Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008053.1 Hibiscus syriacus cultivar Beakdansim tig00110548_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 6772376
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 23 of 32
Found at i:4612122 original size:34 final size:35
Alignment explanation
Indices: 4611905--4612185 Score: 156
Period size: 39 Copynumber: 7.8 Consensus size: 35
4611895 CATAAATTTG
* *
4611905 AAATAAATCAAGGA-AAAAACATAAA-ATAATA-AT
1 AAATAAATCAAAGAGAAAAA-ATAAATAAAATATAT
*
4611938 -AATAAATCAAAAGGAGAAAAAATAAAATAAAATAAGAT
1 AAATAAATC-AAA-GAGAAAAAAT-AAATAAAAT-ATAT
*
4611976 AAATAAATCAAAGGAAAATAAAATAAAATAAAAATATAT
1 AAATAAATCAAA-GAGAA-AAAAT-AAAT-AAAATATAT
4612015 CAAATAAATCAAAG-GAAAAAATGTAAA-AAAATATAT
1 -AAATAAATCAAAGAGAAAAAA--TAAATAAAATATAT
* * *
4612051 ATATATAAGATAAAAATAGTAAAAAATATATATAAATA-A-
1 A-A-ATAA-AT-CAAAGAG-AAAAAATAAATA-AAATATAT
* * *
4612090 AAATAAATCAAAGAGAAAACATGAAATAAAATAAAA
1 AAATAAATCAAAGAGAAAAAAT-AAATAAAATATAT
*
4612126 AAATAAAAT-AATA-ATAAAATAAT-AATAAAATA-AT
1 AAAT-AAATCAA-AGAGAAAA-AATAAATAAAATATAT
* *
4612160 AAATGAATCAAAG-GAAAAAATGAATA
1 AAATAAATCAAAGAGAAAAAATAAATA
4612186 GTTGAAAAAT
Statistics
Matches: 201, Mismatches: 17, Indels: 60
0.72 0.06 0.22
Matches are distributed among these distances:
32 11 0.05
33 14 0.07
34 22 0.11
35 28 0.14
36 27 0.13
37 20 0.10
38 18 0.09
39 30 0.15
40 20 0.10
41 11 0.05
ACGTcount: A:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (35 bp):
AAATAAATCAAAGAGAAAAAATAAATAAAATATAT
Found at i:4612123 original size:5 final size:5
Alignment explanation
Indices: 4612113--4612158 Score: 60
Period size: 5 Copynumber: 9.2 Consensus size: 5
4612103 AGAAAACATG
4612113 AAATA AAAT- AAA-A AAATA AAATA ATAATA AAATA ATAATA AAATA A
1 AAATA AAATA AAATA AAATA AAATA A-AATA AAATA A-AATA AAATA A
4612159 TAAATGAATC
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
4 6 0.16
5 21 0.57
6 10 0.27
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
AAATA
Found at i:4612138 original size:3 final size:3
Alignment explanation
Indices: 4612114--4612161 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
4612104 GAAAACATGA
*
4612114 AAT AA- AAT AA- AAA AAT AA- AAT AAT AAT AA- AAT AAT AAT AA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4612157 AAT AA
1 AAT AA
4612162 ATGAATCAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
2 10 0.26
3 29 0.74
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (3 bp):
AAT
Found at i:4612143 original size:11 final size:11
Alignment explanation
Indices: 4612127--4612161 Score: 70
Period size: 11 Copynumber: 3.2 Consensus size: 11
4612117 AAAATAAAAA
4612127 AATAAAATAAT
1 AATAAAATAAT
4612138 AATAAAATAAT
1 AATAAAATAAT
4612149 AATAAAATAAT
1 AATAAAATAAT
4612160 AA
1 AA
4612162 ATGAATCAAA
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:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:4612180 original size:35 final size:35
Alignment explanation
Indices: 4611905--4612185 Score: 149
Period size: 36 Copynumber: 7.7 Consensus size: 35
4611895 CATAAATTTG
*
4611905 AAATAAATC-AAGGAAAAAA-CATAA-AATAATAAT
1 AAATAAATCAAAGGAAAAAATAATAATAA-AATAAT
4611938 -AATAAATCAAAAGGAGAAAAAATAA-AATAAAATAAGAT
1 AAATAAATC-AAA-G-GAAAAAATAATAATAAAAT-A-AT
4611976 AAATAAATCAAAGGAAAATAA-AATAAAATAAAAATATAT
1 AAATAAATCAAAGGAAAA-AATAAT--AAT-AAAATA-AT
* *
4612015 CAAATAAATCAAAGGAAAAAAT-GTAAAAAAATATAT
1 -AAATAAATCAAAGGAAAAAATAATAATAAAATA-AT
* *
4612051 ATATATAAGATAAAAATAGTAAAAAAT-AT-ATATAAATAA-
1 A-A-ATAA-AT--CAA-AGGAAAAAATAATAATA-AAATAAT
* * *
4612090 AAATAAATCAAAGAGAAAACATGA-AATAAAATAAAA
1 AAATAAATCAAAG-GAAAAAATAATAATAAAAT-AAT
*
4612126 AAATAAAAT-AATA--ATAAAATAATAATAAAATAAT
1 AAAT-AAATCAA-AGGAAAAAATAATAATAAAATAAT
*
4612160 AAATGAATCAAAGGAAAAAATGAATA
1 AAATAAATCAAAGGAAAAAAT-AATA
4612186 GTTGAAAAAT
Statistics
Matches: 196, Mismatches: 17, Indels: 67
0.70 0.06 0.24
Matches are distributed among these distances:
32 8 0.04
33 6 0.03
34 28 0.14
35 22 0.11
36 41 0.21
37 22 0.11
38 8 0.04
39 18 0.09
40 28 0.14
41 15 0.08
ACGTcount: A:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (35 bp):
AAATAAATCAAAGGAAAAAATAATAATAAAATAAT
Found at i:4613858 original size:139 final size:139
Alignment explanation
Indices: 4613601--4613890 Score: 510
Period size: 139 Copynumber: 2.1 Consensus size: 139
4613591 CATGTTTAGT
* *
4613601 TACTA-CTTTCTAAGAAGGGATATGAAAAAAGAAAATCGGTTCGACTAGTTGAGTACCCGACAGC
1 TACTAGCTTTCTAAGAAAGGATATGAAAAAAGAAAATCGGTTCGACTAGTCGAGTACCCGACAGC
*
4613665 ATCTCGGCAAGTATCATGATTTGATAGCATCTTAGATGCCTGTGGCATGTCTTGAACCTAGTTTG
66 ATCTCGGCAAGTATCATGATTTGATAGCATCTTAGATGCCTGTGGCATGCCTTGAACCTAGTTTG
4613730 AGTAGCCAC
131 AGTAGCCAC
* * *
4613739 TATTAGCTTTCTAAGAAAGGATATGAAAAAAGAAAATCGGTTCGACTCGTCGAGTACTCGACAGC
1 TACTAGCTTTCTAAGAAAGGATATGAAAAAAGAAAATCGGTTCGACTAGTCGAGTACCCGACAGC
*
4613804 ATCTCTGCAAGTATCATGATTTGATAGCATCTTAGATGCCTGTGGCATGCCTTGAACCTAGTTTG
66 ATCTCGGCAAGTATCATGATTTGATAGCATCTTAGATGCCTGTGGCATGCCTTGAACCTAGTTTG
4613869 AGTAGCCAC
131 AGTAGCCAC
4613878 TACTAGCTTTCTA
1 TACTAGCTTTCTA
4613891 TGATGCCTGT
Statistics
Matches: 143, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
138 4 0.03
139 139 0.97
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.29
Consensus pattern (139 bp):
TACTAGCTTTCTAAGAAAGGATATGAAAAAAGAAAATCGGTTCGACTAGTCGAGTACCCGACAGC
ATCTCGGCAAGTATCATGATTTGATAGCATCTTAGATGCCTGTGGCATGCCTTGAACCTAGTTTG
AGTAGCCAC
Found at i:4618444 original size:2 final size:2
Alignment explanation
Indices: 4618437--4618465 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4618427 ACCAAAGAGA
4618437 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4618466 GATTTTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4618513 original size:2 final size:2
Alignment explanation
Indices: 4618506--4618542 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
4618496 TTACAACTTG
4618506 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4618543 GATTTTTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4618554 original size:77 final size:77
Alignment explanation
Indices: 4618437--4618582 Score: 292
Period size: 77 Copynumber: 1.9 Consensus size: 77
4618427 ACCAAAGAGA
4618437 ATATATATATATATATATATATATATATAGATTTTTATTCAGTGCCATAAATACTGGCATTACAA
1 ATATATATATATATATATATATATATATAGATTTTTATTCAGTGCCATAAATACTGGCATTACAA
4618502 CTTGATATATAT
66 CTTGATATATAT
4618514 ATATATATATATATATATATATATATATAGATTTTTATTCAGTGCCATAAATACTGGCATTACAA
1 ATATATATATATATATATATATATATATAGATTTTTATTCAGTGCCATAAATACTGGCATTACAA
4618579 CTTG
66 CTTG
4618583 GTACGAGCCC
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 69 1.00
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (77 bp):
ATATATATATATATATATATATATATATAGATTTTTATTCAGTGCCATAAATACTGGCATTACAA
CTTGATATATAT
Found at i:4623008 original size:30 final size:30
Alignment explanation
Indices: 4622974--4623101 Score: 157
Period size: 30 Copynumber: 4.3 Consensus size: 30
4622964 TCATGCGTTT
* *
4622974 TAATATTTTCGGTCATTTTTTAGCGTCTAA
1 TAATATTTTCGGTCATTTTTTAACGCCTAA
*
4623004 TAATATTTTCGGTCATTTTTTAATGCCTAA
1 TAATATTTTCGGTCATTTTTTAACGCCTAA
* * * * * *
4623034 TAATGTTTCCAGTAATTTGTTAACACCTAA
1 TAATATTTTCGGTCATTTTTTAACGCCTAA
* *
4623064 TAATATTTTTGGTTATTTTTTAACGCCTAA
1 TAATATTTTCGGTCATTTTTTAACGCCTAA
4623094 TAATATTT
1 TAATATTT
4623102 CTGATTATTT
Statistics
Matches: 81, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 81 1.00
ACGTcount: A:0.28, C:0.12, G:0.10, T:0.49
Consensus pattern (30 bp):
TAATATTTTCGGTCATTTTTTAACGCCTAA
Found at i:4623272 original size:53 final size:53
Alignment explanation
Indices: 4623192--4623297 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
4623182 GGCACGAGCG
4623192 TCCCGTGGACCTGTTGGCTTTGAAGTTGCTTAACAAAGAACATATTCCTCGCA
1 TCCCGTGGACCTGTTGGCTTTGAAGTTGCTTAACAAAGAACATATTCCTCGCA
4623245 TCCCGTGGACCTGTTGGCTTTGAAGTTGCTTAACAAAGAACATATTCCTCGCA
1 TCCCGTGGACCTGTTGGCTTTGAAGTTGCTTAACAAAGAACATATTCCTCGCA
4623298 ACATTATGAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.30
Consensus pattern (53 bp):
TCCCGTGGACCTGTTGGCTTTGAAGTTGCTTAACAAAGAACATATTCCTCGCA
Found at i:4627367 original size:21 final size:23
Alignment explanation
Indices: 4627323--4627371 Score: 75
Period size: 21 Copynumber: 2.2 Consensus size: 23
4627313 TGGATTTAAA
*
4627323 GGATTAGATATTTGAAATTTTAG
1 GGATTAAATATTTGAAATTTTAG
4627346 GGATTAAATA-TTGAAA-TTTAG
1 GGATTAAATATTTGAAATTTTAG
4627367 GGATT
1 GGATT
4627372 TGAGAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 10 0.40
22 6 0.24
23 9 0.36
ACGTcount: A:0.37, C:0.00, G:0.22, T:0.41
Consensus pattern (23 bp):
GGATTAAATATTTGAAATTTTAG
Found at i:4633936 original size:13 final size:13
Alignment explanation
Indices: 4633918--4633942 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4633908 CAATAAAAAT
4633918 ATTTTTTATTTTA
1 ATTTTTTATTTTA
4633931 ATTTTTTATTTT
1 ATTTTTTATTTT
4633943 GATGTGATAG
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:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
ATTTTTTATTTTA
Found at i:4641054 original size:2 final size:2
Alignment explanation
Indices: 4641047--4641094 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
4641037 ACTCAAACTC
4641047 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4641089 AT AT AT
1 AT AT AT
4641095 CCTCTTTAAC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4642780 original size:23 final size:23
Alignment explanation
Indices: 4642723--4642781 Score: 100
Period size: 23 Copynumber: 2.6 Consensus size: 23
4642713 CTCAAAGCAA
*
4642723 GCTGATCCGTTAGAGTAATTGAG
1 GCTGATCCGTTGGAGTAATTGAG
4642746 GCTGATCCGTTGGAGTAATTGAG
1 GCTGATCCGTTGGAGTAATTGAG
*
4642769 GCTGATCTGTTGG
1 GCTGATCCGTTGG
4642782 GCAAGTAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.20, C:0.14, G:0.34, T:0.32
Consensus pattern (23 bp):
GCTGATCCGTTGGAGTAATTGAG
Found at i:4654061 original size:2 final size:2
Alignment explanation
Indices: 4654054--4654093 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
4654044 TGTTTTTCTT
4654054 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4654094 ATTTAATTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4660450 original size:286 final size:286
Alignment explanation
Indices: 4659938--4660510 Score: 1146
Period size: 286 Copynumber: 2.0 Consensus size: 286
4659928 ATTATACAAA
4659938 TTAATTTAATAGATGCAAAATATTAAATTCAATAGTACTAATATTAAATATTAATATTAATATTA
1 TTAATTTAATAGATGCAAAATATTAAATTCAATAGTACTAATATTAAATATTAATATTAATATTA
4660003 AATTCATTTGTTTTTAAACACTAAACACAAAAATTGAAATTTTATAAGTATTCTCATTTCAAATA
66 AATTCATTTGTTTTTAAACACTAAACACAAAAATTGAAATTTTATAAGTATTCTCATTTCAAATA
4660068 TATGTTATGTTTACATTAGAATCCAAATAACTTAATGTATCAAATTCAGATCAATACTGAAACTA
131 TATGTTATGTTTACATTAGAATCCAAATAACTTAATGTATCAAATTCAGATCAATACTGAAACTA
4660133 CAACCCAATTACTGTAACAAATGATAAAGATTGTCATAATTGAACACTTAAATCACTTTGAAATG
196 CAACCCAATTACTGTAACAAATGATAAAGATTGTCATAATTGAACACTTAAATCACTTTGAAATG
4660198 CAGTCAAAGATGTTCTGAGCTTAAGT
261 CAGTCAAAGATGTTCTGAGCTTAAGT
4660224 TTAATTTAATAGATGCAAAATATTAAATTCAATAGTACTAATATTAAATATTAATATTAATATTA
1 TTAATTTAATAGATGCAAAATATTAAATTCAATAGTACTAATATTAAATATTAATATTAATATTA
4660289 AATTCATTTGTTTTTAAACACTAAACACAAAAATTGAAATTTTATAAGTATTCTCATTTCAAATA
66 AATTCATTTGTTTTTAAACACTAAACACAAAAATTGAAATTTTATAAGTATTCTCATTTCAAATA
4660354 TATGTTATGTTTACATTAGAATCCAAATAACTTAATGTATCAAATTCAGATCAATACTGAAACTA
131 TATGTTATGTTTACATTAGAATCCAAATAACTTAATGTATCAAATTCAGATCAATACTGAAACTA
4660419 CAACCCAATTACTGTAACAAATGATAAAGATTGTCATAATTGAACACTTAAATCACTTTGAAATG
196 CAACCCAATTACTGTAACAAATGATAAAGATTGTCATAATTGAACACTTAAATCACTTTGAAATG
4660484 CAGTCAAAGATGTTCTGAGCTTAAGT
261 CAGTCAAAGATGTTCTGAGCTTAAGT
4660510 T
1 T
4660511 AATCGCAGAA
Statistics
Matches: 287, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
286 287 1.00
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.36
Consensus pattern (286 bp):
TTAATTTAATAGATGCAAAATATTAAATTCAATAGTACTAATATTAAATATTAATATTAATATTA
AATTCATTTGTTTTTAAACACTAAACACAAAAATTGAAATTTTATAAGTATTCTCATTTCAAATA
TATGTTATGTTTACATTAGAATCCAAATAACTTAATGTATCAAATTCAGATCAATACTGAAACTA
CAACCCAATTACTGTAACAAATGATAAAGATTGTCATAATTGAACACTTAAATCACTTTGAAATG
CAGTCAAAGATGTTCTGAGCTTAAGT
Found at i:4660618 original size:29 final size:29
Alignment explanation
Indices: 4660583--4660664 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
4660573 AAACTAAATT
*
4660583 GATGTCATTGCTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAAGTAAA
*
4660612 GATGTCATTGCTTACATCATTTAAGTAAT
1 GATGTCATTGCTTACATCATTTAAGTAAA
4660641 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
4660665 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAAGTAAA
Found at i:4661954 original size:15 final size:15
Alignment explanation
Indices: 4661931--4661960 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4661921 ACGAGGCTGG
4661931 AATTACAACAACAAC
1 AATTACAACAACAAC
*
4661946 AATTCCAACAACAAC
1 AATTACAACAACAAC
4661961 TATGAGAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.30, G:0.00, T:0.13
Consensus pattern (15 bp):
AATTACAACAACAAC
Found at i:4664866 original size:24 final size:24
Alignment explanation
Indices: 4664837--4664886 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
4664827 TGGTGGTTGA
*
4664837 TTTAATGGT-TGTTTAAACTTTATT
1 TTTAATGGTATATTT-AACTTTATT
*
4664861 TTTAATGGTATATTTAAGTTTATT
1 TTTAATGGTATATTTAACTTTATT
4664885 TT
1 TT
4664887 GGTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.26, C:0.02, G:0.12, T:0.60
Consensus pattern (24 bp):
TTTAATGGTATATTTAACTTTATT
Found at i:4665392 original size:17 final size:16
Alignment explanation
Indices: 4665361--4665394 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
4665351 CACGTGAGGA
4665361 TTATTTTCTTCTTATT
1 TTATTTTCTTCTTATT
*
4665377 TTATTTATCTTTTTATT
1 TTATTT-TCTTCTTATT
4665394 T
1 T
4665395 ACTATTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTCTTCTTATT
Found at i:4667078 original size:29 final size:29
Alignment explanation
Indices: 4667043--4667124 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
4667033 AAACTAAATT
*
4667043 GATGTCATTGCTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAAGTAAA
*
4667072 GATGTCATTGCTTACATCATTTAAGTAAT
1 GATGTCATTGCTTACATCATTTAAGTAAA
4667101 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
4667125 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAAGTAAA
Found at i:4668916 original size:16 final size:16
Alignment explanation
Indices: 4668895--4668928 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
4668885 GGATAATTAC
*
4668895 ATCATCTATCACTTAA
1 ATCATCTACCACTTAA
4668911 ATCATCTACCACTTAA
1 ATCATCTACCACTTAA
4668927 AT
1 AT
4668929 ATATTCTCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.38, C:0.26, G:0.00, T:0.35
Consensus pattern (16 bp):
ATCATCTACCACTTAA
Found at i:4672373 original size:21 final size:21
Alignment explanation
Indices: 4672339--4672378 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4672329 GGTAAAAAAT
4672339 TACCGAAAACATTATTATTTC
1 TACCGAAAACATTATTATTTC
* *
4672360 TACCGGAAATATTATTATT
1 TACCGAAAACATTATTATT
4672379 GAGCGTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.15, G:0.07, T:0.40
Consensus pattern (21 bp):
TACCGAAAACATTATTATTTC
Found at i:4678341 original size:21 final size:21
Alignment explanation
Indices: 4678289--4678348 Score: 93
Period size: 21 Copynumber: 2.9 Consensus size: 21
4678279 CCATGACAGG
*
4678289 GAGTATTGATACTCCTTTAAT
1 GAGTATTGGTACTCCTTTAAT
4678310 GAGTATTGGTACTCCTTTAAT
1 GAGTATTGGTACTCCTTTAAT
* *
4678331 GAGTATCGGTACTTCTTT
1 GAGTATTGGTACTCCTTT
4678349 TATTATTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.23, C:0.15, G:0.18, T:0.43
Consensus pattern (21 bp):
GAGTATTGGTACTCCTTTAAT
Found at i:4680556 original size:45 final size:45
Alignment explanation
Indices: 4680467--4680586 Score: 224
Period size: 45 Copynumber: 2.7 Consensus size: 45
4680457 TTACTATTAC
4680467 TTAGTCACATATGGTTAATGCACAT-AAAAACTTATTAATTAATT
1 TTAGTCACATATGGTTAATGCACATAAAAAACTTATTAATTAATT
4680511 TTAGTCACATATGGTTAATGCACATAAAAAACTTATTAATTAATT
1 TTAGTCACATATGGTTAATGCACATAAAAAACTTATTAATTAATT
*
4680556 TTAGTCACATATGGTTAATGCATATAAAAAA
1 TTAGTCACATATGGTTAATGCACATAAAAAA
4680587 TTAATTAGTT
Statistics
Matches: 74, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
44 25 0.34
45 49 0.66
ACGTcount: A:0.42, C:0.11, G:0.10, T:0.37
Consensus pattern (45 bp):
TTAGTCACATATGGTTAATGCACATAAAAAACTTATTAATTAATT
Found at i:4680850 original size:2 final size:2
Alignment explanation
Indices: 4680843--4680872 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4680833 AACCGGTCTT
4680843 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4680873 CAAGTATGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4692702 original size:19 final size:20
Alignment explanation
Indices: 4692642--4692699 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
4692632 CCGTTAGACA
* *
4692642 GGGGGGAATCGGTATCCCCT
1 GGGGGGAATCTGTACCCCCT
4692662 GGGGGGAATCTGTACCCCCT
1 GGGGGGAATCTGTACCCCCT
*
4692682 GGGGTGAATCTGTACCCC
1 GGGGGGAATCTGTACCCC
4692700 TGGACAATCT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.16, C:0.28, G:0.36, T:0.21
Consensus pattern (20 bp):
GGGGGGAATCTGTACCCCCT
Found at i:4693054 original size:24 final size:24
Alignment explanation
Indices: 4693025--4693087 Score: 126
Period size: 24 Copynumber: 2.6 Consensus size: 24
4693015 CCCCCTTACT
4693025 TTAACACTTCTCCCCTTTAACACC
1 TTAACACTTCTCCCCTTTAACACC
4693049 TTAACACTTCTCCCCTTTAACACC
1 TTAACACTTCTCCCCTTTAACACC
4693073 TTAACACTTCTCCCC
1 TTAACACTTCTCCCC
4693088 CTTTTTGTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.24, C:0.43, G:0.00, T:0.33
Consensus pattern (24 bp):
TTAACACTTCTCCCCTTTAACACC
Found at i:4695457 original size:21 final size:21
Alignment explanation
Indices: 4695404--4695460 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
4695394 TGGAGCGTGG
*
4695404 GGGGAATCGGTACCCCCTCAT
1 GGGGAATCGGTTCCCCCTCAT
4695425 GGGGAATCGGTTCCCCCTCAT
1 GGGGAATCGGTTCCCCCTCAT
4695446 GGGGAATCGGTTCCC
1 GGGGAATCGGTTCCC
4695461 TAAGTGCAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.16, C:0.32, G:0.32, T:0.21
Consensus pattern (21 bp):
GGGGAATCGGTTCCCCCTCAT
Found at i:4695973 original size:18 final size:18
Alignment explanation
Indices: 4695950--4695995 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
4695940 AACATTCACA
4695950 ATAATCTTATTCCCACCG
1 ATAATCTTATTCCCACCG
* *
4695968 ATAATCTCATTCCCACTG
1 ATAATCTTATTCCCACCG
*
4695986 GTAATCTTAT
1 ATAATCTTAT
4695996 ATTTCGTGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.28, C:0.28, G:0.07, T:0.37
Consensus pattern (18 bp):
ATAATCTTATTCCCACCG
Found at i:4699781 original size:37 final size:36
Alignment explanation
Indices: 4699722--4699842 Score: 138
Period size: 36 Copynumber: 3.3 Consensus size: 36
4699712 ATCCCATTAT
* *
4699722 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAA
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAA
* *
4699757 CTATTTTTCAAAGAAACATTTACCAAACTTGGAAAAC
1 C-ATTTTTCAAAGAAACATTTACCAAACTTTGAAAAA
* * *
4699794 CA-TTTTCAAAAAAAACATTTACCAAAATTTGAAAAT
1 CATTTTTC-AAAGAAACATTTACCAAACTTTGAAAAA
4699830 CATTTTTTCAAAG
1 CA-TTTTTCAAAG
4699843 TTGGTTGCTA
Statistics
Matches: 72, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
35 6 0.08
36 34 0.47
37 27 0.38
38 5 0.07
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.31
Consensus pattern (36 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAA
Found at i:4703818 original size:35 final size:36
Alignment explanation
Indices: 4703752--4703869 Score: 145
Period size: 35 Copynumber: 3.3 Consensus size: 36
4703742 ATCTCATTAT
* *
4703752 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAA
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAA
*
4703787 CTATTTTTCAAAGAAACATTTA-C-AACTTTGAAAAC
1 C-ATTTTTCAAAGAAACATTTACCAAACTTTGAAAAA
* *
4703822 CA-TTTTCAAAAAAACATTTACCAAACTTTGAAAAT
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAA
4703857 CATTTTTTCAAAG
1 CA-TTTTTCAAAG
4703870 TTGGTTGCCA
Statistics
Matches: 71, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
33 17 0.24
34 2 0.03
35 26 0.37
36 8 0.11
37 18 0.25
ACGTcount: A:0.44, C:0.19, G:0.04, T:0.33
Consensus pattern (36 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAA
Found at i:4705830 original size:60 final size:60
Alignment explanation
Indices: 4705704--4705821 Score: 148
Period size: 60 Copynumber: 2.0 Consensus size: 60
4705694 ACCATTGTTG
* * * * * * * *
4705704 TAACTTTTAATAGTCAAGAGACTTATTAAAGTAATATTTTATAGTCAAATGATCATTTTA
1 TAACTTTTAATAATAAAAAAACTTAATAAAGTAATACTCTAAAGTCAAATGATCATTTTA
4705764 TAACTTTTAATAATAAAAAAACTTAATAAAGTAATACTCTAAAGTC-AATGGATCATTT
1 TAACTTTTAATAATAAAAAAACTTAATAAAGTAATACTCTAAAGTCAAAT-GATCATTT
4705822 ATGTACTTTG
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
59 3 0.06
60 46 0.94
ACGTcount: A:0.44, C:0.09, G:0.08, T:0.38
Consensus pattern (60 bp):
TAACTTTTAATAATAAAAAAACTTAATAAAGTAATACTCTAAAGTCAAATGATCATTTTA
Found at i:4706282 original size:198 final size:202
Alignment explanation
Indices: 4705940--4706344 Score: 667
Period size: 198 Copynumber: 2.0 Consensus size: 202
4705930 ATAATATTAT
* *
4705940 ATTCAACATTAATAAATTAATTCGAATTGCTTTCAAGACTATATATCCTCGTAATTCTCTTATTT
1 ATTCAACATTAATAAATTAATTCGAATTGCTTTCAAGACTATATATCCTCATAATTCTCTTACTT
* * *
4706005 AATTAATAACTAAAATACATTCATATAAATGTAACTATTTAACTCGAAACTTTAAGAAATGATAA
66 AATTAATAACTAAAATACATTCATATAAATGCAACTATTTAACTCGAAACTTTAAGAAAGGACAA
4706070 TAATGTATATTACTACTCAGGTGGGTTGATTGATTCGAATTGTTACATTTAAATTAAATTAGTTT
131 TAATGTATATTACTACTCAGGTGGGTTGATTGATTCGAATTGTTACATTTAAATTAAATTAGTTT
4706135 AAAACAC
196 AAAACAC
* *
4706142 ATTCAACATTAATAAATTAATTCGAATTG-TTTCTAAGATTATATATCTTCATAA-TC-C-T-CT
1 ATTCAACATTAATAAATTAATTCGAATTGCTTTC-AAGACTATATATCCTCATAATTCTCTTACT
* *
4706202 TAATTAATAACTAAAATACATTCATATAAATGCAGCTATTTAGCTCGAAACTTTAAGAAAGGACA
65 TAATTAATAACTAAAATACATTCATATAAATGCAACTATTTAACTCGAAACTTTAAGAAAGGACA
* *
4706267 ATAATGTATATTACTAGTCAGGTGGGTTGATTGATTCGAATTGTTACATTTAAATTAAATTGGTT
130 ATAATGTATATTACTACTCAGGTGGGTTGATTGATTCGAATTGTTACATTTAAATTAAATTAGTT
4706332 TAAAACAC
195 TAAAACAC
4706340 ATTCA
1 ATTCA
4706345 TTGAAGGTGT
Statistics
Matches: 191, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
198 137 0.72
199 1 0.01
200 1 0.01
201 6 0.03
202 46 0.24
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.38
Consensus pattern (202 bp):
ATTCAACATTAATAAATTAATTCGAATTGCTTTCAAGACTATATATCCTCATAATTCTCTTACTT
AATTAATAACTAAAATACATTCATATAAATGCAACTATTTAACTCGAAACTTTAAGAAAGGACAA
TAATGTATATTACTACTCAGGTGGGTTGATTGATTCGAATTGTTACATTTAAATTAAATTAGTTT
AAAACAC
Found at i:4711200 original size:30 final size:27
Alignment explanation
Indices: 4711136--4711200 Score: 67
Period size: 30 Copynumber: 2.3 Consensus size: 27
4711126 ATAAATATTG
*
4711136 AAAATATTATTATTTTATATATTTGATA
1 AAAATA-TATTATTTTATATATTTAATA
**
4711164 TTAATATATTATTTTAGTATAATTTTAATA
1 AAAATATATTATTTTA-TAT-A-TTTAATA
4711194 AAAATAT
1 AAAATAT
4711201 TAACTATTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 10 0.34
28 7 0.24
29 1 0.03
30 11 0.38
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (27 bp):
AAAATATATTATTTTATATATTTAATA
Found at i:4711201 original size:28 final size:27
Alignment explanation
Indices: 4711143--4711202 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
4711133 TTGAAAATAT
* *
4711143 TATTATTTTATATATTTGATATTAATA
1 TATTATTTTATATATTTGATATAAAAA
*
4711170 TATTATTTTAGTATAATTTTA-ATAAAAA
1 TATTATTTTA-TAT-ATTTGATATAAAAA
4711198 TATTA
1 TATTA
4711203 ACTATTAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 10 0.36
28 13 0.46
29 5 0.18
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (27 bp):
TATTATTTTATATATTTGATATAAAAA
Found at i:4711316 original size:23 final size:23
Alignment explanation
Indices: 4711268--4711318 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
4711258 GTTATAATCA
**
4711268 TATTATTATAATATATAATATTT
1 TATTATTATAATATATAATAAAT
4711291 TATT-TTAGTAATATATAATAAAT
1 TATTATTA-TAATATATAATAAAT
4711314 TATTA
1 TATTA
4711319 ATAAAACTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 3 0.12
23 21 0.88
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
TATTATTATAATATATAATAAAT
Found at i:4711477 original size:23 final size:22
Alignment explanation
Indices: 4711439--4711506 Score: 65
Period size: 19 Copynumber: 3.2 Consensus size: 22
4711429 TAATAGTATT
4711439 ATTTTAATAAGT-AATTAATATA
1 ATTTTAATAA-TAAATTAATATA
*
4711461 ATTATTAATAATAAATT-CT-T-
1 ATT-TTAATAATAAATTAATATA
4711481 ATTTTAATAA-ATAATTAATATA
1 ATTTTAATAATA-AATTAATATA
4711503 ATTT
1 ATTT
4711507 GTCATAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
18 1 0.03
19 11 0.29
20 4 0.11
21 2 0.05
22 9 0.24
23 11 0.29
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (22 bp):
ATTTTAATAATAAATTAATATA
Found at i:4711496 original size:19 final size:20
Alignment explanation
Indices: 4711417--4711499 Score: 61
Period size: 19 Copynumber: 4.2 Consensus size: 20
4711407 CATTAATTTT
4711417 TTAA-TATTTTAAT-AAT-A
1 TTAATTATTTTAATAAATAA
* *
4711434 GT-ATTATTTTAATAAGTAA
1 TTAATTATTTTAATAAATAA
4711453 TTAATATAATTATTAAT-AATAAA
1 TTAAT-T-ATT-TTAATAAAT-AA
*
4711476 TT-CTTATTTTAATAAATAA
1 TTAATTATTTTAATAAATAA
4711495 TTAAT
1 TTAAT
4711500 ATAATTTGTC
Statistics
Matches: 50, Mismatches: 6, Indels: 17
0.68 0.08 0.23
Matches are distributed among these distances:
16 1 0.02
17 10 0.20
18 2 0.04
19 11 0.22
20 9 0.18
21 2 0.04
22 6 0.12
23 9 0.18
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.49
Consensus pattern (20 bp):
TTAATTATTTTAATAAATAA
Found at i:4711754 original size:14 final size:14
Alignment explanation
Indices: 4711716--4711755 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
4711706 CAAGAAATAT
*
4711716 AATTTATTTTACGA
1 AATTTATTTTTCGA
4711730 AATTTATTTTTC-A
1 AATTTATTTTTCGA
4711743 ATATTTATTTTTC
1 A-ATTTATTTTTC
4711756 TCGAAACAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 2 0.08
14 22 0.92
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (14 bp):
AATTTATTTTTCGA
Found at i:4712853 original size:23 final size:23
Alignment explanation
Indices: 4712822--4712876 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 23
4712812 TAATTTTATT
* *
4712822 TTTGAGACACATTTATCTTTGTC
1 TTTGTGACACATTTATATTTGTC
** *
4712845 TTTGTGACATGTTTATATTTGTT
1 TTTGTGACACATTTATATTTGTC
*
4712868 TTTATGACA
1 TTTGTGACA
4712877 TTTTTTTTTG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.22, C:0.11, G:0.15, T:0.53
Consensus pattern (23 bp):
TTTGTGACACATTTATATTTGTC
Found at i:4712877 original size:23 final size:22
Alignment explanation
Indices: 4712833--4712891 Score: 66
Period size: 23 Copynumber: 2.7 Consensus size: 22
4712823 TTGAGACACA
* * *
4712833 TTTATCTTTGTCTTTGTGACAT
1 TTTATATTTGTTTTTATGACAT
4712855 GTTTATATTTGTTTTTATGACAT
1 -TTTATATTTGTTTTTATGACAT
*
4712878 TTT-TTTTTGTTTTT
1 TTTATATTTGTTTTT
4712892 GGTAGTTTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 10 0.31
22 3 0.09
23 19 0.59
ACGTcount: A:0.14, C:0.07, G:0.12, T:0.68
Consensus pattern (22 bp):
TTTATATTTGTTTTTATGACAT
Found at i:4713409 original size:50 final size:50
Alignment explanation
Indices: 4713261--4713433 Score: 151
Period size: 50 Copynumber: 3.5 Consensus size: 50
4713251 AATTGTGTGG
* * * *
4713261 TATAGCGCGGTGCAGGGGGCGCGTTATACCCCACGT--ATCACACACA-CG
1 TATAGCGCGGTGCA-GGGGCGCGCTATACCCCACGTGGGTCACACTCAGCA
* * * * *
4713309 TATAACGCGGTGCAGGAGGCGTGCTATA-CCCACAT-GGTGCCCATATCAGCA
1 TATAGCGCGGTGCAGG-GGCGCGCTATACCCCACGTGGGT-CACA-CTCAGCA
4713360 TATAGCGCGGTGCAGGGGCGCGCTATACCCCACGTGGCGTCA-ACTCAGCA
1 TATAGCGCGGTGCAGGGGCGCGCTATACCCCACGTGG-GTCACACTCAGCA
* * *
4713410 TATAGCGCGTTTCAGGGGTGCGCT
1 TATAGCGCGGTGCAGGGGCGCGCT
4713434 TTACTGCTAC
Statistics
Matches: 100, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
47 8 0.08
48 23 0.23
49 3 0.03
50 39 0.39
51 23 0.23
52 2 0.02
53 2 0.02
ACGTcount: A:0.21, C:0.29, G:0.31, T:0.19
Consensus pattern (50 bp):
TATAGCGCGGTGCAGGGGCGCGCTATACCCCACGTGGGTCACACTCAGCA
Found at i:4715885 original size:23 final size:24
Alignment explanation
Indices: 4715842--4715888 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
4715832 ATCTCAAACA
*
4715842 AAATTCTCAAATCCCTAAAATCCC
1 AAATACTCAAATCCCTAAAATCCC
4715866 AAATACTC-AATCCCGT-AAATCCC
1 AAATACTCAAATCCC-TAAAATCCC
4715889 TTTTATCGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.40, C:0.34, G:0.02, T:0.23
Consensus pattern (24 bp):
AAATACTCAAATCCCTAAAATCCC
Found at i:4742901 original size:6 final size:6
Alignment explanation
Indices: 4742890--4742917 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
4742880 GATACCCATC
4742890 AAAACA AAAACA AAAACA AAAACA AAAA
1 AAAACA AAAACA AAAACA AAAACA AAAA
4742918 AAACCCAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAACA
Found at i:4747372 original size:20 final size:21
Alignment explanation
Indices: 4747345--4747403 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
4747335 ATATATTTTC
4747345 ATAATAAA-ATAATAAAAAAA
1 ATAATAAATATAATAAAAAAA
* *
4747365 ATATTAAATATAAT-ATAAAA
1 ATAATAAATATAATAAAAAAA
*
4747385 ATAAAAAATATAATAAAAA
1 ATAATAAATATAATAAAAA
4747404 TTAAGATAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 24 0.75
21 8 0.25
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (21 bp):
ATAATAAATATAATAAAAAAA
Found at i:4747378 original size:29 final size:29
Alignment explanation
Indices: 4747345--4747401 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
4747335 ATATATTTTC
*
4747345 ATAATA-AAATAATAAAAAAAATATTAAAT
1 ATAATATAAA-AATAAAAAAAATAATAAAT
*
4747374 ATAATATAAAAATAAAAAATATAATAAA
1 ATAATATAAAAATAAAAAAAATAATAAA
4747402 AATTAAGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 22 0.88
30 3 0.12
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (29 bp):
ATAATATAAAAATAAAAAAAATAATAAAT
Found at i:4747644 original size:132 final size:134
Alignment explanation
Indices: 4747395--4747636 Score: 353
Period size: 132 Copynumber: 1.8 Consensus size: 134
4747385 ATAAAAAATA
* * *
4747395 TAATAAAAATTAAGATAAAATTTTGATTAAGCTAAAGTGGTTATAAAGTAGTATTTGTTCTAAAT
1 TAATAAAAACTAAGATAAAATTTTGATTAAACTAAAG-GGTTATAAAGTAATATTTGTTCTAAAT
* * * *
4747460 ACTCTTAATCATTTGACAATGAACGCTCACCCTATTGTTCAAACTCATGATCTCTAGAAACAACA
65 ACTCTCAATCATTTGAAAATGAACGCTCACCATACTGTTCAAACTCATGATCTCTAGAAACAACA
4747525 ACGAT
130 ACGAT
*
4747530 TAATAAAAACTAAGATAAATTTTTGATTAAACT-AA-GGTTATAAAGTAATATTTGTTCTAAATA
1 TAATAAAAACTAAGATAAAATTTTGATTAAACTAAAGGGTTATAAAGTAATATTTGTTCTAAATA
* * * *
4747593 CTCTCAATCATTTGAAAATGAATGCTCATCATGCTGTTTAAACT
66 CTCTCAATCATTTGAAAATGAACGCTCACCATACTGTTCAAACT
4747637 TGTGATCTAT
Statistics
Matches: 95, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
132 63 0.66
134 2 0.02
135 30 0.32
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.35
Consensus pattern (134 bp):
TAATAAAAACTAAGATAAAATTTTGATTAAACTAAAGGGTTATAAAGTAATATTTGTTCTAAATA
CTCTCAATCATTTGAAAATGAACGCTCACCATACTGTTCAAACTCATGATCTCTAGAAACAACAA
CGAT
Found at i:4764268 original size:18 final size:17
Alignment explanation
Indices: 4764236--4764275 Score: 64
Period size: 18 Copynumber: 2.4 Consensus size: 17
4764226 ATATTTTTAA
4764236 TATTT-TGTATTTAATT
1 TATTTATGTATTTAATT
4764252 TATTTATGTATTTTAATT
1 TATTTATGTA-TTTAATT
4764270 TATTTA
1 TATTTA
4764276 ATATTTTACT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 5 0.23
17 4 0.18
18 13 0.59
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (17 bp):
TATTTATGTATTTAATT
Found at i:4766378 original size:15 final size:15
Alignment explanation
Indices: 4766358--4766388 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4766348 TCAGGAGGAC
4766358 GACGACGATGACGAT
1 GACGACGATGACGAT
*
4766373 GACGACGATGATGAT
1 GACGACGATGACGAT
4766388 G
1 G
4766389 GTGATGATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.16, G:0.35, T:0.16
Consensus pattern (15 bp):
GACGACGATGACGAT
Found at i:4771065 original size:17 final size:14
Alignment explanation
Indices: 4771026--4771056 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
4771016 ATTTGTTTGT
*
4771026 GTTCGTTTATGTTC
1 GTTCATTTATGTTC
4771040 GTTCATTTATGTTC
1 GTTCATTTATGTTC
4771054 GTT
1 GTT
4771057 TATCATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.10, C:0.13, G:0.19, T:0.58
Consensus pattern (14 bp):
GTTCATTTATGTTC
Found at i:4773579 original size:26 final size:26
Alignment explanation
Indices: 4773550--4773607 Score: 116
Period size: 26 Copynumber: 2.2 Consensus size: 26
4773540 GCCGAGTCGA
4773550 ACTTGAGTATTGTTGAGCTCAGCTCG
1 ACTTGAGTATTGTTGAGCTCAGCTCG
4773576 ACTTGAGTATTGTTGAGCTCAGCTCG
1 ACTTGAGTATTGTTGAGCTCAGCTCG
4773602 ACTTGA
1 ACTTGA
4773608 AAACTCTGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (26 bp):
ACTTGAGTATTGTTGAGCTCAGCTCG
Found at i:4786713 original size:17 final size:18
Alignment explanation
Indices: 4786676--4786716 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
4786666 ATATTATGTA
*
4786676 TTTAATTTATTTAAGTAT
1 TTTACTTTATTTAAGTAT
4786694 TTTACTTTATTTAAG-AT
1 TTTACTTTATTTAAGTAT
4786711 TTTACT
1 TTTACT
4786717 AATATAATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (18 bp):
TTTACTTTATTTAAGTAT
Found at i:4788999 original size:26 final size:24
Alignment explanation
Indices: 4788928--4788999 Score: 62
Period size: 26 Copynumber: 3.0 Consensus size: 24
4788918 TTATATTTGT
4788928 ATTTACTTTATTTTGTTAAATTGTA
1 ATTTACTTTATTTTGTTAAATT-TA
*
4788953 ATTT--TTTATTATT-TCT-CATTTA
1 ATTTACTTTATT-TTGT-TAAATTTA
4788975 ATACTTACTTTATTTTGTTAAATTT
1 AT--TTACTTTATTTTGTTAAATTT
4789000 GTTGGACTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 15
0.69 0.04 0.28
Matches are distributed among these distances:
22 4 0.11
23 10 0.27
24 5 0.14
25 7 0.19
26 11 0.30
ACGTcount: A:0.26, C:0.07, G:0.04, T:0.62
Consensus pattern (24 bp):
ATTTACTTTATTTTGTTAAATTTA
Found at i:4789066 original size:35 final size:33
Alignment explanation
Indices: 4789026--4789110 Score: 91
Period size: 35 Copynumber: 2.5 Consensus size: 33
4789016 GTATTTCAGT
4789026 TAATTTTGTT-TATTACCATTTAATATCAGTTATTG
1 TAATTTTGTTATATTACCATTTAATA-C--TTATTG
*
4789061 TAATTTGGTTATCATTTACCATTTAATACTTATTG
1 TAATTTTGTTAT-A-TTACCATTTAATACTTATTG
* *
4789096 TAAGTTTGTTGTATT
1 TAATTTTGTTATATT
4789111 TAAAATTATA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
33 2 0.05
34 1 0.02
35 24 0.56
36 1 0.02
37 2 0.05
38 13 0.30
ACGTcount: A:0.27, C:0.08, G:0.11, T:0.54
Consensus pattern (33 bp):
TAATTTTGTTATATTACCATTTAATACTTATTG
Found at i:4790211 original size:30 final size:30
Alignment explanation
Indices: 4790155--4790277 Score: 212
Period size: 30 Copynumber: 4.1 Consensus size: 30
4790145 GAAGGACCTA
* * *
4790155 TCCAGAGGTCACAAAGA-CCCCGGTAACTA
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
4790184 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
4790214 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
4790244 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
4790274 TCCA
1 TCCA
4790278 TATGTTCCGT
Statistics
Matches: 90, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
29 16 0.18
30 74 0.82
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (30 bp):
TCCAGAGGTCATAAAGATCCTCGGTAACTG
Found at i:4790308 original size:31 final size:30
Alignment explanation
Indices: 4790266--4790363 Score: 128
Period size: 31 Copynumber: 3.2 Consensus size: 30
4790256 AAAGATCCTC
4790266 GGTAACTGTCCATATGTTCCGTAGAACATA
1 GGTAACTGTCCATATGTTCCGTAGAACATA
*
4790296 GGTATACTGTCCATATG-TCTCG-AAAGACATA
1 GGTA-ACTGTCCATATGTTC-CGTAGA-ACATA
4790327 GGTAAAACTGTCCATATGTTCCGTAGAACATA
1 GGT--AACTGTCCATATGTTCCGTAGAACATA
4790359 GGTAA
1 GGTAA
4790364 ACCCTCGACT
Statistics
Matches: 59, Mismatches: 2, Indels: 14
0.79 0.03 0.19
Matches are distributed among these distances:
30 10 0.17
31 22 0.37
32 22 0.37
33 5 0.08
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (30 bp):
GGTAACTGTCCATATGTTCCGTAGAACATA
Found at i:4791227 original size:21 final size:21
Alignment explanation
Indices: 4791197--4791241 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
4791187 ATTCTGTCGT
* *
4791197 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
4791218 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
4791239 TTG
1 TTG
4791242 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:4795697 original size:30 final size:30
Alignment explanation
Indices: 4795641--4795763 Score: 212
Period size: 30 Copynumber: 4.1 Consensus size: 30
4795631 GAAGGACCTA
* * *
4795641 TCCAGAGGTCACAAAGA-CCCCGGTAACTA
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
4795670 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
4795700 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
4795730 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
4795760 TCCA
1 TCCA
4795764 TATGTTCCGT
Statistics
Matches: 90, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
29 16 0.18
30 74 0.82
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (30 bp):
TCCAGAGGTCATAAAGATCCTCGGTAACTG
Found at i:4795794 original size:31 final size:30
Alignment explanation
Indices: 4795752--4795849 Score: 128
Period size: 31 Copynumber: 3.2 Consensus size: 30
4795742 AAAGATCCTC
4795752 GGTAACTGTCCATATGTTCCGTAGAACATA
1 GGTAACTGTCCATATGTTCCGTAGAACATA
*
4795782 GGTATACTGTCCATATG-TCTCG-AAAGACATA
1 GGTA-ACTGTCCATATGTTC-CGTAGA-ACATA
4795813 GGTAAAACTGTCCATATGTTCCGTAGAACATA
1 GGT--AACTGTCCATATGTTCCGTAGAACATA
4795845 GGTAA
1 GGTAA
4795850 ACCCTCGACT
Statistics
Matches: 59, Mismatches: 2, Indels: 14
0.79 0.03 0.19
Matches are distributed among these distances:
30 10 0.17
31 22 0.37
32 22 0.37
33 5 0.08
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (30 bp):
GGTAACTGTCCATATGTTCCGTAGAACATA
Found at i:4796712 original size:20 final size:21
Alignment explanation
Indices: 4796683--4796726 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
4796673 ATTCTGTCGT
*
4796683 TTGAAGGGGTATCG-TTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
4796703 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
4796724 TTG
1 TTG
4796727 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.16, C:0.25, G:0.27, T:0.32
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:4809982 original size:69 final size:69
Alignment explanation
Indices: 4809938--4810308 Score: 539
Period size: 69 Copynumber: 5.4 Consensus size: 69
4809928 CTTATCTATT
* *
4809938 TTTGCAGACTCTGTTCCAAGCACCCCTGCTTATGCAGATAACATGTTCAAGGGGAAGAGTTCATC
1 TTTGCAGACTCTGTTCCAAGCACCCCTGCCTATGCGGATAACATGTTCAAGGGGAAGAGTTCATC
4810003 CTTG
66 CTTG
* * *
4810007 TTTGCAGATTCTGTTCCAAGCACCCCTGCCTATGTGGATAACGTGTTC-AGGGGACAGAGTTCAT
1 TTTGCAGACTCTGTTCCAAGCACCCCTGCCTATGCGGATAACATGTTCAAGGGGA-AGAGTTCAT
4810071 CCTTG
65 CCTTG
* *
4810076 TTTGCAGACTCCGTTCCAAGCACTCCTGCCTATGCGGATAACATGTTCAAGGGGAAGAGTTCATC
1 TTTGCAGACTCTGTTCCAAGCACCCCTGCCTATGCGGATAACATGTTCAAGGGGAAGAGTTCATC
4810141 CTTG
66 CTTG
* * **
4810145 TTTGCAGACTCTGTTCCAAGCACTCCTGCCTATGCGGATAATATGTTCAAGGGTCAGAGTTCATC
1 TTTGCAGACTCTGTTCCAAGCACCCCTGCCTATGCGGATAACATGTTCAAGGGGAAGAGTTCATC
4810210 CTTG
66 CTTG
* * * * *
4810214 TTTGCAGATTCTGTTCCAAGCACTCCTGCCTATGTGGATAACATGTTCAAGGGGAAGAGCTCTTC
1 TTTGCAGACTCTGTTCCAAGCACCCCTGCCTATGCGGATAACATGTTCAAGGGGAAGAGTTCATC
*
4810279 TCCT-
66 -CTTG
* *
4810283 TTTGCGGATTCTGTTCCAAGCACCCC
1 TTTGCAGACTCTGTTCCAAGCACCCC
4810309 ATCTTACCAT
Statistics
Matches: 275, Mismatches: 24, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
68 6 0.02
69 261 0.95
70 8 0.03
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (69 bp):
TTTGCAGACTCTGTTCCAAGCACCCCTGCCTATGCGGATAACATGTTCAAGGGGAAGAGTTCATC
CTTG
Found at i:4823341 original size:27 final size:27
Alignment explanation
Indices: 4823303--4823367 Score: 130
Period size: 27 Copynumber: 2.4 Consensus size: 27
4823293 AAAATACTGT
4823303 TGAATGATTCAACATTAAAGTACATTC
1 TGAATGATTCAACATTAAAGTACATTC
4823330 TGAATGATTCAACATTAAAGTACATTC
1 TGAATGATTCAACATTAAAGTACATTC
4823357 TGAATGATTCA
1 TGAATGATTCA
4823368 GAACTATTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (27 bp):
TGAATGATTCAACATTAAAGTACATTC
Found at i:4824028 original size:14 final size:13
Alignment explanation
Indices: 4824008--4824041 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
4823998 TTTTAGCAAA
*
4824008 TTCATTTCTTTCT
1 TTCATTTCTTACT
4824021 TTCTATTTCTTACT
1 TTC-ATTTCTTACT
4824035 TTCATTT
1 TTCATTT
4824042 ATATTCTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.12, C:0.21, G:0.00, T:0.68
Consensus pattern (13 bp):
TTCATTTCTTACT
Found at i:4826822 original size:18 final size:18
Alignment explanation
Indices: 4826799--4826837 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
4826789 TGGTTTATCA
*
4826799 GTCCACATCTCCATTGGT
1 GTCCACATATCCATTGGT
4826817 GTCCACATATCCATTGGT
1 GTCCACATATCCATTGGT
4826835 GTC
1 GTC
4826838 TTCAGCTCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.18, C:0.31, G:0.18, T:0.33
Consensus pattern (18 bp):
GTCCACATATCCATTGGT
Found at i:4837885 original size:28 final size:28
Alignment explanation
Indices: 4837842--4837897 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
4837832 TTGCTCTTGC
4837842 CAAACCTTTGCCTAAGGCCCAGTTTACT
1 CAAACCTTTGCCTAAGGCCCAGTTTACT
*
4837870 CAAACCTTTGCTTAAGGCCCAGTTTACT
1 CAAACCTTTGCCTAAGGCCCAGTTTACT
4837898 TTCTTTTGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.25, C:0.30, G:0.14, T:0.30
Consensus pattern (28 bp):
CAAACCTTTGCCTAAGGCCCAGTTTACT
Found at i:4839231 original size:31 final size:31
Alignment explanation
Indices: 4839196--4839254 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
4839186 GGGTGACCAT
* *
4839196 ATCTTAATTAGATAAAAATAAAAGTGACGAC
1 ATCTTAATTAAATAAAAACAAAAGTGACGAC
*
4839227 ATCTTAATTAAATAAAAACGAAAGTGAC
1 ATCTTAATTAAATAAAAACAAAAGTGAC
4839255 CATATCGTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.53, C:0.10, G:0.12, T:0.25
Consensus pattern (31 bp):
ATCTTAATTAAATAAAAACAAAAGTGACGAC
Found at i:4839873 original size:15 final size:14
Alignment explanation
Indices: 4839840--4839879 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
4839830 ACAGTTAGGG
*
4839840 TTTAGGGTTTAGAA
1 TTTAGGGTTTAAAA
*
4839854 TTTAGGATTTAAATA
1 TTTAGGGTTTAAA-A
4839869 TTTAGGGTTTA
1 TTTAGGGTTTA
4839880 GGGTTTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (14 bp):
TTTAGGGTTTAAAA
Found at i:4839936 original size:36 final size:37
Alignment explanation
Indices: 4839890--4839968 Score: 135
Period size: 36 Copynumber: 2.2 Consensus size: 37
4839880 GGGTTTGTAT
4839890 TATATAATTAATATAAAATA-TATAAAATATTA-TATA
1 TATATAATTAATATAAAA-AGTATAAAATATTATTATA
4839926 TATATAATTAATATAAAAAGTATAAAATATTATTATA
1 TATATAATTAATATAAAAAGTATAAAATATTATTATA
4839963 TATATA
1 TATATA
4839969 TATATATATA
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
35 1 0.02
36 30 0.73
37 10 0.24
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (37 bp):
TATATAATTAATATAAAAAGTATAAAATATTATTATA
Found at i:4839976 original size:36 final size:36
Alignment explanation
Indices: 4839887--4839976 Score: 111
Period size: 36 Copynumber: 2.6 Consensus size: 36
4839877 TTAGGGTTTG
4839887 TATTATATA-AT-TA-ATATAAAATATATAAAATAT
1 TATTATATATATATATATATAAAATATATAAAATAT
4839920 TA-TATATATATA-ATTAATATAAAA-AGTATAAAATAT
1 TATTATATATATATA-T-ATATAAAATA-TATAAAATAT
4839956 TATTATATATATATATATATA
1 TATTATATATATATATATATA
4839977 TATAATCGGG
Statistics
Matches: 49, Mismatches: 0, Indels: 13
0.79 0.00 0.21
Matches are distributed among these distances:
32 6 0.12
33 5 0.10
35 1 0.02
36 25 0.51
37 11 0.22
38 1 0.02
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (36 bp):
TATTATATATATATATATATAAAATATATAAAATAT
Found at i:4840381 original size:17 final size:18
Alignment explanation
Indices: 4840348--4840381 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
4840338 ATTAGTTTAA
*
4840348 AATATATATACATAATTT
1 AATATATATAAATAATTT
4840366 AATATA-ATAAATAATT
1 AATATATATAAATAATT
4840382 AAAATTATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (18 bp):
AATATATATAAATAATTT
Found at i:4845758 original size:2 final size:2
Alignment explanation
Indices: 4845751--4845780 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
4845741 GTTGAAAATT
4845751 TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4845781 TTACGTAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:4845792 original size:21 final size:21
Alignment explanation
Indices: 4845750--4845793 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
4845740 TGTTGAAAAT
* *
4845750 TTATATATATATATATATATA
1 TTATATATATATACATAGATA
* *
4845771 TTATATATATTTACGTAGATA
1 TTATATATATATACATAGATA
4845792 TT
1 TT
4845794 GTTAATATAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (21 bp):
TTATATATATATACATAGATA
Found at i:4847909 original size:23 final size:23
Alignment explanation
Indices: 4847862--4847906 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
4847852 TATAAAAAAT
4847862 TATTTTTTATTAAATATTTTTAA
1 TATTTTTTATTAAATATTTTTAA
*
4847885 TATTTTTTATTTAAT-TTTTTAA
1 TATTTTTTATTAAATATTTTTAA
4847907 ATAATTATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (23 bp):
TATTTTTTATTAAATATTTTTAA
Found at i:4851215 original size:17 final size:18
Alignment explanation
Indices: 4851184--4851219 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
4851174 TTTATAACTG
*
4851184 ATTTTTTTATTTATTAAT
1 ATTTTTTTATATATTAAT
4851202 ATTTTTTTA-ATATTAAT
1 ATTTTTTTATATATTAAT
4851219 A
1 A
4851220 AATTTAAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTTTTTATATATTAAT
Found at i:4854030 original size:2 final size:2
Alignment explanation
Indices: 4854023--4854060 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
4854013 TCTCATATGA
4854023 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4854061 GAAGAATCTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4855844 original size:14 final size:13
Alignment explanation
Indices: 4855817--4855842 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4855807 AAATATATGG
4855817 ATTTTTGAAATTT
1 ATTTTTGAAATTT
4855830 ATTTTTGAAATTT
1 ATTTTTGAAATTT
4855843 TAAATATATT
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:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
ATTTTTGAAATTT
Found at i:4862173 original size:37 final size:38
Alignment explanation
Indices: 4862091--4862177 Score: 140
Period size: 38 Copynumber: 2.3 Consensus size: 38
4862081 TAAACCCGAA
* *
4862091 CCGATCCGACCCGACCCGAATATCACACTTAAAAAAAT
1 CCGACCCGACTCGACCCGAATATCACACTTAAAAAAAT
*
4862129 CCAACCCGACTCGACCCGAATATCACACTT-AAAAAAT
1 CCGACCCGACTCGACCCGAATATCACACTTAAAAAAAT
4862166 CCGACCCGACTC
1 CCGACCCGACTC
4862178 AAACAAAATA
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
37 18 0.40
38 27 0.60
ACGTcount: A:0.37, C:0.38, G:0.10, T:0.15
Consensus pattern (38 bp):
CCGACCCGACTCGACCCGAATATCACACTTAAAAAAAT
Found at i:4869993 original size:34 final size:32
Alignment explanation
Indices: 4869931--4870000 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
4869921 ACCTTACAAC
* *
4869931 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGATAAACTAGAACCTT
*
4869963 TCCCTAGCTTTTACACGGGATAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGATAAACTAGAACCTT
4869997 TCCC
1 TCCC
4870001 CTTTACAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGATAAACTAGAACCTT
Found at i:4870309 original size:21 final size:21
Alignment explanation
Indices: 4870283--4870324 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
4870273 ATGGAATAGG
* *
4870283 GGGAATCGGTACCCTTTCATA
1 GGGAATCGATACCCCTTCATA
4870304 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
4870325 ATATTCAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:4870556 original size:29 final size:31
Alignment explanation
Indices: 4870524--4870583 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
4870514 AAATTTTGAA
*
4870524 TAAATTCAATT-AAGTCCAAATA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
4870553 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
4870584 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.35
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:4873438 original size:13 final size:13
Alignment explanation
Indices: 4873422--4873468 Score: 67
Period size: 13 Copynumber: 3.6 Consensus size: 13
4873412 GCAATGAGCG
4873422 TCATAAATGCGCA
1 TCATAAATGCGCA
* *
4873435 TCATAAATGTGTA
1 TCATAAATGCGCA
*
4873448 TCATAAATGCGCG
1 TCATAAATGCGCA
4873461 TCATAAAT
1 TCATAAAT
4873469 TTATGACGCA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (13 bp):
TCATAAATGCGCA
Found at i:4873443 original size:26 final size:26
Alignment explanation
Indices: 4873414--4873468 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
4873404 AATGATGCGC
*
4873414 AATGAGCGTCATAAATGCGCATCATA
1 AATGAGCATCATAAATGCGCATCATA
* * *
4873440 AATGTGTATCATAAATGCGCGTCATA
1 AATGAGCATCATAAATGCGCATCATA
4873466 AAT
1 AAT
4873469 TTATGACGCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.27
Consensus pattern (26 bp):
AATGAGCATCATAAATGCGCATCATA
Found at i:4875885 original size:2 final size:2
Alignment explanation
Indices: 4875878--4875935 Score: 89
Period size: 2 Copynumber: 29.0 Consensus size: 2
4875868 GACGGGCCTC
*
4875878 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
4875920 AT AT GT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT
4875936 GTATGTGTAT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4875936 original size:6 final size:6
Alignment explanation
Indices: 4875878--4875989 Score: 97
Period size: 6 Copynumber: 19.3 Consensus size: 6
4875868 GACGGGCCTC
* * * * * *
4875878 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
* *
4875926 ATATGT ATATG- -TATGT GTATGT ATATG- -TATGT GTATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
* * *
4875970 ATGTGT ATGTGT ATGTGT AT
1 ATATGT ATATGT ATATGT AT
4875990 GTTCTTGGAT
Statistics
Matches: 98, Mismatches: 4, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
4 8 0.08
6 90 0.92
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (6 bp):
ATATGT
Found at i:4875940 original size:16 final size:16
Alignment explanation
Indices: 4875881--4875991 Score: 105
Period size: 16 Copynumber: 6.8 Consensus size: 16
4875871 GGGCCTCATA
* * *
4875881 TATATATATATATATA
1 TATATGTATATGTATG
* * *
4875897 TATATATATATATATA
1 TATATGTATATGTATG
4875913 TATATGTATATGTATATG
1 TATATGTATATG--TATG
*
4875931 TATATGTATGTGTATG
1 TATATGTATATGTATG
*
4875947 TATATGTATGTGTATG
1 TATATGTATATGTATG
*
4875963 TATATGTATGTGTATG
1 TATATGTATATGTATG
* *
4875979 TGTATGTGTATGT
1 TATATGTATATGT
4875992 TCTTGGATAG
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
16 72 0.84
18 14 0.16
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.50
Consensus pattern (16 bp):
TATATGTATATGTATG
Found at i:4876429 original size:12 final size:13
Alignment explanation
Indices: 4876414--4876467 Score: 71
Period size: 12 Copynumber: 4.4 Consensus size: 13
4876404 TTTCTCTAGT
4876414 TCTTT-CCCTTGC
1 TCTTTGCCCTTGC
4876426 TC-TTGCCCTTGC
1 TCTTTGCCCTTGC
4876438 -CTTTGCCCTTGC
1 TCTTTGCCCTTGC
4876450 -CTTTGCCCTTGAC
1 TCTTTGCCCTTG-C
4876463 TCTTT
1 TCTTT
4876468 AAGAGGGGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.08
12 30 0.79
13 1 0.03
14 4 0.11
ACGTcount: A:0.02, C:0.39, G:0.13, T:0.46
Consensus pattern (13 bp):
TCTTTGCCCTTGC
Found at i:4876436 original size:6 final size:6
Alignment explanation
Indices: 4876419--4876460 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
4876409 CTAGTTCTTT
* * *
4876419 CCCTTG CTCTTG CCCTTG CCTTTG CCCTTG CCTTTG CCCTTG
1 CCCTTG CCCTTG CCCTTG CCCTTG CCCTTG CCCTTG CCCTTG
4876461 ACTCTTTAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.00, C:0.43, G:0.17, T:0.40
Consensus pattern (6 bp):
CCCTTG
Found at i:4876443 original size:18 final size:18
Alignment explanation
Indices: 4876419--4876466 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
4876409 CTAGTTCTTT
4876419 CCCTTGCTCTTGCCCTTG
1 CCCTTGCTCTTGCCCTTG
* * *
4876437 CCTTTGCCCTTGCCTTTG
1 CCCTTGCTCTTGCCCTTG
4876455 CCCTTGACTCTT
1 CCCTTG-CTCTT
4876467 TAAGAGGGGT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.02, C:0.42, G:0.15, T:0.42
Consensus pattern (18 bp):
CCCTTGCTCTTGCCCTTG
Found at i:4877896 original size:13 final size:14
Alignment explanation
Indices: 4877874--4877907 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
4877864 GTTCATCTCA
*
4877874 ATTTATAATTAA-T
1 ATTTAAAATTAATT
4877887 ATTTAAAATTAATT
1 ATTTAAAATTAATT
4877901 ATTTAAA
1 ATTTAAA
4877908 TGTTTTCTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTTAAAATTAATT
Found at i:4880791 original size:23 final size:23
Alignment explanation
Indices: 4880746--4880794 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
4880736 ATCCATAAAA
* *
4880746 ATTAAATAAATATCTTCATAAAT
1 ATTAAATAAATATATTCACAAAT
*
4880769 ATTAAATAAATATATTTACAAAT
1 ATTAAATAAATATATTCACAAAT
4880792 ATT
1 ATT
4880795 CAAGAACATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (23 bp):
ATTAAATAAATATATTCACAAAT
Found at i:4882697 original size:105 final size:105
Alignment explanation
Indices: 4882588--4882807 Score: 413
Period size: 105 Copynumber: 2.1 Consensus size: 105
4882578 ATACCCTAGG
*
4882588 TAAGGGTATCGATATTGAGTTATATTTTCAAACACAGAACCTCATTTTGGGATCAATACCCAAGA
1 TAAGGGTATCGATATTGAGTTATATTTTCAAACACAGAACCTCAATTTGGGATCAATACCCAAGA
4882653 TGGTATCGGTACCCTAATAGAGAAGTATTGATACTTCACC
66 TGGTATCGGTACCCTAATAGAGAAGTATTGATACTTCACC
*
4882693 TAAGGGTATCGATATTGAGTTATATTTTCAAACACCGAACCTCAATTTGGGATCAATACCCAAGA
1 TAAGGGTATCGATATTGAGTTATATTTTCAAACACAGAACCTCAATTTGGGATCAATACCCAAGA
4882758 TGGTATCGGTACCCTAATAGAGAAGTATTGATACTTCACC
66 TGGTATCGGTACCCTAATAGAGAAGTATTGATACTTCACC
*
4882798 CAAGGGTATC
1 TAAGGGTATC
4882808 AATACTGTAA
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
105 112 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (105 bp):
TAAGGGTATCGATATTGAGTTATATTTTCAAACACAGAACCTCAATTTGGGATCAATACCCAAGA
TGGTATCGGTACCCTAATAGAGAAGTATTGATACTTCACC
Found at i:4882861 original size:105 final size:104
Alignment explanation
Indices: 4882589--4882837 Score: 329
Period size: 105 Copynumber: 2.4 Consensus size: 104
4882579 TACCCTAGGT
* * * * * *
4882589 AAGGGTATCGATATTGAGTTATATTTTCAAACACAGAACCTCATTTTGGGATCAATACCCAAGAT
1 AAGGGTATCAATATTAAG-TATATTCTCAAACACCGAACCTCAATTTGAGATCAATACCCAAGAT
*
4882654 GGTATCGGTACCCTAATAGAGAAGTATTGATACTTCACCT
65 GGTATCGGTACCCTAATAGAGAAGTATTGATACTTCACCC
* * * *
4882694 AAGGGTATCGATATTGAGTTATATTTTCAAACACCGAACCTCAATTTGGGATCAATACCCAAGAT
1 AAGGGTATCAATATTAAG-TATATTCTCAAACACCGAACCTCAATTTGAGATCAATACCCAAGAT
4882759 GGTATCGGTACCCTAATAGAGAAGTATTGATACTTCACCC
65 GGTATCGGTACCCTAATAGAGAAGTATTGATACTTCACCC
* *
4882799 AAGGGTATCAATACTGTAAG-GTATTCTCATAACATCGAA
1 AAGGGTATCAATA-T-TAAGTATATTCTCA-AACACCGAA
4882838 TGTAATTCTG
Statistics
Matches: 133, Mismatches: 8, Indels: 5
0.91 0.05 0.03
Matches are distributed among these distances:
105 121 0.91
106 9 0.07
107 3 0.02
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.29
Consensus pattern (104 bp):
AAGGGTATCAATATTAAGTATATTCTCAAACACCGAACCTCAATTTGAGATCAATACCCAAGATG
GTATCGGTACCCTAATAGAGAAGTATTGATACTTCACCC
Found at i:4883229 original size:22 final size:22
Alignment explanation
Indices: 4883201--4883247 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
4883191 ACAAACACCC
4883201 TAAATACTCTCATGGAATAAAT
1 TAAATACTCTCATGGAATAAAT
*
4883223 TAAATACTCTCGTGGAATAAAT
1 TAAATACTCTCATGGAATAAAT
4883245 TAA
1 TAA
4883248 TCGAGTGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.45, C:0.13, G:0.11, T:0.32
Consensus pattern (22 bp):
TAAATACTCTCATGGAATAAAT
Found at i:4886769 original size:25 final size:23
Alignment explanation
Indices: 4886741--4886787 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
4886731 TTAAATTCAT
4886741 AATATTTCATATATATTAACTTAAA
1 AATATTT-ATAT-TATTAACTTAAA
*
4886766 AATATTTTTATTATTAACTTAA
1 AATATTTATATTATTAACTTAA
4886788 TTTAAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 11 0.52
24 3 0.14
25 7 0.33
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (23 bp):
AATATTTATATTATTAACTTAAA
Found at i:4889358 original size:12 final size:12
Alignment explanation
Indices: 4889341--4889369 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
4889331 TTAAAAAATA
4889341 ATTAATAATTTT
1 ATTAATAATTTT
4889353 ATTAATAATTTT
1 ATTAATAATTTT
4889365 ATTAA
1 ATTAA
4889370 AAAACAATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
ATTAATAATTTT
Found at i:4892108 original size:21 final size:21
Alignment explanation
Indices: 4892084--4892144 Score: 113
Period size: 21 Copynumber: 2.9 Consensus size: 21
4892074 TTTTCAAAGG
4892084 CATGCACCGATGCATCAATAC
1 CATGCACCGATGCATCAATAC
4892105 CATGCACCGATGCATCAATAC
1 CATGCACCGATGCATCAATAC
*
4892126 CATGCATCGATGCATCAAT
1 CATGCACCGATGCATCAAT
4892145 GAATAAGTTG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.33, C:0.31, G:0.15, T:0.21
Consensus pattern (21 bp):
CATGCACCGATGCATCAATAC
Found at i:4892194 original size:19 final size:19
Alignment explanation
Indices: 4892170--4892208 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
4892160 TCGAATGCAT
4892170 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
4892189 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
4892208 T
1 T
4892209 GATTTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:4892233 original size:64 final size:65
Alignment explanation
Indices: 4892104--4892332 Score: 206
Period size: 64 Copynumber: 3.5 Consensus size: 65
4892094 TGCATCAATA
* *
4892104 CCATGCACCGATGCA-TCAATACCATGCATCGATGCA-TCAATGA-ATAAGTTGAAACATCGAAT
1 CCATGCACCGATGCACTC--T-CCATGCATCGATGCACTC-ATGATTTAA-TTAAAACATCGAAT
4892166 GCATT
61 GCATT
4892171 CCATGCACCGATGCACTCTCCATGCATCGATGCACTC-TGATTTAATTAAAACATCGAATGCATT
1 CCATGCACCGATGCACTCTCCATGCATCGATGCACTCATGATTTAATTAAAACATCGAATGCATT
** * ** * *
4892235 TGATGCATCGATGCACAATCCATGCATCGATGCAC-CAGGCTATTT--TTCAAACATCGAATGCA
1 CCATGCACCGATGCACTCTCCATGCATCGATGCACTCATG--ATTTAATTAAAACATCGAATGCA
4892297 CTT
64 -TT
* * *
4892300 -TATGCATCGATGCACTCT-TAGTGCATCGATGCA
1 CCATGCACCGATGCACTCTCCA-TGCATCGATGCA
4892333 GAGTGCATCG
Statistics
Matches: 141, Mismatches: 13, Indels: 19
0.82 0.08 0.11
Matches are distributed among these distances:
63 2 0.01
64 95 0.67
65 20 0.14
66 7 0.05
67 15 0.11
68 2 0.01
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.27
Consensus pattern (65 bp):
CCATGCACCGATGCACTCTCCATGCATCGATGCACTCATGATTTAATTAAAACATCGAATGCATT
Found at i:4892309 original size:18 final size:19
Alignment explanation
Indices: 4892286--4892332 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
4892276 ATTTTTCAAA
4892286 CATCGAATGCACT-TTA-TG
1 CATCG-ATGCACTCTTAGTG
4892304 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTTAGTG
4892323 CATCGATGCA
1 CATCGATGCA
4892333 GAGTGCATCG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.26
18 8 0.30
19 12 0.44
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.30
Consensus pattern (19 bp):
CATCGATGCACTCTTAGTG
Found at i:4892339 original size:15 final size:15
Alignment explanation
Indices: 4892319--4892347 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
4892309 ATGCACTCTT
4892319 AGTGCATCGATGCAG
1 AGTGCATCGATGCAG
4892334 AGTGCATCGATGCA
1 AGTGCATCGATGCA
4892348 CTAGGAGTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.21, G:0.31, T:0.21
Consensus pattern (15 bp):
AGTGCATCGATGCAG
Found at i:4898151 original size:24 final size:23
Alignment explanation
Indices: 4898123--4898202 Score: 94
Period size: 24 Copynumber: 3.5 Consensus size: 23
4898113 CACTTAACAA
4898123 TGCATCGATGCATCCCTTTGAATG
1 TGCATCGATGCATCCC-TTGAATG
*
4898147 TGCATCGATGCATCCACATG-A--
1 TGCATCGATGCATCC-CTTGAATG
* *
4898168 TGCACCGATGCATGCCTTGAATG
1 TGCATCGATGCATCCCTTGAATG
4898191 TGCATCGATGCA
1 TGCATCGATGCA
4898203 CAAGACCATG
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
20 3 0.06
21 14 0.30
23 12 0.26
24 17 0.36
25 1 0.02
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.28
Consensus pattern (23 bp):
TGCATCGATGCATCCCTTGAATG
Found at i:4900770 original size:21 final size:21
Alignment explanation
Indices: 4900746--4900785 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
4900736 TTTTCAAAGG
4900746 CATGCATCGATGCATCAATAC
1 CATGCATCGATGCATCAATAC
4900767 CATGCATCGATGCATCAAT
1 CATGCATCGATGCATCAAT
4900786 GAATAAGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.25
Consensus pattern (21 bp):
CATGCATCGATGCATCAATAC
Found at i:4900835 original size:19 final size:19
Alignment explanation
Indices: 4900811--4900849 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
4900801 TCGAATGCAT
*
4900811 TCCATGCACCGATGTACTC
1 TCCATGCACCGATGCACTC
*
4900830 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
4900849 T
1 T
4900850 GATTTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.36, G:0.15, T:0.28
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:4900874 original size:64 final size:65
Alignment explanation
Indices: 4900746--4900910 Score: 192
Period size: 64 Copynumber: 2.5 Consensus size: 65
4900736 TTTTCAAAGG
* *
4900746 CATGCATCGATGCATCAATACCATGCATCGATGCA-TCAATGAATAAGTTGAAACATCGAATGCA
1 CATGCACCGATGCA-CAAT-CCATGCATCGATGCACTC-ATGAATAAGTTAAAACATCGAATGCA
4900810 TTC
63 TTC
* ** *
4900813 CATGCACCGATGTACTCTCCATGCATCGATGCACTC-TGATTTAA-TTAAAACATCGAATGCATT
1 CATGCACCGATGCACAATCCATGCATCGATGCACTCATGA-ATAAGTTAAAACATCGAATGCATT
*
4900876 T
65 C
* *
4900877 GATGCATCGATGCACAATCCATGCATCGATGCAC
1 CATGCACCGATGCACAATCCATGCATCGATGCAC
4900911 CAGGCTATTT
Statistics
Matches: 84, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
64 50 0.60
65 18 0.21
66 4 0.05
67 12 0.14
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (65 bp):
CATGCACCGATGCACAATCCATGCATCGATGCACTCATGAATAAGTTAAAACATCGAATGCATTC
Found at i:4900928 original size:64 final size:63
Alignment explanation
Indices: 4900796--4900955 Score: 171
Period size: 64 Copynumber: 2.5 Consensus size: 63
4900786 GAATAAGTTG
* * * ** *
4900796 AAACATCGAATGCATTCCATGCACCGATGTACTCTCCATGCATCGATGCA-C-TCTGATTTAATT
1 AAACATCGAATGCATTTCATGCATCGATGCACAATCCATGCATCGATGCACCAGCT-ATTT--TT
4900859 A
63 A
* *
4900860 AAACATCGAATGCATTTGATGCATCGATGCACAATCCATGCATCGATGCACCAGGCTATTTTTC
1 AAACATCGAATGCATTTCATGCATCGATGCACAATCCATGCATCGATGCACCA-GCTATTTTTA
* * *
4900924 AAACATCGAATGCACTTCATGCGTCAATGCAC
1 AAACATCGAATGCATTTCATGCATCGATGCAC
4900956 TCTTAGTGCA
Statistics
Matches: 81, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
64 74 0.91
65 1 0.01
66 4 0.05
67 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.28
Consensus pattern (63 bp):
AAACATCGAATGCATTTCATGCATCGATGCACAATCCATGCATCGATGCACCAGCTATTTTTA
Found at i:4913145 original size:14 final size:14
Alignment explanation
Indices: 4913106--4913157 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 14
4913096 GTCAAAAAAG
4913106 AATAAAGTAAAGATA
1 AATAAAGTAAA-ATA
4913121 AACTAGTAAGTAAAATA
1 AA-TA--AAGTAAAATA
4913138 AATAAAGT-AAATAA
1 AATAAAGTAAAAT-A
4913152 AATAAA
1 AATAAA
4913158 TATAAAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
13 4 0.12
14 11 0.33
15 2 0.06
16 4 0.12
17 5 0.15
18 7 0.21
ACGTcount: A:0.67, C:0.02, G:0.10, T:0.21
Consensus pattern (14 bp):
AATAAAGTAAAATA
Found at i:4913146 original size:18 final size:18
Alignment explanation
Indices: 4913125--4913159 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
4913115 AAGATAAACT
*
4913125 AGTAAGTAAAATAAATAA
1 AGTAAATAAAATAAATAA
4913143 AGTAAATAAAATAAATA
1 AGTAAATAAAATAAATA
4913160 TAAAAAATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.23
Consensus pattern (18 bp):
AGTAAATAAAATAAATAA
Found at i:4913148 original size:9 final size:9
Alignment explanation
Indices: 4913131--4913181 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
4913121 AACTAGTAAG
4913131 TAAAATAAA
1 TAAAATAAA
*
4913140 TAAAGTAAA
1 TAAAATAAA
4913149 TAAAATAAA
1 TAAAATAAA
4913158 TATAAA-AAA
1 TA-AAATAAA
**
4913167 TGAAGGTAAA
1 T-AAAATAAA
4913177 TAAAA
1 TAAAA
4913182 AGAAAATCAG
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
9 25 0.76
10 8 0.24
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.22
Consensus pattern (9 bp):
TAAAATAAA
Found at i:4913455 original size:11 final size:12
Alignment explanation
Indices: 4913436--4913468 Score: 59
Period size: 11 Copynumber: 2.8 Consensus size: 12
4913426 TATGTAAGAA
4913436 AATAATAATAGT
1 AATAATAATAGT
4913448 AA-AATAATAGT
1 AATAATAATAGT
4913459 AATAATAATA
1 AATAATAATA
4913469 AGAATAGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (12 bp):
AATAATAATAGT
Found at i:4913582 original size:12 final size:12
Alignment explanation
Indices: 4913525--4913585 Score: 56
Period size: 12 Copynumber: 5.3 Consensus size: 12
4913515 AACAAAATAA
*
4913525 AAAAAAGAAAAT
1 AAAAAATAAAAT
* *
4913537 AAATAATAAAGT
1 AAAAAATAAAAT
*
4913549 AATAAAT--AAT
1 AAAAAATAAAAT
*
4913559 AAGAAA-AAAAT
1 AAAAAATAAAAT
4913570 AAAAAATAAAAT
1 AAAAAATAAAAT
4913582 AAAA
1 AAAA
4913586 CAAGAAATAA
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
10 7 0.18
11 8 0.21
12 23 0.61
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (12 bp):
AAAAAATAAAAT
Found at i:4913582 original size:41 final size:40
Alignment explanation
Indices: 4913523--4913614 Score: 100
Period size: 41 Copynumber: 2.3 Consensus size: 40
4913513 TAAACAAAAT
* * *
4913523 AAAAAAA-AGAAAATAAATAATA-AAGTAATAAATAAT-AAG
1 AAAAAAATAAAAAATAAATAAAACAAGAAAT-AAT-ATCAAG
4913562 AAAAAAATAAAAAATAAAATAAAACAAGAAATAATATCAAG
1 AAAAAAATAAAAAAT-AAATAAAACAAGAAATAATATCAAG
*
4913603 ATAAAAATAAAA
1 AAAAAAATAAAA
4913615 GGACTAAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
39 7 0.16
40 8 0.18
41 24 0.53
42 6 0.13
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.16
Consensus pattern (40 bp):
AAAAAAATAAAAAATAAATAAAACAAGAAATAATATCAAG
Found at i:4914691 original size:30 final size:29
Alignment explanation
Indices: 4914641--4914698 Score: 89
Period size: 30 Copynumber: 2.0 Consensus size: 29
4914631 TGTGTGTAAC
*
4914641 ATATATAATAAAATATATTATATAATATG
1 ATATATAATAAAACATATTATATAATATG
*
4914670 ATATATAATGTAAACATATTATATAATAT
1 ATATATAAT-AAAACATATTATATAATAT
4914699 TAAAGGACGA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 9 0.35
30 17 0.65
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.41
Consensus pattern (29 bp):
ATATATAATAAAACATATTATATAATATG
Found at i:4915442 original size:37 final size:36
Alignment explanation
Indices: 4915389--4915688 Score: 275
Period size: 36 Copynumber: 8.4 Consensus size: 36
4915379 TTCAAAGGTT
4915389 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
*
4915425 CTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 -TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
*
4915462 TTTGTTTCAAGAGAAACTGTCTCAATAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * * * *
4915498 CTTAGTTCCTAA-AGAAACTGTGTCGAGAGAGACATAA
1 -TTTGTTTC-AAGAGAAACTGTCTCAAGAGAGACAAAA
* * *
4915535 TTTGTTTAAAG-GAAAACATAT-TC-A-A-AG----AT
1 TTTGTTTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAA
*
4915564 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* *
4915600 TTTGTTTCAAGAGAAACTGTCTAAAGAGAGAAAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * * *
4915636 CTTAG-TTCTAAAAGAAACTGTCTTCAAGGGATG-CGAAA
1 -TTTGTTTC-AAGAGAAACTGTC-TCAAGAGA-GACAAAA
4915674 TTTGTTTCAAG-GAAA
1 TTTGTTTCAAGAGAAA
4915689 ACATATTCAA
Statistics
Matches: 216, Mismatches: 28, Indels: 39
0.76 0.10 0.14
Matches are distributed among these distances:
28 2 0.01
29 17 0.08
30 2 0.01
31 1 0.00
32 2 0.01
33 2 0.01
34 1 0.00
35 4 0.02
36 86 0.40
37 84 0.39
38 14 0.06
39 1 0.00
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (36 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
Found at i:4915477 original size:73 final size:74
Alignment explanation
Indices: 4915389--4915688 Score: 299
Period size: 73 Copynumber: 4.2 Consensus size: 74
4915379 TTCAAAGGTT
* *
4915389 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTC-AAGGGAAACTGTCTCAAGA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTTCTAAGAGAAACTGTCTCAAGA
4915453 GAGACAAAA
66 GAGACAAAA
* * * *
4915462 TTTGTTTCAAGAGAAACTGTCTCAATAGAGACAAAACTTAGTTCCTAA-AGAAACTGTGTCGAGA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTTCTAAGAGAAACTGTCTCAAGA
*
4915526 GAGACATAA
66 GAGACAAAA
* * * * *
4915535 TTTGTTTAAAG-GAAAACATAT-TC-A-A-AG-----ATTTTGTTTC-AAGGGAAACTGTCTCAA
1 TTTGTTTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAACTTAGTTTCTAAGAGAAACTGTCTCAA
4915589 GAGAGACAAAA
64 GAGAGACAAAA
* * *
4915600 TTTGTTTCAAGAGAAACTGTCTAAAGAGAGAAAAAACTTAG-TTCTAAAAGAAACTGTCTTCAAG
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTTCTAAGAGAAACTGTC-TCAAG
* *
4915664 GGATG-CGAAA
65 AGA-GACAAAA
4915674 TTTGTTTCAAG-GAAA
1 TTTGTTTCAAGAGAAA
4915689 ACATATTCAA
Statistics
Matches: 185, Mismatches: 25, Indels: 34
0.76 0.10 0.14
Matches are distributed among these distances:
64 4 0.02
65 43 0.23
66 2 0.01
67 1 0.01
68 2 0.01
70 2 0.01
71 1 0.01
72 5 0.03
73 98 0.53
74 26 0.14
75 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (74 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTTCTAAGAGAAACTGTCTCAAGA
GAGACAAAA
Found at i:4915727 original size:21 final size:21
Alignment explanation
Indices: 4915703--4915776 Score: 61
Period size: 21 Copynumber: 3.8 Consensus size: 21
4915693 ATTCAAAGAT
4915703 TTTGTTTCAAGAGAAACAAAA
1 TTTGTTTCAAGAGAAACAAAA
* *
4915724 TTTGTTTTATGAG----AAAA
1 TTTGTTTCAAGAGAAACAAAA
* *
4915741 --TGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACAAAA
*
4915760 TTTGTTTTAAGAGAAAC
1 TTTGTTTCAAGAGAAAC
4915777 TGTCTCAAGA
Statistics
Matches: 39, Mismatches: 8, Indels: 12
0.66 0.14 0.20
Matches are distributed among these distances:
15 8 0.21
17 4 0.10
19 4 0.10
21 23 0.59
ACGTcount: A:0.42, C:0.08, G:0.18, T:0.32
Consensus pattern (21 bp):
TTTGTTTCAAGAGAAACAAAA
Found at i:4915758 original size:36 final size:36
Alignment explanation
Indices: 4915709--4915804 Score: 147
Period size: 36 Copynumber: 2.6 Consensus size: 36
4915699 AGATTTTGTT
* *
4915709 TCAAGAGAAACAAAATTTGTTTTATGAGAAAATGTC
1 TCAAGAGAGACAAAATTTGTTTTAAGAGAAAATGTC
*
4915745 TCAAGAGAGACAAAATTTGTTTTAAGAGAAACTGTC
1 TCAAGAGAGACAAAATTTGTTTTAAGAGAAAATGTC
*
4915781 TCAAGAGAGATAAAACTTTGTTTT
1 TCAAGAGAGACAAAA-TTTGTTTT
4915805 GAGTAAATTA
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
36 47 0.85
37 8 0.15
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (36 bp):
TCAAGAGAGACAAAATTTGTTTTAAGAGAAAATGTC
Found at i:4917290 original size:95 final size:95
Alignment explanation
Indices: 4917082--4917344 Score: 339
Period size: 95 Copynumber: 2.7 Consensus size: 95
4917072 GGCTAACTGA
* * * * *
4917082 ATCCATAAAGCTGGGGCGTTTAACCAATTGCTCTAGAGGGACATCTTAATATCATTGTATAG-AT
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAAC-TCA-AGC-TT-TATTGTAT
** * *
4917146 ATTATAATCGTCTTTATCAGGCTATCTGAATTTT
62 ATTATAATCACCTTTATCAGGCTAGCTGAATCTT
*
4917180 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACCCAAGCTTTATTGTATATTA
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATTA
4917245 TAATCACCTTTATCAGGCTAGCTGAATCTT
66 TAATCACCTTTATCAGGCTAGCTGAATCTT
* * * * *
4917275 ATCCATCAAGTCGGGGTGTTTAGCCAATTGCTTTAGAGGGACAACTCAAGCTTTATTGTATATAT
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATAT-T
4917340 ATAAT
65 ATAAT
4917345 ATTATAATGT
Statistics
Matches: 147, Mismatches: 16, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
94 4 0.03
95 91 0.62
96 8 0.05
97 1 0.01
98 43 0.29
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (95 bp):
ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATTA
TAATCACCTTTATCAGGCTAGCTGAATCTT
Found at i:4921302 original size:18 final size:15
Alignment explanation
Indices: 4921275--4921326 Score: 63
Period size: 14 Copynumber: 3.4 Consensus size: 15
4921265 GTCAAAAAAG
4921275 AATAAAGTAAAGATA
1 AATAAAGTAAAGATA
4921290 AACTAGTAAGTAAA-ATA
1 AA-TA--AAGTAAAGATA
4921307 AATAAAGTAAAGA-A
1 AATAAAGTAAAGATA
4921321 AATAAA
1 AATAAA
4921327 TATAAAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
14 14 0.42
15 3 0.09
16 4 0.12
17 5 0.15
18 7 0.21
ACGTcount: A:0.67, C:0.02, G:0.12, T:0.19
Consensus pattern (15 bp):
AATAAAGTAAAGATA
Done.