Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 141 of 145
Found at i:46818674 original size:30 final size:30
Alignment explanation
Indices: 46818640--46818699 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
46818630 TTTGGGGTCC
*
46818640 GAGGTTGGACAATAATGTTGTCCCTAAAGT
1 GAGGTTGGACAATAATATTGTCCCTAAAGT
46818670 GAGGTTGGACAATAATATTGTCCCTAAAGT
1 GAGGTTGGACAATAATATTGTCCCTAAAGT
46818700 TTGAACTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (30 bp):
GAGGTTGGACAATAATATTGTCCCTAAAGT
Found at i:46820815 original size:39 final size:39
Alignment explanation
Indices: 46820770--46820849 Score: 117
Period size: 40 Copynumber: 2.1 Consensus size: 39
46820760 ATAAAATAAC
* *
46820770 AAAAA-CCTAACCTTTATCTAAATAAACATTTTTTATTAA
1 AAAAACCCTAACATTTATCTAAATAAACAATTTTT-TTAA
*
46820809 AAAAACCCTAACATTTGTCTAAATAAACAATTTTTTTAA
1 AAAAACCCTAACATTTATCTAAATAAACAATTTTTTTAA
46820848 AA
1 AA
46820850 TATAATCAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
39 11 0.30
40 26 0.70
ACGTcount: A:0.47, C:0.15, G:0.01, T:0.36
Consensus pattern (39 bp):
AAAAACCCTAACATTTATCTAAATAAACAATTTTTTTAA
Found at i:46820968 original size:13 final size:13
Alignment explanation
Indices: 46820917--46820969 Score: 52
Period size: 14 Copynumber: 3.9 Consensus size: 13
46820907 TATTTTTTGG
*
46820917 GTTTCGAGTTTAAA
1 GTTTAGAGTTT-AA
**
46820931 GTTTATTGTTTAA
1 GTTTAGAGTTTAA
46820944 GATTTAGAGTTTAA
1 G-TTTAGAGTTTAA
*
46820958 GTTTAGGGTTTA
1 GTTTAGAGTTTA
46820970 TGGTTATATC
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
13 13 0.41
14 19 0.59
ACGTcount: A:0.26, C:0.02, G:0.23, T:0.49
Consensus pattern (13 bp):
GTTTAGAGTTTAA
Found at i:46821178 original size:22 final size:23
Alignment explanation
Indices: 46821148--46821196 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
46821138 TATTTTTTTT
*
46821148 AAATATTTAT-AAAAAATACTTTA
1 AAATATTTATCAAAAAATA-TTCA
*
46821171 AAAT-TTTATCAAATAATATTCA
1 AAATATTTATCAAAAAATATTCA
46821193 AAAT
1 AAAT
46821197 CCATAAAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (23 bp):
AAATATTTATCAAAAAATATTCA
Found at i:46824174 original size:10 final size:9
Alignment explanation
Indices: 46824135--46824444 Score: 63
Period size: 9 Copynumber: 35.7 Consensus size: 9
46824125 ACATGTGACA
*
46824135 AAAAATGAT
1 AAAAATTAT
46824144 AAAAA--AT
1 AAAAATTAT
*
46824151 AAAAATCAAT
1 AAAAAT-TAT
*
46824161 AAAAGTTAT
1 AAAAATTAT
46824170 AAAAATTAT
1 AAAAATTAT
* *
46824179 -TAAATTTT
1 AAAAATTAT
*
46824187 AAAAAATATTT
1 -AAAAAT-TAT
*
46824198 AAAAGTTAT
1 AAAAATTAT
*
46824207 TAAAATTA-
1 AAAAATTAT
*
46824215 GAAAA--A-
1 AAAAATTAT
*
46824221 AAAAGTTAT
1 AAAAATTAT
46824230 AAAAATTAT
1 AAAAATTAT
* *
46824239 -TAAATTTT
1 AAAAATTAT
*
46824247 AAAAAATATTT
1 -AAAAAT-TAT
*
46824258 AAAAGTTAT
1 AAAAATTAT
*
46824267 TAAAATTA-
1 AAAAATTAT
*
46824275 GAAAA--A-
1 AAAAATTAT
*
46824281 AAAAGTTAT
1 AAAAATTAT
46824290 AAAAATTAT
1 AAAAATTAT
* *
46824299 -TAAATTTT
1 AAAAATTAT
*
46824307 AAAAAATATTT
1 -AAAAAT-TAT
*
46824318 AAAAGTTAT
1 AAAAATTAT
*
46824327 TAAAATTA-
1 AAAAATTAT
*
46824335 GAAAA--A-
1 AAAAATTAT
*
46824341 AAAAGTTAT
1 AAAAATTAT
46824350 AAAAATTAT
1 AAAAATTAT
* *
46824359 -TAAATTTT
1 AAAAATTAT
*
46824367 AAAAAATATTT
1 -AAAAAT-TAT
*
46824378 AAAAGTTAT
1 AAAAATTAT
*
46824387 TAAAATTA-
1 AAAAATTAT
*
46824395 GAAAA--A-
1 AAAAATTAT
*
46824401 AAAAGTTAT
1 AAAAATTAT
46824410 AAAAATCGTA-
1 AAAAAT--TAT
46824420 AAAAATTAT
1 AAAAATTAT
46824429 AAAAATATAT
1 AAAAAT-TAT
*
46824439 AGAAAT
1 AAAAAT
46824445 ATAGAAAAAA
Statistics
Matches: 222, Mismatches: 48, Indels: 61
0.67 0.15 0.18
Matches are distributed among these distances:
6 16 0.07
7 7 0.03
8 46 0.21
9 82 0.37
10 57 0.26
11 14 0.06
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Found at i:46824254 original size:60 final size:60
Alignment explanation
Indices: 46824161--46824415 Score: 510
Period size: 60 Copynumber: 4.2 Consensus size: 60
46824151 AAAAATCAAT
46824161 AAAAGTTATAAAAATTATTAAATTTTAAAAAATATTTAAAAGTTATTAAAATTAGAAAAA
1 AAAAGTTATAAAAATTATTAAATTTTAAAAAATATTTAAAAGTTATTAAAATTAGAAAAA
46824221 AAAAGTTATAAAAATTATTAAATTTTAAAAAATATTTAAAAGTTATTAAAATTAGAAAAA
1 AAAAGTTATAAAAATTATTAAATTTTAAAAAATATTTAAAAGTTATTAAAATTAGAAAAA
46824281 AAAAGTTATAAAAATTATTAAATTTTAAAAAATATTTAAAAGTTATTAAAATTAGAAAAA
1 AAAAGTTATAAAAATTATTAAATTTTAAAAAATATTTAAAAGTTATTAAAATTAGAAAAA
46824341 AAAAGTTATAAAAATTATTAAATTTTAAAAAATATTTAAAAGTTATTAAAATTAGAAAAA
1 AAAAGTTATAAAAATTATTAAATTTTAAAAAATATTTAAAAGTTATTAAAATTAGAAAAA
46824401 AAAAGTTATAAAAAT
1 AAAAGTTATAAAAAT
46824416 CGTAAAAAAT
Statistics
Matches: 195, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 195 1.00
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (60 bp):
AAAAGTTATAAAAATTATTAAATTTTAAAAAATATTTAAAAGTTATTAAAATTAGAAAAA
Found at i:46824422 original size:23 final size:23
Alignment explanation
Indices: 46824378--46824424 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
46824368 AAAAATATTT
*
46824378 AAAAGTTATTAAAATTAGAAAAA
1 AAAAGTTATTAAAAATAGAAAAA
* *
46824401 AAAAGTTA-TAAAAATCGTAAAA
1 AAAAGTTATTAAAAATAGAAAAA
46824423 AA
1 AA
46824425 TTATAAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (23 bp):
AAAAGTTATTAAAAATAGAAAAA
Found at i:46825206 original size:186 final size:186
Alignment explanation
Indices: 46824892--46825444 Score: 915
Period size: 186 Copynumber: 3.0 Consensus size: 186
46824882 AAATATTTCT
46824892 ATTTTACAGACTCGATTTACGAAAATAAAGTTCCGAAACCATTAAAAATTGAGTCATTACAATTT
1 ATTTTACAGACTCGATTTACGAAAATAAAGTTCCGAAACCATTAAAAATTGAGTCATTACAATTT
* *
46824957 TAATCGAATTTCTAACATACAGAGAAATCATTTTACTCATTGTAAAAAGCATTAGGGACCAAAAT
66 TAATCGAATTTCTAACATACAGAAAAATCATTTTACTCACTGTAAAAAGCATTAGGGACCAAAAT
* *
46825022 ATAATACATGAGACGGGTACAATGATAAGAATAGGAGAAAGTGAGTGACAATAGCA
131 ATAATACATGAGACGGGTACAATAATAAGAATAGGAGAAAGTGAGTGACAAAAGCA
*
46825078 ATTTTACAGACTCGATTTACGAAAATAAAGTTCCGAAACCATTAAAAATTGAGCCATTACAATTT
1 ATTTTACAGACTCGATTTACGAAAATAAAGTTCCGAAACCATTAAAAATTGAGTCATTACAATTT
*
46825143 TAATCGAATTTCTAACATATAGAAAAATCATTTTACTCACTGTAAAAAGCATTAGGGACCAAAAT
66 TAATCGAATTTCTAACATACAGAAAAATCATTTTACTCACTGTAAAAAGCATTAGGGACCAAAAT
* *
46825208 ATAATACATGAGACGGGTACAATAATAAGAATAGGAGAAAGTAAGTTACAAAAGCA
131 ATAATACATGAGACGGGTACAATAATAAGAATAGGAGAAAGTGAGTGACAAAAGCA
* * * *
46825264 ATTTTACAGACTCAATTTACGAAAATAAAGTTCCGAAACCATTGAAAATTGAGTCGTTACAAATT
1 ATTTTACAGACTCGATTTACGAAAATAAAGTTCCGAAACCATTAAAAATTGAGTCATTACAATTT
* * *
46825329 TAGTCAAATTTCTAACATACAGAAAAATCATTTTACTCACTGTAAAAAGCATCAGGGACCAAAAT
66 TAATCGAATTTCTAACATACAGAAAAATCATTTTACTCACTGTAAAAAGCATTAGGGACCAAAAT
46825394 ATAATACAT-------G-ACAATAATAAGAATAGGAGAAAGTGAGTGACAAAAGCA
131 ATAATACATGAGACGGGTACAATAATAAGAATAGGAGAAAGTGAGTGACAAAAGCA
46825442 ATT
1 ATT
46825445 AGACAACCGT
Statistics
Matches: 348, Mismatches: 19, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
178 39 0.11
179 1 0.00
186 308 0.89
ACGTcount: A:0.45, C:0.14, G:0.15, T:0.26
Consensus pattern (186 bp):
ATTTTACAGACTCGATTTACGAAAATAAAGTTCCGAAACCATTAAAAATTGAGTCATTACAATTT
TAATCGAATTTCTAACATACAGAAAAATCATTTTACTCACTGTAAAAAGCATTAGGGACCAAAAT
ATAATACATGAGACGGGTACAATAATAAGAATAGGAGAAAGTGAGTGACAAAAGCA
Found at i:46827003 original size:333 final size:335
Alignment explanation
Indices: 46826190--46827617 Score: 1674
Period size: 333 Copynumber: 4.3 Consensus size: 335
46826180 TCTGCACATG
*
46826190 GGTGCTTGGATTCGGGTGTGAGTGT--ACACAGGTGAGTTCAAAAAGGGTATTTTC--TGTGTTA
1 GGTGCTTGGATTCGGGTGTGAGTGTGCACACA-GTGAGTTCAAAAAGGGTATTTTCTATGTATTA
* * * * * *
46826251 AGAGGATCTCTGGACGAT-AGTATTCCTATACTCGTGTTCAAGTTAGAGGTGTCTATGATTTAGA
65 AAAGGATCTTTGGAAGATCA-TATTCCTATACTTGTGTTCAAGTCAGAGGTGTCTATGAGTTAGA
* * * * *
46826315 CCTAG-TGAATGTGTAGTATCAACACTATATAGGTTTCATATTTTGGCCAAGTTCATTCTCAAGC
129 CCCAGCT-CATGTGTAGCATCAACACTATATAGGTCTCATATTTTGGCCAAGTTCATTCTCAGGC
* * * * *
46826379 TTAATATTTTTGTATAAATCTTCCCAAATA-CAGGGTGGGGCTTTGCACAAAGGTCCTTGGACAG
193 TTAATATTTTTGTCTAAACCTTCCCAAATACCA-GGTGGGGCTTTGCTCATAGGTCCTTGGACAA
* ** * *
46826443 GTCTAGTTCAAGTATGTGTCAGACATGATTACTGAAAGAAAAGCAAGGGGAAGCGATAGCTTTTT
257 GTCTAGTTCAAGTATGTGTCAGACACGATTACTTCAAGAAAAGCAA-GGGAAGTGTTAGCTTTTT
* *
46826508 GGCTCCGGGTGCTAA
321 GGCTTCGGGTGCTAT
* * * * * *
46826523 GGTACTTGGATTTGCGTGTGAGTGTGCACACAAGCGTGTTAAAAAAGGGTGTATTTTCTATGTAT
1 GGTGCTTGGATTCGGGTGTGAGTGTGCACAC-AGTGAGTTCAAAAA-GG-GTATTTTCTATGTAT
* * ** * ** * * * *
46826588 TAATAGGATCTCTGGAAGATCATATTGTTATA-TTCGTGATCGGGTCTGAGGTGTCTAGGAGATG
63 TAAAAGGATCTTTGGAAGATCATATTCCTATACTT-GTGTTCAAGTCAGAGGTGTCTATGAGTTA
*
46826652 GA-CCAGGCTCATGTGTAGCATCAACACTACATAGGTCTCATATTTTGGCCAAGTTCATTCTCAG
127 GACCCA-GCTCATGTGTAGCATCAACACTATATAGGTCTCATATTTTGGCCAAGTTCATTCTCAG
* * * *
46826716 GCTTTATA-TTATGTCTAAACCTTCCCAAATACCAGGTGGAGCTTTGCTCATGGGTCCTTGGACA
191 GCTTAATATTTTTGTCTAAACCTTCCCAAATACCAGGTGGGGCTTTGCTCATAGGTCCTTGGACA
* * * *
46826780 AGTCTAGTACAAGTATGTGTCAGACACGATTA-TTGAAGAAAAG-AGGGGAAGTGTTAACTTTTT
256 AGTCTAGTTCAAGTATGTGTCAGACACGATTACTTCAAGAAAAGCAAGGGAAGTGTTAGCTTTTT
* * *
46826843 TGCTTCGGGAGATAT
321 GGCTTCGGGTGCTAT
* * *
46826858 GGTGCTTGGGTTCGGGTGTGAGTGTGTACACGAGTGAGGTCAAAAAGGGTATTTTCTATGTATTA
1 GGTGCTTGGATTCGGGTGTGAGTGTGCACAC-AGTGAGTTCAAAAAGGGTATTTTCTATGTATTA
* * *** *
46826923 AAAAGATCTTTGGAAGATCATATTCCGATACTTGTGTTTGGGTCAGAGGTGTCTATGAGTTGGAC
65 AAAGGATCTTTGGAAGATCATATTCCTATACTTGTGTTCAAGTCAGAGGTGTCTATGAGTTAGAC
* * ***
46826988 CCAGCTCATGTGTAGCATTAACACTATATAGGTCTCATGTTTCCACCAAGTTCATTCTCAGGCTT
130 CCAGCTCATGTGTAGCATCAACACTATATAGGTCTCATATTTTGGCCAAGTTCATTCTCAGGCTT
* * * ** * * *
46827053 GATATTTTTGTCTAAACCTTCTCGAATACTGGGTAGGGCTTTGGTCATGGGTCCTTGGA-AAGGT
195 AATATTTTTGTCTAAACCTTCCCAAATACCAGGTGGGGCTTTGCTCATAGGTCCTTGGACAA-GT
* *
46827117 CTAGTTCAAGTATGTGTCAGACACAATTACTTCAAGAAAAGCAAAGGTAAGTGTTAGCTTTTTGG
259 CTAGTTCAAGTATGTGTCAGACACGATTACTTCAAGAAAAGC-AAGGGAAGTGTTAGCTTTTTGG
* *
46827182 CTTCGAGTGTTAT
323 CTTCGGGTGCTAT
* * * *
46827195 GGTGCTTGGATTCGGGTGTCAGTGTGCACACGGGTGTGTTC-GAAAGGGTATTTTCTATGTATTA
1 GGTGCTTGGATTCGGGTGTGAGTGTGCACAC-AGTGAGTTCAAAAAGGGTATTTTCTATGTATTA
* * * * * *
46827259 AGAGGAT-TTT--TAGATCATATTCCTATACTAGTGTTCAAATCAAAGGTATCTATGAGTTAGAC
65 AAAGGATCTTTGGAAGATCATATTCCTATACTTGTGTTCAAGTCAGAGGTGTCTATGAGTTAGAC
* * * *
46827321 CAAGCTCATATGTAGCATCAACACTATATAGGTCTCATATTTTGGCCAAGTTCATTATCAGGCCT
130 CCAGCTCATGTGTAGCATCAACACTATATAGGTCTCATATTTTGGCCAAGTTCATTCTCAGGCTT
46827386 AATATTTTTGTCTAAACCTTCCCAAATACC-GGTGGGGCTTTG-TACATAGGTCCTTGGACAAGT
195 AATATTTTTGTCTAAACCTTCCCAAATACCAGGTGGGGCTTTGCT-CATAGGTCCTTGGACAAGT
*
46827449 CTAGTTCAAGTATGTGT-TGTACACGATTACTTCAAGAAAAGCAAGGGAAGTGTTAGCTTTTTGG
259 CTAGTTCAAGTATGTGTCAG-ACACGATTACTTCAAGAAAAGCAAGGGAAGTGTTAGCTTTTTGG
46827513 CTTCGGGTGCTAT
323 CTTCGGGTGCTAT
* *
46827526 GGTGCTTGGATTCAGGTGTGAGTGTGCACACAG-GAGTGTTCGAAAAGGGTATTTTCTATGTATT
1 GGTGCTTGGATTCGGGTGTGAGTGTGCACACAGTGA--GTTCAAAAAGGGTATTTTCTATGTATT
*
46827590 AAAAGGATCTTTGAAAGATCATATTCCT
64 AAAAGGATCTTTGGAAGATCATATTCCT
46827618 GTAATCATGT
Statistics
Matches: 926, Mismatches: 141, Indels: 54
0.83 0.13 0.05
Matches are distributed among these distances:
329 1 0.00
330 1 0.00
331 67 0.07
332 92 0.10
333 279 0.30
334 82 0.09
335 101 0.11
336 31 0.03
337 80 0.09
338 78 0.08
339 112 0.12
340 2 0.00
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.33
Consensus pattern (335 bp):
GGTGCTTGGATTCGGGTGTGAGTGTGCACACAGTGAGTTCAAAAAGGGTATTTTCTATGTATTAA
AAGGATCTTTGGAAGATCATATTCCTATACTTGTGTTCAAGTCAGAGGTGTCTATGAGTTAGACC
CAGCTCATGTGTAGCATCAACACTATATAGGTCTCATATTTTGGCCAAGTTCATTCTCAGGCTTA
ATATTTTTGTCTAAACCTTCCCAAATACCAGGTGGGGCTTTGCTCATAGGTCCTTGGACAAGTCT
AGTTCAAGTATGTGTCAGACACGATTACTTCAAGAAAAGCAAGGGAAGTGTTAGCTTTTTGGCTT
CGGGTGCTAT
Found at i:46831882 original size:2 final size:2
Alignment explanation
Indices: 46831875--46831911 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
46831865 AAGCAACATC
* *
46831875 AT AT AT AT AT AT AT AT AT AT AT AT AC AC AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
46831912 CCACAAAAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:46837332 original size:23 final size:23
Alignment explanation
Indices: 46837304--46837354 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
46837294 TAGTATTAAT
*
46837304 AATAATATCA-TAATAATAAAATA
1 AATAATATCACTAA-AATAAAAAA
*
46837327 AATAATGTCACTTAAAATAAAAAA
1 AATAATATCAC-TAAAATAAAAAA
46837351 AATA
1 AATA
46837355 TATAAAAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 9 0.38
24 12 0.50
25 3 0.12
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.27
Consensus pattern (23 bp):
AATAATATCACTAAAATAAAAAA
Found at i:46837560 original size:19 final size:19
Alignment explanation
Indices: 46837526--46837562 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
46837516 ATATGTGAAA
**
46837526 AAACAAATAAGTAATAAAT
1 AAACAAATAAAAAATAAAT
46837545 AAACAAATAAAAAATAAA
1 AAACAAATAAAAAATAAA
46837563 AAAAATTGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.76, C:0.05, G:0.03, T:0.16
Consensus pattern (19 bp):
AAACAAATAAAAAATAAAT
Found at i:46842063 original size:47 final size:47
Alignment explanation
Indices: 46841994--46842116 Score: 185
Period size: 47 Copynumber: 2.6 Consensus size: 47
46841984 CGTTTGTAGG
46841994 ACAACCGAACATCGAAAACATTATATGAGGTACCAGAAGCATGGACT
1 ACAACCGAACATCGAAAACATTATATGAGGTACCAGAAGCATGGACT
* * *
46842041 ACAACTGAACCA-CGAAAACATTATATGAGGTGCTAGAAGCATGGACT
1 ACAACCGAA-CATCGAAAACATTATATGAGGTACCAGAAGCATGGACT
* *
46842088 ACAACCGAACATTGAAAACATTTTATGAG
1 ACAACCGAACATCGAAAACATTATATGAG
46842117 ATCAATAGAA
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
46 2 0.03
47 64 0.94
48 2 0.03
ACGTcount: A:0.42, C:0.20, G:0.19, T:0.20
Consensus pattern (47 bp):
ACAACCGAACATCGAAAACATTATATGAGGTACCAGAAGCATGGACT
Found at i:46852201 original size:20 final size:20
Alignment explanation
Indices: 46852173--46852212 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
46852163 AACCAACCTT
* *
46852173 GGGTTATTGGGTTGGGTTTA
1 GGGTCATTGGGTTGAGTTTA
46852193 GGGTCATTGGGTTGAGTTTA
1 GGGTCATTGGGTTGAGTTTA
46852213 TATGGTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.12, C:0.03, G:0.42, T:0.42
Consensus pattern (20 bp):
GGGTCATTGGGTTGAGTTTA
Found at i:46856101 original size:21 final size:22
Alignment explanation
Indices: 46855995--46856118 Score: 63
Period size: 23 Copynumber: 5.2 Consensus size: 22
46855985 TGTTTTTTTT
*
46855995 AATTAAAATATTATATATTATATCTA
1 AATTAAAA-A-TATAT-TTATA-ATA
*
46856021 AA-TAATAATATATTATTATAATA
1 AATTAAAAATATA-T-TTATAATA
*
46856044 TGATATTAAAACATTATATTTATCATA
1 --A-ATTAAAA-A-TATATTTATAATA
* *
46856071 TATTATAAATATATTTA-AATA
1 AATTAAAAATATATTTATAATA
* *
46856092 AATTAAAAATATTATATATATTA
1 AATTAAAAATA-TATTTATAATA
46856115 AATT
1 AATT
46856119 GGTTGGTTGG
Statistics
Matches: 78, Mismatches: 11, Indels: 21
0.71 0.10 0.19
Matches are distributed among these distances:
21 12 0.15
22 13 0.17
23 14 0.18
24 14 0.18
25 5 0.06
26 3 0.04
27 11 0.14
28 2 0.03
29 4 0.05
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (22 bp):
AATTAAAAATATATTTATAATA
Found at i:46856116 original size:18 final size:20
Alignment explanation
Indices: 46856058--46856116 Score: 68
Period size: 18 Copynumber: 3.0 Consensus size: 20
46856048 ATTAAAACAT
46856058 TATATTTATCATATATTATAAA
1 TATATTTAT-ATATATTA-AAA
* *
46856080 TATATTTAAATAAATTAAAA
1 TATATTTATATATATTAAAA
46856100 -ATA-TTATATATATTAAA
1 TATATTTATATATATTAAA
46856117 TTGGTTGGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 12 0.36
19 3 0.09
20 3 0.09
21 7 0.21
22 8 0.24
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (20 bp):
TATATTTATATATATTAAAA
Found at i:46857050 original size:18 final size:17
Alignment explanation
Indices: 46857020--46857054 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
46857010 GAGGAGCCTT
46857020 TCAATTTAAAAAAAAAA
1 TCAATTTAAAAAAAAAA
46857037 TCAATTTAAAAAAAAAA
1 TCAATTTAAAAAAAAAA
46857054 T
1 T
46857055 AGGTCTCCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.26
Consensus pattern (17 bp):
TCAATTTAAAAAAAAAA
Found at i:46858075 original size:38 final size:38
Alignment explanation
Indices: 46858012--46858102 Score: 146
Period size: 38 Copynumber: 2.4 Consensus size: 38
46858002 ATCGTGGTAC
* * *
46858012 GGTTATCTACAAGCTTTATGGAGCGACACCATGAAAAT
1 GGTTATCTACAGGCTCTATGAAGCGACACCATGAAAAT
46858050 GGTTATCTACAGGCTCTATGAAGCGACACCATGAAAAT
1 GGTTATCTACAGGCTCTATGAAGCGACACCATGAAAAT
*
46858088 GATTATCTACAGGCT
1 GGTTATCTACAGGCT
46858103 TTACAGAGCA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 49 1.00
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (38 bp):
GGTTATCTACAGGCTCTATGAAGCGACACCATGAAAAT
Found at i:46867027 original size:27 final size:29
Alignment explanation
Indices: 46866965--46867027 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 29
46866955 ATGTGGCCAT
* * *
46866965 TGGTTTTTTGCGACTTGTGATAGTTGTCC
1 TGGTTTTTTGCGACTTGTGATAATGGTCA
* *
46866994 TGTTTTTTTG-GGC-TGTGATAATGGTCA
1 TGGTTTTTTGCGACTTGTGATAATGGTCA
46867021 TGGTTTT
1 TGGTTTT
46867028 CGGGTTTCTG
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
27 17 0.61
28 2 0.07
29 9 0.32
ACGTcount: A:0.11, C:0.10, G:0.29, T:0.51
Consensus pattern (29 bp):
TGGTTTTTTGCGACTTGTGATAATGGTCA
Found at i:46867921 original size:21 final size:21
Alignment explanation
Indices: 46867880--46867921 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
46867870 CATGGAAGTA
*
46867880 CTCCGATTTCCACTTTATTCT
1 CTCCGATTCCCACTTTATTCT
* *
46867901 CTCCGATTCCCATTTTTTTCT
1 CTCCGATTCCCACTTTATTCT
46867922 AACGTTTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.33, G:0.05, T:0.50
Consensus pattern (21 bp):
CTCCGATTCCCACTTTATTCT
Found at i:46868496 original size:17 final size:16
Alignment explanation
Indices: 46868446--46868496 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
46868436 CCCAGTTTGA
*
46868446 TTTTAAATT-TATAAT
1 TTTTATATTATATAAT
* *
46868461 ATTTTATATTATGTTAT
1 -TTTTATATTATATAAT
46868478 TTTATATATTATATAAT
1 TTT-TATATTATATAAT
46868495 TT
1 TT
46868497 ATAACACGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
16 11 0.39
17 17 0.61
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (16 bp):
TTTTATATTATATAAT
Found at i:46883754 original size:23 final size:23
Alignment explanation
Indices: 46883728--46883779 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
46883718 GGATTCAGAG
46883728 AGGCTATAAAGTAAACTTCTTCA
1 AGGCTATAAAGTAAACTTCTTCA
46883751 AGGCTATAAAGTAAACTTCTTCA
1 AGGCTATAAAGTAAACTTCTTCA
46883774 AGGCTA
1 AGGCTA
46883780 CCAGACTTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.29
Consensus pattern (23 bp):
AGGCTATAAAGTAAACTTCTTCA
Found at i:46889893 original size:17 final size:17
Alignment explanation
Indices: 46889868--46889902 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
46889858 TGCAGACATA
*
46889868 GTCCGCCATCCACTCAG
1 GTCCACCATCCACTCAG
46889885 GTCCACCATCCACTCAG
1 GTCCACCATCCACTCAG
46889902 G
1 G
46889903 ATTTAGGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.20, C:0.46, G:0.17, T:0.17
Consensus pattern (17 bp):
GTCCACCATCCACTCAG
Found at i:46897956 original size:53 final size:53
Alignment explanation
Indices: 46897876--46897982 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
46897866 CAGGTGACTC
46897876 AAGCTAATAGGCCATTGTTCCTATCTTGTTTAAGAGCTTAAAAGGACCAAAAT
1 AAGCTAATAGGCCATTGTTCCTATCTTGTTTAAGAGCTTAAAAGGACCAAAAT
46897929 AAGCTAATAGGCCATTGTTCCTATCTTGTTTAAGAGCTTAAAAGGACCAAAAT
1 AAGCTAATAGGCCATTGTTCCTATCTTGTTTAAGAGCTTAAAAGGACCAAAAT
46897982 A
1 A
46897983 CTTCGGAAGC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (53 bp):
AAGCTAATAGGCCATTGTTCCTATCTTGTTTAAGAGCTTAAAAGGACCAAAAT
Found at i:46904555 original size:5 final size:5
Alignment explanation
Indices: 46904547--46904586 Score: 80
Period size: 5 Copynumber: 8.0 Consensus size: 5
46904537 TGATATCATT
46904547 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA
46904587 AATTTTGGTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTTAA
Found at i:46905507 original size:97 final size:98
Alignment explanation
Indices: 46905389--46905584 Score: 385
Period size: 97 Copynumber: 2.0 Consensus size: 98
46905379 TAATAATAAT
46905389 ATCTTTTATCATTTAAAATTAAAAGATATATAATTTTTCTCATCTGATTAAGTTTTATATTAATT
1 ATCTTTTATCATTTAAAATTAAAAGATATATAATTTTTCTCATCTGATTAAGTTTTATATTAATT
46905454 CAATAAAAAAAACTTTAGCTTCAAACAAAAAAA
66 CAATAAAAAAAACTTTAGCTTCAAACAAAAAAA
46905487 ATCTTTTATC-TTTAAAATTAAAAGATATATAATTTTTCTCATCTGATTAAGTTTTATATTAATT
1 ATCTTTTATCATTTAAAATTAAAAGATATATAATTTTTCTCATCTGATTAAGTTTTATATTAATT
46905551 CAATAAAAAAAACTTTAGCTTCAAACAAAAAAA
66 CAATAAAAAAAACTTTAGCTTCAAACAAAAAAA
46905584 A
1 A
46905585 AATTATAATT
Statistics
Matches: 98, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
97 88 0.90
98 10 0.10
ACGTcount: A:0.46, C:0.10, G:0.04, T:0.40
Consensus pattern (98 bp):
ATCTTTTATCATTTAAAATTAAAAGATATATAATTTTTCTCATCTGATTAAGTTTTATATTAATT
CAATAAAAAAAACTTTAGCTTCAAACAAAAAAA
Found at i:46912429 original size:4 final size:4
Alignment explanation
Indices: 46912420--46912458 Score: 60
Period size: 4 Copynumber: 9.2 Consensus size: 4
46912410 TGTTAACCCC
46912420 ATAA ATAA ATAA ATAA ATAA ATAA ATAAA ATAAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA AT-AA AT-AA ATAA A
46912459 CTTTGCTGCA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 25 0.74
5 9 0.26
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
ATAA
Found at i:46913520 original size:17 final size:17
Alignment explanation
Indices: 46913487--46913519 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
46913477 AAAAAGTATT
*
46913487 TTAAAAATATTTTAAAA
1 TTAAAAATATTTAAAAA
46913504 TTAAAAA-ATTTAAAAA
1 TTAAAAATATTTAAAAA
46913520 AGTATTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TTAAAAATATTTAAAAA
Found at i:46927403 original size:21 final size:21
Alignment explanation
Indices: 46927378--46927437 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 21
46927368 ACAAATTTTC
46927378 GCTAAGGTCGCGACATTAAAA
1 GCTAAGGTCGCGACATTAAAA
* * **
46927399 GCTAAGAGTCGCAATATTGGAA
1 GCTAAG-GTCGCGACATTAAAA
*
46927421 GCTAAAGTCGCGACATT
1 GCTAAGGTCGCGACATT
46927438 CAACACTTAA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
21 15 0.48
22 16 0.52
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (21 bp):
GCTAAGGTCGCGACATTAAAA
Found at i:46928299 original size:114 final size:114
Alignment explanation
Indices: 46928099--46928318 Score: 395
Period size: 114 Copynumber: 1.9 Consensus size: 114
46928089 TAATTTATCC
*
46928099 CCTTCTCATTGAAATATGGTCGGCCATGTATGATAGGAAAAGAAGGAATTTGAAATCTATTTTTA
1 CCTTCTCATTGAAATATGGCCGGCCATGTATGATAGGAAAAGAAGGAATTTGAAATCTATTTTTA
*
46928164 GCAAACTTCACCCCTTACCTTCACTTATAAATACCATGCATAGTCATCT
66 GCAAACTTCACCCCTGACCTTCACTTATAAATACCATGCATAGTCATCT
*
46928213 CCTTCTCCTTGAAATATGGCCGGCCATGTATGATAGGAAAAGAAGGAATTTGAAATCTATTTTTA
1 CCTTCTCATTGAAATATGGCCGGCCATGTATGATAGGAAAAGAAGGAATTTGAAATCTATTTTTA
* *
46928278 GTAAACTTTACCCCTGACCTTCACTTATAAATACCATGCAT
66 GCAAACTTCACCCCTGACCTTCACTTATAAATACCATGCAT
46928319 CAATCCCTTA
Statistics
Matches: 101, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
114 101 1.00
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (114 bp):
CCTTCTCATTGAAATATGGCCGGCCATGTATGATAGGAAAAGAAGGAATTTGAAATCTATTTTTA
GCAAACTTCACCCCTGACCTTCACTTATAAATACCATGCATAGTCATCT
Found at i:46928732 original size:30 final size:25
Alignment explanation
Indices: 46928668--46928721 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
46928658 TCTAGGATGA
46928668 TTATGTTAATTCAATAAGATTTATT
1 TTATGTTAATTCAATAAGATTTATT
46928693 TTATGTTAATTCAATAAGATTTATT
1 TTATGTTAATTCAATAAGATTTATT
46928718 TTAT
1 TTAT
46928722 TCATGTTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (25 bp):
TTATGTTAATTCAATAAGATTTATT
Found at i:46930110 original size:15 final size:16
Alignment explanation
Indices: 46930092--46930132 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
46930082 TAATCACATT
46930092 AATATTAAATTA-ATA
1 AATATTAAATTAGATA
46930107 AATATT--ATCTAGATA
1 AATATTAAAT-TAGATA
46930122 AATATTAAATT
1 AATATTAAATT
46930133 TAATTTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
13 2 0.09
14 2 0.09
15 15 0.68
16 1 0.05
17 2 0.09
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (16 bp):
AATATTAAATTAGATA
Found at i:46930178 original size:23 final size:22
Alignment explanation
Indices: 46930116--46930182 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 22
46930106 AAATATTATC
*
46930116 TAGATAAATATTAAATTTAATT
1 TAGATAAATATTAAATTAAATT
* * *
46930138 TA-ATATCATATCATATTAATATT
1 TAGATA-AATATTAAATTAA-ATT
46930161 TAGATAAATATTAAATTAAATT
1 TAGATAAATATTAAATTAAATT
46930183 CATTAAAACA
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
21 3 0.09
22 14 0.40
23 15 0.43
24 3 0.09
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (22 bp):
TAGATAAATATTAAATTAAATT
Found at i:46939682 original size:18 final size:16
Alignment explanation
Indices: 46939654--46939710 Score: 62
Period size: 16 Copynumber: 3.4 Consensus size: 16
46939644 ATTTTGAAAC
*
46939654 AAAACAAAAAAATTTGG
1 AAAACATAAAAATTT-G
46939671 AAAA-AGTTAAAAATTTTG
1 AAAACA--TAAAAA-TTTG
46939689 AAAACATAAAAATTTG
1 AAAACATAAAAATTTG
46939705 AAAACA
1 AAAACA
46939711 GGGGTCACAC
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
16 11 0.31
17 10 0.29
18 10 0.29
19 4 0.11
ACGTcount: A:0.63, C:0.05, G:0.09, T:0.23
Consensus pattern (16 bp):
AAAACATAAAAATTTG
Found at i:46939698 original size:17 final size:17
Alignment explanation
Indices: 46939654--46939710 Score: 64
Period size: 18 Copynumber: 3.4 Consensus size: 17
46939644 ATTTTGAAAC
* *
46939654 AAAACAAAAAAATTTGG
1 AAAACATAAAAATTTTG
46939671 AAAA-AGTTAAAAATTTTG
1 AAAACA--TAAAAATTTTG
46939689 AAAACATAAAAA-TTTG
1 AAAACATAAAAATTTTG
46939705 AAAACA
1 AAAACA
46939711 GGGGTCACAC
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
16 11 0.31
17 10 0.29
18 13 0.37
19 1 0.03
ACGTcount: A:0.63, C:0.05, G:0.09, T:0.23
Consensus pattern (17 bp):
AAAACATAAAAATTTTG
Found at i:46941667 original size:21 final size:21
Alignment explanation
Indices: 46941643--46941684 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
46941633 GGCCTTGTTC
46941643 GTTATTCCTTTATCATTGTCG
1 GTTATTCCTTTATCATTGTCG
46941664 GTTATTCCTTTATCATTGTCG
1 GTTATTCCTTTATCATTGTCG
46941685 ACTGTTAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.19, G:0.14, T:0.52
Consensus pattern (21 bp):
GTTATTCCTTTATCATTGTCG
Found at i:46941850 original size:34 final size:33
Alignment explanation
Indices: 46941788--46941857 Score: 106
Period size: 34 Copynumber: 2.1 Consensus size: 33
46941778 CTTCTTTAAT
46941788 TATTTATCACTATTTTAATTTAATATATTTGGG
1 TATTTATCACTATTTTAATTTAATATATTTGGG
*
46941821 TATTTATCACTATTTT-TTGGTTAATATATTTGGG
1 TATTTATCACTATTTTAAT--TTAATATATTTGGG
46941855 TAT
1 TAT
46941858 ACTAGTACAG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 1 0.03
33 16 0.47
34 17 0.50
ACGTcount: A:0.27, C:0.06, G:0.11, T:0.56
Consensus pattern (33 bp):
TATTTATCACTATTTTAATTTAATATATTTGGG
Found at i:46966024 original size:29 final size:30
Alignment explanation
Indices: 46965977--46966044 Score: 102
Period size: 29 Copynumber: 2.3 Consensus size: 30
46965967 GTATTTTGTT
46965977 TAAATTAATCATGAATGTTAGATCAAAGA-
1 TAAATTAATCATGAATGTTAGATCAAAGAG
* **
46966006 TAAACTAATCATGTGTGTTAGATCAAAGAG
1 TAAATTAATCATGAATGTTAGATCAAAGAG
46966036 TAAATTAAT
1 TAAATTAAT
46966045 TTTTCTGTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 26 0.76
30 8 0.24
ACGTcount: A:0.46, C:0.07, G:0.15, T:0.32
Consensus pattern (30 bp):
TAAATTAATCATGAATGTTAGATCAAAGAG
Found at i:46975568 original size:38 final size:38
Alignment explanation
Indices: 46975517--46975597 Score: 135
Period size: 38 Copynumber: 2.1 Consensus size: 38
46975507 CTTCACATTC
* * *
46975517 TTTCATTAAGGACCCTATACTTCCTATTTGTAATATAA
1 TTTCATTAAGGACCCTATACTTCCTATCTATAACATAA
46975555 TTTCATTAAGGACCCTATACTTCCTATCTATAACATAA
1 TTTCATTAAGGACCCTATACTTCCTATCTATAACATAA
46975593 TTTCA
1 TTTCA
46975598 CAAAAAATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.32, C:0.21, G:0.06, T:0.41
Consensus pattern (38 bp):
TTTCATTAAGGACCCTATACTTCCTATCTATAACATAA
Found at i:46977595 original size:20 final size:19
Alignment explanation
Indices: 46977567--46977611 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
46977557 TTTAAATATT
46977567 TAAAAATATA-TTT-ATAAA
1 TAAAAATATATTTTAAT-AA
46977585 TAAAAATATATTTTAATAA
1 TAAAAATATATTTTAATAA
46977604 TAAAAATA
1 TAAAAATA
46977612 CGTCATTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.40
19 13 0.52
20 2 0.08
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAAAATATATTTTAATAA
Found at i:46977602 original size:16 final size:18
Alignment explanation
Indices: 46977567--46977611 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 18
46977557 TTTAAATATT
46977567 TAAAAATATATTTATAAA
1 TAAAAATATATTTATAAA
46977585 TAAAAATATATTT-TAATAA
1 TAAAAATATATTTAT-A-AA
46977604 TAAAAATA
1 TAAAAATA
46977612 CGTCATTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 1 0.04
18 14 0.56
19 10 0.40
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TAAAAATATATTTATAAA
Found at i:46978024 original size:6 final size:7
Alignment explanation
Indices: 46978007--46978031 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
46977997 AAAGTAAGGG
46978007 TTTTTTC
1 TTTTTTC
46978014 TTTTTTC
1 TTTTTTC
46978021 TTTTTTC
1 TTTTTTC
46978028 TTTT
1 TTTT
46978032 GGATTCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTC
Found at i:46983255 original size:30 final size:30
Alignment explanation
Indices: 46983197--46983261 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 30
46983187 TTAGTAAAGT
* *
46983197 TAAAATTTTACTTTAGTTTTCCTAAAAATAA
1 TAAAATTTTAATTTAATTTT-CTAAAAATAA
*
46983228 TAAAATTTTAATTTAATTCTT-TAAAAATTA
1 TAAAATTTTAATTTAATT-TTCTAAAAATAA
46983258 TAAA
1 TAAA
46983262 GATATAGGGT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
30 12 0.40
31 16 0.53
32 2 0.07
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (30 bp):
TAAAATTTTAATTTAATTTTCTAAAAATAA
Found at i:46990549 original size:37 final size:37
Alignment explanation
Indices: 46990499--46990572 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
46990489 TAATGTGCAC
46990499 CATACCTTGAGAGTAAAAGACGATTACAGGGCTTCGG
1 CATACCTTGAGAGTAAAAGACGATTACAGGGCTTCGG
* *
46990536 CATACCTTGAGAGTAAATGATGATTACAGGGCTTCGG
1 CATACCTTGAGAGTAAAAGACGATTACAGGGCTTCGG
46990573 ATCTGACTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (37 bp):
CATACCTTGAGAGTAAAAGACGATTACAGGGCTTCGG
Found at i:46991093 original size:30 final size:30
Alignment explanation
Indices: 46991057--46991117 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
46991047 ACTATCGGTG
46991057 ATGGGCATGCCTTTAGGGTTCTCAATTTAA
1 ATGGGCATGCCTTTAGGGTTCTCAATTTAA
46991087 ATGGGCATGCCTTTAGGGTTCTCAATTTAA
1 ATGGGCATGCCTTTAGGGTTCTCAATTTAA
46991117 A
1 A
46991118 CTTTTATTAT
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:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (30 bp):
ATGGGCATGCCTTTAGGGTTCTCAATTTAA
Found at i:46991972 original size:17 final size:17
Alignment explanation
Indices: 46991950--46991983 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
46991940 TCTCAGAGTA
46991950 AGAATAACATATATTTG
1 AGAATAACATATATTTG
46991967 AGAATAACATATATTTG
1 AGAATAACATATATTTG
46991984 GGAACTGTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.35
Consensus pattern (17 bp):
AGAATAACATATATTTG
Found at i:47016845 original size:6 final size:7
Alignment explanation
Indices: 47016819--47016844 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
47016809 TTTAAAATAC
47016819 TTTTTTA
1 TTTTTTA
47016826 TTTTTTA
1 TTTTTTA
47016833 TTTTTTA
1 TTTTTTA
47016840 TTTTT
1 TTTTT
47016845 AAAATAAATT
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:47016866 original size:33 final size:33
Alignment explanation
Indices: 47016805--47016867 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
47016795 AATTTTAAAA
** * *
47016805 TATTTTTAAAATACTTTTTTATTTTTTATTTTT
1 TATTTTTAAAATAAATTTTTAGTGTTTATTTTT
*
47016838 TATTTTTAAAATAAATTTTTGGTGTTTATT
1 TATTTTTAAAATAAATTTTTAGTGTTTATT
47016868 AAAAAATGGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.67
Consensus pattern (33 bp):
TATTTTTAAAATAAATTTTTAGTGTTTATTTTT
Found at i:47026403 original size:115 final size:116
Alignment explanation
Indices: 47026262--47026498 Score: 458
Period size: 115 Copynumber: 2.0 Consensus size: 116
47026252 TTAAATTTTA
47026262 AATATGGAATAATATATATATCAAAATATTAAATATATTTTGAAGTTAAATATTTTGAAAAGTTA
1 AATATGGAATAATATATATATCAAAATATTAAATATATTTTGAAGTTAAATATTTTGAAAAGTTA
47026327 TTTTAGTCGATTACTTGTACTCATCTTATAGTTGACCCTTATATAATATAT
66 TTTTAGTCGATTACTTGTACTCATCTTATAGTTGACCCTTATATAATATAT
47026378 AATATGGAAT-ATATATATATCAAAATATTAAATATATTTTGAAGTTAAATATTTTGAAAAGTTA
1 AATATGGAATAATATATATATCAAAATATTAAATATATTTTGAAGTTAAATATTTTGAAAAGTTA
47026442 TTTTAGTCGATTACTTGTACTCATCTTATAGTTGACCCTTATATAATATAT
66 TTTTAGTCGATTACTTGTACTCATCTTATAGTTGACCCTTATATAATATAT
47026493 ATATAT
1 A-ATAT
47026499 AACAGTGTCA
Statistics
Matches: 120, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
115 106 0.88
116 14 0.12
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.43
Consensus pattern (116 bp):
AATATGGAATAATATATATATCAAAATATTAAATATATTTTGAAGTTAAATATTTTGAAAAGTTA
TTTTAGTCGATTACTTGTACTCATCTTATAGTTGACCCTTATATAATATAT
Found at i:47026404 original size:23 final size:21
Alignment explanation
Indices: 47026366--47026414 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 21
47026356 AGTTGACCCT
* *
47026366 TATATAATATATAATATGGAA
1 TATATAATATAAAATATGAAA
*
47026387 TATATATATATCAAAATATTAAA
1 TATATA-ATAT-AAAATATGAAA
47026410 TATAT
1 TATAT
47026415 TTTGAAGTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 6 0.26
22 4 0.17
23 13 0.57
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (21 bp):
TATATAATATAAAATATGAAA
Found at i:47034726 original size:26 final size:26
Alignment explanation
Indices: 47034697--47034775 Score: 69
Period size: 26 Copynumber: 3.2 Consensus size: 26
47034687 AAATCATTGA
47034697 AATTATTAGCAAGTACTTATAGCTTT
1 AATTATTAGCAAGTACTTATAGCTTT
* * *
47034723 AATTAATA--AAAT-CTTA-A-TTTT
1 AATTATTAGCAAGTACTTATAGCTTT
* *
47034744 ACCTTATTAGCAAGTATTTATAGCTTT
1 A-ATTATTAGCAAGTACTTATAGCTTT
47034771 AATTA
1 AATTA
47034776 ATAAAATACA
Statistics
Matches: 38, Mismatches: 9, Indels: 12
0.64 0.15 0.20
Matches are distributed among these distances:
21 4 0.11
22 6 0.16
23 4 0.11
24 6 0.16
25 3 0.08
26 11 0.29
27 4 0.11
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (26 bp):
AATTATTAGCAAGTACTTATAGCTTT
Found at i:47034735 original size:44 final size:44
Alignment explanation
Indices: 47034687--47034787 Score: 121
Period size: 48 Copynumber: 2.2 Consensus size: 44
47034677 TTAAAAATTT
47034687 AAATCATTGAAATTATTAGCAAGTACTTATAGCTTTAATTAATA
1 AAATCATTGAAATTATTAGCAAGTACTTATAGCTTTAATTAATA
* ** *
47034731 AAATCTTAATTTTACCTTATTAGCAAGTATTTATAGCTTTAATTAATA
1 AAATC---A-TTGAAATTATTAGCAAGTACTTATAGCTTTAATTAATA
47034779 AAATACATT
1 AAAT-CATT
47034788 CATGATGCTT
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
44 5 0.10
45 2 0.04
46 1 0.02
47 1 0.02
48 38 0.79
49 1 0.02
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.42
Consensus pattern (44 bp):
AAATCATTGAAATTATTAGCAAGTACTTATAGCTTTAATTAATA
Found at i:47041965 original size:17 final size:17
Alignment explanation
Indices: 47041943--47041975 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
47041933 AATCATGGAC
47041943 ATTTAA-AAATAATTATT
1 ATTTAATAAA-AATTATT
47041960 ATTTAATAAAAATTAT
1 ATTTAATAAAAATTAT
47041976 GATAATTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTTAATAAAAATTATT
Found at i:47042017 original size:27 final size:26
Alignment explanation
Indices: 47041945--47042020 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 26
47041935 TCATGGACAT
*
47041945 TTAAAAATAATTATTATTTAATAAAAA
1 TTAAAAATAATTATAATTTAA-AAAAA
**
47041972 TT-ATGATAATTATATATTTAAAAATAA
1 TTAAAAATAATTATA-ATTTAAAAA-AA
*
47041999 TTAAAAATAATTAGAATTTAAA
1 TTAAAAATAATTATAATTTAAA
47042021 TAGAGTTATT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
26 12 0.30
27 19 0.47
28 9 0.22
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (26 bp):
TTAAAAATAATTATAATTTAAAAAAA
Found at i:47043419 original size:24 final size:24
Alignment explanation
Indices: 47043398--47043447 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
47043388 ACATATAAGT
47043398 ATATATGTATTCATGAAAATAAAA
1 ATATATGTATTCATGAAAATAAAA
* **
47043422 ATTTATGTATTTGTGAAAATAAAA
1 ATATATGTATTCATGAAAATAAAA
47043446 AT
1 AT
47043448 GTGTATAGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (24 bp):
ATATATGTATTCATGAAAATAAAA
Found at i:47046470 original size:3 final size:3
Alignment explanation
Indices: 47046449--47046493 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
47046439 NNNNNCTAAC
* * *
47046449 ATA ATA ACA ATA TTT ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
47046494 GAAAAAGATT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:47054127 original size:15 final size:14
Alignment explanation
Indices: 47054107--47054144 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
47054097 TAAAATCGTA
47054107 ATTTTAATATATTTT
1 ATTTTAAT-TATTTT
47054122 ATTTTAATTATTTT
1 ATTTTAATTATTTT
*
47054136 -TTATAATTA
1 ATTTTAATTA
47054145 GATTTAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 8 0.36
14 6 0.27
15 8 0.36
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
ATTTTAATTATTTT
Found at i:47054139 original size:16 final size:15
Alignment explanation
Indices: 47054107--47054135 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
47054097 TAAAATCGTA
47054107 ATTTTAATATATTTT
1 ATTTTAATATATTTT
47054122 ATTTTAAT-TATTTT
1 ATTTTAATATATTTT
47054136 TTATAATTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTAATATATTTT
Found at i:47054213 original size:15 final size:14
Alignment explanation
Indices: 47054181--47054211 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
47054171 AATTAACTAC
*
47054181 AAATAACATTAAAA
1 AAATAAAATTAAAA
47054195 AAATAAAATTAAAA
1 AAATAAAATTAAAA
47054209 AAA
1 AAA
47054212 ATGTACTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.19
Consensus pattern (14 bp):
AAATAAAATTAAAA
Found at i:47054374 original size:15 final size:14
Alignment explanation
Indices: 47054354--47054391 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
47054344 TAAAATCGTA
47054354 ATTTTAATATATTTT
1 ATTTTAAT-TATTTT
47054369 ATTTTAATTATTTT
1 ATTTTAATTATTTT
*
47054383 -TTATAATTA
1 ATTTTAATTA
47054392 GATTTAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 8 0.36
14 6 0.27
15 8 0.36
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
ATTTTAATTATTTT
Found at i:47054386 original size:16 final size:15
Alignment explanation
Indices: 47054354--47054382 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
47054344 TAAAATCGTA
47054354 ATTTTAATATATTTT
1 ATTTTAATATATTTT
47054369 ATTTTAAT-TATTTT
1 ATTTTAATATATTTT
47054383 TTATAATTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTAATATATTTT
Found at i:47054460 original size:15 final size:14
Alignment explanation
Indices: 47054428--47054458 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
47054418 AATTAACTAC
*
47054428 AAATAACATTAAAA
1 AAATAAAATTAAAA
47054442 AAATAAAATTAAAA
1 AAATAAAATTAAAA
47054456 AAA
1 AAA
47054459 ATGTACTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.19
Consensus pattern (14 bp):
AAATAAAATTAAAA
Found at i:47054508 original size:247 final size:248
Alignment explanation
Indices: 47054061--47054555 Score: 983
Period size: 247 Copynumber: 2.0 Consensus size: 248
47054051 AAATTAGTAT
47054061 GAAAAAATCGTAAATTTAATTGAATGAAATTAGTATTAAAATCGTAATTTTAATATATTTTATTT
1 GAAAAAATCGTAAATTTAATTGAATGAAATTAGTATTAAAATCGTAATTTTAATATATTTTATTT
47054126 TAATTATTTTTTATAATTAGATTTAAATTTGTGAAAGTATAGTAAAATTAACTACAAATAACATT
66 TAATTATTTTTTATAATTAGATTTAAATTTGTGAAAGTATAGTAAAATTAACTACAAATAACATT
47054191 AAAAAAATAAAATTAAAAAAAATGTACTGTTTTATTAGCCTTCTAGAAACCTTAGGCGCGTTCAA
131 AAAAAAATAAAATTAAAAAAAATGTACTGTTTTATTAGCCTTCTAGAAACCTTAGGCGCGTTCAA
47054256 ATATTGAAGGCTGTCACTAAGTCAGGCTATGGTCCATACTTTATTTATGAATC
196 ATATTGAAGGCTGTCACTAAGTCAGGCTATGGTCCATACTTTATTTATGAATC
47054309 GAAAAAATCG-AAATTTAATTGAATGAAATTAGTATTAAAATCGTAATTTTAATATATTTTATTT
1 GAAAAAATCGTAAATTTAATTGAATGAAATTAGTATTAAAATCGTAATTTTAATATATTTTATTT
47054373 TAATTATTTTTTATAATTAGATTTAAATTTGTGAAAGTATAGTAAAATTAACTACAAATAACATT
66 TAATTATTTTTTATAATTAGATTTAAATTTGTGAAAGTATAGTAAAATTAACTACAAATAACATT
47054438 AAAAAAATAAAATTAAAAAAAATGTACTGTTTTATTAGCCTTCTAGAAACCTTAGGCGCGTTCAA
131 AAAAAAATAAAATTAAAAAAAATGTACTGTTTTATTAGCCTTCTAGAAACCTTAGGCGCGTTCAA
47054503 ATATTGAAGGCTGTCACTAAGTCAGGCTATGGTCCATACTTTATTTATGAATC
196 ATATTGAAGGCTGTCACTAAGTCAGGCTATGGTCCATACTTTATTTATGAATC
47054556 TTTCATTTAA
Statistics
Matches: 247, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
247 237 0.96
248 10 0.04
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (248 bp):
GAAAAAATCGTAAATTTAATTGAATGAAATTAGTATTAAAATCGTAATTTTAATATATTTTATTT
TAATTATTTTTTATAATTAGATTTAAATTTGTGAAAGTATAGTAAAATTAACTACAAATAACATT
AAAAAAATAAAATTAAAAAAAATGTACTGTTTTATTAGCCTTCTAGAAACCTTAGGCGCGTTCAA
ATATTGAAGGCTGTCACTAAGTCAGGCTATGGTCCATACTTTATTTATGAATC
Found at i:47059146 original size:20 final size:22
Alignment explanation
Indices: 47059108--47059153 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
47059098 TCAAGTTGTA
47059108 TTTTAATCACTTAATGTTAT-G
1 TTTTAATCACTTAATGTTATCG
47059129 TTTTAATCACTT-ATGTTATCG
1 TTTTAATCACTTAATGTTATCG
47059150 TTTT
1 TTTT
47059154 GTTACGAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.24, C:0.11, G:0.09, T:0.57
Consensus pattern (22 bp):
TTTTAATCACTTAATGTTATCG
Found at i:47070026 original size:4 final size:4
Alignment explanation
Indices: 47070017--47070047 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
47070007 ACCATTTGCT
47070017 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
47070048 TTTTAAAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTC
Found at i:47075677 original size:301 final size:302
Alignment explanation
Indices: 47075341--47075939 Score: 1164
Period size: 301 Copynumber: 2.0 Consensus size: 302
47075331 ATGAATCAGG
* * *
47075341 TAGCTACTAATACCTAATCAAAAGCAGATAAAAAAAAAAAAAAACCAATACAAGTCATTGTTATA
1 TAGCTACTAAAACCCAATCAAAAGCAGAAAAAAAAAAAAAAAAACCAATACAAGTCATTGTTATA
47075406 GATGAGCATGAAAGTTATACCTTCCAACTTGGGGAACCAAACTAAATTCCCAATATGAACCCAAA
66 GATGAGCATGAAAGTTATACCTTCCAACTTGGGGAACCAAACTAAATTCCCAATATGAACCCAAA
47075471 TCCTGAAAAAAAGATACCAACAAAATACAAGACTTGGTTAAACTTGACAGTTCATCTGAACCTCC
131 TCCTGAAAAAAAGATACCAACAAAATACAAGACTTGGTTAAACTTGACAGTTCATCTGAACCTCC
47075536 ATTACCTGAAACAAATCAAAATAACAACGCTGCTACTGCTAAAAACCTTGGGGTGGGTCAAGAAA
196 ATTACCTGAAACAAATCAAAATAACAACGCTGCTACTGCTAAAAACCTTGGGGTGGGTCAAGAAA
47075601 TGTCAAAGATATTTCTCAATGTTTTCTGTAGCTGAGGACAGT
261 TGTCAAAGATATTTCTCAATGTTTTCTGTAGCTGAGGACAGT
47075643 TAGCTA-TAAAACCCAATCAAAAGCAGAAAAAAAAAAAAAAAAACCAATACAAGTCATTGTTATA
1 TAGCTACTAAAACCCAATCAAAAGCAGAAAAAAAAAAAAAAAAACCAATACAAGTCATTGTTATA
47075707 GATGAGCATGAAAGTTATACCTTCCAACTTGGGGAACCAAACTAAATTCCCAATATGAACCCAAA
66 GATGAGCATGAAAGTTATACCTTCCAACTTGGGGAACCAAACTAAATTCCCAATATGAACCCAAA
47075772 TCCTGAAAAAAAGATACCAACAAAATACAAGACTTGGTTAAACTTGACAGTTCATCTGAACCTCC
131 TCCTGAAAAAAAGATACCAACAAAATACAAGACTTGGTTAAACTTGACAGTTCATCTGAACCTCC
47075837 ATTACCTGAAACAAATCAAAATAACAACGCTGCTACTGCTAAAAACCTTGGGGTGGGTCAAGAAA
196 ATTACCTGAAACAAATCAAAATAACAACGCTGCTACTGCTAAAAACCTTGGGGTGGGTCAAGAAA
47075902 TGTCAAAGATATTTCTCAATGTTTTCTGTAGCTGAGGA
261 TGTCAAAGATATTTCTCAATGTTTTCTGTAGCTGAGGA
47075940 TCTGAAGGTT
Statistics
Matches: 294, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
301 288 0.98
302 6 0.02
ACGTcount: A:0.43, C:0.20, G:0.15, T:0.23
Consensus pattern (302 bp):
TAGCTACTAAAACCCAATCAAAAGCAGAAAAAAAAAAAAAAAAACCAATACAAGTCATTGTTATA
GATGAGCATGAAAGTTATACCTTCCAACTTGGGGAACCAAACTAAATTCCCAATATGAACCCAAA
TCCTGAAAAAAAGATACCAACAAAATACAAGACTTGGTTAAACTTGACAGTTCATCTGAACCTCC
ATTACCTGAAACAAATCAAAATAACAACGCTGCTACTGCTAAAAACCTTGGGGTGGGTCAAGAAA
TGTCAAAGATATTTCTCAATGTTTTCTGTAGCTGAGGACAGT
Found at i:47078835 original size:5 final size:5
Alignment explanation
Indices: 47078825--47078850 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
47078815 TAATTGCAAT
47078825 TTTTA TTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA T
47078851 GCTTCTATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:47079512 original size:15 final size:14
Alignment explanation
Indices: 47079480--47079526 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 14
47079470 AGAAAACATA
*
47079480 TTTTTACTTTTATTTT
1 TTTTTAATTTTA--TT
47079496 TTTTTAATTTTAGTT
1 TTTTTAATTTTA-TT
47079511 TTTTTAATTTTATT
1 TTTTTAATTTTATT
47079525 TT
1 TT
47079527 CTCTTTTCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 4 0.14
15 14 0.48
16 11 0.38
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (14 bp):
TTTTTAATTTTATT
Found at i:47081911 original size:151 final size:151
Alignment explanation
Indices: 47081637--47081944 Score: 589
Period size: 151 Copynumber: 2.0 Consensus size: 151
47081627 TAAAAATAAG
*
47081637 TTTAATATATGTATAGTTTATTTAAGTTATTGGGTTTATATTTATTAATAAATAATATTGTGCAT
1 TTTAATATATGTATAGTTTATTTAAGTTATTGGGTTTATATTTATTAATAAATAATATTATGCAT
47081702 AATTTAATAATGGTCAAAATGTGCTACTAGTCCCTGTACTTTCATGGACTTAGAATTTAATCTAT
66 AATTTAATAATGGTCAAAATGTGCTACTAGTCCCTGTACTTTCATGGACTTAGAATTTAATCTAT
47081767 GTACTTTTCATATTTCAACAT
131 GTACTTTTCATATTTCAACAT
*
47081788 TTTAATATATGTATAGTTTATTTAAGTTATTGGGTTTATATTTGTTAATAAATAATATTATGCAT
1 TTTAATATATGTATAGTTTATTTAAGTTATTGGGTTTATATTTATTAATAAATAATATTATGCAT
*
47081853 AATTTAATAATGGTCAAAATGTGCTACTAGTCCCTGTACTTTCATGGAGTTAGAATTTAATCTAT
66 AATTTAATAATGGTCAAAATGTGCTACTAGTCCCTGTACTTTCATGGACTTAGAATTTAATCTAT
47081918 GTACTTTTCATATTTCAACAT
131 GTACTTTTCATATTTCAACAT
47081939 TTTAAT
1 TTTAAT
47081945 TCAATAGTTA
Statistics
Matches: 154, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
151 154 1.00
ACGTcount: A:0.32, C:0.09, G:0.12, T:0.46
Consensus pattern (151 bp):
TTTAATATATGTATAGTTTATTTAAGTTATTGGGTTTATATTTATTAATAAATAATATTATGCAT
AATTTAATAATGGTCAAAATGTGCTACTAGTCCCTGTACTTTCATGGACTTAGAATTTAATCTAT
GTACTTTTCATATTTCAACAT
Found at i:47084221 original size:17 final size:17
Alignment explanation
Indices: 47084182--47084221 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
47084172 TGCACATTTT
*
47084182 TTTATATGTATATATTA
1 TTTATATGTATATAATA
* *
47084199 TATATATTTATATAATA
1 TTTATATGTATATAATA
47084216 TTTATA
1 TTTATA
47084222 CGCATTTGCG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
TTTATATGTATATAATA
Found at i:47094284 original size:17 final size:17
Alignment explanation
Indices: 47094245--47094284 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
47094235 TGCACATTTT
*
47094245 TTTATATGTATATATTA
1 TTTATATGTATATAATA
* *
47094262 TATATATTTATATAATA
1 TTTATATGTATATAATA
47094279 TTTATA
1 TTTATA
47094285 CGCATTTGCG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
TTTATATGTATATAATA
Found at i:47097141 original size:28 final size:28
Alignment explanation
Indices: 47097082--47097142 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 28
47097072 AAAGCCCTTT
* **
47097082 TTTTTTAATATTTATCGAAATGGGCTGG
1 TTTTTTAATATTTACCGAAATGGGCTCA
*
47097110 TTTTTTAATTATTTACCGGAATGGGC-CA
1 TTTTTTAA-TATTTACCGAAATGGGCTCA
47097138 TTTTT
1 TTTTT
47097143 CGCGAAATCG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 13 0.46
29 15 0.54
ACGTcount: A:0.23, C:0.10, G:0.18, T:0.49
Consensus pattern (28 bp):
TTTTTTAATATTTACCGAAATGGGCTCA
Found at i:47098069 original size:29 final size:29
Alignment explanation
Indices: 47098035--47098090 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
47098025 CGCGGAAAAT
47098035 GGCCCATTCCGGTAAATAATT-AAAAAACC
1 GGCCCATTCCGGTAAAT-ATTGAAAAAACC
*
47098064 GGCCCATTTCGGTAAATATTGAAAAAA
1 GGCCCATTCCGGTAAATATTGAAAAAA
47098091 AGGGCTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 3 0.12
29 22 0.88
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.23
Consensus pattern (29 bp):
GGCCCATTCCGGTAAATATTGAAAAAACC
Found at i:47098237 original size:26 final size:28
Alignment explanation
Indices: 47098208--47098265 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 28
47098198 ATATTAACAC
*
47098208 TTTTT-TTTAATTTAGTA-TT-TAAATT
1 TTTTTGTTTAATTTAGTACTTGTAAAAT
* *
47098233 TTTTTGTTTGATTTGGTACTTGTAAAAT
1 TTTTTGTTTAATTTAGTACTTGTAAAAT
47098261 TTTTT
1 TTTTT
47098266 ACAAATTACC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 5 0.19
26 10 0.37
27 2 0.07
28 10 0.37
ACGTcount: A:0.22, C:0.02, G:0.10, T:0.66
Consensus pattern (28 bp):
TTTTTGTTTAATTTAGTACTTGTAAAAT
Found at i:47098736 original size:59 final size:56
Alignment explanation
Indices: 47098625--47098766 Score: 171
Period size: 56 Copynumber: 2.5 Consensus size: 56
47098615 TTGAATCTAA
* * * *
47098625 AAAAAATTTAAATACAAAATTAAG-AAATATGACAAGTTTAAGTACCAAATCGAGCCT
1 AAAAAATTTAGATACCAAATTAAGAAAATATGACAAATTTAAATACCAAATCGAG--T
* * *
47098682 GAAAAAATTTAGGTACCAAATTAAGAAAATGTGTA-AAATTTAAATATCAAATCGAGT
1 -AAAAAATTTAGATACCAAATTAAGAAAATATG-ACAAATTTAAATACCAAATCGAGT
47098739 AAAAAATTTAGATACCAAATTAAGAAAA
1 AAAAAATTTAGATACCAAATTAAGAAAA
47098767 ATTATGGAAT
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
56 27 0.36
57 1 0.01
58 21 0.28
59 24 0.32
60 1 0.01
ACGTcount: A:0.54, C:0.09, G:0.11, T:0.25
Consensus pattern (56 bp):
AAAAAATTTAGATACCAAATTAAGAAAATATGACAAATTTAAATACCAAATCGAGT
Found at i:47098767 original size:25 final size:25
Alignment explanation
Indices: 47098683--47098767 Score: 62
Period size: 25 Copynumber: 3.2 Consensus size: 25
47098673 ATCGAGCCTG
*
47098683 AAAAAATTTAGGTACCAAATTAAGAA
1 AAAAAATTTAGATACCAAATTAAG-A
* * ** *
47098709 AATGTGTAAAATTTAAATATCAAATCGAGT
1 AA-----AAAATTTAGATACCAAATTAAGA
47098739 AAAAAATTTAGATACCAAATTAAGA
1 AAAAAATTTAGATACCAAATTAAGA
47098764 AAAA
1 AAAA
47098768 TTATGGAATG
Statistics
Matches: 43, Mismatches: 11, Indels: 11
0.66 0.17 0.17
Matches are distributed among these distances:
25 22 0.51
26 2 0.05
30 2 0.05
31 17 0.40
ACGTcount: A:0.56, C:0.07, G:0.11, T:0.26
Consensus pattern (25 bp):
AAAAAATTTAGATACCAAATTAAGA
Found at i:47099136 original size:15 final size:15
Alignment explanation
Indices: 47099116--47099144 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
47099106 TAACGTCACG
47099116 AGTTAATCGAATATC
1 AGTTAATCGAATATC
47099131 AGTTAATCGAATAT
1 AGTTAATCGAATAT
47099145 TATTATGGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.34
Consensus pattern (15 bp):
AGTTAATCGAATATC
Found at i:47111721 original size:3 final size:3
Alignment explanation
Indices: 47111715--47111740 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
47111705 GTGAAGGAGG
47111715 AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AG
47111741 GTGGTGGTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:47114543 original size:9 final size:9
Alignment explanation
Indices: 47114529--47114631 Score: 145
Period size: 9 Copynumber: 11.4 Consensus size: 9
47114519 TTTGGTTAAA
47114529 AATTAACCG
1 AATTAACCG
47114538 AATTAACCG
1 AATTAACCG
47114547 AATT-ACCTG
1 AATTAACC-G
47114556 AATTAACCG
1 AATTAACCG
47114565 AATTAACCG
1 AATTAACCG
* *
47114574 GATTACCCG
1 AATTAACCG
47114583 AATTAACCG
1 AATTAACCG
47114592 AATTAACCG
1 AATTAACCG
* *
47114601 GATTACCCG
1 AATTAACCG
47114610 AATTAACCG
1 AATTAACCG
*
47114619 AATTAACCA
1 AATTAACCG
47114628 AATT
1 AATT
47114632 GAATCACTAC
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
8 3 0.04
9 77 0.93
10 3 0.04
ACGTcount: A:0.41, C:0.23, G:0.12, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:47114567 original size:27 final size:27
Alignment explanation
Indices: 47114529--47114631 Score: 170
Period size: 27 Copynumber: 3.8 Consensus size: 27
47114519 TTTGGTTAAA
*
47114529 AATTAACCGAATTAACCGAATTACCTG
1 AATTAACCGAATTAACCGAATTACCCG
*
47114556 AATTAACCGAATTAACCGGATTACCCG
1 AATTAACCGAATTAACCGAATTACCCG
*
47114583 AATTAACCGAATTAACCGGATTACCCG
1 AATTAACCGAATTAACCGAATTACCCG
*
47114610 AATTAACCGAATTAACCAAATT
1 AATTAACCGAATTAACCGAATT
47114632 GAATCACTAC
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 72 1.00
ACGTcount: A:0.41, C:0.23, G:0.12, T:0.24
Consensus pattern (27 bp):
AATTAACCGAATTAACCGAATTACCCG
Found at i:47123205 original size:17 final size:17
Alignment explanation
Indices: 47123185--47123218 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
47123175 AAAAAAAATC
47123185 GAATTTCAATTTTATTT
1 GAATTTCAATTTTATTT
47123202 GAATTTCAATTTTATTT
1 GAATTTCAATTTTATTT
47123219 CTTAGCAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (17 bp):
GAATTTCAATTTTATTT
Found at i:47128867 original size:16 final size:15
Alignment explanation
Indices: 47128846--47128875 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
47128836 AATTTCTTTC
47128846 TAAAATTTTATATTAT
1 TAAAATTTTA-ATTAT
47128862 TAAAATTTTAATTA
1 TAAAATTTTAATTA
47128876 GAGAATCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TAAAATTTTAATTAT
Found at i:47130945 original size:17 final size:17
Alignment explanation
Indices: 47130902--47130951 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
47130892 ATGCCACTTC
*
47130902 TATAAATAATTTTAAAAT
1 TATAAA-AATTTCAAAAT
*
47130920 TATACAAATATTCAAAA-
1 TATAAAAAT-TTCAAAAT
47130937 TATAAAAA-TTCAAAA
1 TATAAAAATTTCAAAA
47130952 AAAATCATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 7 0.25
17 10 0.36
18 11 0.39
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (17 bp):
TATAAAAATTTCAAAAT
Found at i:47130949 original size:15 final size:18
Alignment explanation
Indices: 47130915--47130951 Score: 53
Period size: 15 Copynumber: 2.2 Consensus size: 18
47130905 AAATAATTTT
47130915 AAAATTATACAAATATTC
1 AAAATTATACAAATATTC
47130933 AAAA-TATA-AAA-ATTC
1 AAAATTATACAAATATTC
47130948 AAAA
1 AAAA
47130952 AAAATCATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 8 0.42
16 3 0.16
17 4 0.21
18 4 0.21
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (18 bp):
AAAATTATACAAATATTC
Found at i:47133178 original size:62 final size:59
Alignment explanation
Indices: 47133088--47133201 Score: 158
Period size: 58 Copynumber: 1.9 Consensus size: 59
47133078 AAATAAACCT
*
47133088 AAAAAAAGCTTAGGTGCCAAATTAGAAAAAAAAAAATTCAAGTTTAGATACCAAATTGGACAA
1 AAAAAAAGCTTAGGTACCAAATTAG---AAAAAAAA-TCAAGTTTAGATACCAAATTGGACAA
* *
47133151 AAAAAAAG-TTAGGTATCAAATTTGAAAAAAAATCAAGTTTAGATACCAAAT
1 AAAAAAAGCTTAGGTACCAAATTAGAAAAAAAATCAAGTTTAGATACCAAAT
47133202 GTTATATTAC
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
58 19 0.40
59 8 0.17
62 13 0.27
63 8 0.17
ACGTcount: A:0.54, C:0.10, G:0.13, T:0.23
Consensus pattern (59 bp):
AAAAAAAGCTTAGGTACCAAATTAGAAAAAAAATCAAGTTTAGATACCAAATTGGACAA
Found at i:47133188 original size:29 final size:29
Alignment explanation
Indices: 47133116--47133201 Score: 95
Period size: 28 Copynumber: 2.9 Consensus size: 29
47133106 AAATTAGAAA
47133116 AAAAAAAATTCAAGTTTAGATACCAAATTGG
1 AAAAAAAA-TCAAG-TTAGATACCAAATTGG
* * *
47133147 ACAAAAAAA--AAGTTAGGTATCAAATTTG
1 A-AAAAAAATCAAGTTAGATACCAAATTGG
47133175 AAAAAAAATCAAGTTTAGATACCAAAT
1 AAAAAAAATCAAG-TTAGATACCAAAT
47133202 GTTATATTAC
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
27 7 0.15
28 14 0.30
29 6 0.13
30 11 0.24
31 1 0.02
32 7 0.15
ACGTcount: A:0.55, C:0.09, G:0.12, T:0.24
Consensus pattern (29 bp):
AAAAAAAATCAAGTTAGATACCAAATTGG
Found at i:47135257 original size:17 final size:17
Alignment explanation
Indices: 47135231--47135265 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
47135221 TATTAATAGT
* *
47135231 TTTAATTAATATTTTTA
1 TTTAAATAATAATTTTA
47135248 TTTAAATAATAATTTTA
1 TTTAAATAATAATTTTA
47135265 T
1 T
47135266 AAAATACACG
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTAAATAATAATTTTA
Found at i:47136114 original size:14 final size:14
Alignment explanation
Indices: 47136066--47136113 Score: 57
Period size: 13 Copynumber: 3.6 Consensus size: 14
47136056 GTTTTCTTGT
*
47136066 TTTTCTTTTATTTA
1 TTTTATTTTATTTA
47136080 -TTTA-TTTATTTA
1 TTTTATTTTATTTA
47136092 TTTTATTTTATTT-
1 TTTTATTTTATTTA
*
47136105 TTTTCTTTT
1 TTTTATTTT
47136114 TTACAAATCC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
12 8 0.27
13 15 0.50
14 7 0.23
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTATTTTATTTA
Found at i:47139210 original size:54 final size:54
Alignment explanation
Indices: 47139129--47139236 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
47139119 TTAAAAATAA
47139129 AAAATATATATTATCAATAAAAACTCAAATTTTTTCCTTAATTAATTTTTTATT
1 AAAATATATATTATCAATAAAAACTCAAATTTTTTCCTTAATTAATTTTTTATT
47139183 AAAATATATATTATCAATAAAAACTCAAATTTTTTCCTTAATTAATTTTTTATT
1 AAAATATATATTATCAATAAAAACTCAAATTTTTTCCTTAATTAATTTTTTATT
47139237 CTTTTTTTTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (54 bp):
AAAATATATATTATCAATAAAAACTCAAATTTTTTCCTTAATTAATTTTTTATT
Found at i:47140252 original size:19 final size:20
Alignment explanation
Indices: 47140230--47140305 Score: 50
Period size: 20 Copynumber: 3.9 Consensus size: 20
47140220 TTATTTTTTA
47140230 TTTT-TACTTTTTTATTAAC
1 TTTTATACTTTTTTATTAAC
* *
47140249 TTTTGT-CTTTTTCT-TTAAA
1 TTTTATACTTTTT-TATTAAC
* * * *
47140268 TTTTTTTCTTTTTTTTTAAG
1 TTTTATACTTTTTTATTAAC
*
47140288 TTTTATATTTTTCTTATT
1 TTTTATACTTTT-TTATT
47140306 TTATTTTGTT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
19 20 0.44
20 21 0.47
21 4 0.09
ACGTcount: A:0.16, C:0.08, G:0.03, T:0.74
Consensus pattern (20 bp):
TTTTATACTTTTTTATTAAC
Found at i:47140260 original size:20 final size:20
Alignment explanation
Indices: 47140231--47140302 Score: 60
Period size: 19 Copynumber: 3.8 Consensus size: 20
47140221 TATTTTTTAT
*
47140231 TTTTA-CTTTTT-TATTAAC
1 TTTTATCTTTTTCTTTTAAC
* * *
47140249 TTTTGTCTTTTTCTTTAAAT
1 TTTTATCTTTTTCTTTTAAC
* *
47140269 TTTTTTCTTTTT-TTTTAAG
1 TTTTATCTTTTTCTTTTAAC
*
47140288 TTTTATATTTTTCTT
1 TTTTATCTTTTTCTT
47140303 ATTTTATTTT
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
18 4 0.10
19 21 0.50
20 17 0.40
ACGTcount: A:0.15, C:0.08, G:0.03, T:0.74
Consensus pattern (20 bp):
TTTTATCTTTTTCTTTTAAC
Found at i:47140317 original size:9 final size:9
Alignment explanation
Indices: 47140301--47140334 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
47140291 TATATTTTTC
47140301 TTATTTTAT
1 TTATTTTAT
47140310 TT-TGTTTAT
1 TTAT-TTTAT
47140319 TTATTTTAT
1 TTATTTTAT
47140328 TTATTTT
1 TTATTTT
47140335 TAAAAATTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 1 0.04
9 21 0.91
10 1 0.04
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (9 bp):
TTATTTTAT
Found at i:47147351 original size:38 final size:38
Alignment explanation
Indices: 47147309--47147385 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
47147299 ATAGTTTCCC
* *
47147309 CTTCAAAAGTGACATTTCTAAATTTGAGTTTGTTTCAA
1 CTTCAAAAGTAAAATTTCTAAATTTGAGTTTGTTTCAA
47147347 CTTCAAAAGTAAAATTTCTAAATTTGAGTTTGTTTCAA
1 CTTCAAAAGTAAAATTTCTAAATTTGAGTTTGTTTCAA
47147385 C
1 C
47147386 GATCGGACTG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.42
Consensus pattern (38 bp):
CTTCAAAAGTAAAATTTCTAAATTTGAGTTTGTTTCAA
Found at i:47150811 original size:13 final size:13
Alignment explanation
Indices: 47150793--47150818 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47150783 AAACAACAGA
47150793 TATGATAAAAAAC
1 TATGATAAAAAAC
47150806 TATGATAAAAAAC
1 TATGATAAAAAAC
47150819 AACAAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (13 bp):
TATGATAAAAAAC
Found at i:47152651 original size:16 final size:15
Alignment explanation
Indices: 47152630--47152659 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
47152620 AATTTCTTTC
47152630 TAAAATTTTATATTAT
1 TAAAATTTTA-ATTAT
47152646 TAAAATTTTAATTA
1 TAAAATTTTAATTA
47152660 GAGAATCCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TAAAATTTTAATTAT
Found at i:47157154 original size:12 final size:12
Alignment explanation
Indices: 47157137--47157201 Score: 112
Period size: 12 Copynumber: 5.4 Consensus size: 12
47157127 TTTTTCATCA
47157137 TCTTTCTTCTCT
1 TCTTTCTTCTCT
47157149 TCTTTCTTCTCT
1 TCTTTCTTCTCT
*
47157161 TCTTTCTTCTTT
1 TCTTTCTTCTCT
47157173 TCTTTCTTCTCT
1 TCTTTCTTCTCT
*
47157185 TCTTTCTTCTCG
1 TCTTTCTTCTCT
47157197 TCTTT
1 TCTTT
47157202 TATTTCTTCT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 50 1.00
ACGTcount: A:0.00, C:0.31, G:0.02, T:0.68
Consensus pattern (12 bp):
TCTTTCTTCTCT
Found at i:47163842 original size:21 final size:21
Alignment explanation
Indices: 47163801--47163844 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
47163791 CCTCAATTCC
*
47163801 TGCACTAAATTTTATGTAAGA
1 TGCACTAAATTTTATGCAAGA
47163822 TGCACTAAATTTT-TGACAAGA
1 TGCACTAAATTTTATG-CAAGA
47163843 TG
1 TG
47163845 ATCATGAGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.36
Consensus pattern (21 bp):
TGCACTAAATTTTATGCAAGA
Found at i:47169490 original size:18 final size:17
Alignment explanation
Indices: 47169452--47169490 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
47169442 ATTTCTTTCT
*
47169452 TTTATTCTTTGAGTTTC
1 TTTATTCTTTGAGTTTA
*
47169469 TTTATTCTTTTATGTTTA
1 TTTATTCTTTGA-GTTTA
47169487 TTTA
1 TTTA
47169491 CTTTATTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.15, C:0.08, G:0.08, T:0.69
Consensus pattern (17 bp):
TTTATTCTTTGAGTTTA
Found at i:47175587 original size:14 final size:14
Alignment explanation
Indices: 47175566--47175606 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
47175556 ACAAAAGACC
47175566 AAATTTAGGGTTTA
1 AAATTTAGGGTTTA
* *
47175580 ATATTTAGAGTTTA
1 AAATTTAGGGTTTA
*
47175594 AAATTTAAGGTTT
1 AAATTTAGGGTTT
47175607 GGGTTTAGGT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (14 bp):
AAATTTAGGGTTTA
Found at i:47181072 original size:8 final size:9
Alignment explanation
Indices: 47181051--47181184 Score: 55
Period size: 10 Copynumber: 14.4 Consensus size: 9
47181041 CATGTGTCAA
47181051 AAAAATTAT
1 AAAAATTAT
47181060 AAAAATTAT
1 AAAAATTAT
*
47181069 AAAATTTTAAT
1 AAAA-ATT-AT
47181080 AAAAA-TATT
1 AAAAATTA-T
*
47181089 AAAAATTACA
1 AAAAATTA-T
47181099 AAAAATCGTA-
1 AAAAAT--TAT
*
47181109 AAAAAATAT
1 AAAAATTAT
* *
47181118 AAAGATGTGT
1 AAAAAT-TAT
*
47181128 AAAATTTTAT
1 AAAA-ATTAT
47181138 AAAAATATAT
1 AAAAAT-TAT
*
47181148 AGAAA-TAT
1 AAAAATTAT
*
47181156 AGAAA--A-
1 AAAAATTAT
47181162 AAAAATTAT
1 AAAAATTAT
*
47181171 AAAATTTTAT
1 AAAA-ATTAT
47181181 AAAA
1 AAAA
47181185 TCACAAGAAA
Statistics
Matches: 96, Mismatches: 15, Indels: 27
0.70 0.11 0.20
Matches are distributed among these distances:
6 4 0.04
7 1 0.01
8 12 0.12
9 29 0.30
10 41 0.43
11 7 0.07
12 2 0.02
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:47181093 original size:29 final size:29
Alignment explanation
Indices: 47181051--47181145 Score: 81
Period size: 29 Copynumber: 3.3 Consensus size: 29
47181041 CATGTGTCAA
47181051 AAAAAT-TATAAAAATTATAAAATTTTAAT
1 AAAAATAT-TAAAAATTATAAAATTTTAAT
* **
47181080 AAAAATATTAAAAATTACAAAAAATCGTAA-
1 AAAAATATTAAAAATT--ATAAAATTTTAAT
* *
47181110 AAAAATA-TAAAGATGTGTAAAATTTT-AT
1 AAAAATATTAAAAAT-TATAAAATTTTAAT
47181138 AAAAATAT
1 AAAAATAT
47181146 ATAGAAATAT
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
27 1 0.02
28 13 0.25
29 20 0.38
30 9 0.17
31 9 0.17
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (29 bp):
AAAAATATTAAAAATTATAAAATTTTAAT
Found at i:47181148 original size:10 final size:10
Alignment explanation
Indices: 47181051--47181162 Score: 63
Period size: 10 Copynumber: 11.5 Consensus size: 10
47181041 CATGTGTCAA
47181051 AAAAAT-TAT
1 AAAAATATAT
47181060 AAAAAT-TAT
1 AAAAATATAT
* *
47181069 AAAATTTTAAT
1 AAAAATAT-AT
47181080 AAAAATAT-T
1 AAAAATATAT
*
47181089 AAAAAT-TAC
1 AAAAATATAT
*
47181098 AAAAA-ATCGT
1 AAAAATAT-AT
*
47181108 AAAAAAATAT
1 AAAAATATAT
* * *
47181118 AAAGATGTGT
1 AAAAATATAT
* *
47181128 AAAATTTTAT
1 AAAAATATAT
47181138 AAAAATATAT
1 AAAAATATAT
* *
47181148 AGAAATATAG
1 AAAAATATAT
47181158 AAAAA
1 AAAAA
47181163 AAAATTATAA
Statistics
Matches: 77, Mismatches: 20, Indels: 11
0.71 0.19 0.10
Matches are distributed among these distances:
8 1 0.01
9 27 0.35
10 39 0.51
11 10 0.13
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.29
Consensus pattern (10 bp):
AAAAATATAT
Found at i:47181455 original size:37 final size:36
Alignment explanation
Indices: 47181406--47181493 Score: 108
Period size: 37 Copynumber: 2.4 Consensus size: 36
47181396 TTTTGATGCA
*
47181406 TTTTATATTTTTTATGATTTTT-ATAAAATTTTACAATT
1 TTTTATA-TTTTTATAATTTTTAATAAAA-TTTA-AATT
*
47181444 TTTCTA-ATTTTTCTAATTTTTAATAAAATTTAAATT
1 TTT-TATATTTTTATAATTTTTAATAAAATTTAAATT
47181480 TTTTATATTTTTAT
1 TTTTATATTTTTAT
47181494 TAAAATTTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
35 2 0.05
36 14 0.32
37 16 0.36
38 10 0.23
39 2 0.05
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (36 bp):
TTTTATATTTTTATAATTTTTAATAAAATTTAAATT
Found at i:47181479 original size:27 final size:28
Alignment explanation
Indices: 47181448--47181521 Score: 89
Period size: 27 Copynumber: 2.6 Consensus size: 28
47181438 ACAATTTTTC
47181448 TAATTTTTCTAATTTTTAATAAAATTT-A
1 TAATTTTT-TAATTTTTAATAAAATTTAA
*
47181476 -AATTTTTTATATTTTTATTAAAATTTAA
1 TAATTTTTTA-ATTTTTAATAAAATTTAA
*
47181504 TAATTTTTATAACTTTTA
1 TAATTTTT-TAATTTTTA
47181522 TTGATTTTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
26 2 0.05
27 22 0.55
28 1 0.03
29 13 0.32
30 2 0.05
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (28 bp):
TAATTTTTTAATTTTTAATAAAATTTAA
Found at i:47181503 original size:37 final size:38
Alignment explanation
Indices: 47181428--47181506 Score: 92
Period size: 37 Copynumber: 2.1 Consensus size: 38
47181418 TATGATTTTT
**
47181428 ATAAAATTTTACAATTTTTCTAATTTTTCTAATTTTTA
1 ATAAAATTTTACAATTTTTCTAATTTTTCTAAAATTTA
*
47181466 ATAAAA-TTTA-AATTTTT-TATATTTTTATTAAAATTTA
1 ATAAAATTTTACAATTTTTCTA-ATTTTT-CTAAAATTTA
47181503 ATAA
1 ATAA
47181507 TTTTTATAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
35 2 0.06
36 13 0.36
37 15 0.42
38 6 0.17
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.56
Consensus pattern (38 bp):
ATAAAATTTTACAATTTTTCTAATTTTTCTAAAATTTA
Found at i:47181521 original size:19 final size:19
Alignment explanation
Indices: 47181414--47181532 Score: 75
Period size: 19 Copynumber: 6.4 Consensus size: 19
47181404 CATTTTATAT
*
47181414 TTTTTATGATTTTT-ATAAA
1 TTTTTATAATTTTTAAT-AA
* * *
47181433 ATTTTACAATTTTT-CTAA
1 TTTTTATAATTTTTAATAA
*
47181451 TTTTTCTAATTTTTAATAA
1 TTTTTATAATTTTTAATAA
** *
47181470 AATTTA-AATTTTTTAT-A
1 TTTTTATAATTTTTAATAA
**
47181487 TTTTTATTAAAATTTAATAA
1 TTTTTA-TAATTTTTAATAA
* * *
47181507 TTTTTATAACTTTTATTGA
1 TTTTTATAATTTTTAATAA
47181526 TTTTTAT
1 TTTTTAT
47181533 TTTTATAATT
Statistics
Matches: 75, Mismatches: 21, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
17 5 0.07
18 22 0.29
19 41 0.55
20 7 0.09
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (19 bp):
TTTTTATAATTTTTAATAA
Found at i:47181543 original size:9 final size:9
Alignment explanation
Indices: 47181406--47181543 Score: 79
Period size: 9 Copynumber: 15.2 Consensus size: 9
47181396 TTTTGATGCA
*
47181406 TTTTATATT
1 TTTTATAAT
*
47181415 TTTTATGAT
1 TTTTATAAT
*
47181424 TTTTATAAAA
1 TTTTAT-AAT
*
47181434 TTTTACAAT
1 TTTTATAAT
*
47181443 TTTTCTAAT
1 TTTTATAAT
*
47181452 TTTTCTAAT
1 TTTTATAAT
*
47181461 TTTTAATAAA
1 TTTT-ATAAT
*
47181471 ATTTA-AAT
1 TTTTATAAT
47181479 TTTT-TATAT
1 TTTTATA-AT
*
47181488 TTTTATTAAAA
1 TTTTA-T-AAT
*
47181499 TTTAATAAT
1 TTTTATAAT
*
47181508 TTTTATAAC
1 TTTTATAAT
*
47181517 TTTTATTGA-
1 TTTTA-TAAT
47181526 TTTT-T-AT
1 TTTTATAAT
47181533 TTTTATAAT
1 TTTTATAAT
47181542 TT
1 TT
47181544 CTTTTCTTGC
Statistics
Matches: 99, Mismatches: 19, Indels: 22
0.71 0.14 0.16
Matches are distributed among these distances:
6 1 0.01
7 5 0.05
8 7 0.07
9 64 0.65
10 15 0.15
11 6 0.06
12 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (9 bp):
TTTTATAAT
Found at i:47181930 original size:101 final size:100
Alignment explanation
Indices: 47181635--47181946 Score: 303
Period size: 101 Copynumber: 3.3 Consensus size: 100
47181625 AACTGCTAAT
* * *
47181635 GTACCCAATTGAGTGCAAAAAAAAAATAG-A--GGATTAATTTT-TTTTTTATTTTTTGAAAAAG
1 GTACCCAATTGAGTGCAAAAAAAAAAAAGCAGGGGCTTAATTTTATTTTTTATTTTTTGAAAAAA
* * * *
47181696 TCTAAGAGCCTTTTTGATGCATCTTAGTAGTTCAA
66 TTTGAGGGCCTTTTTGATGCATTTTAGTAGTTCAA
* ** *
47181731 GTACCCAATTGAGTG----AAAAAAAAAGCAGGAGCTT-A----ATTGCTT-TTTTTT-AAAAAT
1 GTACCCAATTGAGTGCAAAAAAAAAAAAGCAGGGGCTTAATTTTATTTTTTATTTTTTGAAAAAA
* * ** *
47181785 TTTGAGGGCTTTTTTGATACATTTTAAAAGTTTAA
66 TTTGAGGGCCTTTTTGATGCATTTTAGTAGTTCAA
* * *
47181820 ATATCCAATTGAATGCAAAAAAAAAAAAGCAGGGGCTTAATTTTTATTTTTTATTTTTTGAAAAA
1 GTACCCAATTGAGTGCAAAAAAAAAAAAGCAGGGGCTTAA-TTTTATTTTTTATTTTTTGAAAAA
* * *
47181885 ATTTGAGGGCCATTTAGATGCTTTTTAGTAGTTCAA
65 ATTTGAGGGCCTTTTTGATGCATTTTAGTAGTTCAA
*
47181921 GTACTCAATTGAGTGCAAAAAAAAAA
1 GTACCCAATTGAGTGCAAAAAAAAAA
47181947 GCAAGAGCTT
Statistics
Matches: 166, Mismatches: 34, Indels: 27
0.73 0.15 0.12
Matches are distributed among these distances:
89 43 0.26
90 6 0.04
91 4 0.02
92 9 0.05
93 19 0.11
94 2 0.01
95 3 0.02
96 15 0.09
99 5 0.03
100 6 0.04
101 54 0.33
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.37
Consensus pattern (100 bp):
GTACCCAATTGAGTGCAAAAAAAAAAAAGCAGGGGCTTAATTTTATTTTTTATTTTTTGAAAAAA
TTTGAGGGCCTTTTTGATGCATTTTAGTAGTTCAA
Found at i:47182009 original size:188 final size:182
Alignment explanation
Indices: 47181639--47182031 Score: 511
Period size: 188 Copynumber: 2.1 Consensus size: 182
47181629 GCTAATGTAC
* * *
47181639 CCAATTGAGTGCAAAAAAAAAATAGAGGATTAATTTTTTTTTTATTTTTTGAAAAAGTCTAAGAG
1 CCAATTGAATGCAAAAAAAAAAAAGAGGATTAATTTTTTTTTTATTTTTTGAAAAAATCTAAGAG
* * *
47181704 CCTTTTTGATGCATCTTAGTAGTTCAAGTACCCAATTGAGTGAAAAAAAAAGCAGGAGCTTAATT
66 CCATTTAGATGCATCTTAGTAGTTCAAGTACCCAATTGAGTGAAAAAAAAAGCAAGAGCTTAATT
* *
47181769 GCTTTTTTTTAAAAATTTTGAGGGCTTTTTTGATACATTTTAAAAGTTTAAATA
131 GCTTTTTTTT--AAATTTTGAGGGCCTTTCTGATACATTTTAAAAGTTTAAATA
* *
47181823 TCCAATTGAATGCAAAAAAAAAAAAGCAGGGGCTTAATTTTTATTTTTTATTTTTTGAAAAAATT
1 -CCAATTGAATGCAAAAAAAAAAAAG-A--GGATTAA-TTTT-TTTTTTATTTTTTGAAAAAATC
* * * * *
47181888 TGAGGGCCATTTAGATGCTTTTTAGTAGTTCAAGTACTCAATTGAGTGCAAAAAAAAAAGCAAGA
60 TAAGAGCCATTTAGATGCATCTTAGTAGTTCAAGTACCCAATTGAGTG--AAAAAAAAAGCAAGA
* *
47181953 GCTTCATTTC-TTTTTTT-AATTTTGAGGGCCTTTCTGATACATTTTAAAAGTTTAAATA
123 GCTTAATTGCTTTTTTTTAAATTTTGAGGGCCTTTCTGATACATTTTAAAAGTTTAAATA
*
47182011 CTCAAATGAATGCAAAAAAAA
1 C-CAATTGAATGCAAAAAAAA
47182032 GCGGAGACTT
Statistics
Matches: 182, Mismatches: 18, Indels: 13
0.85 0.08 0.06
Matches are distributed among these distances:
185 23 0.13
186 1 0.01
187 1 0.01
188 63 0.35
189 4 0.02
190 61 0.34
191 7 0.04
192 22 0.12
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.37
Consensus pattern (182 bp):
CCAATTGAATGCAAAAAAAAAAAAGAGGATTAATTTTTTTTTTATTTTTTGAAAAAATCTAAGAG
CCATTTAGATGCATCTTAGTAGTTCAAGTACCCAATTGAGTGAAAAAAAAAGCAAGAGCTTAATT
GCTTTTTTTTAAATTTTGAGGGCCTTTCTGATACATTTTAAAAGTTTAAATA
Found at i:47182486 original size:18 final size:19
Alignment explanation
Indices: 47182463--47182500 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
47182453 ATTAAGCCCT
*
47182463 TTTAAAAT-TTAAAAATTA
1 TTTAAAATCATAAAAATTA
47182481 TTTAAAATCATAAAAATTA
1 TTTAAAATCATAAAAATTA
47182500 T
1 T
47182501 AAACAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
TTTAAAATCATAAAAATTA
Found at i:47182513 original size:13 final size:12
Alignment explanation
Indices: 47182492--47182534 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 12
47182482 TTAAAATCAT
47182492 AAAAA-TTATAA
1 AAAAATTTATAA
47182503 ACAAAATTTATAA
1 A-AAAATTTATAA
*
47182516 AAAGAAGTTATAA
1 AAA-AATTTATAA
47182529 AAAAAT
1 AAAAAT
47182535 ATTGAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
11 1 0.04
12 8 0.30
13 18 0.67
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (12 bp):
AAAAATTTATAA
Found at i:47185040 original size:2 final size:2
Alignment explanation
Indices: 47185029--47185060 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
47185019 TCATTGATTA
47185029 AT AT -T 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
47185061 GAAGTAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47190644 original size:18 final size:18
Alignment explanation
Indices: 47190621--47190655 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
47190611 TTGTGTAAAC
*
47190621 AATTTGTATTTGAATTTA
1 AATTTGCATTTGAATTTA
*
47190639 AATTTGCATTTGCATTT
1 AATTTGCATTTGAATTT
47190656 TGGACCCTAA
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:0.29, C:0.06, G:0.11, T:0.54
Consensus pattern (18 bp):
AATTTGCATTTGAATTTA
Found at i:47190931 original size:18 final size:18
Alignment explanation
Indices: 47190908--47190948 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
47190898 ATAGGTTTTC
47190908 AATTAAATAAATTT-AATT
1 AATTAAA-AAATTTAAATT
*
47190926 AATTAAAAATTTTAAATT
1 AATTAAAAAATTTAAATT
47190944 AATTA
1 AATTA
47190949 CACCTTGAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AATTAAAAAATTTAAATT
Found at i:47197187 original size:7 final size:7
Alignment explanation
Indices: 47197175--47197203 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
47197165 GTATTTTTGT
47197175 TATTTTA
1 TATTTTA
47197182 TATTTTA
1 TATTTTA
47197189 TATTTTA
1 TATTTTA
47197196 TATTTTA
1 TATTTTA
47197203 T
1 T
47197204 GTAAAATCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TATTTTA
Found at i:47198722 original size:14 final size:14
Alignment explanation
Indices: 47198705--47198735 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
47198695 CTCAAAATAG
*
47198705 TTTCTGGAAAATGA
1 TTTCTGAAAAATGA
47198719 TTTCTGAAAAATGA
1 TTTCTGAAAAATGA
47198733 TTT
1 TTT
47198736 ATTTTTCTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.35, C:0.06, G:0.16, T:0.42
Consensus pattern (14 bp):
TTTCTGAAAAATGA
Found at i:47202313 original size:15 final size:16
Alignment explanation
Indices: 47202293--47202323 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
47202283 ACAACTCTTT
47202293 AAATAT-TATTATAAA
1 AAATATATATTATAAA
47202308 AAATATATATTATAAA
1 AAATATATATTATAAA
47202324 CCAACAAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AAATATATATTATAAA
Found at i:47207295 original size:6 final size:6
Alignment explanation
Indices: 47207278--47207316 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
47207268 CAGTTGTCAG
* *
47207278 ATATCT ACATCT ATATCT ATATCT ATATCT ATATAT ATA
1 ATATCT ATATCT ATATCT ATATCT ATATCT ATATCT ATA
47207317 ATATTATATA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (6 bp):
ATATCT
Found at i:47207826 original size:4 final size:4
Alignment explanation
Indices: 47207819--47207849 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
47207809 CATACACACA
*
47207819 CATC CATC CATC CATC CATC TATC CATC CAT
1 CATC CATC CATC CATC CATC CATC CATC CAT
47207850 ACATATATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.26, C:0.45, G:0.00, T:0.29
Consensus pattern (4 bp):
CATC
Found at i:47221760 original size:13 final size:13
Alignment explanation
Indices: 47221739--47221769 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
47221729 GCTTAGATCA
*
47221739 TCATCAAATAAAT
1 TCATAAAATAAAT
47221752 TCATAAAATAAAT
1 TCATAAAATAAAT
47221765 TCATA
1 TCATA
47221770 GTTGCTGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (13 bp):
TCATAAAATAAAT
Done.