAAGATAA
Found at i:8421903 original size:18 final size:18
Alignment explanation
Indices: 8421872--8421928 Score: 71
Period size: 19 Copynumber: 3.1 Consensus size: 18
8421862 TAAACCGGAT
8421872 AAGAAAAAAGAGAAAGAAA
1 AAGAAAAAA-AGAAAGAAA
8421891 AAGAAAAAAAGAAAGATAA
1 AAGAAAAAAAGAAAGA-AA
* *
8421910 AAGAAAGAAACAAA-AAA
1 AAGAAAAAAAGAAAGAAA
8421927 AA
1 AA
8421929 AATAATAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 4 0.11
18 8 0.23
19 23 0.66
ACGTcount: A:0.81, C:0.02, G:0.16, T:0.02
Consensus pattern (18 bp):
AAGAAAAAAAGAAAGAAA
Found at i:8421913 original size:11 final size:10
Alignment explanation
Indices: 8421872--8421919 Score: 57
Period size: 11 Copynumber: 5.0 Consensus size: 10
8421862 TAAACCGGAT
8421872 AAGAAA-AAA
1 AAGAAAGAAA
*
8421881 GAGAAAGAAA
1 AAGAAAGAAA
8421891 AAG-AA-AAA
1 AAGAAAGAAA
8421899 AAGAAAGATAA
1 AAGAAAGA-AA
8421910 AAGAAAGAAA
1 AAGAAAGAAA
8421920 CAAAAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
8 6 0.18
9 9 0.27
10 8 0.24
11 10 0.30
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (10 bp):
AAGAAAGAAA
Found at i:8422444 original size:48 final size:48
Alignment explanation
Indices: 8422134--8422756 Score: 584
Period size: 49 Copynumber: 12.8 Consensus size: 48
8422124 TCAAAAATTT
* * *
8422134 AAAAAGCTCCTTTGAGCAAAGGCTCAACAACTTTAAAA-TTC-TCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTCATCTTG
* * * *
8422180 AAAAAAGCTTCTCTTAGTAGAGACTCAACAACTTTTAAAATTCTCATCTTTG
1 -AAAAAGCTCCTCTCAGCAGAGGCTCAACAAC-TTTAAAATT-TCATC-TTG
*
8422232 -AAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAAGAA--TC-TCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAA-AATTTCATCTTG
* * * *
8422277 AAAAAACTCCTCTTAGTAGAGGCTCAACAACTTTTAAAATTCTCATATTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAAC-TTTAAAATT-TCATCTTG
* * * *
8422327 AAAAAGCTCCTCTCAGTAAAGGCTTAACAACTTTAAGAATCTCATCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAA-AATTTCATCTTG
* * *
8422376 AAAAAGCTCATCTTAGCAGAGGCTTAACAACTTTAAAATTTCATCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTCATCTTG
** * *
8422424 AAAAAGCTTATCTCAACAGAGGCTCAATAACTTTAAAAAAATCTT-ATCTT-
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT---AAAAT-TTCATCTTG
* * * *
8422474 AAAAAACTCCTCTCAACAGAGGCTTAACAACTTTAAGAATCTCATCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAA-AATTTCATCTTG
* * * * *
8422523 AAAAAACTCATCTCAGTAGAGGCTCAACAACTTTAAAATTTTATTTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTCATCTTG
* * * *
8422571 AAAAAGCTTCTCTCAACAGAGGCTCACCAATTTTTAAAAAATCTT-ATCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAA-CTTT--AAAAT-TTCATCTTG
* * *
8422622 AAAAAGCTTCTCTTAGCAAAGGCTCAACAACTTTAAAATTCTCATCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATT-TCATCTTG
* * * *
8422671 GAAAAG-TTCTCTCAACAAAGGCTCAACAACTTTAAAATTTTCATCTTGG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA-TTTCATCTT-G
* *
8422720 AAAAA-CTTCTCTCAGCAGAGGCTCAACAATTTTAAAA
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA
8422757 ATCTTATCTT
Statistics
Matches: 486, Mismatches: 61, Indels: 56
0.81 0.10 0.09
Matches are distributed among these distances:
45 3 0.01
46 32 0.07
47 36 0.07
48 130 0.27
49 133 0.27
50 97 0.20
51 48 0.10
52 7 0.01
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (48 bp):
AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTCATCTTG
Found at i:8422467 original size:99 final size:96
Alignment explanation
Indices: 8422134--8422766 Score: 586
Period size: 99 Copynumber: 6.5 Consensus size: 96
8422124 TCAAAAATTT
* * * *
8422134 AAAAAGCTCCTTTGAGCAAAGGCTCAACAACTTT-AAAAT-TC-TCTTGAAAAAAGCTTCTCTTA
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG-AAAAAGC-TCTCTCA
** *
8422196 GTAGAGACTCAACAACTTTTAAAATTCTCATCTTTG
64 ACAGAGGCTCAACAAC-TTTAAAATT-TCATC-TTG
* * * * *
8422232 -AAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAAGAA--TC-TCTTGAAAAAACTCCTCTTAG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAAGCT-CTCTCAA
* *
8422293 TAGAGGCTCAACAACTTTTAAAATTCTCATATTG
65 CAGAGGCTCAACAAC-TTTAAAATT-TCATCTTG
* * * * * *
8422327 AAAAAGCTCCTCTCAGTAAAGGCTTAACAACTTTAAGAATCTCATCTTGAAAAAGCTCATCTTAG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAAGCTC-TCTCAA
*
8422392 CAGAGGCTTAACAACTTTAAAATTTCATCTTG
65 CAGAGGCTCAACAACTTTAAAATTTCATCTTG
** * * * *
8422424 AAAAAGCTTATCTCAACAGAGGCTCAATAACTTTAAAAAAATCTTATCTT-AAAAAACTCCTCTC
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT--AAAAATCTCATCTTGAAAAAGCT-CTCTC
* *
8422488 AACAGAGGCTTAACAACTTTAAGAATCTCATCTTG
63 AACAGAGGCTCAACAACTTTAA-AATTTCATCTTG
* * * * * *
8422523 AAAAAACTCATCTCAGTAGAGGCTCAACAACTTT-AAAATTTTATTTTGAAAAAGCTTCTCTCAA
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAAGC-TCTCTCAA
* *
8422587 CAGAGGCTCACCAATTTTTAAAAAATCTT-ATCTTG
65 CAGAGGCTCAACAA-CTTT--AAAAT-TTCATCTTG
* * * * * *
8422622 AAAAAGCTTCTCTTAGCAAAGGCTCAACAACTTTAAAATTCTCATCTTGGAAAAGTTCTCTCAAC
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAAGCTCTCTCAAC
*
8422687 AAAGGCTCAACAACTTTAAAATTTTCATCTTGG
66 AGAGGCTCAACAACTTTAAAA-TTTCATCTT-G
* * *
8422720 AAAAA-CTTCTCTCAGCAGAGGCTCAACAATTTTAAAAATCTTATCTT
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTT
8422767 TTCTTAAAAT
Statistics
Matches: 455, Mismatches: 59, Indels: 43
0.82 0.11 0.08
Matches are distributed among these distances:
95 4 0.01
96 95 0.21
97 138 0.30
98 59 0.13
99 141 0.31
100 18 0.04
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (96 bp):
AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAAGCTCTCTCAAC
AGAGGCTCAACAACTTTAAAATTTCATCTTG
Found at i:8422488 original size:147 final size:147
Alignment explanation
Indices: 8422153--8422766 Score: 671
Period size: 147 Copynumber: 4.2 Consensus size: 147
8422143 CTTTGAGCAA
* * * * * * *
8422153 AGGCTCAACAACTTT--AAAA--TTCTCTTGAAAAAAGCTTCTCTTAGTAGAGACTCAACAACTT
1 AGGCTCAACAACTTTAAAAAATCTTATCTTG-AAAAAGCTCCTCTCAGCAAAGGCTTAACAAC-T
* *
8422214 TTAAAATTCTCATCTTTG-AAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAAGAA--TC-TCT
64 TTAAAATTCTCATC-TTGAAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAA-AATTTCATCT
* * * **
8422275 TGAAAAAACTCCTCTTAGTAG
127 TGAAAAAGCTTCTCTCAACAG
* * * * *
8422296 AGGCTCAACAACTTTTAAAATTCTCATATTGAAAAAGCTCCTCTCAGTAAAGGCTTAACAACTTT
1 AGGCTCAACAACTTTAAAAAATCTTATCTTGAAAAAGCTCCTCTCAGCAAAGGCTTAACAACTTT
* *
8422361 AAGAA-TCTCATCTTGAAAAAGCTCATCTTAGCAGAGGCTTAACAACTTTAAAATTTCATCTTGA
66 AA-AATTCTCATCTTGAAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATTTCATCTTGA
*
8422425 AAAAGCTTATCTCAACAG
130 AAAAGCTTCTCTCAACAG
* * * *
8422443 AGGCTCAATAACTTTAAAAAAATCTTATCTT-AAAAAACTCCTCTCAACAGAGGCTTAACAACTT
1 AGGCTCAACAACTTT-AAAAAATCTTATCTTGAAAAAGCTCCTCTCAGCAAAGGCTTAACAACTT
* * * *
8422507 TAAGAA-TCTCATCTTGAAAAAACTCATCTCAGTAGAGGCTCAACAACTTTAAAATTTTATTTTG
65 TAA-AATTCTCATCTTGAAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATTTCATCTTG
8422571 AAAAAGCTTCTCTCAACAG
129 AAAAAGCTTCTCTCAACAG
* * * * *
8422590 AGGCTCACCAATTTTTAAAAAATCTTATCTTGAAAAAGCTTCTCTTAGCAAAGGCTCAACAACTT
1 AGGCTCAACAA-CTTTAAAAAATCTTATCTTGAAAAAGCTCCTCTCAGCAAAGGCTTAACAACTT
* * * *
8422655 TAAAATTCTCATCTTGGAAAAGTTC-TCTCAACAAAGGCTCAACAACTTTAAAATTTTCATCTTG
65 TAAAATTCTCATCTTGAAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAA-TTTCATCTT-
*
8422719 GAAAAA-CTTCTCTCAGCAG
128 GAAAAAGCTTCTCTCAACAG
*
8422738 AGGCTCAACAA-TTTTAAAAATCTTATCTT
1 AGGCTCAACAACTTTAAAAAATCTTATCTT
8422767 TTCTTAAAAT
Statistics
Matches: 401, Mismatches: 55, Indels: 27
0.83 0.11 0.06
Matches are distributed among these distances:
143 15 0.04
144 5 0.01
145 46 0.11
146 47 0.12
147 193 0.48
148 89 0.22
149 6 0.01
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.31
Consensus pattern (147 bp):
AGGCTCAACAACTTTAAAAAATCTTATCTTGAAAAAGCTCCTCTCAGCAAAGGCTTAACAACTTT
AAAATTCTCATCTTGAAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATTTCATCTTGAA
AAAGCTTCTCTCAACAG
Found at i:8435182 original size:22 final size:22
Alignment explanation
Indices: 8435152--8435193 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
8435142 AACTCGAAAA
*
8435152 TAACTTAAAGTAGACATAAAGC
1 TAACATAAAGTAGACATAAAGC
*
8435174 TAACATAAAGTATACATAAA
1 TAACATAAAGTAGACATAAA
8435194 AATTAATGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.55, C:0.12, G:0.10, T:0.24
Consensus pattern (22 bp):
TAACATAAAGTAGACATAAAGC
Found at i:8445493 original size:19 final size:18
Alignment explanation
Indices: 8445441--8445495 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
8445431 AACATTTAAA
*
8445441 TAAAAAATTCAAAAAAAT
1 TAAAAAATTCAGAAAAAT
*
8445459 TAAAAAATAT-ATGAAAAGT
1 TAAAAAAT-TCA-GAAAAAT
8445478 TAAAAACATTCAGAAAAA
1 TAAAAA-ATTCAGAAAAA
8445496 AATCTACAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
18 9 0.30
19 18 0.60
20 3 0.10
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.22
Consensus pattern (18 bp):
TAAAAAATTCAGAAAAAT
Found at i:8445539 original size:25 final size:25
Alignment explanation
Indices: 8445511--8445567 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
8445501 ACAAAATTCC
8445511 GAAAAAAAAAGAAAAAT-TAAAAAAA
1 GAAAAAAAAA-AAAAATCTAAAAAAA
* **
8445536 GAAAAAGAAAAAAAATCTAAAAATT
1 GAAAAAAAAAAAAAATCTAAAAAAA
8445561 GAAAAAA
1 GAAAAAA
8445568 TTTAAAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 6 0.22
25 21 0.78
ACGTcount: A:0.79, C:0.02, G:0.09, T:0.11
Consensus pattern (25 bp):
GAAAAAAAAAAAAAATCTAAAAAAA
Found at i:8445547 original size:15 final size:15
Alignment explanation
Indices: 8445513--8445550 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
8445503 AAAATTCCGA
*
8445513 AAAAAAAAGAAAAAT
1 AAAAAAAAGAAAAAG
*
8445528 TAAAAAAAGAAAAAG
1 AAAAAAAAGAAAAAG
8445543 AAAAAAAA
1 AAAAAAAA
8445551 TCTAAAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.87, C:0.00, G:0.08, T:0.05
Consensus pattern (15 bp):
AAAAAAAAGAAAAAG
Found at i:8446030 original size:22 final size:22
Alignment explanation
Indices: 8446005--8446047 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
8445995 TAAATCTTCT
8446005 TTAATTCTAGGGATACAAATAC
1 TTAATTCTAGGGATACAAATAC
8446027 TTAATTCTAGGGATACAAATA
1 TTAATTCTAGGGATACAAATA
8446048 TAAATATACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.33
Consensus pattern (22 bp):
TTAATTCTAGGGATACAAATAC
Found at i:8449755 original size:23 final size:24
Alignment explanation
Indices: 8449699--8449757 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
8449689 AAAGGGTTCG
* *
8449699 GCAATGAAAGCCTAAACAAGATTC
1 GCAATGAAGGCCTAAACAAGAGTC
8449723 GACAATGAAGGCCTAAA-AA-AGTC
1 G-CAATGAAGGCCTAAACAAGAGTC
8449746 AGCAATGAAGGC
1 -GCAATGAAGGC
8449758 TGAAAATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 13 0.42
24 4 0.13
25 14 0.45
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.14
Consensus pattern (24 bp):
GCAATGAAGGCCTAAACAAGAGTC
Found at i:8449933 original size:22 final size:22
Alignment explanation
Indices: 8449905--8449948 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
8449895 CTAAATCTTC
*
8449905 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
8449927 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
8449949 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:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:8459644 original size:35 final size:35
Alignment explanation
Indices: 8459605--8459704 Score: 103
Period size: 34 Copynumber: 2.9 Consensus size: 35
8459595 TGATCAGGAT
* *
8459605 TAAACTACGAGCCAAAGATTAAAAATGACTGGGAC
1 TAAACCACGAGTCAAAGATTAAAAATGACTGGGAC
* * * * * * *
8459640 TAAACCGCAAGTCAGAGAAT-GAAATGACTAGGAT
1 TAAACCACGAGTCAAAGATTAAAAATGACTGGGAC
*
8459674 TAAACCACGAGTCAAAGATTAAAGATGACTG
1 TAAACCACGAGTCAAAGATTAAAAATGACTG
8459705 AGATTGAGCC
Statistics
Matches: 48, Mismatches: 16, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
34 27 0.56
35 21 0.44
ACGTcount: A:0.45, C:0.16, G:0.21, T:0.18
Consensus pattern (35 bp):
TAAACCACGAGTCAAAGATTAAAAATGACTGGGAC
Found at i:8459687 original size:34 final size:34
Alignment explanation
Indices: 8459588--8459691 Score: 102
Period size: 34 Copynumber: 3.0 Consensus size: 34
8459578 CGAGAAAATT
* *
8459588 AATGAAATGA-TCAGGATTAAACTACGAGCCAAAG
1 AATGAAATGACT-AGGATTAAACCACGAGTCAAAG
* * * * * * *
8459622 ATTAAAAATGACTGGGACTAAACCGCAAGTCAGAG
1 AAT-GAAATGACTAGGATTAAACCACGAGTCAAAG
8459657 AATGAAATGACTAGGATTAAACCACGAGTCAAAG
1 AATGAAATGACTAGGATTAAACCACGAGTCAAAG
8459691 A
1 A
8459692 TTAAAGATGA
Statistics
Matches: 52, Mismatches: 16, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
34 28 0.54
35 23 0.44
36 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.17
Consensus pattern (34 bp):
AATGAAATGACTAGGATTAAACCACGAGTCAAAG
Found at i:8459720 original size:69 final size:69
Alignment explanation
Indices: 8459588--8459726 Score: 190
Period size: 69 Copynumber: 2.0 Consensus size: 69
8459578 CGAGAAAATT
* * *
8459588 AATGAAATGATCAGGATTAAACTACGAGCCAAAGATTAAAAATGACTGGGACTAAACCGCAAGTC
1 AATGAAATGATCAGGATTAAACCACGAGCCAAAGATTAAAAATGACTGAGACTAAACCACAAGTC
8459653 AGAG
66 AGAG
* * * * *
8459657 AATGAAATGA-CTAGGATTAAACCACGAGTCAAAGATTAAAGATGACTGAGATTGAGCCACAAGT
1 AATGAAATGATC-AGGATTAAACCACGAGCCAAAGATTAAAAATGACTGAGACTAAACCACAAGT
8459721 CAGAG
65 CAGAG
8459726 A
1 A
8459727 GTCAAAGATT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
68 1 0.02
69 60 0.98
ACGTcount: A:0.45, C:0.15, G:0.22, T:0.18
Consensus pattern (69 bp):
AATGAAATGATCAGGATTAAACCACGAGCCAAAGATTAAAAATGACTGAGACTAAACCACAAGTC
AGAG
Found at i:8459722 original size:35 final size:34
Alignment explanation
Indices: 8459602--8459722 Score: 100
Period size: 35 Copynumber: 3.5 Consensus size: 34
8459592 AAATGATCAG
* * * *
8459602 GATTAAACTACGAGCCAAAGATTAAAAATGACTGG
1 GATTAAACCACAAGTCAAAGATT-AAAATGACTGA
* * * * *
8459637 GACTAAACCGCAAGTCAGAGAATGAAATGACT-A
1 GATTAAACCACAAGTCAAAGATTAAAATGACTGA
*
8459670 GGATTAAACCACGAGTCAAAGATTAAAGATGACTGA
1 -GATTAAACCACAAGTCAAAGATTAAA-ATGACTGA
* *
8459706 GATTGAGCCACAAGTCA
1 GATTAAACCACAAGTCA
8459723 GAGAGTCAAA
Statistics
Matches: 65, Mismatches: 18, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
34 28 0.43
35 36 0.55
36 1 0.02
ACGTcount: A:0.44, C:0.17, G:0.21, T:0.18
Consensus pattern (34 bp):
GATTAAACCACAAGTCAAAGATTAAAATGACTGA
Found at i:8459930 original size:138 final size:141
Alignment explanation
Indices: 8459725--8460808 Score: 852
Period size: 138 Copynumber: 7.2 Consensus size: 141
8459715 ACAAGTCAGA
* *
8459725 GAGTCAAAGATTAAAGATGATTGGGATTGAACCGTAAGTCAAAAAATTAATGAAATGATCGGGAT
1 GAGTCAAAGATTAAAGATGACT--G-TTGAACCGCAAGTC-AAAAA-TAATGAAATGATCGGGAT
** **
8459790 TAAATGGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCTTAAGTCAGAGAAATAATGAAATG
61 TAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAGAGAAATAATGAAATG
*
8459855 ATCGGGATTAAACCTT
126 ATCGGGATTAAACCGT
8459871 GAGTCAAAGATTAAAGATGACT-TTGAACCGCAAGTC-AAAA-AATGAAATGATCGGGATTAAAC
1 GAGTCAAAGATTAAAGATGACTGTTGAACCGCAAGTCAAAAATAATGAAATGATCGGGATTAAAC
* *
8459933 CGCAAGTCAAAGATTAAAGATGACTGGGATTGAACCGTAAGTCAGA-AAATTAATGAAATGATCG
66 CGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAGAGAAA-TAATGAAATGATCG
* *
8459997 AGATTAAACCGC
130 GGATTAAACCGT
*
8460009 GAGTTAAAGATTAAAGATGACTAGGATTGAACCGCAAGTCAAAAAATTAATGAAATGATCGGGAT
1 GAGTCAAAGATTAAAGATGACT--G-TTGAACCGCAAGTC-AAAAA-TAATGAAATGATCGGGAT
*
8460074 TAAA--TCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCA-AGAAATAATGAAATG
61 TAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAGAGAAATAATGAAATG
**
8460136 ATCGGCGATTAAACCACC
126 ATCGG-GATTAAACC-GT
* * *
8460154 GAGTCAAAGATTTAAGAGGACATTGAGATTGAATCGCAAGTCAAAAAT-ATGAAAATGGATCGGG
1 GAGTCAAAGATTAAAGATGAC--T--G-TTGAACCGCAAGTCAAAAATAATG-AAAT-GATCGGG
* * * *
8460218 ATTAAA-TGCGAG-CAGAGATTAAAGATGACAATGGGGAATTGAATCGCAAGGTCA-AAAAATTA
59 ATTAAACCGCGAGTCAAAGATTAAAGATGAC--T-GGG-ATTGAACCGCAA-GTCAGAGAAA-TA
*
8460280 ACCGAAATGATACGGGATTAAACCGT
118 A-TGAAATGAT-CGGGATTAAACCGT
* *
8460306 GAGTTC-AAGATTAAAGATGACTAGGATTTGAATCCGTAAGTCAAGAAAATTATGAAATGATCGG
1 GAG-TCAAAGATTAAAGATGACT--G--TTGAA-CCGCAAGTC-A-AAAATAATGAAATGATCGG
8460370 GATTTAAACCGCGGAGTCCGCAAAGATTTAAAGATGACTGGGGACTTGAACCGCCAAGTCA-ATG
58 GA-TTAAACCGC-GAGT---CAAAGA-TTAAAGATGACT-GGGA-TTGAACCG-CAAGTCAGA-G
* * *
8460434 AAATTAATGAACTGATCGGGATTAAACTGC
113 AAA-TAATGAAATGATCGGGATTAAACCGT
* *
8460464 GAGTTAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAGAGAATGGATAATGAAATGACCGG
1 GAGTCAAAGATTAAAGATGACT--G-TTGAACCGCAAGTCA-A-AA---ATAATGAAATGATCGG
* * * * * *
8460529 AAAATTAAACCGCGAGTTTTAGAGAATTAAAAATGACT-GGAATGAACCACAAGTCAG-GAGAAT
58 --GATTAAACCGCGAG--TCAAAG-ATTAAAGATGACTGGGATTGAACCGCAAGTCAGAGA-AAT
8460592 AATGAATAT-ATCGGGATTAAACCCGT
117 AATGAA-ATGATCGGGATTAAA-CCGT
* * * * * * *
8460618 GAGTTAAAAAATTAAAGA-GACTGGACTGAACCACAAGTTAGAGGAATTAATGGAAATGATCAGG
1 GAG-TCAAAGATTAAAGATGACT-G-TTGAACCGCAAGTCA-A--AAATAAT-GAAATGATCGGG
* * * ** *
8460682 ATTTAAACCACGAGTCAAAGACTAAAGATGACTGGGATTGAATCATAAGTCAGGAGAATTAATGG
59 A-TTAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCA-GAGAAATAAT-G
* *
8460747 AAATGATCGAAGATTAAACCAT
121 AAATGATCG-GGATTAAACCGT
* * *
8460769 GACTGTCCAAAAACTAAAGATGACTAGGATGAACCGCAAG
1 GA--GT-CAAAGATTAAAGATGACT--GTTGAACCGCAAG
8460809 GTCGGGAGAC
Statistics
Matches: 785, Mismatches: 82, Indels: 134
0.78 0.08 0.13
Matches are distributed among these distances:
137 3 0.00
138 108 0.14
140 4 0.01
142 27 0.03
143 15 0.02
144 59 0.08
145 24 0.03
146 76 0.10
147 20 0.03
148 12 0.02
149 22 0.03
150 22 0.03
151 42 0.05
152 43 0.05
153 78 0.10
154 53 0.07
155 28 0.04
156 16 0.02
157 6 0.01
158 48 0.06
159 42 0.05
160 24 0.03
161 13 0.02
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.22
Consensus pattern (141 bp):
GAGTCAAAGATTAAAGATGACTGTTGAACCGCAAGTCAAAAATAATGAAATGATCGGGATTAAAC
CGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAGAGAAATAATGAAATGATCGG
GATTAAACCGT
Found at i:8460438 original size:82 final size:74
Alignment explanation
Indices: 8459725--8460808 Score: 962
Period size: 73 Copynumber: 14.5 Consensus size: 74
8459715 ACAAGTCAGA
* *
8459725 GAGTCAAAGATTAAAGATGATTGGGATTGAACCGTAAGTCAA-AAAATTAATGAAATGATCGGGA
1 GAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAAGAAAATTAATGAAATGATCGGGA
**
8459789 TTAAATGGC
66 TTAAACCGC
**
8459798 GAGTCAAAGATTAAAGATGACTGGGATTGAACCTTAAGTC-AGAGAAA-TAATGAAATGATCGGG
1 GAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAAGA-AAATTAATGAAATGATCGGG
**
8459861 ATTAAACCTT
65 ATTAAACCGC
8459871 GAGTCAAAGATTAAAGATGACT----TTGAACCGCAAGTC---AAAA--AATGAAATGATCGGGA
1 GAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAAGAAAATTAATGAAATGATCGGGA
8459927 TTAAACCGC
66 TTAAACCGC
* * *
8459936 AAGTCAAAGATTAAAGATGACTGGGATTGAACCGTAAGTC-AGAAAATTAATGAAATGATCGAGA
1 GAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAAGAAAATTAATGAAATGATCGGGA
8460000 TTAAACCGC
66 TTAAACCGC
* *
8460009 GAGTTAAAGATTAAAGATGACTAGGATTGAACCGCAAGTCAA-AAAATTAATGAAATGATCGGGA
1 GAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAAGAAAATTAATGAAATGATCGGGA
*
8460073 TTAAA--TC
66 TTAAACCGC
8460080 GAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAAG-AAA-TAATGAAATGATCGGCG
1 GAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAAGAAAATTAATGAAATGATCGG-G
*
8460143 ATTAAACCACC
65 ATTAAACC-GC
* * * *
8460154 GAGTCAAAGATTTAAGAGGACATTGAGATTGAATCGCAAGTC-A-AAAA-T-ATGAAAATGGATC
1 GAGTCAAAGATTAAAGATGAC--TGGGATTGAACCGCAAGTCAAGAAAATTAATG-AAAT-GATC
*
8460215 GGGATTAAA-TGC
62 GGGATTAAACCGC
* * *
8460227 GAG-CAGAGATTAAAGATGACAATGGGGAATTGAATCGCAAGGTCAA-AAAATTAACCGAAATGA
1 GAGTCAAAGATTAAAGATGAC--T-GGG-ATTGAACCGCAA-GTCAAGAAAATTAA-TGAAATGA
*
8460290 TACGGGATTAAACCGT
60 T-CGGGATTAAACCGC
* *
8460306 GAGTTC-AAGATTAAAGATGACTAGGATTTGAATCCGTAAGTCAAGAAAATT-ATGAAATGATCG
1 GAG-TCAAAGATTAAAGATGACTGGGA-TTGAA-CCGCAAGTCAAGAAAATTAATGAAATGATCG
8460369 GGATTTAAACCGC
63 GGA-TTAAACCGC
*
8460382 GGAGTCCGCAAAGATTTAAAGATGACTGGGGACTTGAACCGCCAAGTCAATG-AAATTAATGAAC
1 -GAGT---CAAAGA-TTAAAGATGACT-GGGA-TTGAACCG-CAAGTCAA-GAAAATTAATGAAA
*
8460446 TGATCGGGATTAAACTGC
57 TGATCGGGATTAAACCGC
* * *
8460464 GAGTTAAAGATTAAAGATGACTGGGATTGAACCGCAAGTC-AGAGAATGGATAATGAAATGACCG
1 GAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAAGAAAAT---TAATGAAATGATCG
*
8460528 GAAAATTAAACCGC
63 G--GATTAAACCGC
* * * * * * *
8460542 GAGTTTTAGAGAATTAAAAATGACT-GGAATGAACCACAAGTCAGGAGAA-TAATGAATAT-ATC
1 GAG--TCAAAG-ATTAAAGATGACTGGGATTGAACCGCAAGTCAAGAAAATTAATGAA-ATGATC
*
8460604 GGGATTAAACCCGT
62 GGGATTAAA-CCGC
* * * * * * *
8460618 GAGTTAAAAAATTAAAGA-GACT-GGACTGAACCACAAGT-TAGAGGAATTAATGGAAATGATCA
1 GAG-TCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAAGA-AAATTAAT-GAAATGATCG
*
8460680 GGATTTAAACCAC
63 GGA-TTAAACCGC
* * ** * * *
8460693 GAGTCAAAGACTAAAGATGACTGGGATTGAATCATAAGTCAGGAGAATTAATGGAAATGATCGAA
1 GAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAAGAAAATTAAT-GAAATGATCG-G
**
8460758 GATTAAACCAT
64 GATTAAACCGC
* * *
8460769 GACTGTCCAAAAACTAAAGATGACTAGGA-TGAACCGCAAG
1 GA--GT-CAAAGATTAAAGATGACTGGGATTGAACCGCAAG
8460809 GTCGGGAGAC
Statistics
Matches: 854, Mismatches: 87, Indels: 135
0.79 0.08 0.13
Matches are distributed among these distances:
65 44 0.05
66 3 0.00
67 1 0.00
69 25 0.03
70 15 0.02
71 55 0.06
72 20 0.02
73 201 0.24
74 69 0.08
75 60 0.07
76 115 0.13
77 47 0.06
78 55 0.06
79 26 0.03
80 38 0.04
81 37 0.04
82 28 0.03
83 15 0.02
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.22
Consensus pattern (74 bp):
GAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAAGAAAATTAATGAAATGATCGGGA
TTAAACCGC
Found at i:8461881 original size:16 final size:16
Alignment explanation
Indices: 8461853--8461908 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
8461843 CTTTCTCATT
*
8461853 TTTTTTCATTTTTTTCTA
1 TTTTTT-ATTTTTTT-GA
8461871 TTTTTTATTTTTTTGA
1 TTTTTTATTTTTTTGA
*
8461887 TTTTTT-TGATTTTTGA
1 TTTTTTAT-TTTTTTGA
8461903 TTTTTT
1 TTTTTT
8461909 TTTGCTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 1 0.03
16 20 0.57
17 8 0.23
18 6 0.17
ACGTcount: A:0.11, C:0.04, G:0.05, T:0.80
Consensus pattern (16 bp):
TTTTTTATTTTTTTGA
Found at i:8461909 original size:25 final size:26
Alignment explanation
Indices: 8461852--8461909 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
8461842 CCTTTCTCAT
* *
8461852 TTTTTTTCATTTTTTTCTATTTTTTA
1 TTTTTTTCATTTTTTTCGATTTTTGA
*
8461878 TTTTTTTGATTTTTTT-GATTTTTGA
1 TTTTTTTCATTTTTTTCGATTTTTGA
8461903 TTTTTTT
1 TTTTTTT
8461910 TTGCTTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 14 0.48
26 15 0.52
ACGTcount: A:0.10, C:0.03, G:0.05, T:0.81
Consensus pattern (26 bp):
TTTTTTTCATTTTTTTCGATTTTTGA
Found at i:8461910 original size:10 final size:9
Alignment explanation
Indices: 8461852--8461909 Score: 61
Period size: 9 Copynumber: 6.8 Consensus size: 9
8461842 CCTTTCTCAT
*
8461852 TTTTTTTCA
1 TTTTTTTGA
*
8461861 TTTTTTT-C
1 TTTTTTTGA
8461869 TATTTTTT-A
1 T-TTTTTTGA
8461878 TTTTTTTGA
1 TTTTTTTGA
8461887 TTTTTTTGA
1 TTTTTTTGA
8461896 --TTTTTGA
1 TTTTTTTGA
8461903 TTTTTTT
1 TTTTTTT
8461910 TTGCTTTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
7 7 0.16
8 7 0.16
9 29 0.67
ACGTcount: A:0.10, C:0.03, G:0.05, T:0.81
Consensus pattern (9 bp):
TTTTTTTGA
Found at i:8473591 original size:22 final size:23
Alignment explanation
Indices: 8473551--8473593 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
8473541 TTATTATTAT
*
8473551 TAATAACAATTAAATATTTATCC
1 TAATAACAATTAAACATTTATCC
*
8473574 TAATAA-ATTTAAACATTTAT
1 TAATAACAATTAAACATTTAT
8473594 GCATAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (23 bp):
TAATAACAATTAAACATTTATCC
Found at i:8474660 original size:23 final size:24
Alignment explanation
Indices: 8474610--8474662 Score: 76
Period size: 23 Copynumber: 2.3 Consensus size: 24
8474600 TTTTGTCTTC
*
8474610 TATTTTT-TTTTGTATTTTTTGAT
1 TATTTTTGTTTTGTATTTTGTGAT
8474633 T-TTTTTGTTTTGTATTTTGT-AT
1 TATTTTTGTTTTGTATTTTGTGAT
8474655 TATTTTTG
1 TATTTTTG
8474663 GTATTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 8 0.30
23 19 0.70
ACGTcount: A:0.11, C:0.00, G:0.11, T:0.77
Consensus pattern (24 bp):
TATTTTTGTTTTGTATTTTGTGAT
Found at i:8474666 original size:12 final size:10
Alignment explanation
Indices: 8474614--8474672 Score: 59
Period size: 9 Copynumber: 5.7 Consensus size: 10
8474604 GTCTTCTATT
8474614 TTTTTTTGTA
1 TTTTTTTGTA
8474624 -TTTTTTG-A
1 TTTTTTTGTA
*
8474632 TTTTTTTGTT
1 TTTTTTTGTA
8474642 TTGTATTTTGTA
1 TT-T-TTTTGTA
8474654 TTATTTTTGGTA
1 TT-TTTTT-GTA
8474666 TTTTTTT
1 TTTTTTT
8474673 ATTTCTTATT
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
8 1 0.02
9 14 0.34
10 2 0.05
11 10 0.24
12 14 0.34
ACGTcount: A:0.10, C:0.00, G:0.12, T:0.78
Consensus pattern (10 bp):
TTTTTTTGTA
Found at i:8474669 original size:34 final size:33
Alignment explanation
Indices: 8474622--8474716 Score: 90
Period size: 34 Copynumber: 2.9 Consensus size: 33
8474612 TTTTTTTTTG
* * *
8474622 TATTTTTTGATTTTTTTGTTT-TGTATTTTGTAT
1 TATTTTTGGATTTTTTTATTTCT-TATTTTGTAA
8474655 TATTTTTGGTATTTTTTTATTTCTTATTTTGTAA
1 TATTTTTGG-ATTTTTTTATTTCTTATTTTGTAA
* *
8474689 TATTATT-GTTTTTATTTATTT-TT-TTTTG
1 TATTTTTGGATTTT-TTTATTTCTTATTTTG
8474717 GGACAAAAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
31 5 0.09
32 6 0.11
33 16 0.30
34 26 0.48
35 1 0.02
ACGTcount: A:0.15, C:0.01, G:0.09, T:0.75
Consensus pattern (33 bp):
TATTTTTGGATTTTTTTATTTCTTATTTTGTAA
Found at i:8475153 original size:18 final size:17
Alignment explanation
Indices: 8475123--8475156 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
8475113 AAAAACTATA
8475123 TTATTTTGTTTTTATGT
1 TTATTTTGTTTTTATGT
*
8475140 TTATTTTTTCTTTTATG
1 TTATTTTGT-TTTTATG
8475157 GGAGAGATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.12, C:0.03, G:0.09, T:0.76
Consensus pattern (17 bp):
TTATTTTGTTTTTATGT
Found at i:8476719 original size:61 final size:61
Alignment explanation
Indices: 8476629--8476789 Score: 157
Period size: 61 Copynumber: 2.6 Consensus size: 61
8476619 ATCATTTGCC
* * * * * *
8476629 AAAATAACTATAATAATTCTTTTATCATAATTACAAAAATACCCT-TTATATTTTAATTTAAC-
1 AAAATTACTATAAT-ATCCTTTAACCATAATTAAAAAAATA-CCTATTATATTATAA-TTAACT
* * ** *
8476691 AACATTACTATATTA-CCTTTTAACCATAATTATGAAAATACCTATTATATTATAATTGACT
1 AAAATTACTATAATATCC-TTTAACCATAATTAAAAAAATACCTATTATATTATAATTAACT
*
8476752 AAAATTAGTATAATATCCTTTAACCATAATTAAAAAAA
1 AAAATTACTATAATATCCTTTAACCATAATTAAAAAAA
8476790 AAAAAAACCC
Statistics
Matches: 80, Mismatches: 15, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
60 8 0.10
61 59 0.74
62 13 0.16
ACGTcount: A:0.46, C:0.13, G:0.02, T:0.39
Consensus pattern (61 bp):
AAAATTACTATAATATCCTTTAACCATAATTAAAAAAATACCTATTATATTATAATTAACT
Found at i:8477376 original size:86 final size:86
Alignment explanation
Indices: 8477209--8477382 Score: 203
Period size: 86 Copynumber: 2.0 Consensus size: 86
8477199 ACGCCCTTGC
* *
8477209 AATCATAATTACAAAAATATCATTTTACCATAATTATGAAAATACCTCTCATATTACAATATATC
1 AATCATAATTACAAAAATAGCATTTTACCATAATTATCAAAATACCTCTCATATTACAATATATC
* *
8477274 AAAATTATTTTAATACCATCT
66 AAAATTACTATAATACCATCT
* *
8477295 AATCATAATTACAAAAAT-GCTTTGTTACCATAATTA-CAAGAATACC-CATCATATTATAAT-T
1 AATCATAATTACAAAAATAGCATT-TTACCATAATTATCAA-AATACCTC-TCATATTACAATAT
* * *
8477356 ATTAAAATTTACTATGATACCTTCT
63 ATCAAAA-TTACTATAATACCATCT
8477381 AA
1 AA
8477383 CCTCTAACTT
Statistics
Matches: 75, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
85 13 0.17
86 62 0.83
ACGTcount: A:0.44, C:0.16, G:0.03, T:0.37
Consensus pattern (86 bp):
AATCATAATTACAAAAATAGCATTTTACCATAATTATCAAAATACCTCTCATATTACAATATATC
AAAATTACTATAATACCATCT
Found at i:8477822 original size:61 final size:61
Alignment explanation
Indices: 8477747--8477891 Score: 150
Period size: 61 Copynumber: 2.4 Consensus size: 61
8477737 AGGTGAATAC
* * * * *
8477747 AATGTCCCTACTACCATAATTACAAAAATGCACTTT-TACCATAATTTGCCAAACTTAGTAT
1 AATGTCCTTCCTACCATAATTACAAAAATACA-TTTATACCATAATTTGCCAAAATTACTAT
** * ** *
8477808 AATGTCCTTCCTACCATAATTATGAAAATATATTTATATTATAATTTTCCAAAATTACTAT
1 AATGTCCTTCCTACCATAATTACAAAAATACATTTATACCATAATTTGCCAAAATTACTAT
* *
8477869 AATG-CTTTCTTACCATAATTACA
1 AATGTCCTTCCTACCATAATTACA
8477892 TGCCCTTTTA
Statistics
Matches: 68, Mismatches: 15, Indels: 3
0.79 0.17 0.03
Matches are distributed among these distances:
60 18 0.26
61 50 0.74
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (61 bp):
AATGTCCTTCCTACCATAATTACAAAAATACATTTATACCATAATTTGCCAAAATTACTAT
Found at i:8478840 original size:21 final size:20
Alignment explanation
Indices: 8478808--8478860 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 20
8478798 TTGGTTTTTT
8478808 TCTTTTTTTTTTTCT-TTCTC
1 TCTTTTTTTTTTTCTCTT-TC
8478828 TCTTTTATTTTTTTCTCTTTC
1 TCTTTT-TTTTTTTCTCTTTC
8478849 TCTTTCTTTTTT
1 TCTTT-TTTTTT
8478861 ATTTTTTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.20
21 21 0.70
22 3 0.10
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (20 bp):
TCTTTTTTTTTTTCTCTTTC
Found at i:8480628 original size:12 final size:12
Alignment explanation
Indices: 8480611--8480648 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
8480601 ACCTTGACTA
8480611 TATATATTAAAT
1 TATATATTAAAT
8480623 TATATATTAAAT
1 TATATATTAAAT
*
8480635 TATTTATTTAAAT
1 TATATA-TTAAAT
8480648 T
1 T
8480649 TAAATTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 17 0.71
13 7 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
TATATATTAAAT
Found at i:8480852 original size:11 final size:11
Alignment explanation
Indices: 8480823--8480860 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
8480813 CCATTTTATG
*
8480823 TTTTTTTCCTT
1 TTTTTTTTCTT
8480834 TTTTTTTTCTT
1 TTTTTTTTCTT
8480845 TTTTTTTTGCTT
1 TTTTTTTT-CTT
8480857 TTTT
1 TTTT
8480861 CAATTTTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
11 18 0.72
12 7 0.28
ACGTcount: A:0.00, C:0.11, G:0.03, T:0.87
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:8481148 original size:23 final size:23
Alignment explanation
Indices: 8481110--8481155 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
8481100 ATCTTTATCT
*
8481110 TTTTTCCTTTAAATTTTTTTTTA
1 TTTTTCCTTTAAATTTCTTTTTA
**
8481133 TTTTTCCTTTTTATTTCTTTTTA
1 TTTTTCCTTTAAATTTCTTTTTA
8481156 ATTAGTCATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.13, C:0.11, G:0.00, T:0.76
Consensus pattern (23 bp):
TTTTTCCTTTAAATTTCTTTTTA
Done.