Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 86 of 121
Found at i:14614028 original size:16 final size:16
Alignment explanation
Indices: 14613982--14614034 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
14613972 AAATAATTAT
14613982 ATATATTTTAGATTGA
1 ATATATTTTAGATTGA
**
14613998 ATATA--AAAGTCATTGA
1 ATATATTTTAG--ATTGA
14614014 ATATATTTTAGATTGA
1 ATATATTTTAGATTGA
14614030 ATATA
1 ATATA
14614035 AAACTCTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
14 2 0.07
16 25 0.86
18 2 0.07
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.43
Consensus pattern (16 bp):
ATATATTTTAGATTGA
Found at i:14615953 original size:19 final size:18
Alignment explanation
Indices: 14615916--14615954 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
14615906 ATATATGATA
* *
14615916 TTAAACTTGTTTGAATGC
1 TTAAAATTGGTTGAATGC
14615934 TTAAAATTGGTTGCAATGC
1 TTAAAATTGGTTG-AATGC
14615953 TT
1 TT
14615955 GATATGTGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.28, C:0.10, G:0.18, T:0.44
Consensus pattern (18 bp):
TTAAAATTGGTTGAATGC
Found at i:14616195 original size:313 final size:315
Alignment explanation
Indices: 14615728--14616474 Score: 769
Period size: 313 Copynumber: 2.4 Consensus size: 315
14615718 TTAGTTTTGG
* * * * **
14615728 CAACTTAGATAGCTTGAATATATGATATTAAACTTATCAGAAT-ATAAGAACTTGGCTGCCACAT
1 CAACTTAGATAGCTTGAATATATGATATTAAACTTGTCTGAATGCT-TGAACTTGGCTGCCACGC
* * * *** ***
14615792 TTGACATGTGTTAAAGTGTTGCAGTTTATGTGTTTTTAGGACTTTTTGTGCCATAAAAGGACAAA
65 TT-ATATGTGTCAAAATGTTATGGTTTATGTGTTTTTAGGACTTTTCAAGCCATAAAAGGACAAA
* * * * * *
14615857 ATTGTGAATGTATTGATACATTTCTATTATAGCAACTTATATAGATCGAATATATGATATTAAAC
129 ACTATAAATCTATTGATACATTTCTATTATAGCAACTTAGATAGATCAAATATATGATATTAAAC
* * *
14615922 TTGTT-TGAATGCTTAAAATTGG-T-T-GCAATGCTTGATATGTGTCAAAATGTTATGGTTTATG
194 TTGTTCT-AATGCTTAAAATTGGATGTGGC-A--CTTGAAATG-CTCAAAATATTATGGTTTATG
* * * *
14615983 TGTTTTTAAGACTTTTCATGGTGTAAAATTGTAAAACTACTGG-TA-G-AT-T-TTTG-TTTAA
254 TGTTTTTAAGACTTTT-ATGGTATAAAATGGCAAAACCA-TGGATATGAATATATTTGTTTTAA
* * * * *
14616041 TAACTTAAATAGCTTGCATATATGACATTAAACTTGTTTGAATGCTTGAACTTGGCTGCCACGCT
1 CAACTTAGATAGCTTGAATATATGATATTAAACTTGTCTGAATGCTTGAACTTGGCTGCCACGCT
* * *
14616106 TAATATGTGTCAAATTGTTATGGTTTATGTGTTTTTAGGGCTTTTCAAGCCATAAAAGGGCAAAA
66 T-ATATGTGTCAAAATGTTATGGTTTATGTGTTTTTAGGACTTTTCAAGCCATAAAAGGACAAAA
* * * * * *
14616171 CTATAAATCTGTTGGTATATTTCTATTTTAGCAACTTAGATAGCTCAAATATATGATATTAAATT
130 CTATAAATCTATTGATACATTTCTATTATAGCAACTTAGATAGATCAAATATATGATATTAAACT
* *
14616236 TGTTCTAATGCTTGAAATTGGATGTGGCACTTGAAATGCTCCAAATATTATGGTTTATGTGTTTT
195 TGTTCTAATGCTTAAAATTGGATGTGGCACTTGAAATGCTCAAAATATTATGGTTTATGTGTTTT
* * * *
14616301 TAGGACTTTTGTGTTATAAAATGGCAAAACCATGGATCTATTGATATATATTTGTTTTAG
260 TAAGACTTTTATGGTATAAAATGGCAAAACCATGGA--TA-TGA-ATATATTTGTTTTAA
* * * * *
14616361 CAACATAGATAGCTCGAATATATGATATTAAACTTGTCTAAATGCTTGAACTTGGTTGCCATGCT
1 CAACTTAGATAGCTTGAATATATGATATTAAACTTGTCTGAATGCTTGAACTTGGCTGCCACGCT
* * *
14616426 TATCATGTGTCAAAATATTATGCTTTATGTGTTTTTAAGACTTGTTCAA
66 TAT-ATGTGTCAAAATGTTATGGTTTATGTGTTTTTAGGACTT-TTCAA
14616475 ATGATTGATT
Statistics
Matches: 354, Mismatches: 63, Indels: 26
0.80 0.14 0.06
Matches are distributed among these distances:
310 3 0.01
311 16 0.05
312 33 0.09
313 186 0.53
314 3 0.01
315 3 0.01
316 2 0.01
317 2 0.01
318 1 0.00
319 6 0.02
320 94 0.27
321 5 0.01
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (315 bp):
CAACTTAGATAGCTTGAATATATGATATTAAACTTGTCTGAATGCTTGAACTTGGCTGCCACGCT
TATATGTGTCAAAATGTTATGGTTTATGTGTTTTTAGGACTTTTCAAGCCATAAAAGGACAAAAC
TATAAATCTATTGATACATTTCTATTATAGCAACTTAGATAGATCAAATATATGATATTAAACTT
GTTCTAATGCTTAAAATTGGATGTGGCACTTGAAATGCTCAAAATATTATGGTTTATGTGTTTTT
AAGACTTTTATGGTATAAAATGGCAAAACCATGGATATGAATATATTTGTTTTAA
Found at i:14616360 original size:159 final size:160
Alignment explanation
Indices: 14616123--14616415 Score: 403
Period size: 159 Copynumber: 1.8 Consensus size: 160
14616113 TGTCAAATTG
* * * *
14616123 TTATGGTTTATGTGTTTTTAGGGCTTTTCAAGCCATAAAAGGGCAAAACTATAAATCTGTTGGTA
1 TTATGGTTTATGTGTTTTTAGGACTTTTCAAGCCATAAAAGGGCAAAACCATAAATCTATTGATA
* *
14616188 TATTTCTATTTTAGCAACTTAGATAGCTCAAATATATGATATTAAATTTGTTCT-AATGCTTGAA
66 TATTTCTATTTTAGCAACATAGATAGCTCAAATATATGATATTAAACTTG-TCTAAATGCTTGAA
14616252 ATTGGATGTGGCACTTGAAATGCTCCAAATA
130 ATTGGATGTGGCACTTGAAATGCTCCAAATA
** ** * **
14616283 TTATGGTTTATGTGTTTTTAGGACTTTT-GTGTTATAAAATGGCAAAACCATGGATCTATTGATA
1 TTATGGTTTATGTGTTTTTAGGACTTTTCAAGCCATAAAAGGGCAAAACCATAAATCTATTGATA
* *
14616347 TATATT-TGTTTTAGCAACATAGATAGCTCGAATATATGATATTAAACTTGTCTAAATGCTTGAA
66 TAT-TTCTATTTTAGCAACATAGATAGCTCAAATATATGATATTAAACTTGTCTAAATGCTTGAA
*
14616411 CTTGG
130 ATTGG
14616416 TTGCCATGCT
Statistics
Matches: 115, Mismatches: 16, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
158 3 0.03
159 83 0.72
160 29 0.25
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (160 bp):
TTATGGTTTATGTGTTTTTAGGACTTTTCAAGCCATAAAAGGGCAAAACCATAAATCTATTGATA
TATTTCTATTTTAGCAACATAGATAGCTCAAATATATGATATTAAACTTGTCTAAATGCTTGAAA
TTGGATGTGGCACTTGAAATGCTCCAAATA
Found at i:14616514 original size:2 final size:2
Alignment explanation
Indices: 14616507--14616536 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
14616497 ATGTGTTACG
14616507 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14616537 GAAAATGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14617057 original size:21 final size:21
Alignment explanation
Indices: 14617022--14617066 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
14617012 TAAGCAATGA
*
14617022 ATGCTAGACTAGAAG-AGAAGC
1 ATGCTAGAATAGAAGAAGAA-C
*
14617043 ATGCTAGAATTGAAGAAGAAC
1 ATGCTAGAATAGAAGAAGAAC
14617064 ATG
1 ATG
14617067 TTGTGATGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.44, C:0.11, G:0.27, T:0.18
Consensus pattern (21 bp):
ATGCTAGAATAGAAGAAGAAC
Found at i:14617311 original size:11 final size:12
Alignment explanation
Indices: 14617280--14617309 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
14617270 GAGTGGCCCA
*
14617280 ATAAAAAGCTTG
1 ATAAAAAGCTCG
14617292 ATAAAAAGCTCG
1 ATAAAAAGCTCG
14617304 ATAAAA
1 ATAAAA
14617310 GCCCATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.57, C:0.10, G:0.13, T:0.20
Consensus pattern (12 bp):
ATAAAAAGCTCG
Found at i:14618210 original size:19 final size:18
Alignment explanation
Indices: 14618186--14618227 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
14618176 TAAAATGAAT
14618186 TAAAAATCAAATCAAAAAA
1 TAAAAAT-AAATCAAAAAA
*
14618205 TAAAAAATAAATGAAAAAA
1 T-AAAAATAAATCAAAAAA
14618224 -AAAA
1 TAAAA
14618228 CCTTGTGATC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 4 0.19
19 11 0.52
20 6 0.29
ACGTcount: A:0.79, C:0.05, G:0.02, T:0.14
Consensus pattern (18 bp):
TAAAAATAAATCAAAAAA
Found at i:14618526 original size:31 final size:31
Alignment explanation
Indices: 14618473--14618531 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
14618463 ATTTCACCAA
* * * *
14618473 AAAATTTATATTCCATCGAAAAACTCATTGG
1 AAAATTCATATCCCACCAAAAAACTCATTGG
*
14618504 AAAATTCATATCCCACCAAAAAATTCAT
1 AAAATTCATATCCCACCAAAAAACTCAT
14618532 CAAAAAAATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 23 1.00
ACGTcount: A:0.46, C:0.20, G:0.05, T:0.29
Consensus pattern (31 bp):
AAAATTCATATCCCACCAAAAAACTCATTGG
Found at i:14618999 original size:3 final size:3
Alignment explanation
Indices: 14618985--14619044 Score: 102
Period size: 3 Copynumber: 20.0 Consensus size: 3
14618975 AAAAATGATT
* *
14618985 ATA ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATC ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
14619033 ATA ATA ATA ATA
1 ATA ATA ATA ATA
14619045 CTATCATATA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:14619183 original size:12 final size:13
Alignment explanation
Indices: 14619161--14619198 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
14619151 ATAAATAACA
*
14619161 AAATAATAATAGT
1 AAATAATAATAAT
14619174 AAATAA-AATAAT
1 AAATAATAATAAT
14619186 AAAATAATAATAA
1 -AAATAATAATAA
14619199 AAAAGAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 5 0.23
13 12 0.55
14 5 0.23
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (13 bp):
AAATAATAATAAT
Found at i:14619188 original size:8 final size:8
Alignment explanation
Indices: 14619153--14619195 Score: 50
Period size: 8 Copynumber: 5.1 Consensus size: 8
14619143 TATAATATAT
*
14619153 AAATAACA
1 AAATAATA
14619161 AAATAATA
1 AAATAATA
*
14619169 ATAGTAAATA
1 A-AAT-AATA
14619179 AAATAATA
1 AAATAATA
14619187 AAATAATA
1 AAATAATA
14619195 A
1 A
14619196 TAAAAAAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
8 21 0.70
9 4 0.13
10 5 0.17
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.23
Consensus pattern (8 bp):
AAATAATA
Found at i:14619189 original size:26 final size:27
Alignment explanation
Indices: 14619135--14619197 Score: 85
Period size: 26 Copynumber: 2.3 Consensus size: 27
14619125 GGGTGTCTAC
14619135 ATAATATATATAATATATAAATAACAAA
1 ATAATA-ATATAATATATAAATAACAAA
*
14619163 ATAATAATAGTAA-ATA-AAATAATAAA
1 ATAATAATA-TAATATATAAATAACAAA
14619189 ATAATAATA
1 ATAATAATA
14619198 AAAAAGAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
26 18 0.55
27 6 0.18
28 9 0.27
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (27 bp):
ATAATAATATAATATATAAATAACAAA
Found at i:14619853 original size:20 final size:21
Alignment explanation
Indices: 14619810--14619862 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
14619800 TTAGTAGAAC
* *
14619810 AAAACCAAAAAAACTTGCATA
1 AAAACAAAAAAAACTAGCATA
14619831 AAAACAAAAAAAACTAG--TA
1 AAAACAAAAAAAACTAGCATA
*
14619850 AAAA-AAATAAAAC
1 AAAACAAAAAAAAC
14619863 GAAGAGAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 8 0.28
19 6 0.21
21 15 0.52
ACGTcount: A:0.72, C:0.13, G:0.04, T:0.11
Consensus pattern (21 bp):
AAAACAAAAAAAACTAGCATA
Found at i:14619854 original size:21 final size:21
Alignment explanation
Indices: 14619796--14619855 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
14619786 AAGTAAGCAT
* *
14619796 AAAATTAGTAGAACAAAACCAAA
1 AAAACTAGTA-AA-AAAACAAAA
* * *
14619819 AAAACTTGCATAAAAACAAAA
1 AAAACTAGTAAAAAAACAAAA
14619840 AAAACTAGTAAAAAAA
1 AAAACTAGTAAAAAAA
14619856 ATAAAACGAA
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
21 21 0.72
22 1 0.03
23 7 0.24
ACGTcount: A:0.68, C:0.12, G:0.07, T:0.13
Consensus pattern (21 bp):
AAAACTAGTAAAAAAACAAAA
Found at i:14620067 original size:20 final size:21
Alignment explanation
Indices: 14620044--14620090 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
14620034 AAAAAAATAC
*
14620044 AAAAAGAAAAAAAT-AGGTAG
1 AAAAAGAAAAAAATAAGGAAG
*
14620064 -AAAAGAAAAATATAAGGAAG
1 AAAAAGAAAAAAATAAGGAAG
14620084 AAAAAGA
1 AAAAAGA
14620091 GTGGCATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 12 0.52
20 5 0.22
21 6 0.26
ACGTcount: A:0.72, C:0.00, G:0.19, T:0.09
Consensus pattern (21 bp):
AAAAAGAAAAAAATAAGGAAG
Found at i:14620321 original size:26 final size:26
Alignment explanation
Indices: 14620270--14620321 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
14620260 TTGTGAGCTT
*
14620270 ACCTTTTAAAAAAAAAAAGTATAAAG
1 ACCTTTTAAAAAAAAAAAGTAGAAAG
*
14620296 ACCTTTTAAACAAACAAAAG-AGAAAG
1 ACCTTTTAAA-AAAAAAAAGTAGAAAG
14620322 GCTTCAAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 15 0.65
27 8 0.35
ACGTcount: A:0.60, C:0.12, G:0.10, T:0.19
Consensus pattern (26 bp):
ACCTTTTAAAAAAAAAAAGTAGAAAG
Found at i:14620988 original size:6 final size:6
Alignment explanation
Indices: 14620979--14621025 Score: 58
Period size: 6 Copynumber: 7.8 Consensus size: 6
14620969 ATGTAAAATA
* * * *
14620979 AATAAC AATAAC AACAAC AACAAC AATAAC AATAAT AATAAT AATAA
1 AATAAC AATAAC AATAAC AATAAC AATAAC AATAAC AATAAC AATAA
14621026 AGAATGAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.68, C:0.15, G:0.00, T:0.17
Consensus pattern (6 bp):
AATAAC
Found at i:14621000 original size:9 final size:9
Alignment explanation
Indices: 14620982--14621016 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
14620972 TAAAATAAAT
14620982 AACAATAAC
1 AACAATAAC
*
14620991 AACAACAAC
1 AACAATAAC
14621000 AACAATAAC
1 AACAATAAC
*
14621009 AATAATAA
1 AACAATAA
14621017 TAATAATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.69, C:0.20, G:0.00, T:0.11
Consensus pattern (9 bp):
AACAATAAC
Found at i:14621167 original size:22 final size:22
Alignment explanation
Indices: 14621141--14621186 Score: 76
Period size: 23 Copynumber: 2.1 Consensus size: 22
14621131 GATATTAAGA
14621141 AATT-AAAATGAAAAATTAAATT
1 AATTAAAAATGAAAAATT-AATT
14621163 AATTAAAAATGAAAAATTAATT
1 AATTAAAAATGAAAAATTAATT
14621185 AA
1 AA
14621187 AAGAAAGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.30
Consensus pattern (22 bp):
AATTAAAAATGAAAAATTAATT
Found at i:14621483 original size:24 final size:23
Alignment explanation
Indices: 14621446--14621521 Score: 82
Period size: 24 Copynumber: 3.1 Consensus size: 23
14621436 CTAATAAGAT
*
14621446 AATAAAATAATAAAATTTTAATA
1 AATAAAATAATAAAAATTTAATA
14621469 AATAATAATAATAAAAATTTAATAA
1 AATAA-AATAATAAAAATTTAAT-A
*
14621494 AATGAAAAATATATAAAAATATAA-A
1 AAT--AAAATA-ATAAAAATTTAATA
14621519 AAT
1 AAT
14621522 TTATTTTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
23 5 0.11
24 16 0.35
25 8 0.17
26 4 0.09
27 13 0.28
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.30
Consensus pattern (23 bp):
AATAAAATAATAAAAATTTAATA
Found at i:14621493 original size:17 final size:17
Alignment explanation
Indices: 14621471--14621524 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 17
14621461 TTTTAATAAA
14621471 TAATAATAATAAAAATT
1 TAATAATAATAAAAATT
14621488 TAATAA-AATGAAAAATAT
1 TAATAATAAT-AAAAAT-T
*
14621506 ATAAAAAT-ATAAAAATT
1 -TAATAATAATAAAAATT
14621523 TA
1 TA
14621525 TTTTTTTTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
16 5 0.16
17 13 0.41
18 7 0.22
19 7 0.22
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (17 bp):
TAATAATAATAAAAATT
Found at i:14621665 original size:13 final size:13
Alignment explanation
Indices: 14621647--14621677 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
14621637 TAAGGTGAGA
14621647 CCTAAAATGAAAC
1 CCTAAAATGAAAC
14621660 CCT-AAATGAAAC
1 CCTAAAATGAAAC
14621672 CCTAAA
1 CCTAAA
14621678 CCCTAACTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.52, C:0.26, G:0.06, T:0.16
Consensus pattern (13 bp):
CCTAAAATGAAAC
Found at i:14621680 original size:19 final size:19
Alignment explanation
Indices: 14621656--14621742 Score: 86
Period size: 19 Copynumber: 4.6 Consensus size: 19
14621646 ACCTAAAATG
14621656 AAACCCTAAATGAAACCCT
1 AAACCCTAAATGAAACCCT
* * * *
14621675 AAACCCTAACTGTAACTCA
1 AAACCCTAAATGAAACCCT
* * *
14621694 AAACTCTAAATAAAATCCT
1 AAACCCTAAATGAAACCCT
*
14621713 AAACCCTAAATGAAA-CAT
1 AAACCCTAAATGAAACCCT
14621731 GAAACCCTAAAT
1 -AAACCCTAAAT
14621743 AAAGTCCAAA
Statistics
Matches: 53, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
18 2 0.04
19 51 0.96
ACGTcount: A:0.49, C:0.26, G:0.05, T:0.20
Consensus pattern (19 bp):
AAACCCTAAATGAAACCCT
Found at i:14621741 original size:38 final size:38
Alignment explanation
Indices: 14621653--14621755 Score: 118
Period size: 38 Copynumber: 2.7 Consensus size: 38
14621643 GAGACCTAAA
* * * *
14621653 ATGAAACCCTAAATGAAACCCTAAACCCTAACTGTAAC
1 ATGAAACCCTAAATAAAATCCTAAACCCTAAATGAAAC
* *
14621691 -TCAAAACTCTAAATAAAATCCTAAACCCTAAATGAAAC
1 AT-GAAACCCTAAATAAAATCCTAAACCCTAAATGAAAC
* *
14621729 ATGAAACCCTAAATAAAGTCCAAAACC
1 ATGAAACCCTAAATAAAATCCTAAACC
14621756 TTAATTCATT
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
37 1 0.02
38 51 0.96
39 1 0.02
ACGTcount: A:0.50, C:0.26, G:0.06, T:0.18
Consensus pattern (38 bp):
ATGAAACCCTAAATAAAATCCTAAACCCTAAATGAAAC
Found at i:14621754 original size:19 final size:18
Alignment explanation
Indices: 14621656--14621755 Score: 53
Period size: 19 Copynumber: 5.3 Consensus size: 18
14621646 ACCTAAAATG
* *
14621656 AAACCCTAAATGAAACCCT
1 AAACCCTAAAT-AAATCCA
* *
14621675 AAACCCTAACTGTAA-CTCA
1 AAACCCTAAAT-AAATC-CA
* *
14621694 AAACTCTAAATAAAATCCT
1 AAACCCTAAAT-AAATCCA
14621713 AAACCCTAAATGAAA--CA
1 AAACCCTAAAT-AAATCCA
14621730 TGAAACCCTAAATAAAGTCCA
1 --AAACCCTAAATAAA-TCCA
14621751 AAACC
1 AAACC
14621756 TTAATTCATT
Statistics
Matches: 63, Mismatches: 11, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
17 1 0.02
18 4 0.06
19 55 0.87
20 1 0.02
21 2 0.03
ACGTcount: A:0.50, C:0.27, G:0.05, T:0.18
Consensus pattern (18 bp):
AAACCCTAAATAAATCCA
Found at i:14622857 original size:26 final size:26
Alignment explanation
Indices: 14622807--14622857 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
14622797 AAAATTTTGG
* * *
14622807 ATTTAATTAGTTTTATTTGATATTTA
1 ATTTAATTACTTTTATTTAAAATTTA
*
14622833 ATTTAATTTCTTTTATTTAAAATTT
1 ATTTAATTACTTTTATTTAAAATTT
14622858 TTTTATAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (26 bp):
ATTTAATTACTTTTATTTAAAATTTA
Found at i:14627473 original size:16 final size:16
Alignment explanation
Indices: 14627452--14627486 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
14627442 GAGGCATATC
*
14627452 AAAAAAATA-AAAAGA
1 AAAAAAAAAGAAAAGA
14627467 AAAAAAAAAGAAAAGA
1 AAAAAAAAAGAAAAGA
14627483 AAAA
1 AAAA
14627487 TGATTATGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.89, C:0.00, G:0.09, T:0.03
Consensus pattern (16 bp):
AAAAAAAAAGAAAAGA
Found at i:14629289 original size:98 final size:98
Alignment explanation
Indices: 14629127--14629363 Score: 282
Period size: 98 Copynumber: 2.4 Consensus size: 98
14629117 ACACTCATGA
* * * * * * *
14629127 AAAGATTTAAG-CTAATTTAGCTAGCACCCAATAAAAATTTAAGCTTAAATTAGTTGGCACCCAA
1 AAAGTTTTAAGCCCAATTTAGTTAGCACCCAATGAAAATTTGAGC-CAATTTAGTTGGCACCCAA
* * *
14629191 TAAAAATTTAAGCTTAATTTAGCTAGCACCCAAT
65 TAAAAATTTAAACCTAATTTAACTAGCACCCAAT
*
14629225 GAAA-TTTTAAGCCCAATTTAGTT-GTCACTCAATGAAAATTTGAGCCAATTTAGTTGGCACCCA
1 -AAAGTTTTAAGCCCAATTTAGTTAG-CACCCAATGAAAATTTGAGCCAATTTAGTTGGCACCCA
* * *
14629288 ATGAAAATTTAAACCTAGTTTAACTAGCACTCAAT
64 ATAAAAATTTAAACCTAATTTAACTAGCACCCAAT
* *
14629323 AAAGTTTTACGCCTAATTTAGTTAGCACCCAATGAAAATTT
1 AAAGTTTTAAGCCCAATTTAGTTAGCACCCAATGAAAATTT
14629364 AAGCTCGGTT
Statistics
Matches: 117, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
97 3 0.03
98 84 0.72
99 30 0.26
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (98 bp):
AAAGTTTTAAGCCCAATTTAGTTAGCACCCAATGAAAATTTGAGCCAATTTAGTTGGCACCCAAT
AAAAATTTAAACCTAATTTAACTAGCACCCAAT
Found at i:14629375 original size:66 final size:66
Alignment explanation
Indices: 14628924--14629433 Score: 314
Period size: 66 Copynumber: 7.7 Consensus size: 66
14628914 TTCTAACATT
* * * * ** * *
14628924 AATAAAA-TTTAAGCCTAATTTAGCTAGCACCCAGT-AAAGATTTAAGC-CAAGATCAGCTGGTA
1 AATAAAATTTTAAGCCTAATTTAGTTAGCACCCAATGAAA-ATTTAAGCTCAA-TTTAATTAGCA
*
14628986 CCC
64 CTC
* * * *
14628989 AATGAAAA-TTTAAGCCTAATTTAAG-TGGCACTC-ATAAAAAGATTTAAGCTCAGA-TTAGTT-
1 AAT-AAAATTTTAAGCCTAATTT-AGTTAGCACCCAAT-GAAA-ATTTAAGCTCA-ATTTAATTA
14629049 GACACTC
61 G-CACTC
* * * * * ** * **
14629056 AAGAAAAGATTTAAGCCTATTTTAGTTAGGACTCAATGAAGTTTTAGGCTCAATTTAGCT-GACA
1 AATAAAA-TTTTAAGCCTAATTTAGTTAGCACCCAATGAAAATTTAAGCTCAATTTAATTAG-CA
14629120 CTC
64 CTC
* * * * * * *
14629123 -ATGAAAAGATTTAAG-CTAATTTAGCTAGCACCCAATAAAAATTTAAGCTTAAATTAGTTGGCA
1 AAT-AAAA-TTTTAAGCCTAATTTAGTTAGCACCCAATGAAAATTTAAGCTCAATTTAATTAGCA
*
14629186 CCC
64 CTC
* * * * * *
14629189 AATAAAAATTTAAGCTTAATTTAGCTAGCACCCAATGAAATTTTAAGCCCAATTTAGTT-GTCAC
1 AATAAAATTTTAAGCCTAATTTAGTTAGCACCCAATGAAAATTTAAGCTCAATTTAATTAG-CAC
14629253 TC
65 TC
* * * * *
14629255 AATGAAAA-TTTGAGCC-AATTTAGTTGGCACCCAATGAAAATTTAAAC-CTAGTTTAACTAGCA
1 AAT-AAAATTTTAAGCCTAATTTAGTTAGCACCCAATGAAAATTTAAGCTC-AATTTAATTAGCA
14629317 CTC
64 CTC
* * **
14629320 AATAAAGTTTTACGCCTAATTTAGTTAGCACCCAATGAAAATTTAAGCTCGGTTTAATTAGCACT
1 AATAAAATTTTAAGCCTAATTTAGTTAGCACCCAATGAAAATTTAAGCTCAATTTAATTAGCACT
14629385 C
66 C
* * **
14629386 AATAAAGTTTTAAGCCCAATTTAGTT-GACATTCAATGAAAATTTAAGC
1 AATAAAATTTTAAGCCTAATTTAGTTAG-CACCCAATGAAAATTTAAGC
14629434 CCAGATTAAC
Statistics
Matches: 365, Mismatches: 56, Indels: 47
0.78 0.12 0.10
Matches are distributed among these distances:
64 4 0.01
65 60 0.16
66 209 0.57
67 66 0.18
68 23 0.06
69 3 0.01
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (66 bp):
AATAAAATTTTAAGCCTAATTTAGTTAGCACCCAATGAAAATTTAAGCTCAATTTAATTAGCACT
C
Found at i:14629434 original size:33 final size:33
Alignment explanation
Indices: 14628988--14629436 Score: 235
Period size: 33 Copynumber: 13.6 Consensus size: 33
14628978 AGCTGGTACC
* *
14628988 CAATGAAAATTTAAGCCTAATTTAAG-TGGCACT
1 CAATGAAAATTTAAGCCCAATTT-AGTTGACACT
* *
14629021 C-ATAAAAAGATTTAAGCTCAGA-TTAGTTGACACT
1 CAAT-GAAA-ATTTAAGCCCA-ATTTAGTTGACACT
* * *
14629055 CAA-GAAAAGATTTAAGCCTATTTTAGTT-AGGACT
1 CAATG-AAA-ATTTAAGCCCAATTTAGTTGA-CACT
** * * *
14629089 CAATGAAGTTTTAGGCTCAATTTAGCTGACACT
1 CAATGAAAATTTAAGCCCAATTTAGTTGACACT
* * *
14629122 C-ATGAAAAGATTTAAG-CTAATTTAGCT-AGCACC
1 CAATG-AAA-ATTTAAGCCCAATTTAGTTGA-CACT
* ** * * *
14629155 CAATAAAAATTTAAGCTTAAATTAGTTGGCACC
1 CAATGAAAATTTAAGCCCAATTTAGTTGACACT
* ** * *
14629188 CAATAAAAATTTAAGCTTAATTTAGCT-AGCACC
1 CAATGAAAATTTAAGCCCAATTTAGTTGA-CACT
* *
14629221 CAATGAAATTTTAAGCCCAATTTAGTTGTCACT
1 CAATGAAAATTTAAGCCCAATTTAGTTGACACT
* * *
14629254 CAATGAAAATTTGAG-CCAATTTAGTTGGCACC
1 CAATGAAAATTTAAGCCCAATTTAGTTGACACT
* * * **
14629286 CAATGAAAATTTAAACCTAGTTTAACT-AGCACT
1 CAATGAAAATTTAAGCCCAATTTAGTTGA-CACT
* * * *
14629319 CAAT-AAAGTTTTACGCCTAATTTAGTT-AGCACC
1 CAATGAAA-ATTTAAGCCCAATTTAGTTGA-CACT
* ** *
14629352 CAATGAAAATTTAAGCTCGGTTTAATT-AGCACT
1 CAATGAAAATTTAAGCCCAATTTAGTTGA-CACT
* *
14629385 CAAT-AAAGTTTTAAGCCCAATTTAGTTGACATT
1 CAATGAAA-ATTTAAGCCCAATTTAGTTGACACT
14629418 CAATGAAAATTTAAGCCCA
1 CAATGAAAATTTAAGCCCA
14629437 GATTAACTTG
Statistics
Matches: 319, Mismatches: 72, Indels: 50
0.72 0.16 0.11
Matches are distributed among these distances:
32 47 0.15
33 209 0.66
34 60 0.19
35 3 0.01
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (33 bp):
CAATGAAAATTTAAGCCCAATTTAGTTGACACT
Found at i:14629571 original size:32 final size:33
Alignment explanation
Indices: 14629532--14629608 Score: 120
Period size: 32 Copynumber: 2.3 Consensus size: 33
14629522 GAGCTTAATG
14629532 AAAATTTAAGCCCAAATTAGTTGACAC-CAAGA
1 AAAATTTAAGCCCAAATTAGTTGACACTCAAGA
* *
14629564 AAAATTTAAGCCCAATTTAGTTGACACTCATGA
1 AAAATTTAAGCCCAAATTAGTTGACACTCAAGA
14629597 AAATATTTAAGC
1 AAA-ATTTAAGC
14629609 GTAACTTAGC
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
32 26 0.63
33 7 0.17
34 8 0.20
ACGTcount: A:0.44, C:0.17, G:0.12, T:0.27
Consensus pattern (33 bp):
AAAATTTAAGCCCAAATTAGTTGACACTCAAGA
Found at i:14629880 original size:31 final size:31
Alignment explanation
Indices: 14629845--14629942 Score: 108
Period size: 31 Copynumber: 3.2 Consensus size: 31
14629835 CTCAGATTAG
* *
14629845 CGATCACCCCATTCAACCTGCGATTCAATCT
1 CGATCACCTCATTCAACTTGCGATTCAATCT
* ** *
14629876 CGATCATCTCATTTGACTTGCGATTCAAGC-
1 CGATCACCTCATTCAACTTGCGATTCAATCT
**
14629906 CTGATCACCTCATTCAACTTGTAATTCAATCT
1 C-GATCACCTCATTCAACTTGCGATTCAATCT
14629938 CGATC
1 CGATC
14629943 TTTAGCTTTC
Statistics
Matches: 53, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
30 1 0.02
31 51 0.96
32 1 0.02
ACGTcount: A:0.26, C:0.32, G:0.11, T:0.32
Consensus pattern (31 bp):
CGATCACCTCATTCAACTTGCGATTCAATCT
Found at i:14630044 original size:27 final size:28
Alignment explanation
Indices: 14630014--14630074 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
14630004 AAATAAAAAT
* * *
14630014 AAAAAATACA-CAAAAAACAAGAAG-TA
1 AAAAAATACATAAAAAAACAAAAAGAGA
14630040 AAAAAATACATAAAAAAACAAAAAGAAGA
1 AAAAAATACATAAAAAAACAAAAAG-AGA
14630069 AAAAAA
1 AAAAAA
14630075 AGAAAACTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 10 0.34
27 12 0.41
29 7 0.24
ACGTcount: A:0.79, C:0.08, G:0.07, T:0.07
Consensus pattern (28 bp):
AAAAAATACATAAAAAAACAAAAAGAGA
Found at i:14630071 original size:26 final size:24
Alignment explanation
Indices: 14629999--14630071 Score: 74
Period size: 26 Copynumber: 2.9 Consensus size: 24
14629989 GGCAAAAACA
* *
14629999 AAAAAAAATAAAAATAAAAAATAC
1 AAAAAAAACAAAAAGAAAAAATAC
* *
14630023 ACAAAAAACAAGAAGTAAAAAAATAC
1 AAAAAAAACAAAAAG--AAAAAATAC
14630049 ATAAAAAAACAAAAAGAAGAAAA
1 A-AAAAAAACAAAAAGAA-AAAA
14630072 AAAAGAAAAC
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
24 11 0.28
25 2 0.05
26 14 0.36
27 12 0.31
ACGTcount: A:0.79, C:0.07, G:0.05, T:0.08
Consensus pattern (24 bp):
AAAAAAAACAAAAAGAAAAAATAC
Found at i:14630072 original size:18 final size:17
Alignment explanation
Indices: 14630051--14630119 Score: 57
Period size: 18 Copynumber: 3.8 Consensus size: 17
14630041 AAAAATACAT
14630051 AAAAAAACAAAAAGAAGA
1 AAAAAAACAAAAAGAA-A
* *
14630069 AAAAAAAGAAAACTGAAA
1 AAAAAAACAAAA-AGAAA
* *
14630087 ACAAAAACAAAAACAAA
1 AAAAAAACAAAAAGAAA
14630104 AATAAATAACCAAAAA
1 AA-AAA-AA-CAAAAA
14630120 AATCTTCTTA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
17 4 0.10
18 25 0.62
19 5 0.12
20 6 0.15
ACGTcount: A:0.80, C:0.10, G:0.06, T:0.04
Consensus pattern (17 bp):
AAAAAAACAAAAAGAAA
Found at i:14630538 original size:25 final size:24
Alignment explanation
Indices: 14630509--14630575 Score: 64
Period size: 27 Copynumber: 2.5 Consensus size: 24
14630499 AAAAAACCAA
14630509 ATATAAAAAATACATA-TAAATATAT
1 ATATAAAAAATA-ATAGTAAATAT-T
14630534 ATATAAATAAACATAATAGTAAATATT
1 ATAT-AA-AAA-ATAATAGTAAATATT
14630561 ATAATAAAATAATAA
1 AT-ATAAAA-AATAA
14630576 AAAAGAAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
25 4 0.11
26 8 0.22
27 12 0.33
28 12 0.33
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.31
Consensus pattern (24 bp):
ATATAAAAAATAATAGTAAATATT
Found at i:14630704 original size:22 final size:22
Alignment explanation
Indices: 14630679--14630722 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
14630669 CCTCAAAGCC
*
14630679 CAAAACAAAAAGAGAATGCAAG
1 CAAAACAAAAACAGAATGCAAG
* **
14630701 CAAAGCCCAAACAGAATGCAAG
1 CAAAACAAAAACAGAATGCAAG
14630723 ATTTCAAAGT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.57, C:0.20, G:0.18, T:0.05
Consensus pattern (22 bp):
CAAAACAAAAACAGAATGCAAG
Found at i:14632415 original size:3 final size:3
Alignment explanation
Indices: 14632407--14632442 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
14632397 TTATTAAAAC
14632407 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATAA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA AT
14632443 GAAAAAGTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:14632583 original size:18 final size:19
Alignment explanation
Indices: 14632548--14632595 Score: 71
Period size: 18 Copynumber: 2.6 Consensus size: 19
14632538 GATGTTGAAA
14632548 AATTAAAAAAAAATAAATT
1 AATTAAAAAAAAATAAATT
**
14632567 AATTAAAAATTAA-AAATT
1 AATTAAAAAAAAATAAATT
14632585 AATTAAAAAAA
1 AATTAAAAAAA
14632596 GGAAAATTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 14 0.56
19 11 0.44
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (19 bp):
AATTAAAAAAAAATAAATT
Found at i:14632862 original size:19 final size:19
Alignment explanation
Indices: 14632830--14632884 Score: 69
Period size: 18 Copynumber: 2.9 Consensus size: 19
14632820 AATTATTAAC
14632830 TAATAAGATAATAAAATAA
1 TAATAAGATAATAAAATAA
14632849 TAA-AAGATTAAT-AAATAA
1 TAATAAGA-TAATAAAATAA
*
14632867 TAATAATAATAATAAAAT
1 TAATAA-GATAATAAAAT
14632885 TTTAATAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 13 0.42
19 13 0.42
20 5 0.16
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (19 bp):
TAATAAGATAATAAAATAA
Found at i:14632880 original size:30 final size:29
Alignment explanation
Indices: 14632837--14632893 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
14632827 AACTAATAAG
14632837 ATAATAAAATAATAAAAGATTAATAAATA
1 ATAATAAAATAATAAAAGATTAATAAATA
**
14632866 ATAATAATAATAATAAAATTTTAATAAA
1 ATAATAA-AATAATAAAAGATTAATAAA
14632894 AGGAAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (29 bp):
ATAATAAAATAATAAAAGATTAATAAATA
Found at i:14633095 original size:19 final size:20
Alignment explanation
Indices: 14633071--14633160 Score: 116
Period size: 19 Copynumber: 4.7 Consensus size: 20
14633061 ACCTAAACTA
*
14633071 AAACCCTAAATGAAACTC-C
1 AAACCCTAAATGAAACTCTG
* *
14633090 AAACCCTAGATGCAACTC-G
1 AAACCCTAAATGAAACTCTG
*
14633109 AAACCCTAAATGAAA-TCTT
1 AAACCCTAAATGAAACTCTG
14633128 AAACCCTAAATGAAAC-CTG
1 AAACCCTAAATGAAACTCTG
14633147 AAACCCTAAATGAA
1 AAACCCTAAATGAA
14633161 GTCCAAAACC
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
18 2 0.03
19 60 0.97
ACGTcount: A:0.47, C:0.27, G:0.09, T:0.18
Consensus pattern (20 bp):
AAACCCTAAATGAAACTCTG
Found at i:14633169 original size:19 final size:19
Alignment explanation
Indices: 14633070--14633170 Score: 82
Period size: 19 Copynumber: 5.3 Consensus size: 19
14633060 AACCTAAACT
14633070 AAAACCCTAAATGAAACTCC
1 AAAACCCTAAATG-AACTCC
*
14633090 -AAACCCTAGATGCAACT-C
1 AAAACCCTAAATG-AACTCC
* * *
14633108 GAAACCCTAAATGAAATCT
1 AAAACCCTAAATGAACTCC
* *
14633127 TAAACCCTAAATGAAAC-CT
1 AAAACCCTAAATG-AACTCC
* *
14633146 GAAACCCTAAATGAAGTCC
1 AAAACCCTAAATGAACTCC
14633165 AAAACC
1 AAAACC
14633171 TTAATCCATT
Statistics
Matches: 66, Mismatches: 11, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
18 6 0.09
19 58 0.88
20 2 0.03
ACGTcount: A:0.47, C:0.28, G:0.09, T:0.17
Consensus pattern (19 bp):
AAAACCCTAAATGAACTCC
Found at i:14635369 original size:16 final size:16
Alignment explanation
Indices: 14635348--14635378 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14635338 AAGATTTTAA
14635348 AAAAAAAAAAAAAAGC
1 AAAAAAAAAAAAAAGC
*
14635364 AAAAAAAATAAAAAG
1 AAAAAAAAAAAAAAG
14635379 GGTAGGGTCG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.87, C:0.03, G:0.06, T:0.03
Consensus pattern (16 bp):
AAAAAAAAAAAAAAGC
Found at i:14636616 original size:18 final size:18
Alignment explanation
Indices: 14636588--14636632 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
14636578 GAGTTAAGAG
14636588 AAAAA-AAAAACACA-AAA
1 AAAAATAAAAACA-ATAAA
*
14636605 AACAATAAAAACAATAAA
1 AAAAATAAAAACAATAAA
14636623 AAAAATAAAA
1 AAAAATAAAA
14636633 GGTTTAATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 5 0.21
18 19 0.79
ACGTcount: A:0.84, C:0.09, G:0.00, T:0.07
Consensus pattern (18 bp):
AAAAATAAAAACAATAAA
Found at i:14637305 original size:16 final size:15
Alignment explanation
Indices: 14637281--14637319 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
14637271 AGGGTGAAAT
14637281 AATAATAATTTTTAAA
1 AATAATAA-TTTTAAA
*
14637297 AATAGTAATTTTAAA
1 AATAATAATTTTAAA
14637312 AA-AATAAT
1 AATAATAAT
14637320 CTTGAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 5 0.24
15 9 0.43
16 7 0.33
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (15 bp):
AATAATAATTTTAAA
Found at i:14638392 original size:18 final size:19
Alignment explanation
Indices: 14638369--14638404 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
14638359 TTTCTCATTT
*
14638369 TTTATTACTT-ATTTTTAA
1 TTTATTAATTAATTTTTAA
14638387 TTTATTAATTAATTTTTA
1 TTTATTAATTAATTTTTA
14638405 TTATTTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTATTAATTAATTTTTAA
Found at i:14639919 original size:27 final size:27
Alignment explanation
Indices: 14639889--14639969 Score: 117
Period size: 27 Copynumber: 3.0 Consensus size: 27
14639879 TTGGGCATGG
* *
14639889 TTGAATTGAAATTGGGCGTCAGCCCGA
1 TTGAATTGAATTTGGGCATCAGCCCGA
*
14639916 TTGAATTGAATTTGGGCATCAGCTCGA
1 TTGAATTGAATTTGGGCATCAGCCCGA
* *
14639943 TTGAATTGAATTTGGGCCTCAACCCGA
1 TTGAATTGAATTTGGGCATCAGCCCGA
14639970 AAATCCAAGA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (27 bp):
TTGAATTGAATTTGGGCATCAGCCCGA
Found at i:14645165 original size:3 final size:3
Alignment explanation
Indices: 14645157--14645197 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
14645147 GGACCCATTT
14645157 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
14645198 TTGGTTTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:14646076 original size:13 final size:13
Alignment explanation
Indices: 14646058--14646102 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
14646048 AGCCGTTTCA
14646058 ATTTTTTTTTGGT
1 ATTTTTTTTTGGT
*
14646071 ATTTTTTGTT--T
1 ATTTTTTTTTGGT
*
14646082 A-TTTTCTTTGGT
1 ATTTTTTTTTGGT
14646094 ATTTTTTTT
1 ATTTTTTTT
14646103 CTTTTATTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
10 6 0.24
11 2 0.08
12 2 0.08
13 15 0.60
ACGTcount: A:0.09, C:0.02, G:0.11, T:0.78
Consensus pattern (13 bp):
ATTTTTTTTTGGT
Found at i:14646077 original size:12 final size:12
Alignment explanation
Indices: 14646060--14646102 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
14646050 CCGTTTCAAT
14646060 TTTTTTTTGGTA
1 TTTTTTTTGGTA
14646072 TTTTTTGTT--TA
1 TTTTTT-TTGGTA
*
14646083 TTTTCTTTGGTA
1 TTTTTTTTGGTA
14646095 TTTTTTTT
1 TTTTTTTT
14646103 CTTTTATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 2 0.08
11 7 0.27
12 15 0.58
13 2 0.08
ACGTcount: A:0.07, C:0.02, G:0.12, T:0.79
Consensus pattern (12 bp):
TTTTTTTTGGTA
Found at i:14646350 original size:58 final size:61
Alignment explanation
Indices: 14646180--14646420 Score: 180
Period size: 60 Copynumber: 3.9 Consensus size: 61
14646170 AAAAAAATAT
* * *
14646180 AAAATAAAATTTTTAAGAAAGAT-ATTTTTAAGAAAAAGTTG-AAAGTATCAATTTTTC-TTA
1 AAAATAAAA-TTTCAA-AAAAATAATTTTTAAGAAAAAGTTGAAAAGTATCAATTTTTCTTTG
* * * * *
14646240 AAAATAAAAAAATCTC-AAAAAGT-ATTTTGAGGAAAAA-TTGAAAGTTCGAAAGTATTAATTTT
1 AAAAT---AAAATTTCAAAAAAATAATTTTTAAGAAAAAGTTG--A-----AAAGTATCAATTTT
14646302 TC-TTG
56 TCTTTG
*
14646307 -AAATCAAAATTTCAAAAAAA-AATTTTTGAGAAAAAGTT-AAAAGTATCAA-TTTTCTTTG
1 AAAAT-AAAATTTCAAAAAAATAATTTTTAAGAAAAAGTTGAAAAGTATCAATTTTTCTTTG
* *
14646365 AAAATAAAATTTCAAAAAAATTTATTTTTAAGGAAAAGTTGAAAAGTATCAATTTT
1 AAAATAAAATTTCAAAAAAA-TAATTTTTAAGAAAAAGTTGAAAAGTATCAATTTT
14646421 CATTGTATAA
Statistics
Matches: 143, Mismatches: 18, Indels: 38
0.72 0.09 0.19
Matches are distributed among these distances:
57 5 0.03
58 27 0.19
59 7 0.05
60 36 0.25
61 12 0.08
62 5 0.03
63 5 0.03
64 7 0.05
65 16 0.11
66 6 0.04
67 17 0.12
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.35
Consensus pattern (61 bp):
AAAATAAAATTTCAAAAAAATAATTTTTAAGAAAAAGTTGAAAAGTATCAATTTTTCTTTG
Found at i:14646350 original size:66 final size:65
Alignment explanation
Indices: 14646213--14646350 Score: 147
Period size: 66 Copynumber: 2.1 Consensus size: 65
14646203 ATTTTTAAGA
**
14646213 AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAAAATCTCAAAAAGTATTTTGAGGAAAAAT
1 AAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAAAAATCTCAAAAAAAATTTTGAGGAAAAAT
14646278 T
65 T
* * * * *
14646279 GAAAGTTCGAAAGTATTAATTTTTCTT-GAAAT-CAAAATTTCAAAAAAAAATTTTTGA-GAAAA
1 AAAAGTT-GAAAGTATCAATTTTTCTTAAAAATAAAAAATCTC-AAAAAAAA-TTTTGAGGAAAA
14646341 AGTT
63 A-TT
14646345 AAAAGT
1 AAAAGT
14646351 ATCAATTTTC
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
64 7 0.12
65 12 0.20
66 23 0.38
67 18 0.30
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.33
Consensus pattern (65 bp):
AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAAATCTCAAAAAAAATTTTGAGGAAAAATT
Found at i:14646421 original size:61 final size:60
Alignment explanation
Indices: 14646280--14646421 Score: 177
Period size: 58 Copynumber: 2.4 Consensus size: 60
14646270 GGAAAAATTG
* *
14646280 AAAGTTCG-AAAGTATTAATTTT-TCTTGAAATCAAAATTTCAAAAAAAAATTTTTGAGAA
1 AAAGTT-GAAAAGTATCAATTTTCTCTTGAAATCAAAATTTCAAAAAAAAATTTTTAAGAA
* *
14646339 AAAGTT-AAAAGTATCAATTTTCT-TTGAAAAT-AAAATTTCAAAAAAATTTATTTTTAAGGA
1 AAAGTTGAAAAGTATCAATTTTCTCTTG-AAATCAAAATTTCAAAAAAA--AATTTTTAAGAA
14646399 AAAGTTGAAAAGTATCAATTTTC
1 AAAGTTGAAAAGTATCAATTTTC
14646422 ATTGTATAAA
Statistics
Matches: 73, Mismatches: 4, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
58 31 0.42
59 11 0.15
60 15 0.21
61 16 0.22
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.37
Consensus pattern (60 bp):
AAAGTTGAAAAGTATCAATTTTCTCTTGAAATCAAAATTTCAAAAAAAAATTTTTAAGAA
Found at i:14650329 original size:29 final size:29
Alignment explanation
Indices: 14650288--14650369 Score: 84
Period size: 31 Copynumber: 2.9 Consensus size: 29
14650278 GGAAAGAGAA
14650288 AAAAATG-AAAAATAGATGGAAAAAAATT
1 AAAAATGAAAAAATAGATGGAAAAAAATT
*
14650316 AAAAATGAAAAAATAAGA-GAAAAAAAAAATT
1 AAAAATGAAAAAAT-AGATG--GAAAAAAATT
14650347 -AAAATGTAAAAAA-AGAT-GAAAAA
1 AAAAATG-AAAAAATAGATGGAAAAA
14650370 TAAAGACTCA
Statistics
Matches: 46, Mismatches: 2, Indels: 13
0.75 0.03 0.21
Matches are distributed among these distances:
27 5 0.11
28 7 0.15
29 10 0.22
30 9 0.20
31 15 0.33
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.15
Consensus pattern (29 bp):
AAAAATGAAAAAATAGATGGAAAAAAATT
Found at i:14650345 original size:31 final size:30
Alignment explanation
Indices: 14650307--14650369 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
14650297 AAATAGATGG
14650307 AAAAAAATTAAAAATGAAAAAATAAGA-GAAA
1 AAAAAAATT-AAAATGAAAAAA-AAGATGAAA
*
14650338 AAAAAAATTAAAATGTAAAAAAAGATGAAA
1 AAAAAAATTAAAATGAAAAAAAAGATGAAA
14650368 AA
1 AA
14650370 TAAAGACTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 4 0.13
30 17 0.57
31 9 0.30
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.14
Consensus pattern (30 bp):
AAAAAAATTAAAATGAAAAAAAAGATGAAA
Found at i:14651126 original size:59 final size:59
Alignment explanation
Indices: 14651016--14651128 Score: 136
Period size: 59 Copynumber: 1.9 Consensus size: 59
14651006 CAAATAATGA
* * * * *
14651016 AGATCAATGGACAAAATTCATTCTAGAATGGCTAGTGCTGAGAAGCCTGTGAATAGCAT
1 AGATCAATGGACAAAATTCATTCTAAAATAGCTACTGCTAAAAAGCCTGTGAATAGCAT
* ** * *
14651075 AGATCAATGGACAGAATTTGTTCTAAAATAGTTACTGCTAAAAAGCTTGTGAAT
1 AGATCAATGGACAAAATTCATTCTAAAATAGCTACTGCTAAAAAGCCTGTGAAT
14651129 GGTGATCAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
59 44 1.00
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.28
Consensus pattern (59 bp):
AGATCAATGGACAAAATTCATTCTAAAATAGCTACTGCTAAAAAGCCTGTGAATAGCAT
Found at i:14651228 original size:79 final size:79
Alignment explanation
Indices: 14651067--14651216 Score: 201
Period size: 79 Copynumber: 1.9 Consensus size: 79
14651057 GAAGCCTGTG
* * *
14651067 AATAGCATAGATCAATGGACAGAATTTGTTCTAAAATAGTTACTGCTAAAAAGCTTGTGAATGGT
1 AATAGCATAGATCAATAGACAGAATTTGTTCTAAAATAGTTACTACTAAAAAGCTTATGAATGGT
14651132 GATCAAACGATAAA
66 GATCAAACGATAAA
* * * * * * *
14651146 AATAGTATGGATCAATAGATAGAATTTGTTCTGAAATAGTTACTATTGAGAAGCTTATGAATGGT
1 AATAGCATAGATCAATAGACAGAATTTGTTCTAAAATAGTTACTACTAAAAAGCTTATGAATGGT
*
14651211 GGTCAA
66 GATCAA
14651217 GTGATGAAAA
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
79 60 1.00
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.31
Consensus pattern (79 bp):
AATAGCATAGATCAATAGACAGAATTTGTTCTAAAATAGTTACTACTAAAAAGCTTATGAATGGT
GATCAAACGATAAA
Found at i:14651669 original size:21 final size:21
Alignment explanation
Indices: 14651641--14651700 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
14651631 ATTTGAATCC
*
14651641 TCAAATGAGAATCTTTTAGTGT
1 TCAAATGAGAATCTTTTAAT-T
*
14651663 T-AAATGAGAATCTTTGAATT
1 TCAAATGAGAATCTTTTAATT
14651683 TCAAATGAGAAT-TTTTAA
1 TCAAATGAGAATCTTTTAA
14651701 GGTGTGAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 7 0.21
21 26 0.76
22 1 0.03
ACGTcount: A:0.38, C:0.07, G:0.15, T:0.40
Consensus pattern (21 bp):
TCAAATGAGAATCTTTTAATT
Found at i:14651746 original size:20 final size:21
Alignment explanation
Indices: 14651721--14651776 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
14651711 CCAAAATTTG
*
14651721 TCAAATGTGAATCTTCAAA-T
1 TCAAATGAGAATCTTCAAATT
* *
14651741 TCAAATGAGAATTTTTAAATT
1 TCAAATGAGAATCTTCAAATT
14651762 TCAAATGAGAATCTT
1 TCAAATGAGAATCTT
14651777 TGAGGTATGA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 16 0.52
21 15 0.48
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.38
Consensus pattern (21 bp):
TCAAATGAGAATCTTCAAATT
Found at i:14651773 original size:79 final size:79
Alignment explanation
Indices: 14651664--14651957 Score: 362
Period size: 79 Copynumber: 3.7 Consensus size: 79
14651654 TTTTAGTGTT
*
14651664 AAATGAGAATCTTTGAATTTCAAATGAGAATTTTTAAGGTGTGAAACCCAAAATTTGTCAAATGT
1 AAATGAGAATCTTTAAATTTCAAATGAGAATTTTTAAGGTGTGAAACCCAAAATTTGTCAAATGT
*
14651729 GAATCTTCAAATTC
66 GAATCTTCGAATTC
* * * * * **
14651743 AAATGAGAATTTTTAAATTTCAAATGAGAATCTTTGAGGTATGAAATCCAAAATTTGTTGAATGT
1 AAATGAGAATCTTTAAATTTCAAATGAGAATTTTTAAGGTGTGAAACCCAAAATTTGTCAAATGT
*
14651808 GAATC-TCTGAATTT
66 GAATCTTC-GAATTC
* * ** *
14651822 AAATAAGAATCTTTGAATTTCAAATGAGAATTTTTGAAGGTGTGAAACTTAAAATTTGTCAAAGG
1 AAATGAGAATCTTTAAATTTCAAATGAGAATTTTT-AAGGTGTGAAACCCAAAATTTGTCAAATG
14651887 TGAATCTTCGAATTC
65 TGAATCTTCGAATTC
* * * *
14651902 AAATGAGAATCTTTAAATTT---ATGAGAATATTTGAGATGTGAAACCCTAAAGTTTGT
1 AAATGAGAATCTTTAAATTTCAAATGAGAATTTTTAAGGTGTGAAACCC-AAAATTTGT
14651958 TTGGATGCAA
Statistics
Matches: 180, Mismatches: 31, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
76 10 0.06
77 19 0.11
78 2 0.01
79 97 0.54
80 50 0.28
81 2 0.01
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.36
Consensus pattern (79 bp):
AAATGAGAATCTTTAAATTTCAAATGAGAATTTTTAAGGTGTGAAACCCAAAATTTGTCAAATGT
GAATCTTCGAATTC
Found at i:14651851 original size:21 final size:20
Alignment explanation
Indices: 14651803--14651859 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
14651793 AAATTTGTTG
* *
14651803 AATGTGAATCTCTGAATTTA
1 AATGAGAATCTTTGAATTTA
*
14651823 AATAAGAATCTTTGAATTTCA
1 AATGAGAATCTTTGAATTT-A
*
14651844 AATGAGAATTTTTGAA
1 AATGAGAATCTTTGAA
14651860 GGTGTGAAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
20 16 0.52
21 15 0.48
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.39
Consensus pattern (20 bp):
AATGAGAATCTTTGAATTTA
Found at i:14652267 original size:16 final size:16
Alignment explanation
Indices: 14652233--14652298 Score: 53
Period size: 16 Copynumber: 4.2 Consensus size: 16
14652223 GTCTTGCAAT
**
14652233 TTGCAAATACGAA-TC
1 TTGCAAATTTGAATTC
14652248 TTGCAAATTTGAATTC
1 TTGCAAATTTGAATTC
** ** *
14652264 TTGCGGACCTGAAATC
1 TTGCAAATTTGAATTC
*
14652280 TTGCAAGTTTGAATTC
1 TTGCAAATTTGAATTC
14652296 TTG
1 TTG
14652299 TGAAACTGAA
Statistics
Matches: 37, Mismatches: 13, Indels: 1
0.73 0.25 0.02
Matches are distributed among these distances:
15 11 0.30
16 26 0.70
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (16 bp):
TTGCAAATTTGAATTC
Found at i:14652308 original size:32 final size:32
Alignment explanation
Indices: 14652244--14652308 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
14652234 TGCAAATACG
* *
14652244 AATCTTGCAAATTTGAATTCTTGCGGACCTGA
1 AATCTTGCAAATTTGAATTCTTGCGAAACTGA
* *
14652276 AATCTTGCAAGTTTGAATTCTTGTGAAACTGA
1 AATCTTGCAAATTTGAATTCTTGCGAAACTGA
14652308 A
1 A
14652309 GTTTTGAGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.35
Consensus pattern (32 bp):
AATCTTGCAAATTTGAATTCTTGCGAAACTGA
Found at i:14652631 original size:49 final size:47
Alignment explanation
Indices: 14652469--14652650 Score: 173
Period size: 44 Copynumber: 3.9 Consensus size: 47
14652459 TCAAAAAGTA
* * * *
14652469 ATTTATTTTTTCAAAAGTTG-TGAGCCTCTGATTAGAGGAGCCTTATTT
1 ATTTATTTTCTC-AAAGTCGTTGAGCTTCTGATTAGAGGAG-CTTTTTT
*
14652517 ATTT-TTTT-TC-AAGTTGTTGAGCTTCTGATTAGAGGAGCTTTGTTT
1 ATTTATTTTCTCAAAGTCGTTGAGCTTCTGATTAGAGGAGCTTT-TTT
*
14652562 A--T-TTTTC-CAAAGTCGTTGAGCTTCTGGTTAGAGGAGCTTTTTTT
1 ATTTATTTTCTCAAAGTCGTTGAGCTTCTGATTAGAGGAGC-TTTTTT
* * * *
14652606 TTTTATGTTTCTCAAAGTCGTTGAGCATCTGTTTAGAGTAGCTTT
1 ATTTAT-TTTCTCAAAGTCGTTGAGCTTCTGATTAGAGGAGCTTT
14652651 GATAAAAAAT
Statistics
Matches: 116, Mismatches: 8, Indels: 20
0.81 0.06 0.14
Matches are distributed among these distances:
43 6 0.05
44 38 0.33
45 26 0.22
46 3 0.03
47 5 0.04
48 11 0.09
49 27 0.23
ACGTcount: A:0.20, C:0.12, G:0.21, T:0.47
Consensus pattern (47 bp):
ATTTATTTTCTCAAAGTCGTTGAGCTTCTGATTAGAGGAGCTTTTTT
Found at i:14652857 original size:6 final size:6
Alignment explanation
Indices: 14652846--14652895 Score: 52
Period size: 6 Copynumber: 8.8 Consensus size: 6
14652836 GATGGGCTCA
* * *
14652846 TTTTAT TTTTAT TTTTAT TTTCAT TATTAT TATTA- -TTTAT TTTT-T
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
14652891 TTTTA
1 TTTTA
14652896 GTTTATTCGT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
4 3 0.08
5 5 0.14
6 29 0.78
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:14654035 original size:128 final size:119
Alignment explanation
Indices: 14653860--14654171 Score: 323
Period size: 115 Copynumber: 2.6 Consensus size: 119
14653850 AATAAAATAT
* * *
14653860 AAAA-TAAAATTTTCAAGAAAAATATTTTTAAGAAAAAGTTAAAAGTATCAATTTTCCTTGAAAA
1 AAAATTAAAA-TTTCAAAAAAAATA-TTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAA
*
14653924 TAAAAAAAAATCTCAAAAAGTA-TTTTAAGGAAAAATTGAAAGTTTGAAAGTATCAATTTTCCTT
64 TAAAAAAAAATCT-AAAAA-TATTTTTAAGG----A---AAAG-TTAAAAGTATCAATTTTCCTT
14653988 G
119 G
* *
14653989 -AAATTAAAATTTCAAAAAAAAATATTTTGAGAAAAAGTTGAAAGTATCAATTTTTTTTGAAAAT
1 AAAATTAAAATTTC-AAAAAAAATATTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT
** * *
14654053 --AAAAATTTCTAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCTTTG
65 AAAAAAAAATCTAAAAATATTTTTAAGGAAAAGTTAAAAGTATCAATTTTCCTTG
* * * * *
14654106 AAAATAAAAATTTC--TAAAAATATTTTTAGGAAAAGTTGAAAGTATAAATTTTTCTTGAAAATA
1 AAAATTAAAATTTCAAAAAAAATATTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATA
14654169 AAA
66 AAA
14654172 TTTTTAAAAA
Statistics
Matches: 161, Mismatches: 16, Indels: 24
0.80 0.08 0.12
Matches are distributed among these distances:
115 43 0.27
117 22 0.14
118 16 0.10
121 1 0.01
124 2 0.01
125 12 0.07
126 8 0.05
128 43 0.27
129 14 0.09
ACGTcount: A:0.50, C:0.05, G:0.10, T:0.35
Consensus pattern (119 bp):
AAAATTAAAATTTCAAAAAAAATATTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATA
AAAAAAAATCTAAAAATATTTTTAAGGAAAAGTTAAAAGTATCAATTTTCCTTG
Found at i:14654095 original size:58 final size:58
Alignment explanation
Indices: 14653877--14654181 Score: 303
Period size: 58 Copynumber: 5.1 Consensus size: 58
14653867 AATTTTCAAG
* * * **
14653877 AAAAATATTTTTAAGAAAAAGTTAAAAGTATCAATTTTCCTTGAAAATAAAAAAAAATCT
1 AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT--AAAAATTTCT
* *
14653937 CAAAAAGTA-TTTTAAGGAAAAATTGAAAGTTTGAAAGTATCAATTTTCCTTG-AAATTAAAATT
1 -AAAAA-TATTTTTGAGG----A---AAAG-TTGAAAGTATCAATTTTCCTTGAAAATAAAAATT
*
14654000 TCAA
56 TC-T
* * **
14654004 AAAAAAATATTTTGAGAAAAAGTTGAAAGTATCAATTTTTTTTGAAAATAAAAATTTCT
1 AAAAATAT-TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAATTTCT
* *
14654063 AAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCTTTGAAAATAAAAATTTCT
1 AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAATTTCT
* * *
14654121 AAAAATATTTTT-AGGAAAAGTTGAAAGTATAAATTTTTCTTGAAAAT-AAAATTTTT
1 AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAATTTCT
14654177 AAAAA
1 AAAAA
14654182 ATATATATAT
Statistics
Matches: 209, Mismatches: 22, Indels: 31
0.80 0.08 0.12
Matches are distributed among these distances:
56 13 0.06
57 31 0.15
58 59 0.28
59 27 0.13
60 16 0.08
61 12 0.06
62 2 0.01
63 1 0.00
65 2 0.01
66 11 0.05
67 6 0.03
68 8 0.04
69 21 0.10
ACGTcount: A:0.50, C:0.05, G:0.10, T:0.36
Consensus pattern (58 bp):
AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAATTTCT
Found at i:14654174 original size:18 final size:19
Alignment explanation
Indices: 14654141--14654176 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
14654131 TTAGGAAAAG
*
14654141 TTGAAAGTATAAATTTTTC
1 TTGAAAATATAAATTTTTC
14654160 TTGAAAATA-AAATTTTT
1 TTGAAAATATAAATTTTT
14654177 AAAAAATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (19 bp):
TTGAAAATATAAATTTTTC
Found at i:14656263 original size:46 final size:46
Alignment explanation
Indices: 14656191--14656370 Score: 231
Period size: 46 Copynumber: 3.9 Consensus size: 46
14656181 TTTATTATGT
*
14656191 TTTATTTTCAAAAGTTATGGAGCCTCTAATGA-AAGAGTCTTTTAAA
1 TTTATTTTCAAAAGTTATAGAGCCTCTAATGAGAAGAG-CTTTTAAA
*
14656237 TTTATTTTCAAAAGTTATAGACCCTCTAATGAGATA-AGCTTTTAAA
1 TTTATTTTCAAAAGTTATAGAGCCTCTAATGAGA-AGAGCTTTTAAA
* * * *
14656283 TTTGTTTTCAAAAGTTGTAGAACCTCTAATGAGATGAGCTTTTAAA
1 TTTATTTTCAAAAGTTATAGAGCCTCTAATGAGAAGAGCTTTTAAA
* * * *
14656329 TCTATTTTCAAATGTTGTGGAGCCTCTAATGAGAAGAG-TTTT
1 TTTATTTTCAAAAGTTATAGAGCCTCTAATGAGAAGAGCTTTT
14656371 CAAGAATTTA
Statistics
Matches: 119, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
45 4 0.03
46 111 0.93
47 3 0.03
48 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (46 bp):
TTTATTTTCAAAAGTTATAGAGCCTCTAATGAGAAGAGCTTTTAAA
Found at i:14656419 original size:26 final size:27
Alignment explanation
Indices: 14656390--14656441 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
14656380 AAAAAATATA
14656390 TTCAAAAAA-ATTAAAAAAAATCAAAG
1 TTCAAAAAATATTAAAAAAAATCAAAG
*
14656416 TTCAAAAAATTTTAAAAAAAATCAAA
1 TTCAAAAAATATTAAAAAAAATCAAA
14656442 ATTTAAAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.67, C:0.08, G:0.02, T:0.23
Consensus pattern (27 bp):
TTCAAAAAATATTAAAAAAAATCAAAG
Found at i:14656448 original size:17 final size:19
Alignment explanation
Indices: 14656421--14656455 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
14656411 CAAAGTTCAA
14656421 AAAATTTTAAAA-AAAATC
1 AAAATTTTAAAAGAAAATC
14656439 AAAA-TTTAAAAGAAAAT
1 AAAATTTTAAAAGAAAAT
14656456 TTGAAAATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.26
Consensus pattern (19 bp):
AAAATTTTAAAAGAAAATC
Found at i:14656826 original size:4 final size:4
Alignment explanation
Indices: 14656817--14656861 Score: 58
Period size: 4 Copynumber: 11.5 Consensus size: 4
14656807 ATTTTATTAG
*
14656817 AATT AATT AATTT AATT AACT AA-- AATT AATT AATT AATT AATT AA
1 AATT AATT AA-TT AATT AATT AATT AATT AATT AATT AATT AATT AA
14656862 AAGAGAGATA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
2 2 0.05
4 31 0.84
5 4 0.11
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (4 bp):
AATT
Found at i:14658582 original size:60 final size:59
Alignment explanation
Indices: 14658497--14658703 Score: 251
Period size: 60 Copynumber: 3.5 Consensus size: 59
14658487 TTTTAAATTG
* *
14658497 AAAATATATTTTTTAGAAA-TTTTATTTTTAAAGAAAATTGATACTTTCAACTTTTTCT
1 AAAAAATATTTTTTAAAAATTTTTATTTTTAAAGAAAATTGATACTTTCAACTTTTTCT
* * * * *
14658555 CAAAAAATATCTTTTAAAAATTTTTATTTTCAAGGATAATTGATACTTTCAACTTTTCCGT
1 -AAAAAATATTTTTTAAAAATTTTTATTTTTAAAGAAAATTGATACTTTCAACTTTTTC-T
14658616 AAAAAATTATTTTTTAAAAAATTTTTATTTTT-AA-AAAATTGATACTTTCAA-TTTTTCCT
1 AAAAAA-TATTTTTT-AAAAATTTTTATTTTTAAAGAAAATTGATACTTTCAACTTTTT-CT
* *
14658675 AAAAAAACATTTTTTAGAAATTTTTATTT
1 -AAAAAATATTTTTTAAAAATTTTTATTT
14658704 AATTCATAAA
Statistics
Matches: 128, Mismatches: 14, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
58 13 0.10
59 28 0.22
60 63 0.49
61 9 0.07
62 15 0.12
ACGTcount: A:0.39, C:0.08, G:0.04, T:0.48
Consensus pattern (59 bp):
AAAAAATATTTTTTAAAAATTTTTATTTTTAAAGAAAATTGATACTTTCAACTTTTTCT
Found at i:14658635 original size:15 final size:16
Alignment explanation
Indices: 14658615--14658655 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
14658605 AACTTTTCCG
14658615 TAAAAAATTAT-TTTT
1 TAAAAAATTATATTTT
*
14658630 TAAAAAATTTTTATTTT
1 TAAAAAA-TTATATTTT
14658647 TAAAAAATT
1 TAAAAAATT
14658656 GATACTTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 7 0.30
16 5 0.22
17 11 0.48
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TAAAAAATTATATTTT
Found at i:14658756 original size:19 final size:18
Alignment explanation
Indices: 14658723--14658775 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
14658713 ATAAATTGGC
*
14658723 AAAAAAATAACAAAACAAAT
1 AAAAAAATAA-AAAA-GAAT
14658743 AAAATAAATAAAAAAGAAT
1 AAAA-AAATAAAAAAGAAT
*
14658762 AAAAGAATAAAAAA
1 AAAAAAATAAAAAA
14658776 ATGGAAACGG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 9 0.30
19 7 0.23
20 8 0.27
21 6 0.20
ACGTcount: A:0.81, C:0.04, G:0.04, T:0.11
Consensus pattern (18 bp):
AAAAAAATAAAAAAGAAT
Found at i:14659521 original size:7 final size:7
Alignment explanation
Indices: 14659509--14659552 Score: 52
Period size: 8 Copynumber: 5.7 Consensus size: 7
14659499 CAACTACTTT
14659509 TTTTTTA
1 TTTTTTA
14659516 TTTTTTTCA
1 -TTTTTT-A
14659525 TTTTTTA
1 TTTTTTA
14659532 TTTTTATTA
1 -TTTT-TTA
14659541 TTTTTTA
1 TTTTTTA
14659548 TTTTT
1 TTTTT
14659553 CTAATTAATC
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
7 9 0.27
8 20 0.61
9 4 0.12
ACGTcount: A:0.14, C:0.02, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTTA
Found at i:14659530 original size:16 final size:16
Alignment explanation
Indices: 14659509--14659552 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
14659499 CAACTACTTT
14659509 TTTTTTATTTTT-TTCA
1 TTTTTTATTTTTATT-A
14659525 TTTTTTATTTTTATTA
1 TTTTTTATTTTTATTA
14659541 TTTTTTATTTTT
1 TTTTTTATTTTT
14659553 CTAATTAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 25 0.93
17 2 0.07
ACGTcount: A:0.14, C:0.02, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTTTATTTTTATTA
Found at i:14659808 original size:44 final size:44
Alignment explanation
Indices: 14659693--14659821 Score: 161
Period size: 43 Copynumber: 3.0 Consensus size: 44
14659683 TTTTTTTTTT
* * * *
14659693 TTTTGAAAAAGTAAACAAAACTCCTCTAAACAGAGGCTCAACGA
1 TTTTGAAAAAATAAACAAAGCTCCTCTAAACAGAGGTTCAACAA
* * * *
14659737 CTTTG-AAAAATAAACAAGGCTCCTCTAAACAAAGGTTCAATAA
1 TTTTGAAAAAATAAACAAAGCTCCTCTAAACAGAGGTTCAACAA
* *
14659780 TTTTGAAAAAATAAACAAAGCTCTTCTAAGCAGAGGTTCAAC
1 TTTTGAAAAAATAAACAAAGCTCCTCTAAACAGAGGTTCAAC
14659822 GACTTTGAGG
Statistics
Matches: 70, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
43 35 0.50
44 35 0.50
ACGTcount: A:0.45, C:0.19, G:0.13, T:0.23
Consensus pattern (44 bp):
TTTTGAAAAAATAAACAAAGCTCCTCTAAACAGAGGTTCAACAA
Found at i:14659829 original size:44 final size:44
Alignment explanation
Indices: 14659694--14659829 Score: 175
Period size: 44 Copynumber: 3.1 Consensus size: 44
14659684 TTTTTTTTTT
* * *
14659694 TTTGAAAAAGTAAACAAAACTCCTCTAAACAGAGGCTCAACGAC
1 TTTGAAAAAATAAACAAAGCTCCTCTAAACAGAGGTTCAACGAC
* * ** *
14659738 TTTG-AAAAATAAACAAGGCTCCTCTAAACAAAGGTTCAATAAT
1 TTTGAAAAAATAAACAAAGCTCCTCTAAACAGAGGTTCAACGAC
* *
14659781 TTTGAAAAAATAAACAAAGCTCTTCTAAGCAGAGGTTCAACGAC
1 TTTGAAAAAATAAACAAAGCTCCTCTAAACAGAGGTTCAACGAC
14659825 TTTGA
1 TTTGA
14659830 GGTTCAACGT
Statistics
Matches: 76, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
43 35 0.46
44 41 0.54
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.24
Consensus pattern (44 bp):
TTTGAAAAAATAAACAAAGCTCCTCTAAACAGAGGTTCAACGAC
Found at i:14659833 original size:16 final size:16
Alignment explanation
Indices: 14659812--14659845 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
14659802 CTTCTAAGCA
14659812 GAGGTTCAACGACTTT
1 GAGGTTCAACGACTTT
*
14659828 GAGGTTCAACGTCTTT
1 GAGGTTCAACGACTTT
14659844 GA
1 GA
14659846 AAAATAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (16 bp):
GAGGTTCAACGACTTT
Found at i:14659910 original size:44 final size:44
Alignment explanation
Indices: 14659841--14660225 Score: 479
Period size: 44 Copynumber: 8.8 Consensus size: 44
14659831 GTTCAACGTC
* * * * * *
14659841 TTTGAAAAATAAACAAGGCTTCTCTAAATAGAGGCTCAATAAGT
1 TTTGGAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAATGACT
* *
14659885 TTTGGAAAATAAACAAGGCTCCTCTAAACAGAGGCTTAATGACT
1 TTTGGAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAATGACT
**
14659929 TTTGGAAAATAAAC-AAGCTTTTCTAAA-AGAAGGCTCAATGACT
1 TTTGGAAAATAAACAAAGCTCCTCTAAACAG-AGGCTCAATGACT
* *
14659972 TTTGGAAAATAAACAAAGCTCCTCTAAACAGAGGCTTAACGACT
1 TTTGGAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAATGACT
* * * *
14660016 TTCGAAAAATAAATAAAGCTCCTCTAAACAGAGGCTCAATGATT
1 TTTGGAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAATGACT
* * *
14660060 TTTGGAAAATAAAAAAAGCTCCTCTAAATAGAGGCTCAATGATT
1 TTTGGAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAATGACT
* *
14660104 TTTGGAAAATAAACAAAGCTCCTCTAAACAAAGGCTCAACGACT
1 TTTGGAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAATGACT
* * * * *
14660148 TTTAGAAAATAAAC-AAGCTCTTTTAAATAGAGGCTCAACGACT
1 TTTGGAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAATGACT
* * *
14660191 TTTGAAAAATAAACAAAGCTCCTTTAAATAGAGGC
1 TTTGGAAAATAAACAAAGCTCCTCTAAACAGAGGC
14660226 ACCATAACTT
Statistics
Matches: 300, Mismatches: 37, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
42 2 0.01
43 73 0.24
44 223 0.74
45 2 0.01
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.25
Consensus pattern (44 bp):
TTTGGAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAATGACT
Found at i:14659930 original size:103 final size:103
Alignment explanation
Indices: 14659725--14659918 Score: 282
Period size: 103 Copynumber: 1.9 Consensus size: 103
14659715 CCTCTAAACA
*
14659725 GAGGCTCAACGACTTTGAAAAATAAACAAGGCTCCTCTAAACAAAGGTTCAATAATTTTGAAAAA
1 GAGGCTCAACGACTTTGAAAAATAAACAAGGCTCCTCTAAACAAAGGCTCAATAATTTTGAAAAA
* *
14659790 ATAAACAAAGCTCTTCTAAGCAGAGGTTCAACGACTTT
66 ATAAACAAAGCTCCTCTAAACAGAGGTTCAACGACTTT
* * * * * *
14659828 GAGGTTCAACGTCTTTGAAAAATAAACAAGGCTTCTCTAAATAGAGGCTCAATAAGTTTTG-GAA
1 GAGGCTCAACGACTTTGAAAAATAAACAAGGCTCCTCTAAACAAAGGCTCAATAA-TTTTGAAAA
*
14659892 AATAAACAAGGCTCCTCTAAACAGAGG
65 AATAAACAAAGCTCCTCTAAACAGAGG
14659919 CTTAATGACT
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
103 75 0.94
104 5 0.06
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.24
Consensus pattern (103 bp):
GAGGCTCAACGACTTTGAAAAATAAACAAGGCTCCTCTAAACAAAGGCTCAATAATTTTGAAAAA
ATAAACAAAGCTCCTCTAAACAGAGGTTCAACGACTTT
Found at i:14660182 original size:175 final size:174
Alignment explanation
Indices: 14659828--14660225 Score: 548
Period size: 175 Copynumber: 2.3 Consensus size: 174
14659818 CAACGACTTT
* * * *
14659828 GAGGTTCAACGTCTTTGAAAAATAAACAAGGCTTCTCTAAATAGAGGCTCAATAAGTTTTGGAAA
1 GAGGCTCAACGACTTTGAAAAATAAACAAAGCTCCTCTAAATAGAGGCTCAATAAGTTTTGGAAA
* * * **
14659893 ATAAACAAGGCTCCTCTAAACAGAGGCTTAATGACTTTTGGAAAATAAACAAGCTTTTCTAAAAG
66 ATAAAAAAAGCTCCTCTAAACAGAGGCTCAATGACTTTTGGAAAATAAACAAGCTCCTCTAAAAG
* *
14659958 AAGGCTCAATGACTTTTGGAAAATAAACAAAGCTCCTCTAAACA
131 AAGGCTCAACGACTTTTAGAAAATAAACAAAGCTCCTCTAAACA
* * * * *
14660002 GAGGCTTAACGACTTTCGAAAAATAAATAAAGCTCCTCTAAACAGAGGCTCAATGATTTTTGGAA
1 GAGGCTCAACGACTTT-GAAAAATAAACAAAGCTCCTCTAAATAGAGGCTCAATAAGTTTTGGAA
* *
14660067 AATAAAAAAAGCTCCTCTAAATAGAGGCTCAATGATTTTTGGAAAATAAACAAAGCTCCTCTAAA
65 AATAAAAAAAGCTCCTCTAAACAGAGGCTCAATGACTTTTGGAAAATAAAC-AAGCTCCTCTAAA
* * *
14660132 CA-AAGGCTCAACGACTTTTAGAAAATAAAC-AAGCTCTTTTAAATA
129 -AGAAGGCTCAACGACTTTTAGAAAATAAACAAAGCTCCTCTAAACA
*
14660177 GAGGCTCAACGACTTTTGAAAAATAAACAAAGCTCCTTTAAATAGAGGC
1 GAGGCTCAACGAC-TTTGAAAAATAAACAAAGCTCCTCTAAATAGAGGC
14660226 ACCATAACTT
Statistics
Matches: 195, Mismatches: 25, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
174 13 0.07
175 141 0.72
176 40 0.21
177 1 0.01
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.25
Consensus pattern (174 bp):
GAGGCTCAACGACTTTGAAAAATAAACAAAGCTCCTCTAAATAGAGGCTCAATAAGTTTTGGAAA
ATAAAAAAAGCTCCTCTAAACAGAGGCTCAATGACTTTTGGAAAATAAACAAGCTCCTCTAAAAG
AAGGCTCAACGACTTTTAGAAAATAAACAAAGCTCCTCTAAACA
Found at i:14660236 original size:44 final size:44
Alignment explanation
Indices: 14659841--14660289 Score: 457
Period size: 44 Copynumber: 10.3 Consensus size: 44
14659831 GTTCAACGTC
* * * * *
14659841 TTTGAAAAATAAACAAGGCTTCTCTAAATAGAGGCTCAATAAGT
1 TTTGAAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAATGACT
* * *
14659885 TTTGGAAAATAAACAAGGCTCCTCTAAACAGAGGCTTAATGACT
1 TTTGAAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAATGACT
* **
14659929 TTTGGAAAATAAAC-AAGCTTTTCTAAA-AGAAGGCTCAATGACT
1 TTTGAAAAATAAACAAAGCTCCTCTAAACAG-AGGCTCAATGACT
* * *
14659972 TTTGGAAAATAAACAAAGCTCCTCTAAACAGAGGCTTAACGACT
1 TTTGAAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAATGACT
* * *
14660016 TTCGAAAAATAAATAAAGCTCCTCTAAACAGAGGCTCAATGATT
1 TTTGAAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAATGACT
* * * *
14660060 TTTGGAAAATAAAAAAAGCTCCTCTAAATAGAGGCTCAATGATT
1 TTTGAAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAATGACT
* * *
14660104 TTTGGAAAATAAACAAAGCTCCTCTAAACAAAGGCTCAACGACT
1 TTTGAAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAATGACT
* * * *
14660148 TTT-AGAAAATAAAC-AAGCTCTTTTAAATAGAGGCTCAACGACT
1 TTTGA-AAAATAAACAAAGCTCCTCTAAACAGAGGCTCAATGACT
* * * * *
14660191 TTTGAAAAATAAACAAAGCTCCTTTAAATAGAGGCACCATAAC-
1 TTTGAAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAATGACT
* * *
14660234 TTT-AAAAAT--ACAAATTGCTCATCTAAACAAAGGCATC-ATAACT
1 TTTGAAAAATAAACAAA--GCTCCTCTAAACAGAGGC-TCAATGACT
*
14660277 TTGGAAAAATAAA
1 TTTGAAAAATAAA
14660290 TTGCTCATTG
Statistics
Matches: 347, Mismatches: 45, Indels: 24
0.83 0.11 0.06
Matches are distributed among these distances:
40 5 0.01
42 27 0.08
43 79 0.23
44 233 0.67
45 2 0.01
46 1 0.00
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.25
Consensus pattern (44 bp):
TTTGAAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAATGACT
Found at i:14660236 original size:87 final size:87
Alignment explanation
Indices: 14659828--14660225 Score: 478
Period size: 87 Copynumber: 4.6 Consensus size: 87
14659818 CAACGACTTT
* * * * * * *
14659828 GAGGTTCAACGTC-TTTGAAAAATAAACAAGGCTTCTCTAAATAGAGGCTCAATAAGTTTTGGAA
1 GAGGCTCAACGACTTTTGAAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAATGACTTTTGGAA
14659892 AATAAACAAGGCTCCTCTAAACA
66 AATAAACAA-GCTCCTCTAAACA
* * * **
14659915 GAGGCTTAATGACTTTTGGAAAATAAAC-AAGCTTTTCTAAA-AGAAGGCTCAATGACTTTTGGA
1 GAGGCTCAACGACTTTTGAAAAATAAACAAAGCTCCTCTAAACAG-AGGCTCAATGACTTTTGGA
14659978 AAATAAACAAAGCTCCTCTAAACA
65 AAATAAAC-AAGCTCCTCTAAACA
* * * *
14660002 GAGGCTTAACGACTTTCGAAAAATAAATAAAGCTCCTCTAAACAGAGGCTCAATGATTTTTGGAA
1 GAGGCTCAACGACTTTTGAAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAATGACTTTTGGAA
* *
14660067 AATAAAAAAAGCTCCTCTAAATA
66 AAT-AAACAAGCTCCTCTAAACA
* * * * * *
14660090 GAGGCTCAATGATTTTTGGAAAATAAACAAAGCTCCTCTAAACAAAGGCTCAACGACTTTTAGAA
1 GAGGCTCAACGACTTTTGAAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAATGACTTTTGGAA
* * *
14660155 AATAAACAAGCTCTTTTAAATA
66 AATAAACAAGCTCCTCTAAACA
* *
14660177 GAGGCTCAACGACTTTTGAAAAATAAACAAAGCTCCTTTAAATAGAGGC
1 GAGGCTCAACGACTTTTGAAAAATAAACAAAGCTCCTCTAAACAGAGGC
14660226 ACCATAACTT
Statistics
Matches: 268, Mismatches: 37, Indels: 12
0.85 0.12 0.04
Matches are distributed among these distances:
86 2 0.01
87 141 0.53
88 120 0.45
89 5 0.02
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.25
Consensus pattern (87 bp):
GAGGCTCAACGACTTTTGAAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAATGACTTTTGGAA
AATAAACAAGCTCCTCTAAACA
Found at i:14668562 original size:15 final size:15
Alignment explanation
Indices: 14668542--14668572 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
14668532 GGTATTTTGT
*
14668542 AATGAATGAGAATGC
1 AATGAATGAAAATGC
14668557 AATGAATGAAAATGC
1 AATGAATGAAAATGC
14668572 A
1 A
14668573 TGTATGCGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.06, G:0.23, T:0.19
Consensus pattern (15 bp):
AATGAATGAAAATGC
Found at i:14672648 original size:8 final size:8
Alignment explanation
Indices: 14672637--14672665 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
14672627 TTTCTTTTCA
14672637 ATTTTTTT
1 ATTTTTTT
14672645 A-TTTTTT
1 ATTTTTTT
14672652 ATTTTTTT
1 ATTTTTTT
14672660 ATTTTT
1 ATTTTT
14672666 ATTTTTCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (8 bp):
ATTTTTTT
Found at i:14672656 original size:6 final size:7
Alignment explanation
Indices: 14672639--14672671 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
14672629 TCTTTTCAAT
14672639 TTTTTTA
1 TTTTTTA
14672646 TTTTTTA
1 TTTTTTA
14672653 TTTTTT-
1 TTTTTTA
14672659 TATTTTTA
1 T-TTTTTA
14672667 TTTTT
1 TTTTT
14672672 CTAATTAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 1 0.04
7 22 0.92
8 1 0.04
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:14672658 original size:14 final size:14
Alignment explanation
Indices: 14672637--14672671 Score: 61
Period size: 14 Copynumber: 2.4 Consensus size: 14
14672627 TTTCTTTTCA
14672637 ATTTTTTTATTTTTT
1 ATTTTTTTA-TTTTT
14672652 ATTTTTTTATTTTT
1 ATTTTTTTATTTTT
14672666 ATTTTT
1 ATTTTT
14672672 CTAATTAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.55
15 9 0.45
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (14 bp):
ATTTTTTTATTTTT
Found at i:14678149 original size:8 final size:8
Alignment explanation
Indices: 14678136--14678160 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
14678126 TTCTATTCAA
14678136 ACTTGACT
1 ACTTGACT
14678144 ACTTGACT
1 ACTTGACT
14678152 ACTTGACT
1 ACTTGACT
14678160 A
1 A
14678161 ATAGACAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (8 bp):
ACTTGACT
Found at i:14679749 original size:5 final size:5
Alignment explanation
Indices: 14679739--14679770 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
14679729 GGAGGCTTTC
14679739 TTTTG TTTTG TTTTG TTTTG -TTT- TTTTG TTTT
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTT
14679771 TTTCGCTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
4 6 0.24
5 19 0.76
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (5 bp):
TTTTG
Found at i:14679772 original size:15 final size:15
Alignment explanation
Indices: 14679739--14679770 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
14679729 GGAGGCTTTC
14679739 TTTTGTTTTGTTTTG
1 TTTTGTTTTGTTTTG
14679754 TTTTG-TTT-TTTTG
1 TTTTGTTTTGTTTTG
14679767 TTTT
1 TTTT
14679771 TTTCGCTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
14 3 0.18
15 5 0.29
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (15 bp):
TTTTGTTTTGTTTTG
Found at i:14680850 original size:2 final size:2
Alignment explanation
Indices: 14680839--14680869 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
14680829 TTAAGCTAAA
14680839 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14680870 TAGAGCAGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:14684379 original size:31 final size:30
Alignment explanation
Indices: 14684306--14684380 Score: 107
Period size: 30 Copynumber: 2.5 Consensus size: 30
14684296 AAATTCGATC
* *
14684306 AATTAAAACAAAAGTTTTGTTTAATTAGTG
1 AATTAAAACAAAAGTTTTGTTTAATGAATG
14684336 AATGT-AAACAAAAGTTTTGTTTAATGAATG
1 AAT-TAAAACAAAAGTTTTGTTTAATGAATG
14684366 TAATTAAAACAAAAG
1 -AATTAAAACAAAAG
14684381 GAGTTTTAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
30 27 0.68
31 13 0.32
ACGTcount: A:0.48, C:0.04, G:0.13, T:0.35
Consensus pattern (30 bp):
AATTAAAACAAAAGTTTTGTTTAATGAATG
Found at i:14689818 original size:14 final size:12
Alignment explanation
Indices: 14689790--14689827 Score: 58
Period size: 12 Copynumber: 3.0 Consensus size: 12
14689780 AATAAATGAC
14689790 AAGATAAAAAAA
1 AAGATAAAAAAA
14689802 AAGATAAATATAAA
1 AAGATAAA-A-AAA
14689816 AAGATAAAAAAA
1 AAGATAAAAAAA
14689828 TAACAAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 11 0.46
13 2 0.08
14 11 0.46
ACGTcount: A:0.79, C:0.00, G:0.08, T:0.13
Consensus pattern (12 bp):
AAGATAAAAAAA
Found at i:14696179 original size:23 final size:24
Alignment explanation
Indices: 14696135--14696179 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
14696125 TGTGTGTGAA
* * *
14696135 TTTTTTTGCTTTTTATTTTTGATT
1 TTTTTTTACCTTTTATTATTGATT
14696159 TTTTTTTACCTTTT-TTATTGA
1 TTTTTTTACCTTTTATTATTGA
14696180 AAATGAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 6 0.33
24 12 0.67
ACGTcount: A:0.11, C:0.07, G:0.07, T:0.76
Consensus pattern (24 bp):
TTTTTTTACCTTTTATTATTGATT
Found at i:14698164 original size:11 final size:11
Alignment explanation
Indices: 14698148--14698177 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
14698138 GGATTAAGTT
14698148 TTTTTTTTGTA
1 TTTTTTTTGTA
*
14698159 TTTTTTTGGTA
1 TTTTTTTTGTA
14698170 TTTTTTTT
1 TTTTTTTT
14698178 TGGCAAAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.07, C:0.00, G:0.10, T:0.83
Consensus pattern (11 bp):
TTTTTTTTGTA
Found at i:14698512 original size:15 final size:15
Alignment explanation
Indices: 14698494--14698559 Score: 73
Period size: 16 Copynumber: 4.3 Consensus size: 15
14698484 GTTCTGTTGG
14698494 TTTTTTT-TTTTGGTA
1 TTTTTTTATTTT-GTA
*
14698509 -TTTTGTATTTTGGTA
1 TTTTTTTATTTT-GTA
*
14698524 TTTTTTTATTTTATA
1 TTTTTTTATTTTGTA
14698539 TTTTTTATATTTTGTA
1 TTTTTT-TATTTTGTA
14698555 TTTTT
1 TTTTT
14698560 GTTTAATTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
14 5 0.11
15 16 0.36
16 23 0.52
ACGTcount: A:0.14, C:0.00, G:0.09, T:0.77
Consensus pattern (15 bp):
TTTTTTTATTTTGTA
Found at i:14698543 original size:39 final size:40
Alignment explanation
Indices: 14698500--14698582 Score: 107
Period size: 39 Copynumber: 2.1 Consensus size: 40
14698490 TTGGTTTTTT
*
14698500 TTTTTGGTATTTTGTATTTTGGTATT-TTTTTATT-TTATA
1 TTTTTGATATTTTGTATTTTGGT-TTATTTTTATTATTATA
* *
14698539 TTTTTTATATTTTGTATTTTTGTTTAATTTTTATTATTATA
1 TTTTTGATATTTTGTATTTTGGTTT-ATTTTTATTATTATA
14698580 TTT
1 TTT
14698583 ACTATTTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
38 2 0.05
39 20 0.53
40 8 0.21
41 8 0.21
ACGTcount: A:0.18, C:0.00, G:0.08, T:0.73
Consensus pattern (40 bp):
TTTTTGATATTTTGTATTTTGGTTTATTTTTATTATTATA
Found at i:14698551 original size:23 final size:23
Alignment explanation
Indices: 14698500--14698558 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
14698490 TTGGTTTTTT
*
14698500 TTTTTGGTATTTTGTATTTTGGTA
1 TTTTT-GTATTTTATATTTTGGTA
* *
14698524 TTTTTTTATTTTATATTTT-TTA
1 TTTTTGTATTTTATATTTTGGTA
14698546 TATTTTGTATTTT
1 T-TTTTGTATTTT
14698559 TGTTTAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 3 0.10
23 22 0.73
24 5 0.17
ACGTcount: A:0.15, C:0.00, G:0.10, T:0.75
Consensus pattern (23 bp):
TTTTTGTATTTTATATTTTGGTA
Found at i:14698573 original size:17 final size:17
Alignment explanation
Indices: 14698524--14698596 Score: 55
Period size: 18 Copynumber: 4.2 Consensus size: 17
14698514 TATTTTGGTA
*
14698524 TTTTTT-TA-TTTTATA
1 TTTTTTATATTTTTATT
14698539 TTTTTTATATTTTGTATT
1 TTTTTTATATTTT-TATT
14698557 TTTGTTTA-ATTTTTATT
1 TTT-TTTATATTTTTATT
14698574 ATTATATTTACTATTTTT-TT
1 -TT-T-TTTA-TATTTTTATT
14698594 TTT
1 TTT
14698597 GCTGAACAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
15 6 0.12
16 2 0.04
17 7 0.15
18 14 0.29
19 11 0.23
20 2 0.04
21 6 0.12
ACGTcount: A:0.19, C:0.01, G:0.03, T:0.77
Consensus pattern (17 bp):
TTTTTTATATTTTTATT
Found at i:14698579 original size:32 final size:32
Alignment explanation
Indices: 14698514--14698594 Score: 87
Period size: 32 Copynumber: 2.5 Consensus size: 32
14698504 TGGTATTTTG
*
14698514 TATTTTGGTA-TTTTTTTATTTTATATTTTTTA
1 TATTTT-GTATTTTTTTTATTTTATATTTATTA
14698546 TATTTTGTATTTTTGTTTAATTTT-TA-TTATTA
1 TATTTTGTATTTTT-TTT-ATTTTATATTTATTA
**
14698578 TATTTACTATTTTTTTT
1 TATTTTGTATTTTTTTT
14698595 TTGCTGAACA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
31 6 0.14
32 27 0.63
33 5 0.12
34 5 0.12
ACGTcount: A:0.20, C:0.01, G:0.05, T:0.74
Consensus pattern (32 bp):
TATTTTGTATTTTTTTTATTTTATATTTATTA
Found at i:14698589 original size:39 final size:37
Alignment explanation
Indices: 14698507--14698597 Score: 91
Period size: 39 Copynumber: 2.4 Consensus size: 37
14698497 TTTTTTTTGG
*
14698507 TATTTTGTATTTTGGTATTTTTTTATTTTATATTTTTTA
1 TATTTTGTATTTTTGTATTTTTTTATTTTATA--TTTTA
14698546 TATTTTGTATTTTTGT-TTAATTTTTATTATTATA-TTTA
1 TATTTTGTATTTTTGTATT--TTTTTATT-TTATATTTTA
14698584 CTATTTT-T-TTTTTG
1 -TATTTTGTATTTTTG
14698598 CTGAACAAAT
Statistics
Matches: 47, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
37 6 0.13
38 7 0.15
39 21 0.45
40 8 0.17
41 5 0.11
ACGTcount: A:0.19, C:0.01, G:0.07, T:0.74
Consensus pattern (37 bp):
TATTTTGTATTTTTGTATTTTTTTATTTTATATTTTA
Found at i:14698704 original size:43 final size:43
Alignment explanation
Indices: 14698627--14698916 Score: 293
Period size: 42 Copynumber: 6.8 Consensus size: 43
14698617 ACACTCTCCA
* * *
14698627 ACAACTGAGGCTTTAAAACTTTTTAAAAAAAAAATACTCCCCC
1 ACAACTGAGGCTTTGAAACTTTTGAAAAATAAAATACTCCCCC
* * * * *
14698670 ACTATTGAGGCTTTGAAACTTTTGAAACATAAAATACACTCCC
1 ACAACTGAGGCTTTGAAACTTTTGAAAAATAAAATACTCCCCC
* * * *
14698713 ACAACTGAGGGTTTGAAAC-TTTGAAAAATAAAATGCTCCTCT
1 ACAACTGAGGCTTTGAAACTTTTGAAAAATAAAATACTCCCCC
* * ** *
14698755 ACAACCGAGGCTTTAAAACTTTTG-AAAATAAAATACTTTCTC
1 ACAACTGAGGCTTTGAAACTTTTGAAAAATAAAATACTCCCCC
* * * *
14698797 AAAACTGAAGCTTTGAAACTTTTGAAAAATAAAATGCTCCCTC
1 ACAACTGAGGCTTTGAAACTTTTGAAAAATAAAATACTCCCCC
*
14698840 ACAACTGAGGCTTT-AGAAC-TTTGAAAAATAAAATGCT-CCCC
1 ACAACTGAGGCTTTGA-AACTTTTGAAAAATAAAATACTCCCCC
* * * * *
14698881 ATAAATGAAGCTTTGAAACTTATGGAAAATAAAATA
1 ACAACTGAGGCTTTGAAACTTTTGAAAAATAAAATA
14698917 ACATCATTCT
Statistics
Matches: 200, Mismatches: 42, Indels: 11
0.79 0.17 0.04
Matches are distributed among these distances:
41 17 0.09
42 98 0.49
43 85 0.43
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.28
Consensus pattern (43 bp):
ACAACTGAGGCTTTGAAACTTTTGAAAAATAAAATACTCCCCC
Found at i:14698909 original size:127 final size:127
Alignment explanation
Indices: 14698679--14698916 Score: 331
Period size: 127 Copynumber: 1.9 Consensus size: 127
14698669 CACTATTGAG
* *
14698679 GCTTTGAAACTTTTGAAACATAAAATACACTCCCACAACTGAGGGTTTGAAACTTTGAAAAATAA
1 GCTTTGAAACTTTTGAAAAATAAAATACACTCCCACAACTGAGGCTTTGAAACTTTGAAAAATAA
* * *
14698744 AATGCTCCTCTACAACCGAGGCTTTAAAACTTTTGAAAATAAAATACTTTCTCAAAACTGAA
66 AATGCTCCCCTACAACCGAAGCTTTAAAACTTTGGAAAATAAAATACTTTCTCAAAACTGAA
* *
14698806 GCTTTGAAACTTTTGAAAAATAAAATGCTC-CCTCACAACTGAGGCTTT-AGAACTTTGAAAAAT
1 GCTTTGAAACTTTTGAAAAATAAAATACACTCC-CACAACTGAGGCTTTGA-AACTTTGAAAAAT
* *
14698869 AAAATGCTCCCCATA-AA-TGAAGCTTTGAAACTTATGGAAAATAAAATA
64 AAAATGCTCCCC-TACAACCGAAGCTTTAAAACTT-TGGAAAATAAAATA
14698917 ACATCATTCT
Statistics
Matches: 98, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
126 16 0.16
127 80 0.82
128 2 0.02
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.28
Consensus pattern (127 bp):
GCTTTGAAACTTTTGAAAAATAAAATACACTCCCACAACTGAGGCTTTGAAACTTTGAAAAATAA
AATGCTCCCCTACAACCGAAGCTTTAAAACTTTGGAAAATAAAATACTTTCTCAAAACTGAA
Found at i:14705710 original size:40 final size:40
Alignment explanation
Indices: 14705664--14705739 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
14705654 ATAAAAACTA
*
14705664 TCAAAGTAAGGCTTACTATAACACATAATTAACTAACGAC
1 TCAAAGTAAGGCTTAATATAACACATAATTAACTAACGAC
*
14705704 TCAAAGTAAGGCTTAATATAATACATAATTAACTAA
1 TCAAAGTAAGGCTTAATATAACACATAATTAACTAA
14705740 TGGCTTGACT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.28
Consensus pattern (40 bp):
TCAAAGTAAGGCTTAATATAACACATAATTAACTAACGAC
Found at i:14706309 original size:20 final size:20
Alignment explanation
Indices: 14706284--14706337 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
14706274 CAAGAATGTT
* *
14706284 ATGCAAATATATTAATTATC
1 ATGCAAATATATTAAATACC
* *
14706304 ATGCAAAAATATAAAATACC
1 ATGCAAATATATTAAATACC
*
14706324 ATGTAAATATATTA
1 ATGCAAATATATTA
14706338 GTAACCATTC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.52, C:0.09, G:0.06, T:0.33
Consensus pattern (20 bp):
ATGCAAATATATTAAATACC
Found at i:14706646 original size:32 final size:32
Alignment explanation
Indices: 14706604--14706680 Score: 127
Period size: 32 Copynumber: 2.4 Consensus size: 32
14706594 ACAATGTATC
14706604 TCATGCAAATAAACATACAATTAAATATATAA
1 TCATGCAAATAAACATACAATTAAATATATAA
* *
14706636 TCATGTAAATAAACATGCAATTAAATATATAA
1 TCATGCAAATAAACATACAATTAAATATATAA
*
14706668 TAATGCAAATAAA
1 TCATGCAAATAAA
14706681 TATATTAAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.56, C:0.10, G:0.05, T:0.29
Consensus pattern (32 bp):
TCATGCAAATAAACATACAATTAAATATATAA
Found at i:14706667 original size:20 final size:20
Alignment explanation
Indices: 14706644--14706709 Score: 62
Period size: 20 Copynumber: 3.1 Consensus size: 20
14706634 AATCATGTAA
14706644 ATAAACATGCAATTAAATAT
1 ATAAACATGCAATTAAATAT
*
14706664 ATAATA-ATGCAAATAAATAT
1 ATAA-ACATGCAATTAAATAT
*
14706684 ATTAAGAACTAAGCAATTAAATAT
1 A-T-A-AAC-ATGCAATTAAATAT
14706708 AT
1 AT
14706710 TAATAATCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
20 18 0.49
21 2 0.05
22 2 0.05
23 2 0.05
24 13 0.35
ACGTcount: A:0.56, C:0.08, G:0.06, T:0.30
Consensus pattern (20 bp):
ATAAACATGCAATTAAATAT
Found at i:14706724 original size:24 final size:24
Alignment explanation
Indices: 14706653--14706729 Score: 67
Period size: 24 Copynumber: 3.4 Consensus size: 24
14706643 AATAAACATG
14706653 CAATTAAATATA-TAATAATGC--A
1 CAATTAAATATATTAATAAT-CAAA
* *
14706675 -AA-TAAATATATTAAGAA-CTAAG
1 CAATTAAATATATTAATAATC-AAA
14706697 CAATTAAATATATTAATAATCAAA
1 CAATTAAATATATTAATAATCAAA
*
14706721 CAATCAAAT
1 CAATTAAAT
14706730 CAAGCAATCA
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
19 1 0.02
20 8 0.19
21 7 0.16
23 2 0.05
24 24 0.56
25 1 0.02
ACGTcount: A:0.57, C:0.09, G:0.04, T:0.30
Consensus pattern (24 bp):
CAATTAAATATATTAATAATCAAA
Found at i:14708181 original size:17 final size:17
Alignment explanation
Indices: 14708152--14708184 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
14708142 CTAATTATGT
14708152 TTTAGTTTGTTAATTAA
1 TTTAGTTTGTTAATTAA
14708169 TTTA-TTTGTTTAATTA
1 TTTAGTTTG-TTAATTA
14708185 TTCAATAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (17 bp):
TTTAGTTTGTTAATTAA
Found at i:14710045 original size:90 final size:89
Alignment explanation
Indices: 14709862--14710090 Score: 268
Period size: 90 Copynumber: 2.6 Consensus size: 89
14709852 TCACTTATAT
* * * * * * *
14709862 GAATTTTCATCCATAAACTTACATAAAATGGGCCCAAAACTAT-G-ATT--TTAGATCCATCATT
1 GAATTTTCATCCATGAACTTACATAACATGGCCCCAAAACTATGGTTTTAATTAAATCCACCATC
*
14709923 TCACTTATATACAAGTTCATGAAT
66 TCACTTATATACAAGTTCATGAAC
* *
14709947 AAATTTTCATCCATGAACTTACATAACATTGCCCCAAAACTATGGTTTTAATTAAAATCCACCAT
1 GAATTTTCATCCATGAACTTACATAACATGGCCCCAAAACTATGGTTTTAATT-AAATCCACCAT
*
14710012 CTCACTTATATACAAGTTCATGGAC
65 CTCACTTATATACAAGTTCATGAAC
* * *
14710037 GAATTTTCATCCATGAATTTATATAACATGGCCCTGCTAAAACTATGATTTTAA
1 GAATTTTCATCCATGAACTTACATAACATGGCCC--C-AAAACTATGGTTTTAA
14710091 ATTCAAATTC
Statistics
Matches: 120, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
85 38 0.32
86 1 0.01
87 2 0.02
89 2 0.02
90 61 0.51
92 1 0.01
93 15 0.12
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.34
Consensus pattern (89 bp):
GAATTTTCATCCATGAACTTACATAACATGGCCCCAAAACTATGGTTTTAATTAAATCCACCATC
TCACTTATATACAAGTTCATGAAC
Found at i:14713644 original size:15 final size:15
Alignment explanation
Indices: 14713624--14713816 Score: 73
Period size: 16 Copynumber: 12.7 Consensus size: 15
14713614 TTGGGGTTTT
*
14713624 GATTTAAGGG-TTTG
1 GATTTTAGGGATTTG
14713638 GATTTTAGGGATTTTG
1 GATTTTAGGGA-TTTG
*
14713654 AATTTT-GGGATTTG
1 GATTTTAGGGATTTG
14713668 GATTTTAGGG----G
1 GATTTTAGGGATTTG
**
14713679 G-GCTT-GGGATTTCG
1 GATTTTAGGGATTT-G
* * * *
14713693 AATTTTGGGGGGTTTTA
1 GATTTT--AGGGATTTG
*
14713710 GATTTTAGGGGTTTCG
1 GATTTTAGGGATTT-G
14713726 GATTTTAGGCGATTTG
1 GATTTTAGG-GATTTG
* *
14713742 GATTTAAGGGATTTTA
1 GATTTTAGGGA-TTTG
14713758 GATTTTTA-GGAGTTTCG
1 GA-TTTTAGGGA-TTT-G
*
14713775 AATTTTA-GGATTTTG
1 GATTTTAGGGA-TTTG
* *
14713790 GATTTTATGAGATTTTA
1 GATTTTA-GGGA-TTTG
14713807 GATTTTAGGG
1 GATTTTAGGG
14713817 GTTTTAGAAA
Statistics
Matches: 134, Mismatches: 26, Indels: 36
0.68 0.13 0.18
Matches are distributed among these distances:
9 3 0.02
10 2 0.01
11 2 0.01
14 19 0.14
15 24 0.18
16 51 0.38
17 27 0.20
18 6 0.04
ACGTcount: A:0.20, C:0.03, G:0.32, T:0.46
Consensus pattern (15 bp):
GATTTTAGGGATTTG
Found at i:14713660 original size:51 final size:51
Alignment explanation
Indices: 14713566--14713668 Score: 120
Period size: 51 Copynumber: 2.0 Consensus size: 51
14713556 GAAAGGTTTA
* * *
14713566 GGGTTTTGATTTTAGAGTTTTAAGATTTTAGGGTTTAGGTTTTGAGATTTG
1 GGGTTTTGATTTAAGAGGTTTAAGATTTTAGGGTTTAGATTTTGAGATTTG
* * *
14713617 GGGTTTTGATTTAAG-GGTTT-GGATTTTAGGGATTTTGAATTTTGGGATTTG
1 GGGTTTTGATTTAAGAGGTTTAAGATTTTAGGG-TTTAG-ATTTTGAGATTTG
14713668 G
1 G
14713669 ATTTTAGGGG
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
49 10 0.23
50 8 0.18
51 26 0.59
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.50
Consensus pattern (51 bp):
GGGTTTTGATTTAAGAGGTTTAAGATTTTAGGGTTTAGATTTTGAGATTTG
Found at i:14713703 original size:25 final size:24
Alignment explanation
Indices: 14713658--14713704 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
14713648 ATTTTGAATT
*
14713658 TTGGGATTTGGATTTTAGGGGGGC
1 TTGGGATTTGAATTTTAGGGGGGC
14713682 TTGGGATTTCGAATTTT-GGGGGG
1 TTGGGATTT-GAATTTTAGGGGGG
14713705 TTTTAGATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.13, C:0.04, G:0.45, T:0.38
Consensus pattern (24 bp):
TTGGGATTTGAATTTTAGGGGGGC
Found at i:14713722 original size:16 final size:16
Alignment explanation
Indices: 14713701--14713824 Score: 90
Period size: 16 Copynumber: 7.7 Consensus size: 16
14713691 CGAATTTTGG
14713701 GGGGTTTTAGATTTTA
1 GGGGTTTTAGATTTTA
**
14713717 GGGGTTTCGGATTTTA
1 GGGGTTTTAGATTTTA
* * * *
14713733 GGCGATTTGGATTTAA
1 GGGGTTTTAGATTTTA
*
14713749 GGGATTTTAGATTTTTA
1 GGGGTTTTAGA-TTTTA
* *
14713766 GGAG-TTTCGAATTTTA
1 GGGGTTTTAG-ATTTTA
* *
14713782 -GGATTTTGGATTTTA
1 GGGGTTTTAGATTTTA
* *
14713797 TGAGATTTTAGATTTTA
1 -GGGGTTTTAGATTTTA
14713814 GGGGTTTTAGA
1 GGGGTTTTAGA
14713825 AACCTAGGAT
Statistics
Matches: 82, Mismatches: 21, Indels: 10
0.73 0.19 0.09
Matches are distributed among these distances:
15 7 0.09
16 55 0.67
17 20 0.24
ACGTcount: A:0.22, C:0.02, G:0.29, T:0.47
Consensus pattern (16 bp):
GGGGTTTTAGATTTTA
Found at i:14713773 original size:49 final size:48
Alignment explanation
Indices: 14713705--14713820 Score: 155
Period size: 49 Copynumber: 2.4 Consensus size: 48
14713695 TTTTGGGGGG
* *
14713705 TTTTAGATTTTAGGGGTTTCGGATTTTAGGCGA-TTTGGA-TTTAAGGGA
1 TTTTAGATTTTAGGGGTTTCGAATTTTA-G-GATTTTGGATTTTAAGAGA
* *
14713753 TTTTAGATTTTTAGGAGTTTCGAATTTTAGGATTTTGGATTTTATGAGA
1 TTTTAGA-TTTTAGGGGTTTCGAATTTTAGGATTTTGGATTTTAAGAGA
14713802 TTTTAGATTTTAGGGGTTT
1 TTTTAGATTTTAGGGGTTT
14713821 TAGAAACCTA
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
47 2 0.03
48 25 0.42
49 33 0.55
ACGTcount: A:0.22, C:0.03, G:0.27, T:0.49
Consensus pattern (48 bp):
TTTTAGATTTTAGGGGTTTCGAATTTTAGGATTTTGGATTTTAAGAGA
Found at i:14715641 original size:23 final size:23
Alignment explanation
Indices: 14715598--14715660 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
14715588 AAATTTACGC
*
14715598 CCGGAGGTCTTA-TAAATCATGT
1 CCGGAGGTCTTACAAAATCATGT
*
14715620 CCGGGGGTCTTACAAAATCATGT
1 CCGGAGGTCTTACAAAATCATGT
14715643 CCGGAGGTCTTACAAAAT
1 CCGGAGGTCTTACAAAAT
14715661 TGACTGGGAT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
22 11 0.30
23 26 0.70
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.27
Consensus pattern (23 bp):
CCGGAGGTCTTACAAAATCATGT
Done.