Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 51 of 240
Found at i:17342025 original size:140 final size:140
Alignment explanation
Indices: 17341793--17342616 Score: 909
Period size: 141 Copynumber: 6.0 Consensus size: 140
17341783 CATAGTGTTG
** * *
17341793 GACAAAGCTGACTCTTATTGAAACGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGT
1 GACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGT
* *
17341858 TGGCCAAAGTGTATGTTGGCAAGTCTATCCTAACACTTAGGAAAGTGTCAGCCCAAAAGTGTAGG
66 TGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCAGCCCAAAAGTGTAGG
* * *
17341923 CGTAGTG-TTG
131 CTTAG-GACTA
* * * * *
17341933 GACAAAGTCGACTCTTATTTAAGCGTTGCCTTAAGAATGCATATCCTAACCCTTATACATAA-AG
1 GACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACA-AAGAG
* *
17341997 TTGACCAAAGCGTATGTCT-GCAAGTCTATCCCAACACTTAGGAAAATGT-----C----GT-T-
65 TTGGCCAAAGCGTATGT-TGGCAAGTCTATCCCAACACTTAGGAAAGTGTCAGCCCAAAAGTGTA
*
17342050 ---TTAGGACTG
129 GGCTTAGGACTA
* * *
17342059 GACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGACATGCGTACCCCAACCCTTATACAAAGAGT
1 GACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGT
* * * *
17342124 TGGCCAGAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGT-AGCCCCAAAAGTTTCG
66 TGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCAG-CCCAAAAGTGTAG
**
17342188 TATTAGGACTA
130 GCTTAGGACTA
* * * * * * *
17342199 CACAAAAACCAACTCTTATTTAAGCGTTGTCTTAGGCATACGTATCTCAACCCTTATGCAAAGAG
1 GAC-AAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAG
* ** *
17342264 TTGGCCAAAGCGTATGCTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCTCCCCAAAAATGTCA
65 TTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCAGCCCAAAAGTGT-A
*
17342329 -TCTTAGGACTA
129 GGCTTAGGACTA
* * *
17342340 CACAAAAGTCAACTCTTATTTAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAG
1 GAC-AAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAG
* * * *
17342405 TTGACCAAAGCGTATGTTGGCAAGTCTATCCCAACGCTTAGGAAAGTGTC-GCCCCAGAAGTGTC
65 TTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCAG-CCCAAAAGTGTA
* *
17342469 GTCTTAGGCCTA
129 GGCTTAGGACTA
*
17342481 GACAAAGCCAACTCTTA-TTAAGTGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGT
1 GACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGT
* * * * * * *
17342545 TGGTCAAAGCGTATGTTGATCAA-TTTATCTCAACATTTAGGAAAGTGTCACCCCAAAAGTGTCG
66 TGGCCAAAGCGTATGTTG-GCAAGTCTATCCCAACACTTAGGAAAGTGTCAGCCCAAAAGTGTAG
*
17342609 TCTTAGGA
130 GCTTAGGA
17342617 TTGTTTTGTT
Statistics
Matches: 587, Mismatches: 71, Indels: 53
0.83 0.10 0.07
Matches are distributed among these distances:
125 4 0.01
126 101 0.17
130 1 0.00
131 3 0.01
135 3 0.01
136 1 0.00
139 102 0.17
140 123 0.21
141 249 0.42
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (140 bp):
GACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGT
TGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCAGCCCAAAAGTGTAGG
CTTAGGACTA
Found at i:17342140 original size:266 final size:267
Alignment explanation
Indices: 17341667--17342593 Score: 1034
Period size: 266 Copynumber: 3.4 Consensus size: 267
17341657 CATACTATTG
*** ** *
17341667 GACAAAGCCAACAAATATTTAAGTATTGCCTTAGGCATGTATATACC-AACCCTTATACAAAGAG
1 GACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATAT-CCTAACCCTTATACAAAGAG
* * *** *
17341731 TTGGCCAAAGCATATGT-TGACAAGTCTATCCCAACACTTAGGAAAGTGTTGGCATAGTG-TTGG
65 TTGGCCAAAGCGTATGTCTG-CAAGTCTATCCCAACACTTAGGAAAGTGTCGTTTTAG-GACTGG
** * *
17341794 ACAAAGCTGACTCTTATTGAAACGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTT
128 ACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTT
* * * *
17341859 GGCCAAAGTGTATGTTGGCAAGTCTATCCTAACACTTAGGAAAGTGTCAG-CCCAAAAGTGTAGG
193 GGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCAGCCCCAAAAGTGTCGT
* * *
17341923 CGTAGTG-TTG
258 CTTAG-GACTA
* * * *
17341933 GACAAAGTCGACTCTTATTTAAGCGTTGCCTTAAGAATGCATATCCTAACCCTTATACATAA-AG
1 GACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCTAACCCTTATACA-AAGAG
* *
17341997 TTGACCAAAGCGTATGTCTGCAAGTCTATCCCAACACTTAGGAAAATGTCGTTTTAGGACTGGAC
65 TTGGCCAAAGCGTATGTCTGCAAGTCTATCCCAACACTTAGGAAAGTGTCGTTTTAGGACTGGAC
* * *
17342062 AAAGCCAACTCTTATTTAAGCGTTGCCTTAGACATGCGTACCCCAACCCTTATACAAAGAGTTGG
130 AAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTTGG
* * * *
17342127 CCAGAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGT-AGCCCCAAAAGTTTCGTAT
195 CCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCAGCCCCAAAAGTGTCGTCT
17342191 TAGGACTA
260 TAGGACTA
* * * * * *
17342199 CACAAAAACCAACTCTTATTTAAGCGTTGTCTTAGGCATACGTAT-CTCAACCCTTATGCAAAGA
1 GAC-AAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCT-AACCCTTATACAAAGA
17342263 GTTGGCCAAAGCGTATG-CTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCTCCCCAAAAATGT
64 GTTGGCCAAAGCGTATGTCT-GCAAGTCTATCCCAACACTTAGGAAAGTG--T---C------GT
** * *
17342327 CATCTTAGGACTACACAAAAGTCAACTCTTATTTAAGCGTTGCCTTAGGCATACATATCCCAACC
117 --T-TTAGGACTGGAC-AAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACC
* *
17342392 CTTATACAAAGAGTTGACCAAAGCGTATGTTGGCAAGTCTATCCCAACGCTTAGGAAAGTGTC-G
178 CTTATACAAAGAGTTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCAG
* *
17342456 CCCCAGAAGTGTCGTCTTAGGCCTA
243 CCCCAAAAGTGTCGTCTTAGGACTA
* *
17342481 GACAAAGCCAACTCTTA-TTAAGTGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGT
1 GACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCTAACCCTTATACAAAGAGT
* * * *
17342545 TGGTCAAAGCGTATGT-TGATCAA-TTTATCTCAACATTTAGGAAAGTGTC
66 TGGCCAAAGCGTATGTCTG--CAAGTCTATCCCAACACTTAGGAAAGTGTC
17342594 ACCCCAAAAG
Statistics
Matches: 556, Mismatches: 75, Indels: 51
0.82 0.11 0.07
Matches are distributed among these distances:
265 6 0.01
266 222 0.40
267 93 0.17
269 1 0.00
272 1 0.00
275 1 0.00
278 3 0.01
279 1 0.00
280 76 0.14
281 27 0.05
282 125 0.22
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (267 bp):
GACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCTAACCCTTATACAAAGAGT
TGGCCAAAGCGTATGTCTGCAAGTCTATCCCAACACTTAGGAAAGTGTCGTTTTAGGACTGGACA
AAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTTGGC
CAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCAGCCCCAAAAGTGTCGTCTT
AGGACTA
Found at i:17344154 original size:12 final size:13
Alignment explanation
Indices: 17344137--17344165 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
17344127 GCATTTTTTA
17344137 AAATTTT-AAAAT
1 AAATTTTGAAAAT
17344149 AAATTTTGAAAAT
1 AAATTTTGAAAAT
17344162 AAAT
1 AAAT
17344166 AAATTTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (13 bp):
AAATTTTGAAAAT
Found at i:17345485 original size:17 final size:16
Alignment explanation
Indices: 17345452--17345494 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
17345442 TCAATAATGT
*
17345452 TATTATTTTAATGTTA
1 TATTATTTTAATATTA
*
17345468 TTTTATTTATAATATTA
1 TATTATTT-TAATATTA
17345485 TATTATTTTA
1 TATTATTTTA
17345495 GTTTATAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (16 bp):
TATTATTTTAATATTA
Found at i:17345511 original size:23 final size:22
Alignment explanation
Indices: 17345465--17345511 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
17345455 TATTTTAATG
*
17345465 TTATTTTATTTATAATATTATA
1 TTATTTTATTTATAATAATATA
17345487 TTATTTTAGTTTATAA-AATACTA
1 TTATTTTA-TTTATAATAATA-TA
17345510 TT
1 TT
17345512 TAATATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (22 bp):
TTATTTTATTTATAATAATATA
Found at i:17345998 original size:21 final size:20
Alignment explanation
Indices: 17345964--17346003 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
17345954 TTTAAAGAAT
*
17345964 TAAAAAAATTAATAAAATTC
1 TAAAAAAATAAATAAAATTC
*
17345984 TAAAAAATATAAATATAATT
1 TAAAAAA-ATAAATAAAATT
17346004 TTTTTAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (20 bp):
TAAAAAAATAAATAAAATTC
Found at i:17346606 original size:15 final size:15
Alignment explanation
Indices: 17346588--17346653 Score: 73
Period size: 14 Copynumber: 4.5 Consensus size: 15
17346578 TTATTTAAAA
17346588 TAAAAATTTTAAT-T
1 TAAAAATTTTAATAT
* *
17346602 TTAAAATTTTAA-AA
1 TAAAAATTTTAATAT
17346616 TAAAAATTTATAATAT
1 TAAAAATTT-TAATAT
* *
17346632 TAAATATTTAAATAT
1 TAAAAATTTTAATAT
17346647 TAAAAAT
1 TAAAAAT
17346654 ATTTTTATTT
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
14 19 0.45
15 14 0.33
16 9 0.21
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TAAAAATTTTAATAT
Found at i:17346612 original size:28 final size:29
Alignment explanation
Indices: 17346579--17346653 Score: 100
Period size: 28 Copynumber: 2.6 Consensus size: 29
17346569 GAATTAAATT
*
17346579 TATTTAAAATAAAAATTT-TAATTTTAAA
1 TATTTAAAATAAAAATTTATAATATTAAA
17346607 -ATTTTAAAATAAAAATTTATAATATTAAA
1 TA-TTTAAAATAAAAATTTATAATATTAAA
17346636 TATTTAAATATTAAAAAT
1 TATTTAAA-A-TAAAAAT
17346654 ATTTTTATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
27 1 0.02
28 16 0.39
29 15 0.37
30 2 0.05
31 7 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (29 bp):
TATTTAAAATAAAAATTTATAATATTAAA
Found at i:17346879 original size:19 final size:18
Alignment explanation
Indices: 17346828--17346886 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 18
17346818 TAAAATGTAT
17346828 AATTGAAAATTTTA-AAA
1 AATTGAAAATTTTATAAA
*
17346845 AGTT-AAAATAATTTATAAA
1 AATTGAAAAT--TTTATAAA
*
17346864 AATTGAAAATTGTTATACA
1 AATTGAAAATT-TTATAAA
17346883 AATT
1 AATT
17346887 TTAAAAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
16 5 0.15
17 3 0.09
18 5 0.15
19 16 0.47
20 5 0.15
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (18 bp):
AATTGAAAATTTTATAAA
Found at i:17350099 original size:46 final size:46
Alignment explanation
Indices: 17350034--17350128 Score: 154
Period size: 46 Copynumber: 2.1 Consensus size: 46
17350024 CCAACCAACC
* *
17350034 ACACATTGGCCTCTATGCATTCTCAAGAGCAACAATAATAGAGACA
1 ACACATTAGCCCCTATGCATTCTCAAGAGCAACAATAATAGAGACA
* *
17350080 ACACATTAGCCCCTGTGCATTCTCAAGAGTAACAATAATAGAGACA
1 ACACATTAGCCCCTATGCATTCTCAAGAGCAACAATAATAGAGACA
17350126 ACA
1 ACA
17350129 ATGGGCAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.40, C:0.24, G:0.15, T:0.21
Consensus pattern (46 bp):
ACACATTAGCCCCTATGCATTCTCAAGAGCAACAATAATAGAGACA
Found at i:17352634 original size:167 final size:167
Alignment explanation
Indices: 17352355--17352662 Score: 499
Period size: 167 Copynumber: 1.8 Consensus size: 167
17352345 ATTTCATTAC
* * *
17352355 AAATGATATCTTAAGTAAGCAACTCAATACAATGCCATTTTTCATATCTAATCTAATCTCAACCC
1 AAATGATATCCTAAGTAAGCAACTCAATACAATGCCATTCTTCATATCTAATCCAATCTCAACCC
* * * * *
17352420 TATTGTTGATGCGGACTCCCATTATATAAATTAATTCTTTAATATTCTCATATTTCTTAAATTGT
66 TATTGTTAATACAGACTCCCATTATAAAAATTAATTCTTTAATATTCTCACATTTCTTAAATTGT
17352485 AAATTTCACATGCTTTATATTATCCGATGAACACTGT
131 AAATTTCACATGCTTTATATTATCCGATGAACACTGT
*
17352522 AAATGATATCCTAAGTAAGCAACTCAATACAATGCCCTTCTTCATATCTAATCCAATCTCAACCC
1 AAATGATATCCTAAGTAAGCAACTCAATACAATGCCATTCTTCATATCTAATCCAATCTCAACCC
* * * *
17352587 TATTGTTAATACAGACTCTCATTATAAAAATTAATTCTTTCATATTCTCCCATTTCTTAACTTGT
66 TATTGTTAATACAGACTCCCATTATAAAAATTAATTCTTTAATATTCTCACATTTCTTAAATTGT
17352652 AAATTTCACAT
131 AAATTTCACAT
17352663 TTCACATAAT
Statistics
Matches: 128, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
167 128 1.00
ACGTcount: A:0.34, C:0.21, G:0.07, T:0.38
Consensus pattern (167 bp):
AAATGATATCCTAAGTAAGCAACTCAATACAATGCCATTCTTCATATCTAATCCAATCTCAACCC
TATTGTTAATACAGACTCCCATTATAAAAATTAATTCTTTAATATTCTCACATTTCTTAAATTGT
AAATTTCACATGCTTTATATTATCCGATGAACACTGT
Found at i:17358234 original size:42 final size:42
Alignment explanation
Indices: 17358171--17358254 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
17358161 ACCTCAAGAA
* *
17358171 ATCCGGCAAGCCAGCGATCAGCATTTTCCACCAACTCATTAC
1 ATCCGGCAACCCAGCGATCAGCATTTCCCACCAACTCATTAC
* * * *
17358213 ATCCGGCAACCCAGCGGTCAGCGTTTCCCACCCACTCGTTAC
1 ATCCGGCAACCCAGCGATCAGCATTTCCCACCAACTCATTAC
17358255 GATGCATGGC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.24, C:0.39, G:0.17, T:0.20
Consensus pattern (42 bp):
ATCCGGCAACCCAGCGATCAGCATTTCCCACCAACTCATTAC
Found at i:17361926 original size:55 final size:56
Alignment explanation
Indices: 17361827--17361937 Score: 152
Period size: 55 Copynumber: 2.0 Consensus size: 56
17361817 GGTGGAGATG
* * *
17361827 TTAGAAATTAGAAAAAAAAAAGGACAAATTTTATCAGATTAATTCTTAAGTCTGGT
1 TTAGAAATTAGAAAAAAAAAAGGACAAATTTGATCAGATGAATTCATAAGTCTGGT
* * * *
17361883 TTAGAAATTAG-AAAAAGAAAGGACAAGTTTGATGAGATGAATTCATAAGTGTGGT
1 TTAGAAATTAGAAAAAAAAAAGGACAAATTTGATCAGATGAATTCATAAGTCTGGT
17361938 AAATATAATT
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
55 37 0.77
56 11 0.23
ACGTcount: A:0.45, C:0.05, G:0.20, T:0.30
Consensus pattern (56 bp):
TTAGAAATTAGAAAAAAAAAAGGACAAATTTGATCAGATGAATTCATAAGTCTGGT
Found at i:17362304 original size:13 final size:13
Alignment explanation
Indices: 17362286--17362310 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17362276 TAATATTAAT
17362286 TTAACCTATAAAC
1 TTAACCTATAAAC
17362299 TTAACCTATAAA
1 TTAACCTATAAA
17362311 TAAGTCTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (13 bp):
TTAACCTATAAAC
Found at i:17364451 original size:306 final size:301
Alignment explanation
Indices: 17363833--17364849 Score: 1494
Period size: 307 Copynumber: 3.3 Consensus size: 301
17363823 AAATGTACAT
* * * *
17363833 TTAAAAAATACTCTAAA-TTA-ATAAATTTCAAACATAATGTGCTAAAATAATGTAAAATAATAA
1 TTAAAAAACACACTAAATTTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAA
* *
17363896 AATTAGAAAATA-TGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCC
66 AATTAGAAAATAGT-ATATTTTTTAAAGTAATAAAATTCGG-G-AAAAAATACGAACAAAAGGCC
* * * *
17363960 GAAGTAAGGGTTTTTTAAC-AATTTTTTTAAAAAAAGAAATAATTAATACATTTCAAACATAATG
128 GAAATAAGGATTTTTT-ACTAA--ATTTAAAAAAAAGAAATAATTAATACATTTCAAACATAATG
* *
17364024 TACTAAAATAATTTAAAAAATAAAATATGAAAATAATATATTTTTATTGAAAGTAATAAAAATCG
190 TACTAAAATAATGTAAAAAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAAATCG
** * * *
17364089 ACAAAAAAAATACGAGTAAAGAGTCGAAATAAGGGTTTTTTTAAATTA
255 -GGAAAAAAATACGAGCAAAGGGCCGAAATAAGGGTTTTTTTAAATTA
17364137 TTTAAAAAACACACTAAATTTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
1 -TTAAAAAACACACTAAATTTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
**
17364202 AAATTAGAAAATAGTATATTTTTTAAAAGTAATAAAATTCGGGAAAAAATACGAACAAAAGGCTA
65 AAATTAGAAAATAGTATATTTTTT-AAAGTAATAAAATTCGGGAAAAAATACGAACAAAAGGCCG
*
17364267 AAATAAGGATTTTTTACTAAATTTAAAAAAAACAGAAATAATTAATACATTTTAAACATAATGTA
129 AAATAAGGATTTTTTACTAAATTT-AAAAAAA-AGAAATAATTAATACATTTCAAACATAATGTA
17364332 CTAAAATAATGTAAAAAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAAATCGGG
192 CTAAAATAATGTAAAAAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAAATCGGG
17364397 AAAAAAATACGAGCAAAGGGCCGAAATAAGGGTTTTTTTAAACTTA
257 AAAAAAATACGAGCAAAGGGCCGAAATAAGGGTTTTTTTAAA-TTA
17364443 TCTAAAAAAACACACTAAATTTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAAT
1 T-T-AAAAAACACACTAAATTTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAAT
***
17364508 AAAATTAGAAAATAGTATATTTTTTAAAGTAATAAAATT-TTAAAAAAATACGAAC-AAAGAGCC
64 AAAATTAGAAAATAGTATATTTTTTAAAGTAATAAAATTCGGGAAAAAATACGAACAAAAG-GCC
*
17364571 GAAATAA-GAGTTTTTTACTAAA-TTAAAAAAATAGAATTAATTAATACATTTCAAACATAATGT
128 GAAATAAGGA-TTTTTTACTAAATTTAAAAAAA-AGAAATAATTAATACATTTCAAACATAATGT
* * *
17364634 ACTAAAATAAAGTAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAATTTG
191 ACTAAAATAATGTAAAA-AATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAAATCG
* * *
17364699 GG-AAAAAATACGAGCAAAAGGCCGAAATAAGAGTTTTTTTTAATTTAA
255 GGAAAAAAATACGAGCAAAGGGCCGAAATAAG-GGTTTTTTTAAATT-A
*
17364747 TTAAAAAACACACTAAATTTATTTAAATTTCAATCATAATGTACTAAAATAATGTAAAATAATAA
1 TTAAAAAACACACTAAATTTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAA
*
17364812 AATTAGAAAATAGTCTATTTTTTAAAAGTAATAAAATT
66 AATTAGAAAATAGTATATTTTTT-AAAGTAATAAAATT
17364850 TGGATACAAT
Statistics
Matches: 660, Mismatches: 36, Indels: 34
0.90 0.05 0.05
Matches are distributed among these distances:
302 84 0.13
303 97 0.15
304 70 0.11
305 96 0.15
306 147 0.22
307 149 0.23
308 17 0.03
ACGTcount: A:0.53, C:0.07, G:0.09, T:0.31
Consensus pattern (301 bp):
TTAAAAAACACACTAAATTTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAA
AATTAGAAAATAGTATATTTTTTAAAGTAATAAAATTCGGGAAAAAATACGAACAAAAGGCCGAA
ATAAGGATTTTTTACTAAATTTAAAAAAAAGAAATAATTAATACATTTCAAACATAATGTACTAA
AATAATGTAAAAAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAAATCGGGAAAA
AAATACGAGCAAAGGGCCGAAATAAGGGTTTTTTTAAATTA
Found at i:17365064 original size:76 final size:76
Alignment explanation
Indices: 17364846--17365073 Score: 366
Period size: 76 Copynumber: 2.9 Consensus size: 76
17364836 AAAGTAATAA
*
17364846 AATTTGGATACAATTTAAGCATAAGCATAAGCTGAATAATTTTAATTATTTCAAATGAATTATAC
1 AATTTGGATACAATTTAAGCATAAGCATAAGCTGAATAATTTTAATTATTCCAAATGAATTATAC
*
17364911 TTTTTATAACTT
66 -TTTTACAACTT
17364923 AATTTGGATACAATTTAAGCATAAGCATAATCATAAGCTGAATAATTTTAATTATTCCAAATGAA
1 AATTTGGATACAATTTAAGCATAAG------CATAAGCTGAATAATTTTAATTATTCCAAATGAA
17364988 TTATACTTTTACAACTT
60 TTATACTTTTACAACTT
*
17365005 AATTTGGATATAATTTAAGCATAAGCATAAGCTGAATAATTTTAATTATTCCAAATGAATTATAC
1 AATTTGGATACAATTTAAGCATAAGCATAAGCTGAATAATTTTAATTATTCCAAATGAATTATAC
17365070 TTTT
66 TTTT
17365074 TATAACATTA
Statistics
Matches: 142, Mismatches: 3, Indels: 13
0.90 0.02 0.08
Matches are distributed among these distances:
76 44 0.31
77 25 0.18
82 34 0.24
83 39 0.27
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (76 bp):
AATTTGGATACAATTTAAGCATAAGCATAAGCTGAATAATTTTAATTATTCCAAATGAATTATAC
TTTTACAACTT
Found at i:17367454 original size:272 final size:271
Alignment explanation
Indices: 17366958--17367503 Score: 984
Period size: 272 Copynumber: 2.0 Consensus size: 271
17366948 CATGCTATAC
* *
17366958 CGTTTTATAGCTAGTACGCACTCATCTTTACTTTCGAATCTTTAGCCTATGAATAACTCCTCATG
1 CGTTTTATAGCTAGTACGCACTCATCTTTACTTTCGAATCTCTAGCCTATGAATAAATCCTCATG
17367023 ATTAGAATTTACGAACAGCCGATGAGGATGTACTATTTCAGGGTACTCCGGGAACTCAGCTACAT
66 ATTAGAATTTACGAACAGCCGATGAGGATGTACTATTTCAGGGTACTCCGGGAACTCAGCTACAT
* *
17367088 ACACTGCATCCGGGTCTATGAGCGACATGTGTGGCCCAGGATTATTGAATAACAAAATACGTTGC
131 ACACTGCATCCGGGTCTATGAGCGACATGTGTGGCCCAAGATTATTGAATAACAAAATACGTCGC
*
17367153 ATCTAATTCCCGATCGAAGAAGCGTTAATGTTTCCATCGTTATTCACATCTTCATCGTCAATATC
196 ATCTAATTCCCGATCGAAGAAGCGTTAATGTTTCCATCATTATTCACATCTTCATCGTCAATATC
17367218 ATCAGGTACAT
261 ATCAGGTACAT
*
17367229 CGTTTTATAGCCTAGTACGTACTCATCTTTACTTTCGAATCTCTAGCCTATGAATAAATCCTCAT
1 CGTTTTATAG-CTAGTACGCACTCATCTTTACTTTCGAATCTCTAGCCTATGAATAAATCCTCAT
*
17367294 GATTAGAATTTACGGACAGCCGATGAGGATGTACTATTTCAGGGTACTCCGGGAACTCAGCTACA
65 GATTAGAATTTACGAACAGCCGATGAGGATGTACTATTTCAGGGTACTCCGGGAACTCAGCTACA
* * *
17367359 TACGCTGCATCTGGGTCTATGAGCGACATGTGTGGCCCAAGATTATTGTATAACAAAATACGTCG
130 TACACTGCATCCGGGTCTATGAGCGACATGTGTGGCCCAAGATTATTGAATAACAAAATACGTCG
*
17367424 CATCTGATTCCCGATCGAAGAAGCGTTAATGTTTCCATCATTATTCACATCTTCATCGTCAATAT
195 CATCTAATTCCCGATCGAAGAAGCGTTAATGTTTCCATCATTATTCACATCTTCATCGTCAATAT
17367489 CATCAGGTACAT
260 CATCAGGTACAT
17367501 CGT
1 CGT
17367504 CCACATCGAG
Statistics
Matches: 263, Mismatches: 11, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
271 10 0.04
272 253 0.96
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (271 bp):
CGTTTTATAGCTAGTACGCACTCATCTTTACTTTCGAATCTCTAGCCTATGAATAAATCCTCATG
ATTAGAATTTACGAACAGCCGATGAGGATGTACTATTTCAGGGTACTCCGGGAACTCAGCTACAT
ACACTGCATCCGGGTCTATGAGCGACATGTGTGGCCCAAGATTATTGAATAACAAAATACGTCGC
ATCTAATTCCCGATCGAAGAAGCGTTAATGTTTCCATCATTATTCACATCTTCATCGTCAATATC
ATCAGGTACAT
Found at i:17368281 original size:37 final size:38
Alignment explanation
Indices: 17368232--17368324 Score: 104
Period size: 37 Copynumber: 2.5 Consensus size: 38
17368222 TCCTAATAAC
* *
17368232 TAACACAA-TAACAATAATAA-TA-GTTTTATACTCAAAA
1 TAACA-AACTAACAATAATAATTAGGGTTT-TACTAAAAA
17368269 TAACAAACTAACAATAATAATTAGGGTTTTACTAAAAA
1 TAACAAACTAACAATAATAATTAGGGTTTTACTAAAAA
* *
17368307 TAA-TAGCTAACAATAATA
1 TAACAAACTAACAATAATA
17368325 TAATGTAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
36 2 0.04
37 30 0.61
38 13 0.27
39 4 0.08
ACGTcount: A:0.54, C:0.12, G:0.05, T:0.29
Consensus pattern (38 bp):
TAACAAACTAACAATAATAATTAGGGTTTTACTAAAAA
Found at i:17368356 original size:23 final size:23
Alignment explanation
Indices: 17368313--17368357 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
17368303 AAAATAATAG
*
17368313 CTAACAATAATATAATGTAAAAA
1 CTAACAATAATATAATCTAAAAA
*
17368336 CTAACAATCATACTAA-CTAAAA
1 CTAACAATAATA-TAATCTAAAA
17368358 TAATAATTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.58, C:0.16, G:0.02, T:0.24
Consensus pattern (23 bp):
CTAACAATAATATAATCTAAAAA
Found at i:17368433 original size:41 final size:40
Alignment explanation
Indices: 17368335--17368449 Score: 119
Period size: 42 Copynumber: 2.8 Consensus size: 40
17368325 TAATGTAAAA
*
17368335 ACTAACAATCATACTAACTAA-AATAATAATTAGGGTTTTT
1 ACTAACAATAATACTAACTAATAATAAT-ATTAGGGTTTTT
* *
17368375 ACTAATC-CTAATAACTAACCATAATAATAATATTA-GTTTTTT
1 ACTAA-CAATAAT-ACTAA-C-TAATAATAATATTAGGGTTTTT
*
17368417 ACTAACAATAATACTAAGTAATAATAATTATTA
1 ACTAACAATAATACTAACTAATAATAA-TATTA
17368450 ATAACTAAAT
Statistics
Matches: 63, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
39 9 0.14
40 13 0.21
41 12 0.19
42 16 0.25
43 7 0.11
44 6 0.10
ACGTcount: A:0.47, C:0.12, G:0.04, T:0.37
Consensus pattern (40 bp):
ACTAACAATAATACTAACTAATAATAATATTAGGGTTTTT
Found at i:17368678 original size:3 final size:3
Alignment explanation
Indices: 17368672--17368718 Score: 53
Period size: 3 Copynumber: 16.3 Consensus size: 3
17368662 CTTCCTCCTC
* * *
17368672 CTT CTT CTT CTT CTT TTT CTT TTT CTT -TT -TT CTT CTT CTT CTC CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
17368718 C
1 C
17368719 AGCTGGACGG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
2 4 0.11
3 33 0.89
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
CTT
Found at i:17369324 original size:30 final size:30
Alignment explanation
Indices: 17369288--17369355 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
17369278 TAGTTAGGAA
*
17369288 TTAGTTACTTAC-GTATAATTAGCAGTAGGG
1 TTAGTTAC-TACTGTATAATTAGCAATAGGG
*
17369318 TTAGTTA-TACTTGTATAATTGGCAATAGGG
1 TTAGTTACTAC-TGTATAATTAGCAATAGGG
17369348 TTAGTTAC
1 TTAGTTAC
17369356 ACTCTTGTGT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
28 3 0.09
30 30 0.91
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (30 bp):
TTAGTTACTACTGTATAATTAGCAATAGGG
Found at i:17375737 original size:17 final size:17
Alignment explanation
Indices: 17375691--17375737 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
17375681 TATTTTTATT
17375691 TTTATAAATATTATGTTA
1 TTTATAAA-ATTATGTTA
**
17375709 TTTATATTATTATTGTTA
1 TTTATAAAATTA-TGTTA
17375727 -TTATAAAATTA
1 TTTATAAAATTA
17375738 AAAATATATA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.57
Consensus pattern (17 bp):
TTTATAAAATTATGTTA
Found at i:17375760 original size:17 final size:16
Alignment explanation
Indices: 17375728--17375790 Score: 63
Period size: 17 Copynumber: 3.7 Consensus size: 16
17375718 TTATTGTTAT
* *
17375728 TATAAAATTAAAAATA
1 TATAAATTTTAAAATA
17375744 TATACAATTTTAAAATA
1 TATA-AATTTTAAAATA
*
17375761 TATAAATTAATAAAATAA
1 TATAAATT-TTAAAAT-A
17375779 TAATAAATTTTA
1 T-ATAAATTTTA
17375791 CATCAAGAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
16 8 0.21
17 20 0.51
18 4 0.10
19 7 0.18
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (16 bp):
TATAAATTTTAAAATA
Found at i:17375944 original size:19 final size:19
Alignment explanation
Indices: 17375922--17375981 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 19
17375912 TATTATAATT
17375922 TTTATAAATTTTTATTTTA
1 TTTATAAATTTTTATTTTA
*
17375941 TTTATCAA--TTTA-TTTA
1 TTTATAAATTTTTATTTTA
* *
17375957 TTTTTAAGATTTTCTATTTTT
1 TTTATAA-ATTTT-TATTTTA
17375978 TTTA
1 TTTA
17375982 ATTTATATTG
Statistics
Matches: 31, Mismatches: 5, Indels: 8
0.70 0.11 0.18
Matches are distributed among these distances:
16 9 0.29
17 5 0.16
19 9 0.29
20 2 0.06
21 6 0.19
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (19 bp):
TTTATAAATTTTTATTTTA
Found at i:17375961 original size:37 final size:34
Alignment explanation
Indices: 17375919--17375987 Score: 86
Period size: 37 Copynumber: 1.9 Consensus size: 34
17375909 ATATATTATA
17375919 ATTTTTATAAATTTT-TATTTTATTTATCAATTTATTT
1 ATTTTTA-AAATTTTCTATTTT-TTT-T-AATTTATTT
*
17375956 ATTTTTAAGATTTTCTATTTTTTTTAATTTAT
1 ATTTTTAAAATTTTCTATTTTTTTTAATTTAT
17375988 ATTGCCACGT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 7 0.23
35 1 0.03
36 9 0.30
37 13 0.43
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.68
Consensus pattern (34 bp):
ATTTTTAAAATTTTCTATTTTTTTTAATTTATTT
Found at i:17378568 original size:19 final size:18
Alignment explanation
Indices: 17378544--17378583 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
17378534 ATAAAATCAA
*
17378544 ATAATAAATATGTAATTAT
1 ATAATAAATATAT-ATTAT
17378563 ATAATAAATATATATTAT
1 ATAATAAATATATATTAT
17378581 ATA
1 ATA
17378584 TATCATTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (18 bp):
ATAATAAATATATATTAT
Found at i:17385832 original size:25 final size:24
Alignment explanation
Indices: 17385803--17385850 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
17385793 TATAAAAAGA
* *
17385803 TTTATATTTCAATTTTAATTCTTTG
1 TTTATATTTAAAATTTAA-TCTTTG
17385828 TTTATATTTAAAATTTAATCTTT
1 TTTATATTTAAAATTTAATCTTT
17385851 ATATTTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.62
Consensus pattern (24 bp):
TTTATATTTAAAATTTAATCTTTG
Found at i:17389038 original size:9 final size:9
Alignment explanation
Indices: 17389024--17389054 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
17389014 GTTAAACGAA
17389024 TCGAGTTAT
1 TCGAGTTAT
*
17389033 TCGAGTTAA
1 TCGAGTTAT
17389042 TCGAGTTAT
1 TCGAGTTAT
17389051 TCGA
1 TCGA
17389055 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:17389125 original size:9 final size:9
Alignment explanation
Indices: 17389108--17389144 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
17389098 TAAGTTTTCG
17389108 AATTCGAAT
1 AATTCGAAT
*
17389117 AACTCGAAT
1 AATTCGAAT
*
17389126 AATTTGAAT
1 AATTCGAAT
17389135 AATTCGAAT
1 AATTCGAAT
17389144 A
1 A
17389145 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:17389390 original size:30 final size:31
Alignment explanation
Indices: 17389357--17389415 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
17389347 AACCTTTTAT
*
17389357 TTTTTCCC-AAAATTTTTACTCCC-TCCCAC
1 TTTTTCCCTAAAACTTTTACTCCCTTCCCAC
*
17389386 TTTTTCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTTCCCTAAAACTTTTACTCCCTTCCCA
17389416 TCCCACCTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 8 0.31
30 13 0.50
31 5 0.19
ACGTcount: A:0.20, C:0.36, G:0.00, T:0.44
Consensus pattern (31 bp):
TTTTTCCCTAAAACTTTTACTCCCTTCCCAC
Found at i:17393683 original size:29 final size:29
Alignment explanation
Indices: 17393629--17393684 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
17393619 TACTTAATAT
* * *
17393629 AATACATATACTTGAATTTTCCAAAAAAA
1 AATACAAATACTTGAATTATCAAAAAAAA
17393658 AATACAAATACTTGAATATAT-AAAAAA
1 AATACAAATACTTGAAT-TATCAAAAAA
17393685 TTAAACACTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 21 0.91
30 2 0.09
ACGTcount: A:0.57, C:0.11, G:0.04, T:0.29
Consensus pattern (29 bp):
AATACAAATACTTGAATTATCAAAAAAAA
Found at i:17394466 original size:46 final size:46
Alignment explanation
Indices: 17394376--17394684 Score: 381
Period size: 46 Copynumber: 7.2 Consensus size: 46
17394366 CACTTGTCCC
*
17394376 TGATCAGATAAGTGTAGCT-AGGCTACCACTTATCACTTTGTCACT
1 TGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTTTCACT
* *
17394421 TGATCAGATAAGTGTAGCTAAGGCTACCGCTTATCACTTTCTCACT
1 TGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTTTCACT
* *
17394467 TGATCAGATAAGTGTAGCTAAGGCTAACACTTATCACTTTGTCACT
1 TGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTTTCACT
17394513 TGATCAGATAA--GTA--T-A-G----CACTTATCACTTTTTCACT
1 TGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTTTCACT
* *
17394549 TGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTTTCTCT
1 TGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTTTCACT
17394595 TGATCAGATAA--GT-G-T-A-G----CACTTATCACTTTTTCACT
1 TGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTTTCACT
* * *
17394631 TGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
1 TGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTTTCACT
17394677 TGATCAGA
1 TGATCAGA
17394685 AGTACTCAAA
Statistics
Matches: 233, Mismatches: 10, Indels: 41
0.82 0.04 0.14
Matches are distributed among these distances:
36 58 0.25
38 5 0.02
39 1 0.00
40 4 0.02
41 4 0.02
42 4 0.02
43 1 0.00
44 5 0.02
45 19 0.08
46 132 0.57
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (46 bp):
TGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTTTCACT
Found at i:17394535 original size:36 final size:36
Alignment explanation
Indices: 17394494--17394648 Score: 184
Period size: 36 Copynumber: 4.0 Consensus size: 36
17394484 CTAAGGCTAA
*
17394494 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
17394530 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG
1 CACTTATCACTTTTTCACTTGATCAGATAA--GTA--T--AG
* *
17394572 CTACCACTTATCACTTTTTCTCTTGATCAGATAAGTGTAG
1 ----CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
*
17394612 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
17394648 C
1 C
17394649 TAAAGCTACC
Statistics
Matches: 105, Mismatches: 4, Indels: 20
0.81 0.03 0.16
Matches are distributed among these distances:
36 65 0.62
38 3 0.03
40 3 0.03
42 3 0.03
44 2 0.02
46 29 0.28
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (36 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
Found at i:17394587 original size:82 final size:82
Alignment explanation
Indices: 17394450--17394684 Score: 407
Period size: 82 Copynumber: 2.9 Consensus size: 82
17394440 AAGGCTACCG
* * * * *
17394450 CTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAACACTTATCACTTTGTCACTTG
1 CTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCTTG
17394515 ATCAGATAAGTATAGCA
66 ATCAGATAAGTATAGCA
*
17394532 CTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTTTCTCTTG
1 CTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCTTG
*
17394597 ATCAGATAAGTGTAGCA
66 ATCAGATAAGTATAGCA
17394614 CTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCTTG
1 CTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCTTG
17394679 ATCAGA
66 ATCAGA
17394685 AGTACTCAAA
Statistics
Matches: 146, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 146 1.00
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (82 bp):
CTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCTTG
ATCAGATAAGTATAGCA
Found at i:17394662 original size:128 final size:133
Alignment explanation
Indices: 17394362--17394684 Score: 392
Period size: 128 Copynumber: 2.5 Consensus size: 133
17394352 GTATGATCAA
* * *
17394362 TTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTTGAT
1 TTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTATCACTTGAT
* *
17394425 CAGATAAGTGTAGCTAAGGCTACCGCTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGG
66 CAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTCTCACTTGATCAGATAAG-GTAGCTAAGG
17394490 CTAACAC
130 ---ACAC
*
17394497 TTATCACTTTGTCACTTGATCAGATAA--GTA--T-AG----CACTTATCACTTTTTCACTTGAT
1 TTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTATCACTTGAT
* *
17394553 CAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTTTCTCTTGATCAGATAA-GT-G-T-A-G-
66 CAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTCTCACTTGATCAGATAAGGTAGCTAAGGA
17394612 CAC
131 CAC
* *
17394615 TTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCTTGA
1 TTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTTATCACTTGA
17394680 TCAGA
65 TCAGA
17394685 AGTACTCAAA
Statistics
Matches: 166, Mismatches: 10, Indels: 31
0.80 0.05 0.15
Matches are distributed among these distances:
118 29 0.17
120 3 0.02
122 2 0.01
123 1 0.01
124 3 0.02
125 1 0.01
126 2 0.01
128 96 0.58
132 1 0.01
133 1 0.01
135 10 0.06
136 5 0.03
137 12 0.07
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (133 bp):
TTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTATCACTTGAT
CAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTCTCACTTGATCAGATAAGGTAGCTAAGGA
CAC
Found at i:17400752 original size:14 final size:14
Alignment explanation
Indices: 17400733--17400761 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
17400723 ATAACTCTTC
17400733 AAAGGGTAAAGATA
1 AAAGGGTAAAGATA
17400747 AAAGGGTAAAGATA
1 AAAGGGTAAAGATA
17400761 A
1 A
17400762 CTTATGTTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.28, T:0.14
Consensus pattern (14 bp):
AAAGGGTAAAGATA
Found at i:17404637 original size:57 final size:57
Alignment explanation
Indices: 17404564--17404672 Score: 175
Period size: 57 Copynumber: 1.9 Consensus size: 57
17404554 GATCCTATCC
17404564 TGATACAGCCCTCCCGAAGAATATGTGTGAAAA-AGATCTAGCCCGGACGGGTGATCT
1 TGATACAGCCCTCCCGAAGAATATGTG-GAAAATAGATCTAGCCCGGACGGGTGATCT
* * *
17404621 TGATATAGCCCTCCCGAAGAATATGTGGAAAATGGATTTAGCCCGGACGGGT
1 TGATACAGCCCTCCCGAAGAATATGTGGAAAATAGATCTAGCCCGGACGGGT
17404673 AATCCGAATT
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
56 5 0.10
57 43 0.90
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (57 bp):
TGATACAGCCCTCCCGAAGAATATGTGGAAAATAGATCTAGCCCGGACGGGTGATCT
Found at i:17410532 original size:21 final size:21
Alignment explanation
Indices: 17410503--17410542 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
17410493 TTCCTCAAAC
17410503 TTTTATTCCCCAAAACTTTTTA
1 TTTTATT-CCCAAAACTTTTTA
*
17410525 TTTT-TTCCCTAAACTTTT
1 TTTTATTCCCAAAACTTTT
17410543 ACTTCTCACC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTTATTCCCAAAACTTTTTA
Found at i:17418227 original size:23 final size:22
Alignment explanation
Indices: 17418182--17418246 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
17418172 AAAATGATCC
*
17418182 TAATTATATAAAAAGTT-AAAAT
1 TAATT-TATAAAAAATTCAAAAT
*
17418204 TAATTTATAAAAATTTCAACAAT
1 TAATTTATAAAAAATTCAA-AAT
17418227 TAATTT-TAAAAAATTCAAAA
1 TAATTTATAAAAAATTCAAAA
17418247 AAAAATATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
21 12 0.31
22 18 0.46
23 9 0.23
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.37
Consensus pattern (22 bp):
TAATTTATAAAAAATTCAAAAT
Found at i:17424305 original size:27 final size:27
Alignment explanation
Indices: 17424269--17424363 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 27
17424259 ATTATTTATA
*
17424269 TATATTTGCATGAACTTGATTGTTACG
1 TATATTTGCATGAACTTGATTGTAACG
*
17424296 TATATTTGCACGAAC----TTGTAAC-
1 TATATTTGCATGAACTTGATTGTAACG
* *
17424318 -ATATTTGCATAAACTTGATTGTCACG
1 TATATTTGCATGAACTTGATTGTAACG
*
17424344 CATATTTGCATGAACTTGAT
1 TATATTTGCATGAACTTGAT
17424364 GGGCACGTAT
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
21 12 0.21
23 6 0.11
25 6 0.11
27 32 0.57
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (27 bp):
TATATTTGCATGAACTTGATTGTAACG
Found at i:17424349 original size:48 final size:48
Alignment explanation
Indices: 17424270--17424361 Score: 148
Period size: 48 Copynumber: 1.9 Consensus size: 48
17424260 TTATTTATAT
* * *
17424270 ATATTTGCATGAACTTGATTGTTACGTATATTTGCACGAACTTGTAAC
1 ATATTTGCATAAACTTGATTGTCACGCATATTTGCACGAACTTGTAAC
*
17424318 ATATTTGCATAAACTTGATTGTCACGCATATTTGCATGAACTTG
1 ATATTTGCATAAACTTGATTGTCACGCATATTTGCACGAACTTG
17424362 ATGGGCACGT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.39
Consensus pattern (48 bp):
ATATTTGCATAAACTTGATTGTCACGCATATTTGCACGAACTTGTAAC
Found at i:17424370 original size:27 final size:27
Alignment explanation
Indices: 17424317--17424370 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
17424307 GAACTTGTAA
* *
17424317 CATATTTGCATAAACTTGATTGTCACG
1 CATATTTGCATAAACTTGATGGGCACG
*
17424344 CATATTTGCATGAACTTGATGGGCACG
1 CATATTTGCATAAACTTGATGGGCACG
17424371 TATACTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (27 bp):
CATATTTGCATAAACTTGATGGGCACG
Found at i:17425153 original size:21 final size:22
Alignment explanation
Indices: 17425105--17425153 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
17425095 ATTAAATAAA
*
17425105 AAAATTATGTGCAACTATTATG
1 AAAATTACGTGCAACTATTATG
17425127 AAAATTACGTGCAAC-ATTA-G
1 AAAATTACGTGCAACTATTATG
17425147 AATAATT
1 AA-AATT
17425154 TTTTACCGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 3 0.12
21 8 0.32
22 14 0.56
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (22 bp):
AAAATTACGTGCAACTATTATG
Found at i:17426895 original size:19 final size:20
Alignment explanation
Indices: 17426873--17426911 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
17426863 CCCATTTTCG
17426873 TAATC-AACAAAAATATAAT
1 TAATCAAACAAAAATATAAT
*
17426892 TAATCAAACAAACATATAAT
1 TAATCAAACAAAAATATAAT
17426912 GTTCACTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.62, C:0.13, G:0.00, T:0.26
Consensus pattern (20 bp):
TAATCAAACAAAAATATAAT
Found at i:17427210 original size:6 final size:7
Alignment explanation
Indices: 17427190--17427216 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
17427180 AAATGTTTGT
17427190 AATAAAA
1 AATAAAA
17427197 AATAAAA
1 AATAAAA
17427204 AATAAAA
1 AATAAAA
17427211 AATAAA
1 AATAAA
17427217 TAGTACTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AATAAAA
Found at i:17427348 original size:22 final size:22
Alignment explanation
Indices: 17427320--17427396 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 22
17427310 TTTCTTTTAA
17427320 TTAGGAGATTAGATGCTAAAGT
1 TTAGGAGATTAGATGCTAAAGT
** * *
17427342 TTAGGAGATAATATTTTGGTTTAA--
1 TTAGGAGAT--TA-GAT-GCTAAAGT
17427366 TTAGGAGATTAGATGCTAAAGT
1 TTAGGAGATTAGATGCTAAAGT
17427388 TTAGGAGAT
1 TTAGGAGAT
17427397 AATATTTTGG
Statistics
Matches: 41, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
20 4 0.10
21 1 0.02
22 20 0.49
24 11 0.27
25 1 0.02
26 4 0.10
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.36
Consensus pattern (22 bp):
TTAGGAGATTAGATGCTAAAGT
Found at i:17427369 original size:46 final size:46
Alignment explanation
Indices: 17427315--17427410 Score: 192
Period size: 46 Copynumber: 2.1 Consensus size: 46
17427305 TCTCTTTTCT
17427315 TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG
1 TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG
17427361 TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG
1 TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG
17427407 TTTA
1 TTTA
17427411 TATCTGTGTA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 50 1.00
ACGTcount: A:0.34, C:0.02, G:0.23, T:0.41
Consensus pattern (46 bp):
TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG
Found at i:17431934 original size:45 final size:46
Alignment explanation
Indices: 17431884--17431977 Score: 172
Period size: 46 Copynumber: 2.1 Consensus size: 46
17431874 TCTCTTTTCT
17431884 TTTAATTAGGAGATTAGATGCT-AAGTTTAGGAGATAATATTTTGG
1 TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG
*
17431929 TTTAATTAGGAGATTAGATGTTAAAGTTTAGGAGATAATATTTTGG
1 TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG
17431975 TTT
1 TTT
17431978 CTATCTTTGT
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
45 21 0.45
46 26 0.55
ACGTcount: A:0.33, C:0.01, G:0.23, T:0.43
Consensus pattern (46 bp):
TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG
Found at i:17434052 original size:40 final size:41
Alignment explanation
Indices: 17433971--17434055 Score: 109
Period size: 40 Copynumber: 2.0 Consensus size: 41
17433961 CACACAACTG
17433971 TCCTTTGCATTTACCATTCTTGACATTACCAACCACCCTTTGC
1 TCCTTTGCATTTACCA-T-TTGACATTACCAACCACCCTTTGC
* * * *
17434014 TCCTTTGCCTTTACCA-TTGCCATTACCAACTACTCTTTGC
1 TCCTTTGCATTTACCATTTGACATTACCAACCACCCTTTGC
17434054 TC
1 TC
17434056 TCTCTCTCTC
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
40 23 0.61
43 15 0.39
ACGTcount: A:0.19, C:0.35, G:0.07, T:0.39
Consensus pattern (41 bp):
TCCTTTGCATTTACCATTTGACATTACCAACCACCCTTTGC
Found at i:17435920 original size:20 final size:20
Alignment explanation
Indices: 17435882--17435920 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
17435872 GACTCTTCAA
** *
17435882 ATGCATGGAAATTCTTGGAC
1 ATGCATGGAAAAACATGGAC
17435902 ATGCATGGAAAAACATGGA
1 ATGCATGGAAAAACATGGA
17435921 AAGAATTGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.38, C:0.13, G:0.26, T:0.23
Consensus pattern (20 bp):
ATGCATGGAAAAACATGGAC
Found at i:17436898 original size:121 final size:120
Alignment explanation
Indices: 17436708--17436952 Score: 386
Period size: 121 Copynumber: 2.0 Consensus size: 120
17436698 ATCTACTAAC
* * *
17436708 AAATTCGTTCTCAGACTTTTTTGATGAACTTCATTTTCTCTATCCATATTAAACTTTGAAAACAC
1 AAATTCGTTCTCAGACTTTCTTGATGAACCTCATTTTCTCTATCCATATTAAAATTTGAAAACAC
* *
17436773 CTCATCAATTTCAGTCTACAAAGAAT-TTGACTTAAAATTTGAGCTTTTCATCTTTT
66 CTCATCAATTTCAGCCTACAAAGAATGTGGA-TTAAAATTTGAGCTTTTCATC-TTT
17436829 AAATTCGTTC-CAAGACTTTCTTGATGAACCTCATTTTCTCTATCCATATTAAAATTTGAAAACA
1 AAATTCGTTCTC-AGACTTTCTTGATGAACCTCATTTTCTCTATCCATATTAAAATTTGAAAACA
* *
17436893 CCTCATCAATTTGAGCCTTCAAAGAATGTGGATTAAAATTTGAGCTTTTCATCTTT
65 CCTCATCAATTTCAGCCTACAAAGAATGTGGATTAAAATTTGAGCTTTTCATCTTT
17436949 AAAT
1 AAAT
17436953 ATTGTGTATA
Statistics
Matches: 115, Mismatches: 7, Indels: 5
0.91 0.06 0.04
Matches are distributed among these distances:
120 8 0.07
121 104 0.90
122 3 0.03
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.40
Consensus pattern (120 bp):
AAATTCGTTCTCAGACTTTCTTGATGAACCTCATTTTCTCTATCCATATTAAAATTTGAAAACAC
CTCATCAATTTCAGCCTACAAAGAATGTGGATTAAAATTTGAGCTTTTCATCTTT
Found at i:17444930 original size:30 final size:30
Alignment explanation
Indices: 17444896--17444952 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
17444886 GGTGGGATCG
*
17444896 GAAGGGAATAAAAGTTTTAGGGGAAAAGTC
1 GAAGGGAATAAAAATTTTAGGGGAAAAGTC
* *
17444926 GAAGGGAGTAAAAATTTTGGGGGAAAA
1 GAAGGGAATAAAAATTTTAGGGGAAAA
17444953 TAAAAAGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.44, C:0.02, G:0.35, T:0.19
Consensus pattern (30 bp):
GAAGGGAATAAAAATTTTAGGGGAAAAGTC
Found at i:17448448 original size:15 final size:15
Alignment explanation
Indices: 17448428--17448493 Score: 50
Period size: 12 Copynumber: 4.5 Consensus size: 15
17448418 ATAATAAAAC
17448428 AAAGAAATAAAAGAA
1 AAAGAAATAAAAGAA
17448443 AAAGAAAT---AGAA
1 AAAGAAATAAAAGAA
*
17448455 AAAGAAA-CAAAGAA
1 AAAGAAATAAAAGAA
* *
17448469 CAAACGAAACATGAAGAA
1 -AAA-GAAATA-AAAGAA
17448487 AAAGAAA
1 AAAGAAA
17448494 GAAAGGAGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 13
0.74 0.04 0.23
Matches are distributed among these distances:
12 11 0.26
14 4 0.10
15 11 0.26
16 8 0.19
17 3 0.07
18 5 0.12
ACGTcount: A:0.74, C:0.06, G:0.15, T:0.05
Consensus pattern (15 bp):
AAAGAAATAAAAGAA
Found at i:17448493 original size:16 final size:14
Alignment explanation
Indices: 17448437--17448498 Score: 56
Period size: 16 Copynumber: 4.3 Consensus size: 14
17448427 CAAAGAAATA
17448437 AAAGAAAAAG-AA-
1 AAAGAAAAAGAAAC
*
17448449 ATAGAAAAAGAAAC
1 AAAGAAAAAGAAAC
17448463 AAAGAACAAACGAAAC
1 AAAGAA-AAA-GAAAC
*
17448479 ATGAAGAAAAAGAAAG
1 A--AAGAAAAAGAAAC
17448495 AAAG
1 AAAG
17448499 GAGAAACTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
12 9 0.22
13 2 0.05
14 8 0.20
15 3 0.07
16 11 0.27
17 3 0.07
18 5 0.12
ACGTcount: A:0.73, C:0.06, G:0.18, T:0.03
Consensus pattern (14 bp):
AAAGAAAAAGAAAC
Found at i:17449433 original size:40 final size:38
Alignment explanation
Indices: 17449313--17449446 Score: 119
Period size: 37 Copynumber: 3.4 Consensus size: 38
17449303 ACTTCAAGTT
*
17449313 GATGAGACACTGGGTGTCAATTTATTACTTTGGATTAATTC
1 GATGAGACACTGGGTGTCAATTTATTACTTT--ATT-ATCC
* * * ** *
17449354 GATGAGGCACTAGGTGCCAATTTACTT-CGGT-TTAGCC
1 GATGAGACACTGGGTGTCAATTTA-TTACTTTATTATCC
*
17449391 GATGAGACATTGGGTGTCAATTTATTACTTTAAATTATCC
1 GATGAGACACTGGGTGTCAATTTATTACTTT--ATTATCC
*
17449431 GATGAGGCACTGGGTG
1 GATGAGACACTGGGTG
17449447 CCAAACTGGT
Statistics
Matches: 72, Mismatches: 16, Indels: 11
0.73 0.16 0.11
Matches are distributed among these distances:
36 2 0.03
37 24 0.33
38 2 0.03
40 19 0.26
41 23 0.32
42 2 0.03
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.34
Consensus pattern (38 bp):
GATGAGACACTGGGTGTCAATTTATTACTTTATTATCC
Found at i:17455295 original size:30 final size:29
Alignment explanation
Indices: 17455257--17455352 Score: 78
Period size: 30 Copynumber: 3.3 Consensus size: 29
17455247 TGAAATGAAG
17455257 ATGTTAATTACCTTATCTTCATTGTTTGC
1 ATGTTAATTACCTTATCTTCATTGTTTGC
*
17455286 ATGTGTAATT---TTATCTTTAACAATG-TT--
1 ATGT-TAATTACCTTATC-TT--CATTGTTTGC
17455313 ATAGTTAATTACCTTATCTTCATTGTTTGC
1 AT-GTTAATTACCTTATCTTCATTGTTTGC
*
17455343 AGGTGTAATT
1 ATGT-TAATT
17455353 TTATCTTTAA
Statistics
Matches: 52, Mismatches: 3, Indels: 23
0.67 0.04 0.29
Matches are distributed among these distances:
27 16 0.31
28 6 0.12
29 10 0.19
30 20 0.38
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.50
Consensus pattern (29 bp):
ATGTTAATTACCTTATCTTCATTGTTTGC
Found at i:17455300 original size:27 final size:27
Alignment explanation
Indices: 17455269--17455359 Score: 73
Period size: 27 Copynumber: 3.3 Consensus size: 27
17455259 GTTAATTACC
17455269 TTATCTTCATTGTTTGCATGTGTAATT
1 TTATCTTCATTGTTTGCATGTGTAATT
*
17455296 TTATCTTTAACAATG-TT--ATAGT-TAATT
1 TTATC-TT--CATTGTTTGCAT-GTGTAATT
*
17455323 ACCTTATCTTCATTGTTTGCAGGTGTAATT
1 ---TTATCTTCATTGTTTGCATGTGTAATT
17455353 TTATCTT
1 TTATCTT
17455360 TAACAATGTT
Statistics
Matches: 50, Mismatches: 3, Indels: 22
0.67 0.04 0.29
Matches are distributed among these distances:
27 23 0.46
28 6 0.12
29 6 0.12
30 15 0.30
ACGTcount: A:0.23, C:0.12, G:0.12, T:0.53
Consensus pattern (27 bp):
TTATCTTCATTGTTTGCATGTGTAATT
Found at i:17455328 original size:57 final size:57
Alignment explanation
Indices: 17455259--17455372 Score: 219
Period size: 57 Copynumber: 2.0 Consensus size: 57
17455249 AAATGAAGAT
*
17455259 GTTAATTACCTTATCTTCATTGTTTGCATGTGTAATTTTATCTTTAACAATGTTATA
1 GTTAATTACCTTATCTTCATTGTTTGCAGGTGTAATTTTATCTTTAACAATGTTATA
17455316 GTTAATTACCTTATCTTCATTGTTTGCAGGTGTAATTTTATCTTTAACAATGTTATA
1 GTTAATTACCTTATCTTCATTGTTTGCAGGTGTAATTTTATCTTTAACAATGTTATA
17455373 CAAAAAGTTT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.26, C:0.12, G:0.11, T:0.50
Consensus pattern (57 bp):
GTTAATTACCTTATCTTCATTGTTTGCAGGTGTAATTTTATCTTTAACAATGTTATA
Found at i:17457036 original size:22 final size:24
Alignment explanation
Indices: 17457009--17457066 Score: 66
Period size: 28 Copynumber: 2.3 Consensus size: 24
17456999 CAAAAGATCA
17457009 AAAACTTA-G-CCTTTTCCAGAAC
1 AAAACTTATGACCTTTTCCAGAAC
17457031 AAAACTTAAATGAAACCTTTTCCAGAAC
1 AAAACTT--ATG--ACCTTTTCCAGAAC
17457059 AAAACTTA
1 AAAACTTA
17457067 AATGAAACTA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
22 7 0.23
24 1 0.03
25 1 0.03
26 1 0.03
28 20 0.67
ACGTcount: A:0.45, C:0.22, G:0.07, T:0.26
Consensus pattern (24 bp):
AAAACTTATGACCTTTTCCAGAAC
Found at i:17457051 original size:28 final size:28
Alignment explanation
Indices: 17457018--17457074 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
17457008 AAAAACTTAG
17457018 CCTTTTCCAGAACAAAACTTAAATGAAA
1 CCTTTTCCAGAACAAAACTTAAATGAAA
17457046 CCTTTTCCAGAACAAAACTTAAATGAAA
1 CCTTTTCCAGAACAAAACTTAAATGAAA
17457074 C
1 C
17457075 TATCCCTAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.46, C:0.23, G:0.07, T:0.25
Consensus pattern (28 bp):
CCTTTTCCAGAACAAAACTTAAATGAAA
Found at i:17457274 original size:43 final size:43
Alignment explanation
Indices: 17457109--17457293 Score: 187
Period size: 43 Copynumber: 4.3 Consensus size: 43
17457099 TCAATGGGTT
* * * *
17457109 ATGTTCTTTAGCGGTGTTTGTGGGGAAAACGCTGC-TAAAAG-TT
1 ATGTTCTTTAGCGGCGTTTGTGGGGAAAGCGC--CATTAAAGATC
* **
17457152 ATGTTCTTTAGCTGCGTTTGTGGGGAAAGCGCCGCTAAAGATC
1 ATGTTCTTTAGCGGCGTTTGTGGGGAAAGCGCCATTAAAGATC
* * * * *
17457195 ATATTCTATAGCGACATTTGTGGGGAAAGCGTCATTAAAGATC
1 ATGTTCTTTAGCGGCGTTTGTGGGGAAAGCGCCATTAAAGATC
* *
17457238 ATGTTCTTTAGCGGTGTTTGTGGGGAAAGTGCCATTAAA-AGTC
1 ATGTTCTTTAGCGGCGTTTGTGGGGAAAGCGCCATTAAAGA-TC
*
17457281 ATGTTCTATAGCG
1 ATGTTCTTTAGCG
17457294 ACCTTTTACC
Statistics
Matches: 117, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
41 1 0.01
42 5 0.04
43 111 0.95
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (43 bp):
ATGTTCTTTAGCGGCGTTTGTGGGGAAAGCGCCATTAAAGATC
Found at i:17459374 original size:7 final size:7
Alignment explanation
Indices: 17459362--17459386 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
17459352 AGGACAGATT
17459362 TGGGAAG
1 TGGGAAG
17459369 TGGGAAG
1 TGGGAAG
17459376 TGGGAAG
1 TGGGAAG
17459383 TGGG
1 TGGG
17459387 TGGGGACGTC
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:0.24, C:0.00, G:0.60, T:0.16
Consensus pattern (7 bp):
TGGGAAG
Found at i:17461387 original size:28 final size:28
Alignment explanation
Indices: 17461347--17461408 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
17461337 ATTGGAAGTC
*
17461347 GAGCATGGATGAACCGAAGAGAGAAAGG
1 GAGCATAGATGAACCGAAGAGAGAAAGG
* *
17461375 GAGCATAGATGAACCGAAGAGGGAAATG
1 GAGCATAGATGAACCGAAGAGAGAAAGG
17461403 GAGCAT
1 GAGCAT
17461409 GGAACCAAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.42, C:0.11, G:0.37, T:0.10
Consensus pattern (28 bp):
GAGCATAGATGAACCGAAGAGAGAAAGG
Found at i:17462597 original size:19 final size:20
Alignment explanation
Indices: 17462562--17462600 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
17462552 ACATGTATGA
17462562 TAATAATAAACATATGTATT
1 TAATAATAAACATATGTATT
17462582 TAATAATAAA-ATATGTATT
1 TAATAATAAACATATGTATT
17462601 GTTTATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (20 bp):
TAATAATAAACATATGTATT
Found at i:17462671 original size:14 final size:14
Alignment explanation
Indices: 17462652--17462700 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
17462642 TTAAAACAAT
*
17462652 AAAGTAAAGAAAAG
1 AAAGTAAAGTAAAG
17462666 AAAGTAAAGTAAAG
1 AAAGTAAAGTAAAG
17462680 AAAAG-AAAGTAAAG
1 -AAAGTAAAGTAAAG
17462694 AAA-TAAA
1 AAAGTAAA
17462701 AACGAAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
13 6 0.19
14 22 0.69
15 4 0.12
ACGTcount: A:0.71, C:0.00, G:0.18, T:0.10
Consensus pattern (14 bp):
AAAGTAAAGTAAAG
Found at i:17462675 original size:19 final size:19
Alignment explanation
Indices: 17462651--17462693 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
17462641 ATTAAAACAA
17462651 TAAAGTAAAGAAAAGAAAG
1 TAAAGTAAAGAAAAGAAAG
17462670 TAAAGTAAAGAAAAGAAAG
1 TAAAGTAAAGAAAAGAAAG
17462689 TAAAG
1 TAAAG
17462694 AAATAAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.21, T:0.12
Consensus pattern (19 bp):
TAAAGTAAAGAAAAGAAAG
Found at i:17462702 original size:19 final size:19
Alignment explanation
Indices: 17462651--17462707 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
17462641 ATTAAAACAA
*
17462651 TAAAGTAAAGAAAAGAAAG
1 TAAAGTAAAAAAAAGAAAG
*
17462670 TAAAGTAAAGAAAAGAAAG
1 TAAAGTAAAAAAAAGAAAG
17462689 TAAAG-AAATAAAAACGAAA
1 TAAAGTAAA-AAAAA-GAAA
17462708 AAAAGAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
18 3 0.09
19 28 0.80
20 4 0.11
ACGTcount: A:0.70, C:0.02, G:0.18, T:0.11
Consensus pattern (19 bp):
TAAAGTAAAAAAAAGAAAG
Found at i:17463925 original size:22 final size:22
Alignment explanation
Indices: 17463898--17463970 Score: 73
Period size: 21 Copynumber: 3.5 Consensus size: 22
17463888 AGGCACTTTA
*
17463898 TGTGTCGTATTTTAGGCACCTG
1 TGTGTCGTATTTCAGGCACCTG
17463920 TGTGTCGTA--TCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCT-G
* * *
17463941 TGTG-C-CATTTCAGGCACTTA
1 TGTGTCGTATTTCAGGCACCTG
17463961 TGTGTCGTAT
1 TGTGTCGTAT
17463971 ACTAATCAGG
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
19 1 0.02
20 14 0.34
21 15 0.37
22 11 0.27
ACGTcount: A:0.15, C:0.22, G:0.26, T:0.37
Consensus pattern (22 bp):
TGTGTCGTATTTCAGGCACCTG
Found at i:17467048 original size:17 final size:16
Alignment explanation
Indices: 17467020--17467072 Score: 97
Period size: 16 Copynumber: 3.2 Consensus size: 16
17467010 TTTGGTTCGC
17467020 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
17467036 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
17467053 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
17467069 TGTA
1 TGTA
17467073 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:17467137 original size:44 final size:45
Alignment explanation
Indices: 17467053--17467143 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
17467043 GGATTAGAGG
* * *
17467053 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
17467098 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
17467142 TG
1 TG
17467144 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:17467329 original size:18 final size:17
Alignment explanation
Indices: 17467308--17467342 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
17467298 TTATTATTAA
*
17467308 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
17467326 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
17467343 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:17467428 original size:120 final size:120
Alignment explanation
Indices: 17467291--17469110 Score: 3412
Period size: 120 Copynumber: 15.2 Consensus size: 120
17467281 ATCATATTTA
*
17467291 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
17467356 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
17467411 AACATAATTATTATTAAATATACTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
*
17467476 TATTCTTATATTAATTTACCGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
* *
17467531 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
17467596 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
17467651 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
*
17467716 TATTCTTATA-T--TTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
17467768 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
*
17467833 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
* *
17467888 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
*
17467953 TATTCTTATATTAATTTACTGAAATTATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
17468008 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
17468073 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
* *
17468128 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
17468193 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
17468248 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
*
17468313 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
17468368 AACATAATTATTATCAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
*
17468433 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
* *
17468488 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
17468553 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
17468608 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
17468673 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
* *
17468728 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
*
17468793 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
17468848 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
*
17468913 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
17468968 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
*
17469033 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
17469088 AACATAATTATTATTAAATATAT
1 AACATAATTATTATTAAATATAT
17469111 AACTTGAAAA
Statistics
Matches: 1665, Mismatches: 32, Indels: 6
0.98 0.02 0.00
Matches are distributed among these distances:
117 115 0.07
118 1 0.00
119 1 0.00
120 1548 0.93
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:17467726 original size:53 final size:53
Alignment explanation
Indices: 17467669--17467844 Score: 167
Period size: 53 Copynumber: 3.1 Consensus size: 53
17467659 TATTATTAAA
17467669 TATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAATATTCT
1 TATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAATATTCT
* * * * *
17467722 TATATTTTACTCAAATCATAATATATGATACTGTAAAATATAAA-T-TAACATAATTATTATTAA
1 TATATTTTAATTAAA-C-T-ATATA--AT--T-T--AATA-AAATTCTTA-ATAATTAATATT-C
*
17467785 A
53 T
17467786 TATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAATATTCT
1 TATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAATATTCT
17467839 TATATT
1 TATATT
17467845 AATTTACTCA
Statistics
Matches: 96, Mismatches: 12, Indels: 30
0.70 0.09 0.22
Matches are distributed among these distances:
53 22 0.23
54 17 0.18
55 3 0.03
56 6 0.06
57 1 0.01
58 2 0.02
59 2 0.02
60 1 0.01
61 6 0.06
62 3 0.03
63 17 0.18
64 16 0.17
ACGTcount: A:0.46, C:0.06, G:0.01, T:0.47
Consensus pattern (53 bp):
TATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAATATTCT
Found at i:17467976 original size:38 final size:38
Alignment explanation
Indices: 17467921--17468217 Score: 110
Period size: 39 Copynumber: 7.5 Consensus size: 38
17467911 TTTAATTAAA
*
17467921 ATATA-TAATTTAATGAAATTCTTAATAATTAATATTC
1 ATATATTAATTTACTGAAATTCTTAATAATTAATATTC
* * * *
17467958 TTATATTAATTTACTGAAATT-ATAAT-ATATGATACTGTA
1 ATATATTAATTTACTGAAATTCTTAATAAT-TAATA-T-TC
* * * * *
17467997 AAATATAAATTAACAT-AATTATTATTAAATATATT-TTAATT-
1 ATATATTAATTTAC-TGAA--ATTCTT-AATA-ATTAAT-ATTC
* *
17468038 AAACTATATAATTTAATGAAATTCTTAATAATTAATATTC
1 ATA-TAT-TAATTTACTGAAATTCTTAATAATTAATATTC
* * * *
17468078 TTATATTAATTTACTGAAA-TCATAAT-ATATGATACTGTA
1 ATATATTAATTTACTGAAATTCTTAATAAT-TAATA-T-TC
* * * * * *
17468117 AAATATAAATTAACAT-AATTATTATTAAATATATT-TTAATTA
1 ATATATTAATTTAC-TGAA--ATTCTT-AATA-ATTAAT-ATTC
* *
17468159 AAATATATAATTTAATGAAATTCTTAATAATTAATATTC
1 ATATAT-TAATTTACTGAAATTCTTAATAATTAATATTC
*
17468198 TTATATTAATTTACTGAAAT
1 ATATATTAATTTACTGAAAT
17468218 CATAATATAT
Statistics
Matches: 191, Mismatches: 38, Indels: 61
0.66 0.13 0.21
Matches are distributed among these distances:
36 4 0.02
37 22 0.12
38 41 0.21
39 45 0.24
40 13 0.07
41 17 0.09
42 17 0.09
43 24 0.13
44 4 0.02
45 4 0.02
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.45
Consensus pattern (38 bp):
ATATATTAATTTACTGAAATTCTTAATAATTAATATTC
Found at i:17472265 original size:53 final size:53
Alignment explanation
Indices: 17472185--17472293 Score: 173
Period size: 53 Copynumber: 2.1 Consensus size: 53
17472175 GGATCTGAGA
*
17472185 AGATAGGAAAATCAAAAGGTATGCCGGGCTCTATTGTTCACTAACGAACAAAC
1 AGATAGGAAAATCAAAAGGTATGCCGGGCTCTATTGTTCACTAACCAACAAAC
* * * *
17472238 AGATAGGAAAATGAAAAGGTTTGCCGGGTTCTATTGTTCACTAACCAATAAAC
1 AGATAGGAAAATCAAAAGGTATGCCGGGCTCTATTGTTCACTAACCAACAAAC
17472291 AGA
1 AGA
17472294 CCAATTTTAC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (53 bp):
AGATAGGAAAATCAAAAGGTATGCCGGGCTCTATTGTTCACTAACCAACAAAC
Found at i:17485661 original size:5 final size:6
Alignment explanation
Indices: 17485647--17485678 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
17485637 ATTAGCAATG
17485647 AAAATA AAAATA AAAATA AAAAT- AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAA
17485679 CTTCATGGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:17502508 original size:3 final size:3
Alignment explanation
Indices: 17502502--17502549 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
17502492 TGCAAAAAGT
17502502 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
17502550 AGACGGAACT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:17507928 original size:12 final size:12
Alignment explanation
Indices: 17507911--17507935 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17507901 TGCTTACCCC
17507911 TAAATCATGTGT
1 TAAATCATGTGT
17507923 TAAATCATGTGT
1 TAAATCATGTGT
17507935 T
1 T
17507936 TGCAGGGTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (12 bp):
TAAATCATGTGT
Found at i:17510993 original size:18 final size:19
Alignment explanation
Indices: 17510959--17510998 Score: 64
Period size: 18 Copynumber: 2.1 Consensus size: 19
17510949 ATTAAATATT
17510959 AAATATTTACTTTTAAATTA
1 AAATATTTAC-TTTAAATTA
17510979 AAATATTTA-TTTAAATTA
1 AAATATTTACTTTAAATTA
17510997 AA
1 AA
17510999 TTTAAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 11 0.55
20 9 0.45
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (19 bp):
AAATATTTACTTTAAATTA
Found at i:17511003 original size:24 final size:23
Alignment explanation
Indices: 17510947--17511004 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 23
17510937 GTTTAAATAA
17510947 TAATTAAATATT-AAATATTTACT
1 TAATTAAAT-TTAAAATATTTACT
*
17510970 T--TTAAA-TTAAAATATTTATT
1 TAATTAAATTTAAAATATTTACT
17510990 TAAATTAAATTTAAA
1 T-AATTAAATTTAAA
17511005 TAAATATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
19 2 0.07
20 11 0.38
21 5 0.17
23 6 0.21
24 5 0.17
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
TAATTAAATTTAAAATATTTACT
Found at i:17519878 original size:2 final size:2
Alignment explanation
Indices: 17519871--17519895 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
17519861 AAGAACCTTC
17519871 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
17519896 AAATAAAATA
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:17528428 original size:26 final size:26
Alignment explanation
Indices: 17528399--17528464 Score: 91
Period size: 26 Copynumber: 2.6 Consensus size: 26
17528389 TTTTCAAAAA
17528399 TTATTACTTTTATAAAGTAGCACTAG
1 TTATTACTTTTATAAAGTAGCACTAG
* *
17528425 TTATTACATTGATAAAGTAGCACTAG
1 TTATTACTTTTATAAAGTAGCACTAG
*
17528451 -T-TTATTTTTATAAA
1 TTATTACTTTTATAAA
17528465 AAAAATCTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
24 10 0.29
25 1 0.03
26 24 0.69
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.44
Consensus pattern (26 bp):
TTATTACTTTTATAAAGTAGCACTAG
Found at i:17528535 original size:18 final size:18
Alignment explanation
Indices: 17528514--17528549 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
17528504 TCCCCTTGAG
17528514 TAAAAAATTAAATTAAAT
1 TAAAAAATTAAATTAAAT
* *
17528532 TAAAAATTTTAATTAAAT
1 TAAAAAATTAAATTAAAT
17528550 CCCTCGTCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAAAATTAAATTAAAT
Found at i:17529051 original size:19 final size:17
Alignment explanation
Indices: 17529023--17529087 Score: 51
Period size: 19 Copynumber: 3.6 Consensus size: 17
17529013 TAGTTTTATA
17529023 TTTTAT-TTTTTATAAT
1 TTTTATATTTTTATAAT
**
17529039 TTATTATCATTTTCCTAACT
1 TT-TTAT-ATTTTTATAA-T
*
17529059 TTTTATTATATTTATAATT
1 TTTTA-TATTTTTATAA-T
17529078 TTTTATATTT
1 TTTTATATTT
17529088 GCAAACATGT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
16 2 0.05
17 4 0.11
18 4 0.11
19 23 0.62
20 4 0.11
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTATATTTTTATAAT
Found at i:17533229 original size:19 final size:20
Alignment explanation
Indices: 17533207--17533245 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
17533197 ACATTTTCAC
*
17533207 TTTTAGTGT-TTAATATTTT
1 TTTTAGTGTATCAATATTTT
*
17533226 TTTTTGTGTATCAATATTTT
1 TTTTAGTGTATCAATATTTT
17533246 AAAAAATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.21, C:0.03, G:0.10, T:0.67
Consensus pattern (20 bp):
TTTTAGTGTATCAATATTTT
Found at i:17533256 original size:15 final size:16
Alignment explanation
Indices: 17533238--17533269 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
17533228 TTTGTGTATC
17533238 AATA-TTTTAAAAAAT
1 AATATTTTTAAAAAAT
17533253 AATATTTTTAAAAAAT
1 AATATTTTTAAAAAAT
17533269 A
1 A
17533270 TGATGTGTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AATATTTTTAAAAAAT
Found at i:17538724 original size:44 final size:44
Alignment explanation
Indices: 17538676--17538802 Score: 141
Period size: 45 Copynumber: 2.8 Consensus size: 44
17538666 GAAATGTAAT
* * * *
17538676 TTCAATCTACTACGCTGCAACCTTAGGGAGATTAGATTC-GTATC
1 TTCAATCTGCT-CGCTGTAACCTTAGGGAGATAAGATTCACTATC
*
17538720 TTCAATCTGCTCTGCTGTAA-CTTCAAGGAGATAAGATTCACTATC
1 TTCAATCTGCTC-GCTGTAACCTT-AGGGAGATAAGATTCACTATC
* *
17538765 TTCAATCTGCTCCACTGTAACTTTAGGGAGATAAGATT
1 TTCAATCTGCT-CGCTGTAACCTTAGGGAGATAAGATT
17538803 GGTGACTTGC
Statistics
Matches: 70, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
43 4 0.06
44 29 0.41
45 34 0.49
46 3 0.04
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.33
Consensus pattern (44 bp):
TTCAATCTGCTCGCTGTAACCTTAGGGAGATAAGATTCACTATC
Found at i:17539336 original size:262 final size:262
Alignment explanation
Indices: 17538864--17539359 Score: 823
Period size: 262 Copynumber: 1.9 Consensus size: 262
17538854 TGCTATATTC
*
17538864 AATCTGCTCCACTGCAACTTTAGGGAGATAAGATTCACCACGATGACTTCAATCCGTCCCACTGC
1 AATCTGATCCACTGCAACTTTAGGGAGATAAGATTCACCACGATGACTTCAATCCGTCCCACTGC
* * *
17538929 AACTTTAGGGGTATAGGATTTGTGGTTTCACTAGTCTGTTACACCATTCTCTAGGGAACATGACC
66 AACATCAGGGGTATAGGATTTGTGGTTTCACTAGTATGTTACACCATTCTCTAGGGAACATGACC
*
17538994 TGTAGAATCCATTTCATAGGCCTATATTTATGCCAAACGATTAGGATGTTATGATCAGAATGAAT
131 TGTAGAATCCATTTCATAGGCCTATATTTATGCCAAACAATTAGGATGTTATGATCAGAATGAAT
17539059 CAGATACTCCTAACTAGATGTGTATGAATGATATTTGCAACTTTAGGGAGATAAGATTTATGGCT
196 CAGATACTCCTAACTAGATGTGTATGAATGATATTTGCAACTTTAGGGAGATAAGATTTATGGCT
17539124 TT
261 TT
* * * *
17539126 AATCTGATCCACTGTAACTTTAGTGAGATAAGATTCGCCACGATTACTTCAATCCGTCCCACTGC
1 AATCTGATCCACTGCAACTTTAGGGAGATAAGATTCACCACGATGACTTCAATCCGTCCCACTGC
** * *
17539191 AACATCAGGGGTATAGGATTTGTGGTTTCACT-GATATGTTACACTGTTCTTTGGGGAACATGAC
66 AACATCAGGGGTATAGGATTTGTGGTTTCACTAG-TATGTTACACCATTCTCTAGGGAACATGAC
* *
17539255 CTGTAGAATCCATTTCATGGGCCTATATTTATGCCAAGCAATTAGGATGTTATGATCAGAATGAA
130 CTGTAGAATCCATTTCATAGGCCTATATTTATGCCAAACAATTAGGATGTTATGATCAGAATGAA
**
17539320 TCAGATGTTCCTAACTAGATGTGTATGAATGATATTTGCA
195 TCAGATACTCCTAACTAGATGTGTATGAATGATATTTGCA
17539360 TTAATGCAGA
Statistics
Matches: 216, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
261 1 0.00
262 215 1.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.32
Consensus pattern (262 bp):
AATCTGATCCACTGCAACTTTAGGGAGATAAGATTCACCACGATGACTTCAATCCGTCCCACTGC
AACATCAGGGGTATAGGATTTGTGGTTTCACTAGTATGTTACACCATTCTCTAGGGAACATGACC
TGTAGAATCCATTTCATAGGCCTATATTTATGCCAAACAATTAGGATGTTATGATCAGAATGAAT
CAGATACTCCTAACTAGATGTGTATGAATGATATTTGCAACTTTAGGGAGATAAGATTTATGGCT
TT
Found at i:17546778 original size:41 final size:41
Alignment explanation
Indices: 17546744--17546837 Score: 134
Period size: 41 Copynumber: 2.3 Consensus size: 41
17546734 ACCGACTTTT
* *
17546744 AGCCTACTAGACTTATAGTCTGAAATATTTCACCGGCATCA
1 AGCCTACTAGACTTATAGTCCGAAATATTTCACCGACATCA
* * *
17546785 AGCCTGCTAGACTTATAGTCCGAAATGTTTCACCGGCATCA
1 AGCCTACTAGACTTATAGTCCGAAATATTTCACCGACATCA
*
17546826 AGCCTGCTAGAC
1 AGCCTACTAGAC
17546838 ATAAAGTCTG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (41 bp):
AGCCTACTAGACTTATAGTCCGAAATATTTCACCGACATCA
Found at i:17547442 original size:76 final size:76
Alignment explanation
Indices: 17547242--17547452 Score: 214
Period size: 78 Copynumber: 2.8 Consensus size: 76
17547232 TTCAATATAA
* * * * *
17547242 AACTTATACATGTATAAGCATACACATTCGAACCTCACATATACATATATAAATT-CATACCTAA
1 AACTTATACATGTATAATCATACATATTCGAATCTAACATATACATATAT-AATTACACACCTAA
* *
17547306 TTCCAATACAAT
65 ATCCAAAACAAT
* * *
17547318 AACTTATACATGTATATTTAT-ATATATATTCGAATCTACCATATACATATATAATTACACACTT
1 AACTTATACATGTATA---ATCATACATATTCGAATCTAACATATACATATATAATTACACACCT
17547382 AAAAT-CAAAAC-AT
63 -AAATCCAAAACAAT
* * * *
17547395 GAACTTATACTTGTATACTCATACATATTCGAATCTAATATATACATATCTAATTACA
1 -AACTTATACATGTATAATCATACATATTCGAATCTAACATATACATATATAATTACA
17547453 TATTCAAACT
Statistics
Matches: 112, Mismatches: 16, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
75 1 0.01
76 50 0.45
77 6 0.05
78 51 0.46
79 4 0.04
ACGTcount: A:0.43, C:0.18, G:0.04, T:0.35
Consensus pattern (76 bp):
AACTTATACATGTATAATCATACATATTCGAATCTAACATATACATATATAATTACACACCTAAA
TCCAAAACAAT
Found at i:17547486 original size:76 final size:76
Alignment explanation
Indices: 17547247--17547487 Score: 173
Period size: 76 Copynumber: 3.1 Consensus size: 76
17547237 TATAAAACTT
** * * * * * *
17547247 ATACATGTATAAGCATACACATTCGAACCTCACATATACATATATAAATT-CATACCT-AATTCC
1 ATACATGTATACTCATACATATTCGAATCTAACATATACATATAT-AATTACACACTTAAAAT-C
* * * *
17547310 AATACAATAACTT
64 AAAACAAGAAATC
* * * *
17547323 ATACATGTATATTTATATATATATTCGAATCTACCATATACATATATAATTACACACTTAAAATC
1 ATACATGTATA-CT-CATACATATTCGAATCTAACATATACATATATAATTACACACTTAAAATC
* * *
17547388 AAAACATGAACTT
64 AAAACAAGAAATC
* * * * * *
17547401 ATACTTGTATACTCATACATATTCGAATCTAATATATACATATCTAATTACATA-TTCAAACTCC
1 ATACATGTATACTCATACATATTCGAATCTAACATATACATATATAATTACACACTT-AAAATCA
* *
17547465 ATATAAGAAATC
65 AAACAAGAAATC
17547477 ATACATGTATA
1 ATACATGTATA
17547488 TACATGCTTA
Statistics
Matches: 130, Mismatches: 30, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
75 2 0.02
76 68 0.52
77 5 0.04
78 52 0.40
79 3 0.02
ACGTcount: A:0.44, C:0.18, G:0.04, T:0.34
Consensus pattern (76 bp):
ATACATGTATACTCATACATATTCGAATCTAACATATACATATATAATTACACACTTAAAATCAA
AACAAGAAATC
Found at i:17550244 original size:17 final size:18
Alignment explanation
Indices: 17550217--17550255 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
17550207 TATATTGACA
17550217 AAAAAATTAAAATAATTT
1 AAAAAATTAAAATAATTT
*
17550235 AAAAAA-TAAAATACTTT
1 AAAAAATTAAAATAATTT
17550252 AAAA
1 AAAA
17550256 TTAACTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (18 bp):
AAAAAATTAAAATAATTT
Found at i:17550482 original size:24 final size:26
Alignment explanation
Indices: 17550449--17550506 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
17550439 TTTAGAACAA
17550449 AACTTGAG-AA-AATTGAGAGAGTTG
1 AACTTGAGAAAGAATTGAGAGAGTTG
*
17550473 AACTTTAGAAAGAATTGAGAGAGTTG
1 AACTTGAGAAAGAATTGAGAGAGTTG
*
17550499 AATTTGAG
1 AACTTGAG
17550507 TGAAAAGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 7 0.24
25 2 0.07
26 20 0.69
ACGTcount: A:0.41, C:0.03, G:0.28, T:0.28
Consensus pattern (26 bp):
AACTTGAGAAAGAATTGAGAGAGTTG
Found at i:17553220 original size:29 final size:30
Alignment explanation
Indices: 17553151--17553223 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 30
17553141 GACACATTAG
* *
17553151 CATTTAAATAATTTTTTAAAATTTAAAAAAT
1 CATTAAAATTATTTTTTAAAA-TTAAAAAAT
* *
17553182 GA-AAAGAATTATTTTTTAAAA-TAAAAAAT
1 CATTAA-AATTATTTTTTAAAATTAAAAAAT
17553211 CATTAAAATTATT
1 CATTAAAATTATT
17553224 AAAAAATTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
29 16 0.47
30 3 0.09
31 15 0.44
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (30 bp):
CATTAAAATTATTTTTTAAAATTAAAAAAT
Found at i:17556370 original size:26 final size:27
Alignment explanation
Indices: 17556334--17556394 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
17556324 GGTCCTTGTA
17556334 TTTTTTT-CTTTT-TGTGCAATTTAA-T
1 TTTTTTTCCTTTTATGT-CAATTTAACT
*
17556359 TTTTTTTCCTTTTATGTTAATTTAACT
1 TTTTTTTCCTTTTATGTCAATTTAACT
17556386 TTTTTTTCC
1 TTTTTTTCC
17556395 ATTCTCTTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 7 0.22
26 12 0.38
27 13 0.41
ACGTcount: A:0.15, C:0.11, G:0.05, T:0.69
Consensus pattern (27 bp):
TTTTTTTCCTTTTATGTCAATTTAACT
Found at i:17559992 original size:30 final size:32
Alignment explanation
Indices: 17559958--17560018 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
17559948 TATTTCATGG
17559958 TTCTTTT-CAATT-ATATAATAA-TTTAGTAAA
1 TTCTTTTGCAATTGATAT-ATAATTTTAGTAAA
*
17559988 TTCTTTTGCCATTGATATATAATTTTAGTAA
1 TTCTTTTGCAATTGATATATAATTTTAGTAA
17560019 TATTTTTACC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 7 0.26
31 8 0.30
32 12 0.44
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (32 bp):
TTCTTTTGCAATTGATATATAATTTTAGTAAA
Found at i:17560045 original size:14 final size:14
Alignment explanation
Indices: 17560026--17560090 Score: 64
Period size: 14 Copynumber: 4.7 Consensus size: 14
17560016 TAATATTTTT
17560026 ACCTCAAACCTTAA
1 ACCTCAAACCTTAA
* *
17560040 ACCTCAAATCTCAA
1 ACCTCAAACCTTAA
*
17560054 A-CT-AGAACGTTAA
1 ACCTCA-AACCTTAA
17560067 ATCC-CAAACCTTAA
1 A-CCTCAAACCTTAA
17560081 ACCTCAAACC
1 ACCTCAAACC
17560091 CCAAATTTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
12 1 0.03
13 10 0.25
14 27 0.68
15 2 0.05
ACGTcount: A:0.43, C:0.34, G:0.03, T:0.20
Consensus pattern (14 bp):
ACCTCAAACCTTAA
Found at i:17560196 original size:7 final size:7
Alignment explanation
Indices: 17560186--17560268 Score: 55
Period size: 7 Copynumber: 12.0 Consensus size: 7
17560176 CCCAAACCCA
17560186 AAACCTT
1 AAACCTT
17560193 AAACCTT
1 AAACCTT
* **
17560200 GAACCCC
1 AAACCTT
17560207 AAACCTT
1 AAACCTT
*
17560214 AAACAC-C
1 AAAC-CTT
* *
17560221 AAATCTC
1 AAACCTT
17560228 AAACCTT
1 AAACCTT
17560235 AAA-CTT
1 AAACCTT
*
17560241 CAAACC-A
1 -AAACCTT
*
17560248 AAACCCT
1 AAACCTT
17560255 AAACCTT
1 AAACCTT
17560262 AAACCTT
1 AAACCTT
17560269 GATTCGAGTT
Statistics
Matches: 58, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
6 9 0.16
7 47 0.81
8 2 0.03
ACGTcount: A:0.45, C:0.34, G:0.01, T:0.20
Consensus pattern (7 bp):
AAACCTT
Found at i:17560335 original size:28 final size:28
Alignment explanation
Indices: 17560275--17560338 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 28
17560265 CCTTGATTCG
*
17560275 AGTTTAGGGTTAAAGATTTAAAATTTAA
1 AGTTTAGGGTTAAAGATTTAAAATTCAA
* * * *
17560303 AGTTTGGGGTTCAAGATTTAGAGTTCAA
1 AGTTTAGGGTTAAAGATTTAAAATTCAA
*
17560331 GGTTTAGG
1 AGTTTAGG
17560339 AATGTGGGTT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.03, G:0.27, T:0.38
Consensus pattern (28 bp):
AGTTTAGGGTTAAAGATTTAAAATTCAA
Found at i:17564787 original size:42 final size:42
Alignment explanation
Indices: 17564709--17564880 Score: 145
Period size: 42 Copynumber: 4.1 Consensus size: 42
17564699 GTGCTAAACA
* * * *
17564709 GAAACCCGTAAGGGTTGAA-C-GAAAGCTCATAGGAGCTGAACA
1 GAAACCCATAAGGGTT-AATCTG-AAGCTCAAAAGAGCTGAACT
* * * *
17564751 AAAACCCATAAGGGTTAATCTGAAGTTCAGAAGAGCTAAACT
1 GAAACCCATAAGGGTTAATCTGAAGCTCAAAAGAGCTGAACT
*
17564793 GAAACCCATTAGGGTTAAAT-TGAAGCTCAAAAGAGCTGAACT
1 GAAACCCATAAGGGTT-AATCTGAAGCTCAAAAGAGCTGAACT
* * * * * * *
17564835 GAAACCCAAAAGGATTAAACTGAAACTCATATGAG-TTAACT
1 GAAACCCATAAGGGTTAATCTGAAGCTCAAAAGAGCTGAACT
17564876 GAAAC
1 GAAAC
17564881 TCATGAAAGC
Statistics
Matches: 106, Mismatches: 20, Indels: 9
0.79 0.15 0.07
Matches are distributed among these distances:
41 14 0.13
42 88 0.83
43 4 0.04
ACGTcount: A:0.42, C:0.17, G:0.21, T:0.19
Consensus pattern (42 bp):
GAAACCCATAAGGGTTAATCTGAAGCTCAAAAGAGCTGAACT
Found at i:17564855 original size:21 final size:21
Alignment explanation
Indices: 17564787--17564860 Score: 60
Period size: 21 Copynumber: 3.5 Consensus size: 21
17564777 TCAGAAGAGC
** *
17564787 TAAACTGAAACCCATTAGGGT
1 TAAACTGAAACCCAAAAGGAT
* * * *
17564808 TAAATTGAAGCTCAAAA-GAGC
1 TAAACTGAAACCCAAAAGGA-T
*
17564829 TGAACTGAAACCCAAAAGGAT
1 TAAACTGAAACCCAAAAGGAT
17564850 TAAACTGAAAC
1 TAAACTGAAAC
17564861 TCATATGAGT
Statistics
Matches: 38, Mismatches: 13, Indels: 4
0.69 0.24 0.07
Matches are distributed among these distances:
20 1 0.03
21 35 0.92
22 2 0.05
ACGTcount: A:0.46, C:0.18, G:0.18, T:0.19
Consensus pattern (21 bp):
TAAACTGAAACCCAAAAGGAT
Found at i:17572746 original size:104 final size:104
Alignment explanation
Indices: 17572559--17572747 Score: 258
Period size: 104 Copynumber: 1.8 Consensus size: 104
17572549 TTGAAGAACT
* *
17572559 AAGTAGTGGAGCCATAAAGAATGGCTCCACCAAAATAAAATATAATTTTTAAAATTTTTAGATTA
1 AAGTAGTGGAGCCATAAAGAATGGCTCCACCAAAATAAAATATAATTTTTAAAATATTTAGAATA
17572624 AAAAAAACACATTTAAAAAAAAAATTACATTGGTAATAA
66 AAAAAAACACATTTAAAAAAAAAATTACATTGGTAATAA
* ** *
17572663 AAGTGGTGGAGCCATTTAGAATGGCTCCACC-AAATAAAATATTATTTTTTTAAAA-ATTTA-AA
1 AAGTAGTGGAGCCATAAAGAATGGCTCCACCAAAATAAAATA-TA-ATTTTTAAAATATTTAGAA
* * *
17572725 TATAAAAAATATATTTAAAAAAA
64 TAAAAAAAACACATTTAAAAAAA
17572748 TCTTAAAATG
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
103 31 0.42
104 34 0.46
105 9 0.12
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.30
Consensus pattern (104 bp):
AAGTAGTGGAGCCATAAAGAATGGCTCCACCAAAATAAAATATAATTTTTAAAATATTTAGAATA
AAAAAAACACATTTAAAAAAAAAATTACATTGGTAATAA
Found at i:17580010 original size:40 final size:40
Alignment explanation
Indices: 17579965--17580043 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
17579955 TATTCCTCTT
17579965 CAAACCATCCAAAATAGAGTTAAAGTCACTAGCAACAATA
1 CAAACCATCCAAAATAGAGTTAAAGTCACTAGCAACAATA
*
17580005 CAAACCATCTAAAATAGAGTTAAAGTCACTAGCAACAAT
1 CAAACCATCCAAAATAGAGTTAAAGTCACTAGCAACAAT
17580044 CCATGGCTCA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.49, C:0.22, G:0.10, T:0.19
Consensus pattern (40 bp):
CAAACCATCCAAAATAGAGTTAAAGTCACTAGCAACAATA
Found at i:17584047 original size:40 final size:40
Alignment explanation
Indices: 17583992--17584070 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 40
17583982 TGAGCCATGG
17583992 ATTGTTGCTAGTGACTTTAACTCCATTTTGAATGGTTTGT
1 ATTGTTGCTAGTGACTTTAACTCCATTTTGAATGGTTTGT
* *
17584032 ATTGTTGCTAGTGACTTTAACTCTATTTTGGATGGTTTG
1 ATTGTTGCTAGTGACTTTAACTCCATTTTGAATGGTTTG
17584071 AAGAGGAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.19, C:0.11, G:0.22, T:0.48
Consensus pattern (40 bp):
ATTGTTGCTAGTGACTTTAACTCCATTTTGAATGGTTTGT
Found at i:17584437 original size:33 final size:33
Alignment explanation
Indices: 17584395--17584460 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
17584385 ATCTTGTTGA
17584395 TGAGAATTGAAATAATGAGGTGGAGGTGAGAAT
1 TGAGAATTGAAATAATGAGGTGGAGGTGAGAAT
17584428 TGAGAATTGAAATAATGAGGTGGAGGTGAGAAT
1 TGAGAATTGAAATAATGAGGTGGAGGTGAGAAT
17584461 GAATTTGGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.00, G:0.36, T:0.24
Consensus pattern (33 bp):
TGAGAATTGAAATAATGAGGTGGAGGTGAGAAT
Found at i:17584706 original size:115 final size:115
Alignment explanation
Indices: 17584502--17584759 Score: 333
Period size: 115 Copynumber: 2.2 Consensus size: 115
17584492 TGTTTTCGAT
* * **
17584502 AAAGCGCCACTAATTATCGATATATAACGGTGTTTTTAGAAAAGCGCCGCAAAAAAATTAATCAC
1 AAAGCGCCACTAATTCTCGATATATAGCGGCATTTTTAGAAAAGCGCCGCAAAAAAATTAATCAC
* *
17584567 AACGCCACCGTTTTGGATTGAGCTTTAATGGCATTAGCAGCG-TTTGGGAC
66 AACGCCACCGTTTTGGATTAAGCTTTAATGGCATTAGCAGCGCTTT-GGAA
*
17584617 AAAGCGCCACTAATTCTCGATATATAGCGGCATTTTTAGAAAAGCGCCGCAAAAAGATTAATCAC
1 AAAGCGCCACTAATTCTCGATATATAGCGGCATTTTTAGAAAAGCGCCGCAAAAAAATTAATCAC
* * * **
17584682 AACGCCATC-TTATTAGG-TTAAGCTTTAGTGGCATTAGCGGCGCTTTTTAA
66 AACGCCACCGTT-TT-GGATTAAGCTTTAATGGCATTAGCAGCGCTTTGGAA
* * *
17584732 AAAACGCCGCTAATTCTCGATCTATAGC
1 AAAGCGCCACTAATTCTCGATATATAGC
17584760 TTCGTTTTCG
Statistics
Matches: 125, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
114 2 0.02
115 118 0.94
116 5 0.04
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.28
Consensus pattern (115 bp):
AAAGCGCCACTAATTCTCGATATATAGCGGCATTTTTAGAAAAGCGCCGCAAAAAAATTAATCAC
AACGCCACCGTTTTGGATTAAGCTTTAATGGCATTAGCAGCGCTTTGGAA
Found at i:17584816 original size:40 final size:40
Alignment explanation
Indices: 17584741--17584818 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
17584731 AAAAACGCCG
* ** *
17584741 CTAATTCTCGATCTATAGCTTCGTTTTCGACAAAGTGCCA
1 CTAATTCTCGATATATAGCGACGTTTTAGACAAAGTGCCA
17584781 CTAATTCTCGATATATAGCGACGTTTTTAGA-AAAGTGC
1 CTAATTCTCGATATATAGCGACG-TTTTAGACAAAGTGC
17584819 AGCAAAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 27 0.82
41 6 0.18
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.35
Consensus pattern (40 bp):
CTAATTCTCGATATATAGCGACGTTTTAGACAAAGTGCCA
Found at i:17584955 original size:141 final size:140
Alignment explanation
Indices: 17584702--17584955 Score: 382
Period size: 141 Copynumber: 1.8 Consensus size: 140
17584692 TATTAGGTTA
* ** * * **
17584702 AGCTTTAGTGGCATTAGCGGCGCTTTTTAAAAAACGCCGCTAATTCTCGATCTATAGCTTCGTTT
1 AGCTTTAGTGGCATTAGCGGCACTTTTTAAAAAACGCAACTAATGCTCGATCTACAGCGACGTTT
*
17584767 TCGACAAAGTGCCACTAATTCTCGATATATAGCGACGTTTTTAGAAAAGTGCAGCAAAAAAATTA
66 GCGACAAAGTGCCACTAATTCTCGATATATAGCGACGTTTTTAGAAAAGTGCAGCAAAAAAATTA
17584832 ATCACAACAC
131 ATCACAACAC
** *
17584842 AGCTTTAGTGGCATTAGCGGCACTTTTTTTGAAAGCGCAACTAATGCTCGATCTACAGCGACGTT
1 AGCTTTAGTGGCATTAGCGGCAC-TTTTTAAAAAACGCAACTAATGCTCGATCTACAGCGACGTT
* *
17584907 TGGGACAAAGTGCCACTAATTCTCGATATATAGCGGCGTTTTTAGAAAA
65 TGCGACAAAGTGCCACTAATTCTCGATATATAGCGACGTTTTTAGAAAA
17584956 ACGCCATAAA
Statistics
Matches: 100, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
140 22 0.22
141 78 0.78
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.30
Consensus pattern (140 bp):
AGCTTTAGTGGCATTAGCGGCACTTTTTAAAAAACGCAACTAATGCTCGATCTACAGCGACGTTT
GCGACAAAGTGCCACTAATTCTCGATATATAGCGACGTTTTTAGAAAAGTGCAGCAAAAAAATTA
ATCACAACAC
Found at i:17585102 original size:21 final size:21
Alignment explanation
Indices: 17585057--17585108 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
17585047 ATCATTTTAT
* *
17585057 TTTAAGGTTTATTGTTTAGTA
1 TTTAAGGTTTAATGTCTAGTA
17585078 TTTAAGGTTTAATGTCTA-TA
1 TTTAAGGTTTAATGTCTAGTA
*
17585098 GTTTAGGGTTT
1 -TTTAAGGTTT
17585109 TTAGGGTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 2 0.07
21 25 0.93
ACGTcount: A:0.23, C:0.02, G:0.21, T:0.54
Consensus pattern (21 bp):
TTTAAGGTTTAATGTCTAGTA
Found at i:17585403 original size:21 final size:20
Alignment explanation
Indices: 17585360--17585433 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
17585350 GTAGTATATA
17585360 TTTAAGGTTTAGGATATAAG
1 TTTAAGGTTTAGGATATAAG
* * *
17585380 TTTATGGTTTAGGGTTTAAAG
1 TTTAAGGTTTAGGATAT-AAG
* *
17585401 TTTAAGGTTTATGAT-TTAG
1 TTTAAGGTTTAGGATATAAG
17585420 TGTTAAGAGTTTAG
1 T-TTAAG-GTTTAG
17585434 TGTTTACGAT
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
19 3 0.07
20 20 0.47
21 20 0.47
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.46
Consensus pattern (20 bp):
TTTAAGGTTTAGGATATAAG
Found at i:17585502 original size:22 final size:22
Alignment explanation
Indices: 17585477--17585519 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
17585467 GTGTTTAGTG
*
17585477 TTTAGGGGTTAGAAGCTTAAGA
1 TTTAAGGGTTAGAAGCTTAAGA
* *
17585499 TTTAAGGGTTATAGGCTTAAG
1 TTTAAGGGTTAGAAGCTTAAG
17585520 GGCTTATGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.30, C:0.05, G:0.30, T:0.35
Consensus pattern (22 bp):
TTTAAGGGTTAGAAGCTTAAGA
Found at i:17585554 original size:7 final size:7
Alignment explanation
Indices: 17585379--17585575 Score: 81
Period size: 7 Copynumber: 27.9 Consensus size: 7
17585369 TAGGATATAA
*
17585379 GTTTATG
1 GTTTAGG
17585386 GTTTAGG
1 GTTTAGG
**
17585393 GTTTAAA
1 GTTTAGG
*
17585400 GTTTAAG
1 GTTTAGG
*
17585407 GTTTATG
1 GTTTAGG
* *
17585414 ATTTAGT
1 GTTTAGG
* *
17585421 GTTAAGA
1 GTTTAGG
*
17585428 GTTTAGT
1 GTTTAGG
*
17585435 GTTTACG
1 GTTTAGG
* *
17585442 ATTTAAG
1 GTTTAGG
*
17585449 GTGTA-G
1 GTTTAGG
*
17585455 GTTTATG
1 GTTTAGG
*
17585462 GTTTAGT
1 GTTTAGG
*
17585469 GTTTAGT
1 GTTTAGG
17585476 GTTTAGG
1 GTTTAGG
* *
17585483 GGTTAGAA
1 GTTTAG-G
* *
17585491 GCTTAAG
1 GTTTAGG
*
17585498 ATTTAAGG
1 GTTT-AGG
17585506 GTTATAGG
1 GTT-TAGG
* *
17585514 CTTAAGG
1 GTTTAGG
* *
17585521 GCTTATG
1 GTTTAGG
* *
17585528 ATTTATG
1 GTTTAGG
*
17585535 GTTTATG
1 GTTTAGG
17585542 GTTTAGG
1 GTTTAGG
*
17585549 GTTTAGT
1 GTTTAGG
*
17585556 GTTTGGG
1 GTTTAGG
17585563 GTTTAGG
1 GTTTAGG
17585570 GTTTAG
1 GTTTAG
17585576 CTAAAAACAT
Statistics
Matches: 140, Mismatches: 46, Indels: 8
0.72 0.24 0.04
Matches are distributed among these distances:
6 5 0.04
7 121 0.86
8 13 0.09
9 1 0.01
ACGTcount: A:0.22, C:0.02, G:0.31, T:0.45
Consensus pattern (7 bp):
GTTTAGG
Found at i:17586299 original size:24 final size:23
Alignment explanation
Indices: 17586267--17586313 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 23
17586257 TCACGGACTC
17586267 TATTTTTGTTTCTATGTTTAATT
1 TATTTTTGTTTCTATGTTTAATT
17586290 TATTATTTGTTTCTATGTTTAATT
1 TATT-TTTGTTTCTATGTTTAATT
17586314 GTTAAGCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 4 0.17
24 19 0.83
ACGTcount: A:0.19, C:0.04, G:0.09, T:0.68
Consensus pattern (23 bp):
TATTTTTGTTTCTATGTTTAATT
Found at i:17587780 original size:28 final size:28
Alignment explanation
Indices: 17587739--17587812 Score: 121
Period size: 28 Copynumber: 2.6 Consensus size: 28
17587729 TTTAATTGGT
17587739 TTAATGTGAATAAATTATCGATTTTCGAC
1 TTAAT-TGAATAAATTATCGATTTTCGAC
* *
17587768 TTAATTGAATAAATTATCGATTTTTGAT
1 TTAATTGAATAAATTATCGATTTTCGAC
17587796 TTAATTGAATAAATTAT
1 TTAATTGAATAAATTAT
17587813 GTTTGACTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
28 38 0.88
29 5 0.12
ACGTcount: A:0.38, C:0.05, G:0.11, T:0.46
Consensus pattern (28 bp):
TTAATTGAATAAATTATCGATTTTCGAC
Found at i:17587824 original size:23 final size:25
Alignment explanation
Indices: 17587740--17587824 Score: 84
Period size: 28 Copynumber: 3.2 Consensus size: 25
17587730 TTAATTGGTT
17587740 TAATGTGAATAAATTATCGATTTTCGAC
1 TAAT-TGAATAAATTATCG-TTTT-GAC
*
17587768 TTAATTGAATAAATTATCGATTTTTGATT
1 -TAATTGAATAAATTATCG--TTTTGA-C
17587797 TAATTGAATAAATTAT-G-TTTGAC
1 TAATTGAATAAATTATCGTTTTGAC
17587820 TAATT
1 TAATT
17587825 TATCGTTTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
23 5 0.10
24 5 0.10
27 1 0.02
28 32 0.63
29 8 0.16
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.46
Consensus pattern (25 bp):
TAATTGAATAAATTATCGTTTTGAC
Found at i:17588256 original size:19 final size:21
Alignment explanation
Indices: 17588232--17588277 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
17588222 CTTATTTTAA
17588232 TATATTTTAAATTA-A-AACT
1 TATATTTTAAATTACATAACT
*
17588251 TATATTTTGAATTACATAACT
1 TATATTTTAAATTACATAACT
17588272 TA-ATTT
1 TATATTT
17588278 CTTCCCCGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 13 0.54
20 5 0.21
21 6 0.25
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.50
Consensus pattern (21 bp):
TATATTTTAAATTACATAACT
Found at i:17588457 original size:8 final size:9
Alignment explanation
Indices: 17588426--17588654 Score: 158
Period size: 9 Copynumber: 25.9 Consensus size: 9
17588416 AAATTAATAT
*
17588426 ATAATTTAC
1 ATAACTTAC
17588435 ATAACTTAC
1 ATAACTTAC
17588444 ATAACTTA-
1 ATAACTTAC
17588452 ATAACTTAC
1 ATAACTTAC
17588461 ATAA--TAC
1 ATAACTTAC
* *
17588468 ATAAATTAATAT
1 AT-AACT--TAC
*
17588480 ATAATTTATGC
1 ATAACTTA--C
*
17588491 AT--CTCAC
1 ATAACTTAC
17588498 ATAACTTAC
1 ATAACTTAC
17588507 ATAACTTA-
1 ATAACTTAC
*
17588515 ATAGCTTAC
1 ATAACTTAC
17588524 ATAA--TAC
1 ATAACTTAC
* *
17588531 ATAA-ATAT
1 ATAACTTAC
* *
17588539 ATATCATATC
1 ATAACTTA-C
*
17588549 ACAACTTAC
1 ATAACTTAC
17588558 ATAACTTAC
1 ATAACTTAC
*
17588567 ATAATTTA-
1 ATAACTTAC
17588575 ATAACTTAC
1 ATAACTTAC
17588584 ATAACTTA-
1 ATAACTTAC
*
17588592 ATAACTCAC
1 ATAACTTAC
17588601 ATAACTTAC
1 ATAACTTAC
*
17588610 ATAATTTATAC
1 ATAA-CT-TAC
*
17588621 ATAATTTA-
1 ATAACTTAC
*
17588629 ATAACTTTC
1 ATAACTTAC
17588638 ATAACTTAC
1 ATAACTTAC
17588647 ATAACTTA
1 ATAACTTA
17588655 ATTATACTTG
Statistics
Matches: 178, Mismatches: 23, Indels: 38
0.74 0.10 0.16
Matches are distributed among these distances:
7 15 0.08
8 42 0.24
9 96 0.54
10 8 0.04
11 13 0.07
12 4 0.02
ACGTcount: A:0.46, C:0.17, G:0.01, T:0.37
Consensus pattern (9 bp):
ATAACTTAC
Found at i:17588457 original size:17 final size:18
Alignment explanation
Indices: 17588426--17588654 Score: 158
Period size: 17 Copynumber: 12.9 Consensus size: 18
17588416 AAATTAATAT
*
17588426 ATAATTTACATAACTTAC
1 ATAACTTACATAACTTAC
17588444 ATAACTTA-ATAACTTAC
1 ATAACTTACATAACTTAC
* *
17588461 ATAA--TACATAAATTAATAT
1 ATAACTTACAT-AACT--TAC
* *
17588480 ATAATTTATGCAT--CTCAC
1 ATAACTTA--CATAACTTAC
17588498 ATAACTTACATAACTTA-
1 ATAACTTACATAACTTAC
*
17588515 ATAGCTTACATAA--TAC
1 ATAACTTACATAACTTAC
* * * *
17588531 ATAA-ATATATATCATATC
1 ATAACTTACATAACTTA-C
*
17588549 ACAACTTACATAACTTAC
1 ATAACTTACATAACTTAC
*
17588567 ATAATTTA-ATAACTTAC
1 ATAACTTACATAACTTAC
*
17588584 ATAACTTA-ATAACTCAC
1 ATAACTTACATAACTTAC
*
17588601 ATAACTTACATAATTTATAC
1 ATAACTTACATAA-CT-TAC
* *
17588621 ATAATTTA-ATAACTTTC
1 ATAACTTACATAACTTAC
17588638 ATAACTTACATAACTTA
1 ATAACTTACATAACTTA
17588655 ATTATACTTG
Statistics
Matches: 163, Mismatches: 29, Indels: 38
0.71 0.13 0.17
Matches are distributed among these distances:
15 9 0.06
16 8 0.05
17 71 0.44
18 41 0.25
19 19 0.12
20 10 0.06
21 2 0.01
23 3 0.02
ACGTcount: A:0.46, C:0.17, G:0.01, T:0.37
Consensus pattern (18 bp):
ATAACTTACATAACTTAC
Found at i:17588476 original size:24 final size:25
Alignment explanation
Indices: 17588426--17588478 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 25
17588416 AAATTAATAT
* *
17588426 ATAATTTACATAACTTACATAACTTA
1 ATAACTTACATAAC-TACATAAATTA
17588452 ATAACTTACATAA-TACATAAATTA
1 ATAACTTACATAACTACATAAATTA
17588476 ATA
1 ATA
17588479 TATAATTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 13 0.52
26 12 0.48
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (25 bp):
ATAACTTACATAACTACATAAATTA
Done.