Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168102.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_348, 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: 32450
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.40
Found at i:2860 original size:30 final size:30
Alignment explanation
Indices: 2824--2883 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
2814 ATTTCAGATG
2824 CTTATAGTTTTTAAAAGAATAAGCTATCTA
1 CTTATAGTTTTTAAAAGAATAAGCTATCTA
*
2854 CTTATAGTTTTTAAAAGAATAAGTTATCTA
1 CTTATAGTTTTTAAAAGAATAAGCTATCTA
2884 ATCTTTCCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (30 bp):
CTTATAGTTTTTAAAAGAATAAGCTATCTA
Found at i:9754 original size:127 final size:129
Alignment explanation
Indices: 9590--9849 Score: 461
Period size: 129 Copynumber: 2.0 Consensus size: 129
9580 GACCGAAAGC
9590 CCTTTTCGTCCTCAACGGGCCCTTTTCTCTTTC-TTTTTTTTTTTTCCTGATGGATTCCTCAATA
1 CCTTTTCGTCCTCAACGGGCCCTTTTCTCTTTCTTTTTTTTTTTTTCCTGATGGATTCCTCAATA
9654 GAGGACTGTCGTTGTTTGCA-TTTTTTTTTTTGGCTTTGCTGGCTTGGTTTTTTTATTTTCTGT
66 GAGGACTGTCGTTGTTTGCATTTTTTTTTTTTGGCTTTGCTGGCTTGGTTTTTTTATTTTCTGT
9717 CCTTTTCGTCCTCAACGGGCCCTTTTCTCTTTCTTTTTTTTTTTTTTCCTGATGGATTCCTCAAT
1 CCTTTTCGTCCTCAACGGGCCCTTTTCTCTTTC-TTTTTTTTTTTTTCCTGATGGATTCCTCAAT
*
9782 AGAGGACTGTGGTTGTTTGCATTTTTTTTTTTTTTTGGCTTTGCTGGCTTGGTTTTTTTATTTTC
65 AGAGGACTGTCGTTGTTTGCA---TTTTTTTTTTTTGGCTTTGCTGGCTTGGTTTTTTTATTTTC
9847 TGT
127 TGT
9850 TTTTGGCTGT
Statistics
Matches: 126, Mismatches: 1, Indels: 6
0.95 0.01 0.05
Matches are distributed among these distances:
127 33 0.26
129 50 0.40
133 43 0.34
ACGTcount: A:0.08, C:0.19, G:0.17, T:0.55
Consensus pattern (129 bp):
CCTTTTCGTCCTCAACGGGCCCTTTTCTCTTTCTTTTTTTTTTTTTCCTGATGGATTCCTCAATA
GAGGACTGTCGTTGTTTGCATTTTTTTTTTTTGGCTTTGCTGGCTTGGTTTTTTTATTTTCTGT
Found at i:10689 original size:180 final size:179
Alignment explanation
Indices: 10057--11053 Score: 818
Period size: 180 Copynumber: 5.5 Consensus size: 179
10047 GAGTAAAAAT
* * * * * * * *
10057 AATTATTTTATGATAAGATAAAATGTCTTAACGATTTGAAATAGATAATAATTTAAATTGAT-AT
1 AATTGTTTTATGACAAAATAAAAAGTCATAACGATTTGAAATAGATAATTATTCAAATAG-TCAT
* * * * * * *
10121 GATTATTTAAATTTATTCAGTAAATATATTTATTATTTAAAT-TTTTAACTTATTAATTTTTAGA
65 AACTATTTGAACTTATTCGGTAAATAGATTTATT-TTTAAATCTTTT-ACTTATTAATTTTTAAA
* *** * * *
10185 ATATTAATAAATTAATATTATTTTGTTTTGAATAAACTTGTATCAATAGAAAC
128 ATATTAATAAATTAATATTATTTTATTCAAAATAAGCTT-TATGAACAGAAAC
* * ** * * *
10238 TATTGTTTTATGA-AAAATCAAAATA-TCACAATAACTTGAAATAAAATAATTATAT-AAGTAGT
1 AATTGTTTTATGACAAAAT-AAAA-AGTCATAACGATTTGAAAT-AGATAATTAT-TCAAATAGT
* * * * *
10300 CATAACTATTTGAA-TCTACTCGATAAATAAATTTATGTTTTAAATCTTTAAGTTATTAATTTTT
62 CATAACTATTTGAACT-TATTCGGTAAATAGATTTAT-TTTTAAATCTTTTACTTATTAA-TTTT
* ** *
10364 TGAAAT-TTAATAAATTAATATTATTTTATTCTGAATAAGCCTTTATGAATAGAAAC
124 TAAAATATTAATAAATTAATATTATTTTATTCAAAATAAG-CTTTATGAACAGAAAC
* * *
10420 AATTGGTGTATGAC-AAA-AAAAAGTCATAACGATTTGAAATAGATAATTGTTCAAATAGTCATA
1 AATTGTTTTATGACAAAATAAAAAGTCATAACGATTTGAAATAGATAATTATTCAAATAGTCATA
* * * ** * *
10483 ACTATTAGAACGTGTTTAGAAAATAGATTTATTTTTAAAAT-TTTTACTTATTAATTCTTAAAAT
66 ACTATTTGAACTTATTCGGTAAATAGATTTATTTTT-AAATCTTTTACTTATTAATTTTTAAAAT
* * * * *
10547 ATTAGTAAATTTATATTATTTTATTCAAAATACGTTTATATGAACATAAAC
130 ATTAATAAATTAATATTATTTTATTCAAAATAAGCTT-TATGAACAGAAAC
* * * * * *
10598 AATTATTTTATGACAAAATAAAAAGTCTTAATGATATAAAATAGATAATTGTTCAAATAGTCATA
1 AATTGTTTTATGACAAAATAAAAAGTCATAACGATTTGAAATAGATAATTATTCAAATAGTCATA
* * *
10663 ACTATTTGAACTTATTCGGTAAATAGATTTATTTTTTAAATCTCTTACTCATTAATTGTTT-GAA
66 ACTATTTGAACTTATTCGGTAAATAGATTTA-TTTTTAAATCTTTTACTTATTAATT-TTTAAAA
* * * * * ** * *
10727 TATTAATAAGTTAGTATTGTTTTATTTC-AAATAAGCCTATATAAATTGATAT
129 TATTAATAAATTAATATTATTTTA-TTCAAAATAAG-CTTTATGAACAGAAAC
* * * * * * * *
10779 AATT-TTTTATAACGAAA-CAAAAGATTAAAACAATTTGAAATAGATAATTATTTAAATAGTTAT
1 AATTGTTTTATGACAAAATAAAAAG-TCATAACGATTTGAAATAGATAATTATTCAAATAGTCAT
* * * * * * * *
10842 TACTATTTGAATTTATTTGATAAACATATTTATTTTTTAAATCTTTTACTTATTAATTATGAAAA
65 AACTATTTGAACTTATTCGGTAAATAGATTTA-TTTTTAAATCTTTTACTTATTAATTTTTAAAA
* * * * *
10907 TATTAATAAATTAATATTATTTTAAT-ATGAATAAACTTTTATGAACAAAAAT
129 TATTAATAAATTAATATTATTTTATTCA-AAATAAGC-TTTATGAACAGAAAC
* * * *
10959 AATTGTTTTATGACAAAACAAAAAGTCATAATGATTTGAAATAAATAATTGTTCAAATAGTCATA
1 AATTGTTTTATGACAAAATAAAAAGTCATAACGATTTGAAATAGATAATTATTCAAATAGTCATA
*
11024 ACTATTTAAACTTATTCGGTAAATAGATTT
66 ACTATTTGAACTTATTCGGTAAATAGATTT
11054 GAAATAAGTT
Statistics
Matches: 641, Mismatches: 144, Indels: 62
0.76 0.17 0.07
Matches are distributed among these distances:
177 10 0.02
178 66 0.10
179 56 0.09
180 223 0.35
181 151 0.24
182 119 0.19
183 16 0.02
ACGTcount: A:0.43, C:0.07, G:0.08, T:0.42
Consensus pattern (179 bp):
AATTGTTTTATGACAAAATAAAAAGTCATAACGATTTGAAATAGATAATTATTCAAATAGTCATA
ACTATTTGAACTTATTCGGTAAATAGATTTATTTTTAAATCTTTTACTTATTAATTTTTAAAATA
TTAATAAATTAATATTATTTTATTCAAAATAAGCTTTATGAACAGAAAC
Found at i:10970 original size:361 final size:356
Alignment explanation
Indices: 10090--11053 Score: 1025
Period size: 361 Copynumber: 2.7 Consensus size: 356
10080 TGTCTTAACG
* * * * * * *
10090 ATTTGAAATAGATAATAATTTAAATTGATATGATTATTTAAATTTA-TTCAGTAAATATATTTAT
1 ATTTGAAATAGATAATTATTTAAATAGTTATAACTATTTGAATTTATTTGA-TAAATATATTTAT
* * * *
10154 TATTTAAATTTTTAACTTATTAATTTTTAGAATATTAATAAATTAATATTATTTTGTTTTGAATA
65 TTTTTAAATTTTT-ACTTATTAATTATTAAAATATTAATAAATTAATATTA-TTT-TATTGAATA
* * * * * *
10219 AACTTGTATCAATAGAAACT-ATTGTTTTATGA-AAAATCAAAATA-TCACAATAACTTGAAATA
127 AACTTTTATGAACA-AAAATAATTGTTTTATGACAAAAT-AAAA-AGTCATAATGA-TTGAAAT-
* * * * *
10281 AAATAATTATAT-AAGTAGTCATAACTATTTGAA-TCTACTCGATAAATAAATTTATGTTTTAAA
187 AAATAATTGT-TCAAATAGTCATAACTATTTGAACT-TATTCGGTAAATAGATTTATGTTTTAAA
* * * * *
10344 TCTTTAAGTTATTAATTTTTTGAAATTTAATAAATTAATATTATTTTATTCTGAATAAGCCTTTA
250 TCTTTAACTCATTAATTGTTTGAAATTTAATAAATTAATATTATTTTATTCTAAATAAGCCTATA
* * * *
10409 TGAATAGAAACAATTGGTGTATGACAAAAAAAAGTCATAACG
315 TAAATAGAAACAATTGGTGTATAACAAAAAAAAGTCAAAACA
* * * * ** * *
10451 ATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTAGAACGTGTTTAGA-AAATAGATTTAT
1 ATTTGAAATAGATAATTATTTAAATAGTTATAACTATTTGAATTTATTT-GATAAATATATTTAT
* * * * *
10515 TTTTAAAATTTTTACTTATTAATTCTTAAAATATTAGTAAATTTATATTATTTTATTCAA-AATA
65 TTTTTAAATTTTTACTTATTAATTATTAAAATATTAATAAATTAATATTATTTTATTGAATAA-A
* * * * * *
10579 CGTTTATATGAACATAAACAATTATTTTATGACAAAATAAAAAGTCTTAATGATATAAAATAGAT
129 C-TTT-TATGAACAAAAATAATTGTTTTATGACAAAATAAAAAGTCATAATGAT-TGAAATAAAT
*
10644 AATTGTTCAAATAGTCATAACTATTTGAACTTATTCGGTAAATAGATTTATTTTTTAAATCTCTT
191 AATTGTTCAAATAGTCATAACTATTTGAACTTATTCGGTAAATAGATTTATGTTTTAAATCT-TT
* * *
10709 -ACTCATTAATTGTTTG-AATATTAATAAGTTAGTATTGTTTTATT-TCAAATAAGCCTATATAA
255 AACTCATTAATTGTTTGAAAT-TTAATAAATTAATATTATTTTATTCT-AAATAAGCCTATATAA
* * * * * * *
10771 ATTGATATAATT-TTTTATAACGAAACAAAAGATTAAAACA
318 ATAGAAACAATTGGTGTATAAC-AAAAAAAAG-TCAAAACA
* *
10811 ATTTGAAATAGATAATTATTTAAATAGTTATTACTATTTGAATTTATTTGATAAACATATTTATT
1 ATTTGAAATAGATAATTATTTAAATAGTTATAACTATTTGAATTTATTTGATAAATATATTTATT
*
10876 TTTTAAATCTTTTACTTATTAATTATGAAAATATTAATAAATTAATATTATTTTAATATGAATAA
66 TTTTAAAT-TTTTACTTATTAATTATTAAAATATTAATAAATTAATATTATTTT-AT-TGAATAA
*
10941 ACTTTTATGAACAAAAATAATTGTTTTATGACAAAACAAAAAGTCATAATGATTTGAAATAAATA
128 ACTTTTATGAACAAAAATAATTGTTTTATGACAAAATAAAAAGTCATAATGA-TTGAAATAAATA
*
11006 ATTGTTCAAATAGTCATAACTATTTAAACTTATTCGGTAAATAGATTT
192 ATTGTTCAAATAGTCATAACTATTTGAACTTATTCGGTAAATAGATTT
11054 GAAATAAGTT
Statistics
Matches: 497, Mismatches: 84, Indels: 44
0.80 0.13 0.07
Matches are distributed among these distances:
357 2 0.00
358 18 0.04
359 130 0.26
360 132 0.27
361 199 0.40
362 8 0.02
363 6 0.01
364 2 0.00
ACGTcount: A:0.43, C:0.07, G:0.08, T:0.43
Consensus pattern (356 bp):
ATTTGAAATAGATAATTATTTAAATAGTTATAACTATTTGAATTTATTTGATAAATATATTTATT
TTTTAAATTTTTACTTATTAATTATTAAAATATTAATAAATTAATATTATTTTATTGAATAAACT
TTTATGAACAAAAATAATTGTTTTATGACAAAATAAAAAGTCATAATGATTGAAATAAATAATTG
TTCAAATAGTCATAACTATTTGAACTTATTCGGTAAATAGATTTATGTTTTAAATCTTTAACTCA
TTAATTGTTTGAAATTTAATAAATTAATATTATTTTATTCTAAATAAGCCTATATAAATAGAAAC
AATTGGTGTATAACAAAAAAAAGTCAAAACA
Found at i:11351 original size:301 final size:301
Alignment explanation
Indices: 10811--11352 Score: 680
Period size: 301 Copynumber: 1.8 Consensus size: 301
10801 GATTAAAACA
* ** * * * *
10811 ATTTGAAATAGATAATTATTTAAATAGTTATTACTATTTGAATTTATTTGATAAACATATTTATT
1 ATTTGAAATAGATAATTATTCAAATAGCCATAACTATTTGAATTTATTAGATAAACAAATTCATT
* * * * *
10876 TTTTAAATCTTTTACTTATTAATTATGAAAATATTAATAAATTAATATTATTTTAATATGAATAA
66 TTTTAAATCTCTTACTTATAAATTATGAAAATATTAATAAATTAAAATTATGTTAATATAAATAA
* * *
10941 ACTTTTATGAACAAAAATAATTGTTTTATGACAAAACAAAAAGTCATAATGATTTGAAATAAATA
131 ACTTGTACGAACAAAAACAATTGTTTTATGACAAAACAAAAAGTCATAATGATTTGAAATAAATA
* * *
11006 ATTGTTCAAATAGTCATAACTATTTAAACTTATTCGGTAAATAGATTTGAAATAAGTTTGTATAA
196 ATTGTTCAAACAGTCATAACTATTTAAACTTAATCGGCAAATAGATTTGAAATAAGTTTGTATAA
11071 ATAGAAAAAATTGTTTTATAACAAAACATAAGGTCATAGCT
261 ATAGAAAAAATTGTTTTATAACAAAACATAAGGTCATAGCT
* * * *
11112 ATTTGAAATAGATAATTGTTCAAATAGCCATAATTATTTGAATTTGTTCAG-TAAATAAATTCAT
1 ATTTGAAATAGATAATTATTCAAATAGCCATAACTATTTGAATTTATT-AGATAAACAAATTCAT
* * *
11176 TTTTTAAATCTCTTACTTGTAAATTTTTG-AAATATTAATAAATTAGAAATT-TGTT-ATTTCAA
65 TTTTTAAATCTCTTACTTATAAA-TTATGAAAATATTAATAAATTA-AAATTATGTTAATAT-AA
* * * * *
11238 ATAAACTTGTACGAACAAAAACAATTGTTTTGTGACAAAGCAAAATGTTATAATGATTTGAAATT
127 ATAAACTTGTACGAACAAAAACAATTGTTTTATGACAAAACAAAAAGTCATAATGATTTGAAATA
* * * * * *
11303 GATATTTGTTCAAGCGGTCATGACTATTTACAC-TAATCAGGCAAATAGAT
192 AATAATTGTTCAAACAGTCATAACTATTTAAACTTAATC-GGCAAATAGAT
11353 ACATTTTTTA
Statistics
Matches: 200, Mismatches: 36, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
300 7 0.04
301 184 0.92
302 9 0.05
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (301 bp):
ATTTGAAATAGATAATTATTCAAATAGCCATAACTATTTGAATTTATTAGATAAACAAATTCATT
TTTTAAATCTCTTACTTATAAATTATGAAAATATTAATAAATTAAAATTATGTTAATATAAATAA
ACTTGTACGAACAAAAACAATTGTTTTATGACAAAACAAAAAGTCATAATGATTTGAAATAAATA
ATTGTTCAAACAGTCATAACTATTTAAACTTAATCGGCAAATAGATTTGAAATAAGTTTGTATAA
ATAGAAAAAATTGTTTTATAACAAAACATAAGGTCATAGCT
Found at i:12244 original size:324 final size:325
Alignment explanation
Indices: 11643--12262 Score: 713
Period size: 324 Copynumber: 1.9 Consensus size: 325
11633 TAATGATTTA
* **
11643 AAATAGATAAATTGTTCAAATATTCATAATTATTTAAACTACTTCGGCTAACAAAATTATATTTT
1 AAATAGATAAATTGTTCAAATATTCATAATTATTTAAACTAATTCGAATAACAAAATTATATTTT
* * * *
11708 TAATCTCTTACTTATTAATTTTTGAAATATTAATACAGTTAATTTATTTTATTCTAAATAAGTTA
66 TAATCTCTTACGTATAAATTTTTCAAATATTAATACAATTAATTTATTTTATTCTAAATAAGTTA
* * * *** * *
11773 GTAAGAGCTAAAAAAATTGCTTTTCAATAAAATAAAATGTCATAAGTTTTTGAAATAGAAAATTT
131 GTAAGAGCTAAAAAAATTGCTTTTCAACAAAACAAAAGGTCATAACAATTTAAAATAGAAAATTA
* * * * *** * * *
11838 TTTATATAGCCTTAACCATTTGAAGTGGTTTGGCAAACAAATTTAATTTTTAATTTTCTTAGTTA
196 TTCATATAGCCTTAACCATTTAAACTGATTCAACAAACAAATTTAATTTCTAAATCTCTTAGTTA
* *
11903 TTAATTGTCAAAATATTATTTGA-TTAGTATTATTTTATGACAAAATAAAAGGTTATAACAAATT
261 TGAATTGTCAAAATATTA-TTAATTTAGTATTATTTTATGACAAAATAAAAGGTTATAACAAATT
11967 G
325 G
* * *
11968 AAATATAT-AATTGTTCAAATAGTT-ATAATTATTTGAACTAATTC-AATAAATAAAATTAT-TT
1 AAATAGATAAATTGTTCAAATA-TTCATAATTATTTAAACTAATTCGAAT-AACAAAATTATATT
* *
12029 TTTAAATCTCTTACGTATAAATTTTTCAAATATTAATA-AATTAGTTTTATTTTATTAC-GAATA
64 TTT-AATCTCTTACGTATAAATTTTTCAAATATTAATACAATTA-ATTTATTTTATT-CTAAATA
* * *
12092 AGCTT-GTATA-AGCTGAAATAATTG-TTTTATAACAAAACAAAAGGTCATAACAATTTAAAATA
126 AG-TTAGTA-AGAGCTAAAAAAATTGCTTTT-CAACAAAACAAAAGGTCATAACAATTTAAAATA
* * * *
12154 GATAATTATTCATATAGTCTTAACTATTTAAACTGATTCAACAAACAAATTTACTTTCTAAATCT
188 GAAAATTATTCATATAGCCTTAACCATTTAAACTGATTCAACAAACAAATTTAATTTCTAAATCT
*
12219 CTTAGTTATGAATT-TCTAGAATATTATTAATTTAGTATTATTTT
253 CTTAGTTATGAATTGTC-AAAATATTATTAATTTAGTATTATTTT
12263 TTTGAATAAA
Statistics
Matches: 245, Mismatches: 40, Indels: 21
0.80 0.13 0.07
Matches are distributed among these distances:
323 19 0.08
324 213 0.87
325 13 0.05
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (325 bp):
AAATAGATAAATTGTTCAAATATTCATAATTATTTAAACTAATTCGAATAACAAAATTATATTTT
TAATCTCTTACGTATAAATTTTTCAAATATTAATACAATTAATTTATTTTATTCTAAATAAGTTA
GTAAGAGCTAAAAAAATTGCTTTTCAACAAAACAAAAGGTCATAACAATTTAAAATAGAAAATTA
TTCATATAGCCTTAACCATTTAAACTGATTCAACAAACAAATTTAATTTCTAAATCTCTTAGTTA
TGAATTGTCAAAATATTATTAATTTAGTATTATTTTATGACAAAATAAAAGGTTATAACAAATTG
Found at i:12911 original size:181 final size:181
Alignment explanation
Indices: 12530--13537 Score: 756
Period size: 181 Copynumber: 5.6 Consensus size: 181
12520 GTATGTTGAA
** ** * *
12530 AAACAATTGTTTTATGACAAAATGAAAGGT-AATAACGATTTGAAATAGATAATTGTTCAAAT-G
1 AAACAATTGTTTTATGACAAAACAAAAATTCAA-AATGATTTGAAATAGATAATTATTCAAATAG
* * * * **
12593 ACCATAATTATTTAAACTAAG-TTAGTAAACTGATTTATTTTTTAAA--TC-T-C---TTAA-TT
65 -TCATAACTATTTGAACT-TGTTTAGTAAACAAATTTATTTTTTAAATCTCTTGCTTATTAATTT
* * * * * * *
12649 TTCAAAATATTAGGA-AAAGTAGTATTATTTTATTTTGGATAAACTTTTGTGAACTA
128 TTCAAAA-GTTA--ATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGAACTG
* * * *
12705 AAACAAATGTTTTATGACAAAACAAAAATTCACAATGATTTTAAATAGATAATTGTTCAAATAGT
1 AAACAATTGTTTTATGACAAAACAAAAATTCAAAATGATTTGAAATAGATAATTATTCAAATAGT
* * * * *
12770 CATAACTATTT-AACTTGTTTGGTAAACAAATTTAGTTTTTCAAATATCCTGCTTATTAATCTTT
66 CATAACTATTTGAACTTGTTTAGTAAACAAATTTA-TTTTTTAAATCTCTTGCTTATTAATTTTT
*
12834 CAAAAGTTAATAAATTAGTATTATTTTCTTTTGAATAAGCTTGTATGAACTG
130 CAAAAGTTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGAACTG
* ** ** * * *
12886 AAACAATTATTTTATGATTAAACAAAAGGTCAAAACGATTTGAAATAGATAATTATTCTAATAAT
1 AAACAATTGTTTTATGACAAAACAAAAATTCAAAATGATTTGAAATAGATAATTATTCAAATAGT
* * * * * *
12951 CTTAACTATTTGAA-TTGATTAGCAAACACATTTTATTTTTTAAATCTCTTACTTACTAA-TTTT
66 CATAACTATTTGAACTTGTTTAGTAAACA-AATTTATTTTTTAAATCTCTTGCTTATTAATTTTT
* * * * * **
13014 CAAAATATTATTAAATTAGTATTATTTT-TATGTGAATCAGCTTATATGATA-AA
130 CAAAA-GTTAATAAATTAGTATTATTTTAT-TTTGAATAAGCTTGTATGA-ACTG
* * * * * * *
13067 AAACAATTGTTTTATAACAAAACAAAGA-TCATAACGATTTGAGATTA-ATATTTATTCAAACAG
1 AAACAATTGTTTTATGACAAAACAAAAATTCAAAATGATTTGA-AATAGATAATTATTCAAATAG
* * ** * *
13130 TCATAACTATTAGAAC-TGCTTT-GAAAAACAGCTTTAGTTTTTAAATCTCTTGCTTAATAATTT
65 TCATAACTATTTGAACTTG-TTTAG-TAAACAAATTTATTTTTTAAATCTCTTGCTTATTAATTT
* * ** ** * *
13193 TTGAAATA-TTAATAAAGTAGTATTATTTTATTTCAAATAAATTTTTATTAACTG
128 TTCAAA-AGTTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGAACTG
* * * * * * *
13247 AAATAATTGTTTTATGACAAAA-TAAAATGTCAAAATAATTTTAAACAGATAATTGTTTAAATAG
1 AAACAATTGTTTTATGACAAAACAAAAAT-TCAAAATGATTTGAAATAGATAATTATTCAAATAG
* * * * *
13311 TCATATCTATTTGAAATTATTCAGTAAACAGATTTATTTTTTAAATCTCTTG-TT-TTAATTTTT
65 TCATAACTATTTGAACTTGTTTAGTAAACAAATTTATTTTTTAAATCTCTTGCTTATTAATTTTT
** * *
13374 TGAATGTTAATAAATTAGTATTATTTTATTTTAAATAAGCTTGTATGAACTG
130 CAAAAGTTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGAACTG
* ** * * ** *
13426 AAATAATTGTTTTATGACTGAACAAAAGAAT-AGAATGATTTGAAATAGATAATTATTCTCATAA
1 AAACAATTGTTTTATGACAAAACAAAA-ATTCAAAATGATTTGAAATAGATAATTATTCAAATAG
* * ** * *
13490 TCTTAACTATTTGAACTAGTTCGGCT-AATATATTTATTTTTTAAATCT
65 TCATAACTATTTGAACTTGTTTAG-TAAACAAATTTATTTTTTAAATCT
13538 TATTAATTTT
Statistics
Matches: 657, Mismatches: 141, Indels: 66
0.76 0.16 0.08
Matches are distributed among these distances:
173 1 0.00
174 17 0.03
175 70 0.11
176 2 0.00
177 2 0.00
178 1 0.00
179 137 0.21
180 135 0.21
181 266 0.40
182 18 0.03
183 8 0.01
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.42
Consensus pattern (181 bp):
AAACAATTGTTTTATGACAAAACAAAAATTCAAAATGATTTGAAATAGATAATTATTCAAATAGT
CATAACTATTTGAACTTGTTTAGTAAACAAATTTATTTTTTAAATCTCTTGCTTATTAATTTTTC
AAAAGTTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGAACTG
Found at i:13262 original size:361 final size:360
Alignment explanation
Indices: 12500--13400 Score: 809
Period size: 361 Copynumber: 2.5 Consensus size: 360
12490 AGTACTAACA
* * * * **
12500 ATTTTATTTCATATAAGCTTGTATG--TTGAAAAACAATTGTTTTATGACAAAATGAAAGGT-AA
1 ATTTTATTTCAAATAAACTTGTATGAACTG--AAACAATTATTTTATGACAAAACAAAAGGTCAA
* * * * * * * * * **
12562 TAACGATTTGAAATAGATAATTGTTCAAATGACCATAATTATTT-AAACTAAGTT-AGTAAACTG
64 -AACAATTTGAAACAGATAATTATTTAAATAATCATAACTATTTGAAA-TTA-TTCAGCAAACAC
*
12625 ATTTATTTTTTAAA--TC-TC-T-TAATTTTCAAAATATTAGGA-AAAGTAGTATTA-TTTTATT
126 ATTTATTTTTTAAATCTCTTCTTCTAATTTTCAAAATATTA--ATAAATTAGTATTATTTTTA-T
* * * * * * * * * *
12683 TTGGATAAACTTTTGTGA-ACTAAAACAAATGTTTTATGACAAAACAAAAATTCACAATGATTTT
188 GTGAATCAGCTTATATGATA-AAAAACAAATGTTTTATAACAAAACAAAAATTCACAACGATTTG
* * * **
12747 AAATAGATAATTGTTCAAATAGTCATAACTATTTAACTTGTTTGGTAAACAAATTTAGTTTTTCA
252 AAATAGATAATTATTCAAACAGTCATAACTATTGAACTTGTTTGAAAAACAAATTTAGTTTTTCA
* *
12812 AATATCCTGCTTATTAATCTTTCAAAAGTTAATAAATTAGTATT
317 AATATCCTGCTTAATAATCTTTCAAAAGTTAATAAAGTAGTATT
* ** * **
12856 ATTTTCTTTTGAATAAGCTTGTATGAACTGAAACAATTATTTTATGATTAAACAAAAGGTCAAAA
1 ATTTTATTTCAAATAAACTTGTATGAACTGAAACAATTATTTTATGACAAAACAAAAGGTCAAAA
* * *
12921 CGATTTGAAATAGATAATTATTCT-AATAATCTTAACTATTTG-AATTGATT-AGCAAACACATT
66 CAATTTGAAACAGATAATTATT-TAAATAATCATAACTATTTGAAATT-ATTCAGCAAACACA-T
*
12983 TTATTTTTTAAATCTCTTACTTACTAATTTTCAAAATATTATTAAATTAGTATTATTTTTATGTG
128 TTATTTTTTAAATCTCTT-CTT-CTAATTTTCAAAATATTAATAAATTAGTATTATTTTTATGTG
* * * *
13048 AATCAGCTTATATGATAAAAAACAATTGTTTTATAACAAAACAAAGA-TCATAACGATTTGAGAT
191 AATCAGCTTATATGATAAAAAACAAATGTTTTATAACAAAACAAAAATTCACAACGATTTGA-AA
* **
13112 TA-ATATTTATTCAAACAGTCATAACTATTAGAAC-TGCTTTGAAAAACAGCTTTAGTTTTT-AA
255 TAGATAATTATTCAAACAGTCATAACTATT-GAACTTG-TTTGAAAAACAAATTTAGTTTTTCAA
* * * *
13174 ATCTCTTGCTTAATAATTTTTGAAATA-TTAATAAAGTAGTATT
318 ATATCCTGCTTAATAATCTTTCAAA-AGTTAATAAAGTAGTATT
* * * * * * *
13217 ATTTTATTTCAAATAAATTTTTATTAACTGAAATAATTGTTTTATGACAAAATAAAATGTCAAAA
1 ATTTTATTTCAAATAAACTTGTATGAACTGAAACAATTATTTTATGACAAAACAAAAGGTCAAAA
* * * * * * *
13282 TAATTTTAAACAGATAATTGTTTAAATAGTCATATCTATTTGAAATTATTCAGTAAACAGATTTA
66 CAATTTGAAACAGATAATTATTTAAATAATCATAACTATTTGAAATTATTCAGCAAACACATTTA
* * *** *
13347 TTTTTTAAATCTCTTGTTTTAATTTTTTGAATGTTAATAAATTAGTATTATTTT
131 TTTTTTAAATCTCTTCTTCTAATTTTCAAAATATTAATAAATTAGTATTATTTT
13401 ATTTTAAATA
Statistics
Matches: 441, Mismatches: 80, Indels: 45
0.78 0.14 0.08
Matches are distributed among these distances:
355 10 0.02
356 98 0.22
357 2 0.00
358 4 0.01
359 31 0.07
360 4 0.01
361 181 0.41
362 88 0.20
363 23 0.05
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.42
Consensus pattern (360 bp):
ATTTTATTTCAAATAAACTTGTATGAACTGAAACAATTATTTTATGACAAAACAAAAGGTCAAAA
CAATTTGAAACAGATAATTATTTAAATAATCATAACTATTTGAAATTATTCAGCAAACACATTTA
TTTTTTAAATCTCTTCTTCTAATTTTCAAAATATTAATAAATTAGTATTATTTTTATGTGAATCA
GCTTATATGATAAAAAACAAATGTTTTATAACAAAACAAAAATTCACAACGATTTGAAATAGATA
ATTATTCAAACAGTCATAACTATTGAACTTGTTTGAAAAACAAATTTAGTTTTTCAAATATCCTG
CTTAATAATCTTTCAAAAGTTAATAAAGTAGTATT
Found at i:13744 original size:8 final size:8
Alignment explanation
Indices: 13731--13756 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
13721 TATTAATAAT
13731 TATTTAAA
1 TATTTAAA
13739 TATTTAAA
1 TATTTAAA
13747 TATTTAAA
1 TATTTAAA
13755 TA
1 TA
13757 ATAAATAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
TATTTAAA
Found at i:13756 original size:28 final size:30
Alignment explanation
Indices: 13675--13758 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 30
13665 TATTAATACG
13675 ATATATATT-AATATTTAAACTAATTTATTTA
1 ATATATATTAAATATTTAAA-TAA-TTATTTA
*
13706 ATATATAATTAAAAATATT-AATAATTATTTA
1 ATATAT-ATTAAATAT-TTAAATAATTATTTA
13737 A-ATAT-TTAAATATTTAAATAAT
1 ATATATATTAAATATTTAAATAAT
13759 AAATAATAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
27 2 0.04
28 13 0.28
30 4 0.09
31 14 0.30
32 6 0.13
33 6 0.13
34 2 0.04
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (30 bp):
ATATATATTAAATATTTAAATAATTATTTA
Found at i:14710 original size:357 final size:355
Alignment explanation
Indices: 14336--14981 Score: 786
Period size: 358 Copynumber: 1.8 Consensus size: 355
14326 TATTTTGACA
**
14336 TTTTGTTTTGTCATAAAACAATTGTTTTAGTTAATAAAAAATTA-TCTAAAACAAAATAATACTA
1 TTTTGTTTAATCATAAAACAATTGTTTTAGTTAATAAAAAATTATTC-AAAACAAAATAATACTA
* * * * *
14400 CTTTATTAA-TATTTCAAAAATTATTAAACAAGAGATT-TAAAAACTAAAGCTATTTTTCAAAGC
65 ATTTATTAACT-TTTCAAAAATTAATAAACAAGAGATTGGAAAAACTAAAGCTATTTATCAAA-A
* **
14463 AA-TT-ATAATAGTAATGACTATTTGAACAAATAT-TAATATCAAATTGTTATG-ATCTTTGTTT
128 AAGTTCA-AATAGTAATGACTATTTGAACAAATATCT-ATATAAAATCATTATGAATCTTTGTTT
** * * *
14524 TATCATAAAACAATTGTTTTTTTATCACATAAGCTAATTC-AGATAAAAATAATACTAATTTTAA
191 TATCATAAAACAATTGTTTTAGT-TCACAAAAGCTAATCCAAAAT-AAAATAATACTAATTTTAA
14588 TAATATTTTAAAAATTAATAAGAGATTTAAAAAATAAATGTGTTTGTCGATCAGTTCAAATAGTT
254 TAATATTTTAAAAA-T--TAAGAGATTTAAAAAATAAATGTGTTTGTCGATCAGTTCAAATAGTT
14653 AAGATTATTGAATAATTATCTATTTCAAATCGCTCTAACC
316 AAGATTATTGAATAATTATCTATTTCAAATCGCTCTAACC
* * * ** * *
14693 TTTTGTTTAATCATAAAATAATTGTTTTAGTTCATACAAGCTTATTCGAAAGAAAATAATACTAA
1 TTTTGTTTAATCATAAAACAATTGTTTTAGTTAATAAAAAATTATTCAAAACAAAATAATACTAA
* * * * * * *
14758 TTTATTAACTTTTGAAAGATTAATAAGCAGGATATTGGAAAAACTAAATCTGTTTATCAAAAAAG
66 TTTATTAACTTTTCAAAAATTAATAAACAAGAGATTGGAAAAACTAAAGCTATTTATCAAAAAAG
* * * * * *
14823 TTCAAATAGTTATGACTATTTGAATAATTATCTATTTAAAATCATTGTGAATTTTTGTTTTATCA
131 TTCAAATAGTAATGACTATTTGAACAAATATCTATATAAAATCATTATGAATCTTTGTTTTATCA
* * * **
14888 TAAAACAATTGTTTTAGTTCACAAAAGTTTATCCAAAATAAAATAATACTACTTTTCTTAATATT
196 TAAAACAATTGTTTTAGTTCACAAAAGCTAATCCAAAATAAAATAATACTAATTTTAATAATATT
14953 TTAAAAATTAAGAGATTTAAAAAATAAAT
261 TTAAAAATTAAGAGATTTAAAAAATAAAT
14982 CAGTTTACTG
Statistics
Matches: 241, Mismatches: 40, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
355 21 0.09
357 83 0.34
358 102 0.42
359 35 0.15
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (355 bp):
TTTTGTTTAATCATAAAACAATTGTTTTAGTTAATAAAAAATTATTCAAAACAAAATAATACTAA
TTTATTAACTTTTCAAAAATTAATAAACAAGAGATTGGAAAAACTAAAGCTATTTATCAAAAAAG
TTCAAATAGTAATGACTATTTGAACAAATATCTATATAAAATCATTATGAATCTTTGTTTTATCA
TAAAACAATTGTTTTAGTTCACAAAAGCTAATCCAAAATAAAATAATACTAATTTTAATAATATT
TTAAAAATTAAGAGATTTAAAAAATAAATGTGTTTGTCGATCAGTTCAAATAGTTAAGATTATTG
AATAATTATCTATTTCAAATCGCTCTAACC
Found at i:14881 original size:182 final size:176
Alignment explanation
Indices: 13936--14988 Score: 835
Period size: 176 Copynumber: 5.9 Consensus size: 176
13926 TATTAATATA
* * * * * *
13936 AGTTATGACTATTTGAACAATTATCTATCTCAAATCATAATGATCTTTATTTTGTCATACAACAA
1 AGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGATTTTTGTTTTATCATAAAACAA
*** * * * * *
14001 TTGTTTCCTTTCATACAAGCTTATTTGGATTAAAATGATACTAATTTAATAATATTTCAAAAATT
66 TTGTTTTAGTTCATACAAGCTTATTCGAAATAAAATAATACTAATTTATTAATATTTCAAAAATT
* * ** *
14066 AATAAGAGATTTACAAAATAAATATG-TTAGTTGAACTAGTTCAAAT
131 AATAAGAGATTTAAAAAATAAATCTGTTTA-TCAAACAAGTTCAAAT
* * ** * * *
14112 AGTTAAGGCTATCAGAATAATTATCTATTTCAAATCATTCT-ATCCTTTTG-TTTAGTCAT-AAG
1 AGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGAT--TTTTGTTTTA-TCATAAAA
* * * * * *
14174 GAATTATTTTTGTTCATACAAGCTTATTTGGAATAAAATAATACTAATTTATTAACA-TTCGAAA
63 CAATTGTTTTAGTTCATACAAGCTTATTCGAAATAAAATAATACTAATTTATTAATATTTC-AAA
* *
14238 AATTAAAGTAAGAGATTTAAAAAAATAAATCTGTTTA-CTAAGCAATTTCAAAT
127 AATT-AA-TAAGAGATTT-AAAAAATAAATCTGTTTATC-AAACAAGTTCAAAT
* * * * * * *
14291 AGATATGACTATTTAAACAATTATCTATTTAAAATTATTTTGACATTTTGTTTTGTCATAAAACA
1 AGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGA-TTTTTGTTTTATCATAAAACA
* * ** * * *
14356 ATTGTTTTAGTTAATAAAAAATTA-TCTAAAACAAAATAATACTACTTTATTAATATTTCAAAAA
65 ATTGTTTTAGTTCATACAAGCTTATTC-GAAATAAAATAATACTAATTTATTAATATTTC-AAAA
* * * * *
14420 TTATTAAACAAGAGATTTAAAAACTAAAGCTATTTTTCAAAGCAA-TT-ATAAT
128 --ATT-AATAAGAGATTTAAAAAATAAATCTGTTTATCAAA-CAAGTTCA-AAT
* * * ** *
14472 AGTAATGACTATTTGAACAAATAT-TAATATCAAATTGTTATGATCTTTGTTTTATCATAAAACA
1 AGTTATGACTATTTGAACAATTATCT-ATTTCAAATCATTATGATTTTTGTTTTATCATAAAACA
** * * * * * *
14536 ATTGTTTTTTTATCACATAAGCTAATTC-AGATAAAAATAATACTAATTTTAATAATATTTTAAA
65 ATTGTTTTAGT-TCATACAAGCTTATTCGAAAT-AAAATAATACTAA-TTTATTAATATTTCAAA
* * * *
14600 AATTAATAAGAGATTTAAAAAATAAATGTGTTTGTCGATC-AGTTCAAAT
127 AATTAATAAGAGATTTAAAAAATAAATCTGTTTATCAAACAAGTTCAAAT
* * * ** * * * * *
14649 AGTTAAGATTA-TTGAATAATTATCTATTTCAAATCGCTCTAACCTTTTGTTTAATCATAAAATA
1 AGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGA-TTTTTGTTTTATCATAAAACA
* * *
14713 ATTGTTTTAGTTCATACAAGCTTATTCGAAAGAAAATAATACTAATTTATTAACT-TTTGAAAGA
65 ATTGTTTTAGTTCATACAAGCTTATTCGAAATAAAATAATACTAATTTATTAA-TATTTCAAAAA
* *
14777 TTAATAAGCAGGATATTGGAAAAACTAAATCTGTTTATCAAAAAAGTTCAAAT
129 TTAATAAG-A-GAT-TT--AAAAAATAAATCTGTTTATCAAACAAGTTCAAAT
* * *
14830 AGTTATGACTATTTGAATAATTATCTATTTAAAATCATTGTGAATTTTTGTTTTATCATAAAACA
1 AGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATG-ATTTTTGTTTTATCATAAAACA
* * * * * * * *
14895 ATTGTTTTAGTTCACAAAAGTTTATCCAAAATAAAATAATACTACTTTTCTTAATATTTTAAAAA
65 ATTGTTTTAGTTCATACAAGCTTATTCGAAATAAAATAATACTA-ATTTATTAATATTTCAAAAA
*
14960 -T--TAAGAGATTTAAAAAATAAATCAGTTTA
129 TTAATAAGAGATTTAAAAAATAAATCTGTTTA
14989 CTGACTTAGT
Statistics
Matches: 690, Mismatches: 146, Indels: 83
0.75 0.16 0.09
Matches are distributed among these distances:
175 43 0.06
176 143 0.21
177 57 0.08
178 43 0.06
179 67 0.10
180 104 0.15
181 102 0.15
182 110 0.16
183 21 0.03
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.40
Consensus pattern (176 bp):
AGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGATTTTTGTTTTATCATAAAACAA
TTGTTTTAGTTCATACAAGCTTATTCGAAATAAAATAATACTAATTTATTAATATTTCAAAAATT
AATAAGAGATTTAAAAAATAAATCTGTTTATCAAACAAGTTCAAAT
Found at i:15048 original size:16 final size:16
Alignment explanation
Indices: 15010--15048 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
15000 TATTTTTTAG
15010 TAATCTATTATATAAAA
1 TAAT-TATTATATAAAA
* *
15027 TTATTATTATATATAA
1 TAATTATTATATAAAA
15043 TAATTA
1 TAATTA
15049 ATAAATTGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 16 0.84
17 3 0.16
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (16 bp):
TAATTATTATATAAAA
Found at i:15278 original size:20 final size:18
Alignment explanation
Indices: 15253--15296 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 18
15243 ATAATTCTTT
15253 AAATTATTTTAAAATAATTA
1 AAATTA-TTT-AAATAATTA
*
15273 AAATTATTTATATAATTA
1 AAATTATTTAAATAATTA
15291 AAATTA
1 AAATTA
15297 ACTAAATTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.61
19 3 0.13
20 6 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AAATTATTTAAATAATTA
Found at i:15988 original size:14 final size:14
Alignment explanation
Indices: 15969--15998 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
15959 AATAATTAAG
*
15969 ATAATAATATATTT
1 ATAATAATATAATT
15983 ATAATAATATAATT
1 ATAATAATATAATT
15997 AT
1 AT
15999 TTAGTTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATAATATAATT
Found at i:16219 original size:16 final size:16
Alignment explanation
Indices: 16156--16224 Score: 59
Period size: 16 Copynumber: 4.1 Consensus size: 16
16146 GATTATAAAA
* *
16156 TTAAATAAAATAATAT
1 TTAAATAAATTATTAT
*
16172 TTAAAATAAATAATT-T
1 TT-AAATAAATTATTAT
*
16188 ATTAATCATGAATTATTAT
1 -TTAA--ATAAATTATTAT
16207 TTAAATAAATTATTAT
1 TTAAATAAATTATTAT
16223 TT
1 TT
16225 TATTTATATT
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
16 18 0.43
17 11 0.26
18 12 0.29
19 1 0.02
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (16 bp):
TTAAATAAATTATTAT
Found at i:16485 original size:23 final size:24
Alignment explanation
Indices: 16455--16502 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
16445 TTATTTTAAT
*
16455 TATAATTAATTGAA-TTATATTTA
1 TATAATTAATTGAATTTATAATTA
*
16478 TATAATTAATTTAATTTATAATTA
1 TATAATTAATTGAATTTATAATTA
16502 T
1 T
16503 TTATTTTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
TATAATTAATTGAATTTATAATTA
Found at i:17604 original size:18 final size:18
Alignment explanation
Indices: 17581--17731 Score: 53
Period size: 18 Copynumber: 8.1 Consensus size: 18
17571 ATTTGGCTAT
17581 TATAATTTAATATATTAA
1 TATAATTTAATATATTAA
17599 TATAATTTCAAT-T-TTAA
1 TATAATTT-AATATATTAA
* * *
17616 -ACTAATAGTCATATATTAG
1 TA-TAAT-TTAATATATTAA
* *
17635 T-TAATATTTATAATATTAT
1 TATAAT-TTAAT-ATATTAA
* *
17654 TACT-ATTTATTATAATAA
1 TA-TAATTTAATATATTAA
* *
17672 T-TAATTTATATAGTATCATG
1 TATAATTTA-ATA-TATTA-A
* *
17692 TAATAATTTAATACATTAT
1 T-ATAATTTAATATATTAA
*
17711 TATAATTAAATATTATTAA
1 TATAATTTAATA-TATTAA
17730 TA
1 TA
17732 ATATTTTATG
Statistics
Matches: 97, Mismatches: 20, Indels: 31
0.66 0.14 0.21
Matches are distributed among these distances:
16 2 0.02
17 15 0.15
18 37 0.38
19 26 0.27
20 6 0.06
21 4 0.04
22 7 0.07
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.49
Consensus pattern (18 bp):
TATAATTTAATATATTAA
Found at i:17784 original size:13 final size:13
Alignment explanation
Indices: 17754--17811 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
17744 TCATATTAAT
*
17754 TATTATAATATGTA
1 TATTATAAT-TTTA
17768 -ATTATAATTTTA
1 TATTATAATTTTA
*
17780 TATTAT-ATATTA
1 TATTATAATTTTA
*
17792 TATAATAATTATT-
1 TATTATAATT-TTA
17805 TATTATA
1 TATTATA
17812 TAATTTAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
12 13 0.36
13 21 0.58
14 2 0.06
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (13 bp):
TATTATAATTTTA
Found at i:17799 original size:25 final size:25
Alignment explanation
Indices: 17748--17813 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 25
17738 TATGAATCAT
* *
17748 ATTAATTATTATAATATGTAATTATA
1 ATTATTTATTAT-ATATGTAATAATA
17774 ATT-TTATATTATATAT-TATATAATA
1 ATTATT-TATTATATATGTA-ATAATA
17799 ATTATTTATTATATA
1 ATTATTTATTATATA
17814 ATTTAATTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
24 2 0.06
25 22 0.63
26 11 0.31
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (25 bp):
ATTATTTATTATATATGTAATAATA
Found at i:17808 original size:18 final size:18
Alignment explanation
Indices: 17781--17815 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
17771 ATAATTTTAT
17781 ATTATATATTATATAATA
1 ATTATATATTATATAATA
*
17799 ATTATTTATTATATAAT
1 ATTATATATTATATAAT
17816 TTAATTTGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTATATATTATATAATA
Found at i:17914 original size:13 final size:12
Alignment explanation
Indices: 17868--17919 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 12
17858 ATTGTTTGAC
17868 AATAATAATTAAT
1 AATAAT-ATTAAT
17881 AA-AATATTAAT
1 AATAATATTAAT
17892 AATAACTATTAACT
1 AATAA-TATTAA-T
*
17906 ATTAATATT-AT
1 AATAATATTAAT
17917 AAT
1 AAT
17920 TAATTATAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
11 11 0.32
12 6 0.18
13 12 0.35
14 5 0.15
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (12 bp):
AATAATATTAAT
Found at i:19156 original size:27 final size:27
Alignment explanation
Indices: 19069--19156 Score: 70
Period size: 27 Copynumber: 3.1 Consensus size: 27
19059 GAACCTTTTG
* *
19069 TTTAATTAAATAGTATTATTATATTAATAAT
1 TTTAATTAATTA--ATTATTA-ATT-ATAAA
* * *
19100 TTTAGTTACATTAAATATTAAGTA-ATAA
1 TTTAATTA-ATTAATTATTAATTATA-AA
19128 TTTAATTAATTAATTATTAATTATAAA
1 TTTAATTAATTAATTATTAATTATAAA
19155 TT
1 TT
19157 ATACATTTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 10
0.72 0.12 0.16
Matches are distributed among these distances:
27 18 0.39
28 10 0.22
29 2 0.04
30 6 0.13
31 7 0.15
32 3 0.07
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.50
Consensus pattern (27 bp):
TTTAATTAATTAATTATTAATTATAAA
Found at i:19606 original size:25 final size:22
Alignment explanation
Indices: 19584--19631 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 22
19574 AATTTATAAT
*
19584 ATAATTATTATATATTATATATAAA
1 ATAA-TATT-TATAGTA-ATATAAA
19609 ATAATATTTATAGTAATATAAA
1 ATAATATTTATAGTAATATAAA
19631 A
1 A
19632 CAATTGTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 8 0.36
23 6 0.27
24 4 0.18
25 4 0.18
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
ATAATATTTATAGTAATATAAA
Found at i:20149 original size:21 final size:20
Alignment explanation
Indices: 20098--20153 Score: 51
Period size: 21 Copynumber: 2.8 Consensus size: 20
20088 TTCTAATTTT
* *
20098 TTTATTAAATTAATCTTATA
1 TTTATTTAATTAATATTATA
**
20118 TATTAACTAATTAATATTATTA
1 T-TTATTTAATTAATATTA-TA
20140 TTTATTTAA-TAATA
1 TTTATTTAATTAATA
20154 ATTGATATAA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
20 6 0.21
21 19 0.68
22 3 0.11
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTATTTAATTAATATTATA
Found at i:20346 original size:21 final size:22
Alignment explanation
Indices: 20322--20378 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 22
20312 CTAAATATTG
*
20322 ATATATTATTATTAAA-TGAAT
1 ATATATTATTATTAAATTGAAC
*
20343 ATATCAATA-TATTAAATTGAAC
1 ATAT-ATTATTATTAAATTGAAC
*
20365 ATAT-TTATAATTAA
1 ATATATTATTATTAA
20379 TAATGATTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
20 2 0.07
21 16 0.55
22 11 0.38
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.44
Consensus pattern (22 bp):
ATATATTATTATTAAATTGAAC
Found at i:20749 original size:25 final size:25
Alignment explanation
Indices: 20702--20749 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
20692 AAATAGAATT
*
20702 TATTTCAAATAATTTAAACATATAA
1 TATTTCAAATAATTTAAAAATATAA
*
20727 TATTTTAAAT-ATTTATAAAATAT
1 TATTTCAAATAATTTA-AAAATAT
20750 TATAGGAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (25 bp):
TATTTCAAATAATTTAAAAATATAA
Found at i:21053 original size:175 final size:174
Alignment explanation
Indices: 20821--21259 Score: 447
Period size: 182 Copynumber: 2.5 Consensus size: 174
20811 GAAAGGTAAT
* ** * * * **
20821 AACGACTTGAAATAGATAATTGTTCAAATGGTCATAATTATTTAAACTAAGTCAGTAAACTGATT
1 AACGATTTGAAATAGATAATTGTTCAAATAATCATAACTATTTGAACT-TGTCAGTAAACAAATT
* * *
20886 TATTTTTTAAATCTCTTA-AT-TTTTAAAATATTAAGAAAAGTAGTATTATTTTATTTTC-GATA
65 TATTTTTTAAATCTCTTATATCTTTCAAAA-ATTAA-AAAAGTAGTATTATTTT-CTTTCAAATA
* * * *
20948 AACTTTTGTGAACTAAAACAATTGTTTTATGACAAAACAAAAAT-TCAC
127 AACTTGTATGAACTAAAACAATTATTTTATGACAAAAC-AAAATGTCAA
* *
20996 AACGATTTTAAATAGATAATTGTTCAAATATTCATAACTATTTGAACTTGTTCAGTAAACAAATT
1 AACGATTTGAAATAGATAATTGTTCAAATAATCATAACTATTTGAACTTG-TCAGTAAACAAATT
* * * *
21061 TAGTTTTTCAAATATCCTGCTTATTGATCTTTCAAAAGTTAATAAATTAGTATTATTTTCTTTCA
65 TA-TTTTT-TAA-AT-CT-CTTA-T-ATCTTTCAAAAATTAAAAAAGTAGTATTATTTTCTTTCA
* * **
21126 AATAAGCTTGTATGAACTGAAACAATTATTTTATGATTAAACAAAATGTCAA
123 AATAAACTTGTATGAACTAAAACAATTATTTTATGACAAAACAAAATGTCAA
* * * **
21178 AACGATTTGAAATAGATAATTATTCTAATAATCTTAACTATTTGAA-TTGATCAACAAACAAATT
1 AACGATTTGAAATAGATAATTGTTCAAATAATCATAACTATTTGAACTTG-TCAGTAAACAAATT
21242 TATTTTTTAAATCTCTTA
65 TATTTTTTAAATCTCTTA
21260 CTTATTAATT
Statistics
Matches: 219, Mismatches: 33, Indels: 23
0.80 0.12 0.08
Matches are distributed among these distances:
174 1 0.00
175 56 0.26
176 9 0.04
177 4 0.02
178 4 0.02
179 4 0.02
180 9 0.04
181 26 0.12
182 93 0.42
183 6 0.03
184 7 0.03
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.40
Consensus pattern (174 bp):
AACGATTTGAAATAGATAATTGTTCAAATAATCATAACTATTTGAACTTGTCAGTAAACAAATTT
ATTTTTTAAATCTCTTATATCTTTCAAAAATTAAAAAAGTAGTATTATTTTCTTTCAAATAAACT
TGTATGAACTAAAACAATTATTTTATGACAAAACAAAATGTCAA
Found at i:21170 original size:182 final size:179
Alignment explanation
Indices: 20956--21349 Score: 454
Period size: 182 Copynumber: 2.2 Consensus size: 179
20946 TAAACTTTTG
* * * *
20956 TGAACTAAAACAATTGTTTTATGACAAAACAAAAAT-TCACAACGATTTTAAATAGATAATTGTT
1 TGAACTAAAACAATTATTTTATGACAAAAC-AAAATGTCAAAACGATTTGAAATAGATAATTATT
* * ** *
21020 CAAATATTCATAACTATTTGAACTTGTTCAGTAAACAAATTTAGTTTTTCAAATATCCTGCTTAT
65 CAAATAATCATAACTATTTGAA-TTGATCAACAAACAAATTTA-TTTTTCAAATATCCTACTTAT
* *
21085 TGATCTTTCAAAAGTTAATAAATTAG-TATTATTTTCTTTCAAATAAGCTTGTA
128 TAAT-TTTCAAAAATTAATAAATTAGAT-TTATTTTCTTTCAAATAAGCTTGTA
* **
21138 TGAACTGAAACAATTATTTTATGATTAAACAAAATGTCAAAACGATTTGAAATAGATAATTATTC
1 TGAACTAAAACAATTATTTTATGACAAAACAAAATGTCAAAACGATTTGAAATAGATAATTATTC
* * * * *
21203 TAATAATCTTAACTATTTGAATTGATCAACAAACAAATTTATTTTTTAAATCTCTTACTTATTAA
66 AAATAATCATAACTATTTGAATTGATCAACAAACAAATTTATTTTTCAAATATCCTACTTATTAA
* * * * * *
21268 TTTTTAAAAATTATTAAATTAGATTTATTTT-TATCTGAATTAGCTTATA
131 TTTTCAAAAATTAATAAATTAGATTTATTTTCTTTC-AAATAAGCTTGTA
* *
21317 TGATA-AAAAACAATTGTTTTATGACAAAACAAA
1 TGA-ACTAAAACAATTATTTTATGACAAAACAAA
21350 TTGTACGTAA
Statistics
Matches: 178, Mismatches: 30, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
178 3 0.02
179 61 0.34
180 22 0.12
181 22 0.12
182 70 0.39
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (179 bp):
TGAACTAAAACAATTATTTTATGACAAAACAAAATGTCAAAACGATTTGAAATAGATAATTATTC
AAATAATCATAACTATTTGAATTGATCAACAAACAAATTTATTTTTCAAATATCCTACTTATTAA
TTTTCAAAAATTAATAAATTAGATTTATTTTCTTTCAAATAAGCTTGTA
Found at i:21345 original size:21 final size:20
Alignment explanation
Indices: 21315--21353 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
21305 AATTAGCTTA
*
21315 TATGATAAAAAACAATTGTTT
1 TATGACAAAAAA-AATTGTTT
*
21336 TATGACAAAACAAATTGT
1 TATGACAAAAAAAATTGT
21354 ACGTAACTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.33
Consensus pattern (20 bp):
TATGACAAAAAAAATTGTTT
Found at i:22142 original size:181 final size:180
Alignment explanation
Indices: 21405--22460 Score: 711
Period size: 181 Copynumber: 5.9 Consensus size: 180
21395 AATTATTTAA
** * * * * *
21405 TTATTAATATTTCAAAAATTAATAAGT---A-ATTTAAAAGATAAATCTATGTATCAAACTAGTT
1 TTATTAATATTTTGACAATTAATAAGTAAAAGATTTAAAAAATAAATCTATTTACCAAACAAGTT
* * * * *
21466 TAAA-AAGTTATGACTATTTGAGTAATTATTTATTTCAAATCGTTATGACTTTTTGTTCTGTTAT
66 CAAATAA-TTATGACTATTTAAGTAATTATTTATTTCAAAT-GTTATGACCTTTTGTTTTGTCAT
* * * *
21530 AAAACAATTGTTTCTATTTATACAAGCTTATTTGGATTAAAATAATACTAAT
129 AAAAGAATTGTTTCTATTCATACAAGCTTATTCGGAATAAAATAATACTAAT
* ** * * * * *
21582 TTGTTAATATTTTGACAATTAATAAGTAAAA-AGTTTTTAAAATAAATATGTTTACCACACTAGA
1 TTATTAATATTTTGACAATTAATAAGTAAAAGA-TTTAAAAAATAAATCTATTTACCAAACAAGT
* ** * * *
21646 TCAAATAATCACAACAATTTGAA-TAATTATATATTTC--A----ATGACCTTTTGCTTTGTCAT
65 TCAAATAATTATGACTATTT-AAGTAATTATTTATTTCAAATGTTATGACCTTTTGTTTTGTCAT
* * * **
21704 AAAAGAATTGTTTCAATTCATATAAACTTATTCAAAATAAAATAATACTAAT
129 AAAAGAATTGTTTCTATTCATACAAGCTTATTCGGAATAAAATAATACTAAT
* ** * * * * * *
21756 TTATTAATA-ATCCAAAATTTTATAA-TAAAGAGATTTAAAAAAT-GA-CTATTTTCTAAACAAA
1 TTATTAATATTTTGACAA-TTAATAAGTAAA-AGATTTAAAAAATAAATCTATTTACCAAACAAG
* * * * * * *
21817 TTTAAATAATTAGGACTATTTAAATAATTATCTATTTGAAATAGCTATAACCTTTTGTTTTGTCA
64 TTCAAATAATTATGACTATTTAAGTAATTATTTATTTCAAAT-GTTATGACCTTTTGTTTTGTCA
* *
21882 TAAAAGAATTTTTTTTTCTGTTCAT-CTAAGCTTATTTC-GAATAAAATAATAC-ATAT
128 TAAAAGAA---TTGTTTCTATTCATAC-AAGCTTA-TTCGGAATAAAATAATACTA-AT
** * *
21938 TTATTAATATTAAGATAATTAATAAGTAAAAGATTTAAAAAATAAATCTGTTTACCAAACAAGTT
1 TTATTAATATTTTGACAATTAATAAGTAAAAGATTTAAAAAATAAATCTATTTACCAAACAAGTT
* * * * * *
22003 CAAATCATTATGGCTATTTAAGCAATTATTTATTTCAACTTTTTATGACTTTTTGTTTTGTCATA
66 CAAATAATTATGACTATTTAAGTAATTATTTATTTCAA-ATGTTATGACCTTTTGTTTTGTCATA
* * * * * * *
22068 AAATAATTATTTCTGTTTATACAAGTTTATTCGGATTAAAATAATATTAAT
130 AAAGAATTGTTTCTATTCATACAAGCTTATTCGGAATAAAATAATACTAAT
* * * *
22119 TTATAAATATTTTGACAATTAATAACTAAAAGATTTAAAAAATAAATATATTTACTAAACAAGTT
1 TTATTAATATTTTGACAATTAATAAGTAAAAGATTTAAAAAATAAATCTATTTACCAAACAAGTT
* * * * * * * *
22184 CAAATAGTCATGAATATTTGAA-TAATTATCTATTTCAAATCATTATGAACTTTTCTTTTGTAAT
66 CAAATAATTATGACTATTT-AAGTAATTATTTATTTCAAAT-GTTATGACCTTTTGTTTTGTCAT
* * * * * * *
22248 AAAACACTTGTTTCAATTCATATAAGCTTATT-TGAAGTAAGATAGTACTAAT
129 AAAAGAATTGTTTCTATTCATACAAGCTTATTCGGAA-TAAAATAATACTAAT
* * * * * * * * * * * *
22300 TCATTAATATTCTAAAAACTAATGAGTAAGAGAATTAAAAAA-AGAATATGTTTACCGAATAAGT
1 TTATTAATATTTTGACAATTAATAAGTAAAAGATTTAAAAAATA-AATCTATTTACCAAACAAGT
* * * * ** ** ** *
22364 TCAAATAGTTATGACTACATGAA-CAATTAACTATTTCAAAACATTATGATATTTTGTTTTATCA
65 TCAAATAATTATGACTA-TTTAAGTAATTATTTATTTC-AAATGTTATGACCTTTTGTTTTGTCA
* * * * *
22428 TTAAACAATTGGTTCTGTTCATGCAAGCTTATT
128 TAAAAGAATTGTTTCTATTCATACAAGCTTATT
22461 TCAGATAAAG
Statistics
Matches: 680, Mismatches: 162, Indels: 70
0.75 0.18 0.08
Matches are distributed among these distances:
171 2 0.00
172 36 0.05
173 9 0.01
174 83 0.12
175 1 0.00
177 23 0.03
179 26 0.04
180 9 0.01
181 339 0.50
182 71 0.10
183 11 0.02
184 69 0.10
185 1 0.00
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.41
Consensus pattern (180 bp):
TTATTAATATTTTGACAATTAATAAGTAAAAGATTTAAAAAATAAATCTATTTACCAAACAAGTT
CAAATAATTATGACTATTTAAGTAATTATTTATTTCAAATGTTATGACCTTTTGTTTTGTCATAA
AAGAATTGTTTCTATTCATACAAGCTTATTCGGAATAAAATAATACTAAT
Found at i:22646 original size:26 final size:25
Alignment explanation
Indices: 22587--22660 Score: 71
Period size: 26 Copynumber: 2.9 Consensus size: 25
22577 TTTATATATA
22587 ATAATAATAATTATATTA-TAATTATC
1 ATAA-AATAA-TATATTATTAATTATC
* * *
22613 ATATAATAATATATTATCTAATTTTT
1 ATAAAATAATATATTAT-TAATTATC
*
22639 ATAAAATATTATATTA-TAATTA
1 ATAAAATAATATATTATTAATTA
22661 ATACATTAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
24 12 0.30
25 5 0.12
26 23 0.57
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (25 bp):
ATAAAATAATATATTATTAATTATC
Found at i:22736 original size:37 final size:39
Alignment explanation
Indices: 22645--22737 Score: 95
Period size: 38 Copynumber: 2.3 Consensus size: 39
22635 TTTTATAAAA
*
22645 TATTATA-TTATAATTAATACATTAAATTATAATAAGTATAC
1 TATTATACTTAT-ATT-AT-CATTAAATTATAATAAATATAC
22686 TATTATACTTATATTATCATT-AATTA-AATAAATAATA-
1 TATTATACTTATATTATCATTAAATTATAATAAAT-ATAC
22723 TATTGATACTATATA
1 TATT-ATACT-TATA
22738 AATATAAACA
Statistics
Matches: 47, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
37 10 0.21
38 13 0.28
39 8 0.17
40 2 0.04
41 10 0.21
42 4 0.09
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.45
Consensus pattern (39 bp):
TATTATACTTATATTATCATTAAATTATAATAAATATAC
Found at i:23043 original size:12 final size:13
Alignment explanation
Indices: 23021--23053 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
23011 ATATAATATC
23021 TTAATAATATAAA
1 TTAATAATATAAA
*
23034 TTAA-AATATATA
1 TTAATAATATAAA
23046 TTAATAAT
1 TTAATAAT
23054 TTATAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
TTAATAATATAAA
Found at i:23481 original size:14 final size:13
Alignment explanation
Indices: 23464--23494 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
23454 AATTATAAAT
23464 TATAATATATATAA
1 TATAATATATAT-A
23478 TATAATATATATA
1 TATAATATATATA
23491 TATA
1 TATA
23495 GCTAGTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TATAATATATATA
Found at i:23675 original size:17 final size:17
Alignment explanation
Indices: 23626--23680 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 17
23616 ATAGTTTTTC
23626 TATAATTATA-ATTAGTA
1 TATAATTATATATTA-TA
* *
23643 TAATAAATAATTTATTATA
1 T-AT-AATTATATATTATA
23662 TATAATTATATATTATA
1 TATAATTATATATTATA
23679 TA
1 TA
23681 ATAAATGTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
17 15 0.48
18 4 0.13
19 8 0.26
20 4 0.13
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (17 bp):
TATAATTATATATTATA
Found at i:24164 original size:22 final size:22
Alignment explanation
Indices: 24132--24177 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
24122 ATAGTTAGTT
*
24132 ATTATAAATATATATTAA-ATTA
1 ATTATAAATAT-GATTAATATTA
*
24154 ATTATATATATGATTAATATTA
1 ATTATAAATATGATTAATATTA
24176 AT
1 AT
24178 AATTGAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
ATTATAAATATGATTAATATTA
Found at i:24483 original size:180 final size:181
Alignment explanation
Indices: 24258--24701 Score: 533
Period size: 179 Copynumber: 2.5 Consensus size: 181
24248 TATATTAATT
* * * *
24258 TAAA-TTATTTTTTTAAATCTTTTACTTATTAATTATTGGAATATTATTAAACTAATATTATTTT
1 TAAATTTATTTTTTAAAATCTTTTACTTATTAATT-TTGAAATATTAATAAATTAATATTATTTT
* * * *
24322 ATTTTGAATAAGCTTATATAGACAGAACCAATTGGTTCATCACAAAACAAAATGTCATAACT-AT
65 ATTTCGAATAAGCTTATATAGACAGAAACAATTGGTTCATCACAAAACAAAAGGTCA-AAATGAT
*
24386 TTGAAATAAATAATTGTTCAAATAATCA-AATCTATTTGAACATGTTCAAAAAA
129 TTGAAATAAATAATTGTTCAAATAATCATAA-CTATTTAAACATGTTCAAAAAA
*
24439 TAAATTTA-TTTTTAAAAT-TTTTACTTATTAAATTTTGAAATATTAATAAATTTA-ATTATTTT
1 TAAATTTATTTTTTAAAATCTTTTACTTATT-AATTTTGAAATATTAATAAATTAATATTATTTT
* * * *
24501 A-TTCGAAATAAGTTTGTATGGACAGAAACAATTGGTTTATCACAAAACAAAAGGTCAAAATGAT
65 ATTTCG-AATAAGCTTATATAGACAGAAACAATTGGTTCATCACAAAACAAAAGGTCAAAATGAT
* * * * **
24565 TTGAAATAGATAATTGTTCAAATAGTCATCACTATTTAAACTTGTTCAGTAAA
129 TTGAAATAAATAATTGTTCAAATAATCATAACTATTTAAACATGTTCAAAAAA
* * * * * * *
24618 CAAATTTATTTTTTAAAATCTCTTACTCATTAATTTTTAGAATATTAACAAATTAGTAATATTTT
1 TAAATTTATTTTTTAAAATCTTTTACTTATTAATTTTGA-AATATTAATAAATTAATATTATTTT
*
24683 ATTTCGAATAAGCCTATAT
65 ATTTCGAATAAGCTTATAT
24702 GAATTGATAC
Statistics
Matches: 222, Mismatches: 31, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
178 6 0.03
179 107 0.48
180 45 0.20
181 39 0.18
182 21 0.09
183 4 0.02
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.41
Consensus pattern (181 bp):
TAAATTTATTTTTTAAAATCTTTTACTTATTAATTTTGAAATATTAATAAATTAATATTATTTTA
TTTCGAATAAGCTTATATAGACAGAAACAATTGGTTCATCACAAAACAAAAGGTCAAAATGATTT
GAAATAAATAATTGTTCAAATAATCATAACTATTTAAACATGTTCAAAAAA
Found at i:25119 original size:16 final size:16
Alignment explanation
Indices: 25098--25128 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25088 ATTTAATGTT
*
25098 ATATTAATATTAATTA
1 ATATTAAGATTAATTA
25114 ATATTAAGATTAATT
1 ATATTAAGATTAATT
25129 TAGTACAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
ATATTAAGATTAATTA
Found at i:25612 original size:16 final size:16
Alignment explanation
Indices: 25562--25624 Score: 58
Period size: 16 Copynumber: 4.0 Consensus size: 16
25552 ATCAAAATAG
*
25562 ATTTAATATTAAATTA
1 ATTTAATAATAAATTA
* *
25578 A-TCAATTAAT-AACTA
1 ATTTAA-TAATAAATTA
* *
25593 ATTTTATAATTAATTA
1 ATTTAATAATAAATTA
25609 ATTTAATAATAAATTA
1 ATTTAATAATAAATTA
25625 TTAAATTATA
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
15 12 0.33
16 24 0.67
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (16 bp):
ATTTAATAATAAATTA
Found at i:25648 original size:34 final size:34
Alignment explanation
Indices: 25596--25674 Score: 101
Period size: 34 Copynumber: 2.4 Consensus size: 34
25586 ATAACTAATT
25596 TTATAATTAATTAATTTAATAATAAATT-ATTAAA
1 TTATAATTAATTAATTTAATAATAAATTGA-TAAA
* *
25630 TTATAATTATATT-GTTTAATATTAAATTGATAAA
1 TTATAATTA-ATTAATTTAATAATAAATTGATAAA
25664 TTATAA-TAATT
1 TTATAATTAATT
25675 TAAATACATA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
32 3 0.07
33 2 0.05
34 32 0.78
35 4 0.10
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (34 bp):
TTATAATTAATTAATTTAATAATAAATTGATAAA
Found at i:25819 original size:24 final size:22
Alignment explanation
Indices: 25785--25835 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 22
25775 TTTATCAATT
*
25785 TAATATTATAATTATAATTTAA
1 TAATATTATAATTATAAATTAA
*
25807 TAATATTTAATAATTATAAATTAT
1 TAATA-TT-ATAATTATAAATTAA
25831 TAATA
1 TAATA
25836 AATGTATCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 5 0.20
23 2 0.08
24 18 0.72
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TAATATTATAATTATAAATTAA
Found at i:25987 original size:21 final size:21
Alignment explanation
Indices: 25958--25998 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
25948 TTTTTATAAC
*
25958 TATATTATAATAAATATAATA
1 TATAATATAATAAATATAATA
*
25979 TATAATATAATAATTATAAT
1 TATAATATAATAAATATAAT
25999 GGTTTAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TATAATATAATAAATATAATA
Found at i:27122 original size:18 final size:19
Alignment explanation
Indices: 27088--27134 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
27078 GTATATAAAT
* *
27088 TAATTATTATAATAAATAG
1 TAATTAATATTATAAATAG
*
27107 TAA-TAATATTATAAATAT
1 TAATTAATATTATAAATAG
27125 TAATTAATAT
1 TAATTAATAT
27135 ATGACTATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
TAATTAATATTATAAATAG
Found at i:27179 original size:18 final size:18
Alignment explanation
Indices: 27033--27181 Score: 58
Period size: 18 Copynumber: 8.0 Consensus size: 18
27023 CAAAAAATTG
*
27033 TTAATAATATTTAATTATA
1 TTAAT-ATATTAAATTATA
* *
27052 ATAATTTATTAAATTATTA
1 TTAATATATTAAATTA-TA
* *
27071 CATGATAGTATATAAATTA-A
1 -TTAATA-TAT-TAAATTATA
* *
27091 TTATTATAATAAA-TAGTA
1 TTAATATATTAAATTA-TA
* *
27109 ATAATATTATAAATATTA-A
1 TTAATA-TATTAA-ATTATA
* *
27128 TTAATATATGACTATTAGT-
1 TTAATATATTA-AATTA-TA
27147 TTAA-A-ATTGAAATTATA
1 TTAATATATT-AAATTATA
27164 TTAATATATTAAATTATA
1 TTAATATATTAAATTATA
27182 ATAGCCAAAT
Statistics
Matches: 96, Mismatches: 18, Indels: 33
0.65 0.12 0.22
Matches are distributed among these distances:
16 3 0.03
17 14 0.15
18 35 0.36
19 26 0.27
20 6 0.06
21 5 0.05
22 7 0.07
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.46
Consensus pattern (18 bp):
TTAATATATTAAATTATA
Found at i:27514 original size:23 final size:24
Alignment explanation
Indices: 27471--27519 Score: 59
Period size: 22 Copynumber: 2.1 Consensus size: 24
27461 TTTTTCAATA
27471 AAAATATATTAATTCTAATTAATTT
1 AAAATATATTAATTCTAATT-ATTT
27496 AAAATA-A-TAATT-TATATTATTT
1 AAAATATATTAATTCTA-ATTATTT
27518 AA
1 AA
27520 TAAAAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
22 8 0.35
23 8 0.35
24 1 0.04
25 6 0.26
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (24 bp):
AAAATATATTAATTCTAATTATTT
Found at i:27550 original size:10 final size:11
Alignment explanation
Indices: 27527--27555 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
27517 TAATAAAAAT
27527 ATATATACTAA
1 ATATATACTAA
27538 ATATATA-TAA
1 ATATATACTAA
27548 ATATATAC
1 ATATATAC
27556 GTAACGTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (11 bp):
ATATATACTAA
Found at i:27804 original size:16 final size:17
Alignment explanation
Indices: 27775--27808 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
27765 TATATTAAAT
27775 TTATAAATATTTTAATA
1 TTATAAATATTTTAATA
27792 TTATAAA-ATTTTAATA
1 TTATAAATATTTTAATA
27808 T
1 T
27809 GTCTAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTATAAATATTTTAATA
Found at i:27920 original size:19 final size:20
Alignment explanation
Indices: 27885--27922 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
27875 ATCATAGTAT
*
27885 TATATAATATCATTAAGTTA
1 TATATAATATAATTAAGTTA
27905 TATATAA-ATAATTAAGTT
1 TATATAATATAATTAAGTT
27923 TCAAATCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (20 bp):
TATATAATATAATTAAGTTA
Found at i:28248 original size:15 final size:16
Alignment explanation
Indices: 28229--28271 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
28219 GTTTTAACGG
28229 ATAATTAATATTATAT
1 ATAATTAATATTATAT
*
28245 -TAATTATAATTTTATAT
1 ATAA-T-TAATATTATAT
28262 ATAATTAATA
1 ATAATTAATA
28272 AATAAATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 6
0.73 0.07 0.20
Matches are distributed among these distances:
15 3 0.14
16 5 0.23
17 11 0.50
18 3 0.14
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
ATAATTAATATTATAT
Found at i:28259 original size:17 final size:18
Alignment explanation
Indices: 28234--28268 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
28224 AACGGATAAT
28234 TAATATTATAT-TAATTA
1 TAATATTATATATAATTA
*
28251 TAATTTTATATATAATTA
1 TAATATTATATATAATTA
28269 ATAAATAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TAATATTATATATAATTA
Found at i:28283 original size:42 final size:40
Alignment explanation
Indices: 28237--28417 Score: 93
Period size: 42 Copynumber: 4.4 Consensus size: 40
28227 GGATAATTAA
28237 TATTATATTAATTATAATTTTATATATAATTAATAAATAAAT
1 TATTATATTAATTATAATTTTAT-TATAATTAATAAA-AAAT
* * * * * *
28279 TATTA-AATAACTAATAAGTTTATAAATAATCATTAAAAAA-
1 TATTATATTAA-TTATAATTTTAT-TATAATTAATAAAAAAT
* * ** *
28319 TATTTTAATTAATAATAATTAAATTATATATTAAT-AAAATT
1 TATTAT-ATTAATTATAATTTTATTATA-ATTAATAAAAAAT
* * * * *
28360 TGTTA-ACTATTTAATAATATTATGATAATTAATAAATAAATT
1 TATTATATTAATT-ATAATTTTATTATAATTAATAAA-AAA-T
28402 TAATTAT-TTAATTATA
1 T-ATTATATTAATTATA
28418 TAGATACTAA
Statistics
Matches: 100, Mismatches: 28, Indels: 22
0.67 0.19 0.15
Matches are distributed among these distances:
39 10 0.10
40 23 0.23
41 25 0.25
42 35 0.35
43 7 0.07
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (40 bp):
TATTATATTAATTATAATTTTATTATAATTAATAAAAAAT
Found at i:28347 original size:26 final size:26
Alignment explanation
Indices: 28303--28353 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
28293 TAAGTTTATA
* *
28303 AATAATCATTAAAAAATATTTTAATT
1 AATAATAATTAAAAAATATATTAATT
**
28329 AATAATAATTAAATTATATATTAAT
1 AATAATAATTAAAAAATATATTAAT
28354 AAAATTTGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (26 bp):
AATAATAATTAAAAAATATATTAATT
Found at i:28475 original size:14 final size:14
Alignment explanation
Indices: 28456--28541 Score: 74
Period size: 14 Copynumber: 6.1 Consensus size: 14
28446 GTTATATAAA
*
28456 TATAATTAATTATT
1 TATAATTAATTAAT
*
28470 TATAATTAAATTGA-
1 TATAATT-AATTAAT
28484 TATAATT-ATTAAAT
1 TATAATTAATT-AAT
28498 TA-AATTAAATT-AT
1 TATAATT-AATTAAT
28511 TATAATATAATTAAT
1 TATAAT-TAATTAAT
28526 TATTAATTAA-TAAT
1 TA-TAATTAATTAAT
28540 TA
1 TA
28542 GATTTATTAT
Statistics
Matches: 60, Mismatches: 3, Indels: 18
0.74 0.04 0.22
Matches are distributed among these distances:
12 3 0.05
13 9 0.15
14 29 0.48
15 15 0.25
16 4 0.07
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (14 bp):
TATAATTAATTAAT
Found at i:28503 original size:27 final size:27
Alignment explanation
Indices: 28455--28535 Score: 94
Period size: 27 Copynumber: 2.9 Consensus size: 27
28445 TGTTATATAA
*
28455 ATATAATTAATTATTTATAATTAAATT
1 ATATAATTAATTAATTATAATTAAATT
28482 GATATAATT-ATTAAATTA-AATTAAATT
1 -ATATAATTAATT-AATTATAATTAAATT
28509 ATTATAATATAATTAATTATTAATTAA
1 A-TATAAT-TAATTAATTA-TAATTAA
28536 TAATTAGATT
Statistics
Matches: 46, Mismatches: 1, Indels: 10
0.81 0.02 0.18
Matches are distributed among these distances:
26 1 0.02
27 18 0.39
28 18 0.39
29 3 0.07
30 6 0.13
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (27 bp):
ATATAATTAATTAATTATAATTAAATT
Found at i:28510 original size:18 final size:17
Alignment explanation
Indices: 28486--28535 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
28476 TAAATTGATA
28486 TAATTATTAAATTAAAT
1 TAATTATTAAATTAAAT
28503 TAAATTATTATAA-TATAAT
1 T-AATTATTA-AATTA-AAT
28522 TAATTATT-AATTAA
1 TAATTATTAAATTAA
28536 TAATTAGATT
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
16 3 0.10
17 3 0.10
18 17 0.59
19 6 0.21
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TAATTATTAAATTAAAT
Found at i:28548 original size:20 final size:18
Alignment explanation
Indices: 28486--28556 Score: 58
Period size: 18 Copynumber: 3.8 Consensus size: 18
28476 TAAATTGATA
28486 TAATTATTAAATT-A-AAT
1 TAATTATT-AATTAATAAT
*
28503 TAAATTATT-ATAATATAAT
1 T-AATTATTAATTA-ATAAT
28522 TAATTATTAATTAATAAT
1 TAATTATTAATTAATAAT
*
28540 TAGATTTATTATTTAAT
1 TA-A-TTATTAATTAAT
28557 TTAATACAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
16 2 0.05
17 1 0.02
18 22 0.50
19 8 0.18
20 11 0.25
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (18 bp):
TAATTATTAATTAATAAT
Found at i:28577 original size:5 final size:4
Alignment explanation
Indices: 28458--28579 Score: 56
Period size: 5 Copynumber: 29.0 Consensus size: 4
28448 TATATAAATA
* *
28458 TAAT TAAT T-AT TTA- TAAT TAAAT TGAT ATAAT T-AT TAAAT TAAAT
1 TAAT TAAT TAAT TAAT TAAT T-AAT TAAT -TAAT TAAT T-AAT T-AAT
* *
28503 TAAAT TATT ATAAT ATAAT TAAT T-AT TAAT TAA- TAAT TAGAT TTAT
1 T-AAT TAAT -TAAT -TAAT TAAT TAAT TAAT TAAT TAAT TA-AT TAAT
* *
28549 TATT TAATT TAAT ACAAT TAAT TATAT TAAT
1 TAAT TAA-T TAAT -TAAT TAAT TA-AT TAAT
28580 AAATGTCTTA
Statistics
Matches: 94, Mismatches: 11, Indels: 26
0.72 0.08 0.20
Matches are distributed among these distances:
3 14 0.15
4 38 0.40
5 42 0.45
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.50
Consensus pattern (4 bp):
TAAT
Found at i:28607 original size:45 final size:45
Alignment explanation
Indices: 28501--28625 Score: 109
Period size: 45 Copynumber: 2.7 Consensus size: 45
28491 ATTAAATTAA
*
28501 ATTAAATTATTATAATATAATTAATTATTAATTAATAATTAGATTT
1 ATTAAATTATTATAATA-AATTAATTATTAATTAATAAATAGATTT
*
28547 ATT-ATTTAATT-TAATACAATTAATTA-T-ATTAATAAAT-G-TCTT
1 ATTAAATT-ATTATAATA-AATTAATTATTAATTAATAAATAGAT-TT
*
28589 ATTAAATTACTTAATAATAAATTTAAGTTATTGATTA
1 ATTAAATTA-TT-ATAATAAA-TTAA-TTATTAATTA
28626 TTATAAATTA
Statistics
Matches: 65, Mismatches: 4, Indels: 18
0.75 0.05 0.21
Matches are distributed among these distances:
41 1 0.02
42 7 0.11
43 14 0.22
44 3 0.05
45 26 0.40
46 9 0.14
47 1 0.02
48 4 0.06
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (45 bp):
ATTAAATTATTATAATAAATTAATTATTAATTAATAAATAGATTT
Found at i:28901 original size:14 final size:15
Alignment explanation
Indices: 28868--28904 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
28858 ATTATAATAT
28868 TAATT-ATTGTAACTA
1 TAATTAATTGTAAC-A
28883 TAATTAATTGTAA-A
1 TAATTAATTGTAACA
28897 TAATTAAT
1 TAATTAAT
28905 CTATATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 9 0.43
15 5 0.24
16 7 0.33
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (15 bp):
TAATTAATTGTAACA
Found at i:29183 original size:18 final size:16
Alignment explanation
Indices: 29153--29186 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 16
29143 ACTAATCATG
29153 TTAATATTATTATAAT
1 TTAATATTATTATAAT
29169 TTAATATATATTTATAAT
1 TTAATAT-TA-TTATAAT
29187 AATTAACTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 2 0.12
18 7 0.44
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTAATATTATTATAAT
Found at i:29188 original size:21 final size:21
Alignment explanation
Indices: 29159--29198 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
29149 CATGTTAATA
*
29159 TTATTATAATTTAA-TATATAT
1 TTATAATAA-TTAACTATATAT
29180 TTATAATAATTAACTATAT
1 TTATAATAATTAACTATAT
29199 TATTAAATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (21 bp):
TTATAATAATTAACTATATAT
Found at i:29201 original size:18 final size:20
Alignment explanation
Indices: 29156--29203 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
29146 AATCATGTTA
*
29156 ATATTATTATAATTTAATAT
1 ATATTATAATAATTTAATAT
29176 ATATTTATAATAA-TTAACTAT
1 ATA-TTATAATAATTTAA-TAT
29197 ATTATTA
1 A-TATTA
29204 AATCTTATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 7 0.29
21 15 0.62
22 2 0.08
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
ATATTATAATAATTTAATAT
Found at i:29256 original size:16 final size:15
Alignment explanation
Indices: 29208--29257 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
29198 TTATTAAATC
*
29208 TTATAATATATTAAA
1 TTATAATATATTTAA
29223 TTAT-ATAT-TCATTAA
1 TTATAATATAT--TTAA
29238 TTATAATATATTTATA
1 TTATAATATATTTA-A
29254 TTAT
1 TTAT
29258 TAATTTTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
13 1 0.03
14 4 0.14
15 14 0.48
16 9 0.31
17 1 0.03
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (15 bp):
TTATAATATATTTAA
Found at i:29299 original size:20 final size:20
Alignment explanation
Indices: 29271--29308 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
29261 TTTTTTATTA
29271 AATACTAATTATTAATAAAT
1 AATACTAATTATTAATAAAT
*
29291 AATATTAATTATTAATAA
1 AATACTAATTATTAATAA
29309 TAGTATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
AATACTAATTATTAATAAAT
Found at i:29561 original size:35 final size:33
Alignment explanation
Indices: 29500--29580 Score: 91
Period size: 33 Copynumber: 2.5 Consensus size: 33
29490 AAATTAGGGT
* *
29500 TTATATTTATACATTTATAATAATATATTTTAA
1 TTATATTTATAAATTTATAATAATATATTATAA
29533 TTATATTTATTAAA-TTAT-ATAA-ATA-TAT-A
1 TTATATTTA-TAAATTTATAATAATATATTATAA
29562 TTATATTTATACAATTTAT
1 TTATATTTATA-AATTTAT
29581 TAGTACTATT
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
28 2 0.05
29 12 0.28
30 6 0.14
31 3 0.07
32 4 0.09
33 13 0.30
34 3 0.07
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (33 bp):
TTATATTTATAAATTTATAATAATATATTATAA
Found at i:29630 original size:14 final size:16
Alignment explanation
Indices: 29600--29632 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
29590 TTATATAAAA
29600 AATATATTTTAATTAT
1 AATATATTTTAATTAT
29616 AATATA-TTTAA-TAT
1 AATATATTTTAATTAT
29630 AAT
1 AAT
29633 TAATTTCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 5 0.29
16 6 0.35
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
AATATATTTTAATTAT
Found at i:29762 original size:17 final size:16
Alignment explanation
Indices: 29740--29774 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
29730 ATTAATTGCT
29740 TAATTAATATTAAGTTA
1 TAATTAATATTAA-TTA
*
29757 TAATTATTATTAATTA
1 TAATTAATATTAATTA
29773 TA
1 TA
29775 TGACTAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (16 bp):
TAATTAATATTAATTA
Found at i:30034 original size:23 final size:23
Alignment explanation
Indices: 29964--30034 Score: 58
Period size: 23 Copynumber: 3.0 Consensus size: 23
29954 AGATTTAAAA
*
29964 AATAAATATATT-TTTATTATTAAT
1 AATAAAT-TATTATTTAAT-TTAAT
*
29988 CATGAAATTATTA--TAATTTATAAT
1 AAT-AAATTATTATTTAA-TT-TAAT
30012 AATAAATTATTATTTAATTTAAT
1 AATAAATTATTATTTAATTTAAT
30035 CAAAAGCATA
Statistics
Matches: 38, Mismatches: 3, Indels: 13
0.70 0.06 0.24
Matches are distributed among these distances:
23 16 0.42
24 15 0.39
25 7 0.18
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (23 bp):
AATAAATTATTATTTAATTTAAT
Found at i:30629 original size:16 final size:17
Alignment explanation
Indices: 30603--30634 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
30593 TAATTATTTA
30603 TATTAATATTTTAATAT
1 TATTAATATTTTAATAT
30620 TATT-ATATTTTAATA
1 TATTAATATTTTAATA
30635 ATAATATTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTAATATTTTAATAT
Found at i:30784 original size:17 final size:16
Alignment explanation
Indices: 30757--30788 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
30747 TTTATTTAAT
30757 ATTAATATTAATATTG
1 ATTAATATTAATATTG
30773 ATTAATTATTAATATT
1 ATTAA-TATTAATATT
30789 AAAATAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
ATTAATATTAATATTG
Found at i:30973 original size:23 final size:25
Alignment explanation
Indices: 30925--30974 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 25
30915 TTAATTAAAA
*
30925 TATAAATATTTAATTAAATTATTAT
1 TATAAATACTTAATTAAATTATTAT
*
30950 TATAAATACTT-A-TAATTTATTAT
1 TATAAATACTTAATTAAATTATTAT
30973 TA
1 TA
30975 ATTATTGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 12 0.52
24 1 0.04
25 10 0.43
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (25 bp):
TATAAATACTTAATTAAATTATTAT
Found at i:31085 original size:14 final size:14
Alignment explanation
Indices: 31066--31110 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
31056 TAATTGTAAT
31066 ATTATATAATTATA
1 ATTATATAATTATA
31080 ATTATAATAA-TA-A
1 ATTAT-ATAATTATA
31093 ATT-TATAATTTATA
1 ATTATATAA-TTATA
31107 ATTA
1 ATTA
31111 ACAAAATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
11 4 0.15
12 1 0.04
13 6 0.23
14 11 0.42
15 4 0.15
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
ATTATATAATTATA
Found at i:31185 original size:20 final size:18
Alignment explanation
Indices: 31160--31202 Score: 59
Period size: 20 Copynumber: 2.3 Consensus size: 18
31150 TTAAATAATA
31160 TATAAATTATTAATTATTAT
1 TATAAATTA-TAATTATT-T
*
31180 TATAAATTATAGTTATTT
1 TATAAATTATAATTATTT
31198 TATAA
1 TATAA
31203 TAATTGTGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.27
19 7 0.32
20 9 0.41
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
TATAAATTATAATTATTT
Found at i:31238 original size:22 final size:25
Alignment explanation
Indices: 31213--31270 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 25
31203 TAATTGTGAT
31213 TTAATTATATAATAA-ATAA-T-TA
1 TTAATTATATAATAACATAACTATA
* *
31235 TTAATAATATATTAACATAACTATA
1 TTAATTATATAATAACATAACTATA
31260 TTATATTATAT
1 TTA-ATTATAT
31271 TTAATATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 13 0.45
23 4 0.14
24 1 0.03
25 5 0.17
26 6 0.21
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (25 bp):
TTAATTATATAATAACATAACTATA
Found at i:31448 original size:34 final size:35
Alignment explanation
Indices: 31410--31477 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 35
31400 TAATAGTCAA
*
31410 AATATAACTAATAGTAATAAT-TTTAATT-ATTATT
1 AATATAACCAATA-TAATAATATTTAATTAATTATT
* *
31444 AATATTACCAATATAATCATATTTAATTAATTAT
1 AATATAACCAATATAATAATATTTAATTAATTAT
31478 AACTTAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
33 6 0.21
34 18 0.62
35 5 0.17
ACGTcount: A:0.47, C:0.06, G:0.01, T:0.46
Consensus pattern (35 bp):
AATATAACCAATATAATAATATTTAATTAATTATT
Found at i:31904 original size:22 final size:24
Alignment explanation
Indices: 31859--31904 Score: 60
Period size: 26 Copynumber: 1.9 Consensus size: 24
31849 TAAATTAGAT
31859 TTATTAAATAGATAATATTGATATAA
1 TTATTAAATAGATAATA-T-ATATAA
31885 TTATTAAATA-ATAATA-ATAT
1 TTATTAAATAGATAATATATAT
31905 TTAATAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 4 0.20
25 6 0.30
26 10 0.50
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.43
Consensus pattern (24 bp):
TTATTAAATAGATAATATATATAA
Found at i:31940 original size:10 final size:10
Alignment explanation
Indices: 31925--32189 Score: 85
Period size: 10 Copynumber: 27.4 Consensus size: 10
31915 TAATTTCATT
31925 TTATAATATA
1 TTATAATATA
31935 TTATAAATTAATA
1 TTAT-AA-T-ATA
31948 TT-TAATATA
1 TTATAATATA
* *
31957 TTTTTATATA
1 TTATAATATA
31967 TTATAATTTATA
1 TTATAA--TATA
*
31979 TTAT--TACA
1 TTATAATATA
*
31987 TAATAATA-A
1 TTATAATATA
*
31996 ATATAATTATA
1 TTATAA-TATA
32007 TTATAAT-TAA
1 TTATAATAT-A
32017 TTATAATATA
1 TTATAATATA
32027 TT-TAATATAA
1 TTATAATAT-A
*
32037 ATATAA-ATA
1 TTATAATATA
* *
32046 ATATTA-ATA
1 TTATAATATA
32055 TT-TAAT-TA
1 TTATAATATA
*
32063 TT-TATTA-A
1 TTATAATATA
32071 TTA-AATA-A
1 TTATAATATA
32079 -TATAATATA
1 TTATAATATA
*
32088 ATATAAATATTA
1 TTAT-AATA-TA
32100 TTAGATAATATA
1 TT--ATAATATA
*
32112 TTTTAATATTA
1 TTATAATA-TA
*
32123 CT-TAAT-TA
1 TTATAATATA
32131 -TAT-ATA-A
1 TTATAATATA
*
32138 TGTA-AATTAGA
1 T-TATAA-TATA
32149 TTATAATATA
1 TTATAATATA
*
32159 TAAT-ATAT-
1 TTATAATATA
32167 TTAT-ATATA
1 TTATAATATA
32176 TTAATAAT-TA
1 TT-ATAATATA
32186 TTAT
1 TTAT
32190 TTAAACTAAC
Statistics
Matches: 199, Mismatches: 20, Indels: 73
0.68 0.07 0.25
Matches are distributed among these distances:
7 6 0.03
8 36 0.18
9 39 0.20
10 63 0.32
11 27 0.14
12 17 0.09
13 9 0.05
14 2 0.01
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (10 bp):
TTATAATATA
Found at i:32006 original size:42 final size:42
Alignment explanation
Indices: 31960--32100 Score: 105
Period size: 41 Copynumber: 3.3 Consensus size: 42
31950 TAATATATTT
31960 TTATATATTATAATTTA-TATTATTACATAATAATAAATATAA
1 TTATATATTATAATTTATTATTATTA-ATAATAATAAATATAA
* * *
32002 -T-TATATTATAATTAATTATAATATATTTAAT-ATAAATATAA
1 TTATATATTATAATTTATTATTAT-TA-ATAATAATAAATATAA
*
32043 ATA-ATATTA-ATATTTAATTATTTATTAATTAAATAATATAATATAA
1 TTATATATTATA-ATTT-ATTA-TTATTAA-T-AATAATA-AATATAA
*
32089 TATAAATATTAT
1 T-TATATATTAT
32101 TAGATAATAT
Statistics
Matches: 77, Mismatches: 8, Indels: 21
0.73 0.08 0.20
Matches are distributed among these distances:
40 13 0.17
41 17 0.22
42 16 0.21
43 7 0.09
44 6 0.08
45 3 0.04
46 7 0.09
47 2 0.03
48 6 0.08
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (42 bp):
TTATATATTATAATTTATTATTATTAATAATAATAAATATAA
Found at i:32011 original size:47 final size:44
Alignment explanation
Indices: 31884--32090 Score: 128
Period size: 44 Copynumber: 4.6 Consensus size: 44
31874 TATTGATATA
* * * *
31884 ATTATTAAATAATAATAATATTTAATAATATTAATTTCATTTTATAAT
1 ATTATT-AATAATAATAA-ATATAATAATATT-ATAT-ATTTAATTAT
* * *
31932 A-TATT-ATAA-ATTAATATTTAATATATTTTTATATATTATAATTTAT
1 ATTATTAATAATAATAA-ATATAATA-A-TATTATATATT-TAA-TTAT
*
31978 ATTATTACATAATAATAAATATAATTATATTATA-A-TTAATTAT
1 ATTATTA-ATAATAATAAATATAATAATATTATATATTTAATTAT
32021 AATATATT--TAAT-ATAAATATAAATAATATTA-ATATTTAATTAT
1 -AT-TATTAATAATAATAAATAT-AATAATATTATATATTTAATTAT
32064 -TTATTAATTAAATAATATAATATAATA
1 ATTATTAA-T-AATAATA-AATATAATA
32091 TAAATATTAT
Statistics
Matches: 130, Mismatches: 10, Indels: 41
0.72 0.06 0.23
Matches are distributed among these distances:
40 4 0.03
41 10 0.08
42 14 0.11
43 13 0.10
44 24 0.18
45 22 0.17
46 13 0.10
47 14 0.11
48 2 0.02
49 10 0.08
50 4 0.03
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (44 bp):
ATTATTAATAATAATAAATATAATAATATTATATATTTAATTAT
Found at i:32093 original size:15 final size:15
Alignment explanation
Indices: 31989--32111 Score: 64
Period size: 15 Copynumber: 8.2 Consensus size: 15
31979 TTATTACATA
31989 ATAATA-AATATAATT
1 ATAATATAATATAA-T
*
32004 ATATTATAAT-TAATT
1 ATAATATAATATAA-T
*
32019 ATAATAT-ATTTAAT
1 ATAATATAATATAAT
32033 ATAAATATAA-ATAAT
1 AT-AATATAATATAAT
*
32048 ATTAATATTTAAT-TATTT
1 A-TAATA--TAATATA-AT
32066 ATTAAT-TAA-ATAAT
1 A-TAATATAATATAAT
32080 ATAATATAATATAA-
1 ATAATATAATATAAT
* * *
32094 ATATTATTAGATAAT
1 ATAATATAATATAAT
32109 ATA
1 ATA
32112 TTTTAATATT
Statistics
Matches: 87, Mismatches: 8, Indels: 26
0.72 0.07 0.21
Matches are distributed among these distances:
13 4 0.05
14 21 0.24
15 45 0.52
16 5 0.06
17 5 0.06
18 7 0.08
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.46
Consensus pattern (15 bp):
ATAATATAATATAAT
Found at i:32113 original size:57 final size:56
Alignment explanation
Indices: 31986--32138 Score: 152
Period size: 57 Copynumber: 2.7 Consensus size: 56
31976 ATATTATTAC
* * *
31986 ATAATAATAAATATAATTATATTA-TAATTAATTATAATATATTTAATATAAATATAA
1 ATAATAATATATTTAATTAT-TTATTAATTAA-TATAATATATATAATATAAATATAA
* *
32043 ATAATATTAATATTTAATTATTTATTAATTAA-ATAATATAATATAATATAAATATTA
1 ATAATAAT-ATATTTAATTATTTATTAATTAATATAATAT-ATATAATATAAATATAA
*
32100 TTAGATAATATATTTTAA-TA-TTACTTAATTATATATAAT
1 ATA-ATAATATA-TTTAATTATTTA-TTAATTA-ATATAAT
32139 GTAAATTAGA
Statistics
Matches: 81, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
56 10 0.12
57 39 0.48
58 27 0.33
59 5 0.06
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.47
Consensus pattern (56 bp):
ATAATAATATATTTAATTATTTATTAATTAATATAATATATATAATATAAATATAA
Done.