Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold145
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: 2608604
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 28749 characters in sequence are not A, C, G, or T
File 13 of 15
Found at i:2248049 original size:2 final size:2
Alignment explanation
Indices: 2248042--2248072 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2248032 TAGGAAGAAA
2248042 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
2248073 TGGTAAAAAT
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2250541 original size:36 final size:36
Alignment explanation
Indices: 2250491--2250575 Score: 100
Period size: 37 Copynumber: 2.3 Consensus size: 36
2250481 TTTAAATTAT
* * * *
2250491 TATTTATATCAAAA-AATTATTTAAATTTAATTATAAC
1 TATTAATATAAAAATAATT-TTTAAAATT-ATTATAAA
2250528 TATTAATATAAAAATAATTTTTAAAATTATTATAAA
1 TATTAATATAAAAATAATTTTTAAAATTATTATAAA
*
2250564 TAATAATATAAA
1 TATTAATATAAA
2250576 CTTTTAAATA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
36 18 0.43
37 20 0.48
38 4 0.10
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (36 bp):
TATTAATATAAAAATAATTTTTAAAATTATTATAAA
Found at i:2251552 original size:17 final size:17
Alignment explanation
Indices: 2251526--2251560 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2251516 TGTAAAATTA
*
2251526 TTTAAATTAAATATAAT
1 TTTAAATTAAATAAAAT
*
2251543 TTTAATTTAAATAAAAT
1 TTTAAATTAAATAAAAT
2251560 T
1 T
2251561 AAGAAATACA
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TTTAAATTAAATAAAAT
Found at i:2251678 original size:16 final size:15
Alignment explanation
Indices: 2251659--2251689 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
2251649 ATTTATATAA
2251659 AATTTAAATTATAAAT
1 AATTTAAATTA-AAAT
2251675 AATTTAAATTAAAAT
1 AATTTAAATTAAAAT
2251690 TAAAGAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AATTTAAATTAAAAT
Found at i:2251898 original size:17 final size:18
Alignment explanation
Indices: 2251866--2251900 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
2251856 CCTCTTAATT
*
2251866 CCCATGTGCTTTGTAAGA
1 CCCACGTGCTTTGTAAGA
2251884 CCCACGTGC-TTGTAAGA
1 CCCACGTGCTTTGTAAGA
2251901 GTGCTAACGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.29
Consensus pattern (18 bp):
CCCACGTGCTTTGTAAGA
Found at i:2252962 original size:14 final size:15
Alignment explanation
Indices: 2252943--2252971 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2252933 TTAATATATT
2252943 TACTT-ATTTTTTTA
1 TACTTAATTTTTTTA
2252957 TACTTAATTTTTTTA
1 TACTTAATTTTTTTA
2252972 AAATAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (15 bp):
TACTTAATTTTTTTA
Found at i:2254800 original size:26 final size:26
Alignment explanation
Indices: 2254766--2254819 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
2254756 TTAAAAAAAA
2254766 GTAAAAATATTTATGAGTTAAATCAC
1 GTAAAAATATTTATGAGTTAAATCAC
*
2254792 GTAAAAATATTTATGAGTTGAATCAC
1 GTAAAAATATTTATGAGTTAAATCAC
2254818 GT
1 GT
2254820 TTGAGCCGGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.07, G:0.15, T:0.35
Consensus pattern (26 bp):
GTAAAAATATTTATGAGTTAAATCAC
Found at i:2255119 original size:26 final size:26
Alignment explanation
Indices: 2255090--2255148 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
2255080 GTTTTATATA
*
2255090 ATAAAATTTATATA-ATATATAAAACT
1 ATAAAATTAATATATAT-TATAAAACT
* * *
2255116 ATAAAAATAATATATATTATATAATT
1 ATAAAATTAATATATATTATAAAACT
2255142 ATAAAAT
1 ATAAAAT
2255149 GAATTAGTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 25 0.93
27 2 0.07
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (26 bp):
ATAAAATTAATATATATTATAAAACT
Found at i:2255336 original size:22 final size:25
Alignment explanation
Indices: 2255292--2255341 Score: 70
Period size: 22 Copynumber: 2.1 Consensus size: 25
2255282 ATATAACTCA
2255292 ATTCATAAATATTTATAAAAAAATT
1 ATTCATAAATATTTATAAAAAAATT
*
2255317 ATTCAT-AA-ATTTA-AATAAAATT
1 ATTCATAAATATTTATAAAAAAATT
2255339 ATT
1 ATT
2255342 TATTTAACGC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 11 0.46
23 5 0.21
24 2 0.08
25 6 0.25
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (25 bp):
ATTCATAAATATTTATAAAAAAATT
Found at i:2255739 original size:4 final size:5
Alignment explanation
Indices: 2255705--2255738 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
2255695 TTCTATTCGA
2255705 TTAAT TTAAT TTAAT TTAAT TT-AT TTAA- TTAAT T
1 TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT T
2255739 AGTGAATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 8 0.30
5 19 0.70
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTAAT
Found at i:2255873 original size:18 final size:17
Alignment explanation
Indices: 2255835--2255887 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 17
2255825 AATAAATAAT
2255835 TTATATATTTT-ATTTATA
1 TTATAT-TTTTAATTTA-A
2255853 TTAATATTTTTAATTTAA
1 TT-ATATTTTTAATTTAA
*
2255871 TTATCTTATTTAATTTA
1 TTATATT-TTTAATTTA
2255888 TAATTATATC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
17 4 0.13
18 18 0.58
19 9 0.29
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATATTTTTAATTTAA
Found at i:2256715 original size:13 final size:12
Alignment explanation
Indices: 2256666--2256716 Score: 57
Period size: 12 Copynumber: 3.9 Consensus size: 12
2256656 ACCTTCACTG
2256666 TTTCAAATTGAA
1 TTTCAAATTGAA
*
2256678 TTTCAACATTTACTA
1 TTTCAA-ATTGA--A
2256693 TTTCAAATTGAA
1 TTTCAAATTGAA
2256705 TTTCAAAATTGA
1 TTTC-AAATTGA
2256717 CGGTACAGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
12 11 0.33
13 11 0.33
14 4 0.12
15 7 0.21
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (12 bp):
TTTCAAATTGAA
Found at i:2263802 original size:13 final size:13
Alignment explanation
Indices: 2263784--2263823 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
2263774 ATTCAAAAAT
2263784 ATATTAAATATAA
1 ATATTAAATATAA
*
2263797 ATATTAAATAGAA
1 ATATTAAATATAA
2263810 ATACTTAAA-ATAA
1 ATA-TTAAATATAA
2263823 A
1 A
2263824 AAAATAAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 19 0.79
14 5 0.21
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (13 bp):
ATATTAAATATAA
Found at i:2267074 original size:21 final size:24
Alignment explanation
Indices: 2267040--2267105 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 24
2267030 TCTAAAATAT
*
2267040 ATATATTTAATAAAAATATATTTA-
1 ATATATTT-TTAAAAATATATTTAC
2267064 AT-T-TTTTT-AAAAT-T-TTTAC
1 ATATATTTTTAAAAATATATTTAC
2267083 ATATATTTTTAAAAATTATATTT
1 ATATATTTTTAAAAA-TATATTT
2267106 TTATTTTAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 13
0.71 0.02 0.27
Matches are distributed among these distances:
18 4 0.12
19 3 0.09
20 6 0.18
21 6 0.18
22 7 0.21
23 2 0.06
24 3 0.09
25 3 0.09
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
ATATATTTTTAAAAATATATTTAC
Found at i:2267125 original size:41 final size:42
Alignment explanation
Indices: 2267040--2267125 Score: 104
Period size: 41 Copynumber: 2.0 Consensus size: 42
2267030 TCTAAAATAT
* *
2267040 ATATATTTAATAAAAATATATTTAATTTTTTTAAAATTTTTAC
1 ATATATTTAATAAAAATATATTT-ATTATTTTAAAATTTATAC
* *
2267083 ATATATTT-TTAAAAATTATATTT-TTATTTTAATATTTATAC
1 ATATATTTAATAAAAA-TATATTTATTATTTTAAAATTTATAC
2267124 AT
1 AT
2267126 GTAGCGAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
41 17 0.45
42 6 0.16
43 15 0.39
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (42 bp):
ATATATTTAATAAAAATATATTTATTATTTTAAAATTTATAC
Found at i:2276856 original size:20 final size:22
Alignment explanation
Indices: 2276831--2276870 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
2276821 GTATATCGAA
*
2276831 ATTATATAT-ATTTA-TATATT
1 ATTATAAATAATTTAGTATATT
2276851 ATTATAAATAATTTAGTATA
1 ATTATAAATAATTTAGTATA
2276871 ATAAGTTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 5 0.29
22 4 0.24
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (22 bp):
ATTATAAATAATTTAGTATATT
Found at i:2276948 original size:14 final size:14
Alignment explanation
Indices: 2276901--2276949 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
2276891 TAAATTAAAA
*
2276901 AAATAAAAGTATAT
1 AAATAAAATTATAT
* *
2276915 AATAAAAAATTAAAT
1 AA-ATAAAATTATAT
*
2276930 TAATAAAATTATAT
1 AAATAAAATTATAT
2276944 AAATAA
1 AAATAA
2276950 TTTAAATTTT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
14 17 0.63
15 10 0.37
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (14 bp):
AAATAAAATTATAT
Found at i:2278829 original size:2 final size:2
Alignment explanation
Indices: 2278822--2278849 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2278812 CCTTATACAT
2278822 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
2278850 AACATTTACT
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):
TA
Found at i:2279246 original size:22 final size:25
Alignment explanation
Indices: 2279221--2279270 Score: 70
Period size: 22 Copynumber: 2.1 Consensus size: 25
2279211 GCGTTAAATA
2279221 AATAATTTTATT-T-AA-ATTTATG
1 AATAATTTTATTATAAATATTTATG
*
2279243 AATAATTTTTTTATAAATATTTATG
1 AATAATTTTATTATAAATATTTATG
2279268 AAT
1 AAT
2279271 TGAGTTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 11 0.46
23 1 0.04
24 2 0.08
25 10 0.42
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (25 bp):
AATAATTTTATTATAAATATTTATG
Found at i:2279289 original size:18 final size:19
Alignment explanation
Indices: 2279258--2279306 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
2279248 TTTTTTTATA
**
2279258 AATATTTATGAATTGAGTT
1 AATATTTAAAAATTGAGTT
* *
2279277 -ATATTTAAAAATTTATTT
1 AATATTTAAAAATTGAGTT
2279295 AATATTTAAAAA
1 AATATTTAAAAA
2279307 ATTTTAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 14 0.56
19 11 0.44
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (19 bp):
AATATTTAAAAATTGAGTT
Found at i:2279815 original size:27 final size:26
Alignment explanation
Indices: 2279752--2279805 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
2279742 TCCGGCTCAA
*
2279752 ACGTGATTCAACTCATAAATATTTTT
1 ACGTGATTTAACTCATAAATATTTTT
2279778 ACGTGATTTAACTCATAAATATTTTT
1 ACGTGATTTAACTCATAAATATTTTT
2279804 AC
1 AC
2279806 TTTTTTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.35, C:0.15, G:0.07, T:0.43
Consensus pattern (26 bp):
ACGTGATTTAACTCATAAATATTTTT
Found at i:2280106 original size:21 final size:22
Alignment explanation
Indices: 2280055--2280106 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
2280045 TCTATTAATG
*
2280055 TAATTTATATATTTTAATTAAA
1 TAATTTTTATATTTTAATTAAA
* * *
2280077 AAATATTTTAT-TTTTATTTTAA
1 TAAT-TTTTATATTTTAATTAAA
2280099 TAATTTTT
1 TAATTTTT
2280107 TTTGTTTAAC
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
21 4 0.17
22 15 0.62
23 5 0.21
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TAATTTTTATATTTTAATTAAA
Found at i:2280189 original size:2 final size:2
Alignment explanation
Indices: 2280184--2280216 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2280174 TATAGTGTAC
2280184 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2280217 ATAGATATCG
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:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2285159 original size:20 final size:20
Alignment explanation
Indices: 2285120--2285166 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
2285110 TAGATTTTTT
* **
2285120 TAAAAATTATTTATTTATTA
1 TAAAAATTATTAATACATTA
2285140 TAAAAATTATTAATACATTA
1 TAAAAATTATTAATACATTA
*
2285160 TTAAAAT
1 TAAAAAT
2285167 AAATATTTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (20 bp):
TAAAAATTATTAATACATTA
Found at i:2293925 original size:15 final size:15
Alignment explanation
Indices: 2293870--2293939 Score: 50
Period size: 17 Copynumber: 4.3 Consensus size: 15
2293860 TACTATAAAA
*
2293870 TTTTTAATATATTAAT
1 TTTTTATTATATT-AT
* *
2293886 ATTTATATAATATTAAT
1 -TTTTTATTATATT-AT
*
2293903 ATTATTTATTTTATTAT
1 -TT-TTTATTATATTAT
2293920 TTTTTATTATATTAT
1 TTTTTATTATATTAT
2293935 GTTTT
1 -TTTT
2293940 GGAGGTGAGT
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
15 12 0.27
16 6 0.14
17 18 0.41
18 8 0.18
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (15 bp):
TTTTTATTATATTAT
Found at i:2295428 original size:179 final size:182
Alignment explanation
Indices: 2295165--2295600 Score: 535
Period size: 179 Copynumber: 2.4 Consensus size: 182
2295155 TTGTATTTTT
*
2295165 TTTTGGGTTTCATTTAAAGTATTATAAAAAAATT-ATAATTTTTTAATCGAAACTTAAATATTTA
1 TTTT-GGTTTCATTTAAAGTATAAT-AAAAAATTAAT-ATTTTTTAATCGAAACTTAAATATTTA
* * * * * * * * *
2295229 GAAGTTCATTAGATTTAGACTAATTTGATTTAAATTAAATCGATCTC-TTATGGGGTAAATTTCT
63 AAAGCTAACTAGACTTAGACTAATTTGATTTAAATTAAATCAATC-CATTATGGGAT-AACTTAT
* * * *
2295293 TTC-GACACTAGTTTTTTTAATTATTTAAAATAAAAAATAGAAATATTTCTTGT-AT-
126 TCCAG-CACTAGTTTTTTCAATTATTCAAAATAAAAAATACAAATATTTCTTGTAATC
* * * * *
2295348 TTTTTGTTTCATTTAAA-T-TAATTAAAAATTAATATTTTTTAGTCAAAAATTAAATATTTAAAA
1 TTTTGGTTTCATTTAAAGTATAATAAAAAATTAATATTTTTTAATCGAAACTTAAATATTTAAAA
* *
2295411 GCTAACTAGACTTAGACTAATTTGATTTGAATTAGATCAATCCATTATGGGATAACTTATTCCAG
66 GCTAACTAGACTTAGACTAATTTGATTTAAATTAAATCAATCCATTATGGGATAACTTATTCCAG
* *
2295476 CACTAGTTTTTTCAATTATTCAAAATCAAAAATACAAATATTTCTTTTAATC
131 CACTAGTTTTTTCAATTATTCAAAATAAAAAATACAAATATTTCTTGTAATC
* *
2295528 TTTTGGTTTCATTTAAAGTATTATAAAAAATTAATATTTTTTAATCGAAACTTAAGTATTTAAAA
1 TTTTGGTTTCATTTAAAGTATAATAAAAAATTAATATTTTTTAATCGAAACTTAAATATTTAAAA
*
2295593 GCTTACTA
66 GCTAACTA
2295601 AATAATCATT
Statistics
Matches: 215, Mismatches: 31, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
178 51 0.24
179 79 0.37
180 21 0.10
181 2 0.01
182 58 0.27
183 4 0.02
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.44
Consensus pattern (182 bp):
TTTTGGTTTCATTTAAAGTATAATAAAAAATTAATATTTTTTAATCGAAACTTAAATATTTAAAA
GCTAACTAGACTTAGACTAATTTGATTTAAATTAAATCAATCCATTATGGGATAACTTATTCCAG
CACTAGTTTTTTCAATTATTCAAAATAAAAAATACAAATATTTCTTGTAATC
Found at i:2296141 original size:16 final size:16
Alignment explanation
Indices: 2296108--2296159 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
2296098 GAATAATTTA
*
2296108 ATTAAATAAATTTAAAT
1 ATTAAATAAA-ATAAAT
*
2296125 ATTAAATATAATAAAT
1 ATTAAATAAAATAAAT
* *
2296141 ATTTAATAAAATATAT
1 ATTAAATAAAATAAAT
2296157 ATT
1 ATT
2296160 TAATTATATG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 21 0.70
17 9 0.30
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATTAAATAAAATAAAT
Found at i:2296160 original size:16 final size:16
Alignment explanation
Indices: 2296120--2296163 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
2296110 TAAATAAATT
* *
2296120 TAAATATTAAATATAA
1 TAAATATTTAATAAAA
2296136 TAAATATTTAATAAAA
1 TAAATATTTAATAAAA
*
2296152 TATATATTTAAT
1 TAAATATTTAAT
2296164 TATATGATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TAAATATTTAATAAAA
Found at i:2296682 original size:15 final size:15
Alignment explanation
Indices: 2296662--2296698 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
2296652 TTGATCATAA
2296662 TTTAAATAAAAAAAT
1 TTTAAATAAAAAAAT
*
2296677 TTTAAATACAAAAAT
1 TTTAAATAAAAAAAT
2296692 TTTAAAT
1 TTTAAAT
2296699 TTAAATTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (15 bp):
TTTAAATAAAAAAAT
Found at i:2297580 original size:16 final size:17
Alignment explanation
Indices: 2297559--2297655 Score: 67
Period size: 16 Copynumber: 5.8 Consensus size: 17
2297549 TTAATTATGT
*
2297559 TATAAAATATAAATATA
1 TATAAAATATAAATAAA
* *
2297576 T-TAAAATTTATATAAA
1 TATAAAATATAAATAAA
**
2297592 TATAAAATAT-TTTAAA
1 TATAAAATATAAATAAA
* *
2297608 TAT-AATTAT-AATACA
1 TATAAAATATAAATAAA
*
2297623 TAAAAATATATAAATATAA
1 TATAAA-ATATAAATA-AA
2297642 TATAAATATATAAA
1 TATAAA-ATATAAA
2297656 AAAAATTAAT
Statistics
Matches: 62, Mismatches: 13, Indels: 8
0.75 0.16 0.10
Matches are distributed among these distances:
15 10 0.16
16 23 0.37
17 11 0.18
18 4 0.06
19 14 0.23
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (17 bp):
TATAAAATATAAATAAA
Found at i:2297592 original size:10 final size:10
Alignment explanation
Indices: 2297565--2297653 Score: 59
Period size: 9 Copynumber: 9.3 Consensus size: 10
2297555 ATGTTATAAA
2297565 ATATAAATAT
1 ATATAAATAT
2297575 AT-TAAA-AT
1 ATATAAATAT
*
2297583 TTATATAA-AT
1 ATATA-AATAT
2297593 ATA-AAATAT
1 ATATAAATAT
*
2297602 -TTTAAATAT
1 ATATAAATAT
*
2297611 A-ATTATAATAC
1 ATA-TA-AATAT
2297622 ATA-AAA-AT
1 ATATAAATAT
2297630 ATATAAATAT
1 ATATAAATAT
2297640 AATATAAATAT
1 -ATATAAATAT
2297651 ATA
1 ATA
2297654 AAAAAAATTA
Statistics
Matches: 62, Mismatches: 6, Indels: 22
0.69 0.07 0.24
Matches are distributed among these distances:
8 10 0.16
9 20 0.32
10 16 0.26
11 15 0.24
12 1 0.02
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (10 bp):
ATATAAATAT
Found at i:2297605 original size:20 final size:19
Alignment explanation
Indices: 2297565--2297656 Score: 59
Period size: 19 Copynumber: 4.8 Consensus size: 19
2297555 ATGTTATAAA
2297565 ATATAAATATATTAAAATTT
1 ATATAAATATA-TAAAATTT
2297585 ATAT-AA-ATATAAAATATT
1 ATATAAATATATAAAAT-TT
* **
2297603 -T-TAAATATAATTATAATAC
1 ATATAAATAT-A-TAAAATTT
* *
2297622 ATAAAAATATAT-AAATATA
1 ATATAAATATATAAAAT-TT
2297641 ATATAAATATATAAAA
1 ATATAAATATATAAAA
2297657 AAAATTAATT
Statistics
Matches: 55, Mismatches: 8, Indels: 18
0.68 0.10 0.22
Matches are distributed among these distances:
16 1 0.02
17 9 0.16
18 10 0.18
19 15 0.27
20 14 0.25
21 6 0.11
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (19 bp):
ATATAAATATATAAAATTT
Found at i:2297649 original size:29 final size:30
Alignment explanation
Indices: 2297595--2297657 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 30
2297585 ATATAAATAT
*
2297595 AAAATATTTTAAATATAATTATAATACATA
1 AAAATATTATAAATATAATTATAATACATA
*
2297625 AAAATA-TATAAATATAA-TATAAATATATA
1 AAAATATTATAAATATAATTAT-AATACATA
2297654 AAAA
1 AAAA
2297658 AAATTAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 3 0.10
29 21 0.70
30 6 0.20
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (30 bp):
AAAATATTATAAATATAATTATAATACATA
Found at i:2297770 original size:27 final size:25
Alignment explanation
Indices: 2297718--2297770 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 25
2297708 TTTACCATTC
* *
2297718 TATTTAAGTAAATTATTTTAAATTT
1 TATTTAAGTAAATAATCTTAAATTT
2297743 TATTATAAGTAAATAAATCTTAAATTT
1 TATT-TAAGTAAAT-AATCTTAAATTT
2297770 T
1 T
2297771 TAATTTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 4 0.17
26 9 0.38
27 11 0.46
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (25 bp):
TATTTAAGTAAATAATCTTAAATTT
Found at i:2297776 original size:34 final size:30
Alignment explanation
Indices: 2297732--2297793 Score: 79
Period size: 30 Copynumber: 1.9 Consensus size: 30
2297722 TAAGTAAATT
2297732 ATTTTAAATTTTATTATAAGTAAATAAATCTTAA
1 ATTTTAAA-TTTATT-T-A-TAAATAAATCTTAA
*
2297766 ATTTTTAATTTATTTATAAATAAATCTT
1 ATTTTAAATTTATTTATAAATAAATCTT
2297794 TAATCATTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 12 0.44
31 1 0.04
32 1 0.04
33 6 0.22
34 7 0.26
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.52
Consensus pattern (30 bp):
ATTTTAAATTTATTTATAAATAAATCTTAA
Found at i:2298112 original size:24 final size:24
Alignment explanation
Indices: 2298081--2298130 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
2298071 AAAAAAGTAA
* *
2298081 AAAAATAATTTTTTTAATTTTTTT
1 AAAAATAATTTTATTAATTTTATT
2298105 AAAAATAATTTTATTAATTTTATT
1 AAAAATAATTTTATTAATTTTATT
2298129 AA
1 AA
2298131 TATACTATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
AAAAATAATTTTATTAATTTTATT
Found at i:2299637 original size:30 final size:30
Alignment explanation
Indices: 2299603--2299667 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
2299593 CTTTACATAT
*
2299603 ATATTTTTAATAATTAT-TAAATGTTAATTA
1 ATATTTTT-ATAATTATATAAATATTAATTA
* *
2299633 ATATTTTTATATTTATATAAATATTTATTA
1 ATATTTTTATAATTATATAAATATTAATTA
2299663 A-ATTT
1 ATATTT
2299668 AAATATTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 11 0.35
30 20 0.65
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (30 bp):
ATATTTTTATAATTATATAAATATTAATTA
Found at i:2299956 original size:39 final size:40
Alignment explanation
Indices: 2299880--2299956 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 40
2299870 TTTATTTATT
* *
2299880 ATTTTAAAAAATATTATATTTAATATATTATTTTTATTAA
1 ATTTTAAAAAATATTATAATTAATATATTATTATTATTAA
2299920 ATTTTAAAAAATA-TATTAATT-ATAT-TTATATATTATT
1 ATTTTAAAAAATATTA-TAATTAATATATTAT-TATTATT
2299957 TTAATTAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
38 4 0.12
39 12 0.36
40 17 0.52
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (40 bp):
ATTTTAAAAAATATTATAATTAATATATTATTATTATTAA
Found at i:2300372 original size:14 final size:17
Alignment explanation
Indices: 2300316--2300394 Score: 58
Period size: 17 Copynumber: 4.6 Consensus size: 17
2300306 TAATATATTT
*
2300316 AATTTTAATCTTTATAA
1 AATTTTAATATTTATAA
**
2300333 AAAATT-ATGATTTTAATAA
1 AATTTTAAT-A-TTT-ATAA
2300352 TAATTTTAA-ATTT-T-A
1 -AATTTTAATATTTATAA
2300367 AATTTTAATATTTATAA
1 AATTTTAATATTTATAA
2300384 AATTTTCAATA
1 AATTTT-AATA
2300395 CTTTTAATCT
Statistics
Matches: 48, Mismatches: 5, Indels: 17
0.69 0.07 0.24
Matches are distributed among these distances:
14 8 0.17
15 5 0.10
16 4 0.08
17 11 0.23
18 10 0.21
19 5 0.10
20 4 0.08
21 1 0.02
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.51
Consensus pattern (17 bp):
AATTTTAATATTTATAA
Found at i:2301950 original size:2 final size:2
Alignment explanation
Indices: 2301943--2301971 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2301933 CCTAACAAGC
2301943 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 A
2301972 AAATGAATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2302146 original size:7 final size:7
Alignment explanation
Indices: 2302134--2302159 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
2302124 AAAGTATAAG
2302134 AAATTTA
1 AAATTTA
2302141 AAATTTA
1 AAATTTA
2302148 AAATTTA
1 AAATTTA
2302155 AAATT
1 AAATT
2302160 AATATAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
AAATTTA
Found at i:2302843 original size:14 final size:14
Alignment explanation
Indices: 2302794--2302843 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
2302784 AAATAAAAAA
2302794 TATTATAAATATTAT
1 TATT-TAAATATTAT
* *
2302809 AATTTAAATATCAT
1 TATTTAAATATTAT
*
2302823 TAATTAAATATTAT
1 TATTTAAATATTAT
*
2302837 TTTTTAA
1 TATTTAA
2302844 GATTATTTGC
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
14 25 0.89
15 3 0.11
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (14 bp):
TATTTAAATATTAT
Found at i:2304275 original size:6 final size:6
Alignment explanation
Indices: 2304264--2304302 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
2304254 TATACGTATC
* *
2304264 ATATTT ATATTT AAATTT TTA-TT ATATTT ATATTT ATAT
1 ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATAT
2304303 AACTGATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
5 4 0.14
6 24 0.86
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
ATATTT
Found at i:2305317 original size:14 final size:14
Alignment explanation
Indices: 2305285--2305319 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
2305275 AGATATTAAA
*
2305285 ATTTAAATATTACT
1 ATTTAAATATCACT
2305299 ATTTAAATATCACT
1 ATTTAAATATCACT
*
2305313 TTTTAAA
1 ATTTAAA
2305320 ATTAATTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (14 bp):
ATTTAAATATCACT
Found at i:2305550 original size:19 final size:19
Alignment explanation
Indices: 2305488--2305550 Score: 53
Period size: 19 Copynumber: 3.4 Consensus size: 19
2305478 AAATTTTTGT
*
2305488 TATATTTAAAAAA-TCA-A
1 TATAATTAAAAAATTCACA
2305505 TGA-AATTAAAAAATTCACA
1 T-ATAATTAAAAAATTCACA
* *
2305524 TATTATTAATAAATT-ACA
1 TATAATTAAAAAATTCACA
2305542 TAATAATTA
1 T-ATAATTA
2305551 TCGTAAAAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
17 10 0.27
18 9 0.24
19 18 0.49
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.37
Consensus pattern (19 bp):
TATAATTAAAAAATTCACA
Found at i:2307222 original size:19 final size:19
Alignment explanation
Indices: 2307190--2307227 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
2307180 TATTTTTATT
2307190 TAAATTTAATTATAAAATA
1 TAAATTTAATTATAAAATA
2307209 TAAATATTAA-TATAAAATA
1 TAAAT-TTAATTATAAAATA
2307228 CCTTTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TAAATTTAATTATAAAATA
Found at i:2307361 original size:21 final size:19
Alignment explanation
Indices: 2307308--2307357 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
2307298 CGAGTTGATT
2307308 TAATTTAAAATAATATTTA
1 TAATTTAAAATAATATTTA
* *
2307327 TAAGTTAAAATAATATATTT
1 TAATTTAAAATAATAT-TTA
*
2307347 TTATTTAAAAT
1 TAATTTAAAAT
2307358 TAATTATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
TAATTTAAAATAATATTTA
Found at i:2307376 original size:21 final size:21
Alignment explanation
Indices: 2307352--2307391 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
2307342 TATTTTTATT
2307352 TAAA-ATTAATTATAAAATATA
1 TAAATATTAA-TATAAAATATA
2307373 TAAATATTAATATAAAATA
1 TAAATATTAATATAAAATA
2307392 AAATTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TAAATATTAATATAAAATATA
Found at i:2308039 original size:16 final size:16
Alignment explanation
Indices: 2307989--2308039 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
2307979 TTCCCATATA
*
2307989 TTATATTATATTTTAA-
1 TTATATT-TATATTAAT
* * *
2308005 TTATATTTAAAATATT
1 TTATATTTATATTAAT
2308021 TTATATTTATATTAAT
1 TTATATTTATATTAAT
2308037 TTA
1 TTA
2308040 ATAAATTAAT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
15 4 0.15
16 23 0.85
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTATATTTATATTAAT
Found at i:2308488 original size:2 final size:2
Alignment explanation
Indices: 2308481--2308510 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2308471 ACCAATTAAT
2308481 TA 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
2308511 CACTTATGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2310336 original size:2 final size:2
Alignment explanation
Indices: 2310329--2310360 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2310319 CTATTTGCCC
2310329 AT AT 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 AT AT
2310361 GTAAGTTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2312407 original size:19 final size:19
Alignment explanation
Indices: 2312369--2312466 Score: 69
Period size: 18 Copynumber: 5.2 Consensus size: 19
2312359 TTTAATTTTA
*
2312369 ATAAATTAATAATTTATATTAT
1 ATAAATTTATAA--TATATT-T
2312391 ATAAATTT-TAATATATTT
1 ATAAATTTATAATATATTT
* *
2312409 ATATATTTATATTATATTT
1 ATAAATTTATAATATATTT
* *
2312428 AT-ATTTTATAATTTATTT
1 ATAAATTTATAATATATTT
* * *
2312446 -TAATTTTTTAAT-TATAT
1 ATAAATTTATAATATATTT
2312463 ATAA
1 ATAA
2312467 TTATATTATA
Statistics
Matches: 64, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
17 5 0.08
18 32 0.50
19 17 0.27
21 3 0.05
22 7 0.11
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
ATAAATTTATAATATATTT
Found at i:2312422 original size:33 final size:33
Alignment explanation
Indices: 2312345--2312425 Score: 103
Period size: 32 Copynumber: 2.5 Consensus size: 33
2312335 TATATTAAAA
*
2312345 ATATTATATATT-TATTTAATTTTAATAAATTAAT
1 ATATT-TATATTATA-TAAATTTTAATAAATTAAT
* *
2312379 A-ATTTATATTATATAAATTTTAATATATTTAT
1 ATATTTATATTATATAAATTTTAATAAATTAAT
2312411 ATATTTATATTATAT
1 ATATTTATATTATAT
2312426 TTATATTTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
32 23 0.55
33 18 0.43
34 1 0.02
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (33 bp):
ATATTTATATTATATAAATTTTAATAAATTAAT
Found at i:2312430 original size:25 final size:25
Alignment explanation
Indices: 2312402--2312493 Score: 73
Period size: 25 Copynumber: 3.6 Consensus size: 25
2312392 TAAATTTTAA
2312402 TATATTTATATATTTATATTATATT
1 TATATTTATATATTTATATTATATT
*
2312427 TATATTT-TATAATTTATTTTA-ATTT
1 TATATTTATAT-ATTTATATTATA-TT
* * *
2312452 TTTAATTATATATAATTATATTATACT
1 TAT-ATT-TATATATTTATATTATATT
2312479 TA-ATATTATAATATT
1 TATAT-TTAT-ATATT
2312494 AAGAAGCACT
Statistics
Matches: 52, Mismatches: 7, Indels: 15
0.70 0.09 0.20
Matches are distributed among these distances:
24 4 0.08
25 25 0.48
26 8 0.15
27 11 0.21
28 4 0.08
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (25 bp):
TATATTTATATATTTATATTATATT
Found at i:2312442 original size:33 final size:33
Alignment explanation
Indices: 2312345--2312443 Score: 116
Period size: 33 Copynumber: 3.0 Consensus size: 33
2312335 TATATTAAAA
*
2312345 ATATTATATATT-TATTTAATTTTAATAAATTA-
1 ATATT-TATATTATATTTAATTTTAATAATTTAT
*
2312377 ATAATTTATATTATA-TAAATTTTAATATATTTAT
1 AT-ATTTATATTATATTTAATTTTAATA-ATTTAT
2312411 ATATTTATATTATATTTATATTTT-ATAATTTAT
1 ATATTTATATTATATTTA-ATTTTAATAATTTAT
2312444 TTTAATTTTT
Statistics
Matches: 58, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
32 19 0.33
33 27 0.47
34 7 0.12
35 5 0.09
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (33 bp):
ATATTTATATTATATTTAATTTTAATAATTTAT
Found at i:2314308 original size:29 final size:30
Alignment explanation
Indices: 2314275--2314357 Score: 75
Period size: 29 Copynumber: 2.8 Consensus size: 30
2314265 AAAATTACAG
*
2314275 ATATTAATATTTAAATTTTAATT-TATAAA
1 ATATTAATATTTAAATTATAATTATATAAA
* * *
2314304 ATATTATTTTTTAAA-AATAATTATATAAA
1 ATATTAATATTTAAATTATAATTATATAAA
*
2314333 ATAATTAA-A-TTAAATTCTGAATTAT
1 AT-ATTAATATTTAAATTAT-AATTAT
2314358 GTACTTATTA
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
28 10 0.24
29 22 0.52
30 10 0.24
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (30 bp):
ATATTAATATTTAAATTATAATTATATAAA
Found at i:2316020 original size:17 final size:18
Alignment explanation
Indices: 2315985--2316022 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
2315975 CGAATATGTT
* *
2315985 AATAATTTTTGTTATAAA
1 AATAATTTTTATTAAAAA
2316003 AATAA-TTTTATTAAAAA
1 AATAATTTTTATTAAAAA
2316020 AAT
1 AAT
2316023 GTTGCTTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (18 bp):
AATAATTTTTATTAAAAA
Found at i:2316177 original size:28 final size:29
Alignment explanation
Indices: 2316146--2316231 Score: 95
Period size: 31 Copynumber: 2.9 Consensus size: 29
2316136 TTTAATTCGT
*
2316146 AAAT-TTATTTTATTATTTAAAAAATTAA
1 AAATATTATTTTATTAATTAAAAAATTAA
*
2316174 AAATATTATTTT-TATAATTAAATATAAATAA
1 AAATATTATTTTAT-TAATTAAA-A-AATTAA
*
2316205 AAATATTTTTTTAATTAATTAAAAAAT
1 AAATATTATTTT-ATTAATTAAAAAAT
2316232 AATTTAAATT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
28 5 0.10
29 14 0.29
30 3 0.06
31 17 0.35
32 8 0.17
33 1 0.02
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (29 bp):
AAATATTATTTTATTAATTAAAAAATTAA
Found at i:2316619 original size:22 final size:24
Alignment explanation
Indices: 2316593--2316643 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
2316583 ATATCGATTA
*
2316593 TTTAAAAT-TAAT-TATAAATTTT
1 TTTAAAATATAATATATAAATATT
*
2316615 TTTAAAATATAATATATTAATATT
1 TTTAAAATATAATATATAAATATT
2316639 TTTAA
1 TTTAA
2316644 GTAATAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 8 0.32
23 4 0.16
24 13 0.52
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
TTTAAAATATAATATATAAATATT
Found at i:2317287 original size:2 final size:2
Alignment explanation
Indices: 2317280--2317307 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2317270 CAATATTGAC
2317280 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
2317308 GCACATATGA
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:2321176 original size:2 final size:2
Alignment explanation
Indices: 2321169--2321214 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
2321159 AGACATTACA
2321169 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
2321211 AT AT
1 AT AT
2321215 CATCCTAAGG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2323223 original size:20 final size:20
Alignment explanation
Indices: 2323182--2323225 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
2323172 TAATTAAAAT
* *
2323182 TATTAAAATTTAATTTTAAA
1 TATTAAAATTAAAATTTAAA
2323202 TATTAAAATTAAAAATTT-AA
1 TATTAAAATT-AAAATTTAAA
2323222 TATT
1 TATT
2323226 TTATTAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
TATTAAAATTAAAATTTAAA
Found at i:2323228 original size:29 final size:30
Alignment explanation
Indices: 2323164--2323222 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 30
2323154 TAATTATTAT
2323164 TTTTATAATAATTAAAATTATTAAAATTTAA
1 TTTTATAATAATTAAAATTA-TAAAATTTAA
2323195 TTTTA-AAT-ATTAAAATTA-AAAATTTAA
1 TTTTATAATAATTAAAATTATAAAATTTAA
2323222 T
1 T
2323223 ATTTTATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
27 10 0.36
29 10 0.36
30 3 0.11
31 5 0.18
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (30 bp):
TTTTATAATAATTAAAATTATAAAATTTAA
Found at i:2323563 original size:15 final size:15
Alignment explanation
Indices: 2323543--2323576 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
2323533 TTTTTTAAAT
*
2323543 ATATAAAAAAATTTA
1 ATATAAAAAAATTAA
2323558 ATAT-AAAAAATTAA
1 ATATAAAAAAATTAA
2323572 ATATA
1 ATATA
2323577 TTTATATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
ATATAAAAAAATTAA
Found at i:2324002 original size:19 final size:20
Alignment explanation
Indices: 2323962--2324002 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
2323952 CACTCTATAT
*
2323962 TTATAAAATAAATTATTTAA
1 TTATAAAAAAAATTATTTAA
2323982 TTATAAAAAAAATTA-TTAA
1 TTATAAAAAAAATTATTTAA
2324001 TT
1 TT
2324003 TTTATTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATAAAAAAAATTATTTAA
Found at i:2324025 original size:17 final size:17
Alignment explanation
Indices: 2324003--2324036 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2323993 ATTATTAATT
2324003 TTTATTAAAAATATTTA
1 TTTATTAAAAATATTTA
*
2324020 TTTATTAAATATATTTA
1 TTTATTAAAAATATTTA
2324037 ATAATCAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTATTAAAAATATTTA
Found at i:2324063 original size:17 final size:16
Alignment explanation
Indices: 2324000--2324063 Score: 51
Period size: 17 Copynumber: 4.0 Consensus size: 16
2323990 AAAATTATTA
2324000 ATTTTT-ATTAAAAAT
1 ATTTTTAATTAAAAAT
* *
2324015 ATTTATTTATTAAATAT
1 ATTT-TTAATTAAAAAT
* * *
2324032 ATTTAATAATCAAATA-
1 ATTT-TTAATTAAAAAT
2324048 ATTTTTAATTAAAAAT
1 ATTTTTAATTAAAAAT
2324064 TTATTAAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
15 12 0.31
16 6 0.15
17 21 0.54
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTTTTAATTAAAAAT
Found at i:2324070 original size:15 final size:16
Alignment explanation
Indices: 2324003--2324070 Score: 65
Period size: 15 Copynumber: 4.5 Consensus size: 16
2323993 ATTATTAATT
2324003 TTTATTAA--AAAT-A
1 TTTATTAATTAAATAA
*
2324016 TTTATTTATTAAATATA
1 TTTATTAATTAAATA-A
* *
2324033 TTTAATAATCAAATAA
1 TTTATTAATTAAATAA
2324049 TTT-TTAATTAAA-AA
1 TTTATTAATTAAATAA
2324063 TTTATTAA
1 TTTATTAA
2324071 AATTTAAATT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
13 7 0.16
14 5 0.11
15 15 0.34
16 4 0.09
17 13 0.30
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (16 bp):
TTTATTAATTAAATAA
Found at i:2324580 original size:2 final size:2
Alignment explanation
Indices: 2324573--2324605 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2324563 ATCCCATTTG
2324573 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2324606 ACTTTAAAAA
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:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2325578 original size:16 final size:15
Alignment explanation
Indices: 2325541--2325595 Score: 51
Period size: 16 Copynumber: 3.7 Consensus size: 15
2325531 AATTATAATG
*
2325541 TTTAA-TTTATAAAT
1 TTTAATTTTAAAAAT
*
2325555 TTGGAATTTTAAAAAT
1 TT-TAATTTTAAAAAT
*
2325571 TATTAATTTT-ATAAT
1 T-TTAATTTTAAAAAT
2325586 TTTAATTTTA
1 TTTAATTTTA
2325596 TTAACATAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
14 10 0.30
15 7 0.21
16 15 0.45
17 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (15 bp):
TTTAATTTTAAAAAT
Found at i:2325592 original size:14 final size:14
Alignment explanation
Indices: 2325533--2325596 Score: 58
Period size: 14 Copynumber: 4.3 Consensus size: 14
2325523 ATAAATATAA
2325533 TTATAATGTTTAA-T
1 TTATAAT-TTTAATT
*
2325547 TTATAAATTTGGAATT
1 TTAT-AATTT-TAATT
*
2325563 TTAAAAATTATTAATT
1 TT-ATAATT-TTAATT
2325579 TTATAATTTTAATT
1 TTATAATTTTAATT
2325593 TTAT
1 TTAT
2325597 TAACATAACA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
14 16 0.39
15 10 0.24
16 13 0.32
17 2 0.05
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (14 bp):
TTATAATTTTAATT
Found at i:2327212 original size:15 final size:13
Alignment explanation
Indices: 2327161--2327216 Score: 60
Period size: 12 Copynumber: 4.2 Consensus size: 13
2327151 TAATTAATAT
*
2327161 TTATAAATATTAA
1 TTATAAATTTTAA
**
2327174 TTA-AAAAATTAA
1 TTATAAATTTTAA
2327186 TTATAAATTTTAA
1 TTATAAATTTTAA
2327199 TATATAACATTTTAA
1 T-TATAA-ATTTTAA
2327214 TTA
1 TTA
2327217 ATATTATTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
12 11 0.30
13 11 0.30
14 7 0.19
15 8 0.22
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (13 bp):
TTATAAATTTTAA
Found at i:2334186 original size:2 final size:2
Alignment explanation
Indices: 2334179--2334231 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
2334169 TCTGATGCGC
2334179 TA TA TA TA TA TA TA 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 TA TA TA TA
2334221 TA TA TA TA TA T
1 TA TA TA TA TA T
2334232 TTCTACTGGC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2334561 original size:19 final size:20
Alignment explanation
Indices: 2334534--2334575 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
2334524 AATTTTTTTA
*
2334534 AAATATTTAGTATTATTATG
1 AAATATTTAATATTATTATG
2334554 AAAT-TTTAATATTATTATG
1 AAATATTTAATATTATTATG
2334573 AAA
1 AAA
2334576 AAGTGTCAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (20 bp):
AAATATTTAATATTATTATG
Found at i:2334623 original size:16 final size:17
Alignment explanation
Indices: 2334604--2334639 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
2334594 AAAATATCAA
2334604 AAAAATAA-AAAAATTT
1 AAAAATAAGAAAAATTT
*
2334620 AAAAATAAGAAGAATTT
1 AAAAATAAGAAAAATTT
2334637 AAA
1 AAA
2334640 GATGTAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (17 bp):
AAAAATAAGAAAAATTT
Found at i:2334623 original size:17 final size:18
Alignment explanation
Indices: 2334603--2334639 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
2334593 AAAAATATCA
2334603 AAAAAATAA-AAAAATTT
1 AAAAAATAAGAAAAATTT
*
2334620 -AAAAATAAGAAGAATTT
1 AAAAAATAAGAAAAATTT
2334637 AAA
1 AAA
2334640 GATGTAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 3
0.81 0.05 0.14
Matches are distributed among these distances:
16 8 0.47
17 7 0.41
18 2 0.12
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (18 bp):
AAAAAATAAGAAAAATTT
Found at i:2334997 original size:17 final size:18
Alignment explanation
Indices: 2334971--2335004 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
2334961 ACATAATTAT
*
2334971 AATATCAATATATAAATA
1 AATATCAATATAAAAATA
2334989 AATAT-AATATAAAAAT
1 AATATCAATATAAAAAT
2335005 TTGATTTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (18 bp):
AATATCAATATAAAAATA
Found at i:2339121 original size:2 final size:2
Alignment explanation
Indices: 2339114--2339144 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2339104 CTTAGCTGCA
2339114 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 A
2339145 TTTCAGTTCA
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:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:2339682 original size:6 final size:6
Alignment explanation
Indices: 2339648--2339749 Score: 52
Period size: 6 Copynumber: 16.7 Consensus size: 6
2339638 GCAAAAAAAA
* * * *
2339648 TAAATT T-AATT T-AATT AAAAAT CAAATT TAAATT TACGAAATT TAAATA
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT T---AAATT TAAATT
* *
2339697 TAAAAT T-AA-T TAAATT TAAATAAT TAAAATTT TAAACT T-AATT TAAATT
1 TAAATT TAAATT TAAATT TAAAT--T T-AAA-TT TAAATT TAAATT TAAATT
2339746 TAAA
1 TAAA
2339750 AAAATAAAAT
Statistics
Matches: 75, Mismatches: 10, Indels: 22
0.70 0.09 0.21
Matches are distributed among these distances:
4 2 0.03
5 17 0.23
6 39 0.52
7 3 0.04
8 4 0.05
9 9 0.12
10 1 0.01
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (6 bp):
TAAATT
Found at i:2339731 original size:22 final size:21
Alignment explanation
Indices: 2339686--2339737 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
2339676 TAAATTTACG
2339686 AAATTTAAATATAAAATTAATT
1 AAATTTAAATATAAAATT-ATT
2339708 AAATTTAAATAATTAAAATT-TT
1 AAATTTAAAT-A-TAAAATTATT
*
2339730 AAACTTAA
1 AAATTTAA
2339738 TTTAAATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 19 0.70
23 1 0.04
24 7 0.26
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
AAATTTAAATATAAAATTATT
Found at i:2340148 original size:3 final size:3
Alignment explanation
Indices: 2340140--2340179 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
2340130 CTCGAAGAAT
2340140 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
2340180 GTAAGAAGGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:2340421 original size:10 final size:10
Alignment explanation
Indices: 2340394--2340428 Score: 52
Period size: 10 Copynumber: 3.3 Consensus size: 10
2340384 TTAAATTGAG
2340394 TTAAAAATAAA
1 TTAAAAA-AAA
2340405 TTTAAAAAAAA
1 -TTAAAAAAAA
2340416 TTAAAAAAAA
1 TTAAAAAAAA
2340426 TTA
1 TTA
2340429 TTATTTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 13 0.57
11 3 0.13
12 7 0.30
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
TTAAAAAAAA
Found at i:2341079 original size:20 final size:20
Alignment explanation
Indices: 2341056--2341095 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
2341046 TATTAATTTT
*
2341056 AAATACGATATAAAAAATAA
1 AAATACAATATAAAAAATAA
* *
2341076 AAATATAATATAAAACATAA
1 AAATACAATATAAAAAATAA
2341096 TAGGTTAAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.70, C:0.05, G:0.03, T:0.23
Consensus pattern (20 bp):
AAATACAATATAAAAAATAA
Found at i:2342859 original size:13 final size:14
Alignment explanation
Indices: 2342841--2342879 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
2342831 TTGTATAAAT
2342841 AAAATTAT-AATAA
1 AAAATTATAAATAA
2342854 AAAATTATAAATAA
1 AAAATTATAAATAA
* *
2342868 TAAATTTTAAAT
1 AAAATTATAAAT
2342880 TTTAAATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 8 0.35
14 15 0.65
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AAAATTATAAATAA
Found at i:2342872 original size:14 final size:13
Alignment explanation
Indices: 2342834--2342879 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
2342824 AATTTTTTTG
2342834 TATAAAT-AAAAT
1 TATAAATAAAAAT
2342846 TAT-AATAAAAAAT
1 TATAAAT-AAAAAT
2342859 TATAAATAATAAAT
1 TATAAATAA-AAAT
*
2342873 TTTAAAT
1 TATAAAT
2342880 TTTAAATTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
11 3 0.10
12 3 0.10
13 10 0.34
14 13 0.45
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
TATAAATAAAAAT
Found at i:2343343 original size:15 final size:15
Alignment explanation
Indices: 2343311--2343347 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
2343301 TAATAATTTA
2343311 TATTTTTA--AATAT
1 TATTTTTATTAATAT
2343324 T-TTTTTATTAATAT
1 TATTTTTATTAATAT
2343338 TATTTTTATT
1 TATTTTTATT
2343348 TTTATATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 1 0.05
14 6 0.29
15 8 0.38
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTTTTATTAATAT
Found at i:2345213 original size:32 final size:33
Alignment explanation
Indices: 2345132--2345221 Score: 96
Period size: 33 Copynumber: 2.8 Consensus size: 33
2345122 GATGATGATA
* **
2345132 ATTTATATTATATAAATTTTAATATATTCATAT
1 ATTTATATTATGTTTATTTTAATATATTCATAT
*
2345165 ATTTATATTATGTTTATTTTATTATA-TCATAT
1 ATTTATATTATGTTTATTTTAATATATTCATAT
*
2345197 CATATTATATT-T-TTTATTATAATAT
1 -AT-TTATATTATGTTTATTTTAATAT
2345222 TCATCTAATA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
32 17 0.35
33 25 0.51
34 7 0.14
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (33 bp):
ATTTATATTATGTTTATTTTAATATATTCATAT
Found at i:2345475 original size:19 final size:19
Alignment explanation
Indices: 2345430--2345479 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
2345420 ATTGGGAATA
*
2345430 TATAAATTTATAAATTATT
1 TATAAAATTATAAATTATT
* * *
2345449 AATAAAAATTATAATTTTTT
1 TAT-AAAATTATAAATTATT
2345469 TATAAAATTAT
1 TATAAAATTAT
2345480 TTATATTTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TATAAAATTATAAATTATT
Found at i:2345496 original size:22 final size:22
Alignment explanation
Indices: 2345457--2345503 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
2345447 TTAATAAAAA
2345457 TTATAATTTTTTTATAAAATTAT
1 TTATAATTTTTTTATAAAATT-T
2345480 TTAT-ATTTATTTT-TAAAATTT
1 TTATAATTT-TTTTATAAAATTT
2345501 TTA
1 TTA
2345504 ATAAAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.17
22 11 0.48
23 8 0.35
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
TTATAATTTTTTTATAAAATTT
Found at i:2346016 original size:13 final size:13
Alignment explanation
Indices: 2345992--2346024 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
2345982 TAATGAATAA
2345992 AATAATATTATTTT
1 AATAA-ATTATTTT
2346006 AATAAATTATTTT
1 AATAAATTATTTT
2346019 AA-AAAT
1 AATAAAT
2346025 AAATATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 4 0.21
13 10 0.53
14 5 0.26
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AATAAATTATTTT
Found at i:2346076 original size:20 final size:20
Alignment explanation
Indices: 2346040--2346077 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2346030 TAAATAATTT
*
2346040 TATTTTAATGAATTAATATA
1 TATTTTAATCAATTAATATA
2346060 TATTTTAATTCAA-TAATA
1 TATTTTAA-TCAATTAATA
2346078 GTAATAGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (20 bp):
TATTTTAATCAATTAATATA
Found at i:2346142 original size:15 final size:16
Alignment explanation
Indices: 2346108--2346141 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
2346098 TATTAAATAT
2346108 AAATAAAAAATAAAAA
1 AAATAAAAAATAAAAA
*
2346124 AAATAAAATATAAAAA
1 AAATAAAAAATAAAAA
2346140 AA
1 AA
2346142 TTTATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (16 bp):
AAATAAAAAATAAAAA
Found at i:2349029 original size:2 final size:2
Alignment explanation
Indices: 2349022--2349066 Score: 72
Period size: 2 Copynumber: 22.0 Consensus size: 2
2349012 AACAAAAATA
*
2349022 AT AT AT AT AT AT AT AT AT AT CAC AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT
2349065 AT
1 AT
2349067 TTATGCGTGA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
2 39 0.98
3 1 0.03
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2349963 original size:2 final size:2
Alignment explanation
Indices: 2349956--2349984 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2349946 GAAGGTCAAT
2349956 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2349985 TTAAAAGTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2356240 original size:2 final size:2
Alignment explanation
Indices: 2356233--2356257 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2356223 TTATTTTGTA
2356233 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 A
2356258 AAACTAAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2356798 original size:12 final size:13
Alignment explanation
Indices: 2356777--2356824 Score: 50
Period size: 12 Copynumber: 4.0 Consensus size: 13
2356767 AATTTTAATA
*
2356777 CATTTGTTTAT-T
1 CATTTATTTATAT
2356789 CATTTATTTATAT
1 CATTTATTTATAT
2356802 CA--TATTTATAT
1 CATTTATTTATAT
*
2356813 TATTT-TTTATAT
1 CATTTATTTATAT
2356825 TTTATATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
11 10 0.32
12 17 0.55
13 4 0.13
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (13 bp):
CATTTATTTATAT
Found at i:2359598 original size:27 final size:29
Alignment explanation
Indices: 2359568--2359628 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 29
2359558 AAATTAATTA
2359568 TTAAAT-ATATAAATAAAAATAATAT-G-T
1 TTAAATAATAT-AATAAAAATAATATCGAT
* *
2359595 TTAATTAATATAATAAAAATTATATCGAT
1 TTAAATAATATAATAAAAATAATATCGAT
2359624 TTAAA
1 TTAAA
2359629 ATTTTATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
27 18 0.64
28 5 0.18
29 5 0.18
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (29 bp):
TTAAATAATATAATAAAAATAATATCGAT
Found at i:2360601 original size:25 final size:24
Alignment explanation
Indices: 2360573--2360623 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
2360563 AATGTCATCA
*
2360573 ATTTGATAATTAAACTATTATAATG
1 ATTTGATAACT-AACTATTATAATG
* *
2360598 ATTTTATAACTAATTATTATAATG
1 ATTTGATAACTAACTATTATAATG
2360622 AT
1 AT
2360624 ACCAAAGGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (24 bp):
ATTTGATAACTAACTATTATAATG
Found at i:2360716 original size:4 final size:4
Alignment explanation
Indices: 2360693--2360731 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
2360683 CTATAAACAT
* * *
2360693 ATAC ATAT ATGC AAAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
2360732 TATATATATC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.51, C:0.21, G:0.03, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:2361641 original size:25 final size:25
Alignment explanation
Indices: 2361612--2361663 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
2361602 ATTTTTAAAA
*
2361612 TATCTTTTAGTAAAATCAAAATATT
1 TATCTTTTAATAAAATCAAAATATT
* *
2361637 TATCTTTTAATAAAATTAAAATTTT
1 TATCTTTTAATAAAATCAAAATATT
2361662 TA
1 TA
2361664 CTTATAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (25 bp):
TATCTTTTAATAAAATCAAAATATT
Found at i:2363774 original size:43 final size:45
Alignment explanation
Indices: 2363727--2363823 Score: 119
Period size: 43 Copynumber: 2.2 Consensus size: 45
2363717 TTATAGTATA
*
2363727 ATTATATAAAAAATAT-TTTATGT-T-TTATATTTATATTAATTTT
1 ATTATATAAAAAATATATTTATCTATATTATATTTATA-TAATTTT
* *
2363770 ATTATATTAAAAATATATTTATCTCATATTATATTTTTATAATTTT
1 ATTATATAAAAAATATATTTATCT-ATATTATATTTATATAATTTT
2363816 ATATATAT
1 AT-TATAT
2363824 TATATTTATA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
43 15 0.33
44 6 0.13
46 10 0.22
47 15 0.33
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.57
Consensus pattern (45 bp):
ATTATATAAAAAATATATTTATCTATATTATATTTATATAATTTT
Found at i:2363842 original size:23 final size:24
Alignment explanation
Indices: 2363795--2363842 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
2363785 TATTTATCTC
* *
2363795 ATATTATATTTTTATAATTTTATAT
1 ATATTATATTTATATAA-TTCATAT
2363820 ATATTATATTTATATAA-TCATAT
1 ATATTATATTTATATAATTCATAT
2363843 TAAATATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 5 0.24
25 16 0.76
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (24 bp):
ATATTATATTTATATAATTCATAT
Found at i:2363916 original size:21 final size:22
Alignment explanation
Indices: 2363877--2363932 Score: 78
Period size: 21 Copynumber: 2.6 Consensus size: 22
2363867 AATAAAAATA
* *
2363877 AAATATAACTATATTAAATTTT
1 AAATATAATTATATAAAATTTT
*
2363899 ATATA-AATTATATAAAATTTT
1 AAATATAATTATATAAAATTTT
2363920 AAATATAATTATA
1 AAATATAATTATA
2363933 ATATAAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 18 0.62
22 11 0.38
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
AAATATAATTATATAAAATTTT
Found at i:2363924 original size:48 final size:48
Alignment explanation
Indices: 2363831--2363937 Score: 128
Period size: 48 Copynumber: 2.2 Consensus size: 48
2363821 TATTATATTT
2363831 ATATAATCATATTAAATATTATTAAACTTATATAAAAATAAAAATA-AA
1 ATATAAT-ATATTAAATATTATTAAACTTATATAAAAATAAAAATATAA
* * **
2363879 ATATAACTATATTAAATTTTATATAAA-TTATATAAAATTTTAAATATAA
1 ATATAA-TATATTAAATATTAT-TAAACTTATATAAAAATAAAAATATAA
*
2363928 TTATAATATA
1 ATATAATATA
2363938 AAAATATAAC
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
48 39 0.76
49 12 0.24
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (48 bp):
ATATAATATATTAAATATTATTAAACTTATATAAAAATAAAAATATAA
Found at i:2363959 original size:25 final size:24
Alignment explanation
Indices: 2363898--2363959 Score: 56
Period size: 25 Copynumber: 2.5 Consensus size: 24
2363888 TATTAAATTT
* *
2363898 TATATAAATT-ATATAAAATTTTAA
1 TATAT-AATTAATATAAAAATATAA
2363922 -ATATAATTATAATATAAAAATATAA
1 TATATAA-T-TAATATAAAAATATAA
2363947 CTATATAATTAAT
1 -TATATAATTAAT
2363960 TTTTGTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
22 2 0.06
23 5 0.16
24 1 0.03
25 16 0.52
26 1 0.03
27 6 0.19
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (24 bp):
TATATAATTAATATAAAAATATAA
Found at i:2365827 original size:16 final size:16
Alignment explanation
Indices: 2365806--2365839 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
2365796 TCGATGCAAG
*
2365806 TGATATGTTCACATTA
1 TGATATGTTCAAATTA
2365822 TGATATGTTCAAATTA
1 TGATATGTTCAAATTA
2365838 TG
1 TG
2365840 GAATTTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.44
Consensus pattern (16 bp):
TGATATGTTCAAATTA
Found at i:2366565 original size:28 final size:26
Alignment explanation
Indices: 2366512--2366568 Score: 78
Period size: 28 Copynumber: 2.1 Consensus size: 26
2366502 TAGATTAAAA
*
2366512 TTATTTATTTATTATTTAAATAAATT
1 TTATTTATATATTATTTAAATAAATT
*
2366538 TTATTTAATATATTATTTTAAATTAATT
1 TTATTT-ATATATTA-TTTAAATAAATT
2366566 TTA
1 TTA
2366569 AAAATTATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 6 0.22
27 7 0.26
28 14 0.52
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (26 bp):
TTATTTATATATTATTTAAATAAATT
Found at i:2366577 original size:28 final size:28
Alignment explanation
Indices: 2366521--2366586 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
2366511 ATTATTTATT
**
2366521 TATTA-TTTAAATAAATTTTATTTAATA
1 TATTATTTTAAATAAATTTTATAAAATA
*
2366548 TATTATTTTAAATTAATTTTA-AAAATTA
1 TATTATTTTAAATAAATTTTATAAAA-TA
2366576 TATTAATTTTA
1 TATT-ATTTTA
2366587 TTTTTTTACA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 7 0.21
28 20 0.61
29 6 0.18
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (28 bp):
TATTATTTTAAATAAATTTTATAAAATA
Found at i:2366798 original size:2 final size:2
Alignment explanation
Indices: 2366791--2366832 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
2366781 ATTCTCTAAT
*
2366791 TA TA TA TA TA TA TA TA -A TA TA CA 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 TA TA TA TA
2366832 T
1 T
2366833 TCTCCATGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:2368880 original size:3 final size:3
Alignment explanation
Indices: 2368872--2368901 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
2368862 ATTTATGTAT
2368872 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2368902 CATATATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2369183 original size:40 final size:40
Alignment explanation
Indices: 2369120--2369208 Score: 101
Period size: 40 Copynumber: 2.2 Consensus size: 40
2369110 TATATTTAAA
2369120 ATATTATATATTTATATAAATTTTAATATTT-TAATTATTT
1 ATATTATATATTTATATAAATTTTAATATTTAT-ATTATTT
* * *
2369160 ATATTTTATA-TTATGATATATTTTTATATTTATATTATTT
1 ATATTATATATTTAT-ATAAATTTTAATATTTATATTATTT
* *
2369200 TTATCATAT
1 ATATTATAT
2369209 TATAGTTTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
39 4 0.10
40 36 0.88
41 1 0.02
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (40 bp):
ATATTATATATTTATATAAATTTTAATATTTATATTATTT
Found at i:2369186 original size:18 final size:16
Alignment explanation
Indices: 2369159--2369203 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 16
2369149 TTTAATTATT
2369159 TATA-TTTTATATTATGA
1 TATATTTTTATATT-T-A
2369176 TATATTTTTATATTTA
1 TATATTTTTATATTTA
2369192 TATTATTTTTAT
1 TA-TATTTTTAT
2369204 CATATTATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 3 0.12
17 14 0.54
18 9 0.35
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (16 bp):
TATATTTTTATATTTA
Found at i:2369211 original size:19 final size:19
Alignment explanation
Indices: 2369123--2369212 Score: 69
Period size: 19 Copynumber: 4.6 Consensus size: 19
2369113 ATTTAAAATA
*
2369123 TTATATATTTATATAAATTT
1 TTATATA-TTATATATATTT
* * * *
2369143 TAATATTTTAATTATTTATAT
1 TTATATATT-A-TATATATTT
2369164 TT-TATATTATGATATATTT
1 TTATATATTAT-ATATATTT
2369183 TTATAT-TTATAT-TATTT
1 TTATATATTATATATATTT
2369200 TTATCATATTATA
1 TTAT-ATATTATA
2369213 GTTTAATTAA
Statistics
Matches: 55, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
17 9 0.16
18 5 0.09
19 20 0.36
20 14 0.25
21 7 0.13
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (19 bp):
TTATATATTATATATATTT
Found at i:2369615 original size:15 final size:15
Alignment explanation
Indices: 2369595--2369627 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
2369585 AAATTATTTT
2369595 ATAAAAAAGATTA-AA
1 ATAAAAAA-ATTATAA
2369610 ATAAAAAAATTATAA
1 ATAAAAAAATTATAA
2369625 ATA
1 ATA
2369628 TTAATATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (15 bp):
ATAAAAAAATTATAA
Found at i:2370657 original size:23 final size:24
Alignment explanation
Indices: 2370602--2370656 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
2370592 TAAAGTAGTT
*
2370602 ATAATATTATTTAATTAATAATTA
1 ATAATTTTATTTAATTAATAATTA
2370626 ATAATTTTATTT-ATTAA-ATATTA
1 ATAATTTTATTTAATTAATA-ATTA
2370649 ATATATTT
1 ATA-ATTT
2370657 AATAAAGTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 1 0.04
23 12 0.43
24 15 0.54
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
ATAATTTTATTTAATTAATAATTA
Found at i:2371601 original size:21 final size:19
Alignment explanation
Indices: 2371577--2371619 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
2371567 AGTTATTTTT
2371577 TAAATTTATTTAAATATTAAA
1 TAAATTT-TTTAAAT-TTAAA
2371598 TAAA-TTTTTAAATTTAAA
1 TAAATTTTTTAAATTTAAA
2371616 -AAAT
1 TAAAT
2371620 AATTAATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 3 0.14
18 5 0.24
19 7 0.33
20 2 0.10
21 4 0.19
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TAAATTTTTTAAATTTAAA
Found at i:2372084 original size:2 final size:2
Alignment explanation
Indices: 2372077--2372138 Score: 62
Period size: 2 Copynumber: 33.0 Consensus size: 2
2372067 TTCTTTATTT
* *
2372077 TA TA TA TA TA TA TA TA TA TA TA TA TG TA -A AA TA TA -A TA TCA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A
2372118 T- TA TA TA TA TA TA -A TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA
2372139 ATTTGGGATA
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
1 5 0.10
2 44 0.86
3 2 0.04
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:2372286 original size:25 final size:25
Alignment explanation
Indices: 2372228--2372289 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 25
2372218 ATAGCTCTTG
*
2372228 ATTTAATT-TAAA-TTGTTATTTAT
1 ATTTAATTATAAATTTGTTATTTAA
* *
2372251 ATAT-ATATATAAATTTTTTATTTAA
1 ATTTAAT-TATAAATTTGTTATTTAA
2372276 ATTTAATTATAAAT
1 ATTTAATTATAAAT
2372290 ATTAATATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
22 2 0.06
23 4 0.13
24 4 0.13
25 19 0.61
26 2 0.06
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (25 bp):
ATTTAATTATAAATTTGTTATTTAA
Found at i:2374371 original size:24 final size:24
Alignment explanation
Indices: 2374299--2374374 Score: 91
Period size: 24 Copynumber: 3.1 Consensus size: 24
2374289 TTTCTTTAGT
*
2374299 CACCAACTTTTCTGAGAAGGG-AAA
1 CACCAACTTTT-TGATAAGGGAAAA
* * *
2374323 CAGCACCTTTGTTGATGAGGGAAAA
1 CACCAACTTT-TTGATAAGGGAAAA
2374348 CACCAACTTTTTGATAAGGGAAAA
1 CACCAACTTTTTGATAAGGGAAAA
2374372 CAC
1 CAC
2374375 TGTGGAAACT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
24 31 0.72
25 12 0.28
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.22
Consensus pattern (24 bp):
CACCAACTTTTTGATAAGGGAAAA
Found at i:2376620 original size:21 final size:21
Alignment explanation
Indices: 2376573--2376621 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
2376563 TTAATATAGC
* * *
2376573 AAAAAATTATCAAATATATTT
1 AAAAAATTATCAAAAAAAATT
* *
2376594 ATAAAATTATTAAAAAAAATT
1 AAAAAATTATCAAAAAAAATT
2376615 AAAAAAT
1 AAAAAAT
2376622 ATAATAAATT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAAAATTATCAAAAAAAATT
Done.