Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, 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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 58 of 126
Found at i:11707263 original size:18 final size:17
Alignment explanation
Indices: 11707236--11707269 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
11707226 TTGAAAGAAT
*
11707236 AAAAATTTATTTATACAA
1 AAAAAATTATTT-TACAA
11707254 AAAAAATTATTTTACA
1 AAAAAATTATTTTACA
11707270 TTCATGTGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (17 bp):
AAAAAATTATTTTACAA
Found at i:11708290 original size:14 final size:14
Alignment explanation
Indices: 11708242--11708290 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
11708232 ATATTATTTT
* *
11708242 ATTAATAAATAAAT
1 ATTAATATATAAAA
* *
11708256 ATTAAT-TCTTAAA
1 ATTAATATATAAAA
11708269 ATTAATATATAAAA
1 ATTAATATATAAAA
11708283 ATTAATAT
1 ATTAATAT
11708291 TTTTCTAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
13 9 0.32
14 19 0.68
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (14 bp):
ATTAATATATAAAA
Found at i:11708347 original size:31 final size:31
Alignment explanation
Indices: 11708311--11708369 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
11708301 AAATTACTTA
* *
11708311 TTAATATAATAATATCATTTGATTCACTTTT
1 TTAATAAAATAATATCATTTAATTCACTTTT
* *
11708342 TTAATAAAATATTATTATTTAATTCACT
1 TTAATAAAATAATATCATTTAATTCACT
11708370 AATAGTATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.51
Consensus pattern (31 bp):
TTAATAAAATAATATCATTTAATTCACTTTT
Found at i:11709743 original size:20 final size:20
Alignment explanation
Indices: 11709718--11709755 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
11709708 CAGTACATCG
*
11709718 ATTTTTAAATTTTATTTTTT
1 ATTTTTAAATATTATTTTTT
*
11709738 ATTTTTATATATTATTTT
1 ATTTTTAAATATTATTTT
11709756 AATAAGATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (20 bp):
ATTTTTAAATATTATTTTTT
Found at i:11709781 original size:22 final size:23
Alignment explanation
Indices: 11709738--11709793 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
11709728 TTTATTTTTT
*
11709738 ATTTTTATATATTATTTTAATAA
1 ATTTTTATATATTATTTAAATAA
11709761 GATTTTTA-ATA-TATTTAAATAA
1 -ATTTTTATATATTATTTAAATAA
*
11709783 ATTTATATATA
1 ATTTTTATATA
11709794 AAATAATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 6 0.21
22 13 0.45
23 3 0.10
24 7 0.24
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (23 bp):
ATTTTTATATATTATTTAAATAA
Found at i:11737485 original size:31 final size:31
Alignment explanation
Indices: 11737428--11737490 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
11737418 AATTAATAAT
* **
11737428 TTATATATTTATTTTATATTTTATATAAAAA
1 TTATATATTTAATTTATATTAGATATAAAAA
11737459 TTATATATTATAATTTATA-TAGATATAAAAA
1 TTATATATT-TAATTTATATTAGATATAAAAA
11737490 T
1 T
11737491 ATAAAAAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 20 0.71
32 8 0.29
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (31 bp):
TTATATATTTAATTTATATTAGATATAAAAA
Found at i:11743139 original size:16 final size:17
Alignment explanation
Indices: 11743103--11743139 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
11743093 ATTATAAAAA
11743103 ATTTATATTAAATAAAT
1 ATTTATATTAAATAAAT
*
11743120 -TTTAT-TTAAATTAAT
1 ATTTATATTAAATAAAT
11743135 ATTTA
1 ATTTA
11743140 AATACAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTATATTAAATAAAT
Found at i:11743567 original size:125 final size:126
Alignment explanation
Indices: 11743337--11743592 Score: 460
Period size: 125 Copynumber: 2.0 Consensus size: 126
11743327 ATAAGTTTTG
11743337 AAAGCTGGCTCTTTCCATATGAAATTTGCACTTATACTCAATTTAAAAAAAAAAAAAAAAAACCT
1 AAAGCTGGCTCTTTCCATATGAAATTTGCACTTATACTCAATTT--AAAAAAAAAAAAAAAACCT
*
11743402 TGTTGTGGTCGTTGTCGGTCGACATTAGATACAACTTATAGAAAGGCAATTATAAATTTGGTC
64 TGTTGTGGTCGTTGTCGGTCGACATTAGATACAACTTATAGAAAGGCAATTATAAATCTGGTC
*
11743465 AAAGCTGGCTGTTTCCATATGAAATTTGCACTTATACTCAATTT-AAAAAAAAAAAAAAACCTTG
1 AAAGCTGGCTCTTTCCATATGAAATTTGCACTTATACTCAATTTAAAAAAAAAAAAAAAACCTTG
*
11743529 TTGTGTTCGTTGTCGGTCGACATTAGATACAACTTATAGAAAGGCAATTATAAATCTGGTC
66 TTGTGGTCGTTGTCGGTCGACATTAGATACAACTTATAGAAAGGCAATTATAAATCTGGTC
11743590 AAA
1 AAA
11743593 CAAAACGGCA
Statistics
Matches: 125, Mismatches: 3, Indels: 3
0.95 0.02 0.02
Matches are distributed among these distances:
125 82 0.66
128 43 0.34
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (126 bp):
AAAGCTGGCTCTTTCCATATGAAATTTGCACTTATACTCAATTTAAAAAAAAAAAAAAAACCTTG
TTGTGGTCGTTGTCGGTCGACATTAGATACAACTTATAGAAAGGCAATTATAAATCTGGTC
Found at i:11744409 original size:12 final size:12
Alignment explanation
Indices: 11744392--11744416 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11744382 AATTATGATG
11744392 AAAAAAATTTAT
1 AAAAAAATTTAT
11744404 AAAAAAATTTAT
1 AAAAAAATTTAT
11744416 A
1 A
11744417 CTAAATAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAAAAATTTAT
Found at i:11747037 original size:143 final size:143
Alignment explanation
Indices: 11746890--11747322 Score: 341
Period size: 143 Copynumber: 3.0 Consensus size: 143
11746880 TCTAATGATT
11746890 TTAATTTATAGAAAACTTTTATTTAAATTTATTTAGATGAATTAGATTATCAATATTTGAGGGAA
1 TTAATTTATAGAAAACTTTTATTTAAATTTATTTAGATGAATTAGATTATCAATATTTGAGGGAA
11746955 TATTATTTTAAACATTTTGCTTTATTCATAATTTTCAAGATTTAAAGGATTATAATAAAATAAAA
66 TATTATTTTAAACATTTTGCTTTATTCATAATTTTCAAGATTTAAAGGATTATAATAAAATAAAA
11747020 ATTTTAATTATAA
131 ATTTTAATTATAA
** * * * * * * *
11747033 TTAATACATACAAAGA--TTTATTTGAATATTATTT-CAT-AA-TAAAATAT-AAGTTTTCTTGT
1 TTAATTTATAGAAA-ACTTTTATTTAAAT-TTATTTAGATGAATTAGATTATCAA--TAT-TTGA
*** * * * ** ****** * * * ** * **
11747092 TAAAATTTTATTTTATTATAAATAAAAAAATT-ATAACTAT-AAAAGTTT-AA-TTTTTTGTTAA
61 GGGAATATTATTTTA-AACATTTTGCTTTATTCATAATTTTCAAGA-TTTAAAGGATTATAATAA
*** * *
11747153 AAT--CTTTTTTATTCTAATGATT
124 AATAAAAATTTTAAT-T-AT-A-A
11747175 TTAATTTATAGAAAACTTTTATTTAAATTTATTTAGATGAATTAGATTATCAATATTTGAGGGAA
1 TTAATTTATAGAAAACTTTTATTTAAATTTATTTAGATGAATTAGATTATCAATATTTGAGGGAA
*
11747240 TATTATTTTAAACATTTTGCTTTATTCATAATTTTCAAGATTTAATGGATTATAATAAAATAAAA
66 TATTATTTTAAACATTTTGCTTTATTCATAATTTTCAAGATTTAAAGGATTATAATAAAATAAAA
*
11747305 ATTATAATTATAA
131 ATTTTAATTATAA
11747318 TTAAT
1 TTAAT
11747323 ACATACAAAG
Statistics
Matches: 193, Mismatches: 74, Indels: 46
0.62 0.24 0.15
Matches are distributed among these distances:
138 6 0.03
139 3 0.02
140 17 0.09
141 11 0.06
142 58 0.30
143 63 0.33
144 10 0.05
145 17 0.09
146 3 0.02
147 5 0.03
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (143 bp):
TTAATTTATAGAAAACTTTTATTTAAATTTATTTAGATGAATTAGATTATCAATATTTGAGGGAA
TATTATTTTAAACATTTTGCTTTATTCATAATTTTCAAGATTTAAAGGATTATAATAAAATAAAA
ATTTTAATTATAA
Found at i:11747318 original size:285 final size:286
Alignment explanation
Indices: 11746796--11747382 Score: 1113
Period size: 285 Copynumber: 2.0 Consensus size: 286
11746786 AAAAATGTAG
11746796 TTTATTGTATGAAAATTTTATTTTATTATAAATAAAAAAATTATAACTATAAAATGTTTAATTTT
1 TTTATTGT-T-AAAATTTTATTTTATTATAAATAAAAAAATTATAACTATAAAATGTTTAATTTT
11746861 TTGTTAAAATCTTTTTTATTCTAATGATTTTAATTTATAGAAAACTTTTATTTAAATTTATTTAG
64 TTGTTAAAATCTTTTTTATTCTAATGATTTTAATTTATAGAAAACTTTTATTTAAATTTATTTAG
11746926 ATGAATTAGATTATCAATATTTGAGGGAATATTATTTTAAACATTTTGCTTTATTCATAATTTTC
129 ATGAATTAGATTATCAATATTTGAGGGAATATTATTTTAAACATTTTGCTTTATTCATAATTTTC
* *
11746991 AAGATTTAAAGGATTATAATAAAATAAAAATTTTAATTATAATTAATACATACAAAGATTTATTT
194 AAGATTTAAAGGATTATAATAAAATAAAAATTATAATTATAATTAATACATACAAAGATTTAATT
11747056 GAATATTATTTCATAATAAAATATAAGT
259 GAATATTATTTCATAATAAAATATAAGT
*
11747084 TTTCTTGTTAAAATTTTATTTTATTATAAATAAAAAAATTATAACTATAAAA-GTTTAATTTTTT
1 TTTATTGTTAAAATTTTATTTTATTATAAATAAAAAAATTATAACTATAAAATGTTTAATTTTTT
11747148 GTTAAAATCTTTTTTATTCTAATGATTTTAATTTATAGAAAACTTTTATTTAAATTTATTTAGAT
66 GTTAAAATCTTTTTTATTCTAATGATTTTAATTTATAGAAAACTTTTATTTAAATTTATTTAGAT
11747213 GAATTAGATTATCAATATTTGAGGGAATATTATTTTAAACATTTTGCTTTATTCATAATTTTCAA
131 GAATTAGATTATCAATATTTGAGGGAATATTATTTTAAACATTTTGCTTTATTCATAATTTTCAA
*
11747278 GATTTAATGGATTATAATAAAATAAAAATTATAATTATAATTAATACATACAAAGATTTAATTGA
196 GATTTAAAGGATTATAATAAAATAAAAATTATAATTATAATTAATACATACAAAGATTTAATTGA
11747343 ATATTATTTCATAATAAAATATAAGT
261 ATATTATTTCATAATAAAATATAAGT
11747369 TTTATTGTTAAAAT
1 TTTATTGTTAAAAT
11747383 AACAAATTTA
Statistics
Matches: 294, Mismatches: 5, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
285 243 0.83
286 43 0.15
287 1 0.00
288 7 0.02
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (286 bp):
TTTATTGTTAAAATTTTATTTTATTATAAATAAAAAAATTATAACTATAAAATGTTTAATTTTTT
GTTAAAATCTTTTTTATTCTAATGATTTTAATTTATAGAAAACTTTTATTTAAATTTATTTAGAT
GAATTAGATTATCAATATTTGAGGGAATATTATTTTAAACATTTTGCTTTATTCATAATTTTCAA
GATTTAAAGGATTATAATAAAATAAAAATTATAATTATAATTAATACATACAAAGATTTAATTGA
ATATTATTTCATAATAAAATATAAGT
Found at i:11748836 original size:20 final size:21
Alignment explanation
Indices: 11748811--11748863 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
11748801 GATATTTTTA
11748811 AATATTTATATTTT-AAAAAT
1 AATATTTATATTTTAAAAAAT
11748831 AATATTTTATATTTTAAAAAAT
1 AATA-TTTATATTTTAAAAAAT
11748853 AATATTT-TATT
1 AATATTTATATT
11748864 AATTTCGGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 8 0.26
21 13 0.42
22 10 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
AATATTTATATTTTAAAAAAT
Found at i:11748841 original size:21 final size:22
Alignment explanation
Indices: 11748811--11748862 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
11748801 GATATTTTTA
11748811 AATA-TTTATATTTT-AAAAAT
1 AATATTTTATATTTTAAAAAAT
11748831 AATATTTTATATTTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
11748853 AATATTTTAT
1 AATATTTTAT
11748863 TAATTTCGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 4 0.13
21 10 0.33
22 16 0.53
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
AATATTTTATATTTTAAAAAAT
Found at i:11750416 original size:45 final size:45
Alignment explanation
Indices: 11750365--11750455 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
11750355 TGAAATCTGG
* *
11750365 TCGGACAACACATCTATTCATGTCATAGCATTTATAATATTTCAA
1 TCGGACAACACATATATTCATGTCATAACATTTATAATATTTCAA
*
11750410 TCGGACAACACATATATTCGTGTCATAACATTTATAATATTTCAA
1 TCGGACAACACATATATTCATGTCATAACATTTATAATATTTCAA
11750455 T
1 T
11750456 ACAAAATATA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (45 bp):
TCGGACAACACATATATTCATGTCATAACATTTATAATATTTCAA
Found at i:11750482 original size:39 final size:43
Alignment explanation
Indices: 11750368--11750484 Score: 136
Period size: 45 Copynumber: 2.8 Consensus size: 43
11750358 AATCTGGTCG
* * *
11750368 GACAACACATCTATTCATGTCATAGCATTTATAATATTTCAAT
1 GACAACACATATATTCGTGTCATAACATTTATAATATTTCAAT
11750411 CGGACAACACATATATTCGTGTCATAACATTTATAATATTTCAAT
1 --GACAACACATATATTCGTGTCATAACATTTATAATATTTCAAT
*
11750456 -ACAA-A-ATATATT-TTGTCATTAA-ATTTATA
1 GACAACACATATATTCGTGTCA-TAACATTTATA
11750485 TATAATAATT
Statistics
Matches: 67, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
39 12 0.18
40 10 0.15
41 1 0.01
42 4 0.06
45 40 0.60
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.38
Consensus pattern (43 bp):
GACAACACATATATTCGTGTCATAACATTTATAATATTTCAAT
Found at i:11750513 original size:22 final size:23
Alignment explanation
Indices: 11750488--11750531 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
11750478 ATTTATATAT
11750488 AATAAT-TATTAA-AATTTTTAAA
1 AATAATAT-TTAATAATTTTTAAA
11750510 AATAATATTTAATAATTTTTAA
1 AATAATATTTAATAATTTTTAA
11750532 TTTTTAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
AATAATATTTAATAATTTTTAAA
Found at i:11750809 original size:23 final size:22
Alignment explanation
Indices: 11750782--11750825 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
11750772 TTAAATTATT
*
11750782 TATTTGATTATATATATTATATA
1 TATTTAATTATATAT-TTATATA
*
11750805 TATTTAATTTTATATTTATAT
1 TATTTAATTATATATTTATAT
11750826 TAAAAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (22 bp):
TATTTAATTATATATTTATATA
Found at i:11761963 original size:24 final size:24
Alignment explanation
Indices: 11761935--11761983 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
11761925 TAAGACATTG
11761935 CACTGCTCTCACTATATCATTTAC
1 CACTGCTCTCACTATATCATTTAC
11761959 CACTGCTCTCACTATATCATTTAC
1 CACTGCTCTCACTATATCATTTAC
11761983 C
1 C
11761984 TATATGCTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.35, G:0.04, T:0.37
Consensus pattern (24 bp):
CACTGCTCTCACTATATCATTTAC
Found at i:11776056 original size:17 final size:15
Alignment explanation
Indices: 11776017--11776057 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 15
11776007 TCGTACATGA
11776017 ATTATTGAATCAAAT
1 ATTATTGAATCAAAT
11776032 A-T-TTGAATACAAACT
1 ATTATTGAAT-CAAA-T
11776047 ATTATTGAATC
1 ATTATTGAATC
11776058 TTATGAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
13 6 0.27
14 5 0.23
15 3 0.14
16 2 0.09
17 6 0.27
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.39
Consensus pattern (15 bp):
ATTATTGAATCAAAT
Found at i:11786368 original size:29 final size:29
Alignment explanation
Indices: 11786336--11786477 Score: 110
Period size: 29 Copynumber: 4.8 Consensus size: 29
11786326 ATATTAAAAT
11786336 TTTATTTAAATAAAATTAAAATTTAAGAA
1 TTTATTTAAATAAAATTAAAATTTAAGAA
* * **
11786365 TTTATTTGAATATAAATTAAAAATTAAGTG
1 TTTATTTAAATA-AAATTAAAATTTAAGAA
* *
11786395 TTTATTTATATATAAA--GAAATGTTGAA-AA
1 TTTATTTAAATA-AAATTAAAAT-TT-AAGAA
* * * * *
11786424 TTTATTTAGATATAATAAAAATATAAAAA
1 TTTATTTAAATAAAATTAAAATTTAAGAA
*
11786453 TTTATTTAAATAAAATGATAAATTT
1 TTTATTTAAATAAAATTA-AAATTT
11786478 TAAAAAATTA
Statistics
Matches: 88, Mismatches: 18, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
28 7 0.08
29 42 0.48
30 39 0.44
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.42
Consensus pattern (29 bp):
TTTATTTAAATAAAATTAAAATTTAAGAA
Found at i:11786382 original size:30 final size:29
Alignment explanation
Indices: 11786336--11786466 Score: 103
Period size: 30 Copynumber: 4.5 Consensus size: 29
11786326 ATATTAAAAT
11786336 TTTATTTAA-ATAAAATTAAAATTTAAGAA
1 TTTATTTAATAT-AAATTAAAATTTAAGAA
* **
11786365 TTTATTTGAATATAAATTAAAAATTAAGTG
1 TTTATTT-AATATAAATTAAAATTTAAGAA
*
11786395 TTTATTTATATATAAA--GAAATGTTGAA-AA
1 TTTATTTA-ATATAAATTAAAAT-TT-AAGAA
* * *
11786424 TTTATTTAGATAT-AATAAAAATATAAAAA
1 TTTATTTA-ATATAAATTAAAATTTAAGAA
11786453 TTTATTTAA-ATAAA
1 TTTATTTAATATAAA
11786467 ATGATAAATT
Statistics
Matches: 83, Mismatches: 10, Indels: 19
0.74 0.09 0.17
Matches are distributed among these distances:
27 2 0.02
28 10 0.12
29 33 0.40
30 36 0.43
31 2 0.02
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (29 bp):
TTTATTTAATATAAATTAAAATTTAAGAA
Found at i:11788224 original size:34 final size:35
Alignment explanation
Indices: 11788175--11788249 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 35
11788165 ACAACTTTCT
*
11788175 AAAGTTCTATGAGTTTCCAAAAATAAATTTT-CAA
1 AAAGTTATATGAGTTTCCAAAAATAAATTTTCCAA
* ***
11788209 AAAGTTATATTAGTTTTGGAAAATAAATTTTCCAA
1 AAAGTTATATGAGTTTCCAAAAATAAATTTTCCAA
11788244 AAAGTT
1 AAAGTT
11788250 TATAATTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
34 26 0.74
35 9 0.26
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.37
Consensus pattern (35 bp):
AAAGTTATATGAGTTTCCAAAAATAAATTTTCCAA
Found at i:11788266 original size:35 final size:34
Alignment explanation
Indices: 11788194--11788266 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 34
11788184 TGAGTTTCCA
* *
11788194 AAAATAAATTTTCAAAAAGTTATATTAGTTTTGG
1 AAAATAAATTTTCAAAAAGTTATATAAGTTTTAG
*
11788228 AAAATAAATTTTCCAAAAAGTT-TATAATTTTTCAG
1 AAAATAAATTTT-CAAAAAGTTATATAAGTTTT-AG
11788263 AAAA
1 AAAA
11788267 CCATTTTTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
34 20 0.59
35 14 0.41
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.38
Consensus pattern (34 bp):
AAAATAAATTTTCAAAAAGTTATATAAGTTTTAG
Found at i:11791088 original size:20 final size:20
Alignment explanation
Indices: 11791065--11791113 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
11791055 TTATTTTTAT
11791065 TATTTATATTTAAAAAA-TAA
1 TATTT-TATTTAAAAAATTAA
*
11791085 TATTTTATATAAAAAATTAA
1 TATTTTATTTAAAAAATTAA
11791105 TATTTTATT
1 TATTTTATT
11791114 AATTTTAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TATTTTATTTAAAAAATTAA
Found at i:11795969 original size:30 final size:30
Alignment explanation
Indices: 11795935--11795995 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
11795925 AATGAATGTG
11795935 TAAGATTTTCAAAATCAAATAAGAAAATAA
1 TAAGATTTTCAAAATCAAATAAGAAAATAA
11795965 TAAGATTTTCAAAATCAAATAAGAAAATAA
1 TAAGATTTTCAAAATCAAATAAGAAAATAA
11795995 T
1 T
11795996 TTTTGAAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.28
Consensus pattern (30 bp):
TAAGATTTTCAAAATCAAATAAGAAAATAA
Found at i:11796360 original size:24 final size:24
Alignment explanation
Indices: 11796300--11796361 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 24
11796290 AATTAATATA
11796300 TTTAATATTAAAA-TTTAAAATTT
1 TTTAATATTAAAAGTTTAAAATTT
* *
11796323 TTATAAAATT-AAAGTTTCAAGA-TT
1 TT-TAATATTAAAAGTTT-AAAATTT
11796347 TTTAATATTAAAAGT
1 TTTAATATTAAAAGT
11796362 AAAAAAATCA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
23 11 0.34
24 18 0.56
25 3 0.09
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (24 bp):
TTTAATATTAAAAGTTTAAAATTT
Found at i:11799009 original size:22 final size:22
Alignment explanation
Indices: 11798978--11799035 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
11798968 TTTGTAAATT
* *
11798978 ATTCGAATTTGATTCGAAT-AAA
1 ATTCAAATTTAATTCG-ATCAAA
* *
11799000 ATTTAAATTTAATTTGATCAAA
1 ATTCAAATTTAATTCGATCAAA
11799022 ATTCAAATTTAATT
1 ATTCAAATTTAATT
11799036 TGATTATTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 2 0.07
22 28 0.93
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (22 bp):
ATTCAAATTTAATTCGATCAAA
Found at i:11799036 original size:22 final size:22
Alignment explanation
Indices: 11798997--11799039 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
11798987 TGATTCGAAT
*
11798997 AAAATTTAAATTTAATTTGATC
1 AAAATTCAAATTTAATTTGATC
11799019 AAAATTCAAATTTAATTTGAT
1 AAAATTCAAATTTAATTTGAT
11799040 TATTATCGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.44
Consensus pattern (22 bp):
AAAATTCAAATTTAATTTGATC
Found at i:11803281 original size:15 final size:14
Alignment explanation
Indices: 11803259--11803341 Score: 59
Period size: 14 Copynumber: 5.9 Consensus size: 14
11803249 ATATTTATGA
11803259 ATAATAAATAAATT
1 ATAATAAATAAATT
11803273 ATAATTAAATAAATT
1 ATAA-TAAATAAATT
* *
11803288 -TAAACAAATAAA-C
1 AT-AATAAATAAATT
*
11803301 A-AATAATTATAAAAT
1 ATAATAA--ATAAATT
11803316 -TAA-AAATAAATT
1 ATAATAAATAAATT
11803328 ATTAATAAATAAAT
1 A-TAATAAATAAAT
11803342 AAATTTATTC
Statistics
Matches: 54, Mismatches: 5, Indels: 19
0.69 0.06 0.24
Matches are distributed among these distances:
12 10 0.19
14 22 0.41
15 22 0.41
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (14 bp):
ATAATAAATAAATT
Found at i:11803283 original size:19 final size:18
Alignment explanation
Indices: 11803261--11803346 Score: 63
Period size: 19 Copynumber: 4.7 Consensus size: 18
11803251 ATTTATGAAT
11803261 AATAAATAAATTATAATTA
1 AATAAATAAATTATAA-TA
*
11803280 AATAAATTTAAA-CA-AATA
1 AATAAA--TAAATTATAATA
*
11803298 AACAAAT-AATTATAA-A
1 AATAAATAAATTATAATA
*
11803314 ATTAAAAATAAATTATTAATA
1 A--ATAAATAAATTA-TAATA
11803335 AATAAATAAATT
1 AATAAATAAATT
11803347 TATTCATAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 18
0.70 0.07 0.24
Matches are distributed among these distances:
15 2 0.04
16 4 0.08
17 2 0.04
18 12 0.23
19 23 0.43
20 4 0.08
21 6 0.11
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (18 bp):
AATAAATAAATTATAATA
Found at i:11803355 original size:20 final size:19
Alignment explanation
Indices: 11803261--11803358 Score: 64
Period size: 20 Copynumber: 5.2 Consensus size: 19
11803251 ATTTATGAAT
11803261 AATAAATAAATTA-TAAT-
1 AATAAATAAATTATTAATA
* *
11803278 --TAAATAAATT-TAAACA
1 AATAAATAAATTATTAATA
* *
11803294 AATAAACAAATAATT-ATAA
1 AATAAATAAATTATTAAT-A
11803313 AATTAAAAATAAATTATTAATA
1 AA-T--AAATAAATTATTAATA
*
11803335 AATAAATAAATTTATTCATA
1 AATAAATAAA-TTATTAATA
11803355 AATA
1 AATA
11803359 TAAACAAATT
Statistics
Matches: 61, Mismatches: 9, Indels: 19
0.69 0.10 0.21
Matches are distributed among these distances:
15 12 0.20
18 9 0.15
19 11 0.18
20 13 0.21
21 1 0.02
22 13 0.21
23 2 0.03
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (19 bp):
AATAAATAAATTATTAATA
Found at i:11809272 original size:19 final size:18
Alignment explanation
Indices: 11809250--11809298 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
11809240 TGATAATTAA
11809250 TTTATAAGTCTAAAATTT
1 TTTATAAGTCTAAAATTT
*
11809268 TTT-TAAAT-TCATAAATTT
1 TTTATAAGTCT-A-AAATTT
11809286 TTTATAAGT-TAAA
1 TTTATAAGTCTAAA
11809299 GTAATTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
16 1 0.04
17 7 0.27
18 13 0.50
19 5 0.19
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (18 bp):
TTTATAAGTCTAAAATTT
Found at i:11810323 original size:20 final size:20
Alignment explanation
Indices: 11810298--11810359 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
11810288 ATTCAATTAT
11810298 AATTTTATGTAAATTTATTC
1 AATTTTATGTAAATTTATTC
*
11810318 AATTTTATATTAAATTTCATTC
1 AATTTTAT-GTAAATTT-ATTC
* *
11810340 AATTATATGTTAATTATATT
1 AATTTTATGTAAATT-TATT
11810360 AATGCATTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
20 8 0.23
21 15 0.43
22 12 0.34
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.55
Consensus pattern (20 bp):
AATTTTATGTAAATTTATTC
Found at i:11810342 original size:22 final size:20
Alignment explanation
Indices: 11810298--11810343 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
11810288 ATTCAATTAT
*
11810298 AATTTTATGTAAATTTATTC
1 AATTTTATTTAAATTTATTC
11810318 AATTTTATATTAAATTTCATTC
1 AATTTTAT-TTAAATTT-ATTC
11810340 AATT
1 AATT
11810344 ATATGTTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.35
21 7 0.30
22 8 0.35
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.54
Consensus pattern (20 bp):
AATTTTATTTAAATTTATTC
Found at i:11810352 original size:22 final size:21
Alignment explanation
Indices: 11810298--11810352 Score: 76
Period size: 22 Copynumber: 2.6 Consensus size: 21
11810288 ATTCAATTAT
11810298 AATTTTATG-TAAATTTATTC
1 AATTTTATGTTAAATTTATTC
*
11810318 AATTTTATATTAAATTTCATTC
1 AATTTTATGTTAAATTT-ATTC
*
11810340 AATTATATGTTAA
1 AATTTTATGTTAA
11810353 TTATATTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 8 0.27
21 7 0.23
22 15 0.50
ACGTcount: A:0.38, C:0.05, G:0.04, T:0.53
Consensus pattern (21 bp):
AATTTTATGTTAAATTTATTC
Found at i:11810898 original size:16 final size:16
Alignment explanation
Indices: 11810877--11810908 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
11810867 ATATGATACG
11810877 ATAATATAATATAAAA
1 ATAATATAATATAAAA
*
11810893 ATAATATAATTTAAAA
1 ATAATATAATATAAAA
11810909 TTTTAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
ATAATATAATATAAAA
Found at i:11811034 original size:33 final size:33
Alignment explanation
Indices: 11810958--11811054 Score: 121
Period size: 33 Copynumber: 3.0 Consensus size: 33
11810948 AATATATTTT
*
11810958 ATATTTTATATTAATATAAAT-TATAACA-CA-TA
1 ATATTTTATA-TAATATAAATATATAA-ATTATTA
11810990 AT-TTTTATATAATATAAATATATAAATTATTA
1 ATATTTTATATAATATAAATATATAAATTATTA
* *
11811022 ATATTTTATATAATATGAATAAATAAATTATTA
1 ATATTTTATATAATATAAATATATAAATTATTA
11811055 GATCTAACAA
Statistics
Matches: 58, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
30 11 0.19
31 13 0.22
32 6 0.10
33 28 0.48
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (33 bp):
ATATTTTATATAATATAAATATATAAATTATTA
Found at i:11811198 original size:18 final size:17
Alignment explanation
Indices: 11811171--11811204 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
11811161 CTTAAAAATA
*
11811171 ATAATATTATTTTATAT
1 ATAATATTATTCTATAT
11811188 ATAACTATTATTCTATA
1 ATAA-TATTATTCTATA
11811205 AATTGACAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (17 bp):
ATAATATTATTCTATAT
Found at i:11811606 original size:17 final size:17
Alignment explanation
Indices: 11811569--11811610 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
11811559 CTAGAAAAAG
*
11811569 AATTTTGAAAAGAGAAT
1 AATTTTGAAAAGACAAT
11811586 AATTTTGAAAAGACCAA-
1 AATTTTGAAAAGA-CAAT
11811603 AATTTTGA
1 AATTTTGA
11811611 CAAGTTCCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 21 0.91
18 2 0.09
ACGTcount: A:0.50, C:0.05, G:0.14, T:0.31
Consensus pattern (17 bp):
AATTTTGAAAAGACAAT
Found at i:11812797 original size:16 final size:18
Alignment explanation
Indices: 11812765--11812800 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
11812755 GATAATTTAA
11812765 AATATAACATGATGATAC
1 AATATAACATGATGATAC
11812783 AATATAA-AT-ATGATAC
1 AATATAACATGATGATAC
11812799 AA
1 AA
11812801 AAATAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.50
17 2 0.11
18 7 0.39
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (18 bp):
AATATAACATGATGATAC
Found at i:11812805 original size:19 final size:19
Alignment explanation
Indices: 11812763--11812807 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
11812753 TTGATAATTT
11812763 AAAATATAACATGATGATAC
1 AAAATATAA-ATGATGATAC
11812783 --AATATAAAT-ATGATAC
1 AAAATATAAATGATGATAC
11812799 AAAA-ATAAA
1 AAAATATAAA
11812808 ATTTAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
16 7 0.30
17 7 0.30
18 9 0.39
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.24
Consensus pattern (19 bp):
AAAATATAAATGATGATAC
Found at i:11812827 original size:16 final size:18
Alignment explanation
Indices: 11812808--11812845 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
11812798 CAAAAATAAA
11812808 ATTTAAAA-ATAAT-ATT
1 ATTTAAAATATAATAATT
11812824 ATTTAAAATTATAATAATT
1 ATTTAAAA-TATAATAATT
11812843 ATT
1 ATT
11812846 ATATATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
18 5 0.26
19 6 0.32
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTTAAAATATAATAATT
Found at i:11812860 original size:22 final size:21
Alignment explanation
Indices: 11812815--11812862 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
11812805 AAAATTTAAA
*
11812815 AATAATATTATTTAAAATTAT
1 AATAATATTATATAAAATTAT
11812836 AATAATTATTATATATAAATT-T
1 AATAA-TATTATATA-AAATTAT
11812858 AATAA
1 AATAA
11812863 AAAAAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 5 0.21
22 14 0.58
23 5 0.21
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AATAATATTATATAAAATTAT
Found at i:11813164 original size:76 final size:77
Alignment explanation
Indices: 11813076--11813238 Score: 274
Period size: 77 Copynumber: 2.1 Consensus size: 77
11813066 AAGTTGAGTC
* *
11813076 AAAATCTATATTATTTTCTGTACCATAGCTTTAAAC-CTTTTTTTATATATATTATCACCATATC
1 AAAATTTATATTATTTTATGTACCATAGCTTTAAACACTTTTTTTATATATATTATCACCATATC
11813140 AATGGTCAAAAT
66 AATGGTCAAAAT
* *
11813152 AAAATTTATATTATTTTATGTACCATTGCTTTAAACATTTTTTTTATATATATTATCACCATATC
1 AAAATTTATATTATTTTATGTACCATAGCTTTAAACACTTTTTTTATATATATTATCACCATATC
11813217 AATGGTCAAAAT
66 AATGGTCAAAAT
11813229 AAAACTTTAT
1 AAAA-TTTAT
11813239 CAATAAGCTT
Statistics
Matches: 81, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
76 33 0.41
77 43 0.53
78 5 0.06
ACGTcount: A:0.37, C:0.13, G:0.05, T:0.45
Consensus pattern (77 bp):
AAAATTTATATTATTTTATGTACCATAGCTTTAAACACTTTTTTTATATATATTATCACCATATC
AATGGTCAAAAT
Found at i:11815321 original size:2 final size:2
Alignment explanation
Indices: 11815314--11815349 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
11815304 TAAAATTAGA
*
11815314 AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11815350 TGTTTATGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11815415 original size:32 final size:32
Alignment explanation
Indices: 11815378--11815470 Score: 93
Period size: 32 Copynumber: 2.9 Consensus size: 32
11815368 CGATTCGTAA
11815378 ATTTATATTATATAAAATATTAAAATTTATAT
1 ATTTATATTATATAAAATATTAAAATTTATAT
*** * *
11815410 ATTTATATTATATTTTATA-TAAAAATTATTT
1 ATTTATATTATATAAAATATTAAAATTTATAT
*
11815441 A-TTATAATTA-ATAAAAATATAAAAATTTAT
1 ATTTAT-ATTATAT-AAAATATTAAAATTTAT
11815471 TAAATATATA
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
30 6 0.12
31 18 0.38
32 24 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (32 bp):
ATTTATATTATATAAAATATTAAAATTTATAT
Found at i:11816063 original size:41 final size:41
Alignment explanation
Indices: 11816006--11816087 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
11815996 TTATGCACAT
*
11816006 ATAATTAACTAGCACTTGAATCCGGATTTTACTATACCAAG
1 ATAATTAACTAGCACTTGAATCCGGATTTAACTATACCAAG
*
11816047 ATAATTAACTAGCACTTGGATCCGGATTTAACTATACCAAG
1 ATAATTAACTAGCACTTGAATCCGGATTTAACTATACCAAG
11816088 TTCCTGTTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (41 bp):
ATAATTAACTAGCACTTGAATCCGGATTTAACTATACCAAG
Found at i:11816364 original size:18 final size:18
Alignment explanation
Indices: 11816341--11816375 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11816331 TTAATTTTTA
* *
11816341 TTTTATATATTTATATTT
1 TTTTATAAATATATATTT
11816359 TTTTATAAATATATATT
1 TTTTATAAATATATATT
11816376 AATATATATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTTATAAATATATATTT
Found at i:11816388 original size:29 final size:28
Alignment explanation
Indices: 11816352--11816407 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
11816342 TTTATATATT
** *
11816352 TATATTTTTTTATAAATATATATTAATA
1 TATATTTTTAAATAAAAATATATTAATA
11816380 TATATTTTTTAAATAAAAATATATTAAT
1 TATA-TTTTTAAATAAAAATATATTAAT
11816408 TTTAATTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 4 0.17
29 20 0.83
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (28 bp):
TATATTTTTAAATAAAAATATATTAATA
Found at i:11817905 original size:23 final size:22
Alignment explanation
Indices: 11817860--11817905 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
11817850 TTATTAAGAT
*
11817860 ATAATAAAAATAAAATTAAAAA
1 ATAATAAAAATAAAAGTAAAAA
*
11817882 ATAATAATAAATAAAAGTATAAA
1 ATAATAA-AAATAAAAGTAAAAA
11817905 A
1 A
11817906 GAAGAACTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (22 bp):
ATAATAAAAATAAAAGTAAAAA
Found at i:11818217 original size:2 final size:2
Alignment explanation
Indices: 11818210--11818235 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11818200 TTTAAGAAAC
11818210 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
11818236 CACACATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11824164 original size:14 final size:15
Alignment explanation
Indices: 11824128--11824164 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
11824118 TATTTGAAAA
11824128 TAATATTTAATAATT
1 TAATATTTAATAATT
*
11824143 AAAT-TTTAA-AATT
1 TAATATTTAATAATT
11824156 TAATATTTA
1 TAATATTTA
11824165 TGACTCATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
13 7 0.37
14 9 0.47
15 3 0.16
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TAATATTTAATAATT
Found at i:11841278 original size:29 final size:27
Alignment explanation
Indices: 11841200--11841279 Score: 67
Period size: 29 Copynumber: 2.8 Consensus size: 27
11841190 ATTGGAATTA
*
11841200 TTAAATTAAAATTTTAATTT-AATTAATT
1 TTAAATTAAAA-TTTAATTTCAA-TAAAT
11841228 TATATAATTAAAATATT-A-TTCAATAAAT
1 T-TA-AATTAAAAT-TTAATTTCAATAAAT
11841256 TTAAATTTAAAATTTAAATTTCAA
1 TTAAA-TTAAAATTT-AATTTCAA
11841280 AACTAACAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
26 4 0.09
27 9 0.21
28 9 0.21
29 11 0.26
30 10 0.23
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (27 bp):
TTAAATTAAAATTTAATTTCAATAAAT
Found at i:11848307 original size:25 final size:24
Alignment explanation
Indices: 11848279--11848326 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
11848269 TATTTTATAT
*
11848279 TTTTTATAATTAATTTAAATAAATG
1 TTTTTATAATTAATAT-AATAAATG
*
11848304 TTTTTATATTTAATATAATAAAT
1 TTTTTATAATTAATATAATAAAT
11848327 CCATAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
TTTTTATAATTAATATAATAAATG
Found at i:11854964 original size:26 final size:25
Alignment explanation
Indices: 11854921--11854980 Score: 59
Period size: 25 Copynumber: 2.4 Consensus size: 25
11854911 TCAATCATAT
** *
11854921 TTAAATATTTTATCAAAACAAGAAAA
1 TTAAATA-TTTAAAAAAAAAAGAAAA
*
11854947 TTAAATATTTAAAAAAAAATGAAAA
1 TTAAATATTTAAAAAAAAAAGAAAA
*
11854972 TGAAA-ATTT
1 TTAAATATTT
11854981 GATACTAAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
24 4 0.14
25 18 0.62
26 7 0.24
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.32
Consensus pattern (25 bp):
TTAAATATTTAAAAAAAAAAGAAAA
Found at i:11855086 original size:6 final size:6
Alignment explanation
Indices: 11855075--11855102 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
11855065 ATAAAGATTT
11855075 AAAATA AAAATA AAAATA AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAA
11855103 AATATGGACG
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:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:11865665 original size:4 final size:4
Alignment explanation
Indices: 11865656--11865694 Score: 69
Period size: 4 Copynumber: 9.8 Consensus size: 4
11865646 ACATTTACAG
*
11865656 ATAC ATAC ATAC AAAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
11865695 TATATATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.54, C:0.23, G:0.00, T:0.23
Consensus pattern (4 bp):
ATAC
Found at i:11871204 original size:2 final size:2
Alignment explanation
Indices: 11871194--11871227 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
11871184 ATATATCGAC
*
11871194 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11871228 AACTACTACT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:11873435 original size:3 final size:3
Alignment explanation
Indices: 11873427--11873457 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
11873417 TCTTAAGATT
11873427 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
11873458 TATTATTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:11876485 original size:35 final size:35
Alignment explanation
Indices: 11876415--11876481 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 35
11876405 ATATTATGAA
*
11876415 TTTTTAAAATTTAATTTAAATTTGAATCAATTTAT
1 TTTTTAAAATTTAATTTAAATTTAAATCAATTTAT
11876450 TTTTTAAAATTT-ATTT-AATTTAAACTCAATTT
1 TTTTTAAAATTTAATTTAAATTTAAA-TCAATTT
11876482 TATTGGTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 7 0.23
34 11 0.37
35 12 0.40
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.55
Consensus pattern (35 bp):
TTTTTAAAATTTAATTTAAATTTAAATCAATTTAT
Found at i:11880750 original size:20 final size:20
Alignment explanation
Indices: 11880719--11880764 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
11880709 ATAAAAAATA
* *
11880719 ATATATAAAAATTATATAT-
1 ATATTTAAAAAATATATATC
*
11880738 ATATTTAAAAAATATATTTC
1 ATATTTAAAAAATATATATC
11880758 ATATTTA
1 ATATTTA
11880765 TTCATGTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (20 bp):
ATATTTAAAAAATATATATC
Found at i:11881159 original size:16 final size:16
Alignment explanation
Indices: 11881137--11881192 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 16
11881127 TTGATACTAA
11881137 AAATATATATAATTATT
1 AAATATATATAATT-TT
11881154 -AATATATATTAAATTTT
1 AAATATATA-T-AATTTT
*
11881171 AAATATATATATATATT
1 AAATATATATA-ATTTT
11881188 AAATA
1 AAATA
11881193 CATAGGTATT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
16 9 0.26
17 13 0.38
18 12 0.35
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
AAATATATATAATTTT
Found at i:11881162 original size:18 final size:19
Alignment explanation
Indices: 11881134--11881192 Score: 65
Period size: 18 Copynumber: 3.3 Consensus size: 19
11881124 AATTTGATAC
*
11881134 TAAAAATATATATAATTAT
1 TAAATATATATATAATTAT
11881153 T-AATATATAT-TAAATT-T
1 TAAATATATATAT-AATTAT
11881170 TAAATATATATAT-A-TAT
1 TAAATATATATATAATTAT
11881187 TAAATA
1 TAAATA
11881193 CATAGGTATT
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
16 1 0.03
17 11 0.31
18 21 0.60
19 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TAAATATATATATAATTAT
Found at i:11883859 original size:7 final size:7
Alignment explanation
Indices: 11883847--11883876 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
11883837 CTACAAGTGG
11883847 AAAGAAT
1 AAAGAAT
11883854 AAAGAAT
1 AAAGAAT
*
11883861 AAAAAAT
1 AAAGAAT
11883868 AAAGAAT
1 AAAGAAT
11883875 AA
1 AA
11883877 TACCAGGGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (7 bp):
AAAGAAT
Found at i:11886823 original size:27 final size:27
Alignment explanation
Indices: 11886757--11886823 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
11886747 AGACTTTCAA
*
11886757 TATTGTCCTTTAAGAGTCTGTCCATAGG
1 TATT-TCCTTTAAGAATCTGTCCATAGG
* * *
11886785 TATTCCCTTTAAGAATCTGTCTATGGG
1 TATTTCCTTTAAGAATCTGTCCATAGG
*
11886812 TATTTCCGTTAA
1 TATTTCCTTTAA
11886824 CAAGACTCGT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 29 0.88
28 4 0.12
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (27 bp):
TATTTCCTTTAAGAATCTGTCCATAGG
Found at i:11889848 original size:2 final size:2
Alignment explanation
Indices: 11889841--11889871 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
11889831 GAAGTAATTG
11889841 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11889872 GACACAACAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11895888 original size:4 final size:4
Alignment explanation
Indices: 11895881--11895907 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
11895871 TATATATATA
11895881 TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TAT
11895908 ATGCTGACTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:11899796 original size:18 final size:18
Alignment explanation
Indices: 11899773--11899810 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
11899763 ATTAAAATAA
11899773 TAAAAAAAT-ATTAAGATT
1 TAAAAAAATGATTAA-ATT
*
11899791 TAAAAAATTGATTAAATT
1 TAAAAAAATGATTAAATT
11899809 TA
1 TA
11899811 TAAGTTATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (18 bp):
TAAAAAAATGATTAAATT
Found at i:11908627 original size:124 final size:125
Alignment explanation
Indices: 11908454--11908716 Score: 393
Period size: 124 Copynumber: 2.1 Consensus size: 125
11908444 AACATAACAG
* * * *
11908454 AACACAACAGAAATTGCACAATACCTTAAAAACAAAATAACAAATTTCTTTTTTGATAACCAAAT
1 AACATAACAGAAATTGCACAATACCTTAAAAACAAAATAAAAAATTTCTTTTTCGAGAACCAAAT
* *
11908519 TTTCTAATACCAAATTACATATTCCACTTCTTTATTTCCACTTCAT-TTTTTTGCATTTA
66 TTTCTAATACCAAATTACATATTCCACTTCTTCATTTCCACTTCATGTTTTTTGAATTTA
* * * *
11908578 AACCTAACAGAAATTGCACGATACCTTAAAAACAAAATAAAAAATTTCTTTTTCGCGAACCGAAT
1 AACATAACAGAAATTGCACAATACCTTAAAAACAAAATAAAAAATTTCTTTTTCGAGAACCAAAT
* * * *
11908643 TTTCTAATGCCGAATTACATATTCCACTTCTTCATTTCTACTTCATGTTTTTTTAATTTA
66 TTTCTAATACCAAATTACATATTCCACTTCTTCATTTCCACTTCATGTTTTTTGAATTTA
11908703 AACATAACAGAAAT
1 AACATAACAGAAAT
11908717 CAAATTATCA
Statistics
Matches: 123, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
124 99 0.80
125 24 0.20
ACGTcount: A:0.38, C:0.20, G:0.05, T:0.37
Consensus pattern (125 bp):
AACATAACAGAAATTGCACAATACCTTAAAAACAAAATAAAAAATTTCTTTTTCGAGAACCAAAT
TTTCTAATACCAAATTACATATTCCACTTCTTCATTTCCACTTCATGTTTTTTGAATTTA
Found at i:11912802 original size:21 final size:21
Alignment explanation
Indices: 11912778--11912840 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
11912768 GCCCTCAATT
11912778 TCTGCAACTAAGCCTGTAACA
1 TCTGCAACTAAGCCTGTAACA
* * *
11912799 TCTGCAGCAAAGCCTGTAATA
1 TCTGCAACTAAGCCTGTAACA
* *
11912820 TCTGCAACTAAACCTGCAACA
1 TCTGCAACTAAGCCTGTAACA
11912841 AAACCTGTAG
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.35, C:0.29, G:0.14, T:0.22
Consensus pattern (21 bp):
TCTGCAACTAAGCCTGTAACA
Found at i:11918194 original size:14 final size:16
Alignment explanation
Indices: 11918170--11918201 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
11918160 CGTTTGATCA
11918170 ATTTCTTTGGG-CTTT
1 ATTTCTTTGGGCCTTT
11918185 ATTT-TTTGGGCCTTT
1 ATTTCTTTGGGCCTTT
11918200 AT
1 AT
11918202 CTGTGTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.09, C:0.12, G:0.19, T:0.59
Consensus pattern (16 bp):
ATTTCTTTGGGCCTTT
Found at i:11918394 original size:30 final size:30
Alignment explanation
Indices: 11918358--11918421 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 30
11918348 GGGATATAGT
* *
11918358 AAAGAATTATAAATAATTTA-GAGATAAAGA
1 AAAGAATTACAAATAATTTAGGA-ATAAAAA
11918388 AAAGAATTACAAATAATTTAGGAATAAAAA
1 AAAGAATTACAAATAATTTAGGAATAAAAA
11918418 AAAG
1 AAAG
11918422 TTATATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 29 0.94
31 2 0.06
ACGTcount: A:0.62, C:0.02, G:0.12, T:0.23
Consensus pattern (30 bp):
AAAGAATTACAAATAATTTAGGAATAAAAA
Found at i:11918580 original size:30 final size:30
Alignment explanation
Indices: 11918545--11918617 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 30
11918535 TGAATTATTT
* *
11918545 TTAAATTATAATAAAATATTTAATGTGA-AG
1 TTAAATTATAAAAAAAT-TTTAATGTGATAC
*
11918575 TTAAATTTTTAAAAAAATTTTAATGTGATAC
1 TTAAA-TTATAAAAAAATTTTAATGTGATAC
*
11918606 ATAAATTATAAA
1 TTAAATTATAAA
11918618 TTTATTAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
30 21 0.58
31 15 0.42
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.41
Consensus pattern (30 bp):
TTAAATTATAAAAAAATTTTAATGTGATAC
Found at i:11930186 original size:22 final size:22
Alignment explanation
Indices: 11930161--11930211 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
11930151 AAAACCAGTA
11930161 ATAACTTTATATTAAATCAAT-G
1 ATAACTTTATATTAAA-CAATGG
* *
11930183 ATAACTATATATTAAACTATGG
1 ATAACTTTATATTAAACAATGG
11930205 ATAACTT
1 ATAACTT
11930212 ATTAGTAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 3 0.12
22 22 0.88
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.39
Consensus pattern (22 bp):
ATAACTTTATATTAAACAATGG
Found at i:11930251 original size:22 final size:22
Alignment explanation
Indices: 11930205--11930484 Score: 102
Period size: 22 Copynumber: 12.9 Consensus size: 22
11930195 TAAACTATGG
* * * *
11930205 ATAACTTATTAGTAAATTATTA
1 ATAACATAATAGTAAATAAATA
*
11930227 ATAACATAATAGTAAATAAAAA
1 ATAACATAATAGTAAATAAATA
** * *
11930249 ATAATTTAATAGTAAATAATTG
1 ATAACATAATAGTAAATAAATA
* ** * * *
11930271 ATAAGATAGAT-GTATGTCAGTG
1 ATAACATA-ATAGTAAATAAATA
* *
11930293 A-AACATAATAATAAATACATA
1 ATAACATAATAGTAAATAAATA
*
11930314 ATAATATAATAGTAAATAACA-A
1 ATAACATAATAGTAAATAA-ATA
* * * *
11930336 ATAACTTAATAGTAAATCATTT
1 ATAACATAATAGTAAATAAATA
* *
11930358 AT-ACATAATTGTAAATACATA
1 ATAACATAATAGTAAATAAATA
* * * * **
11930379 AAAATATAGTAGTAAATTAAGG
1 ATAACATAATAGTAAATAAATA
** * * *
11930401 ATAATTTAATA-AAAATAAGTG
1 ATAACATAATAGTAAATAAATA
* *
11930422 ATAACTTAATAGTAAATCAATA
1 ATAACATAATAGTAAATAAATA
* * * * *
11930444 ATAACTTAGTAATAAATTAACA
1 ATAACATAATAGTAAATAAATA
** *
11930466 ATAAGTTAATAATAAATAA
1 ATAACATAATAGTAAATAA
11930485 GATTCAATTT
Statistics
Matches: 186, Mismatches: 65, Indels: 14
0.70 0.25 0.05
Matches are distributed among these distances:
20 2 0.01
21 40 0.22
22 141 0.76
23 3 0.02
ACGTcount: A:0.55, C:0.05, G:0.08, T:0.33
Consensus pattern (22 bp):
ATAACATAATAGTAAATAAATA
Found at i:11930314 original size:14 final size:15
Alignment explanation
Indices: 11930295--11930324 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
11930285 TGTCAGTGAA
11930295 ACATAATAATA-AAT
1 ACATAATAATATAAT
11930309 ACATAATAATATAAT
1 ACATAATAATATAAT
11930324 A
1 A
11930325 GTAAATAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (15 bp):
ACATAATAATATAAT
Found at i:11930364 original size:65 final size:65
Alignment explanation
Indices: 11930205--11930395 Score: 179
Period size: 65 Copynumber: 2.9 Consensus size: 65
11930195 TAAACTATGG
* * * * * **
11930205 ATAACTTATTAGTAAATTATTAATAACATAATAGTAAATAAAAAATAATTTAATAGTAAATAATT
1 ATAACTTAATAGTAAATCATTAAT-ACATAATAGTAAATACATAATAATATAATAGTAAATAACA
*
11930270 G
65 A
** ** * *
11930271 ATAAGATAGAT-GTATGTCAGTGAA-ACATAATAATAAATACATAATAATATAATAGTAAATAAC
1 ATAACTTA-ATAGTAAATCA-TTAATACATAATAGTAAATACATAATAATATAATAGTAAATAAC
11930334 AA
64 AA
* * * *
11930336 ATAACTTAATAGTAAATCATTTATACATAATTGTAAATACATAAAAATATAGTAGTAAAT
1 ATAACTTAATAGTAAATCATTAATACATAATAGTAAATACATAATAATATAATAGTAAAT
11930396 TAAGGATAAT
Statistics
Matches: 97, Mismatches: 24, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
64 4 0.04
65 78 0.80
66 11 0.11
67 4 0.04
ACGTcount: A:0.54, C:0.05, G:0.08, T:0.33
Consensus pattern (65 bp):
ATAACTTAATAGTAAATCATTAATACATAATAGTAAATACATAATAATATAATAGTAAATAACAA
Found at i:11930395 original size:87 final size:87
Alignment explanation
Indices: 11930217--11930440 Score: 199
Period size: 87 Copynumber: 2.6 Consensus size: 87
11930207 AACTTATTAG
* * * * *
11930217 TAAATTATTAATAACATAATAGTAAATAAAAAATAATTTAATAGTAAATAATTGATAAGATAGAT
1 TAAATTAATAATAATATAATAGTAAATAAAAAATAACTTAATAGTAAATCATTGATAACATAGAT
** *
11930282 GTATGTCAGTGAAACATAATAA
66 GTAAATCAGTGAAAAATAATAA
* *
11930304 TAAA-TACATAATAATATAATAGTAAATAACAAATAACTTAATAGTAAATCATTTAT-ACATA-A
1 TAAATTA-ATAATAATATAATAGTAAATAAAAAATAACTTAATAGTAAATCATTGATAACATAGA
*
11930366 TTGTAAATACA-T-AAAAATATAGTAG
65 -TGTAAAT-CAGTGAAAAATA-A-TAA
** * * ***
11930391 TAAATTAAGGATAATTTAATA-AAAATAAGTGATAACTTAATAGTAAATCA
1 TAAATTAATAATAATATAATAGTAAATAAAAAATAACTTAATAGTAAATCA
11930441 ATAATAACTT
Statistics
Matches: 113, Mismatches: 18, Indels: 13
0.78 0.12 0.09
Matches are distributed among these distances:
85 7 0.06
86 38 0.34
87 66 0.58
88 2 0.02
ACGTcount: A:0.54, C:0.05, G:0.08, T:0.32
Consensus pattern (87 bp):
TAAATTAATAATAATATAATAGTAAATAAAAAATAACTTAATAGTAAATCATTGATAACATAGAT
GTAAATCAGTGAAAAATAATAA
Found at i:11930437 original size:65 final size:65
Alignment explanation
Indices: 11930289--11930485 Score: 170
Period size: 65 Copynumber: 3.0 Consensus size: 65
11930279 GATGTATGTC
* * * *
11930289 AGTGA-AACATAATAATAAATACATAATAATATAATAGTAAA-TAACAAATAACTTAATAGTAAA
1 AGTGATAACATAATAGTAAATACATAAAAATATAGTAGTAAATTAA-AAATAACTTAATA-AAAA
*
11930352 TC
64 TA
* * * ** *
11930354 ATTTAT-ACATAATTGTAAATACATAAAAATATAGTAGTAAATTAAGGATAATTTAATAAAAATA
1 AGTGATAACATAATAGTAAATACATAAAAATATAGTAGTAAATTAAAAATAACTTAATAAAAATA
* * * * *
11930418 AGTGATAACTTAATAGTAAAT-CAATAATAACT-TAGTAATAAATTAACAATAAGTTAATAATAA
1 AGTGATAACATAATAGTAAATAC-ATAA-AAATATAGTAGTAAATTAAAAATAACTTAATAA-AA
11930481 ATA
63 ATA
11930484 AG
1 AG
11930486 ATTCAATTTA
Statistics
Matches: 106, Mismatches: 20, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
64 9 0.08
65 84 0.79
66 13 0.12
ACGTcount: A:0.56, C:0.06, G:0.08, T:0.31
Consensus pattern (65 bp):
AGTGATAACATAATAGTAAATACATAAAAATATAGTAGTAAATTAAAAATAACTTAATAAAAATA
Found at i:11930987 original size:44 final size:44
Alignment explanation
Indices: 11930837--11931145 Score: 185
Period size: 44 Copynumber: 7.2 Consensus size: 44
11930827 AACTTAGTAG
* * * *
11930837 TAGTTAATAATTGA-AAATTAAAAATAAATCAAT-ATAACTTAA
1 TAGTAAATAATTGATAAATTAATAGTAAATCAATAATAATTTAA
* * * *
11930879 TAGT-AATCATTGATAAATTAATAGTTAATCAGTGATAATTTAGTA
1 TAGTAAATAATTGATAAATTAATAGTAAATCAATAATAATTTA--A
* * * * *
11930924 TAGTAAATTAGTGACAACTTAATAGTATATCAATAATAATTTAA
1 TAGTAAATAATTGATAAATTAATAGTAAATCAATAATAATTTAA
* * * *
11930968 TAGTAAATAATTGATAACTTATTAGTAAATTAATAATAATATAA
1 TAGTAAATAATTGATAAATTAATAGTAAATCAATAATAATTTAA
* * *
11931012 TAATAAATACA-TAATAATTTAATAGTAAATC------AATTTAA
1 TAGTAAATA-ATTGATAAATTAATAGTAAATCAATAATAATTTAA
* * * * * * *
11931050 TAGTAAACACA-TAATAATTTAATAGTTAATTATTAATAATTTAG
1 TAGTAAATA-ATTGATAAATTAATAGTAAATCAATAATAATTTAA
* * * * *
11931094 TAGTAAATCAA-TGA-AAACTTAGTAGTAAGTTACTAATAACTTAA
1 TAGTAAAT-AATTGATAAA-TTAATAGTAAATCAATAATAATTTAA
11931138 TAGTAAAT
1 TAGTAAAT
11931146 CTATTTTAGT
Statistics
Matches: 212, Mismatches: 41, Indels: 26
0.76 0.15 0.09
Matches are distributed among these distances:
38 33 0.16
41 8 0.04
42 19 0.09
43 9 0.04
44 106 0.50
45 7 0.03
46 30 0.14
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.37
Consensus pattern (44 bp):
TAGTAAATAATTGATAAATTAATAGTAAATCAATAATAATTTAA
Found at i:11930994 original size:22 final size:22
Alignment explanation
Indices: 11930870--11931041 Score: 102
Period size: 22 Copynumber: 7.8 Consensus size: 22
11930860 ATAAATCAAT
* *
11930870 ATAACTTAATAGT-AATCATTG
1 ATAACTTAATAGTAAATAAGTG
* * *
11930891 ATAAATTAATAGTTAATCAGTG
1 ATAACTTAATAGTAAATAAGTG
* *
11930913 ATAATTTAGTATAGTAAATTAGTG
1 ATAACTTA--ATAGTAAATAAGTG
* * *
11930937 ACAACTTAATAGTATATCAA-TA
1 ATAACTTAATAGTAAAT-AAGTG
* *
11930959 ATAATTTAATAGTAAATAATTG
1 ATAACTTAATAGTAAATAAGTG
* *
11930981 ATAACTTATTAGTAAATTAA-TA
1 ATAACTTAATAGTAAA-TAAGTG
* *
11931003 ATAA-TATAATAATAAATACA-TA
1 ATAACT-TAATAGTAAATA-AGTG
*
11931025 ATAATTTAATAGTAAAT
1 ATAACTTAATAGTAAAT
11931042 CAATTTAATA
Statistics
Matches: 122, Mismatches: 20, Indels: 17
0.77 0.13 0.11
Matches are distributed among these distances:
21 17 0.14
22 82 0.67
23 5 0.04
24 18 0.15
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (22 bp):
ATAACTTAATAGTAAATAAGTG
Found at i:11931069 original size:22 final size:21
Alignment explanation
Indices: 11930942--11931145 Score: 141
Period size: 22 Copynumber: 9.6 Consensus size: 21
11930932 TAGTGACAAC
*
11930942 TTAATAGTATATCAATAATAAT
1 TTAATAGTAAAT-AATAATAAT
* *
11930964 TTAATAGTAAATAATTGATAAC
1 TTAATAGTAAATAA-TAATAAT
*
11930986 TTATTAGTAAATTAATAATAAT
1 TTAATAGTAAA-TAATAATAAT
* *
11931008 ATAATAATAAATACATAATAAT
1 TTAATAGTAAATA-ATAATAAT
*
11931030 TTAATAGT--A-AAT--CAAT
1 TTAATAGTAAATAATAATAAT
*
11931046 TTAATAGTAAACACATAATAAT
1 TTAATAGTAAATA-ATAATAAT
* *
11931068 TTAATAGTTAATTATTAATAAT
1 TTAATAG-TAAATAATAATAAT
* *
11931090 TTAGTAGTAAATCAATGAA-AAC
1 TTAATAGTAAAT-AAT-AATAAT
* * * *
11931112 TTAGTAGTAAGTTACTAATAAC
1 TTAATAGTAA-ATAATAATAAT
11931134 TTAATAGTAAAT
1 TTAATAGTAAAT
11931146 CTATTTTAGT
Statistics
Matches: 144, Mismatches: 24, Indels: 29
0.73 0.12 0.15
Matches are distributed among these distances:
16 11 0.08
18 3 0.02
19 2 0.01
20 3 0.02
21 11 0.08
22 104 0.72
23 10 0.07
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.38
Consensus pattern (21 bp):
TTAATAGTAAATAATAATAAT
Found at i:11931131 original size:104 final size:104
Alignment explanation
Indices: 11930942--11931151 Score: 248
Period size: 104 Copynumber: 2.0 Consensus size: 104
11930932 TAGTGACAAC
* * * *
11930942 TTAATAGTATATCAATAATAATTTAATAGTAAATAATTGATAACTTATTAGTAAATTAATAATAA
1 TTAATAGTATAACAATAATAATTTAATAGTAAATAATTAATAACTTAGTAGTAAATCAATAATAA
*
11931007 TATAATAATAAATACATAATAATTTAATAGTAAATCAAT
66 TATAATAATAAATACATAATAACTTAATAGTAAATCAAT
* * *
11931046 TTAATAGTA-AACACATAATAATTTAATAGTTAATTATTAATAATTTAGTAGTAAATCAATGAA-
1 TTAATAGTATAACA-ATAATAATTTAATAGTAAATAATTAATAACTTAGTAGTAAATCAAT-AAT
* * * *
11931109 AACT-TAGTAGTAAGTTAC-TAATAACTTAATAGTAAATCTAT
64 AA-TATAATAATAA-ATACATAATAACTTAATAGTAAATCAAT
11931150 TT
1 TT
11931152 TAGTTTAATA
Statistics
Matches: 90, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
103 3 0.03
104 81 0.90
105 6 0.07
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.39
Consensus pattern (104 bp):
TTAATAGTATAACAATAATAATTTAATAGTAAATAATTAATAACTTAGTAGTAAATCAATAATAA
TATAATAATAAATACATAATAACTTAATAGTAAATCAAT
Found at i:11931195 original size:19 final size:20
Alignment explanation
Indices: 11931167--11931214 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 20
11931157 TAATAGTAAT
*
11931167 TAAATTATAAAT-TTAGCAA
1 TAAATCATAAATATTAGCAA
11931186 TAAATCATAAATAACTTAGCAA
1 TAAATCATAAAT-A-TTAGCAA
11931208 TAAATCA
1 TAAATCA
11931215 ATGATAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 11 0.44
22 14 0.56
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.31
Consensus pattern (20 bp):
TAAATCATAAATATTAGCAA
Found at i:11931235 original size:22 final size:22
Alignment explanation
Indices: 11931209--11931277 Score: 68
Period size: 22 Copynumber: 3.2 Consensus size: 22
11931199 ACTTAGCAAT
*
11931209 AAATCAATGATAATTTAGTAGT
1 AAATCAATGATAATTTAGTAGC
* * * * *
11931231 TAATCACT-AAAACTCAGTAGC
1 AAATCAATGATAATTTAGTAGC
*
11931252 AAATCAATGATAATATAGTAGC
1 AAATCAATGATAATTTAGTAGC
11931274 AAAT
1 AAAT
11931278 GCATAATAGT
Statistics
Matches: 34, Mismatches: 12, Indels: 2
0.71 0.25 0.04
Matches are distributed among these distances:
21 15 0.44
22 19 0.56
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.29
Consensus pattern (22 bp):
AAATCAATGATAATTTAGTAGC
Found at i:11931290 original size:22 final size:22
Alignment explanation
Indices: 11931246--11931295 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
11931236 ACTAAAACTC
*
11931246 AGTAGCAAATCAATGATAATAT
1 AGTAGCAAATCAATAATAATAT
11931268 AGTAGCAAATGC-ATAATAGTATAT
1 AGTAGCAAAT-CAATAATA--ATAT
11931292 AGTA
1 AGTA
11931296 AATTGTTGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 15 0.62
23 1 0.04
24 8 0.33
ACGTcount: A:0.48, C:0.08, G:0.16, T:0.28
Consensus pattern (22 bp):
AGTAGCAAATCAATAATAATAT
Found at i:11931318 original size:22 final size:22
Alignment explanation
Indices: 11931290--11931432 Score: 121
Period size: 22 Copynumber: 6.5 Consensus size: 22
11931280 ATAATAGTAT
*
11931290 ATAGTAAATTGTTGATAATTTA
1 ATAGTAAATTATTGATAATTTA
11931312 ATAGTAAATTATTGATAATTTA
1 ATAGTAAATTATTGATAATTTA
* * * * * *
11931334 GTAATAAATCACTAATAACATT-
1 ATAGTAAATTATTGATAA-TTTA
*
11931356 ATAGTAAATTATTGATAACTTA
1 ATAGTAAATTATTGATAATTTA
* *
11931378 GCT-GTAAATTAGTGATAATTTA
1 -ATAGTAAATTATTGATAATTTA
* *
11931400 GTTA-TAAATTAATGATAATTTA
1 -ATAGTAAATTATTGATAATTTA
*
11931422 ATTGTAAATTA
1 ATAGTAAATTA
11931433 GTTAATTATT
Statistics
Matches: 96, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
21 3 0.03
22 90 0.94
23 3 0.03
ACGTcount: A:0.44, C:0.03, G:0.10, T:0.42
Consensus pattern (22 bp):
ATAGTAAATTATTGATAATTTA
Found at i:11931400 original size:11 final size:11
Alignment explanation
Indices: 11931316--11931417 Score: 57
Period size: 11 Copynumber: 9.3 Consensus size: 11
11931306 AATTTAATAG
*
11931316 TAAATTATTGA
1 TAAATTAGTGA
* *
11931327 TAATTTAGTAA
1 TAAATTAGTGA
* * *
11931338 TAAATCACTAA
1 TAAATTAGTGA
11931349 TAACATTA-T-A
1 TAA-ATTAGTGA
*
11931359 GTAAATTATTGA
1 -TAAATTAGTGA
*
11931371 TAACTTAGCTG-
1 TAAATTAG-TGA
11931382 TAAATTAGTGA
1 TAAATTAGTGA
* *
11931393 TAATTTAGTTA
1 TAAATTAGTGA
*
11931404 TAAATTAATGA
1 TAAATTAGTGA
11931415 TAA
1 TAA
11931418 TTTAATTGTA
Statistics
Matches: 70, Mismatches: 15, Indels: 12
0.72 0.15 0.12
Matches are distributed among these distances:
10 7 0.10
11 57 0.81
12 6 0.09
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (11 bp):
TAAATTAGTGA
Found at i:11931432 original size:66 final size:66
Alignment explanation
Indices: 11931289--11931417 Score: 170
Period size: 66 Copynumber: 2.0 Consensus size: 66
11931279 CATAATAGTA
* * * *
11931289 TATAGTAAATTGTTGATAATTTAATAGTAAATTATTGATAATTTAGTAATAAATCACTAATAACA
1 TATAGTAAATTATTGATAACTTAATAGTAAATTAGTGATAATTTAGTAATAAATCAATAATAACA
11931354 T
66 T
* * * *
11931355 TATAGTAAATTATTGATAACTTAGCT-GTAAATTAGTGATAATTTAGTTATAAATTAATGATAA
1 TATAGTAAATTATTGATAACTTA-ATAGTAAATTAGTGATAATTTAGTAATAAATCAATAATAA
11931418 TTTAATTGTA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
66 53 0.98
67 1 0.02
ACGTcount: A:0.44, C:0.04, G:0.11, T:0.41
Consensus pattern (66 bp):
TATAGTAAATTATTGATAACTTAATAGTAAATTAGTGATAATTTAGTAATAAATCAATAATAACA
T
Found at i:11931456 original size:22 final size:22
Alignment explanation
Indices: 11931431--11931535 Score: 95
Period size: 22 Copynumber: 4.8 Consensus size: 22
11931421 AATTGTAAAT
*
11931431 TAGTTAATTATTAATAACTTCA
1 TAGTAAATTATTAATAACTTCA
* * *
11931453 TAGTAAATCATCAAAAACTTCA
1 TAGTAAATTATTAATAACTTCA
* * * *
11931475 TGGTAAATTAGTAATAGCTTTA
1 TAGTAAATTATTAATAACTTCA
* *
11931497 TAATAAATTATCT-ATAACTTAA
1 TAGTAAATTAT-TAATAACTTCA
*
11931519 TAGTAAATTATCAATAA
1 TAGTAAATTATTAATAA
11931536 TTTAGTAATA
Statistics
Matches: 63, Mismatches: 18, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
22 62 0.98
23 1 0.02
ACGTcount: A:0.46, C:0.10, G:0.07, T:0.38
Consensus pattern (22 bp):
TAGTAAATTATTAATAACTTCA
Found at i:11931504 original size:44 final size:44
Alignment explanation
Indices: 11931431--11931528 Score: 106
Period size: 44 Copynumber: 2.2 Consensus size: 44
11931421 AATTGTAAAT
* * * *
11931431 TAGTTAATTATTAATAACTTCATAGTAAATCATCAAAAACTTCA
1 TAGTAAATTAGTAATAACTTCATAATAAATCATCAAAAACTTAA
* * * * * *
11931475 TGGTAAATTAGTAATAGCTTTATAATAAATTATCTATAACTTAA
1 TAGTAAATTAGTAATAACTTCATAATAAATCATCAAAAACTTAA
11931519 TAGTAAATTA
1 TAGTAAATTA
11931529 TCAATAATTT
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.39
Consensus pattern (44 bp):
TAGTAAATTAGTAATAACTTCATAATAAATCATCAAAAACTTAA
Found at i:11931545 original size:44 final size:44
Alignment explanation
Indices: 11931493--11931594 Score: 116
Period size: 44 Copynumber: 2.3 Consensus size: 44
11931483 TAGTAATAGC
*
11931493 TTTA-TAATAAATTATCTATAACTTAATAGTAAATTATCAATAA
1 TTTAGTAATAAATTATCTATAACTTAATAGTAAATCATCAATAA
* * * * **
11931536 TTTAGTAATAAATTGTTTATAATTTAATAGTGAATCATTTATAA
1 TTTAGTAATAAATTATCTATAACTTAATAGTAAATCATCAATAA
* *
11931580 CTTAGTGATAAATTA
1 TTTAGTAATAAATTA
11931595 ATGATAATTT
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
43 4 0.08
44 44 0.92
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (44 bp):
TTTAGTAATAAATTATCTATAACTTAATAGTAAATCATCAATAA
Found at i:11931557 original size:22 final size:22
Alignment explanation
Indices: 11931493--11931607 Score: 88
Period size: 22 Copynumber: 5.3 Consensus size: 22
11931483 TAGTAATAGC
*
11931493 TTTA-TAATAAATTATCTATAA
1 TTTAGTAATAAATTATTTATAA
* * * **
11931514 CTTAATAGTAAATTATCAATAA
1 TTTAGTAATAAATTATTTATAA
*
11931536 TTTAGTAATAAATTGTTTATAA
1 TTTAGTAATAAATTATTTATAA
* * * *
11931558 TTTAATAGTGAATCATTTATAA
1 TTTAGTAATAAATTATTTATAA
* * * *
11931580 CTTAGTGATAAATTAATGATAA
1 TTTAGTAATAAATTATTTATAA
11931602 TTTAGT
1 TTTAGT
11931608 TGTAAATCAG
Statistics
Matches: 70, Mismatches: 23, Indels: 1
0.74 0.24 0.01
Matches are distributed among these distances:
21 3 0.04
22 67 0.96
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.44
Consensus pattern (22 bp):
TTTAGTAATAAATTATTTATAA
Found at i:11931919 original size:23 final size:22
Alignment explanation
Indices: 11931891--11931953 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 22
11931881 TAAATCATAA
11931891 ATAACTTAGTAGTAATTCAACTG
1 ATAACTTAGTAGTAATT-AACTG
* *
11931914 ATAACTTAG-AGTAAATAATTG
1 ATAACTTAGTAGTAATTAACTG
*
11931935 ATAACTTAATAGCTAATTA
1 ATAACTTAGTAG-TAATTA
11931954 TTAAATTGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
21 12 0.35
22 8 0.24
23 14 0.41
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.35
Consensus pattern (22 bp):
ATAACTTAGTAGTAATTAACTG
Found at i:11931938 original size:21 final size:23
Alignment explanation
Indices: 11931891--11931942 Score: 72
Period size: 21 Copynumber: 2.3 Consensus size: 23
11931881 TAAATCATAA
*
11931891 ATAACTTAGTAGTAATTCAACTG
1 ATAACTTAGTAGTAAATCAACTG
*
11931914 ATAACTTAG-AGTAAAT-AATTG
1 ATAACTTAGTAGTAAATCAACTG
11931935 ATAACTTA
1 ATAACTTA
11931943 ATAGCTAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 12 0.44
22 6 0.22
23 9 0.33
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.35
Consensus pattern (23 bp):
ATAACTTAGTAGTAAATCAACTG
Found at i:11931999 original size:21 final size:21
Alignment explanation
Indices: 11931962--11932013 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
11931952 TATTAAATTG
*
11931962 TTAGTAATATACCAATAGTA-A
1 TTAGTAA-ATACCAATAATATA
*
11931983 TTAGTAAATACATAATAATATA
1 TTAGTAAATAC-CAATAATATA
*
11932005 GTAGTAAAT
1 TTAGTAAAT
11932014 CATTGAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 4 0.15
21 13 0.50
22 9 0.35
ACGTcount: A:0.50, C:0.06, G:0.10, T:0.35
Consensus pattern (21 bp):
TTAGTAAATACCAATAATATA
Found at i:11937635 original size:39 final size:40
Alignment explanation
Indices: 11937579--11937671 Score: 136
Period size: 40 Copynumber: 2.4 Consensus size: 40
11937569 GATTGGATGG
* *
11937579 GGTGGGGA-GGATTGGGTGTGGTGGGGCGTT-GGGGGGAA
1 GGTGGGGAGGGATTGGGTGTAGTGGGACGTTGGGGGGGAA
*
11937617 GGTGGGGAGGGATTGGGTGTAGTGGGATGTTGGGGGGGAA
1 GGTGGGGAGGGATTGGGTGTAGTGGGACGTTGGGGGGGAA
*
11937657 GGTGGAGAGGGATTG
1 GGTGGGGAGGGATTG
11937672 ATCGGGGTAG
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
38 8 0.16
39 19 0.39
40 22 0.45
ACGTcount: A:0.14, C:0.01, G:0.63, T:0.22
Consensus pattern (40 bp):
GGTGGGGAGGGATTGGGTGTAGTGGGACGTTGGGGGGGAA
Found at i:11937944 original size:20 final size:20
Alignment explanation
Indices: 11937906--11937943 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11937896 GATTGTGTTA
*
11937906 TATATTAATTTATAATTTTG
1 TATATGAATTTATAATTTTG
11937926 TATATGAATTT-TAATTTT
1 TATATGAATTTATAATTTT
11937944 TTTTTTGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (20 bp):
TATATGAATTTATAATTTTG
Found at i:11938195 original size:26 final size:26
Alignment explanation
Indices: 11938167--11938215 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
11938157 TAAAAAATAA
*
11938167 AAAATATAGGTTTGAAAA-TTTTATT
1 AAAATATAAGTTTGAAAACTTTTATT
*
11938192 AAAATATAAGTTTTAAAACTTTTA
1 AAAATATAAGTTTGAAAACTTTTA
11938216 ATTTTTGAAA
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:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (26 bp):
AAAATATAAGTTTGAAAACTTTTATT
Found at i:11942027 original size:18 final size:18
Alignment explanation
Indices: 11942004--11942128 Score: 98
Period size: 18 Copynumber: 6.9 Consensus size: 18
11941994 ATGGTTATTA
11942004 TCCACCTCAAATGTATCC
1 TCCACCTCAAATGTATCC
*
11942022 TCCACCTCCTCAAATATATCC
1 TCCA---CCTCAAATGTATCC
* *
11942043 TCGACCTCAAATGTATCAG
1 TCCACCTCAAATGTATC-C
* * *
11942062 T-TACCACAAATGTACCC
1 TCCACCTCAAATGTATCC
*
11942079 TCCACCACAAATGTAT--
1 TCCACCTCAAATGTATCC
*
11942095 T--ATCCTCAAATATATCC
1 TCCA-CCTCAAATGTATCC
11942112 TCCACCTCAAATGTATC
1 TCCACCTCAAATGTATC
11942129 AAGAACAAAG
Statistics
Matches: 84, Mismatches: 13, Indels: 20
0.72 0.11 0.17
Matches are distributed among these distances:
14 1 0.01
15 10 0.12
16 1 0.01
17 2 0.02
18 52 0.62
19 2 0.02
21 16 0.19
ACGTcount: A:0.32, C:0.34, G:0.06, T:0.28
Consensus pattern (18 bp):
TCCACCTCAAATGTATCC
Found at i:11942034 original size:21 final size:21
Alignment explanation
Indices: 11942008--11942050 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
11941998 TTATTATCCA
*
11942008 CCTCAAATGTATCCTCCACCT
1 CCTCAAATATATCCTCCACCT
*
11942029 CCTCAAATATATCCTCGACCT
1 CCTCAAATATATCCTCCACCT
11942050 C
1 C
11942051 AAATGTATCA
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:0.26, C:0.42, G:0.05, T:0.28
Consensus pattern (21 bp):
CCTCAAATATATCCTCCACCT
Found at i:11943812 original size:20 final size:19
Alignment explanation
Indices: 11943772--11943819 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
11943762 TTTGGATTGC
**
11943772 AAATAAATATGATAATTTA
1 AAATAAATATGATAACATA
11943791 AAATACAATATGATAACATA
1 AAATA-AATATGATAACATA
*
11943811 AAAAAAATA
1 AAATAAATA
11943820 CAATAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (19 bp):
AAATAAATATGATAACATA
Found at i:11943835 original size:24 final size:24
Alignment explanation
Indices: 11943790--11943840 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
11943780 ATGATAATTT
** *
11943790 AAAATACAATATGATAACATAAAA
1 AAAATACAATAAAAAAACATAAAA
*
11943814 AAAATACAATAAAAAAATATAAAA
1 AAAATACAATAAAAAAACATAAAA
11943838 AAA
1 AAA
11943841 TATAATTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.75, C:0.06, G:0.02, T:0.18
Consensus pattern (24 bp):
AAAATACAATAAAAAAACATAAAA
Found at i:11944264 original size:20 final size:20
Alignment explanation
Indices: 11944226--11944264 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11944216 TGTCGTATCT
* *
11944226 AAATTTATATTGTTTTTATG
1 AAATTTATATTATTATTATG
11944246 AAATTTATATTATTATTAT
1 AAATTTATATTATTATTAT
11944265 TATTTTAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (20 bp):
AAATTTATATTATTATTATG
Found at i:11945024 original size:17 final size:17
Alignment explanation
Indices: 11945004--11945038 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
11944994 TTTATTTATT
11945004 TTTATCTAGCTTATTTA
1 TTTATCTAGCTTATTTA
* *
11945021 TTTATTTAGCTTGTTTA
1 TTTATCTAGCTTATTTA
11945038 T
1 T
11945039 CTTCTCTGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.20, C:0.09, G:0.09, T:0.63
Consensus pattern (17 bp):
TTTATCTAGCTTATTTA
Found at i:11947965 original size:139 final size:137
Alignment explanation
Indices: 11947720--11947970 Score: 333
Period size: 139 Copynumber: 1.8 Consensus size: 137
11947710 ATTATTCTAC
*
11947720 TTATAAAAAAGAGTTTAATAATAAAAATAAAATCATTTAAATTAAAATTTATAAAAAATTACTAA
1 TTATAAAAAAGAGTCTAATAATAAAAAT--AATCATTTAAATTAAAATTTATAAAAAATTACTAA
*** * *
11947785 TGCTATGTTAACCAAAAACTTTTAATATTTTTGAAATTAAAATTTTATTCACTTTTAGCACTTTT
64 AAATATGTTAACCAAAAACTTTTAATACTTTTAAAATTAAAATTTTATTCACTTTTAGCACTTTT
11947850 TTAGTATAA
129 TTAGTATAA
*
11947859 TTATAAAAAAAGAGTCTAATAATAAAAAT-TTCATTTAAATTAAAATTTATTAAAAAATTTACTA
1 TTAT-AAAAAAGAGTCTAATAATAAAAATAATCATTTAAATTAAAATTTA-TAAAAAA-TTACTA
* ** ** *
11947923 AAAATATTTTAGTCAATCACTTTTGATACTTTTAAAATTAAAATTTTA
63 AAAATATGTTAACCAAAAACTTTTAATACTTTTAAAATTAAAATTTTA
11947971 AGTAGTTTAA
Statistics
Matches: 96, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
137 19 0.20
138 7 0.07
139 47 0.49
140 23 0.24
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (137 bp):
TTATAAAAAAGAGTCTAATAATAAAAATAATCATTTAAATTAAAATTTATAAAAAATTACTAAAA
ATATGTTAACCAAAAACTTTTAATACTTTTAAAATTAAAATTTTATTCACTTTTAGCACTTTTTT
AGTATAA
Found at i:11948169 original size:2 final size:2
Alignment explanation
Indices: 11948162--11948194 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
11948152 TAGATTGATG
11948162 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
11948195 TATATATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:11948199 original size:2 final size:2
Alignment explanation
Indices: 11948194--11948221 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11948184 ACACACACAC
11948194 AT AT 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
11948222 TCAAATCTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11950107 original size:3 final size:3
Alignment explanation
Indices: 11950087--11950144 Score: 84
Period size: 3 Copynumber: 20.0 Consensus size: 3
11950077 TCTAAATTTA
* *
11950087 TAT TAT TTT TAT GA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
11950134 TAT TA- TAT TAT
1 TAT TAT TAT TAT
11950145 ATATATAATT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
2 3 0.06
3 46 0.94
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:11950908 original size:21 final size:20
Alignment explanation
Indices: 11950879--11950930 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
11950869 TTTTTATCTA
*
11950879 ACTTATTTATTTATTTATTT
1 ACTTGTTTATTTATTTATTT
*
11950899 ACCTTGTTTATCTTCTTTGATTT
1 A-CTTGTTTAT-TTATTT-ATTT
11950922 A-TTGTTTAT
1 ACTTGTTTAT
11950931 CTTTGGCTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 1 0.04
21 16 0.59
22 5 0.19
23 5 0.19
ACGTcount: A:0.19, C:0.10, G:0.06, T:0.65
Consensus pattern (20 bp):
ACTTGTTTATTTATTTATTT
Found at i:11952253 original size:17 final size:17
Alignment explanation
Indices: 11952231--11952286 Score: 69
Period size: 17 Copynumber: 3.3 Consensus size: 17
11952221 ATGAAAACTT
11952231 AAAATTTCTT-TTATATA
1 AAAATTT-TTATTATATA
* *
11952248 AAAATTTTTGTTATACA
1 AAAATTTTTATTATATA
*
11952265 TAAATTTTTATTATATA
1 AAAATTTTTATTATATA
11952282 AAAAT
1 AAAAT
11952287 ATTAAAATAC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
16 2 0.06
17 31 0.94
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.50
Consensus pattern (17 bp):
AAAATTTTTATTATATA
Found at i:11956327 original size:12 final size:13
Alignment explanation
Indices: 11956306--11956437 Score: 57
Period size: 14 Copynumber: 10.3 Consensus size: 13
11956296 TATTGATTGC
*
11956306 TATTATTATAT-T
1 TATTAATATATAT
11956318 TATTAATATATAT
1 TATTAATATATAT
*
11956331 TATCTATTA-ATAT
1 TAT-TAATATATAT
* *
11956344 ATATTACTATTTAT
1 -TATTAATATATAT
*
11956358 CTATTAATGTATAT
1 -TATTAATATATAT
* *
11956372 AATT--T-TTTAT
1 TATTAATATATAT
11956382 TATTAACTAT-TAT
1 TATTAA-TATATAT
*
11956395 CTATTAAT-TAT-C
1 -TATTAATATATAT
*
11956407 TATTAGTATATA-
1 TATTAATATATAT
11956419 TATGTATATATATAT
1 TAT-TA-ATATATAT
11956434 TATT
1 TATT
11956438 TATCTATTTT
Statistics
Matches: 91, Mismatches: 14, Indels: 28
0.68 0.11 0.21
Matches are distributed among these distances:
10 7 0.08
11 7 0.08
12 17 0.19
13 23 0.25
14 34 0.37
15 3 0.03
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (13 bp):
TATTAATATATAT
Found at i:11956340 original size:17 final size:16
Alignment explanation
Indices: 11956318--11956354 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 16
11956308 TTATTATATT
11956318 TATTAATATATATTATC
1 TATTAATATATATTA-C
11956335 TATTAATATATATTAC
1 TATTAATATATATTAC
11956351 TATT
1 TATT
11956355 TATCTATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (16 bp):
TATTAATATATATTAC
Found at i:11956362 original size:24 final size:24
Alignment explanation
Indices: 11956330--11956419 Score: 94
Period size: 24 Copynumber: 3.8 Consensus size: 24
11956320 TTAATATATA
*
11956330 TTATCTATTAATATATATTACTAT
1 TTATCTATTAATATATATTATTAT
* * *
11956354 TTATCTATTAATGTATATAATTTT
1 TTATCTATTAATATATATTATTAT
*
11956378 TTAT-TATTAACTAT-TATCTATTAA
1 TTATCTATTAA-TATATAT-TATTAT
*
11956402 TTATCTATTAGTATATAT
1 TTATCTATTAATATATAT
11956420 ATGTATATAT
Statistics
Matches: 53, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
23 9 0.17
24 36 0.68
25 8 0.15
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.56
Consensus pattern (24 bp):
TTATCTATTAATATATATTATTAT
Found at i:11957157 original size:8 final size:7
Alignment explanation
Indices: 11957144--11957180 Score: 51
Period size: 6 Copynumber: 5.4 Consensus size: 7
11957134 CTAAAGGTTT
11957144 TTATTTA
1 TTATTTA
11957151 CTTATTTA
1 -TTATTTA
11957159 TTA-TTA
1 TTATTTA
11957165 TTA-TTA
1 TTATTTA
11957171 TTATTTA
1 TTATTTA
11957178 TTA
1 TTA
11957181 ATTAGATTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 12 0.43
7 9 0.32
8 7 0.25
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (7 bp):
TTATTTA
Found at i:11957170 original size:9 final size:10
Alignment explanation
Indices: 11957152--11957204 Score: 54
Period size: 10 Copynumber: 5.2 Consensus size: 10
11957142 TTTTATTTAC
11957152 TTATTTATTA
1 TTATTTATTA
11957162 TTA-TTATTA
1 TTATTTATTA
11957171 TTATTTATTAA
1 TTATTTATT-A
* **
11957182 TTAGATTAGAA
1 TTA-TTTATTA
11957193 TTATTTATTA
1 TTATTTATTA
11957203 TT
1 TT
11957205 CCTTATTTTC
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
9 9 0.26
10 14 0.41
11 8 0.24
12 3 0.09
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (10 bp):
TTATTTATTA
Found at i:11957176 original size:19 final size:20
Alignment explanation
Indices: 11957152--11957204 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 20
11957142 TTTTATTTAC
**
11957152 TTATTTATTATT-ATTATTA
1 TTATTTATTATTAATTAGAA
11957171 TTATTTATTAATTAGATTAGAA
1 TTATTTATT-ATTA-ATTAGAA
11957193 TTATTTATTATT
1 TTATTTATTATT
11957205 CCTTATTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 9 0.31
20 3 0.10
21 3 0.10
22 14 0.48
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (20 bp):
TTATTTATTATTAATTAGAA
Found at i:11967758 original size:10 final size:9
Alignment explanation
Indices: 11967744--11967796 Score: 65
Period size: 9 Copynumber: 6.0 Consensus size: 9
11967734 ATGCTTAAAG
11967744 GAAAAAAAA
1 GAAAAAAAA
*
11967753 G-TAAAAAA
1 GAAAAAAAA
11967761 -AAAAAAAA
1 GAAAAAAAA
*
11967769 GAAAAAAAG
1 GAAAAAAAA
11967778 GAAAGAAAAA
1 GAAA-AAAAA
11967788 GAAAAAAAA
1 GAAAAAAAA
11967797 AGAATGAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
8 12 0.32
9 17 0.46
10 8 0.22
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (9 bp):
GAAAAAAAA
Found at i:11967760 original size:8 final size:8
Alignment explanation
Indices: 11967746--11967795 Score: 57
Period size: 8 Copynumber: 5.9 Consensus size: 8
11967736 GCTTAAAGGA
11967746 AAAAAAAG
1 AAAAAAAG
11967754 TAAAAAAA-
1 -AAAAAAAG
11967762 AAAAAAAG
1 AAAAAAAG
11967770 AAAAAAAGG
1 AAAAAAA-G
11967779 AAAGAAAAAG
1 -AA-AAAAAG
11967789 AAAAAAA
1 AAAAAAA
11967796 AAGAATGAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
7 7 0.19
8 12 0.32
9 10 0.27
10 3 0.08
11 5 0.14
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (8 bp):
AAAAAAAG
Found at i:11967763 original size:13 final size:12
Alignment explanation
Indices: 11967745--11967807 Score: 58
Period size: 11 Copynumber: 5.2 Consensus size: 12
11967735 TGCTTAAAGG
11967745 AAAAAAAAGTAAA
1 AAAAAAAAG-AAA
11967758 AAAAAAAA-AAA
1 AAAAAAAAGAAA
* *
11967769 GAAAAAAAG-GA
1 AAAAAAAAGAAA
*
11967780 AAGAAAAAGAAA
1 AAAAAAAAGAAA
11967792 AAAAAAGAATGAAA
1 AAAAAA-AA-GAAA
11967806 AA
1 AA
11967808 TAAGAAATCA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
11 18 0.45
12 6 0.15
13 10 0.25
14 6 0.15
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (12 bp):
AAAAAAAAGAAA
Done.