Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 52 of 362
Found at i:15549946 original size:61 final size:61
Alignment explanation
Indices: 15549844--15549958 Score: 194
Period size: 61 Copynumber: 1.9 Consensus size: 61
15549834 ATAGTGGTGG
* *
15549844 AAGCAAGCTTATGGTAATAGCATTTATCGTTCGGCTGTTGAGTGCCTAATATTTGATTTTC
1 AAGCAAGCTTATGGTAATAGCATTTATCGTTCGACTATTGAGTGCCTAATATTTGATTTTC
* *
15549905 AAGCAAGCTTATGGTAATGGCATTTCTCGTTCGACTATTGAGTGCCTAATATTT
1 AAGCAAGCTTATGGTAATAGCATTTATCGTTCGACTATTGAGTGCCTAATATTT
15549959 TAACCTTAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 50 1.00
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (61 bp):
AAGCAAGCTTATGGTAATAGCATTTATCGTTCGACTATTGAGTGCCTAATATTTGATTTTC
Found at i:15551791 original size:14 final size:14
Alignment explanation
Indices: 15551769--15551806 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
15551759 TTTAACTTAT
15551769 TATAA-TAATTTTA
1 TATAATTAATTTTA
*
15551782 TATAATTAATTTTT
1 TATAATTAATTTTA
*
15551796 TAAAATTAATT
1 TATAATTAATT
15551807 GAATTAAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 5 0.23
14 17 0.77
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TATAATTAATTTTA
Found at i:15573384 original size:15 final size:16
Alignment explanation
Indices: 15573352--15573384 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
15573342 TTGATGTATA
*
15573352 ATTGTTTCAAAGTTGT
1 ATTGTTTCAAAATTGT
15573368 ATTGTTT-AAAATTGT
1 ATTGTTTCAAAATTGT
15573383 AT
1 AT
15573385 ATGGATTACG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.30, C:0.03, G:0.15, T:0.52
Consensus pattern (16 bp):
ATTGTTTCAAAATTGT
Found at i:15575200 original size:13 final size:13
Alignment explanation
Indices: 15575182--15575207 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15575172 GAGATCGACC
15575182 TCTTTTTTTTTTT
1 TCTTTTTTTTTTT
15575195 TCTTTTTTTTTTT
1 TCTTTTTTTTTTT
15575208 AACCATAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (13 bp):
TCTTTTTTTTTTT
Found at i:15586211 original size:374 final size:374
Alignment explanation
Indices: 15585257--15586381 Score: 2081
Period size: 374 Copynumber: 3.0 Consensus size: 374
15585247 CGACAGGCCG
* * * *
15585257 TGTAACTCTCTGAGACCATGCGGTTCAATCTGTACTTAAAAATTAAAAAACACACGGCCATGTGA
1 TGTAACTCTCTGAGATCATGTGGTTCAATCTGTACTTAAAAATTAAAAGACACACGGCCGTGTGA
*
15585322 GGAGACCGTGTGTGACACACGACCGTGTGACAGCCTGTATGTCCTAAAATATGCCTTAAAATTCA
66 GGAGA-CGTGTGTGACACACGACCGTGTGACAGCCTGTATGTCCTAAAATGTGCCTTAAAATTCA
15585387 AGTTTACCAAATTGAACTTACTTGAGCCACAAGCATACCTTTTCACAACCATTTAAACTATTCAA
130 AGTTTACCAAATTGAACTTACTTGAGCCACAAGCATACCTTTTCACAACCATTTAAACTATTCAA
* *
15585452 AACACACCTAAACAAGCCTAAATCATGTCAAAACAAATGCATCTCATTCAAATCTAAACACTAAA
195 AACACACCTAAACAGGCCTAAATCATGTCAAAACAAATACATCTCATTCAAATCTAAACACTAAA
*
15585517 CCAATGTATCCTCATTGGTACCAAAATTCAAATACTAAAACATTTCAAACTCAATACCACAAGTT
260 CCAATATATCCTCATTGGTACCAAAATTCAAATACTAAAACATTTCAAACTCAATACCACAAGTT
*
15585582 CAAACATTAAACATTCATCAATCTCCA-ACTAATTAGCCACTTCACCCAT
325 CAAACATTAAACATTCATCAATCTCCACACTAATTAGCCACTTCACCTAT
*
15585631 TGTAACTCTCTGAGATCATGTGGTTCAATTTGTACTTAAAAATTAAAAGACACACGGCCGTGTGA
1 TGTAACTCTCTGAGATCATGTGGTTCAATCTGTACTTAAAAATTAAAAGACACACGGCCGTGTGA
15585696 GGAGACGTGTGTGACACACGACCGTGTGACAGCCTGTATGTCCTAAAATGTGCCTTAAAATTCAA
66 GGAGACGTGTGTGACACACGACCGTGTGACAGCCTGTATGTCCTAAAATGTGCCTTAAAATTCAA
15585761 GTTTACCAAATTGAACTTACTTGAGCCACAAGCATACCTTTTCACAACCATTTAAACTATTCAAA
131 GTTTACCAAATTGAACTTACTTGAGCCACAAGCATACCTTTTCACAACCATTTAAACTATTCAAA
15585826 ACACACCTAAACAGGCCTAAATCATGTCAAAACAAATACATCTCATTCAAATCTAAACACTAAAC
196 ACACACCTAAACAGGCCTAAATCATGTCAAAACAAATACATCTCATTCAAATCTAAACACTAAAC
* *
15585891 CAATATATTCTCATTGGTACCATAATTCAAATACTAAAACATTTCAAACTCAATACCACAAGTTC
261 CAATATATCCTCATTGGTACCAAAATTCAAATACTAAAACATTTCAAACTCAATACCACAAGTTC
15585956 AAACATTAAACATTCATCAATCTCCACACTAATTAGCCACTTCACCTAT
326 AAACATTAAACATTCATCAATCTCCACACTAATTAGCCACTTCACCTAT
*
15586005 TGTAACTCTCTGAGATCATGTGGTTCAATCTGTACTTAAAAATTAAAAGACACACGGCCGTGTTA
1 TGTAACTCTCTGAGATCATGTGGTTCAATCTGTACTTAAAAATTAAAAGACACACGGCCGTGTGA
*
15586070 AGAGACGTGTGTGACACACGACCGTGTGACAGCCTGTATGTCCTAAAATGTGCCTTAAAATTCAA
66 GGAGACGTGTGTGACACACGACCGTGTGACAGCCTGTATGTCCTAAAATGTGCCTTAAAATTCAA
15586135 GTTTACCAAATTGAACTTACTTGAGCCACAAGCATACCTTTTCACAACCATTTAAACTATTCAAA
131 GTTTACCAAATTGAACTTACTTGAGCCACAAGCATACCTTTTCACAACCATTTAAACTATTCAAA
*
15586200 ACACACCTAAACAGGCCTCAATCATGTCAAAACAAATACATCTCATTCAAATCTAAACACTAAAC
196 ACACACCTAAACAGGCCTAAATCATGTCAAAACAAATACATCTCATTCAAATCTAAACACTAAAC
*
15586265 CAATATATCCTCATTGGTACCACAATTCAAATACTAAAACATTTCAAACTCAATACCACAAGTTC
261 CAATATATCCTCATTGGTACCAAAATTCAAATACTAAAACATTTCAAACTCAATACCACAAGTTC
*
15586330 AAACATTAAACATTCATCAATCTCTACACTAATTAGCCACTTCACCTAT
326 AAACATTAAACATTCATCAATCTCCACACTAATTAGCCACTTCACCTAT
15586379 TGT
1 TGT
15586382 TAATGAATCA
Statistics
Matches: 731, Mismatches: 19, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
373 275 0.38
374 456 0.62
ACGTcount: A:0.38, C:0.24, G:0.11, T:0.27
Consensus pattern (374 bp):
TGTAACTCTCTGAGATCATGTGGTTCAATCTGTACTTAAAAATTAAAAGACACACGGCCGTGTGA
GGAGACGTGTGTGACACACGACCGTGTGACAGCCTGTATGTCCTAAAATGTGCCTTAAAATTCAA
GTTTACCAAATTGAACTTACTTGAGCCACAAGCATACCTTTTCACAACCATTTAAACTATTCAAA
ACACACCTAAACAGGCCTAAATCATGTCAAAACAAATACATCTCATTCAAATCTAAACACTAAAC
CAATATATCCTCATTGGTACCAAAATTCAAATACTAAAACATTTCAAACTCAATACCACAAGTTC
AAACATTAAACATTCATCAATCTCCACACTAATTAGCCACTTCACCTAT
Found at i:15587009 original size:40 final size:40
Alignment explanation
Indices: 15586916--15587117 Score: 280
Period size: 40 Copynumber: 5.0 Consensus size: 40
15586906 TCAAATACAT
*
15586916 CCTTTTCATTTGTTATCCTTTAT-GGATAACATCCTTTTTCAA
1 CCTTTTCATTTGATATCCTTT-TCGGAT-ACATCC-TTTTCAA
* * *
15586958 TCTTTTAATTTGATATCCTTTTCGGATAAATCCTTTTCAA
1 CCTTTTCATTTGATATCCTTTTCGGATACATCCTTTTCAA
*
15586998 CCTTTTCATTTGATATCCTTTTTGGATACATCCTTTTCAA
1 CCTTTTCATTTGATATCCTTTTCGGATACATCCTTTTCAA
* *
15587038 ACGTTTCATTTGATATCCTTTTCGGATACATCCTTTTCAA
1 CCTTTTCATTTGATATCCTTTTCGGATACATCCTTTTCAA
* **
15587078 CCTTTTCGTTTGATATCCTTTTTAGATACATCCTTTTCAA
1 CCTTTTCATTTGATATCCTTTTCGGATACATCCTTTTCAA
15587118 GTATATTACT
Statistics
Matches: 143, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
40 115 0.80
41 6 0.04
42 22 0.15
ACGTcount: A:0.22, C:0.21, G:0.08, T:0.49
Consensus pattern (40 bp):
CCTTTTCATTTGATATCCTTTTCGGATACATCCTTTTCAA
Found at i:15587063 original size:80 final size:80
Alignment explanation
Indices: 15586916--15587117 Score: 314
Period size: 80 Copynumber: 2.5 Consensus size: 80
15586906 TCAAATACAT
* * * *
15586916 CCTTTTCATTTGTTATCCTTTATGGATAACATCCTTTTTCAATCTTTTAATTTGATATCCTTTTC
1 CCTTTTCATTTGATATCCTTTTTGGAT-ACATCC-TTTTCAAACGTTTAATTTGATATCCTTTTC
15586981 GGATAAATCCTTTTCAA
64 GGATAAATCCTTTTCAA
*
15586998 CCTTTTCATTTGATATCCTTTTTGGATACATCCTTTTCAAACGTTTCATTTGATATCCTTTTCGG
1 CCTTTTCATTTGATATCCTTTTTGGATACATCCTTTTCAAACGTTTAATTTGATATCCTTTTCGG
*
15587063 ATACATCCTTTTCAA
66 ATAAATCCTTTTCAA
* *
15587078 CCTTTTCGTTTGATATCCTTTTTAGATACATCCTTTTCAA
1 CCTTTTCATTTGATATCCTTTTTGGATACATCCTTTTCAA
15587118 GTATATTACT
Statistics
Matches: 112, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
80 81 0.72
81 6 0.05
82 25 0.22
ACGTcount: A:0.22, C:0.21, G:0.08, T:0.49
Consensus pattern (80 bp):
CCTTTTCATTTGATATCCTTTTTGGATACATCCTTTTCAAACGTTTAATTTGATATCCTTTTCGG
ATAAATCCTTTTCAA
Found at i:15590172 original size:18 final size:18
Alignment explanation
Indices: 15590149--15590191 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
15590139 CAAGGTCACG
*
15590149 ATCAATAGTGTCACTATC
1 ATCAATAGCGTCACTATC
*
15590167 ATCAATAGCGTCATTATC
1 ATCAATAGCGTCACTATC
*
15590185 ATTAATA
1 ATCAATA
15590192 TTGATATCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (18 bp):
ATCAATAGCGTCACTATC
Found at i:15592576 original size:31 final size:30
Alignment explanation
Indices: 15592541--15592636 Score: 74
Period size: 31 Copynumber: 3.2 Consensus size: 30
15592531 TTGGTATCTG
15592541 AACTTGACATTTTTTCCTAATTTGATACCTA
1 AACTTGACATTTTTTCCTAATTTG-TACCTA
* * *
15592572 AACTT----TTTTTTGACCCAATTTCGTACATG
1 AACTTGACATTTTTT--CCTAATTT-GTACCTA
* *
15592601 AACTTGACACTTTCTCCTAATTTGGTACCTA
1 AACTTGACATTTTTTCCTAATTT-GTACCTA
15592632 AACTT
1 AACTT
15592637 TTTTTGGGCC
Statistics
Matches: 49, Mismatches: 9, Indels: 14
0.68 0.12 0.19
Matches are distributed among these distances:
27 6 0.12
29 16 0.33
30 1 0.02
31 22 0.45
33 4 0.08
ACGTcount: A:0.27, C:0.22, G:0.08, T:0.43
Consensus pattern (30 bp):
AACTTGACATTTTTTCCTAATTTGTACCTA
Found at i:15592632 original size:60 final size:60
Alignment explanation
Indices: 15592539--15592707 Score: 203
Period size: 60 Copynumber: 2.8 Consensus size: 60
15592529 ATTTGGTATC
* *
15592539 TGAACTTGACATTTTTTCCTAATTTGATACCTAAACTTTTTTTTGACCCAATTTCGTACA
1 TGAACTTGACATTTTCTCCTAATTTGGTACCTAAACTTTTTTTTGACCCAATTTCGTACA
* * * * *
15592599 TGAACTTGACACTTTCTCCTAATTTGGTACCTAAACTTTTTTTGGGCCCAATTTGGTACT
1 TGAACTTGACATTTTCTCCTAATTTGGTACCTAAACTTTTTTTTGACCCAATTTCGTACA
* * * *
15592659 TGAACTTGGCATTTTTTCCCCCTATTTTGGTACCTAAGCTTTTTCTTTG
1 TGAACTTGACA--TTTT-CTCCTAATTTGGTACCTAAACTTTTT-TTTG
15592708 GTTCAATTTG
Statistics
Matches: 92, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
60 63 0.68
62 3 0.03
63 23 0.25
64 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.45
Consensus pattern (60 bp):
TGAACTTGACATTTTCTCCTAATTTGGTACCTAAACTTTTTTTTGACCCAATTTCGTACA
Found at i:15593230 original size:31 final size:32
Alignment explanation
Indices: 15593185--15593301 Score: 95
Period size: 32 Copynumber: 3.8 Consensus size: 32
15593175 AAGATTAAGA
*
15593185 ACCAACTTAAG-AAAAAGTGTCAAGTTTAGGT
1 ACCAACTTAAGAAAAAAGTATCAAGTTTAGGT
* * *
15593216 ACCAAGTTAGGAAAAAAGTATCAAGTTTGGGT
1 ACCAACTTAAGAAAAAAGTATCAAGTTTAGGT
* *
15593248 ACCAAATT-GGACAAAAA--A--AAGTTTAGGT
1 ACCAACTTAAGA-AAAAAGTATCAAGTTTAGGT
* * *
15593276 ACCAAATTAA-AAAAAAATGTCAAGTT
1 ACCAACTTAAGAAAAAAGTATCAAGTT
15593302 CAAATACTAA
Statistics
Matches: 71, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
27 5 0.07
28 18 0.25
30 1 0.01
31 17 0.24
32 30 0.42
ACGTcount: A:0.47, C:0.11, G:0.18, T:0.24
Consensus pattern (32 bp):
ACCAACTTAAGAAAAAAGTATCAAGTTTAGGT
Found at i:15593240 original size:32 final size:32
Alignment explanation
Indices: 15593196--15593283 Score: 105
Period size: 32 Copynumber: 2.9 Consensus size: 32
15593186 CCAACTTAAG
* *
15593196 AAAAAGTGTCAAGTTTAGGTACCAAGTTAGGA-
1 AAAAAGTATCAAGTTTAGGTACCAAATT-GGAC
*
15593228 AAAAAGTATCAAGTTTGGGTACCAAATTGGAC
1 AAAAAGTATCAAGTTTAGGTACCAAATTGGAC
15593260 AAAAA--A--AAGTTTAGGTACCAAATT
1 AAAAAGTATCAAGTTTAGGTACCAAATT
15593284 AAAAAAAAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
28 17 0.33
30 1 0.02
31 3 0.06
32 30 0.59
ACGTcount: A:0.44, C:0.10, G:0.20, T:0.25
Consensus pattern (32 bp):
AAAAAGTATCAAGTTTAGGTACCAAATTGGAC
Found at i:15593267 original size:91 final size:90
Alignment explanation
Indices: 15593121--15593301 Score: 220
Period size: 91 Copynumber: 2.0 Consensus size: 90
15593111 AAAAAGAGAG
* ***
15593121 TAGGTACCAAATTAGGAAAACGAGTCAAGTTCAGGTACCAAATTGGACTCCAAAAAGATTAAGAA
1 TAGGTACCAAATTAGGAAAAAGAGTCAAGTTCAGGTACCAAATTGGACAAAAAAAAGATTAAGAA
* * *
15593186 CCAACTTAAGAAAAAGTGTCAAGTT
66 CCAAATTAAAAAAAAATGTCAAGTT
* ** * *
15593211 TAGGTACCAAGTTAGGAAAAA-AGTATCAAGTTTGGGTACCAAATTGGACAAAAAAAAGTTTAGG
1 TAGGTACCAAATTAGGAAAAAGAG--TCAAGTTCAGGTACCAAATTGGACAAAAAAAAGATTAAG
*
15593275 TACCAAATTAAAAAAAAATGTCAAGTT
64 AACCAAATTAAAAAAAAATGTCAAGTT
15593302 CAAATACTAA
Statistics
Matches: 76, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
89 2 0.03
90 19 0.25
91 55 0.72
ACGTcount: A:0.46, C:0.13, G:0.19, T:0.23
Consensus pattern (90 bp):
TAGGTACCAAATTAGGAAAAAGAGTCAAGTTCAGGTACCAAATTGGACAAAAAAAAGATTAAGAA
CCAAATTAAAAAAAAATGTCAAGTT
Found at i:15593278 original size:28 final size:30
Alignment explanation
Indices: 15593121--15593284 Score: 97
Period size: 31 Copynumber: 5.5 Consensus size: 30
15593111 AAAAAGAGAG
* *
15593121 TAGGTACCAAATTAGGAAAACGAGTCAAGTT
1 TAGGTACCAAATTAGGAAAA-AAGACAAGTT
* *** *
15593152 CAGGTACCAAATT-GGACTCCAA-A-AAGAT
1 TAGGTACCAAATTAGGA-AAAAAGACAAGTT
* * * * * *
15593180 TAAGAACCAACTTAAGAAAAAGTGTCAAGTT
1 TAGGTACCAAATTAGGAAAAA-AGACAAGTT
*
15593211 TAGGTACCAAGTTAGGAAAAAAGTATCAAGTT
1 TAGGTACCAAATTAGGAAAAAAG-A-CAAGTT
*
15593243 TGGGTACCAAATT-GGACAAAAA-A-AAGTT
1 TAGGTACCAAATTAGGA-AAAAAGACAAGTT
15593271 TAGGTACCAAATTA
1 TAGGTACCAAATTA
15593285 AAAAAAAATG
Statistics
Matches: 97, Mismatches: 27, Indels: 20
0.67 0.19 0.14
Matches are distributed among these distances:
28 31 0.32
29 2 0.02
30 6 0.06
31 36 0.37
32 22 0.23
ACGTcount: A:0.45, C:0.13, G:0.20, T:0.23
Consensus pattern (30 bp):
TAGGTACCAAATTAGGAAAAAAGACAAGTT
Found at i:15593291 original size:28 final size:28
Alignment explanation
Indices: 15593206--15593292 Score: 75
Period size: 28 Copynumber: 3.0 Consensus size: 28
15593196 AAAAAGTGTC
* **
15593206 AAGTTTAGGTACCAAGTTAGGAAAAAAGTATC
1 AAGTTTAGGTACCAAATTA--AAAAAA--AAA
* ** *
15593238 AAGTTTGGGTACCAAATTGGACAAAAAA
1 AAGTTTAGGTACCAAATTAAAAAAAAAA
15593266 AAGTTTAGGTACCAAATTAAAAAAAAA
1 AAGTTTAGGTACCAAATTAAAAAAAAA
15593293 TGTCAAGTTC
Statistics
Matches: 44, Mismatches: 11, Indels: 4
0.75 0.19 0.07
Matches are distributed among these distances:
28 24 0.55
30 4 0.09
32 16 0.36
ACGTcount: A:0.49, C:0.09, G:0.18, T:0.23
Consensus pattern (28 bp):
AAGTTTAGGTACCAAATTAAAAAAAAAA
Found at i:15603605 original size:44 final size:44
Alignment explanation
Indices: 15603551--15603642 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
15603541 TCGATGTAAC
* *
15603551 AGTAGCAGTACGACACACA-AGGTGCCTCATCGACTCGAAGTCGA
1 AGTAACAGTACGACACACATA-GTGCCTCATCGACTCAAAGTCGA
** *
15603595 AGTAACAGTACGACACTTATAGTGCCTCATCGACTCAAAGTTGA
1 AGTAACAGTACGACACACATAGTGCCTCATCGACTCAAAGTCGA
15603639 AGTA
1 AGTA
15603643 TCCCTGAACA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 41 0.98
45 1 0.02
ACGTcount: A:0.34, C:0.24, G:0.22, T:0.21
Consensus pattern (44 bp):
AGTAACAGTACGACACACATAGTGCCTCATCGACTCAAAGTCGA
Found at i:15611981 original size:40 final size:41
Alignment explanation
Indices: 15611937--15612052 Score: 155
Period size: 40 Copynumber: 2.9 Consensus size: 41
15611927 TTAAGTTACC
* * *
15611937 ATAGTGAATAAGGAACAAATCTTATCCACTTTAAATAT-TT
1 ATAGTGAATCAGGAACAAATCCTATTCACTTTAAATATCTT
*
15611977 ATAGTGAATCAGGAACAAATCCTATTCACTTT-AATTTCTT
1 ATAGTGAATCAGGAACAAATCCTATTCACTTTAAATATCTT
* * *
15612017 TTAGTTAATCAGGAATAAATCCTATTCACTTTAAAT
1 ATAGTGAATCAGGAACAAATCCTATTCACTTTAAAT
15612053 TCTCAAGAAG
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
39 4 0.06
40 60 0.90
41 3 0.04
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.37
Consensus pattern (41 bp):
ATAGTGAATCAGGAACAAATCCTATTCACTTTAAATATCTT
Found at i:15612999 original size:8 final size:8
Alignment explanation
Indices: 15612980--15613009 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
15612970 TTTATTTCAT
15612980 ATATATATA
1 ATATA-ATA
15612989 ATATAATA
1 ATATAATA
15612997 ATATAATA
1 ATATAATA
15613005 ATATA
1 ATATA
15613010 CTTTATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 16 0.76
9 5 0.24
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
ATATAATA
Found at i:15613880 original size:21 final size:21
Alignment explanation
Indices: 15613856--15613899 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
15613846 TTAAATCATA
15613856 TAGAATGGTAAACTAGAATTT
1 TAGAATGGTAAACTAGAATTT
15613877 TAGAATGGTAAACTAGAATTT
1 TAGAATGGTAAACTAGAATTT
15613898 TA
1 TA
15613900 CTTTAGTACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.05, G:0.18, T:0.34
Consensus pattern (21 bp):
TAGAATGGTAAACTAGAATTT
Found at i:15624853 original size:17 final size:17
Alignment explanation
Indices: 15624833--15624866 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
15624823 TTTTTAAAAA
15624833 CATCAAACGATTTTTCC
1 CATCAAACGATTTTTCC
*
15624850 CATCAAACGGTTTTTCC
1 CATCAAACGATTTTTCC
15624867 TATACTTAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.29, G:0.09, T:0.35
Consensus pattern (17 bp):
CATCAAACGATTTTTCC
Found at i:15626858 original size:43 final size:43
Alignment explanation
Indices: 15626810--15626970 Score: 157
Period size: 43 Copynumber: 3.8 Consensus size: 43
15626800 CGAGATGTCA
*
15626810 TGTAAGACCATGTATGGGACATTGGCATTGTATTGTGATTACG
1 TGTAAGACCATGTCTGGGACATTGGCATTGTATTGTGATTACG
* * * **
15626853 TGTAAGACCATGTCTGAGCCATTGGCATTGTTATT-CGATTTTG
1 TGTAAGACCATGTCTGGGACATTGGCATTG-TATTGTGATTACG
* * * * *
15626896 TGTAAGACCCTGTCTGGGACAGTGGCATCG-ATATGTGATAACA
1 TGTAAGACCATGTCTGGGACATTGGCATTGTAT-TGTGATTACG
* * *
15626939 TGTAAGACCATATCTAGGATA-TGGCATTGTAT
1 TGTAAGACCATGTCTGGGACATTGGCATTGTAT
15626971 GAGTTTTATG
Statistics
Matches: 93, Mismatches: 21, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
41 2 0.02
42 8 0.09
43 79 0.85
44 4 0.04
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATTGTATTGTGATTACG
Found at i:15647014 original size:59 final size:59
Alignment explanation
Indices: 15646948--15647068 Score: 242
Period size: 59 Copynumber: 2.1 Consensus size: 59
15646938 CTATCACGAA
15646948 ATAACGCGATCAGTCGGTAAGGGCTAATTAAACCCTAAATTGTATGAACTGTCTATTTT
1 ATAACGCGATCAGTCGGTAAGGGCTAATTAAACCCTAAATTGTATGAACTGTCTATTTT
15647007 ATAACGCGATCAGTCGGTAAGGGCTAATTAAACCCTAAATTGTATGAACTGTCTATTTT
1 ATAACGCGATCAGTCGGTAAGGGCTAATTAAACCCTAAATTGTATGAACTGTCTATTTT
15647066 ATA
1 ATA
15647069 TTCTGATCTG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 62 1.00
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (59 bp):
ATAACGCGATCAGTCGGTAAGGGCTAATTAAACCCTAAATTGTATGAACTGTCTATTTT
Found at i:15648680 original size:22 final size:22
Alignment explanation
Indices: 15648654--15648708 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
15648644 TTTCTAAAAT
15648654 TATGTTATATGATAAGCTCCGA
1 TATGTTATATGATAAGCTCCGA
* * *
15648676 TATGTTACATGATATGCTCTGA
1 TATGTTATATGATAAGCTCCGA
*
15648698 TATGTAATATG
1 TATGTTATATG
15648709 GTAGGAAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (22 bp):
TATGTTATATGATAAGCTCCGA
Found at i:15650704 original size:30 final size:30
Alignment explanation
Indices: 15650657--15650714 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
15650647 ATTATATTTA
* *
15650657 TTTATTTATTATTTTATTGTTCTTTTGTTC
1 TTTATTTATTATTTTATTATTATTTTGTTC
15650687 TTTA-TTATTATTATTATTATTATTTTGT
1 TTTATTTATTATT-TTATTATTATTTTGT
15650715 CGTTCTCCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 8 0.32
30 17 0.68
ACGTcount: A:0.19, C:0.03, G:0.05, T:0.72
Consensus pattern (30 bp):
TTTATTTATTATTTTATTATTATTTTGTTC
Found at i:15654511 original size:13 final size:12
Alignment explanation
Indices: 15654493--15654535 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 12
15654483 TTTTTTAATG
15654493 TTTATAGTAATAT
1 TTTATAGTAA-AT
15654506 TTTATAGTAAAT
1 TTTATAGTAAAT
*
15654518 TTTAGTAATAAAAT
1 TTTA-TAGT-AAAT
15654532 TTTA
1 TTTA
15654536 GATAGTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 6 0.22
13 13 0.48
14 8 0.30
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (12 bp):
TTTATAGTAAAT
Found at i:15655723 original size:15 final size:15
Alignment explanation
Indices: 15655705--15655780 Score: 61
Period size: 15 Copynumber: 5.3 Consensus size: 15
15655695 TAGGTGTGTG
15655705 AACCCTAAGTGTGCA
1 AACCCTAAGTGTGCA
* * *
15655720 AACCCTAGGTATGCG
1 AACCCTAAGTGTGCA
*
15655735 AACCCT---TGTACA
1 AACCCTAAGTGTGCA
* *
15655747 AACTCTAAGTGTGCG
1 AACCCTAAGTGTGCA
*
15655762 AACCCTGA-TGTGCA
1 AACCCTAAGTGTGCA
15655776 AACCC
1 AACCC
15655781 ATCTGTGTGA
Statistics
Matches: 46, Mismatches: 12, Indels: 7
0.71 0.18 0.11
Matches are distributed among these distances:
12 8 0.17
14 10 0.22
15 28 0.61
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (15 bp):
AACCCTAAGTGTGCA
Found at i:15655724 original size:57 final size:56
Alignment explanation
Indices: 15655657--15655780 Score: 142
Period size: 57 Copynumber: 2.2 Consensus size: 56
15655647 CAAACCCATC
* * * * * *
15655657 TGTGCGAACCCTAGGTATACGAAAGCTTGTAC-GACCCTTAGGTGTGTGAACCCTAA
1 TGTGCAAACCCTAGGTATACGAAACCTTGTACAAACTC-TAAGTGTGCGAACCCTAA
* * *
15655713 GTGTGCAAACCCTAGGTATGCGAACCCTTGTACAAACTCTAAGTGTGCGAACCCTGA
1 -TGTGCAAACCCTAGGTATACGAAACCTTGTACAAACTCTAAGTGTGCGAACCCTAA
15655770 TGTGCAAACCC
1 TGTGCAAACCC
15655781 ATCTGTGTGA
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
56 11 0.19
57 43 0.75
58 3 0.05
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.23
Consensus pattern (56 bp):
TGTGCAAACCCTAGGTATACGAAACCTTGTACAAACTCTAAGTGTGCGAACCCTAA
Found at i:15656500 original size:13 final size:14
Alignment explanation
Indices: 15656469--15656501 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
15656459 ATTTTCTGCA
*
15656469 TAATTTTAATTATT
1 TAATGTTAATTATT
15656483 TAATGTTAATTA-T
1 TAATGTTAATTATT
15656496 TAATGT
1 TAATGT
15656502 GTTATATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (14 bp):
TAATGTTAATTATT
Found at i:15661638 original size:25 final size:25
Alignment explanation
Indices: 15661608--15661696 Score: 97
Period size: 25 Copynumber: 3.6 Consensus size: 25
15661598 TTCTGATTAT
15661608 GGCTTTGTGCCGATATGCTATTGAA
1 GGCTTTGTGCCGATATGCTATTGAA
* *
15661633 GGCTTTGTGTCGATATGCTATTAAA
1 GGCTTTGTGCCGATATGCTATTGAA
** * * * *
15661658 GGCTTCATGTCGGTATGTTATTGAT
1 GGCTTTGTGCCGATATGCTATTGAA
*
15661683 GGCTATGTGCCGAT
1 GGCTTTGTGCCGAT
15661697 TTATTATCCA
Statistics
Matches: 51, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 51 1.00
ACGTcount: A:0.19, C:0.15, G:0.28, T:0.38
Consensus pattern (25 bp):
GGCTTTGTGCCGATATGCTATTGAA
Found at i:15661703 original size:25 final size:25
Alignment explanation
Indices: 15661681--15661805 Score: 99
Period size: 25 Copynumber: 5.0 Consensus size: 25
15661671 TATGTTATTG
*
15661681 ATGGCTATGTGCCGATTTATTATCC
1 ATGGCTTTGTGCCGATTTATTATCC
* *
15661706 ATAGCTTTGTGCCGATTTGTTATCC
1 ATGGCTTTGTGCCGATTTATTATCC
* * * **
15661731 ATAGCTTTGTGCCAATATGA-TATTG
1 ATGGCTTTGTGCCGAT-TTATTATCC
* * * * *
15661756 ATGGCTATGTGCCAATCTGTTATCA
1 ATGGCTTTGTGCCGATTTATTATCC
*
15661781 ATGGCTTTGTGCCGATCGTATTATC
1 ATGGCTTTGTGCCGAT-TTATTATC
15661806 GTAATAATAG
Statistics
Matches: 78, Mismatches: 19, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
25 71 0.91
26 7 0.09
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.40
Consensus pattern (25 bp):
ATGGCTTTGTGCCGATTTATTATCC
Found at i:15661742 original size:50 final size:51
Alignment explanation
Indices: 15661688--15661805 Score: 114
Period size: 50 Copynumber: 2.4 Consensus size: 51
15661678 TTGATGGCTA
* * * *
15661688 TGTGCCGAT-TTATTATCCATAGCTTTGTGCCGATTTGTTATCCATAGCTT
1 TGTGCCGATATTATTATCCATAGCTATGTGCCAATCTGTTATCAATAGCTT
* * ** * *
15661738 TGTGCCAATATGA-TATTGATGGCTATGTGCCAATCTGTTATCAATGGCTT
1 TGTGCCGATATTATTATCCATAGCTATGTGCCAATCTGTTATCAATAGCTT
**
15661788 TGTGCCGATCGTATTATC
1 TGTGCCGATATTATTATC
15661806 GTAATAATAG
Statistics
Matches: 51, Mismatches: 15, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
50 46 0.90
51 5 0.10
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (51 bp):
TGTGCCGATATTATTATCCATAGCTATGTGCCAATCTGTTATCAATAGCTT
Found at i:15674760 original size:30 final size:30
Alignment explanation
Indices: 15674680--15674776 Score: 122
Period size: 30 Copynumber: 3.2 Consensus size: 30
15674670 TAAGGACACA
* ** *
15674680 CCCGTGTAGTCAGGCTGTCAACTACACACG
1 CCCGTGTGGTCAGGCTGTGTACTACACATG
* *
15674710 CCCGTATGGTCAGGCTGTGTACTACATATG
1 CCCGTGTGGTCAGGCTGTGTACTACACATG
*
15674740 CCCGTGTGGTCAGGCCGTGTACTACACATG
1 CCCGTGTGGTCAGGCTGTGTACTACACATG
*
15674770 CCTGTGT
1 CCCGTGT
15674777 AACTCTCTAA
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 57 1.00
ACGTcount: A:0.19, C:0.29, G:0.27, T:0.26
Consensus pattern (30 bp):
CCCGTGTGGTCAGGCTGTGTACTACACATG
Found at i:15681177 original size:17 final size:18
Alignment explanation
Indices: 15681147--15681185 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
15681137 ATGTTTGGTG
*
15681147 TATTACATAAAATTAA-A
1 TATTAAATAAAATTAATA
*
15681164 TATTAAATATAATTAATA
1 TATTAAATAAAATTAATA
15681182 TATT
1 TATT
15681186 TGGTAAATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
TATTAAATAAAATTAATA
Found at i:15681782 original size:16 final size:17
Alignment explanation
Indices: 15681761--15681796 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
15681751 GTTAACAACC
*
15681761 TAATTTTCTATTTT-AT
1 TAATTTACTATTTTAAT
15681777 TAATTTACTATTTTAAT
1 TAATTTACTATTTTAAT
15681794 TAA
1 TAA
15681797 GATAGTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (17 bp):
TAATTTACTATTTTAAT
Found at i:15683924 original size:12 final size:11
Alignment explanation
Indices: 15683889--15683923 Score: 70
Period size: 11 Copynumber: 3.2 Consensus size: 11
15683879 CTTTAGCTTC
15683889 TTCTTTTTTTT
1 TTCTTTTTTTT
15683900 TTCTTTTTTTT
1 TTCTTTTTTTT
15683911 TTCTTTTTTTT
1 TTCTTTTTTTT
15683922 TT
1 TT
15683924 TGATTGGGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (11 bp):
TTCTTTTTTTT
Found at i:15684110 original size:23 final size:24
Alignment explanation
Indices: 15684084--15684138 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
15684074 TAATTTATGT
15684084 ATTTTATAAATTTTAAAATT-TTA
1 ATTTTATAAATTTTAAAATTATTA
* * *
15684107 ATTTGATAATTTTTAAATTTATTA
1 ATTTTATAAATTTTAAAATTATTA
15684131 AGTTTTAT
1 A-TTTTAT
15684139 TTTTCTTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 17 0.65
24 4 0.15
25 5 0.19
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (24 bp):
ATTTTATAAATTTTAAAATTATTA
Found at i:15692665 original size:4 final size:4
Alignment explanation
Indices: 15692656--15692688 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
15692646 CACGTATATA
15692656 TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT T
1 TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT T
15692689 TTAAAATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TCTT
Found at i:15693677 original size:11 final size:11
Alignment explanation
Indices: 15693635--15693686 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
15693625 AAAGAAGTTT
*
15693635 AATAACAAT-A
1 AATAAAAATAA
15693645 AATAGAAAGATAAA
1 AATA-AAA-AT-AA
15693659 AATAAAAATAA
1 AATAAAAATAA
*
15693670 ACTAAAAATAA
1 AATAAAAATAA
15693681 AATAAA
1 AATAAA
15693687 GGAGATGGAC
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
10 4 0.11
11 19 0.54
12 4 0.11
13 3 0.09
14 5 0.14
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.17
Consensus pattern (11 bp):
AATAAAAATAA
Found at i:15693677 original size:17 final size:16
Alignment explanation
Indices: 15693655--15693686 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
15693645 AATAGAAAGA
15693655 TAAAAATAAAAATAAAC
1 TAAAAAT-AAAATAAAC
15693672 TAAAAATAAAATAAA
1 TAAAAATAAAATAAA
15693687 GGAGATGGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (16 bp):
TAAAAATAAAATAAAC
Found at i:15695361 original size:22 final size:23
Alignment explanation
Indices: 15695335--15695384 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 23
15695325 AAAGAATTAA
*
15695335 AAATAAACT-AATAAAATA-AAAT
1 AAATAAA-TAAATAAAATAGAAAG
15695357 AAATAAATAAATAAAATAGAAAG
1 AAATAAATAAATAAAATAGAAAG
15695380 AAATA
1 AAATA
15695385 TAAAGAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 1 0.04
22 16 0.64
23 8 0.32
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.20
Consensus pattern (23 bp):
AAATAAATAAATAAAATAGAAAG
Found at i:15696495 original size:6 final size:6
Alignment explanation
Indices: 15696418--15696480 Score: 126
Period size: 6 Copynumber: 10.5 Consensus size: 6
15696408 ATTGATTCCA
15696418 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
15696466 TTTATT TTTATT TTT
1 TTTATT TTTATT TTT
15696481 TTGGTTTTTA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 57 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTATT
Found at i:15698427 original size:30 final size:30
Alignment explanation
Indices: 15698341--15698427 Score: 106
Period size: 30 Copynumber: 2.9 Consensus size: 30
15698331 TGGGCATTCT
* *
15698341 CACACAGGTTGAG-CACATGCTTGTGTGAGC
1 CACACAGGCTG-GCCACATGCCTGTGTGAGC
* *
15698371 CACACGGGCTGGCCACACGTCC-GTGTGAGC
1 CACACAGGCTGGCCACATG-CCTGTGTGAGC
15698401 CACACAGGCTGGCCACATGCCTGTGTG
1 CACACAGGCTGGCCACATGCCTGTGTG
15698428 CTAGCTCGTG
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
29 3 0.06
30 44 0.92
31 1 0.02
ACGTcount: A:0.20, C:0.31, G:0.31, T:0.18
Consensus pattern (30 bp):
CACACAGGCTGGCCACATGCCTGTGTGAGC
Found at i:15701499 original size:26 final size:27
Alignment explanation
Indices: 15701470--15701522 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
15701460 AATCTGGTAC
15701470 TTAAAAATCAGAATTCGAGTAG-ATTT
1 TTAAAAATCAGAATTCGAGTAGCATTT
* *
15701496 TTAAAAATTAGAATTTGAGTAGCATTT
1 TTAAAAATCAGAATTCGAGTAGCATTT
15701523 AGCTTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.38
Consensus pattern (27 bp):
TTAAAAATCAGAATTCGAGTAGCATTT
Found at i:15705222 original size:37 final size:37
Alignment explanation
Indices: 15705181--15705251 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
15705171 TATACACCGC
*
15705181 TTTTTAAGACTCAGATTCATTAGGCAACAACAAATTT
1 TTTTTAAAACTCAGATTCATTAGGCAACAACAAATTT
15705218 TTTTTAAAACTCAGATTCATTAGGCAACAACAAA
1 TTTTTAAAACTCAGATTCATTAGGCAACAACAAA
15705252 ATCTCCTCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (37 bp):
TTTTTAAAACTCAGATTCATTAGGCAACAACAAATTT
Found at i:15705420 original size:22 final size:23
Alignment explanation
Indices: 15705395--15705439 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
15705385 AGCCAAAAAT
*
15705395 ATGCTAGAA-AAGCATA-CTTGAG
1 ATGCTA-AAGAAGCAGACCTTGAG
15705417 ATGCTAAAGAAGCAGACCTTGAG
1 ATGCTAAAGAAGCAGACCTTGAG
15705440 CTTATCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 2 0.10
22 12 0.60
23 6 0.30
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.20
Consensus pattern (23 bp):
ATGCTAAAGAAGCAGACCTTGAG
Found at i:15705680 original size:42 final size:42
Alignment explanation
Indices: 15705621--15705706 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
15705611 ACTATATTAG
15705621 ACATTTCGAATAATTTACTAAAAAAGAATTAACCTCCTTAAA
1 ACATTTCGAATAATTTACTAAAAAAGAATTAACCTCCTTAAA
15705663 ACATTTCGAATAATTTACTAAAAAAGAATTAACCTCCTTAAA
1 ACATTTCGAATAATTTACTAAAAAAGAATTAACCTCCTTAAA
15705705 AC
1 AC
15705707 TATCTTTATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.48, C:0.17, G:0.05, T:0.30
Consensus pattern (42 bp):
ACATTTCGAATAATTTACTAAAAAAGAATTAACCTCCTTAAA
Found at i:15713635 original size:6 final size:6
Alignment explanation
Indices: 15713624--15713649 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
15713614 TTATTCAGCA
15713624 GATGCT GATGCT GATGCT GATGCT GA
1 GATGCT GATGCT GATGCT GATGCT GA
15713650 ACTGCGGCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.15, G:0.35, T:0.31
Consensus pattern (6 bp):
GATGCT
Found at i:15723166 original size:16 final size:18
Alignment explanation
Indices: 15723133--15723169 Score: 51
Period size: 16 Copynumber: 2.1 Consensus size: 18
15723123 GTTTTTAAAA
15723133 TATTAAAAAATTCATTAAT
1 TATTAAAAAATT-ATTAAT
15723152 TATT-AAAAATT-TTAAT
1 TATTAAAAAATTATTAAT
15723168 TA
1 TA
15723170 GATATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.39
18 7 0.39
19 4 0.22
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
TATTAAAAAATTATTAAT
Found at i:15724120 original size:24 final size:24
Alignment explanation
Indices: 15724088--15724166 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
15724078 ACTAAAGTTT
* *
15724088 ATTTATTTTCTTACTTTGGTCTTA
1 ATTTATTTTCTCACTTTAGTCTTA
* * *
15724112 ATTTTTTTTGTCACTTTAGTTTTA
1 ATTTATTTTCTCACTTTAGTCTTA
* * *
15724136 ATTATTGTTTTATCATTTTAGTTCTTA
1 A-T-TTATTTTCTCACTTTAG-TCTTA
15724163 ATTT
1 ATTT
15724167 TCTAAATTTT
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
24 20 0.47
25 3 0.07
26 15 0.35
27 5 0.12
ACGTcount: A:0.19, C:0.09, G:0.08, T:0.65
Consensus pattern (24 bp):
ATTTATTTTCTCACTTTAGTCTTA
Found at i:15724163 original size:27 final size:25
Alignment explanation
Indices: 15724107--15724167 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 25
15724097 CTTACTTTGG
*
15724107 TCTTAATTTTTTTTGTCACTTTAGT
1 TCTTAATTTTTTTTATCACTTTAGT
*
15724132 T-TTAATTATTGTTTTATCATTTTAGT
1 TCTTAATT-TT-TTTTATCACTTTAGT
15724158 TCTTAATTTT
1 TCTTAATTTT
15724168 CTAAATTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 6 0.19
25 3 0.10
26 16 0.52
27 6 0.19
ACGTcount: A:0.20, C:0.08, G:0.07, T:0.66
Consensus pattern (25 bp):
TCTTAATTTTTTTTATCACTTTAGT
Found at i:15730227 original size:20 final size:21
Alignment explanation
Indices: 15730188--15730227 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
15730178 GTTATAATGA
*
15730188 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCATGTTGCCCTT
15730209 CCACACGGGCATG-TGCCCT
1 CCACACGGGCATGTTGCCCT
15730228 AAAGACGGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.12, C:0.40, G:0.28, T:0.20
Consensus pattern (21 bp):
CCACACGGGCATGTTGCCCTT
Found at i:15730276 original size:75 final size:75
Alignment explanation
Indices: 15730153--15730303 Score: 302
Period size: 75 Copynumber: 2.0 Consensus size: 75
15730143 AGAAAAAAGA
15730153 AAAGACGGGCCAACAACACGGCCATGTTATAATGACCACACGGGCGTGTTGCCCTTCCACACGGG
1 AAAGACGGGCCAACAACACGGCCATGTTATAATGACCACACGGGCGTGTTGCCCTTCCACACGGG
15730218 CATGTGCCCT
66 CATGTGCCCT
15730228 AAAGACGGGCCAACAACACGGCCATGTTATAATGACCACACGGGCGTGTTGCCCTTCCACACGGG
1 AAAGACGGGCCAACAACACGGCCATGTTATAATGACCACACGGGCGTGTTGCCCTTCCACACGGG
15730293 CATGTGCCCT
66 CATGTGCCCT
15730303 A
1 A
15730304 TTTTAAGAAT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 76 1.00
ACGTcount: A:0.26, C:0.32, G:0.25, T:0.17
Consensus pattern (75 bp):
AAAGACGGGCCAACAACACGGCCATGTTATAATGACCACACGGGCGTGTTGCCCTTCCACACGGG
CATGTGCCCT
Found at i:15730302 original size:20 final size:21
Alignment explanation
Indices: 15730263--15730302 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
15730253 GTTATAATGA
*
15730263 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCATGTTGCCCTT
15730284 CCACACGGGCATG-TGCCCT
1 CCACACGGGCATGTTGCCCT
15730303 ATTTTAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.12, C:0.40, G:0.28, T:0.20
Consensus pattern (21 bp):
CCACACGGGCATGTTGCCCTT
Found at i:15734310 original size:37 final size:36
Alignment explanation
Indices: 15734251--15734324 Score: 87
Period size: 37 Copynumber: 2.0 Consensus size: 36
15734241 ACATGTCAAC
*
15734251 ATTTAATTAATTTTTTAAAATTTTAAAAAATTATAAA
1 ATTTAAATAATTTTTTAAAATTTT-AAAAATTATAAA
* * *
15734288 ATTTAAATAATCTTTTT-GAATTTTTAAAATTTTAAA
1 ATTTAAATAAT-TTTTTAAAATTTTAAAAATTATAAA
15734324 A
1 A
15734325 ATAATTAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
36 11 0.34
37 16 0.50
38 5 0.16
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (36 bp):
ATTTAAATAATTTTTTAAAATTTTAAAAATTATAAA
Found at i:15735214 original size:13 final size:13
Alignment explanation
Indices: 15735180--15735227 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
15735170 CTTAAATTTT
15735180 TCAAAAGCACTTC
1 TCAAAAGCACTTC
*
15735193 TTC-ACAGCACTTC
1 -TCAAAAGCACTTC
*
15735206 TCAAAAGCACTTT
1 TCAAAAGCACTTC
15735219 TCAAAAGCA
1 TCAAAAGCA
15735228 TTGCCAAACT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
12 2 0.07
13 26 0.87
14 2 0.07
ACGTcount: A:0.38, C:0.29, G:0.08, T:0.25
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:15737782 original size:13 final size:13
Alignment explanation
Indices: 15737764--15737788 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15737754 GAGGTTCTAT
15737764 TTTTTATTTTTTA
1 TTTTTATTTTTTA
15737777 TTTTTATTTTTT
1 TTTTTATTTTTT
15737789 TGGGTTTTGA
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:15759298 original size:14 final size:16
Alignment explanation
Indices: 15759268--15759305 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
15759258 TAATTTTTAT
15759268 ATTGAATTTTGAATTA
1 ATTGAATTTTGAATTA
15759284 A-TGAATTTT-AATTA
1 ATTGAATTTTGAATTA
15759298 ATTGAATT
1 ATTGAATT
15759306 AGTGGTTAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.29
15 14 0.67
16 1 0.05
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (16 bp):
ATTGAATTTTGAATTA
Found at i:15773891 original size:27 final size:27
Alignment explanation
Indices: 15773861--15773920 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
15773851 AATATCCTGG
* * *
15773861 CGGACTACCCTGTGTTTATTGTCTCGA
1 CGGACTACCCCGTGTTTACTATCTCGA
*
15773888 CGGATTACCCCGTGTTTACTATCTCGA
1 CGGACTACCCCGTGTTTACTATCTCGA
15773915 CGGACT
1 CGGACT
15773921 CTCTATTGGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.17, C:0.28, G:0.22, T:0.33
Consensus pattern (27 bp):
CGGACTACCCCGTGTTTACTATCTCGA
Found at i:15775470 original size:40 final size:40
Alignment explanation
Indices: 15775403--15775556 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
15775393 ATTGTCTAAG
* ****
15775403 AATTTACCAAAATTTATAATAAGTTACCAAAATAT-TTAA
1 AATTTACCAAAATTTCTAAGCTTTTACCAAAATATCTTAA
* *
15775442 GGATTTACCAAAATTTCTAAGCTTTTACCAAAAT-TCCTTGA
1 -AATTTACCAAAATTTCTAAGCTTTTACCAAAATAT-CTTAA
* ** * *
15775483 AAGTTAATAAAATTTTGTAAGCTTTTACCAAAATTTCTTAA
1 AATTTACCAAAA-TTTCTAAGCTTTTACCAAAATATCTTAA
* *
15775524 AATTTATCAAAATTTGTAAGCTTTTACCAAAAT
1 AATTTACCAAAATTTCTAAGCTTTTACCAAAAT
15775557 TATATTTTTA
Statistics
Matches: 94, Mismatches: 16, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
39 1 0.01
40 56 0.60
41 36 0.38
42 1 0.01
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.38
Consensus pattern (40 bp):
AATTTACCAAAATTTCTAAGCTTTTACCAAAATATCTTAA
Found at i:15775549 original size:20 final size:20
Alignment explanation
Indices: 15775426--15775557 Score: 85
Period size: 20 Copynumber: 6.5 Consensus size: 20
15775416 TTATAATAAG
**
15775426 TTACCAAAATATT-TAAGGAT
1 TTACCAAAAT-TTGTAAGCTT
*
15775446 TTACCAAAATTTCTAAGCTT
1 TTACCAAAATTTGTAAGCTT
*
15775466 TTACCAAAATTCCTTGAAAG-TT
1 TTACCAAAA-T--TTGTAAGCTT
* *
15775488 AATA--AAATTTTGTAAGCTT
1 -TTACCAAAATTTGTAAGCTT
* **
15775507 TTACCAAAATTTCTTAA-AAT
1 TTACCAAAATTT-GTAAGCTT
*
15775527 TTATCAAAATTTGTAAGCTT
1 TTACCAAAATTTGTAAGCTT
15775547 TTACCAAAATT
1 TTACCAAAATT
15775558 ATATTTTTAA
Statistics
Matches: 85, Mismatches: 17, Indels: 20
0.70 0.14 0.16
Matches are distributed among these distances:
18 8 0.09
19 7 0.08
20 54 0.64
21 7 0.08
22 2 0.02
23 7 0.08
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (20 bp):
TTACCAAAATTTGTAAGCTT
Found at i:15775557 original size:40 final size:40
Alignment explanation
Indices: 15775426--15775557 Score: 160
Period size: 40 Copynumber: 3.3 Consensus size: 40
15775416 TTATAATAAG
* * * *
15775426 TTACCAAAATAT-TTAAGGATTTACCAAAATTTCTAAGCTT
1 TTACCAAAATTTCTTAA-AATTTATCAAAATTTGTAAGCTT
* * *
15775466 TTACCAAAATTCCTTGAAAGTTAAT-AAAATTTTGTAAGCTT
1 TTACCAAAATTTCTT-AAAATTTATCAAAA-TTTGTAAGCTT
15775507 TTACCAAAATTTCTTAAAATTTATCAAAATTTGTAAGCTT
1 TTACCAAAATTTCTTAAAATTTATCAAAATTTGTAAGCTT
15775547 TTACCAAAATT
1 TTACCAAAATT
15775558 ATATTTTTAA
Statistics
Matches: 78, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
40 43 0.55
41 33 0.42
42 2 0.03
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (40 bp):
TTACCAAAATTTCTTAAAATTTATCAAAATTTGTAAGCTT
Found at i:15775593 original size:20 final size:20
Alignment explanation
Indices: 15775390--15775595 Score: 68
Period size: 20 Copynumber: 9.9 Consensus size: 20
15775380 AAATAATTTA
15775390 AAAATTGTCTAAGA-ATTTACC
1 AAAATT-TCTAA-ATATTTACC
* *
15775411 AAAATTTAT-AATAAGTTACC
1 AAAATTTCTAAAT-ATTTACC
**
15775431 AAAATATT-TAAGGATTTACC
1 AAAAT-TTCTAAATATTTACC
*
15775451 AAAATTTCTAAGCT-TTTACC
1 AAAATTTCTAA-ATATTTACC
* * * **
15775471 AAAATTCCTTGAA-AGTTAAT
1 AAAATTTC-TAAATATTTACC
* *
15775491 AAAATTTTGTAAGCT-TTTACC
1 AAAA-TTTCTAA-ATATTTACC
*
15775512 AAAATTTCTTAAA-ATTTATC
1 AAAATTTC-TAAATATTTACC
* *
15775532 AAAATTTGTAAGCT-TTTACC
1 AAAATTTCTAA-ATATTTACC
* *
15775552 AAAATTATATTTTTAATGATTTACC
1 -AAA--AT-TTCTAAAT-ATTTACC
15775577 AAAATTTCTAAATATTTAC
1 AAAATTTCTAAATATTTAC
15775596 AATATTTTTG
Statistics
Matches: 133, Mismatches: 31, Indels: 43
0.64 0.15 0.21
Matches are distributed among these distances:
18 1 0.01
19 6 0.05
20 76 0.57
21 32 0.24
22 2 0.02
23 3 0.02
24 7 0.05
25 6 0.05
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.40
Consensus pattern (20 bp):
AAAATTTCTAAATATTTACC
Found at i:15775620 original size:20 final size:19
Alignment explanation
Indices: 15775558--15775664 Score: 92
Period size: 20 Copynumber: 5.4 Consensus size: 19
15775548 TACCAAAATT
15775558 ATATTTTTAATGATTTACCA
1 ATATTTTTAA-GATTTACCA
* * *
15775578 AAATTTCTAAATATTTA-CA
1 ATATTT-TTAAGATTTACCA
15775597 ATATTTTTGAA-ACTTTACCA
1 ATATTTTT-AAGA-TTTACCA
* *
15775617 ATATATTTAATGATTTATCA
1 ATATTTTTAA-GATTTACCA
*
15775637 AAATTTTTAAGGATTTACCA
1 ATATTTTTAA-GATTTACCA
15775657 ATATTTTT
1 ATATTTTT
15775665 GAGACTTTGC
Statistics
Matches: 69, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
18 2 0.03
19 15 0.22
20 48 0.70
21 4 0.06
ACGTcount: A:0.38, C:0.09, G:0.05, T:0.48
Consensus pattern (19 bp):
ATATTTTTAAGATTTACCA
Found at i:15775633 original size:59 final size:60
Alignment explanation
Indices: 15775426--15775672 Score: 173
Period size: 61 Copynumber: 4.0 Consensus size: 60
15775416 TTATAATAAG
* * * * * *
15775426 TTACCAAAATATTTAAGGATTTACCAAAATTTCT-AAGCTTTTACCAAAATTCCTTGAAA-G
1 TTACCAATATATTTAATGATTTACCAAAATTTCTAAAG-ATTTACCAATATT-TTTGAAACT
** * * * * * * *
15775486 TTAATAAAATTTTGTAA-GCTTTTACCAAAATTTCTTAAA-ATTTATCAAAATTTGT-AAGCTT
1 TTACCAATATATT-TAATG-ATTTACCAAAATTTC-TAAAGATTTACCAATATTTTTGAAAC-T
*
15775547 TTACCAAAATTATATTTTTAATGATTTACCAAAATTTCTAAATATTTA-CAATATTTTTGAAACT
1 TTACC--AA-TATA--TTTAATGATTTACCAAAATTTCTAAAGATTTACCAATATTTTTGAAACT
* * * *
15775611 TTACCAATATATTTAATGATTTATCAAAATTTTTAAGGATTTACCAATATTTTTGAGACT
1 TTACCAATATATTTAATGATTTACCAAAATTTCTAAAGATTTACCAATATTTTTGAAACT
15775671 TT
1 TT
15775673 GCTAATTAAT
Statistics
Matches: 149, Mismatches: 23, Indels: 30
0.74 0.11 0.15
Matches are distributed among these distances:
59 30 0.20
60 29 0.19
61 35 0.23
62 3 0.02
63 4 0.03
64 20 0.13
65 25 0.17
66 3 0.02
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (60 bp):
TTACCAATATATTTAATGATTTACCAAAATTTCTAAAGATTTACCAATATTTTTGAAACT
Found at i:15775654 original size:40 final size:38
Alignment explanation
Indices: 15775560--15775662 Score: 104
Period size: 39 Copynumber: 2.6 Consensus size: 38
15775550 CCAAAATTAT
* *
15775560 ATTTTTAATGATTTACCAAAATTTCTAAATATTTACAAT
1 ATTTTTAA-GATTTACCAATATTTCTAAATATTTACAAA
15775599 ATTTTTGAA-ACTTTACCAATATATT-T-AATGATTTATCAAA
1 ATTTTT-AAGA-TTTACCAATAT-TTCTAAAT-ATTTA-CAAA
15775639 ATTTTTAAGGATTTACCAATATTT
1 ATTTTTAA-GATTTACCAATATTT
15775663 TTGAGACTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
38 4 0.07
39 26 0.47
40 24 0.44
41 1 0.02
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.47
Consensus pattern (38 bp):
ATTTTTAAGATTTACCAATATTTCTAAATATTTACAAA
Found at i:15775693 original size:60 final size:59
Alignment explanation
Indices: 15775570--15775694 Score: 135
Period size: 60 Copynumber: 2.1 Consensus size: 59
15775560 ATTTTTAATG
* * * **
15775570 ATTTACCAAAATTTCTAAATATTTACAATATTTTTGAAACTTTACCAATATATTTAATG
1 ATTTATCAAAATTTCTAAAGATTTACAATATTTTTGAAACTTTACCAATATATCTAACC
* * * * *
15775629 ATTTATCAAAATTTTTAAGGATTTACCAATATTTTTGAGACTTTGCTAAT-TAATCTAACC
1 ATTTATCAAAATTTCTAAAGATTTA-CAATATTTTTGAAACTTTACCAATAT-ATCTAACC
15775689 ATTTAT
1 ATTTAT
15775695 TGAATTTTTT
Statistics
Matches: 54, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
59 22 0.41
60 32 0.59
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.45
Consensus pattern (59 bp):
ATTTATCAAAATTTCTAAAGATTTACAATATTTTTGAAACTTTACCAATATATCTAACC
Found at i:15775760 original size:21 final size:21
Alignment explanation
Indices: 15775736--15775801 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
15775726 AGACTTTACG
15775736 AAATTATCAAAAGATTTACCA
1 AAATTATCAAAAGATTTACCA
* *
15775757 AAATTGT-TAAAGATTTACCAA
1 AAATTATCAAAAGATTTACC-A
* *
15775778 AAATTAACAAAAGCTTTTACCA
1 AAATTATCAAAAG-ATTTACCA
15775800 AA
1 AA
15775802 GGATTTATCA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
20 11 0.31
21 12 0.33
22 7 0.19
23 6 0.17
ACGTcount: A:0.52, C:0.14, G:0.06, T:0.29
Consensus pattern (21 bp):
AAATTATCAAAAGATTTACCA
Found at i:15775846 original size:20 final size:20
Alignment explanation
Indices: 15775797--15775846 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
15775787 AAAGCTTTTA
* *
15775797 CCAAAGGATTTATCAATATTT
1 CCAAA-GATTGATCAAAATTT
* *
15775818 CTAATGATTGATCAAAATTT
1 CCAAAGATTGATCAAAATTT
15775838 CCAAAGATT
1 CCAAAGATT
15775847 TCGTTTGTAT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 20 0.87
21 3 0.13
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.36
Consensus pattern (20 bp):
CCAAAGATTGATCAAAATTT
Found at i:15776045 original size:20 final size:20
Alignment explanation
Indices: 15775991--15776045 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
15775981 CCTTATCAAA
15775991 ATTTCTGAGACTTTACCAAT
1 ATTTCTGAGACTTTACCAAT
* * * *
15776011 ATATCTAACAATTTACCAAT
1 ATTTCTGAGACTTTACCAAT
15776031 ATTTCTGAGACTTTA
1 ATTTCTGAGACTTTA
15776046 AGCGTCCCAT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.35, C:0.18, G:0.07, T:0.40
Consensus pattern (20 bp):
ATTTCTGAGACTTTACCAAT
Found at i:15776113 original size:40 final size:40
Alignment explanation
Indices: 15776078--15776228 Score: 162
Period size: 40 Copynumber: 3.8 Consensus size: 40
15776068 CATCTAAGCC
* *
15776078 TTTACCAATATTTTTGAG-ACTTTAACAATATATCTAATGA
1 TTTACCAATATTTTTAAGCA-TTTAACAAAATATCTAATGA
* *
15776118 TTTACCAATATTTTTAAGCATTTATCAAAATATCTAACGA
1 TTTACCAATATTTTTAAGCATTTAACAAAATATCTAATGA
* * * * * * *
15776158 TTTACCAAAATCTCTAA-CGATTTATCAGAATATTTAAGGA
1 TTTACCAATATTTTTAAGC-ATTTAACAAAATATCTAATGA
*
15776198 TTTACCAATATTTTTAAGCATTTACCAAAAT
1 TTTACCAATATTTTTAAGCATTTAACAAAAT
15776229 TTCTTAAAAA
Statistics
Matches: 93, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
39 1 0.01
40 90 0.97
41 2 0.02
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.40
Consensus pattern (40 bp):
TTTACCAATATTTTTAAGCATTTAACAAAATATCTAATGA
Found at i:15776213 original size:20 final size:20
Alignment explanation
Indices: 15776078--15776235 Score: 104
Period size: 20 Copynumber: 7.8 Consensus size: 20
15776068 CATCTAAGCC
*
15776078 TTTACCAATATTTTTGA-GA
1 TTTACCAATATTTTTAAGGA
* * * *
15776097 CTTTAACAATATATCTAATGA
1 -TTTACCAATATTTTTAAGGA
*
15776118 TTTACCAATATTTTTAAGCA
1 TTTACCAATATTTTTAAGGA
* * * * *
15776138 TTTATCAAAATATCTAACGA
1 TTTACCAATATTTTTAAGGA
* * * *
15776158 TTTACCAAAATCTCTAACGA
1 TTTACCAATATTTTTAAGGA
* *
15776178 TTTATCAGA-ATATTTAAGGA
1 TTTACCA-ATATTTTTAAGGA
*
15776198 TTTACCAATATTTTTAAGCA
1 TTTACCAATATTTTTAAGGA
*
15776218 TTTACCAAAATTTCTTAA
1 TTTACCAATATTT-TTAA
15776236 AAAGTAACAA
Statistics
Matches: 109, Mismatches: 25, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
19 1 0.01
20 101 0.93
21 7 0.06
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.41
Consensus pattern (20 bp):
TTTACCAATATTTTTAAGGA
Found at i:15776323 original size:20 final size:21
Alignment explanation
Indices: 15776294--15776335 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
15776284 TATTTATAAC
*
15776294 AATTTGTC-AAATTATTAAAG
1 AATTTATCAAAATTATTAAAG
*
15776314 AATTTATCAAAATTTTTAAAG
1 AATTTATCAAAATTATTAAAG
15776335 A
1 A
15776336 CTTGCCAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.40
Consensus pattern (21 bp):
AATTTATCAAAATTATTAAAG
Found at i:15776432 original size:20 final size:19
Alignment explanation
Indices: 15776409--15776465 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 19
15776399 AACAAATTTG
15776409 TAAGACTTTACCAAAATGTC
1 TAAGA-TTTACCAAAATGTC
* * *
15776429 TAAGAATTAACCAATATTTC
1 TAAG-ATTTACCAAAATGTC
*
15776449 TAAGGATTTACCTAAAT
1 TAA-GATTTACCAAAAT
15776466 ATCCAAGGAT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
20 27 0.93
21 2 0.07
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (19 bp):
TAAGATTTACCAAAATGTC
Found at i:15776509 original size:30 final size:30
Alignment explanation
Indices: 15776475--15776536 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
15776465 TATCCAAGGA
* * *
15776475 TTATCATAATACCAAAGAGTTTACCAATAT
1 TTATCAAAATACCAAAGAATTTAACAATAT
* *
15776505 TTATCAAAATATCTAAGAATTTAACAATAT
1 TTATCAAAATACCAAAGAATTTAACAATAT
15776535 TT
1 TT
15776537 CTAATTATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.45, C:0.13, G:0.05, T:0.37
Consensus pattern (30 bp):
TTATCAAAATACCAAAGAATTTAACAATAT
Found at i:15778608 original size:118 final size:118
Alignment explanation
Indices: 15778374--15778609 Score: 339
Period size: 118 Copynumber: 2.0 Consensus size: 118
15778364 CAGGGACTAA
* * *
15778374 GGGATGGAGAAGGTTGTCTCATCTAATATTATGTGATTTTGGGATTAAGTCTAAATGATTCTGTA
1 GGGATGGAGAAGGTCGTCTCATCTAATATTATGTAATTTTAGGATTAAGTCTAAATGATTCTGTA
* * * *
15778439 TTATTGCTTATTAATAGATGACGGGTAGATTTATATATCTTCAGAACTGGAAT
66 TTATTGCTTATTAATAAATAACGAGAAGATTTATATATCTTCAGAACTGGAAT
* ** *
15778492 GGGATGGAGAAGGTCGTCTCATCTAATATTATGTAATTTTAGGATTGAGTCTACCTGATTTTGTA
1 GGGATGGAGAAGGTCGTCTCATCTAATATTATGTAATTTTAGGATTAAGTCTAAATGATTCTGTA
* *
15778557 TTCATTGCTTATTATTAAATAACGAGAAGATTTGTATATCTTCAGAA-TGGAAT
66 TT-ATTGCTTATTAATAAATAACGAGAAGATTTATATATCTTCAGAACTGGAAT
15778610 TTATTCTGTC
Statistics
Matches: 104, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
118 66 0.63
119 38 0.37
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (118 bp):
GGGATGGAGAAGGTCGTCTCATCTAATATTATGTAATTTTAGGATTAAGTCTAAATGATTCTGTA
TTATTGCTTATTAATAAATAACGAGAAGATTTATATATCTTCAGAACTGGAAT
Found at i:15783495 original size:126 final size:126
Alignment explanation
Indices: 15783261--15783804 Score: 702
Period size: 125 Copynumber: 4.3 Consensus size: 126
15783251 TTATATATAA
* * * * * * * *
15783261 TCTACAGTAGTTTCAGAAAAATTAATTTTGAGAGGACGGTTCTGAAAAGATAATGTCAAAAACGA
1 TCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGATTCTAAAAAGATAGTGTCAAAAACGC
* * * *
15783326 TTCAAGCAAGATGTACTGTCAGCAAAATTACTGAAAAAGGCTCCCACATGGACGCTCTTTT
66 TTCAAGCAAGATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTT
* *
15783387 TCTATAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGATTCTAAAAAGATAGTGTCAAAAATGC
1 TCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGATTCTAAAAAGATAGTGTCAAAAACGC
*
15783452 TTCAAGCAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTT
66 TTCAAGCAAGATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTT
* * * * * *
15783513 TTTACAGTAGTTCTTG-AAAAATAATTTTGAGAAGACAATTCTAAAAAAATAGTGCCAAAAACGT
1 TCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGATTCTAAAAAGATAGTGTCAAAAACGC
* * * *
15783577 TTCAAGCAGGATGCATTGTCAACAAAATTACTGAAAAAAGCTCCCACGTAGACACT-TTTT
66 TTCAAGCAAGATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTT
* ** *
15783637 TCTACAGTAGTTCCTGAAAAAATAAATTTGAGAAGTTTG-TTATGAAAAA-ATAGTGTCAAAAAC
1 TCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAG-ACGATTCT-AAAAAGATAGTGTCAAAAAC
* * * * * *
15783700 ACTTTAAGCAAGATGCACTATCAATAAAATTACTGAAAAAAACTCTCACGTGGACGCTCTTTT
64 GCTTCAAGCAAGATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTT
* *
15783763 TCTACAGTAGTTCCT-AAAAAATAATTTTGTGAAGACGGTTCT
1 TCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGATTCT
15783805 GATCCCACGT
Statistics
Matches: 363, Mismatches: 50, Indels: 11
0.86 0.12 0.03
Matches are distributed among these distances:
124 19 0.05
125 194 0.53
126 150 0.41
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.28
Consensus pattern (126 bp):
TCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGATTCTAAAAAGATAGTGTCAAAAACGC
TTCAAGCAAGATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTT
Found at i:15787399 original size:18 final size:18
Alignment explanation
Indices: 15787378--15787413 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
15787368 AAAAGGAAAT
*
15787378 ATATAAGGGTTAGGATAC
1 ATATAAGGGCTAGGATAC
15787396 ATATAAGGGCTAGGATAC
1 ATATAAGGGCTAGGATAC
15787414 GTACCTGGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.08, G:0.28, T:0.25
Consensus pattern (18 bp):
ATATAAGGGCTAGGATAC
Found at i:15788918 original size:26 final size:24
Alignment explanation
Indices: 15788876--15788928 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 24
15788866 AATTGTTATA
**
15788876 AAAATTATAAAATAAAAATTAATT
1 AAAATTATAAAATAAAAAAAAATT
*
15788900 AAAATTACTTAAATGAAAAAAAAATT
1 AAAATTA-TAAAAT-AAAAAAAAATT
15788926 AAA
1 AAA
15788929 TAATATTCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 7 0.29
25 5 0.21
26 12 0.50
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAATTATAAAATAAAAAAAAATT
Found at i:15789481 original size:20 final size:19
Alignment explanation
Indices: 15789452--15789497 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
15789442 CGAAAAATAA
15789452 TTTTTGGAAAATGATTTA-T
1 TTTTTGG-AAATGATTTACT
15789471 TTTTCTGGAAATGATTTACT
1 TTTT-TGGAAATGATTTACT
15789491 TTTTTGG
1 TTTTTGG
15789498 TGTTTGGATG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.24, C:0.04, G:0.17, T:0.54
Consensus pattern (19 bp):
TTTTTGGAAATGATTTACT
Found at i:15791654 original size:6 final size:6
Alignment explanation
Indices: 15791643--15791684 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
15791633 TGTCAAGGAT
* * *
15791643 AGGGGA AGGGGA AGGGGA AGGGAA AGGGAA AGGGAA AGGGAA
1 AGGGAA AGGGAA AGGGAA AGGGAA AGGGAA AGGGAA AGGGAA
15791685 GATCAGTGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (6 bp):
AGGGAA
Found at i:15792868 original size:24 final size:23
Alignment explanation
Indices: 15792833--15792904 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 23
15792823 AAATCTTATG
15792833 TATTATTATATTTAATTTTTTAAAA
1 TATT-TTATA-TTAATTTTTTAAAA
*
15792858 TATTTTATATT-ATTAGTTTTCAAA
1 TATTTTATATTAATT--TTTTAAAA
* *
15792882 TAATTTATATTAATTATTTAAAA
1 TATTTTATATTAATTTTTTAAAA
15792905 GGTGTTTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
22 3 0.08
23 8 0.20
24 22 0.55
25 7 0.17
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (23 bp):
TATTTTATATTAATTTTTTAAAA
Found at i:15794121 original size:17 final size:16
Alignment explanation
Indices: 15794101--15794139 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
15794091 AGCAATTTAA
15794101 TTTTTTTCTTTCATGTT
1 TTTTTTTCTTTCAT-TT
* *
15794118 TTTTTATCTTTCCTTT
1 TTTTTTTCTTTCATTT
15794134 TTTTTT
1 TTTTTT
15794140 CCATTCTCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.05, C:0.13, G:0.03, T:0.79
Consensus pattern (16 bp):
TTTTTTTCTTTCATTT
Found at i:15795805 original size:21 final size:20
Alignment explanation
Indices: 15795779--15795817 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
15795769 ATGTATTTTG
*
15795779 ATGTTTGGTGATAGATTATGA
1 ATGTTTGATGATAG-TTATGA
15795800 ATGTTTGATGATAGTTAT
1 ATGTTTGATGATAGTTAT
15795818 ATAAGTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.46
Consensus pattern (20 bp):
ATGTTTGATGATAGTTATGA
Found at i:15796435 original size:48 final size:48
Alignment explanation
Indices: 15796364--15796465 Score: 177
Period size: 48 Copynumber: 2.1 Consensus size: 48
15796354 ATGTCATTAG
15796364 GAGCTTCACTGATTTGGCTTCGGGACATGATATTGGCACTTCGGGTGC
1 GAGCTTCACTGATTTGGCTTCGGGACATGATATTGGCACTTCGGGTGC
* * *
15796412 GAGCTTCATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGT
1 GAGCTTCACTGATTTGGCTTCGGGACATGATATTGGCACTTCGGGTGC
15796460 GAGCTT
1 GAGCTT
15796466 TCGAATTCGT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.16, C:0.20, G:0.31, T:0.33
Consensus pattern (48 bp):
GAGCTTCACTGATTTGGCTTCGGGACATGATATTGGCACTTCGGGTGC
Found at i:15796735 original size:48 final size:48
Alignment explanation
Indices: 15796475--15796722 Score: 397
Period size: 48 Copynumber: 5.2 Consensus size: 48
15796465 TTCGAATTCG
*
15796475 TGATATTGGCACTTCCGGTGCGAGCTTCATTGATTTGGCTTCGGGCCA
1 TGATATTGGCACTTCGGGTGCGAGCTTCATTGATTTGGCTTCGGGCCA
* **
15796523 TGATATTAGCACTTCGGGTGCGAGCTTCATTGATTTGGCTTCGGGATA
1 TGATATTGGCACTTCGGGTGCGAGCTTCATTGATTTGGCTTCGGGCCA
* * *
15796571 TGATATTGGCACTTCCGGTGCGAGCTTCATTGATTTGGCTTCTGGCCG
1 TGATATTGGCACTTCGGGTGCGAGCTTCATTGATTTGGCTTCGGGCCA
* * *
15796619 TGATATTGGCACTTCAGGTGCTAGCTTCATTGATTTGGCTTCAGGCCA
1 TGATATTGGCACTTCGGGTGCGAGCTTCATTGATTTGGCTTCGGGCCA
*
15796667 TGATATTGGCACTTCGGGTGCAAGCTTCATTGATTTGGCTTCGGGCCA
1 TGATATTGGCACTTCGGGTGCGAGCTTCATTGATTTGGCTTCGGGCCA
15796715 TGATATTG
1 TGATATTG
15796723 ATACCTAGGG
Statistics
Matches: 183, Mismatches: 17, Indels: 0
0.92 0.09 0.00
Matches are distributed among these distances:
48 183 1.00
ACGTcount: A:0.17, C:0.20, G:0.28, T:0.35
Consensus pattern (48 bp):
TGATATTGGCACTTCGGGTGCGAGCTTCATTGATTTGGCTTCGGGCCA
Found at i:15797373 original size:27 final size:25
Alignment explanation
Indices: 15797320--15797375 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 25
15797310 ATGTGATTGA
* *
15797320 GGTTGGTTTTGTGATGTTTATTAAT
1 GGTTGGTTTTGTGATGTTAAATAAT
*
15797345 GGTTGGTATTTGTGGATGTTAAATGAT
1 GGTTGGT-TTTGT-GATGTTAAATAAT
15797372 GGTT
1 GGTT
15797376 ATTAGAGAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 7 0.27
26 5 0.19
27 14 0.54
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.50
Consensus pattern (25 bp):
GGTTGGTTTTGTGATGTTAAATAAT
Found at i:15799248 original size:22 final size:21
Alignment explanation
Indices: 15799200--15799248 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
15799190 TAGCGCGTTA
**
15799200 TATTTCAATCCTTTATTTATT
1 TATTTCAATCCTTTATGAATT
*
15799221 TAATTTCAATCTTTTATGAACTT
1 T-ATTTCAATCCTTTATGAA-TT
15799244 TATTT
1 TATTT
15799249 ATTTATTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 19 0.83
23 3 0.13
ACGTcount: A:0.27, C:0.12, G:0.02, T:0.59
Consensus pattern (21 bp):
TATTTCAATCCTTTATGAATT
Found at i:15799462 original size:13 final size:13
Alignment explanation
Indices: 15799444--15799511 Score: 61
Period size: 13 Copynumber: 5.3 Consensus size: 13
15799434 AGCATTTAAA
15799444 ATTTATATATTTT
1 ATTTATATATTTT
15799457 ATTTATATATTTT
1 ATTTATATATTTT
* *
15799470 ATTT-TATCAATCT
1 ATTTATAT-ATTTT
*
15799483 A-CTATATCA-TTT
1 ATTTATAT-ATTTT
*
15799495 ATTTATACATTTT
1 ATTTATATATTTT
15799508 ATTT
1 ATTT
15799512 TATTTTATCC
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
12 8 0.18
13 37 0.82
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (13 bp):
ATTTATATATTTT
Found at i:15800715 original size:42 final size:46
Alignment explanation
Indices: 15800668--15800815 Score: 139
Period size: 49 Copynumber: 3.2 Consensus size: 46
15800658 CATAGTTCAA
15800668 CTATGGTCTTACAC-AT-C-T-TCACATAAT-GATGCAATAGCCCAG
1 CTATGGTCTTACACAATACATATCACAT-ATCGATGCAATAGCCCAG
*
15800710 CTATGGTCTTACACGTAATCACATATCACATATCGATGCCATAGCCCAG
1 CTATGGTCTTACAC--AAT-ACATATCACATATCGATGCAATAGCCCAG
* * * *
15800759 CTATGGTCTTACACGAATCACATATCTCA-CT-GATGCCATATCCCAG
1 CTATGGTCTTACAC-AAT-ACATATCACATATCGATGCAATAGCCCAG
*
15800805 ATATGGTCTTA
1 CTATGGTCTTA
15800816 TACAGTAGCA
Statistics
Matches: 92, Mismatches: 6, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
42 14 0.15
45 2 0.02
46 24 0.26
47 2 0.02
48 16 0.17
49 34 0.37
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (46 bp):
CTATGGTCTTACACAATACATATCACATATCGATGCAATAGCCCAG
Found at i:15800754 original size:49 final size:47
Alignment explanation
Indices: 15800692--15800862 Score: 184
Period size: 47 Copynumber: 3.6 Consensus size: 47
15800682 ATCTTCACAT
* *
15800692 AATGATGCAATAGCCCAGCTATGGTCTTACACGTAATCACATATCAC
1 AATGATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCAC
* *
15800739 ATATCGATGCCATAGCCCAGCTATGGTCTTACACG-AATCACATATCTC
1 A-AT-GATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCAC
* * * * * *
15800787 ACTGATGCCATATCCCAGATATGGTCTTATACAGT-AGCATATATTAC
1 AATGATGCCATAGCCCAGATATGGTCTTACAC-GTAATCACATATCAC
** *
15800834 ACCGATGCCATATCCCAGATATGGTCTTA
1 AATGATGCCATAGCCCAGATATGGTCTTA
15800863 TACGAAAATC
Statistics
Matches: 109, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
46 26 0.24
47 39 0.36
48 15 0.14
49 29 0.27
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (47 bp):
AATGATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCAC
Found at i:15800926 original size:31 final size:31
Alignment explanation
Indices: 15800891--15801100 Score: 307
Period size: 31 Copynumber: 6.8 Consensus size: 31
15800881 CTTGTCACTT
* * * *
15800891 GTAGCTGAAGGTACCACTATTCACTGGTCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
15800922 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
15800953 GTAACCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
15800984 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
15801015 GTAGCC-AGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGA-AGCTACCACTTTTCACTGATCAG
* *
15801046 GTTGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
15801077 GTAGCCG-AGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
15801101 TGTCATTTAT
Statistics
Matches: 163, Mismatches: 14, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
30 18 0.11
31 144 0.88
32 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:15804408 original size:31 final size:29
Alignment explanation
Indices: 15804373--15804449 Score: 100
Period size: 29 Copynumber: 2.6 Consensus size: 29
15804363 ATTGACGCTT
*
15804373 AGTGACTAAAATGTTACAATACGATAACATA
1 AGTGACTAAAATGTAACAATAC-A-AACATA
* *
15804404 AGTGACTAAAATGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACAATACAAACATA
*
15804433 AGTAACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
15804450 CCAAGACAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 22 0.52
30 1 0.02
31 19 0.45
ACGTcount: A:0.49, C:0.13, G:0.12, T:0.26
Consensus pattern (29 bp):
AGTGACTAAAATGTAACAATACAAACATA
Found at i:15804637 original size:19 final size:20
Alignment explanation
Indices: 15804607--15804656 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
15804597 AAGTTTTACT
*
15804607 TTTATA-ATTTTTTTATA-A
1 TTTATATATTTTTCTATAGA
*
15804625 TTTATATATTTTTCTCTAGA
1 TTTATATATTTTTCTATAGA
15804645 TTATATATATTT
1 TT-TATATATTT
15804657 GAATTTTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 6 0.22
19 9 0.33
20 3 0.11
21 9 0.33
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTATATATTTTTCTATAGA
Found at i:15805023 original size:15 final size:15
Alignment explanation
Indices: 15805005--15805042 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
15804995 ACATACAACA
*
15805005 ATAATATAAAATAAT
1 ATAATATAAAAAAAT
15805020 ATAATATTAAAAAAAT
1 ATAATA-TAAAAAAAT
15805036 A-AATATA
1 ATAATATA
15805043 CAGTTTATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 2 0.10
15 10 0.48
16 9 0.43
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
ATAATATAAAAAAAT
Found at i:15815934 original size:22 final size:22
Alignment explanation
Indices: 15815887--15815936 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
15815877 TAATAACAAC
* *
15815887 AAAATAGTAGCAACATAATAGT
1 AAAATAGTAGCAAAATAAGAGT
*
15815909 AAAATGGTAGCAAAATAAGGAG-
1 AAAATAGTAGCAAAATAA-GAGT
15815931 AAAATA
1 AAAATA
15815937 ACAAGAAAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 21 0.91
23 2 0.09
ACGTcount: A:0.58, C:0.06, G:0.18, T:0.18
Consensus pattern (22 bp):
AAAATAGTAGCAAAATAAGAGT
Found at i:15816598 original size:14 final size:14
Alignment explanation
Indices: 15816579--15816608 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
15816569 ATGTGGCGAA
*
15816579 TAATTTACTTAATG
1 TAATTTAATTAATG
15816593 TAATTTAATTAATG
1 TAATTTAATTAATG
15816607 TA
1 TA
15816609 TTTTTGATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (14 bp):
TAATTTAATTAATG
Found at i:15827758 original size:64 final size:68
Alignment explanation
Indices: 15827680--15827840 Score: 186
Period size: 71 Copynumber: 2.4 Consensus size: 68
15827670 TACATGATAC
* * **
15827680 ATACTTTAACATTTCATGCAAATATAATATAGAAAATGAT-AA-ATAACGACATAAATTAC-ATA
1 ATACATTAACATTTCATGCAAATATAACATAGAAAACAATGAATATAACGACATAAATTACAATA
15827742 -AT
66 TAT
* * *
15827744 ATACATTAACATTTCATGCAAAATACAACATAGAAAACAATGAATATAACTATATAAATTACATA
1 ATACATTAACATTTCATGC-AAATATAACATAGAAAACAATGAATATAACGACATAAATTAC--A
15827809 ATATAT
63 ATATAT
* *
15827815 ATACAATAATATTTCATGCAAATATA
1 ATACATTAACATTTCATGCAAATATA
15827841 TAAAAACAAT
Statistics
Matches: 80, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
64 18 0.22
65 17 0.21
66 2 0.03
67 15 0.19
70 9 0.11
71 19 0.24
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.31
Consensus pattern (68 bp):
ATACATTAACATTTCATGCAAATATAACATAGAAAACAATGAATATAACGACATAAATTACAATA
TAT
Found at i:15827808 original size:67 final size:64
Alignment explanation
Indices: 15827662--15827813 Score: 178
Period size: 67 Copynumber: 2.3 Consensus size: 64
15827652 ATACTAAATA
* * * * * **
15827662 ATATAAACTACATGATACATACTTTAACATTTCATGCAAATATAATATAGAAAATGATAAATAAC
1 ATATAAATTACAT-A-ATATACATTAACATTTCATGCAAATACAACATAGAAAACAATAAATAAC
15827727 G
64 G
*
15827728 ACATAAATTACATAATATACATTAACATTTCATGCAAAATACAACATAGAAAACAATGAATATAA
1 ATATAAATTACATAATATACATTAACATTTCATGC-AAATACAACATAGAAAACAAT-AA-ATAA
*
15827793 CT
63 CG
15827795 ATATAAATTACATAATATA
1 ATATAAATTACATAATATA
15827814 TATACAATAA
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
64 19 0.26
65 18 0.25
66 13 0.18
67 23 0.32
ACGTcount: A:0.53, C:0.12, G:0.05, T:0.30
Consensus pattern (64 bp):
ATATAAATTACATAATATACATTAACATTTCATGCAAATACAACATAGAAAACAATAAATAACG
Found at i:15827991 original size:23 final size:26
Alignment explanation
Indices: 15827952--15828000 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
15827942 AACAAATTAT
*
15827952 AAACATATAAAAAAT-AAG-TAAAAA
1 AAACAAATAAAAAATAAAGATAAAAA
15827976 AAACAAAT-AAAAATAAAGATAAAAA
1 AAACAAATAAAAAATAAAGATAAAAA
15828001 CTAAATACGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 6 0.27
24 10 0.45
25 6 0.27
ACGTcount: A:0.78, C:0.04, G:0.04, T:0.14
Consensus pattern (26 bp):
AAACAAATAAAAAATAAAGATAAAAA
Found at i:15828271 original size:17 final size:17
Alignment explanation
Indices: 15828251--15828414 Score: 61
Period size: 17 Copynumber: 10.1 Consensus size: 17
15828241 CAAATTTTTA
*
15828251 AAATTATACATAATAAT
1 AAATAATACATAATAAT
*
15828268 AAATAATATATAATAAAAT
1 AAATAATACATAAT--AAT
15828287 AAA-AATA-AT-ATAAT
1 AAATAATACATAATAAT
* * *
15828301 GAATAATATAT-ATAGT
1 AAATAATACATAATAAT
*
15828317 -AA-AAT-GAT-ATAAT
1 AAATAATACATAATAAT
* *
15828330 ATATAATAAAT-AT-AT
1 AAATAATACATAATAAT
*
15828345 AAATAA-A-GTATATAAT
1 AAATAATACATA-ATAAT
*
15828361 AAA-ATATAAATAGTATAAT
1 AAATA-ATACATA--ATAAT
15828380 AAATAATACATAAATAA-
1 AAATAATACAT-AATAAT
*
15828397 AAATAATATAT-ATAAT
1 AAATAATACATAATAAT
15828413 AA
1 AA
15828415 TTTTTTACAT
Statistics
Matches: 117, Mismatches: 13, Indels: 35
0.71 0.08 0.21
Matches are distributed among these distances:
13 7 0.06
14 10 0.09
15 23 0.20
16 20 0.17
17 25 0.21
18 10 0.09
19 20 0.17
20 2 0.02
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.32
Consensus pattern (17 bp):
AAATAATACATAATAAT
Found at i:15828306 original size:33 final size:31
Alignment explanation
Indices: 15828263--15828408 Score: 104
Period size: 33 Copynumber: 4.5 Consensus size: 31
15828253 ATTATACATA
15828263 ATAATAAATAATATATAATAAAATAAAAATAAT
1 ATAAT-AATAATATATAATAAAAT-AAAATAAT
* *
15828296 ATAATGAATAATATATATAGTAAAATGATATAAT
1 ATAAT-AATAATATATA-A-TAAAATAAAATAAT
* *
15828330 AT-ATAATAAATATATAAATAAAGT-ATATAAT
1 ATAATAAT-AATATAT-AATAAAATAAAATAAT
*
15828361 AAAAT-ATAAATAGTATAAT-AAATAATACATAA-
1 ATAATAAT-AATA-TATAATAAAATAA-A-ATAAT
*
15828393 ATAAAAATAATATATA
1 ATAATAATAATATATA
15828409 TAATAATTTT
Statistics
Matches: 94, Mismatches: 9, Indels: 22
0.75 0.07 0.18
Matches are distributed among these distances:
30 3 0.03
31 23 0.24
32 20 0.21
33 32 0.34
34 10 0.11
35 6 0.06
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (31 bp):
ATAATAATAATATATAATAAAATAAAATAAT
Found at i:15828327 original size:29 final size:28
Alignment explanation
Indices: 15828260--15828415 Score: 127
Period size: 29 Copynumber: 5.8 Consensus size: 28
15828250 AAAATTATAC
15828260 ATAATAATAA-ATAATATATAATAAA-AT
1 ATAA-AATAATATAATATATAATAAATAT
*
15828287 A-AAAATAATATAATGA-ATAATATATAT
1 ATAAAATAATATAAT-ATATAATAAATAT
*
15828314 AGTAAAATGATATAATATATAATAAATAT
1 A-TAAAATAATATAATATATAATAAATAT
*
15828343 AT-AAAT-A-A-AGTATATAATAAA-AT
1 ATAAAATAATATAATATATAATAAATAT
* * * *
15828366 AT-AAATAGTATAATAAATAATACATAA
1 ATAAAATAATATAATATATAATAAATAT
15828393 ATAAAAATAATAT-ATATAATAAT
1 AT-AAAATAATATAATAT-ATAAT
15828416 TTTTTACATA
Statistics
Matches: 105, Mismatches: 11, Indels: 24
0.75 0.08 0.17
Matches are distributed among these distances:
23 8 0.08
24 12 0.11
25 7 0.07
26 25 0.24
27 12 0.11
28 5 0.05
29 36 0.34
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (28 bp):
ATAAAATAATATAATATATAATAAATAT
Found at i:15828371 original size:23 final size:23
Alignment explanation
Indices: 15828329--15828397 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 23
15828319 AATGATATAA
15828329 TATATAATAAATATATAAATAAAG
1 TATATAATAAA-ATATAAATAAAG
15828353 TATATAATAAAATATAAAT--AG
1 TATATAATAAAATATAAATAAAG
* *
15828374 TATAATAAATAATACATAAATAAA
1 TAT-AT-AATAAAATATAAATAAA
15828398 AATAATATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
21 5 0.13
22 2 0.05
23 20 0.51
24 11 0.28
25 1 0.03
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (23 bp):
TATATAATAAAATATAAATAAAG
Found at i:15828395 original size:46 final size:44
Alignment explanation
Indices: 15828309--15828478 Score: 133
Period size: 42 Copynumber: 4.0 Consensus size: 44
15828299 ATGAATAATA
*
15828309 TATATAGTAAAATGATATAATATATAATAAATATATAAATAAAG
1 TATATAATAAAATGATATAATATATAATAAATATATAAATAAAG
*
15828353 TATATAATAAAAT-ATA-AATAGTATAATAAATA-ATACATAAA-
1 TATATAATAAAATGATATAATA-TATAATAAATATATAAATAAAG
* * * ** * *
15828394 TA-AAAATAATAT-ATATAATAATTTTTTACATATATAAATAATG
1 TATATAATAAAATGATATAAT-ATATAATAAATATATAAATAAAG
* * *
15828437 TTTATAGTAAAAAT-AAATAATATAT-A-AAATATATAAAATAAA
1 TATATAAT-AAAATGATATAATATATAATAAATATAT-AAATAAA
15828479 TAAATTATAT
Statistics
Matches: 99, Mismatches: 19, Indels: 17
0.73 0.14 0.13
Matches are distributed among these distances:
40 11 0.11
41 12 0.12
42 27 0.27
43 21 0.21
44 18 0.18
45 10 0.10
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (44 bp):
TATATAATAAAATGATATAATATATAATAAATATATAAATAAAG
Found at i:15828400 original size:79 final size:73
Alignment explanation
Indices: 15828262--15828414 Score: 191
Period size: 79 Copynumber: 2.0 Consensus size: 73
15828252 AATTATACAT
* * *
15828262 AATAATAAATAATATATAATAAAATAAAAATAATATAATGAATAATATATATAGTAAAATGATAT
1 AATAATAAATAATATATAATAAAATAAAAATAATATAATAAATAATACATATAATAAAAT-A-AT
15828327 AATATATAATA
64 -ATATATAATA
* *
15828338 AATATATAAATAAAGTATATAATAAAATATAAATAGTATAATAAATAATACATA-AATAAAAATA
1 AATA-ATAAAT-AA-TATATAATAAAATAAAAATAATATAATAAATAATACATATAAT-AAAATA
15828402 ATATATATAATA
62 ATATATATAATA
15828414 A
1 A
15828415 TTTTTTACAT
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
76 15 0.22
77 8 0.12
78 5 0.07
79 40 0.59
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (73 bp):
AATAATAAATAATATATAATAAAATAAAAATAATATAATAAATAATACATATAATAAAATAATAT
ATATAATA
Found at i:15828440 original size:19 final size:21
Alignment explanation
Indices: 15828402--15828440 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
15828392 AATAAAAATA
*
15828402 ATATATATAATAATTTTTTAC
1 ATATATATAATAATTGTTTAC
15828423 ATATATA-AATAA-TGTTTA
1 ATATATATAATAATTGTTTA
15828441 TAGTAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 5 0.29
21 7 0.41
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (21 bp):
ATATATATAATAATTGTTTAC
Found at i:15828469 original size:9 final size:9
Alignment explanation
Indices: 15828455--15828494 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
15828445 AAAAATAAAT
15828455 AATATATAA
1 AATATATAA
15828464 AATATATAA
1 AATATATAA
*
15828473 AATAAATAA
1 AATATATAA
15828482 ATTATATATAA
1 A--ATATATAA
15828493 AA
1 AA
15828495 AATTTAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 19 0.70
11 8 0.30
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
AATATATAA
Found at i:15828471 original size:29 final size:29
Alignment explanation
Indices: 15828447--15828503 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
15828437 TTTATAGTAA
15828447 AAATAAATAATATATAAAATATATAAAAT
1 AAATAAATAATATATAAAATATATAAAAT
* * *
15828476 AAATAAATTATATATAAAAAATTTAAAA
1 AAATAAATAATATATAAAATATATAAAA
15828504 AGGATTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (29 bp):
AAATAAATAATATATAAAATATATAAAAT
Found at i:15828497 original size:18 final size:18
Alignment explanation
Indices: 15828455--15828494 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
15828445 AAAAATAAAT
*
15828455 AATATATAAAATATATAA
1 AATAAATAAAATATATAA
15828473 AATAAATAAATTATATATAA
1 AATAAATAAA--ATATATAA
15828493 AA
1 AA
15828495 AATTTAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
20 10 0.53
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AATAAATAAAATATATAA
Found at i:15828695 original size:30 final size:30
Alignment explanation
Indices: 15828661--15828718 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
15828651 ATAATGGCCA
*
15828661 TTAGGACTAAATTGA-AACAAAAATAAAAGG
1 TTAGGACCAAATT-ATAACAAAAATAAAAGG
* *
15828691 TTAGGGCCAAATTATAATAAAAATAAAA
1 TTAGGACCAAATTATAACAAAAATAAAA
15828719 TGAAATTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.57, C:0.07, G:0.14, T:0.22
Consensus pattern (30 bp):
TTAGGACCAAATTATAACAAAAATAAAAGG
Found at i:15830766 original size:23 final size:21
Alignment explanation
Indices: 15830730--15830779 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
15830720 GCTTATTGCC
*
15830730 ATTTAAAGCCTTATACTACTACT
1 ATTTAAAGCATTAT--TACTACT
* *
15830753 ATTTAAATCATTATTACTATT
1 ATTTAAAGCATTATTACTACT
15830774 ATTTAA
1 ATTTAA
15830780 TTATTACAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 12 0.50
23 12 0.50
ACGTcount: A:0.38, C:0.14, G:0.02, T:0.46
Consensus pattern (21 bp):
ATTTAAAGCATTATTACTACT
Found at i:15835963 original size:25 final size:25
Alignment explanation
Indices: 15835935--15835982 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
15835925 CATCAGATTT
*
15835935 AATTTGAAGGATTTCATTTTTCTTC
1 AATTCGAAGGATTTCATTTTTCTTC
15835960 AATTCGAAGGATTTCATTTTTCT
1 AATTCGAAGGATTTCATTTTTCT
15835983 GACATTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.50
Consensus pattern (25 bp):
AATTCGAAGGATTTCATTTTTCTTC
Found at i:15837849 original size:45 final size:45
Alignment explanation
Indices: 15837735--15837858 Score: 135
Period size: 46 Copynumber: 2.7 Consensus size: 45
15837725 TTGAGACGAG
* * *
15837735 AGCTAGTGTAAGACATGTCTAGGATATGCATCGGCCTCGAGATGTA
1 AGCTAGTGTAAGACATGTCTGGGATATGCATCAGCCTCAAGA-GTA
*
15837781 AGCTAGTGTAAAACATGTCTGGGATATGCATCAG-CTACAAGA-TA
1 AGCTAGTGTAAGACATGTCTGGGATATGCATCAGCCT-CAAGAGTA
* * *
15837825 TGTTAGTGTAAGACCATGTCTGGGACATGGCATC
1 AGCTAGTGTAAGA-CATGTCTGGGATAT-GCATC
15837859 GGCATTGTAC
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
44 12 0.18
45 15 0.22
46 40 0.60
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.27
Consensus pattern (45 bp):
AGCTAGTGTAAGACATGTCTGGGATATGCATCAGCCTCAAGAGTA
Found at i:15844473 original size:30 final size:30
Alignment explanation
Indices: 15844437--15844495 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
15844427 TTCCGTTGCT
15844437 TACATGGTTTCTTCTATAAGAAACTAGACG
1 TACATGGTTTCTTCTATAAGAAACTAGACG
15844467 TACATGGTTTCTTCTATAAGAAACTAGAC
1 TACATGGTTTCTTCTATAAGAAACTAGAC
15844496 TTAATAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (30 bp):
TACATGGTTTCTTCTATAAGAAACTAGACG
Found at i:15845145 original size:8 final size:8
Alignment explanation
Indices: 15845103--15845127 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
15845093 ATATAGACTA
15845103 AATAAAAT
1 AATAAAAT
15845111 AATAAAAT
1 AATAAAAT
15845119 AATAAAAT
1 AATAAAAT
15845127 A
1 A
15845128 TCTTATTAAA
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:15845151 original size:29 final size:31
Alignment explanation
Indices: 15845100--15845172 Score: 82
Period size: 29 Copynumber: 2.5 Consensus size: 31
15845090 TATATATAGA
*
15845100 CTAAATAAAATAATAAAATAATAA-AA-TAT
1 CTAATTAAAATAATAAAATAATAATAATTAT
* *
15845129 CTTATTAAAAT-ATTAAATAAATAATAATTAT
1 CTAATTAAAATAATAAAAT-AATAATAATTAT
15845160 CTAATT-AAATAAT
1 CTAATTAAAATAAT
15845173 TATAAAATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
28 6 0.17
29 14 0.39
30 6 0.17
31 10 0.28
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (31 bp):
CTAATTAAAATAATAAAATAATAATAATTAT
Found at i:15845177 original size:29 final size:30
Alignment explanation
Indices: 15845107--15845178 Score: 71
Period size: 31 Copynumber: 2.4 Consensus size: 30
15845097 AGACTAAATA
*
15845107 AAATAA-TA-AAATAATAAAATATCTTATT
1 AAATAATTATAAATAATAAAATATCTAATT
*
15845135 AAA-ATATTAAATAAATAAT-AATTATCTAATT
1 AAATA-ATT--ATAAATAATAAAATATCTAATT
15845166 AAATAATTATAAA
1 AAATAATTATAAA
15845179 ATATCACCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
27 1 0.03
28 4 0.11
29 6 0.17
31 17 0.47
32 8 0.22
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (30 bp):
AAATAATTATAAATAATAAAATATCTAATT
Found at i:15846711 original size:46 final size:48
Alignment explanation
Indices: 15846661--15846833 Score: 182
Period size: 46 Copynumber: 3.7 Consensus size: 48
15846651 GACGAGAGCT
* *
15846661 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAAGATGTAAGTC
* *
15846707 AGTGTAAGA-CATGTCTGGGACAT-GTATCCG-CTACAAGATGT--GTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CAAGATGTAAGTC
* * * *
15846751 AGTGTAAGACCATGCCTGGGACATGGCTTCGGCAC-AAATATGTGAGAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCAAGATGT-A-AGTC
15846801 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
15846834 ATTATACCCT
Statistics
Matches: 106, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
44 11 0.10
45 15 0.14
46 45 0.42
48 1 0.01
50 34 0.32
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAAGATGTAAGTC
Found at i:15853082 original size:19 final size:19
Alignment explanation
Indices: 15853047--15853084 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
15853037 TTGTGATTAA
*
15853047 AATTTTTATTTTCTTTTCT
1 AATTTTTATTTTATTTTCT
15853066 AATTTTTCA-TTTATTTTCT
1 AATTTTT-ATTTTATTTTCT
15853085 TCTGACAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.18, C:0.11, G:0.00, T:0.71
Consensus pattern (19 bp):
AATTTTTATTTTATTTTCT
Found at i:15861358 original size:14 final size:14
Alignment explanation
Indices: 15861339--15861365 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15861329 ATATTTGACT
15861339 TGTTCTTAATTCTG
1 TGTTCTTAATTCTG
15861353 TGTTCTTAATTCT
1 TGTTCTTAATTCT
15861366 TCTTTTAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.11, T:0.59
Consensus pattern (14 bp):
TGTTCTTAATTCTG
Done.