Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 159 of 199
Found at i:52445344 original size:145 final size:142
Alignment explanation
Indices: 52445165--52445451 Score: 484
Period size: 145 Copynumber: 2.0 Consensus size: 142
52445155 TTTTTTCCAC
*
52445165 AAAAATAATATTTTATGTGTATGTAAATATAAAACGGCTCAACTTAATTTAGTAACAAAATAATG
1 AAAAATAATATTTTATGTGTATGTAAATATAAAACCGCTCAACTTAATTTAGTAACAAAATAATG
*
52445230 ATTCATACCATATATCAAAGTATTTCAAAATAAAGACTTTCGCTTTTTATTTTTAATAGTTGAAG
66 ATTCATAACATATATCAAAGTATTTCAAAATAAAGACTTTCGC--TTT-TTTTTAATAGTTGAAG
52445295 TTGATACGTTAGATA
128 TTGATACGTTAGATA
*
52445310 AAAAATAATTTTTTATGTGTATGTAAATATAAAACCGCTCAACTTAATTTAGTAACAAAATAATG
1 AAAAATAATATTTTATGTGTATGTAAATATAAAACCGCTCAACTTAATTTAGTAACAAAATAATG
* * * *
52445375 ATTCATAACATATATCAATGTATTTCGAAATAAAGACTTTCGCTTTTTTTTAATATTTGGAGTTG
66 ATTCATAACATATATCAAAGTATTTCAAAATAAAGACTTTCGCTTTTTTTTAATAGTTGAAGTTG
52445440 ATACGTTAGATA
131 ATACGTTAGATA
52445452 CAGATAGATC
Statistics
Matches: 135, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
142 29 0.21
143 3 0.02
145 103 0.76
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.39
Consensus pattern (142 bp):
AAAAATAATATTTTATGTGTATGTAAATATAAAACCGCTCAACTTAATTTAGTAACAAAATAATG
ATTCATAACATATATCAAAGTATTTCAAAATAAAGACTTTCGCTTTTTTTTAATAGTTGAAGTTG
ATACGTTAGATA
Found at i:52445488 original size:9 final size:11
Alignment explanation
Indices: 52445462--52445487 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
52445452 CAGATAGATC
52445462 ATATATTGTAA
1 ATATATTGTAA
52445473 ATATATTGTAA
1 ATATATTGTAA
52445484 ATAT
1 ATAT
52445488 TTGGGGTGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (11 bp):
ATATATTGTAA
Found at i:52445694 original size:3 final size:3
Alignment explanation
Indices: 52445688--52445716 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
52445678 AAAAATGGAA
52445688 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
52445717 AGCATTCTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:52452047 original size:14 final size:14
Alignment explanation
Indices: 52452016--52452110 Score: 50
Period size: 14 Copynumber: 6.8 Consensus size: 14
52452006 ATTTAAATTT
*
52452016 TAAATCCTAAAC-C
1 TAAATTCTAAACAC
52452029 ATAAATTCTAAACAC
1 -TAAATTCTAAACAC
* * ***
52452044 TAAATTTTATATTT
1 TAAATTCTAAACAC
* * *
52452058 TGAACTCTAAACCC
1 TAAATTCTAAACAC
* *
52452072 TATATTC-AAATCAT
1 TAAATTCTAAA-CAC
52452086 TAAATTCTAAACAC
1 TAAATTCTAAACAC
*
52452100 TAAATTTTAAA
1 TAAATTCTAAA
52452111 TCTCAAACTC
Statistics
Matches: 57, Mismatches: 21, Indels: 6
0.68 0.25 0.07
Matches are distributed among these distances:
13 3 0.05
14 50 0.88
15 4 0.07
ACGTcount: A:0.45, C:0.18, G:0.01, T:0.36
Consensus pattern (14 bp):
TAAATTCTAAACAC
Found at i:52452094 original size:28 final size:28
Alignment explanation
Indices: 52452060--52452144 Score: 100
Period size: 28 Copynumber: 3.0 Consensus size: 28
52452050 TTATATTTTG
*
52452060 AACTCTAAACCCTATATTCAAATCATTA
1 AACTCTAAACCCTATATTTAAATCATTA
* * * *
52452088 AATTCTAAACACTAAATTTTAAATC-TCA
1 AACTCTAAACCCTATA-TTTAAATCATTA
*
52452116 AACTCAAAACCCTATATTTAAATCATTA
1 AACTCTAAACCCTATATTTAAATCATTA
52452144 A
1 A
52452145 GTGCATCATA
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
27 8 0.18
28 30 0.67
29 7 0.16
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (28 bp):
AACTCTAAACCCTATATTTAAATCATTA
Found at i:52452094 original size:56 final size:56
Alignment explanation
Indices: 52452030--52452144 Score: 176
Period size: 56 Copynumber: 2.1 Consensus size: 56
52452020 TCCTAAACCA
* * ** *
52452030 TAAATTCTAAACACTAAATTTTATATTTTGAACTCTAAACCCTATATTCAAATCAT
1 TAAATTCTAAACACTAAATTTTAAATCTCAAACTCAAAACCCTATATTCAAATCAT
*
52452086 TAAATTCTAAACACTAAATTTTAAATCTCAAACTCAAAACCCTATATTTAAATCAT
1 TAAATTCTAAACACTAAATTTTAAATCTCAAACTCAAAACCCTATATTCAAATCAT
52452142 TAA
1 TAA
52452145 GTGCATCATA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.44, C:0.18, G:0.01, T:0.37
Consensus pattern (56 bp):
TAAATTCTAAACACTAAATTTTAAATCTCAAACTCAAAACCCTATATTCAAATCAT
Found at i:52452194 original size:20 final size:19
Alignment explanation
Indices: 52452158--52452197 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
52452148 CATCATACTC
* *
52452158 ATAAAAACAAAATATAGAA
1 ATAAAAAAAAAACATAGAA
52452177 ATAAAAAAATAAACATAGAA
1 ATAAAAAAA-AAACATAGAA
52452197 A
1 A
52452198 ATATAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.75, C:0.05, G:0.05, T:0.15
Consensus pattern (19 bp):
ATAAAAAAAAAACATAGAA
Found at i:52452896 original size:24 final size:24
Alignment explanation
Indices: 52452851--52452896 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
52452841 TAACTAAAAT
** *
52452851 AAATAATATATAACCTATATAATA
1 AAATAATATATAAAATAAATAATA
*
52452875 AAATAATATTTAAAATAAATAA
1 AAATAATATATAAAATAAATAA
52452897 CATTCTATAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (24 bp):
AAATAATATATAAAATAAATAATA
Found at i:52453135 original size:3 final size:3
Alignment explanation
Indices: 52453127--52453167 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
52453117 ACAACTTCAT
52453127 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
52453168 GGGTAAAACA
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:52454321 original size:76 final size:76
Alignment explanation
Indices: 52454238--52454564 Score: 349
Period size: 76 Copynumber: 4.3 Consensus size: 76
52454228 TGGTAATTCC
* * *
52454238 GAGGCTCAACTCATTTCTTGAAAACATAATCAATTTTTGATAAAATGATAATTGAAAGGACCTCA
1 GAGGCTCAACCCATTTCTTGAAAACATAATCAATTTTTGATAAAATGACAACTGAAAGGACCTCA
*
52454303 ACAACAATCCT
66 ACGACAATCCT
* * ** * * * *
52454314 GACGCTCAACCCATTTCTTGAAAACAGAATCGCTTTTTGATAAAATGATAGCTGAAAGAACCTAA
1 GAGGCTCAACCCATTTCTTGAAAACATAATCAATTTTTGATAAAATGACAACTGAAAGGACCTCA
*
52454379 ATGACAATCCT
66 ACGACAATCCT
* * * *
52454390 GAGGCTCGACCCATTTCTTGAAAACA-AATTCAATTTTTGATAAAATGACAACTAAAAAGACATC
1 GAGGCTCAACCCATTTCTTGAAAACATAA-TCAATTTTTGATAAAATGACAACTGAAAGGACCTC
*
52454454 AACGTCAAT-CT
65 AACGACAATCCT
* * * *
52454465 CGAGGCTCGATCCATTTCTTGAAAACAT-ATCCAATTTTTCATCAAATGACAACTGAAAGGACCT
1 -GAGGCTCAACCCATTTCTTGAAAACATAAT-CAATTTTTGATAAAATGACAACTGAAAGGACCT
** *
52454529 TGACGATAAT-CT
64 CAACGACAATCCT
*
52454541 CAAGGCTCAACCCATTTCTT-AAAA
1 -GAGGCTCAACCCATTTCTTGAAAA
52454565 TGAATTCGAT
Statistics
Matches: 210, Mismatches: 37, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
75 9 0.04
76 201 0.96
ACGTcount: A:0.39, C:0.21, G:0.13, T:0.28
Consensus pattern (76 bp):
GAGGCTCAACCCATTTCTTGAAAACATAATCAATTTTTGATAAAATGACAACTGAAAGGACCTCA
ACGACAATCCT
Found at i:52465677 original size:14 final size:15
Alignment explanation
Indices: 52465652--52465681 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
52465642 AATAAAAAAT
52465652 ATATTAAAAAACTTA
1 ATATTAAAAAACTTA
52465667 ATATT-AAAAACTTA
1 ATATTAAAAAACTTA
52465681 A
1 A
52465682 ACACAAAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (15 bp):
ATATTAAAAAACTTA
Found at i:52465794 original size:9 final size:9
Alignment explanation
Indices: 52465780--52465806 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
52465770 CAAGTATTTG
52465780 CTTGAAAGA
1 CTTGAAAGA
52465789 CTTGAAAGA
1 CTTGAAAGA
52465798 CTTGAAAGA
1 CTTGAAAGA
52465807 AACTCATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.22
Consensus pattern (9 bp):
CTTGAAAGA
Found at i:52475618 original size:16 final size:16
Alignment explanation
Indices: 52475597--52475627 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
52475587 TATGTTAGAG
52475597 CATATAAATTTGAAAC
1 CATATAAATTTGAAAC
*
52475613 CATATATATTTGAAA
1 CATATAAATTTGAAA
52475628 AATTTTTCAA
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:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (16 bp):
CATATAAATTTGAAAC
Found at i:52475817 original size:17 final size:18
Alignment explanation
Indices: 52475797--52475833 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
52475787 TTTTAAAAAA
52475797 TATAAATA-TTGGAATTT
1 TATAAATATTTGGAATTT
*
52475814 TATAAATATTTTGAATTT
1 TATAAATATTTGGAATTT
52475832 TA
1 TA
52475834 AAAGTTATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (18 bp):
TATAAATATTTGGAATTT
Found at i:52475848 original size:19 final size:18
Alignment explanation
Indices: 52475808--52475871 Score: 67
Period size: 18 Copynumber: 3.4 Consensus size: 18
52475798 ATAAATATTG
*
52475808 GAATTTTATAAA-TATTTT
1 GAATTTTA-AAATTATCTT
52475826 GAATTTTAAAAGTTATCTT
1 GAATTTTAAAA-TTATCTT
*
52475845 GAATTTTTTAAAATTATTTT
1 GAA--TTTTAAAATTATCTT
52475865 GAATTTT
1 GAATTTT
52475872 TTTATAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
17 3 0.08
18 12 0.30
19 8 0.20
20 9 0.22
21 8 0.20
ACGTcount: A:0.36, C:0.02, G:0.08, T:0.55
Consensus pattern (18 bp):
GAATTTTAAAATTATCTT
Found at i:52475861 original size:20 final size:21
Alignment explanation
Indices: 52475829--52475873 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
52475819 ATATTTTGAA
52475829 TTTTAAAAGTTATCTTGAATT
1 TTTTAAAAGTTATCTTGAATT
*
52475850 TTTTAAAA-TTATTTTGAATT
1 TTTTAAAAGTTATCTTGAATT
52475870 TTTT
1 TTTT
52475874 TATAATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.31, C:0.02, G:0.07, T:0.60
Consensus pattern (21 bp):
TTTTAAAAGTTATCTTGAATT
Found at i:52476315 original size:17 final size:18
Alignment explanation
Indices: 52476293--52476333 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
52476283 TAACATATTT
52476293 AATAAAGTAATA-TTTA-A
1 AATAAA-TAATATTTTATA
52476310 AATAAATAATATTTTATA
1 AATAAATAATATTTTATA
52476328 AATAAA
1 AATAAA
52476334 AATTGAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.23
17 10 0.45
18 7 0.32
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (18 bp):
AATAAATAATATTTTATA
Found at i:52484423 original size:6 final size:6
Alignment explanation
Indices: 52484412--52484437 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
52484402 AATAAATATA
52484412 TATTTT TATTTT TATTTT TATTTT TA
1 TATTTT TATTTT TATTTT TATTTT TA
52484438 AAATACTTTA
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:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TATTTT
Found at i:52489317 original size:43 final size:42
Alignment explanation
Indices: 52489245--52489364 Score: 127
Period size: 43 Copynumber: 2.8 Consensus size: 42
52489235 AGGGTTACCG
** * *
52489245 ATATGTGTTATCATGTAAGACCATATCTGGGAC-GTTGGCATCG
1 ATATGTGTTA-CATGTAAGACCACGTCTGGGACAG-TAGCATCC
*
52489288 ACT-TGTGTTTACATGTAAGACCCCGTCTGGGACAGTAGCATCC
1 A-TATGTG-TTACATGTAAGACCACGTCTGGGACAGTAGCATCC
*
52489331 ATATGTGATTGCATGTAAGACCACGTCTGGGACA
1 ATATGTG-TTACATGTAAGACCACGTCTGGGACA
52489365 TTGACATTGT
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
42 1 0.02
43 59 0.91
44 5 0.08
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (42 bp):
ATATGTGTTACATGTAAGACCACGTCTGGGACAGTAGCATCC
Found at i:52490260 original size:23 final size:25
Alignment explanation
Indices: 52490241--52490286 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
52490231 GTGTATGCTT
*
52490241 ATTGA-TAAAGATTTGATATG-TGA
1 ATTGAGTAAAGATGTGATATGCTGA
*
52490264 ATTGAGTAAATATGTGATATGCT
1 ATTGAGTAAAGATGTGATATGCT
52490287 AAGTATATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 13 0.68
25 1 0.05
ACGTcount: A:0.37, C:0.02, G:0.22, T:0.39
Consensus pattern (25 bp):
ATTGAGTAAAGATGTGATATGCTGA
Found at i:52495243 original size:23 final size:20
Alignment explanation
Indices: 52495213--52495273 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 20
52495203 AAAGAGAAAG
52495213 AATTTCTGTAAAATCAGTCAA
1 AATTTCTGTAAAATCAGT-AA
*
52495234 TTAATTTCTGTAAAATTTCTGTAA
1 --AATTTCTGTAAAA--TCAGTAA
52495258 AATTTCTGTAAAATCA
1 AATTTCTGTAAAATCA
52495274 AACAATCAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
20 2 0.06
22 13 0.38
23 13 0.38
24 2 0.06
25 4 0.12
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.41
Consensus pattern (20 bp):
AATTTCTGTAAAATCAGTAA
Found at i:52495252 original size:11 final size:11
Alignment explanation
Indices: 52495236--52495271 Score: 72
Period size: 11 Copynumber: 3.3 Consensus size: 11
52495226 TCAGTCAATT
52495236 AATTTCTGTAA
1 AATTTCTGTAA
52495247 AATTTCTGTAA
1 AATTTCTGTAA
52495258 AATTTCTGTAA
1 AATTTCTGTAA
52495269 AAT
1 AAT
52495272 CAAACAATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.44
Consensus pattern (11 bp):
AATTTCTGTAA
Found at i:52495334 original size:3 final size:3
Alignment explanation
Indices: 52495321--52495359 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
52495311 ATAATTAAAG
*
52495321 AGA ATA AGA AGA AGA AGA AGA AGA AGA AGA AGA A-A AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
52495360 ACTCATCGGC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.69, C:0.00, G:0.28, T:0.03
Consensus pattern (3 bp):
AGA
Found at i:52499494 original size:13 final size:13
Alignment explanation
Indices: 52499442--52499505 Score: 67
Period size: 13 Copynumber: 4.9 Consensus size: 13
52499432 ACACTCAAAA
*
52499442 TTTTCAAAAACAC
1 TTTTCAAAAGCAC
* *
52499455 TTCTCAAAAGCAT
1 TTTTCAAAAGCAC
*
52499468 TTTTGCATAA-CAC
1 TTTT-CAAAAGCAC
*
52499481 TTTTTAAAAGCAC
1 TTTTCAAAAGCAC
52499494 TTTTCAAAAGCA
1 TTTTCAAAAGCA
52499506 ATGAAGAACT
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
12 3 0.08
13 33 0.82
14 4 0.10
ACGTcount: A:0.39, C:0.20, G:0.06, T:0.34
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:52505367 original size:23 final size:23
Alignment explanation
Indices: 52505337--52505387 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
52505327 AACATAGTGT
*
52505337 CTACTGTTAAAGCACTCCGGTGC
1 CTACTGTTAAAGCACTCCGATGC
* *
52505360 CTACTGTTAAATCACTTCGATGC
1 CTACTGTTAAAGCACTCCGATGC
52505383 CTACT
1 CTACT
52505388 ACTGTGGTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (23 bp):
CTACTGTTAAAGCACTCCGATGC
Found at i:52508022 original size:22 final size:22
Alignment explanation
Indices: 52507997--52508042 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
52507987 CATTAAACTG
* *
52507997 AATTCA-AACAAATAAAAAGTAA
1 AATTCATAA-AAAAAAAAAGAAA
52508019 AATTCATAAAAAAAAAAAGAAA
1 AATTCATAAAAAAAAAAAGAAA
52508041 AA
1 AA
52508043 AAAAGAGAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.74, C:0.07, G:0.04, T:0.15
Consensus pattern (22 bp):
AATTCATAAAAAAAAAAAGAAA
Found at i:52509843 original size:23 final size:23
Alignment explanation
Indices: 52509817--52509868 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
52509807 AGATTATTAC
52509817 TATAATTTCAATGAATATATCAT
1 TATAATTTCAATGAATATATCAT
*
52509840 TATAATTTCAATGTATATATCAT
1 TATAATTTCAATGAATATATCAT
52509863 TATAAT
1 TATAAT
52509869 ATTTTGACAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (23 bp):
TATAATTTCAATGAATATATCAT
Found at i:52514364 original size:18 final size:18
Alignment explanation
Indices: 52514320--52514364 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
52514310 CATTCGTTTC
* *
52514320 CAAAACATTATTCATTTA
1 CAAAACGTTATTCAATTA
*
52514338 CAAATCGTTATTCAATTA
1 CAAAACGTTATTCAATTA
52514356 CAAAACGTT
1 CAAAACGTT
52514365 TTCTTATTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.42, C:0.18, G:0.04, T:0.36
Consensus pattern (18 bp):
CAAAACGTTATTCAATTA
Found at i:52518112 original size:24 final size:24
Alignment explanation
Indices: 52518085--52518130 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
52518075 GATTTGAAAA
52518085 AAAATAATT-TTTAGCAAAAACTTT
1 AAAATAATTATTTAG-AAAAACTTT
**
52518109 AAAATTGTTATTTAGAAAAACT
1 AAAATAATTATTTAGAAAAACT
52518131 CATGCGCAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.37
Consensus pattern (24 bp):
AAAATAATTATTTAGAAAAACTTT
Found at i:52518555 original size:36 final size:34
Alignment explanation
Indices: 52518515--52518608 Score: 134
Period size: 34 Copynumber: 2.7 Consensus size: 34
52518505 ACTTATACAA
*
52518515 ATATTAGATCAGAATGTTATATTACCAAAAAAACAT
1 ATATTAGATCAGAATGTCATATTACC--AAAAACAT
*
52518551 ATATTGGATCAGAATGTCATATTACCAAAAACAT
1 ATATTAGATCAGAATGTCATATTACCAAAAACAT
* *
52518585 ATATGAGATCAGAATGTCCTATTA
1 ATATTAGATCAGAATGTCATATTA
52518609 AATCAGAGCA
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
34 29 0.55
36 24 0.45
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.31
Consensus pattern (34 bp):
ATATTAGATCAGAATGTCATATTACCAAAAACAT
Found at i:52521613 original size:14 final size:15
Alignment explanation
Indices: 52521594--52521622 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
52521584 AAATTTTACT
52521594 AAAGTG-CTAAAGTA
1 AAAGTGACTAAAGTA
52521608 AAAGTGACTAAAGTA
1 AAAGTGACTAAAGTA
52521623 TAGTTAACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.52, C:0.07, G:0.21, T:0.21
Consensus pattern (15 bp):
AAAGTGACTAAAGTA
Found at i:52527667 original size:29 final size:29
Alignment explanation
Indices: 52527598--52527680 Score: 114
Period size: 28 Copynumber: 2.9 Consensus size: 29
52527588 ACCGAAAAAT
* *
52527598 GAGCCTTTATGGCTGATTCTGTTATATGA
1 GAGCCTTTATGGCTGATTATGTTATATAA
* *
52527627 GA-CCTTTGTGGCTAATTATGTTATATAA
1 GAGCCTTTATGGCTGATTATGTTATATAA
*
52527655 GAGCCTTTATGGCTGATTTTGTTATA
1 GAGCCTTTATGGCTGATTATGTTATA
52527681 CGTGAGTCTT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
28 24 0.52
29 22 0.48
ACGTcount: A:0.23, C:0.12, G:0.22, T:0.43
Consensus pattern (29 bp):
GAGCCTTTATGGCTGATTATGTTATATAA
Found at i:52527825 original size:28 final size:28
Alignment explanation
Indices: 52527790--52527866 Score: 118
Period size: 28 Copynumber: 2.8 Consensus size: 28
52527780 ATCTATAAAT
*
52527790 GACGCCTTTGTGGCTATTTTTGTCTGAG
1 GACGCCTTTGTGGCTATCTTTGTCTGAG
*
52527818 GCCGCCTTTGTGGCTATCTTTGTCTGAG
1 GACGCCTTTGTGGCTATCTTTGTCTGAG
* *
52527846 GATGCCTTTGTGACTATCTTT
1 GACGCCTTTGTGGCTATCTTT
52527867 ATTTAAGGAC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.10, C:0.21, G:0.26, T:0.43
Consensus pattern (28 bp):
GACGCCTTTGTGGCTATCTTTGTCTGAG
Found at i:52527923 original size:29 final size:28
Alignment explanation
Indices: 52527796--52527921 Score: 99
Period size: 28 Copynumber: 4.5 Consensus size: 28
52527786 AAATGACGCC
* * * ** *
52527796 TTTGTGGCTATTTTTGTCTGAGGCCGCC
1 TTTGTGGCTATCTTTGTTTAAGGATGCA
* * *
52527824 TTTGTGGCTATCTTTGTCTGAGGATGCC
1 TTTGTGGCTATCTTTGTTTAAGGATGCA
* * **
52527852 TTTGTGACTATCTTTATTTAAGGACACA
1 TTTGTGGCTATCTTTGTTTAAGGATGCA
* *
52527880 TTTATGTCTATCTATTGTTTAAGGATGCA
1 TTTGTGGCTATCT-TTGTTTAAGGATGCA
*
52527909 TCTGTGGCTATCT
1 TTTGTGGCTATCT
52527922 ATGTCAAAAG
Statistics
Matches: 79, Mismatches: 18, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
28 57 0.72
29 22 0.28
ACGTcount: A:0.17, C:0.17, G:0.22, T:0.44
Consensus pattern (28 bp):
TTTGTGGCTATCTTTGTTTAAGGATGCA
Found at i:52531311 original size:16 final size:16
Alignment explanation
Indices: 52531290--52531322 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
52531280 AATAAAACGA
52531290 AAATAATAATAATAAT
1 AAATAATAATAATAAT
52531306 AAATAATAATAATAAT
1 AAATAATAATAATAAT
52531322 A
1 A
52531323 CAATGTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AAATAATAATAATAAT
Found at i:52531312 original size:13 final size:13
Alignment explanation
Indices: 52531294--52531320 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
52531284 AAACGAAAAT
52531294 AATAATAATAATA
1 AATAATAATAATA
52531307 AATAATAATAATA
1 AATAATAATAATA
52531320 A
1 A
52531321 TACAATGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AATAATAATAATA
Found at i:52531337 original size:3 final size:3
Alignment explanation
Indices: 52531291--52531322 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
52531281 ATAAAACGAA
52531291 AAT AAT AAT AAT AAT AAAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT A
52531323 CAATGTTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:52534870 original size:18 final size:19
Alignment explanation
Indices: 52534828--52534872 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
52534818 CTACATATCT
*
52534828 AATTTATTAATTTTAAAATC
1 AATTTATT-ATTTTAAAATA
*
52534848 GATTTATT-TTTTAAAATA
1 AATTTATTATTTTAAAATA
52534866 AATTTAT
1 AATTTAT
52534873 GTCGATTGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 15 0.68
20 7 0.32
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (19 bp):
AATTTATTATTTTAAAATA
Found at i:52535288 original size:14 final size:13
Alignment explanation
Indices: 52535260--52535306 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 13
52535250 CCTTAAGTTG
52535260 TTCTACTTTTCCTTT
1 TTCT-CTTTT-CTTT
52535275 TTCTCTTTATCTTT
1 TTCTCTTT-TCTTT
52535289 TTCT-TTTTCATTT
1 TTCTCTTTTC-TTT
52535302 TTCTC
1 TTCTC
52535307 AAACAAAGGC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
12 2 0.07
13 10 0.34
14 12 0.41
15 5 0.17
ACGTcount: A:0.06, C:0.23, G:0.00, T:0.70
Consensus pattern (13 bp):
TTCTCTTTTCTTT
Found at i:52535832 original size:18 final size:18
Alignment explanation
Indices: 52535809--52535844 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
52535799 GCTTTGGATT
* *
52535809 TCGGGGTTGGGGTCGGGG
1 TCGGGGTAGGGGTAGGGG
52535827 TCGGGGTAGGGGTAGGGG
1 TCGGGGTAGGGGTAGGGG
52535845 CGTTCTGGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.06, C:0.08, G:0.67, T:0.19
Consensus pattern (18 bp):
TCGGGGTAGGGGTAGGGG
Found at i:52539008 original size:95 final size:96
Alignment explanation
Indices: 52538873--52539095 Score: 274
Period size: 95 Copynumber: 2.3 Consensus size: 96
52538863 TCGTGTTTAT
* * **
52538873 TTTTTAAGAAAAAAT-AAATTAAATTAAGGTTTAGGGTTACTTGAGTAATTTAATTAAAAAAATT
1 TTTTTAAGAAAAAATCAAA-TAAATTAGGGTTCAGCATTACTTGAGTAATTTAATT-AAAAAATT
*
52538937 TTA-AAAATTAGATTAGGGTTTAGAG-TTAAGGG
64 TTATAAAACTAGATTAGGGTTTAGAGTTTAA-GG
* * **
52538969 TTTTTAAG-GAAAATCAAATAAATTAGGGTTCAGCATTACTTGAGTAATTTAATTATAATTTTTT
1 TTTTTAAGAAAAAATCAAATAAATTAGGGTTCAGCATTACTTGAGTAATTTAATTAAAAAATTTT
*
52539033 ATAAAACTAGATTAGGGTTTAGGGTTTAAGG
66 ATAAAACTAGATTAGGGTTTAGAGTTTAAGG
* *
52539064 TTTTTAAGTAAAAATTCAAATAAATTTGGGTT
1 TTTTTAAG-AAAAAATCAAATAAATTAGGGTT
52539096 TGGGGTTGAG
Statistics
Matches: 109, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
94 8 0.07
95 67 0.61
96 15 0.14
97 19 0.17
ACGTcount: A:0.40, C:0.03, G:0.17, T:0.39
Consensus pattern (96 bp):
TTTTTAAGAAAAAATCAAATAAATTAGGGTTCAGCATTACTTGAGTAATTTAATTAAAAAATTTT
ATAAAACTAGATTAGGGTTTAGAGTTTAAGG
Found at i:52539651 original size:126 final size:126
Alignment explanation
Indices: 52539135--52539674 Score: 771
Period size: 125 Copynumber: 4.3 Consensus size: 126
52539125 TTGTTAATTT
* **
52539135 AAAGAAGCTCCCACGTGGACGCACTTTTGCTACAGTAGCTGTTGAAAAAATAATTTTGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTTGAGTAGAC
* ** * *
52539200 GTTTTTGAGCAAATAGTGTC-AAAACGCTTTAAGTAGGATGCTTTGTCAGCAGAAGTACTA
66 GTTTCTGAGCAAATAGAATCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
* ** *
52539260 AAAAAAGCTCCCACGTGGACATGCTTTTGCTACTGTAGCTCCT-AAAAAATAATTTTGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTTGAGTAGAC
* * *
52539324 GTTTCTAAGCAAATAGAATAAAAAACGCTTTAAGCAGGATGTTTTGTCAGCAGAAGTACTG
66 GTTTCTGAGCAAATAGAATCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
* *
52539385 AAAGAAGCTCCCACGTAGACGCGTTTTTGCTACAGTAGCTCCTG-AAAAATAATTTTGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTTGAGTAGAC
*
52539449 GTTTCTGAGCAAATAGAATCAAAAACGCTTTAAGCAGGATGTTTTGTCAGCAGAAGTACTG
66 GTTTCTGAGCAAATAGAATCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
* * * * *
52539510 AAAGAAGCTCTCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGATTAAAT
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTTGAGTAGAC
* ** * * **
52539575 GTTTCCGAGCAAATAGTGTCAAAAACGCTTTAAGAAGGATGCTTTGTCAGTAGAAGTTTTG
66 GTTTCTGAGCAAATAGAATCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
* *
52539636 AAATAACCTCCCACGTGGACGCGCTTTTGCTACAGTAGC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGC
52539675 GCATGTTTGG
Statistics
Matches: 371, Mismatches: 41, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
124 36 0.10
125 230 0.62
126 105 0.28
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (126 bp):
AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTTGAGTAGAC
GTTTCTGAGCAAATAGAATCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
Found at i:52543368 original size:18 final size:18
Alignment explanation
Indices: 52543342--52543384 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
52543332 GGCTAGAAAA
* *
52543342 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGTT
52543360 AGGATACATAAAAGGGTT
1 AGGATACATAAAAGGGTT
52543378 AGGATAC
1 AGGATAC
52543385 GCACCTGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.44, C:0.07, G:0.28, T:0.21
Consensus pattern (18 bp):
AGGATACATAAAAGGGTT
Found at i:52548151 original size:126 final size:126
Alignment explanation
Indices: 52547926--52548593 Score: 942
Period size: 126 Copynumber: 5.3 Consensus size: 126
52547916 CAAACATGCA
* * ** * * *
52547926 CTACTGTAGAAAAAGTGTGTCCACGTGGGAGCTTCTTTCAATACTTCTACTGACAAAGCATCCAG
1 CTACTGTAGCAAAAGCGCATCCACGTGGGAGCTTCTTTTAGTACTTCTACTGACAAAGCATCCTG
* *
52547991 CTTAAAACATTTTTGACACTATTTACTCAGAAATGTCTACTCAAAATTATTTTTTTAGGAG
66 CTTAAAGCATTTTTGACACTATTTGCTCAGAAATGTCTACTCAAAATTATTTTTTTAGGAG
* * *
52548052 CTACTGTAGCAAAAACGCATCTACGTGGGAGCTTCTTTTAGTACTTCTGCTGACAAAGCATCCTG
1 CTACTGTAGCAAAAGCGCATCCACGTGGGAGCTTCTTTTAGTACTTCTACTGACAAAGCATCCTG
*
52548117 CTTAAAGCATTTTTGACACTATTTGCTCAGAAATGTCTACTCAAAATTATTTTTTCAGGAG
66 CTTAAAGCATTTTTGACACTATTTGCTCAGAAATGTCTACTCAAAATTATTTTTTTAGGAG
* * * *
52548178 CTACTATAGCAAAAGCACATCCACGTGGGAGCTTCTTTTAGTACTTCTGCTAACAAAGCATCCTG
1 CTACTGTAGCAAAAGCGCATCCACGTGGGAGCTTCTTTTAGTACTTCTACTGACAAAGCATCCTG
* * * *
52548243 CTTAAAGCATTTTTGACACTATTTTCTCAAAAATGTATACTCGAAATTATTTTTTCT-GGAG
66 CTTAAAGCATTTTTGACACTATTTGCTCAGAAATGTCTACTCAAAATTATTTTTT-TAGGAG
** *
52548304 CTACTGTAGCAAAAGCGTGTCCATGTGGGAGCTTCTTTTAGTACTTCTACTGACAAAGCATCCTG
1 CTACTGTAGCAAAAGCGCATCCACGTGGGAGCTTCTTTTAGTACTTCTACTGACAAAGCATCCTG
* * *
52548369 CTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAGGAG
66 CTTAAAGCATTTTTGACACTATTTGCTCAGAAATGTCTACTCAAAATTATTTTTTTAGGAG
* * * * *
52548430 CTACTGCAGCAAAGGCGCGTCCACGTGGGAGCTTCTTTTAGTGCTTCTCCTGACAAAGCATCCTG
1 CTACTGTAGCAAAAGCGCATCCACGTGGGAGCTTCTTTTAGTACTTCTACTGACAAAGCATCCTG
* * ** * * *
52548495 CTTAAAGCGTTTTTGACACTATTTGCTTAGAAACATCTAGTCGAAATTAATTTTTTAGGAG
66 CTTAAAGCATTTTTGACACTATTTGCTCAGAAATGTCTACTCAAAATTATTTTTTTAGGAG
* **
52548556 CTACTGTAGCAAAAGTGCATCCTTGTGGGAGCTTCTTT
1 CTACTGTAGCAAAAGCGCATCCACGTGGGAGCTTCTTT
52548594 AAATTAACAA
Statistics
Matches: 485, Mismatches: 55, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
126 485 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (126 bp):
CTACTGTAGCAAAAGCGCATCCACGTGGGAGCTTCTTTTAGTACTTCTACTGACAAAGCATCCTG
CTTAAAGCATTTTTGACACTATTTGCTCAGAAATGTCTACTCAAAATTATTTTTTTAGGAG
Found at i:52548807 original size:89 final size:96
Alignment explanation
Indices: 52548626--52548829 Score: 260
Period size: 89 Copynumber: 2.2 Consensus size: 96
52548616 CGTAACCCTA
* ** *
52548626 AACCCCAAACCCTAATTTATTTGAGTTTTTATTTAAAAACCCTAAACACTAAATCCTAATCTAAT
1 AACCCTAAACCCTAATTTATTTGAGTTTTTACATAAAAACCCTAAACACTAAACCCTAATCT-AT
*
52548691 TTTTTAAAAATTTATAATTAATTTACTCAAGT
65 TTTTTAAAAATTTATAATTAAATTACTCAAGT
* * * *
52548723 AACCCTAAACCCTAATTTATTTGA-TTTTTCCAT-AAAACCTTTAACTCTAAACCCTAAT-T-TT
1 AACCCTAAACCCTAATTTATTTGAGTTTTTACATAAAAACCCTAAACACTAAACCCTAATCTATT
*
52548784 TTTT-TAAA-TT-TAATTAAATTACTCAAGT
66 TTTTAAAAATTTATAATTAAATTACTCAAGT
52548812 AACCCTAAACCCTAATTT
1 AACCCTAAACCCTAATTT
52548830 TGAAAAATTT
Statistics
Matches: 97, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
89 35 0.36
90 2 0.02
91 3 0.03
92 6 0.06
94 1 0.01
95 21 0.22
96 6 0.06
97 23 0.24
ACGTcount: A:0.38, C:0.20, G:0.02, T:0.40
Consensus pattern (96 bp):
AACCCTAAACCCTAATTTATTTGAGTTTTTACATAAAAACCCTAAACACTAAACCCTAATCTATT
TTTTAAAAATTTATAATTAAATTACTCAAGT
Found at i:52549442 original size:40 final size:40
Alignment explanation
Indices: 52549368--52549443 Score: 95
Period size: 40 Copynumber: 1.9 Consensus size: 40
52549358 ACGTGGCAGG
52549368 AAAACGTGTCCTTGAGGGAGCGATTTCTGTCCACGTAGGC
1 AAAACGTGTCCTTGAGGGAGCGATTTCTGTCCACGTAGGC
*
52549408 AAAACGCT-TCCTT-AGGGACGCGTTTTCCTG-CCACGT
1 AAAACG-TGTCCTTGAGGGA-GCGATTT-CTGTCCACGT
52549444 CCCTTGACAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
39 5 0.16
40 23 0.72
41 4 0.12
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.26
Consensus pattern (40 bp):
AAAACGTGTCCTTGAGGGAGCGATTTCTGTCCACGTAGGC
Found at i:52550173 original size:49 final size:49
Alignment explanation
Indices: 52550026--52550593 Score: 272
Period size: 49 Copynumber: 11.7 Consensus size: 49
52550016 CAGCACCAAG
* * * *
52550026 CACCAGTAAACGAAAAAAAAATTTAGGTGCTGGTCAATCAATGGCTGGCAC
1 CACCAGT--ACGAAAAAAAATTTTGGGTGCTGGCCAATCAATGGCCGGCAC
** * ** ** *
52550077 CAGTA-TTCG-AAAAAAA-TTTGGGTGCTGGCCTGTCAATCACCGCCAC
1 CACCAGTACGAAAAAAAATTTTGGGTGCTGGCCAATCAATGGCCGGCAC
* *
52550123 CACCAGTACGAAAAAAAATTTTGGGTGTTGGCCAATCAATGGTCGGCAC
1 CACCAGTACGAAAAAAAATTTTGGGTGCTGGCCAATCAATGGCCGGCAC
* * * *
52550172 CACCAGT--TAAAAAAAA--TT--GTGCTGG-CATGTTAATGGTCGGCAC
1 CACCAGTACGAAAAAAAATTTTGGGTGCTGGCCA-ATCAATGGCCGGCAC
* **** * * *
52550215 CACTAGTACGAAAATTTTTTTTCTTGGGTGTTGGCCAATTAATGGCCGATC-C
1 CACCAGTACGAAAA--AAAATT-TTGGGTGCTGGCCAATCAATGGCCG-GCAC
* * * *
52550267 CACCAGTACGAAAAAAAATTTTGGGAGCTTGCCAGTCAATGGCCAGCAC
1 CACCAGTACGAAAAAAAATTTTGGGTGCTGGCCAATCAATGGCCGGCAC
* * ** * * **
52550316 CACCAGTACGAAAAAAAAAATTTAGGTGCTGGCTTATCTATTGTTGGCAC
1 CACCAGTACG-AAAAAAAATTTTGGGTGCTGGCCAATCAATGGCCGGCAC
* * * * *
52550366 CACC-GAAACAAAAAAATAATTGTTTTTGGGTGCAGACCAGTCAATGGCCGGCAC
1 CACCAG-TACGAAAAAA-AA----TTTTGGGTGCTGGCCAATCAATGGCCGGCAC
*** * * * *
52550420 CGGTA-TACG-AAAAAAGTTTTAGGTGCTTGCCTATCAATGGCCGGCAC
1 CACCAGTACGAAAAAAAATTTTGGGTGCTGGCCAATCAATGGCCGGCAC
* * * * ** * *
52550467 CACCAGTACGAAAATAAATTTTAGGTTCTAGCCTTTTAATGGCTGGCAC
1 CACCAGTACGAAAAAAAATTTTGGGTGCTGGCCAATCAATGGCCGGCAC
* * *** *
52550516 GACCAGTAC--AAAAAAATTTT-TGTGCTGGCTTGTCAATGGCCGACAC
1 CACCAGTACGAAAAAAAATTTTGGGTGCTGGCCAATCAATGGCCGGCAC
** * *
52550562 CAAAAATACGAAAAAAAAATTT-GGTGCTGGCC
1 CACCAGTACGAAAAAAAATTTTGGGTGCTGGCC
52550594 TGTTAATGAC
Statistics
Matches: 378, Mismatches: 111, Indels: 59
0.69 0.20 0.11
Matches are distributed among these distances:
42 2 0.01
43 25 0.07
45 6 0.02
46 48 0.13
47 55 0.15
48 32 0.08
49 106 0.28
50 40 0.11
51 4 0.01
52 34 0.09
53 5 0.01
54 21 0.06
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.25
Consensus pattern (49 bp):
CACCAGTACGAAAAAAAATTTTGGGTGCTGGCCAATCAATGGCCGGCAC
Found at i:52550185 original size:95 final size:93
Alignment explanation
Indices: 52549992--52550333 Score: 235
Period size: 95 Copynumber: 3.5 Consensus size: 93
52549982 AAATAATTTT
* * * * *
52549992 TTTGGGTGCTAGCCTGTCAATGGACAGCACCAAGCACCAGTAAACGAAAAAAAAATTTAGGTGCT
1 TTTGGGTGCTGGCCTGTCAATGG-CCGCA-C---CACCAGT--ACGAAAAAAAATTTTGGGTGTT
* ** *
52550057 GGTCAATCAATGGCTGGCACCAGTA-TTCGAAAAAAA
59 GGCCAATCAATGGC-GGCACCACCAGTT-AAAAAAAA
**
52550093 TTTGGGTGCTGGCCTGTCAATCACCGCCACCACCAGTACGAAAAAAAATTTTGGGTGTTGGCCAA
1 TTTGGGTGCTGGCCTGTCAATGGCCG-CACCACCAGTACGAAAAAAAATTTTGGGTGTTGGCCAA
52550158 TCAATGGTCGGCACCACCAGTTAAAAAAAA
65 TCAATGG-CGGCACCACCAGTTAAAAAAAA
* * * * ****
52550188 -TT--GTGCTGGCATGTTAATGGTCGGCACCACTAGTACGAAAATTTTTTTTCTTGGGTGTTGGC
1 TTTGGGTGCTGGCCTGTCAATGG-CCGCACCACCAGTACGAAAA--AAAATT-TTGGGTGTTGGC
* * *
52550250 CAATTAATGGCCG-ATCCCACCAGTACGAAAAAAAA
62 CAATCAATGGCGGCA--CCACCAGT--TAAAAAAAA
* * *
52550285 TTTTGGGAGCTTGCCAGTCAATGGCCAGCACCACCAGTACGAAAAAAAA
1 -TTTGGGTGCTGGCCTGTCAATGGCC-GCACCACCAGTACGAAAAAAAA
52550334 AATTTAGGTG
Statistics
Matches: 190, Mismatches: 35, Indels: 34
0.73 0.14 0.13
Matches are distributed among these distances:
92 30 0.16
93 3 0.02
94 6 0.03
95 75 0.39
96 3 0.02
97 15 0.08
99 2 0.01
100 4 0.02
101 52 0.27
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (93 bp):
TTTGGGTGCTGGCCTGTCAATGGCCGCACCACCAGTACGAAAAAAAATTTTGGGTGTTGGCCAAT
CAATGGCGGCACCACCAGTTAAAAAAAA
Found at i:52550611 original size:48 final size:46
Alignment explanation
Indices: 52550525--52550640 Score: 117
Period size: 48 Copynumber: 2.5 Consensus size: 46
52550515 CGACCAGTAC
* * * *
52550525 AAAAAAATTTTTGTGCTGGCTTGTCAATGGCCGACACCAAAAATACG
1 AAAAAAAATTTGGTGCTGGCCTGTCAATGACCGACACC-AAAATACG
* * * **
52550572 AAAAAAAAATTTGGTGCTGGCCTGTTAATGACTGGCACCAGTATACG
1 -AAAAAAAATTTGGTGCTGGCCTGTCAATGACCGACACCAAAATACG
52550619 -AAAAAAATTTAGGTGCTGGCCT
1 AAAAAAAATTT-GGTGCTGGCCT
52550641 TCTGATTGTC
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
45 10 0.17
46 11 0.19
47 6 0.10
48 31 0.53
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (46 bp):
AAAAAAAATTTGGTGCTGGCCTGTCAATGACCGACACCAAAATACG
Found at i:52550636 original size:94 final size:95
Alignment explanation
Indices: 52550415--52550640 Score: 240
Period size: 94 Copynumber: 2.4 Consensus size: 95
52550405 GTCAATGGCC
* * * * ** *
52550415 GGCACCGGTATACGAAAAAAGTTTTAGGTGCTTGCCTATCAATGGCCGGCACCACCAGTACGAAA
1 GGCACCAGTATACGAAAAAA-ATTTAGGTGCTGGCCTATCAATGGCCGACACCAAAAATACGAAA
* * * * *
52550480 ATAAATTTTAGGTTCTAGCCTTTTAATGGCT
65 AAAAAATTTAGGTGCTAGCCTGTTAATGACT
* ** ** * *
52550511 GGCACGACCAGTAC-AAAAAAATTTTTGTGCTGGCTTGTCAATGGCCGACACCAAAAATACGAAA
1 GGCACCAGTA-TACGAAAAAAATTTAGGTGCTGGCCTATCAATGGCCGACACCAAAAATACGAAA
*
52550575 AAAAAATTT-GGTGCTGGCCTGTTAATGACT
65 AAAAAATTTAGGTGCTAGCCTGTTAATGACT
52550605 GGCACCAGTATACGAAAAAAATTTAGGTGCTGGCCT
1 GGCACCAGTATACGAAAAAAATTTAGGTGCTGGCCT
52550641 TCTGATTGTC
Statistics
Matches: 102, Mismatches: 26, Indels: 6
0.76 0.19 0.04
Matches are distributed among these distances:
93 3 0.03
94 43 0.42
95 41 0.40
96 12 0.12
97 3 0.03
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (95 bp):
GGCACCAGTATACGAAAAAAATTTAGGTGCTGGCCTATCAATGGCCGACACCAAAAATACGAAAA
AAAAATTTAGGTGCTAGCCTGTTAATGACT
Found at i:52553797 original size:14 final size:13
Alignment explanation
Indices: 52553756--52553791 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
52553746 TAATTTCATT
52553756 TTTTCATTTAATA
1 TTTTCATTTAATA
52553769 TTTT-ATTTAAATA
1 TTTTCATTT-AATA
52553782 TTTTCATTTA
1 TTTTCATTTA
52553792 TTTATTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 4 0.19
13 13 0.62
14 4 0.19
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTTCATTTAATA
Found at i:52557178 original size:125 final size:125
Alignment explanation
Indices: 52556777--52557181 Score: 591
Period size: 126 Copynumber: 3.2 Consensus size: 125
52556767 AATAAGTCGC
* *
52556777 GCCCACGTGTACGCGCTTTTGCTACAGTAGGTCCTGGAA-AAATAATTTTGAGTTGACGTTTCTG
1 GCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTTGAGTTGACGTTTCTG
* * *
52556841 AGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGGTAAGAATTTGTAAAATCGT
66 AGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTAGATAAGAATTTGTGAAATCGT
* *
52556901 GCCCTCGTGGACGCGCTTTTGCTACTGTAGGTCCTGGAAGAAATAATTTTGAGTTGACATTTCTG
1 GCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTTGAGTTGACGTTTCTG
* ** * *
52556966 AGCGAATAGTATGAAAAAT-GCTTAGAGCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGC
66 AGCAAATAGTAT--AAAATCGCTTCTAGCAGGATGCTATTA-GATAAGAATTTGTGAAATCGT
* * *
52557027 GACCTCGTGGACGCGCTTTTGCTACAGTAGGTCTTGGAAGAAATAATTTTGAGTTGACGTTTCTA
1 GCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTTGAGTTGACGTTTCTG
* *
52557092 AGCAAATAGTATAAAATCACTTCTAGTAGGATGCTATTAGATAAGAATTTGTGAAATCGT
66 AGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTAGATAAGAATTTGTGAAATCGT
* *
52557152 GCCCTCGTGGACGCGATTTTGTTACAGTAG
1 GCCCTCGTGGACGCGCTTTTGCTACAGTAG
52557182 CATGTCTGGG
Statistics
Matches: 248, Mismatches: 27, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
124 41 0.17
125 96 0.39
126 106 0.43
127 5 0.02
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.32
Consensus pattern (125 bp):
GCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTTGAGTTGACGTTTCTG
AGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTAGATAAGAATTTGTGAAATCGT
Found at i:52560320 original size:22 final size:21
Alignment explanation
Indices: 52560295--52560949 Score: 797
Period size: 21 Copynumber: 30.6 Consensus size: 21
52560285 TATCAAATTA
*
52560295 TTTTAAAGTTAAGGGTTAGGG
1 TTTTTAAGTTAAGGGTTAGGG
*
52560316 TTTTTAAGTTAAGGGTTTAAGG
1 TTTTTAAGTTAAGGG-TTAGGG
*
52560338 TTTTTAAGTTAAGTGTTTAGGG
1 TTTTTAAGTTAAG-GGTTAGGG
*
52560360 TTTTTAAGTTAAGGGTTATGG
1 TTTTTAAGTTAAGGGTTAGGG
52560381 TTTTTAAGTTAAGGGTTTAGGG
1 TTTTTAAGTTAAGGG-TTAGGG
52560403 -TTTTAAGTTAAGGGTTAGGG
1 TTTTTAAGTTAAGGGTTAGGG
*
52560423 TTTTTAAGTTAAGGGTTAGTG
1 TTTTTAAGTTAAGGGTTAGGG
*
52560444 TTTTTAA-TTAAGGGTTAGGA
1 TTTTTAAGTTAAGGGTTAGGG
* *
52560464 TTTTAAATTTAAGGGTTAGGG
1 TTTTTAAGTTAAGGGTTAGGG
52560485 TTTTTAAGTTAAGGGTTTAGGG
1 TTTTTAAGTTAAGGG-TTAGGG
52560507 TTTTTAAGTTAAGGGTTAGGG
1 TTTTTAAGTTAAGGGTTAGGG
52560528 TTTTTAAGTTAAGGGTTTAGGG
1 TTTTTAAGTTAAGGG-TTAGGG
52560550 TTTTTAAGTTAAGGGTTAGGG
1 TTTTTAAGTTAAGGGTTAGGG
* * *
52560571 TTTTAAATTTAAAGGTTAGGG
1 TTTTTAAGTTAAGGGTTAGGG
52560592 TTTTTAAGTTAAGGGTTTAGGG
1 TTTTTAAGTTAAGGG-TTAGGG
* * *
52560614 TTTTTTAGGTTAAGGTTTATGG
1 -TTTTTAAGTTAAGGGTTAGGG
52560636 TTTTTAAGTTAAGGGTTAGGG
1 TTTTTAAGTTAAGGGTTAGGG
* *
52560657 TTTTAAATTTAAGGGTTAGGG
1 TTTTTAAGTTAAGGGTTAGGG
*
52560678 TTTTTAAGTTAATGGTTTAGGG
1 TTTTTAAGTTAA-GGGTTAGGG
*
52560700 TTTTTAAGTTAAGGGTTTGGGG
1 TTTTTAAGTTAAGGG-TTAGGG
*
52560722 TTTTTAAGTTAAGGGTTTATGG
1 TTTTTAAGTTAAGGG-TTAGGG
52560744 TTTTTAAGTT-A-----AGGG
1 TTTTTAAGTTAAGGGTTAGGG
*
52560759 TTTTTAAGTTAAGGGTTAGGA
1 TTTTTAAGTTAAGGGTTAGGG
* *
52560780 TTTTTAATTTAAGGGTTTATGG
1 TTTTTAAGTTAAGGG-TTAGGG
*
52560802 TTTTTAAGTTAAGGGTTAGTG
1 TTTTTAAGTTAAGGGTTAGGG
* *
52560823 TTTTAAATTTAAGGGTTTAGGG
1 TTTTTAAGTTAAGGG-TTAGGG
*
52560845 TTTTTAAGTTAAGAGTTTAGGG
1 TTTTTAAGTTAAG-GGTTAGGG
*
52560867 TTTTTAAGTTAAGGGTTTAAGG
1 TTTTTAAGTTAAGGG-TTAGGG
52560889 TTTTTAAGTTAAGGTTTAAGGTTAGGG
1 TTTTTAAGTTAA-G-----GGTTAGGG
*
52560916 TTTTTAAGTTAAGGGTTTAAGG
1 TTTTTAAGTTAAGGG-TTAGGG
52560938 TTTGTTAA-TTAA
1 TTT-TTAAGTTAA
52560950 ATTATGCATT
Statistics
Matches: 552, Mismatches: 53, Indels: 57
0.83 0.08 0.09
Matches are distributed among these distances:
15 13 0.02
16 1 0.00
20 23 0.04
21 244 0.44
22 231 0.42
23 20 0.04
26 1 0.00
27 17 0.03
28 2 0.00
ACGTcount: A:0.25, C:0.00, G:0.29, T:0.46
Consensus pattern (21 bp):
TTTTTAAGTTAAGGGTTAGGG
Found at i:52560383 original size:43 final size:42
Alignment explanation
Indices: 52560295--52560949 Score: 797
Period size: 43 Copynumber: 15.3 Consensus size: 42
52560285 TATCAAATTA
* *
52560295 TTTTAAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGG
1 TTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG-TTAGGG
* *
52560338 TTTTTAAGTTAAGTGTTTAGGGTTTTTAAGTTAAGGGTTATGG
1 TTTTTAAGTTAAG-GGTTAGGGTTTTTAAGTTAAGGGTTAGGG
52560381 TTTTTAAGTTAAGGGTTTAGGG-TTTTAAGTTAAGGGTTAGGG
1 TTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTAGGG
* *
52560423 TTTTTAAGTTAAGGGTTAGTGTTTTTAA-TTAAGGGTTAGGA
1 TTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGG
* *
52560464 TTTTAAATTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGG
1 TTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG-TTAGGG
52560507 TTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGG
1 TTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG-TTAGGG
* * *
52560550 TTTTTAAGTTAAGGGTTAGGGTTTTAAATTTAAAGGTTAGGG
1 TTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGG
* * *
52560592 TTTTTAAGTTAAGGGTTTAGGGTTTTTTAGGTTAAGGTTTATGG
1 TTTTTAAGTTAAGGG-TTAGGG-TTTTTAAGTTAAGGGTTAGGG
* *
52560636 TTTTTAAGTTAAGGGTTAGGGTTTTAAATTTAAGGGTTAGGG
1 TTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGG
* *
52560678 TTTTTAAGTTAATGGTTTAGGGTTTTTAAGTTAAGGGTTTGGGG
1 TTTTTAAGTTAA-GGGTTAGGGTTTTTAAGTTAAGGG-TTAGGG
*
52560722 TTTTTAAGTTAAGGGTTTATGGTTTTTAAGTT-A-----AGGG
1 TTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTAGGG
* * *
52560759 TTTTTAAGTTAAGGGTTAGGATTTTTAATTTAAGGGTTTATGG
1 TTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG-TTAGGG
* * *
52560802 TTTTTAAGTTAAGGGTTAGTGTTTTAAATTTAAGGGTTTAGGG
1 TTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG-TTAGGG
* *
52560845 TTTTTAAGTTAAGAGTTTAGGGTTTTTAAGTTAAGGGTTTAAGG
1 TTTTTAAGTTAAG-GGTTAGGGTTTTTAAGTTAAGGG-TTAGGG
*
52560889 TTTTTAAGTTAAGGTTTAAGGTTAGGGTTTTTAAGTTAAGGGTTTAAGG
1 TTTTTAAGTTAA-G-----GGTTAGGGTTTTTAAGTTAAGGG-TTAGGG
52560938 TTTGTTAA-TTAA
1 TTT-TTAAGTTAA
52560950 ATTATGCATT
Statistics
Matches: 540, Mismatches: 48, Indels: 42
0.86 0.08 0.07
Matches are distributed among these distances:
36 13 0.02
37 19 0.04
41 42 0.08
42 97 0.18
43 206 0.38
44 121 0.22
45 1 0.00
49 37 0.07
50 4 0.01
ACGTcount: A:0.25, C:0.00, G:0.29, T:0.46
Consensus pattern (42 bp):
TTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGG
Found at i:52560762 original size:15 final size:15
Alignment explanation
Indices: 52560742--52560775 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
52560732 AAGGGTTTAT
52560742 GGTTTTTAAGTTAAG
1 GGTTTTTAAGTTAAG
52560757 GGTTTTTAAGTTAAG
1 GGTTTTTAAGTTAAG
52560772 GGTT
1 GGTT
52560776 AGGATTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.47
Consensus pattern (15 bp):
GGTTTTTAAGTTAAG
Found at i:52560900 original size:27 final size:26
Alignment explanation
Indices: 52560870--52560939 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 26
52560860 TTTAGGGTTT
52560870 TTAAG-TTAAGGGTTTAAGGTTTTTAAG
1 TTAAGTTTAA-GG-TTAAGGTTTTTAAG
*
52560897 TTAAGGTTTAAGGTTAGGGTTTTTAAG
1 TTAA-GTTTAAGGTTAAGGTTTTTAAG
52560924 TTAAGGGTTTAAGGTT
1 TTAA--GTTTAAGGTT
52560940 TGTTAATTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
27 21 0.54
28 14 0.36
29 4 0.10
ACGTcount: A:0.27, C:0.00, G:0.29, T:0.44
Consensus pattern (26 bp):
TTAAGTTTAAGGTTAAGGTTTTTAAG
Found at i:52560902 original size:14 final size:14
Alignment explanation
Indices: 52560883--52560929 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
52560873 AGTTAAGGGT
52560883 TTAAGGTTTTTAAG
1 TTAAGGTTTTTAAG
52560897 TTAAGG--TTTAAGG
1 TTAAGGTTTTTAA-G
*
52560910 TTAGGGTTTTTAAG
1 TTAAGGTTTTTAAG
52560924 TTAAGG
1 TTAAGG
52560930 GTTTAAGGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
12 5 0.18
13 6 0.21
14 12 0.43
15 5 0.18
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.45
Consensus pattern (14 bp):
TTAAGGTTTTTAAG
Found at i:52560923 original size:15 final size:14
Alignment explanation
Indices: 52560887--52560933 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
52560877 AAGGGTTTAA
*
52560887 GGTTTTTAAGTTAA
1 GGTTTTTAAGTTAG
52560901 GG--TTTAAGGTTAG
1 GGTTTTTAA-GTTAG
52560914 GGTTTTTAAGTTAAG
1 GGTTTTTAAGTT-AG
52560929 GGTTT
1 GGTTT
52560934 AAGGTTTGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
12 5 0.18
13 6 0.21
14 5 0.18
15 12 0.43
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (14 bp):
GGTTTTTAAGTTAG
Found at i:52560932 original size:28 final size:27
Alignment explanation
Indices: 52560887--52560939 Score: 97
Period size: 27 Copynumber: 1.9 Consensus size: 27
52560877 AAGGGTTTAA
52560887 GGTTTTTAAGTTAAGGTTTAAGGTTAG
1 GGTTTTTAAGTTAAGGTTTAAGGTTAG
52560914 GGTTTTTAAGTTAAGGGTTTAAGGTT
1 GGTTTTTAAGTTAA-GGTTTAAGGTT
52560940 TGTTAATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 14 0.56
28 11 0.44
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.45
Consensus pattern (27 bp):
GGTTTTTAAGTTAAGGTTTAAGGTTAG
Found at i:52560949 original size:27 final size:25
Alignment explanation
Indices: 52560821--52560943 Score: 95
Period size: 22 Copynumber: 5.2 Consensus size: 25
52560811 TAAGGGTTAG
* *
52560821 TGTTTTAAATTTAAGGGTTT-AGG-G
1 TGTTTT-AAGTTAAGGGTTTAAGGTT
* *
52560845 T-TTTTAAGTTAAGAGTTT-AGG-G
1 TGTTTTAAGTTAAGGGTTTAAGGTT
52560867 T-TTTTAAGTTAAGGGTTTAAGG--
1 TGTTTTAAGTTAAGGGTTTAAGGTT
52560889 T-TTTTAAGTTAA-GGTTTAAGGTT
1 TGTTTTAAGTTAAGGGTTTAAGGTT
*
52560912 AGGGTTTTTAAGTTAAGGGTTTAAGGTT
1 --TG-TTTTAAGTTAAGGGTTTAAGGTT
52560940 TGTT
1 TGTT
52560944 AATTAAATTA
Statistics
Matches: 86, Mismatches: 5, Indels: 15
0.81 0.05 0.14
Matches are distributed among these distances:
21 9 0.10
22 44 0.51
23 7 0.08
24 1 0.01
25 2 0.02
26 1 0.01
27 11 0.13
28 11 0.13
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (25 bp):
TGTTTTAAGTTAAGGGTTTAAGGTT
Found at i:52560983 original size:8 final size:8
Alignment explanation
Indices: 52560963--52560991 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
52560953 ATGCATTTAA
52560963 TTATAAA-
1 TTATAAAT
52560970 TTATAAAT
1 TTATAAAT
52560978 TTATAAAT
1 TTATAAAT
52560986 TTATAA
1 TTATAA
52560992 TAAATTAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
TTATAAAT
Found at i:52562394 original size:20 final size:20
Alignment explanation
Indices: 52562357--52562394 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
52562347 TTATTTTTTA
*
52562357 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
52562377 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
52562395 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:52562705 original size:31 final size:31
Alignment explanation
Indices: 52562663--52562729 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
52562653 TAACCTCCAA
* *
52562663 TTAACTGAAGAATGTATGCTCAACTTGTCAG
1 TTAACTAAAGAATGTATGCCCAACTTGTCAG
*
52562694 TTAACTAAAGAATGTATGCCCGACTTGTCAG
1 TTAACTAAAGAATGTATGCCCAACTTGTCAG
*
52562725 ATAAC
1 TTAAC
52562730 CTCCATGACA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (31 bp):
TTAACTAAAGAATGTATGCCCAACTTGTCAG
Found at i:52562998 original size:19 final size:19
Alignment explanation
Indices: 52562974--52563011 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
52562964 GGAGGTTGCT
52562974 TGTCACTATTGCAGTCATG
1 TGTCACTATTGCAGTCATG
52562993 TGTCACTATTGCAGTCATG
1 TGTCACTATTGCAGTCATG
52563012 GGCACGATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (19 bp):
TGTCACTATTGCAGTCATG
Found at i:52563302 original size:7 final size:7
Alignment explanation
Indices: 52563290--52563322 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
52563280 TAGTCGATTG
52563290 GTATTTA
1 GTATTTA
52563297 GTATTTA
1 GTATTTA
52563304 GTATTTA
1 GTATTTA
52563311 GTATTTA
1 GTATTTA
52563318 GTATT
1 GTATT
52563323 ATGTATATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:52564529 original size:7 final size:8
Alignment explanation
Indices: 52564500--52564528 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
52564490 AACTAATTTA
52564500 TTATAAAT
1 TTATAAAT
52564508 TTATAAAT
1 TTATAAAT
52564516 TTAT-AAT
1 TTATAAAT
52564523 TTATAA
1 TTATAA
52564529 TACATGGCCT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
TTATAAAT
Found at i:52567241 original size:126 final size:123
Alignment explanation
Indices: 52566978--52567372 Score: 476
Period size: 126 Copynumber: 3.3 Consensus size: 123
52566968 CCCAAACATG
* * * *
52566978 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAAATTCTTATAAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAA-AGCATCCTAC
* * * *
52567043 TAGAAGCGATTTTATACTTTTTGCTCAGAAACATCAACTCAAAATTATTTCTTCCAGGAC
65 T-TAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
*
52567103 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCATAAATTCTTCTCATAAAGCATCCTAC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCA-AAAGCATCCTAC
* *
52567168 TTCAAGCGTTTTTCATACTATTTGCTTAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
65 TT-AAGCGATTTT-ATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
* * *
52567229 CTATTGTAGCAAAAGTGCATCCACGAGGGCGCGATTTCACAAATTCTTAC-C---A--A----A-
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTT-CTCAAAAGCATCCTAC
*
52567283 -T-AGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTTCAGGAC
65 TTAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
* * *
52567339 CTACTGTAGTAAAAGCGCGTACACGTGGGCGCGA
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGA
52567373 CTTATTTGTT
Statistics
Matches: 242, Mismatches: 24, Indels: 23
0.84 0.08 0.08
Matches are distributed among these distances:
110 36 0.15
111 36 0.15
112 8 0.03
114 1 0.00
116 1 0.00
120 1 0.00
122 1 0.00
125 67 0.28
126 90 0.37
127 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.29
Consensus pattern (123 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAAAGCATCCTACT
TAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
Found at i:52570281 original size:3 final size:3
Alignment explanation
Indices: 52570266--52570300 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
52570256 GAAATGAGTA
*
52570266 AAT AAT AAC AAT AAT AAT AATT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT A
52570301 GTATTAGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:52571900 original size:61 final size:61
Alignment explanation
Indices: 52571828--52571952 Score: 241
Period size: 61 Copynumber: 2.0 Consensus size: 61
52571818 AAATTTTCTC
52571828 TGTTCTTTTGGTTAGGTATTCTAACTGAGATTTTATAAATTCTTGGTTATTTATTATTTTT
1 TGTTCTTTTGGTTAGGTATTCTAACTGAGATTTTATAAATTCTTGGTTATTTATTATTTTT
*
52571889 TGTTCTTTTGGTTAGGTATTCTAATTGAGATTTTATAAATTCTTGGTTATTTATTATTTTT
1 TGTTCTTTTGGTTAGGTATTCTAACTGAGATTTTATAAATTCTTGGTTATTTATTATTTTT
52571950 TGT
1 TGT
52571953 AACAAGTTTA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.21, C:0.06, G:0.15, T:0.58
Consensus pattern (61 bp):
TGTTCTTTTGGTTAGGTATTCTAACTGAGATTTTATAAATTCTTGGTTATTTATTATTTTT
Found at i:52572506 original size:17 final size:17
Alignment explanation
Indices: 52572486--52572640 Score: 114
Period size: 17 Copynumber: 8.7 Consensus size: 17
52572476 AACGCGAGAA
52572486 TTTTGAAACAC-AATAATT
1 TTTTGAAACACGAA-AA-T
*
52572504 TTTTGAGAACACGGAAAT
1 TTTTGA-AACACGAAAAT
* *
52572522 TTTTGAAATACGAGAAT
1 TTTTGAAACACGAAAAT
* *
52572539 TTTAGAAACACAAAAAT
1 TTTTGAAACACGAAAAT
* *
52572556 TTCTAAAACACGAAAAT
1 TTTTGAAACACGAAAAT
* **
52572573 TTTTAAAAACACGAGATTTT
1 TTTT-GAAACACGA-A-AAT
**
52572593 TTTTGAAACACGGAATTT
1 TTTTGAAACAC-GAAAAT
*
52572611 TTTTGAAAACACGGAAAT
1 TTTTG-AAACACGAAAAT
52572629 TTTTGAAACACG
1 TTTTGAAACACG
52572641 GAGTTTTTTT
Statistics
Matches: 111, Mismatches: 19, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
17 44 0.40
18 38 0.34
19 21 0.19
20 8 0.07
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.32
Consensus pattern (17 bp):
TTTTGAAACACGAAAAT
Found at i:52572587 original size:52 final size:52
Alignment explanation
Indices: 52572469--52572593 Score: 137
Period size: 52 Copynumber: 2.4 Consensus size: 52
52572459 GGAATTTTTG
* * * * * *
52572469 TTTTGAAAACGCGAGAATTTTGAAACACAATAATTTTTTGAGAACACGGAAA
1 TTTTTAAAACACGAGAATTTTGAAACACAATAAATTTCTGAAAACACGAAAA
* *
52572521 TTTTTGAAATACGAGAATTTTAGAAACACAA-AAATTTCT-AAAACACGAAAA
1 TTTTTAAAACACGAGAATTTT-GAAACACAATAAATTTCTGAAAACACGAAAA
*
52572572 TTTTTAAAAACACGAGATTTTT
1 TTTTT-AAAACACGAGAATTTT
52572594 TTTGAAACAC
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
51 15 0.25
52 36 0.60
53 9 0.15
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.31
Consensus pattern (52 bp):
TTTTTAAAACACGAGAATTTTGAAACACAATAAATTTCTGAAAACACGAAAA
Found at i:52572641 original size:17 final size:17
Alignment explanation
Indices: 52572469--52572642 Score: 113
Period size: 17 Copynumber: 9.8 Consensus size: 17
52572459 GGAATTTTTG
52572469 TTTTGAAA-ACGCGAGAA-
1 TTTTGAAACACG-GA-AAT
*
52572486 TTTTGAAACAC-AATAATT
1 TTTTGAAACACGGA-AA-T
52572504 TTTTGAGAACACGGAAAT
1 TTTTGA-AACACGGAAAT
*
52572522 TTTTGAAATAC-GAGAAT
1 TTTTGAAACACGGA-AAT
* **
52572539 TTTAGAAACACAAAAAT
1 TTTTGAAACACGGAAAT
* * *
52572556 TTCTAAAACACGAAAAT
1 TTTTGAAACACGGAAAT
* **
52572573 TTTTAAAAACACGAGATTTT
1 TTTT-GAAACACG-GA-AAT
*
52572593 TTTTGAAACACGGAATTT
1 TTTTGAAACACGGAA-AT
52572611 TTTTGAAAACACGGAAAT
1 TTTTG-AAACACGGAAAT
52572629 TTTTGAAACACGGA
1 TTTTGAAACACGGA
52572643 GTTTTTTTTA
Statistics
Matches: 127, Mismatches: 18, Indels: 24
0.75 0.11 0.14
Matches are distributed among these distances:
16 5 0.04
17 52 0.41
18 39 0.31
19 25 0.20
20 6 0.05
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.31
Consensus pattern (17 bp):
TTTTGAAACACGGAAAT
Found at i:52572648 original size:17 final size:17
Alignment explanation
Indices: 52572486--52572649 Score: 105
Period size: 18 Copynumber: 9.2 Consensus size: 17
52572476 AACGCGAGAA
**
52572486 TTTTGAAACACAATAATT
1 TTTTGAAACAC-GGAATT
*
52572504 TTTTGAGAACACGGAAAT
1 TTTTGA-AACACGGAATT
*
52572522 TTTTGAAATACGAGAA-T
1 TTTTGAAACACG-GAATT
* ** *
52572539 TTTAGAAACACAAAAAT
1 TTTTGAAACACGGAATT
* * *
52572556 TTCTAAAACACGAAAATT
1 TTTTGAAACACG-GAATT
** *
52572574 TTTAAAAACACGAGATTTT
1 TTTTGAAACACG-GA-ATT
52572593 TTTTGAAACACGGAATTT
1 TTTTGAAACACGGAA-TT
*
52572611 TTTTGAAAACACGGAAAT
1 TTTTG-AAACACGGAATT
*
52572629 TTTTGAAACACGGAGTT
1 TTTTGAAACACGGAATT
52572646 TTTT
1 TTTT
52572650 TTAAAAAACA
Statistics
Matches: 116, Mismatches: 23, Indels: 15
0.75 0.15 0.10
Matches are distributed among these distances:
16 2 0.02
17 38 0.33
18 49 0.42
19 27 0.23
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.34
Consensus pattern (17 bp):
TTTTGAAACACGGAATT
Found at i:52572650 original size:19 final size:18
Alignment explanation
Indices: 52572579--52572651 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 18
52572569 AAATTTTTAA
52572579 AAACACGAGATTTTTTTTG
1 AAACACG-GATTTTTTTTG
*
52572598 AAACACGGAATTTTTTTG
1 AAACACGGATTTTTTTTG
**
52572616 AAAACACGGA-AATTTTTG
1 -AAACACGGATTTTTTTTG
52572634 AAACACGGAGTTTTTTTT
1 AAACACGGA-TTTTTTTT
52572652 AAAAAACAAG
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
17 9 0.20
18 16 0.35
19 21 0.46
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.38
Consensus pattern (18 bp):
AAACACGGATTTTTTTTG
Found at i:52572718 original size:17 final size:17
Alignment explanation
Indices: 52572696--52572742 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
52572686 TATTATTATA
52572696 TTTGAAACACGAGAAA-T
1 TTTGAAACACGA-AAATT
*
52572713 TTTGAAAACATGAAAATT
1 TTTG-AAACACGAAAATT
52572731 TTTGAAACACGA
1 TTTGAAACACGA
52572743 TTTTTTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 14 0.54
18 12 0.46
ACGTcount: A:0.47, C:0.11, G:0.15, T:0.28
Consensus pattern (17 bp):
TTTGAAACACGAAAATT
Found at i:52573210 original size:5 final size:5
Alignment explanation
Indices: 52573200--52573251 Score: 52
Period size: 5 Copynumber: 10.4 Consensus size: 5
52573190 TAATTCGGGC
* * * *
52573200 CTTTT CTTTT CTTTT TTTCTT TTTTT CTTTT CTTCT -TTTT CTCTT CTTTT
1 CTTTT CTTTT CTTTT CTT-TT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT
52573250 CT
1 CT
52573252 GCAGATTGGG
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
4 3 0.08
5 31 0.79
6 5 0.13
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (5 bp):
CTTTT
Found at i:52573219 original size:8 final size:8
Alignment explanation
Indices: 52573206--52573251 Score: 65
Period size: 8 Copynumber: 5.8 Consensus size: 8
52573196 GGGCCTTTTC
52573206 TTTTCTTT
1 TTTTCTTT
52573214 TTTTCTTT
1 TTTTCTTT
52573222 TTTTCTTT
1 TTTTCTTT
*
52573230 TCTTCTTT
1 TTTTCTTT
* *
52573238 TTCTCTTC
1 TTTTCTTT
52573246 TTTTCT
1 TTTTCT
52573252 GCAGATTGGG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 33 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTCTTT
Found at i:52573246 original size:14 final size:13
Alignment explanation
Indices: 52573203--52573249 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
52573193 TTCGGGCCTT
*
52573203 TTCTTTTCTTT-TT
1 TTCTTTT-TTTCTC
*
52573216 TTCTTTTTTTCTT
1 TTCTTTTTTTCTC
52573229 TTCTTCTTTTTCTC
1 TTCTT-TTTTTCTC
52573243 TTCTTTT
1 TTCTTTT
52573250 CTGCAGATTG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
12 3 0.10
13 16 0.52
14 12 0.39
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (13 bp):
TTCTTTTTTTCTC
Found at i:52573544 original size:7 final size:7
Alignment explanation
Indices: 52573534--52573604 Score: 72
Period size: 7 Copynumber: 9.9 Consensus size: 7
52573524 ATTTTTAATT
52573534 TTTTTTC
1 TTTTTTC
52573541 TTTTTTTC
1 -TTTTTTC
*
52573549 TTTTCTC
1 TTTTTTC
*
52573556 TTTTCTC
1 TTTTTTC
52573563 TTTTTTC
1 TTTTTTC
*
52573570 TTTGTTC
1 TTTTTTC
*
52573577 TTTCTAT-
1 TTT-TTTC
52573584 TTTTTTC
1 TTTTTTC
52573591 TTTTTTC
1 TTTTTTC
52573598 TTCTTTT
1 TT-TTTT
52573605 TCCTCCTCCT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
6 2 0.04
7 40 0.74
8 12 0.22
ACGTcount: A:0.01, C:0.17, G:0.01, T:0.80
Consensus pattern (7 bp):
TTTTTTC
Found at i:52573566 original size:21 final size:19
Alignment explanation
Indices: 52573532--52573605 Score: 80
Period size: 21 Copynumber: 3.8 Consensus size: 19
52573522 TTATTTTTAA
52573532 TTTT-TTTTCTTTTTTTCT
1 TTTTCTTTTCTTTTTTTCT
52573550 TTTCTCTTTTCTCTTTTTTCT
1 TTT-TCTTTTCT-TTTTTTCT
*
52573571 TTGTTCTTTCTATTTTTTTCT
1 TT-TTCTTT-TCTTTTTTTCT
*
52573592 TTTT-TCTTCTTTTT
1 TTTTCTTTTCTTTTT
52573606 CCTCCTCCTC
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
18 9 0.19
19 3 0.06
20 8 0.17
21 25 0.52
22 3 0.06
ACGTcount: A:0.01, C:0.16, G:0.01, T:0.81
Consensus pattern (19 bp):
TTTTCTTTTCTTTTTTTCT
Found at i:52573577 original size:28 final size:28
Alignment explanation
Indices: 52573534--52573599 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 28
52573524 ATTTTTAATT
*
52573534 TTTTTTCTTTTTTTCTTTTCT-CTTTTCTC
1 TTTTTTC-TTTGTTC-TTTCTACTTTTCTC
* *
52573563 TTTTTTCTTTGTTCTTTCTATTTTTTTC
1 TTTTTTCTTTGTTCTTTCTACTTTTCTC
52573591 TTTTTTCTT
1 TTTTTTCTT
52573600 CTTTTTCCTC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
27 5 0.15
28 21 0.64
29 7 0.21
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.80
Consensus pattern (28 bp):
TTTTTTCTTTGTTCTTTCTACTTTTCTC
Found at i:52573728 original size:11 final size:11
Alignment explanation
Indices: 52573712--52573787 Score: 52
Period size: 11 Copynumber: 7.0 Consensus size: 11
52573702 TCCTCTTTTC
52573712 CTTTTTCTTCT
1 CTTTTTCTTCT
52573723 C-TTTT-TTCT
1 CTTTTTCTTCT
*
52573732 CTTTTCCTTCT
1 CTTTTTCTTCT
* *
52573743 CTCCTTTTTTTTT
1 CT--TTTTCTTCT
52573756 CTTTTT-TTCAT
1 CTTTTTCTTC-T
*
52573767 -TTTTTCCTCT
1 CTTTTTCTTCT
*
52573777 CTTTCTCTTCT
1 CTTTTTCTTCT
52573788 ATTTCGACGA
Statistics
Matches: 50, Mismatches: 8, Indels: 14
0.69 0.11 0.19
Matches are distributed among these distances:
9 5 0.10
10 15 0.30
11 22 0.44
13 8 0.16
ACGTcount: A:0.01, C:0.28, G:0.00, T:0.71
Consensus pattern (11 bp):
CTTTTTCTTCT
Found at i:52573738 original size:34 final size:36
Alignment explanation
Indices: 52573700--52573781 Score: 100
Period size: 34 Copynumber: 2.4 Consensus size: 36
52573690 TTCTCTCCTC
52573700 TTTCCTCT-TTTCCTTTTTCTTCTC-TTTTTTC-TCT
1 TTTCCTCTCTTTCCTTTTT-TTCTCTTTTTTTCATCT
* * *
52573734 TTTCCT-TCTCTCCTTTTTTTTTCTTTTTTTCATTT
1 TTTCCTCTCTTTCCTTTTTTTCTCTTTTTTTCATCT
52573769 TTTCCTCTCTTTC
1 TTTCCTCTCTTTC
52573782 TCTTCTATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
33 5 0.12
34 22 0.55
35 8 0.20
36 5 0.12
ACGTcount: A:0.01, C:0.28, G:0.00, T:0.71
Consensus pattern (36 bp):
TTTCCTCTCTTTCCTTTTTTTCTCTTTTTTTCATCT
Found at i:52573741 original size:20 final size:19
Alignment explanation
Indices: 52573707--52573744 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
52573697 CTCTTTCCTC
*
52573707 TTTTCCTTTTTCTTCTCTT
1 TTTTCCTTTTCCTTCTCTT
52573726 TTTTCTCTTTTCCTTCTCT
1 TTTTC-CTTTTCCTTCTCT
52573745 CCTTTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTTCCTTTTCCTTCTCTT
Found at i:52573758 original size:24 final size:26
Alignment explanation
Indices: 52573690--52573760 Score: 78
Period size: 24 Copynumber: 2.9 Consensus size: 26
52573680 GGTTAGTCTC
*
52573690 TTCTCTCCTC--TTTCCTCTTTTCCT
1 TTCTCTCCTCTTTTTTCTCTTTTCCT
* *
52573714 TTTTCTTCTCTTTTTTCTCTTTTCC-
1 TTCTCTCCTCTTTTTTCTCTTTTCCT
*
52573739 TTCTCTCCT-TTTTTTTTCTTTT
1 TTCTCTCCTCTTTTTTCTCTTTT
52573761 TTTCATTTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
24 20 0.51
25 7 0.18
26 12 0.31
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (26 bp):
TTCTCTCCTCTTTTTTCTCTTTTCCT
Found at i:52573787 original size:45 final size:49
Alignment explanation
Indices: 52573686--52573787 Score: 119
Period size: 43 Copynumber: 2.2 Consensus size: 49
52573676 CGATGGTTAG
*
52573686 TCTCTTCTCTCCTCTTTCCTCTTTTCCTTTTTCTTCTCTTTTTTCTCTTT
1 TCTCTTCTCTCCTCTTT-CTCTTTTCCTTTTTCTTCTCTTTTTCCTCTTT
52573736 TC-CTTCTCTCCT-TTT-T-TTTT-CTTTTT-TTCAT-TTTTTCCTCTCTT
1 TCTCTTCTCTCCTCTTTCTCTTTTCCTTTTTCTTC-TCTTTTTCCTCT-TT
52573780 TCTCTTCT
1 TCTCTTCT
52573788 ATTTCGACGA
Statistics
Matches: 48, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
43 12 0.25
44 11 0.23
45 9 0.19
46 1 0.02
48 3 0.06
49 10 0.21
50 2 0.04
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (49 bp):
TCTCTTCTCTCCTCTTTCTCTTTTCCTTTTTCTTCTCTTTTTCCTCTTT
Found at i:52574346 original size:30 final size:30
Alignment explanation
Indices: 52574307--52574393 Score: 93
Period size: 30 Copynumber: 2.9 Consensus size: 30
52574297 TAATTACTTG
* *
52574307 AAAGTTTAGGGGCCCAAATGTAATTTTACAA
1 AAAG-TTAGGGGTCAAAATGTAATTTTACAA
* * * *
52574338 AATGTTAGGGGTCAAAATTTAACTTTAGAA
1 AAAGTTAGGGGTCAAAATGTAATTTTACAA
* *
52574368 AAAGTTAAGGATCAAAATGTAATTTT
1 AAAGTTAGGGGTCAAAATGTAATTTT
52574394 TGAAAAGTTT
Statistics
Matches: 45, Mismatches: 11, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
30 42 0.93
31 3 0.07
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.32
Consensus pattern (30 bp):
AAAGTTAGGGGTCAAAATGTAATTTTACAA
Found at i:52574399 original size:30 final size:29
Alignment explanation
Indices: 52574322--52574422 Score: 96
Period size: 30 Copynumber: 3.4 Consensus size: 29
52574312 TTAGGGGCCC
* * *
52574322 AAATGTAATTTTACAAAATGTTAGGGGTCA
1 AAATGTAATTTTAGAAAAAGTTA-AGGTCA
* *
52574352 AAATTTAACTTTAGAAAAAGTTAAGGATCA
1 AAATGTAATTTTAGAAAAAGTTAAGG-TCA
* *
52574382 AAATGTAATTTTTG-AAAAGTTTAAGGGCTA
1 AAATGTAATTTTAGAAAAAG-TTAAGGTC-A
52574412 AAATGTAATTT
1 AAATGTAATTT
52574423 ATATTTTTTT
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
29 8 0.14
30 51 0.86
ACGTcount: A:0.44, C:0.05, G:0.17, T:0.35
Consensus pattern (29 bp):
AAATGTAATTTTAGAAAAAGTTAAGGTCA
Found at i:52574446 original size:16 final size:17
Alignment explanation
Indices: 52574415--52574449 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
52574405 AGGGCTAAAA
52574415 TGTAATTTATATTTTTT
1 TGTAATTTATATTTTTT
*
52574432 TGTATTTTATATTTTTT
1 TGTAATTTATATTTTTT
52574449 T
1 T
52574450 CAGAATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.74
Consensus pattern (17 bp):
TGTAATTTATATTTTTT
Found at i:52574823 original size:70 final size:69
Alignment explanation
Indices: 52574743--52575051 Score: 240
Period size: 79 Copynumber: 4.2 Consensus size: 69
52574733 CGACCCGAAA
* * *
52574743 CTCAATTCACCTCTCGCCATGAGTCGATTGAAAATGAAAATTGAAAAATACCTTAGTTTGTGACC
1 CTCAACTCACCTCTCGCCATGAGTCGATTGAAAATGAAAATTGAAAAATACCTCAGTATGTGACC
52574808 TAAGG
66 -AAGG
* * *
52574813 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAATAAAAATTGAAAAATACCTCAG
1 CTCAACTCACCTCTCGC--CATGAGTCGA------TTG-AAAATGAAAATTGAAAAATACCTCAG
*
52574878 TATGCGACCAGAGG
57 TATGTGACCA-AGG
* * * * **
52574892 CTTAACTCACCTCTCACCATAAGTCGATTGAAAACGAAAATTGAAAAATACCTCAGCGTGTGACC
1 CTCAACTCACCTCTCGCCATGAGTCGATTGAAAATGAAAATTGAAAAATACCTCAGTATGTGA-C
*
52574957 CGAGG
65 CAAGG
* ** * *
52574962 CTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTTGAAAAATAAAAATTGAAAAATACCTCGG
1 CTCAACTCACCTCTCGC--CATGAGTCGA------TTG-AAAATGAAAATTGAAAAATACCTCAG
*
52575027 TATGTGACTCGAGG
57 TATGTGAC-CAAGG
52575041 CTCAACTCACC
1 CTCAACTCACC
52575052 ACTTGCAATA
Statistics
Matches: 189, Mismatches: 29, Indels: 33
0.75 0.12 0.13
Matches are distributed among these distances:
70 62 0.33
71 5 0.03
72 14 0.07
77 7 0.04
78 8 0.04
79 93 0.49
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.28
Consensus pattern (69 bp):
CTCAACTCACCTCTCGCCATGAGTCGATTGAAAATGAAAATTGAAAAATACCTCAGTATGTGACC
AAGG
Found at i:52574862 original size:79 final size:77
Alignment explanation
Indices: 52574779--52575234 Score: 505
Period size: 79 Copynumber: 5.9 Consensus size: 77
52574769 ATTGAAAATG
* ** **
52574779 AAAATTGAAAAATACCTTAGTTTGTGACCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
1 AAAATTGAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--
*
52574844 TTTTTTGAAAAATA
64 TTTTTTGAAAAACA
* * * * * * *
52574858 AAAATTGAAAAATACCTCAGTATGCGACCAGAGGCTTAACTCACCTCTCACCATA--AGTCGA--
1 AAAATTGAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
*
52574919 --TTG-AAAACG
66 TTTTGAAAAACA
* *
52574928 AAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATT
1 AAAATTGAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--
*
52574993 TTTTTTGAAAAATA
64 TTTTTTGAAAAACA
* * * * *
52575007 AAAATTGAAAAATACCTCGGTATGTGACTCGAGGCTCAACTCACCACTTGCAATATGAGTTGATT
1 AAAATTGAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
* *
52575072 TCTTGAAAAGCA
66 TTTTGAAAAACA
* *
52575084 AAAATTTAAAAGAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAA-TT-GAA-AAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
52575149 A-TTTTTGAAAAGCA
63 ATTTTTTGAAAAACA
* *
52575163 AAAATTTAAAAGAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAA-TT-GAA-AAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
52575228 ATTTTTT
63 ATTTTTT
52575235 TTTTGAAAAA
Statistics
Matches: 326, Mismatches: 38, Indels: 25
0.84 0.10 0.06
Matches are distributed among these distances:
70 52 0.16
71 3 0.01
72 4 0.01
77 20 0.06
78 5 0.02
79 187 0.57
80 55 0.17
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (77 bp):
AAAATTGAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
TTTTGAAAAACA
Found at i:52574870 original size:149 final size:149
Alignment explanation
Indices: 52574717--52575154 Score: 443
Period size: 149 Copynumber: 2.9 Consensus size: 149
52574707 ATAGAGATTT
* * * * * *
52574717 AAAATAACTCGACG-CGCGACCCGAAACTCAATTCACCTCTCGCCATGAGTCGATTGAAAATGAA
1 AAAATACCTCGA-GACGCGACCAGAAACTCAACTCACCTCTCACCATAAGTCGATTGAAAACGAA
* ** * *
52574781 AATTGAAAAATACCTTAGTTTGTGACCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
65 AATTGAAAAATACCTCAGCGTGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTT
52574846 TTTTGAAAAATAAAAATTGA
130 TTTTGAAAAATAAAAATTGA
* ** *
52574866 AAAATACCTC-AGTATGCGACCAGAGGCTTAACTCACCTCTCACCATAAGTCGATTGAAAACGAA
1 AAAATACCTCGAG-ACGCGACCAGAAACTCAACTCACCTCTCACCATAAGTCGATTGAAAACGAA
*
52574930 AATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTT
65 AATTGAAAAATACCTCAGCGTGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTT
52574995 TTTTGAAAAATAAAAATTGA
130 TTTTGAAAAATAAAAATTGA
* * ** * ** * *
52575015 AAAATACCTCG-GTATGTGACTC-GAGGCTCAACTCACCACTTGCAATATGAGTTGATTTCTTGA
1 AAAATACCTCGAG-ACGCGAC-CAGAAACTCAACTCACCTC-T-CACCATAAGTCGA----TTGA
* * * * *
52575078 AAAGCAAAAATTTAAAAGAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
58 AAA-CGAAAA-TT-GAA-AAATACCTCAGCGTGTGACCCAAGGCTCAACTCACCTCTCGCAATAT
*
52575143 GAGTTGATTTTT
119 GAGTTAATTTTT
52575155 GAAAAGCAAA
Statistics
Matches: 247, Mismatches: 28, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
147 1 0.00
148 1 0.00
149 162 0.66
150 2 0.01
151 9 0.04
155 7 0.03
156 5 0.02
157 2 0.01
158 2 0.01
159 56 0.23
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (149 bp):
AAAATACCTCGAGACGCGACCAGAAACTCAACTCACCTCTCACCATAAGTCGATTGAAAACGAAA
ATTGAAAAATACCTCAGCGTGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTT
TTTGAAAAATAAAAATTGA
Found at i:52575136 original size:159 final size:153
Alignment explanation
Indices: 52574770--52575233 Score: 539
Period size: 149 Copynumber: 3.0 Consensus size: 153
52574760 CATGAGTCGA
** * * ** **
52574770 TTGAAAATGAAAATTGAAAAATACCTTAGTTTGTGACCTAAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAACAAAAATTAAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
* * *
52574835 GAGTTGATTTTTTTTGAAAAATAAAAATTGAAAAATACCTCAGTATGCGACCAGAGGCTTAACTC
66 GAGTTGATTTTTTTTGAAAAATAAAAATTGAAAAATACCTCGGTATGTGACC-GAGGCTCAACTC
** * *
52574900 ACCTC-T-CACCATAAGTCGA---
130 ACCTCTTGCAATATGAGTTGATTT
* * *
52574919 TTGAAAACGAAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAACAAAAATTAAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
*
52574984 GAGTTAATTTTTTTTGAAAAATAAAAATTGAAAAATACCTCGGTATGTGACTCGAGGCTCAACTC
66 GAGTTGATTTTTTTTGAAAAATAAAAATTGAAAAATACCTCGGTATGTGAC-CGAGGCTCAACTC
*
52575049 ACCACTTGCAATATGAGTTGATTT
130 ACCTCTTGCAATATGAGTTGATTT
*
52575073 CTTGAAAAGCAAAAATTTAAAAGAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGC
1 -TTGAAAA-CAAAAA-TT-AAA-AAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGC
** * *
52575138 AATATGAGTTGA---TTTTTGAAAAGCAAAAATTTAAAAGAAATACCTCGGCATGTGACCCGAGG
61 AATATGAGTTGATTTTTTTTGAAAAATAAAAA-TT-GAA-AAATACCTCGGTATGTGA-CCGAGG
*
52575200 CTCAACTCACCTCTCGCAATATGAGTTGATTT
122 CTCAACTCACCTCTTGCAATATGAGTTGATTT
52575232 TT
1 TT
52575234 TTTTTGAAAA
Statistics
Matches: 274, Mismatches: 26, Indels: 21
0.85 0.08 0.07
Matches are distributed among these distances:
149 122 0.45
150 2 0.01
151 9 0.03
155 7 0.03
156 20 0.07
157 4 0.01
158 6 0.02
159 103 0.38
160 1 0.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (153 bp):
TTGAAAACAAAAATTAAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTTTTTTTGAAAAATAAAAATTGAAAAATACCTCGGTATGTGACCGAGGCTCAACTCA
CCTCTTGCAATATGAGTTGATTT
Found at i:52575246 original size:159 final size:156
Alignment explanation
Indices: 52574801--52575231 Score: 486
Period size: 159 Copynumber: 2.8 Consensus size: 156
52574791 TACCTTAGTT
** * * *
52574801 TGTGACCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAATAAAAATTGA
1 TGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTT-A-ATTTTTTGAAAAACAAAAATTAA
* * * * * * * * *
52574866 AAAATACCTCAGTATGCGACCAGAGGCTTAACTCACCTCTCACCATA--AGTCGA----TTGAAA
64 AAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCACTCGCAATATGAGTTGATTTCTTGAAA
* * *
52574925 ACGAAAA-TT-GAA-AAATACCTCAGCG
129 ACAAAAATTTAAAAGAAATACCTCAGCA
* *
52574950 TGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTTGAAAAATAAAAATTGA
1 TGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAA--TTTTTTGAAAAACAAAAATTAA
* * *
52575015 AAAATACCTCGGTATGTGACTCGAGGCTCAACTCACCACTTGCAATATGAGTTGATTTCTTGAAA
64 AAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCACTCGCAATATGAGTTGATTTCTTGAAA
*
52575080 AGCAAAAATTTAAAAGAAATACCTCGGCA
129 A-CAAAAATTTAAAAGAAATACCTCAGCA
* *
52575109 TGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAGCAAAAATTTAAA
1 TGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTGAAAAACAAAAA-TT-AA
*
52575173 AGAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
64 A-AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCACTCGCAATATGAGTTGATTT
52575232 TTTTTTTGAA
Statistics
Matches: 242, Mismatches: 25, Indels: 20
0.84 0.09 0.07
Matches are distributed among these distances:
148 1 0.00
149 97 0.40
151 5 0.02
155 7 0.03
156 20 0.08
157 4 0.02
158 4 0.02
159 104 0.43
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (156 bp):
TGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTGAAAAACAAAAATTAAAA
AATACCTCGGCATGTGACCCGAGGCTCAACTCACCACTCGCAATATGAGTTGATTTCTTGAAAAC
AAAAATTTAAAAGAAATACCTCAGCA
Found at i:52576157 original size:6 final size:6
Alignment explanation
Indices: 52576148--52576189 Score: 59
Period size: 6 Copynumber: 6.8 Consensus size: 6
52576138 ATTATTATTT
52576148 TTTTTG TTTTT- TTTTGCTG TTTTTG TTTTTG TTTTTG TTTTT
1 TTTTTG TTTTTG TTTT--TG TTTTTG TTTTTG TTTTTG TTTTT
52576190 TTAGGCATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 4 0.12
6 24 0.73
7 1 0.03
8 4 0.12
ACGTcount: A:0.00, C:0.02, G:0.14, T:0.83
Consensus pattern (6 bp):
TTTTTG
Found at i:52576162 original size:12 final size:12
Alignment explanation
Indices: 52576145--52576190 Score: 56
Period size: 13 Copynumber: 3.7 Consensus size: 12
52576135 GCTATTATTA
52576145 TTTTTTTTGTTT
1 TTTTTTTTGTTT
*
52576157 TTTTTTGCTGTTT
1 TTTTTT-TTGTTT
*
52576170 TTGTTTTTGTTT
1 TTTTTTTTGTTT
52576182 TTGTTTTTT
1 TT-TTTTTT
52576191 TAGGCATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
12 13 0.46
13 15 0.54
ACGTcount: A:0.00, C:0.02, G:0.13, T:0.85
Consensus pattern (12 bp):
TTTTTTTTGTTT
Found at i:52576176 original size:28 final size:28
Alignment explanation
Indices: 52576118--52576191 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
52576108 TTTTCATTCA
*
52576118 TTTTTTTGTTTTTTTCTGCTATTATTAT
1 TTTTTTTGTTTTTTTTTGCTATTATTAT
* * *
52576146 TTTTTTTGTTTTTTTTTGCTGTTTTTGT
1 TTTTTTTGTTTTTTTTTGCTATTATTAT
52576174 TTTTGTTT-TTGTTTTTTT
1 TTTT-TTTGTT-TTTTTTT
52576192 AGGCATAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
28 30 0.75
29 10 0.25
ACGTcount: A:0.04, C:0.04, G:0.11, T:0.81
Consensus pattern (28 bp):
TTTTTTTGTTTTTTTTTGCTATTATTAT
Found at i:52587192 original size:51 final size:51
Alignment explanation
Indices: 52587091--52587214 Score: 144
Period size: 52 Copynumber: 2.4 Consensus size: 51
52587081 GGAATTTTTG
* * * *
52587091 TTTTGAAAACACGAGAATTTTGAAACACAATAATTTTTGAGAGCACGAAAAT
1 TTTTG-AAACACGAGAATTTTGAAACACAATAATTTCTGAAAACAAGAAAAT
*
52587143 TTTTGAAATACGAGAATTTTAGAAACACGAA-AATTTCT-AAAACAAGAAAAT
1 TTTTGAAACACGAGAATTTT-GAAACAC-AATAATTTCTGAAAACAAGAAAAT
*
52587194 TTTTGAAAACACGAGATTTTT
1 TTTTG-AAACACGAGAATTTT
52587215 TTTCGAAACA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
51 29 0.47
52 31 0.50
53 2 0.03
ACGTcount: A:0.45, C:0.10, G:0.14, T:0.31
Consensus pattern (51 bp):
TTTTGAAACACGAGAATTTTGAAACACAATAATTTCTGAAAACAAGAAAAT
Found at i:52587214 original size:18 final size:18
Alignment explanation
Indices: 52587091--52587281 Score: 130
Period size: 17 Copynumber: 10.8 Consensus size: 18
52587081 GGAATTTTTG
*
52587091 TTTTGAAAACACGAGAA-
1 TTTTGAAAACACGAAAAT
52587108 TTTTG-AAACAC-AATAAT
1 TTTTGAAAACACGAA-AAT
* *
52587125 TTTTGAGAGCACGAAAAT
1 TTTTGAAAACACGAAAAT
* *
52587143 TTTTG-AAATACGAGAAT
1 TTTTGAAAACACGAAAAT
*
52587160 TTTAG-AAACACGAAAAT
1 TTTTGAAAACACGAAAAT
* *
52587177 TTCT-AAAACAAGAAAAT
1 TTTTGAAAACACGAAAAT
**
52587194 TTTTGAAAACACGAGATTTT
1 TTTTGAAAACACGA-A-AAT
* *
52587214 TTTTCG-AAACACGGAATT
1 TTTT-GAAAACACGAAAAT
52587232 TTTTGAAAACACG-AAAT
1 TTTTGAAAACACGAAAAT
** *
52587249 TTTTTTAAACA-GAAATTT
1 TTTTGAAAACACGAAA-AT
*
52587267 TTTTTAAAACACGAA
1 TTTTGAAAACACGAA
52587282 TATAAAACAC
Statistics
Matches: 137, Mismatches: 24, Indels: 24
0.74 0.13 0.13
Matches are distributed among these distances:
15 1 0.01
16 9 0.07
17 63 0.46
18 44 0.32
19 7 0.05
20 12 0.09
21 1 0.01
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.32
Consensus pattern (18 bp):
TTTTGAAAACACGAAAAT
Found at i:52587263 original size:16 final size:17
Alignment explanation
Indices: 52587134--52587281 Score: 84
Period size: 18 Copynumber: 8.4 Consensus size: 17
52587124 TTTTTGAGAG
* *
52587134 CACGAAAATTTTTGAAA
1 CACGAAATTTTTTTAAA
* **
52587151 TACGAGAA-TTTTAGAAA
1 CACGA-AATTTTTTTAAA
* * *
52587168 CACGAAAATTTCTAAAA
1 CACGAAATTTTTTTAAA
* **
52587185 CAAGAAAATTTTTGAAAA
1 CACG-AAATTTTTTTAAA
*
52587203 CACGAGATTTTTTTTCGAAA
1 CACGA-AATTTTTTT--AAA
* *
52587223 CACGGAATTTTTTGAAAA
1 CACGAAATTTTTT-TAAA
52587241 CACGAAATTTTTTTAAA
1 CACGAAATTTTTTTAAA
52587258 CA-GAAATTTTTTTTAAAA
1 CACGAAA-TTTTTTT-AAA
52587276 CACGAA
1 CACGAA
52587282 TATAAAACAC
Statistics
Matches: 102, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
16 6 0.06
17 38 0.37
18 41 0.40
19 10 0.10
20 7 0.07
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.32
Consensus pattern (17 bp):
CACGAAATTTTTTTAAA
Found at i:52587334 original size:17 final size:19
Alignment explanation
Indices: 52587311--52587356 Score: 62
Period size: 17 Copynumber: 2.6 Consensus size: 19
52587301 TATTATTATT
52587311 TTTTTGAAACACGAGAA-A
1 TTTTTGAAACACGAGAACA
*
52587329 -TTTTGAAA-ACGTGAACA
1 TTTTTGAAACACGAGAACA
52587346 TTTTTGAAACA
1 TTTTTGAAACA
52587357 TGTTTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 6 0.25
17 9 0.38
18 8 0.33
19 1 0.04
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (19 bp):
TTTTTGAAACACGAGAACA
Found at i:52587846 original size:21 final size:23
Alignment explanation
Indices: 52587821--52587880 Score: 79
Period size: 24 Copynumber: 2.7 Consensus size: 23
52587811 TTCGGATCTA
*
52587821 TTTTTGTTTTTTTCTT-C-TCTT
1 TTTTTCTTTTTTTCTTCCTTCTT
52587842 TTTTTCTTTTTTTCTTTCCTTCTT
1 TTTTTCTTTTTTTC-TTCCTTCTT
*
52587866 TTTCTCTTTTTTTCT
1 TTTTTCTTTTTTTCT
52587881 GCAGATTGGG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.38
22 2 0.06
23 2 0.06
24 17 0.50
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (23 bp):
TTTTTCTTTTTTTCTTCCTTCTT
Found at i:52587849 original size:8 final size:8
Alignment explanation
Indices: 52587838--52587880 Score: 59
Period size: 8 Copynumber: 5.4 Consensus size: 8
52587828 TTTTTTCTTC
52587838 TCTTTTTT
1 TCTTTTTT
52587846 TCTTTTTT
1 TCTTTTTT
**
52587854 TCTTTCCT
1 TCTTTTTT
*
52587862 TCTTTTTC
1 TCTTTTTT
52587870 TCTTTTTT
1 TCTTTTTT
52587878 TCT
1 TCT
52587881 GCAGATTGGG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (8 bp):
TCTTTTTT
Found at i:52587857 original size:16 final size:16
Alignment explanation
Indices: 52587835--52587880 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 16
52587825 TGTTTTTTTC
52587835 TTCTCTTTTTTTCTTT
1 TTCTCTTTTTTTCTTT
* **
52587851 TTTTCTTTCCTTCTTT
1 TTCTCTTTTTTTCTTT
52587867 TTCTCTTTTTTTCT
1 TTCTCTTTTTTTCT
52587881 GCAGATTGGG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (16 bp):
TTCTCTTTTTTTCTTT
Found at i:52588227 original size:9 final size:8
Alignment explanation
Indices: 52588191--52588257 Score: 50
Period size: 7 Copynumber: 8.4 Consensus size: 8
52588181 TATTTTTAAA
52588191 TTTTTTTC
1 TTTTTTTC
52588199 -TTTTTTC
1 TTTTTTTC
52588206 TCTTTTTT-
1 T-TTTTTTC
* *
52588214 ATTTTCTC
1 TTTTTTTC
52588222 TTTTTTTC
1 TTTTTTTC
* *
52588230 -CTTGTTC
1 TTTTTTTC
52588237 TTTCTATTTC
1 TTT-T-TTTC
52588247 TTTTTTTC
1 TTTTTTTC
52588255 TTT
1 TTT
52588258 CTTCTTCTTC
Statistics
Matches: 45, Mismatches: 8, Indels: 12
0.69 0.12 0.18
Matches are distributed among these distances:
7 17 0.38
8 14 0.31
9 8 0.18
10 6 0.13
ACGTcount: A:0.03, C:0.16, G:0.01, T:0.79
Consensus pattern (8 bp):
TTTTTTTC
Found at i:52588391 original size:24 final size:25
Alignment explanation
Indices: 52588354--52588430 Score: 65
Period size: 24 Copynumber: 3.2 Consensus size: 25
52588344 GGTCGGTCTC
*
52588354 TCCTCTCCTATTTTCTCTC-TTCCT
1 TCCTCTTCTATTTTCTCTCTTTCCT
* * *
52588378 TCCTCTTCTCTTTTTTCTCTTTTCT
1 TCCTCTTCTATTTTCTCTCTTTCCT
*
52588403 TTCTCTTCT-TTTT-T-TCTTT-CT
1 TCCTCTTCTATTTTCTCTCTTTCCT
52588424 TACCTCT
1 T-CCTCT
52588431 CTTTCTCTTC
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
21 3 0.07
22 9 0.20
23 1 0.02
24 20 0.44
25 12 0.27
ACGTcount: A:0.03, C:0.34, G:0.00, T:0.64
Consensus pattern (25 bp):
TCCTCTTCTATTTTCTCTCTTTCCT
Found at i:52588417 original size:26 final size:26
Alignment explanation
Indices: 52588364--52588424 Score: 81
Period size: 25 Copynumber: 2.4 Consensus size: 26
52588354 TCCTCTCCTA
52588364 TTTTCTCTCTTCCTTCCTCTTCTCTT
1 TTTTCTCTCTTCCTTCCTCTTCTCTT
* *
52588390 TTTTCTCT-TTTCTTTCTCTTCT-TT
1 TTTTCTCTCTTCCTTCCTCTTCTCTT
*
52588414 TTTTCTTTCTT
1 TTTTCTCTCTT
52588425 ACCTCTCTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 9 0.29
25 14 0.45
26 8 0.26
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (26 bp):
TTTTCTCTCTTCCTTCCTCTTCTCTT
Found at i:52588436 original size:25 final size:24
Alignment explanation
Indices: 52588364--52588421 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 24
52588354 TCCTCTCCTA
* *
52588364 TTTTCTCTCTTCCTTCCTCTTCTCTT
1 TTTTCTCT-TTTCTTTCTCTT-TCTT
52588390 TTTTCTCTTTTCTTTCTC-TTCTT
1 TTTTCTCTTTTCTTTCTCTTTCTT
52588413 TTTT-TCTTT
1 TTTTCTCTTT
52588422 CTTACCTCTC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 5 0.17
23 8 0.27
24 1 0.03
25 8 0.27
26 8 0.27
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (24 bp):
TTTTCTCTTTTCTTTCTCTTTCTT
Found at i:52589014 original size:30 final size:28
Alignment explanation
Indices: 52588980--52589115 Score: 94
Period size: 30 Copynumber: 4.6 Consensus size: 28
52588970 AAAAGAATAT
*
52588980 AGGGCCAAAATGTAATTTCTTAATAGTTTA
1 AGGGCCAAAATGTAATTTCTAAAT-G-TTA
* * *
52589010 AGGGCTC-GAATATAATTTACAAAATGTTA
1 AGGGC-CAAAATGTAATTT-CTAAATGTTA
* * **
52589039 GGGGTCAAAATGTAAATTTAGAAATGTTA
1 AGGGCCAAAATGT-AATTTCTAAATGTTA
* * *
52589068 AGGGTCAAAATGTAATTTTTAAAAAGTTTA
1 AGGGCCAAAATGTAATTTCT-AAATG-TTA
*
52589098 AGGGCTAAAATGTAATTT
1 AGGGCCAAAATGTAATTT
52589116 ATATTTTTTT
Statistics
Matches: 84, Mismatches: 16, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
28 6 0.07
29 34 0.40
30 39 0.46
31 5 0.06
ACGTcount: A:0.40, C:0.07, G:0.19, T:0.34
Consensus pattern (28 bp):
AGGGCCAAAATGTAATTTCTAAATGTTA
Found at i:52589150 original size:18 final size:17
Alignment explanation
Indices: 52589108--52589142 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
52589098 AGGGCTAAAA
52589108 TGTAATTTATATTTTTT
1 TGTAATTTATATTTTTT
52589125 TGTAATTTATATTTTTT
1 TGTAATTTATATTTTTT
52589142 T
1 T
52589143 CAGAATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (17 bp):
TGTAATTTATATTTTTT
Found at i:52591369 original size:3 final size:3
Alignment explanation
Indices: 52591361--52591395 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
52591351 TTGCTTTAAA
52591361 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
52591396 AGAGAGTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:52598898 original size:25 final size:24
Alignment explanation
Indices: 52598850--52598905 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
52598840 TAAACTATAT
* **
52598850 TTTTTTTTCATAATGATATTTAAA
1 TTTTTTATCATAATGATACCTAAA
52598874 TTTTTTATCAATAATGATACCTAAA
1 TTTTTTATC-ATAATGATACCTAAA
52598899 TTATTTT
1 TT-TTTT
52598906 TTTCTCAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 8 0.30
25 15 0.56
26 4 0.15
ACGTcount: A:0.34, C:0.07, G:0.04, T:0.55
Consensus pattern (24 bp):
TTTTTTATCATAATGATACCTAAA
Found at i:52599893 original size:14 final size:14
Alignment explanation
Indices: 52599874--52599901 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
52599864 TGTGGATTGA
52599874 TTAAAATATATTTT
1 TTAAAATATATTTT
52599888 TTAAAATATATTTT
1 TTAAAATATATTTT
52599902 AAATTGAAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTAAAATATATTTT
Found at i:52604547 original size:20 final size:23
Alignment explanation
Indices: 52604519--52604569 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 23
52604509 GTTTTTTATT
*
52604519 AAAATAATA-TAAAAGAA-ATA-
1 AAAAAAATATTAAAAGAATATAC
*
52604539 AAAAAAATATTAAAATAATATAC
1 AAAAAAATATTAAAAGAATATAC
52604562 AAAAAAAT
1 AAAAAAAT
52604570 TTATTTATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 8 0.31
21 7 0.27
22 3 0.12
23 8 0.31
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.22
Consensus pattern (23 bp):
AAAAAAATATTAAAAGAATATAC
Found at i:52605379 original size:22 final size:22
Alignment explanation
Indices: 52605354--52605399 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
52605344 ATAATTTATT
*
52605354 TTAAATTAGTAT-TTTATTTTTA
1 TTAAATTA-TATGTTTATTGTTA
52605376 TTAAATTATATGTTTATTGTTA
1 TTAAATTATATGTTTATTGTTA
52605398 TT
1 TT
52605400 TGAAAACATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 3 0.14
22 19 0.86
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (22 bp):
TTAAATTATATGTTTATTGTTA
Found at i:52608533 original size:13 final size:13
Alignment explanation
Indices: 52608494--52608533 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
52608484 TTTAAATCAA
*
52608494 ACTTTTCAAAAGC
1 ACTTTTCAAAAGT
* *
52608507 ACTTTTCCACAGT
1 ACTTTTCAAAAGT
52608520 ACTTTTCAAAAGT
1 ACTTTTCAAAAGT
52608533 A
1 A
52608534 TTGTCAAACT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.35, C:0.23, G:0.07, T:0.35
Consensus pattern (13 bp):
ACTTTTCAAAAGT
Found at i:52609281 original size:29 final size:30
Alignment explanation
Indices: 52609237--52609300 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 30
52609227 ATTTGGGCCT
* * *
52609237 AATTGTTTCTTTTTAATGGTATAGGGACTA
1 AATTGTTTCTATTTAATGATAAAGGGACTA
*
52609267 AATTGTTTC-ATTTAATGATAAATGGACTA
1 AATTGTTTCTATTTAATGATAAAGGGACTA
52609296 AATTG
1 AATTG
52609301 ATACAATCCC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 21 0.70
30 9 0.30
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.44
Consensus pattern (30 bp):
AATTGTTTCTATTTAATGATAAAGGGACTA
Found at i:52628705 original size:11 final size:11
Alignment explanation
Indices: 52628689--52628724 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
52628679 TATCAAGGGA
52628689 TAATTTTTTAT
1 TAATTTTTTAT
*
52628700 TAATTTTTAAT
1 TAATTTTTTAT
52628711 TAATTTTTATAT
1 TAATTTTT-TAT
52628723 TA
1 TA
52628725 TGAAATTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 18 0.82
12 4 0.18
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TAATTTTTTAT
Found at i:52631472 original size:47 final size:47
Alignment explanation
Indices: 52631403--52631499 Score: 178
Period size: 47 Copynumber: 2.1 Consensus size: 47
52631393 AACAATAGGT
52631403 TAACCTAAACTTAACCTACTACCA-CTAACACACATAGTAACTTGTGC
1 TAACCTAAACTTAACCTACTACCATC-AACACACATAGTAACTTGTGC
52631450 TAACCTAAACTTAACCTACTACCATCAACACACATAGTAACTTGTGC
1 TAACCTAAACTTAACCTACTACCATCAACACACATAGTAACTTGTGC
52631497 TAA
1 TAA
52631500 TTAACTTGAA
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
47 48 0.98
48 1 0.02
ACGTcount: A:0.39, C:0.29, G:0.06, T:0.26
Consensus pattern (47 bp):
TAACCTAAACTTAACCTACTACCATCAACACACATAGTAACTTGTGC
Found at i:52633209 original size:18 final size:19
Alignment explanation
Indices: 52633173--52633210 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
52633163 AGACTCCAGG
*
52633173 TCTGATTCTTTTCAATCAT
1 TCTGATTCTCTTCAATCAT
*
52633192 TCTGATT-TCTTCAGTCAT
1 TCTGATTCTCTTCAATCAT
52633210 T
1 T
52633211 GCCTACTTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.18, C:0.21, G:0.08, T:0.53
Consensus pattern (19 bp):
TCTGATTCTCTTCAATCAT
Done.