Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 768 of 770
Found at i:243853390 original size:21 final size:19
Alignment explanation
Indices: 243853339--243853391 Score: 52
Period size: 21 Copynumber: 2.6 Consensus size: 19
243853329 GAATTAAATA
243853339 ATAAAGAAACAACCCAAACC
1 ATAAAGAAA-AACCCAAACC
*
243853359 ATAAAAAAAAAACCCAAAACC
1 AT-AAAGAAAAACCC-AAACC
*
243853380 GTAAACGAAAAA
1 ATAAA-GAAAAA
243853392 TATGGAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.66, C:0.23, G:0.06, T:0.06
Consensus pattern (19 bp):
ATAAAGAAAAACCCAAACC
Found at i:243866784 original size:30 final size:30
Alignment explanation
Indices: 243866748--243866905 Score: 195
Period size: 30 Copynumber: 5.5 Consensus size: 30
243866738 GACAAGATTG
* * * * *
243866748 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
243866778 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
*
243866806 GCACTAAGTGTGAGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
243866835 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
243866865 GCACTAAGTGTGCGAGCTG-AAA--ATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
243866892 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
243866906 GATTCACTAT
Statistics
Matches: 116, Mismatches: 7, Indels: 13
0.85 0.05 0.10
Matches are distributed among these distances:
27 21 0.18
28 21 0.18
29 31 0.27
30 41 0.35
31 2 0.02
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.27
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:243866873 original size:59 final size:55
Alignment explanation
Indices: 243866777--243866905 Score: 188
Period size: 57 Copynumber: 2.3 Consensus size: 55
243866767 AAAATTGTAC
*
243866777 AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGAGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGTCTGATTATATAGCACTAAGTGTGAGAGCTG-AAA-ATAT
*
243866834 AGCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATAT
1 AGCACTAAGTGTGCGAGTCTG---ATTATATAGCACTAAGTGTGAGAGCTGAAAATAT
243866891 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
243866906 GATTCACTAT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
56 2 0.03
57 36 0.54
58 3 0.04
59 26 0.39
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.26
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTCTGATTATATAGCACTAAGTGTGAGAGCTGAAAATAT
Found at i:243874072 original size:59 final size:57
Alignment explanation
Indices: 243873988--243874118 Score: 219
Period size: 59 Copynumber: 2.3 Consensus size: 57
243873978 AAAATTGTAC
*
243873988 AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGTCTGATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
243874045 AGCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGTCTG---ATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
243874104 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
243874119 GATTCACTAT
Statistics
Matches: 70, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
56 2 0.03
57 17 0.24
59 51 0.73
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (57 bp):
AGCACTAAGTGTGCGAGTCTGATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:243874107 original size:88 final size:88
Alignment explanation
Indices: 243873958--243874118 Score: 227
Period size: 88 Copynumber: 1.8 Consensus size: 88
243873948 GACAAGATTG
* * * * * *
243873958 GCACTAAGTGTGCGGGTTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATAGCACTA
1 GCACTAAGTGTGCGAGTCTGAAAATTATACAGCACTAAGTGTGCGAGTCTGAATATATAGCACTA
243874023 AGTGTGCGAGCTGAAAATATATA
66 AGTGTGCGAGCTGAAAATATATA
*
243874046 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAG-CTGAAAATATATAGCAC
1 GCACTAAGTGTGCGAGTCTGAAAATTATACAGCACTAAGTGTGCGAGTCTG--AATATATAGCAC
243874109 TAAGTGTGCG
64 TAAGTGTGCG
243874119 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
86 2 0.03
87 26 0.41
88 36 0.56
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (88 bp):
GCACTAAGTGTGCGAGTCTGAAAATTATACAGCACTAAGTGTGCGAGTCTGAATATATAGCACTA
AGTGTGCGAGCTGAAAATATATA
Found at i:243874130 original size:29 final size:29
Alignment explanation
Indices: 243873988--243874118 Score: 212
Period size: 29 Copynumber: 4.5 Consensus size: 29
243873978 AAAATTGTAC
* *
243873988 AGCACTAAGTGTGCGAGTTTG--ATTATAT
1 AGCACTAAGTGTGCGAG-CTGAAAATATAT
243874016 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
243874045 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
243874075 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
243874104 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
243874119 GATTCACTAT
Statistics
Matches: 98, Mismatches: 2, Indels: 5
0.93 0.02 0.05
Matches are distributed among these distances:
27 2 0.02
28 17 0.17
29 50 0.51
30 29 0.30
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:243876569 original size:20 final size:20
Alignment explanation
Indices: 243876544--243876581 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
243876534 GTTTATTCGC
*
243876544 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
243876564 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
243876582 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:243878233 original size:28 final size:28
Alignment explanation
Indices: 243878201--243878269 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
243878191 GCGTAGATCA
243878201 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
243878229 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
243878257 CGATA-TACCCCTA
1 CGAAATTACCCCTA
243878270 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:243884535 original size:20 final size:20
Alignment explanation
Indices: 243884510--243884547 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
243884500 GTTTATTCGC
*
243884510 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
243884530 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
243884548 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:243887249 original size:30 final size:31
Alignment explanation
Indices: 243887182--243887261 Score: 137
Period size: 31 Copynumber: 2.6 Consensus size: 31
243887172 CCTTTTCATA
*
243887182 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
243887213 TTTCATATTTCATATTACTGGGCCGAAGCC-
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
243887243 TTTCATATTTCAT-TTACTG
1 TTTCATATTTCATATTACTG
243887262 TAAACGGTAT
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
29 6 0.12
30 13 0.27
31 29 0.60
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.41
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:243887590 original size:47 final size:47
Alignment explanation
Indices: 243887449--243887590 Score: 198
Period size: 47 Copynumber: 3.0 Consensus size: 47
243887439 GCTTTATCAT
* * *
243887449 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTT-ATAACTGGGGCATAAGCCCTTTTA
*
243887498 ATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCCCTTTTA
243887545 ATAACTGGGGCATAAGCCCTTTTGATAACT-GGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTT
243887591 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
47 60 0.69
48 15 0.17
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (47 bp):
ATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCCCTTTTA
Found at i:243887591 original size:24 final size:24
Alignment explanation
Indices: 243887449--243887590 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
243887439 GCTTTATCAT
*
243887449 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
243887474 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
243887498 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
243887521 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
243887545 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
243887569 ATAACT-GGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
243887591 TCACTTCCTC
Statistics
Matches: 110, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
23 39 0.35
24 59 0.54
25 12 0.11
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:243887665 original size:20 final size:20
Alignment explanation
Indices: 243887640--243887699 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
243887630 TATGATTACC
243887640 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
243887660 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
243887680 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
243887700 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:243887774 original size:25 final size:25
Alignment explanation
Indices: 243887742--243887789 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
243887732 ATACATAAAC
* * *
243887742 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
243887767 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
243887790 CAATTATAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:243889063 original size:26 final size:26
Alignment explanation
Indices: 243889017--243889140 Score: 150
Period size: 26 Copynumber: 4.8 Consensus size: 26
243889007 AGGGTATTTT
243889017 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAA-TTTGTAAATCGAGGGTAAAAC
*
243889044 AGTAATTTGTAAATCAAGGGTAAAAC
1 AGTAATTTGTAAATCGAGGGTAAAAC
243889070 AGTAATTTTGT-AATC-AGGGT-AAA-
1 AGTAA-TTTGTAAATCGAGGGTAAAAC
* *
243889093 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATT-TGTAAATCGAGGGTAAAAC
*
243889120 GGTAA-TTGTAAATCGAGGGTA
1 AGTAATTTGTAAATCGAGGGTA
243889141 TTTAAATCGA
Statistics
Matches: 87, Mismatches: 4, Indels: 14
0.83 0.04 0.13
Matches are distributed among these distances:
22 2 0.02
23 7 0.08
24 7 0.08
25 24 0.28
26 33 0.38
27 14 0.16
ACGTcount: A:0.41, C:0.06, G:0.23, T:0.30
Consensus pattern (26 bp):
AGTAATTTGTAAATCGAGGGTAAAAC
Found at i:243889125 original size:50 final size:53
Alignment explanation
Indices: 243889017--243889140 Score: 161
Period size: 50 Copynumber: 2.4 Consensus size: 53
243889007 AGGGTATTTT
*
243889017 AGTAATTTTGTAAATCGAGGGTAAAACAGTAATTTGTAAATCAAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAACAGTAATTTATAAATCAAGGGTAAAAC
* *
243889070 AGTAATTTTGT-AATC-AGGGT-AAA-AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTTTGTAAATCGAGGGTAAAACAGTAATT-TATAAATCAAGGGTAAAAC
*
243889120 GGTAA--TTGTAAATCGAGGGTA
1 AGTAATTTTGTAAATCGAGGGTA
243889141 TTTAAATCGA
Statistics
Matches: 63, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
48 4 0.06
49 11 0.17
50 28 0.44
51 5 0.08
52 4 0.06
53 11 0.17
ACGTcount: A:0.41, C:0.06, G:0.23, T:0.30
Consensus pattern (53 bp):
AGTAATTTTGTAAATCGAGGGTAAAACAGTAATTTATAAATCAAGGGTAAAAC
Found at i:243889223 original size:26 final size:26
Alignment explanation
Indices: 243889194--243889260 Score: 82
Period size: 26 Copynumber: 2.5 Consensus size: 26
243889184 GTAATTAAAT
* *
243889194 CAAATTGGGGTATTTTG-TAATTTTTA
1 CAAACTGGGGTATTGTGATAA-TTTTA
243889220 CAAACTGGGGTATTGTGATAATTTTA
1 CAAACTGGGGTATTGTGATAATTTTA
*
243889246 CAAACTAGAGGTATT
1 CAAACT-GGGGTATT
243889261 TTTGGTATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
26 26 0.72
27 10 0.28
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.40
Consensus pattern (26 bp):
CAAACTGGGGTATTGTGATAATTTTA
Found at i:243892080 original size:31 final size:30
Alignment explanation
Indices: 243892011--243892092 Score: 130
Period size: 30 Copynumber: 2.7 Consensus size: 30
243892001 CCTTTTCATA
243892011 TTTCATATTTCATA-TACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACT-GGCCGAAGCCT
243892041 TTTCATATTTCATATTACTGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGCCGAAGCCT
243892071 TTTCAATATTTCATATTTACTG
1 TTTC-ATATTTCATA-TTACTG
243892093 TAAACGGTAT
Statistics
Matches: 49, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
30 29 0.59
31 14 0.29
32 6 0.12
ACGTcount: A:0.24, C:0.21, G:0.12, T:0.43
Consensus pattern (30 bp):
TTTCATATTTCATATTACTGGCCGAAGCCT
Found at i:243892329 original size:24 final size:24
Alignment explanation
Indices: 243892278--243892419 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
243892268 GCTTTATCAT
*
243892278 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
243892303 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
243892327 ATAACTGGGGCATAAG-CCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
243892349 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
243892373 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
243892397 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
243892420 TCACTTCCTC
Statistics
Matches: 109, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
22 16 0.15
23 11 0.10
24 70 0.64
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:243892366 original size:46 final size:48
Alignment explanation
Indices: 243892278--243892418 Score: 198
Period size: 46 Copynumber: 3.0 Consensus size: 48
243892268 GCTTTATCAT
* *
243892278 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
243892327 ATAACTGGGGCATAAG-CCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
243892373 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
243892419 TTCACTTCCT
Statistics
Matches: 85, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
46 37 0.44
47 11 0.13
48 27 0.32
49 10 0.12
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:243892379 original size:70 final size:72
Alignment explanation
Indices: 243892277--243892419 Score: 211
Period size: 70 Copynumber: 2.0 Consensus size: 72
243892267 TGCTTTATCA
*
243892277 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
243892342 G-CCTTT
66 GCCCTTT
* * **
243892348 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
243892411 AGCCCTTT
65 AGCCCTTT
243892419 T
1 T
243892420 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
70 46 0.71
71 19 0.29
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:243892495 original size:20 final size:20
Alignment explanation
Indices: 243892470--243892529 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
243892460 TATGATTACC
243892470 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
243892490 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
243892510 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
243892530 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:243892604 original size:25 final size:25
Alignment explanation
Indices: 243892572--243892619 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
243892562 ATACATAAAC
* * *
243892572 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
243892597 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
243892620 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:243893903 original size:27 final size:27
Alignment explanation
Indices: 243893843--243893972 Score: 190
Period size: 27 Copynumber: 4.9 Consensus size: 27
243893833 AAGGTATTTT
243893843 AGTAATTTTGTAAATCGAGGGT-AAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
*
243893869 AGTAATTTTGTAAATCAAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
*
243893896 AGTAATTTTGTAAATCAAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
* * *
243893923 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTTTGTAAATCGAGGGTAAAAC
* *
243893950 GGTAATTCTGTAAATCGAGGGTA
1 AGTAATTTTGTAAATCGAGGGTA
243893973 TTTCAATAAT
Statistics
Matches: 96, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
26 21 0.22
27 75 0.78
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.30
Consensus pattern (27 bp):
AGTAATTTTGTAAATCGAGGGTAAAAC
Found at i:243894087 original size:25 final size:26
Alignment explanation
Indices: 243893994--243894115 Score: 167
Period size: 26 Copynumber: 4.7 Consensus size: 26
243893984 TTACAGGTCG
** * *
243893994 AGGGTATTTCAGTAATTTCACAAATT
1 AGGGTATTTTGGTAATTTTACAAACT
243894020 AGGGTATTTTGGTAATTTTACAAACT
1 AGGGTATTTTGGTAATTTTACAAACT
*
243894046 AGGGGTA-TTTGATAATTTTACAAACT
1 A-GGGTATTTTGGTAATTTTACAAACT
243894072 AGGG-ATTTTGGTAATTTTACAAACT
1 AGGGTATTTTGGTAATTTTACAAACT
243894097 AGGGGTATTTTGGTAATTT
1 A-GGGTATTTTGGTAATTT
243894116 ATAAACCAAA
Statistics
Matches: 86, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
24 1 0.01
25 22 0.26
26 45 0.52
27 18 0.21
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.41
Consensus pattern (26 bp):
AGGGTATTTTGGTAATTTTACAAACT
Found at i:243894114 original size:52 final size:53
Alignment explanation
Indices: 243893995--243894115 Score: 183
Period size: 51 Copynumber: 2.3 Consensus size: 53
243893985 TACAGGTCGA
** *
243893995 GGGTATTTCAGTAATTTCACAAATTAGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTCACAAACTAGGGTATTTTGGTAATTTTACAAACTAG
* *
243894048 GGGTA-TTTGATAATTTTACAAACTAGGG-ATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTCACAAACTAGGGTATTTTGGTAATTTTACAAACTAG
243894099 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
243894116 ATAAACCAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
51 28 0.46
52 28 0.46
53 5 0.08
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.41
Consensus pattern (53 bp):
GGGTATTTTGGTAATTTCACAAACTAGGGTATTTTGGTAATTTTACAAACTAG
Found at i:243897972 original size:31 final size:31
Alignment explanation
Indices: 243897934--243897997 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
243897924 CCTTTTCATA
243897934 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
243897965 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
243897996 TT
1 TT
243897998 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:243898239 original size:24 final size:24
Alignment explanation
Indices: 243898188--243898328 Score: 191
Period size: 24 Copynumber: 6.0 Consensus size: 24
243898178 GCTTTATCAT
*
243898188 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
243898213 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
243898237 ATAACTGGGGCATAA-CCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
243898259 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
243898283 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
243898307 ATAACT-GGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
243898329 CACTTCCTCC
Statistics
Matches: 108, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
22 15 0.14
23 29 0.27
24 52 0.48
25 12 0.11
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:243898266 original size:46 final size:47
Alignment explanation
Indices: 243898188--243898327 Score: 185
Period size: 46 Copynumber: 3.0 Consensus size: 47
243898178 GCTTTATCAT
* * *
243898188 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAACC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
243898237 ATAACTGGGGCATAACCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAACCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
243898283 ATAACTGGGGCATAAGCCCTTTTGATAACT-GGGCATAAGCCCTTT
1 ATAACTGGGGCATAA-CCCTTTTAATAACTGGGGCATAAGCCCTTT
243898328 TCACTTCCTC
Statistics
Matches: 84, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
46 36 0.43
47 27 0.32
48 13 0.15
49 8 0.10
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (47 bp):
ATAACTGGGGCATAACCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:243898289 original size:70 final size:71
Alignment explanation
Indices: 243898187--243898328 Score: 200
Period size: 70 Copynumber: 2.0 Consensus size: 71
243898177 TGCTTTATCA
*
243898187 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACT-GGGCATAA
243898252 -CCCTTT
65 GCCCTTT
* * **
243898258 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGCATAA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGCATAA
243898321 GCCCTTT
65 GCCCTTT
243898328 T
1 T
243898329 CACTTCCTCC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
69 8 0.12
70 43 0.67
71 13 0.20
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.30
Consensus pattern (71 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGCATAAG
CCCTTT
Found at i:243908594 original size:25 final size:26
Alignment explanation
Indices: 243908556--243908626 Score: 110
Period size: 25 Copynumber: 2.8 Consensus size: 26
243908546 CCAAGTGGTT
243908556 GTAGAATTACCGAAATACCCTGTAAG
1 GTAGAATTACCGAAATACCCTGTAAG
*
243908582 GTAG-ATTATCG-AATACCCCTGTAAG
1 GTAGAATTACCGAAATA-CCCTGTAAG
243908607 GTAGAATTACCGAAATACCC
1 GTAGAATTACCGAAATACCC
243908627 CTATAGGTAG
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
24 4 0.10
25 19 0.47
26 13 0.32
27 4 0.10
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (26 bp):
GTAGAATTACCGAAATACCCTGTAAG
Found at i:243908634 original size:26 final size:27
Alignment explanation
Indices: 243908556--243908645 Score: 116
Period size: 26 Copynumber: 3.5 Consensus size: 27
243908546 CCAAGTGGTT
243908556 GTAGAATTACCGAAATA-CCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAAG
*
243908582 GTAG-ATTATCG-AATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAAG
*
243908607 GTAGAATTACCGAAATACCCCTAT-AG
1 GTAGAATTACCGAAATACCCCTGTAAG
* *
243908633 GTAGGACTACCGA
1 GTAGAATTACCGA
243908646 TTTACCCTAG
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
24 4 0.07
25 19 0.34
26 23 0.41
27 10 0.18
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAAG
Found at i:243909462 original size:77 final size:80
Alignment explanation
Indices: 243909345--243909498 Score: 246
Period size: 77 Copynumber: 2.0 Consensus size: 80
243909335 TTCTAAGTTA
*
243909345 GTTTATTTTTAATATTTTTATATTTGATTTAATTTGCGTTTTAAGTTGTAAT-A-GGCTGTTATT
1 GTTTATTTTTAATATTTATATATTTGATTTAATTTGCGTTTTAAGTTGTAATAAGGGCTGTTATT
243909408 TAAATTTTTTTTAAT
66 TAAATTTTTTTTAAT
243909423 GTTTA-TTTTAAT-TTTATA-ATTCTGATTTAATTTTGCGTTTTAAGTTGTAATAAGGGCTGTTA
1 GTTTATTTTTAATATTTATATATT-TGATTTAA-TTTGCGTTTTAAGTTGTAATAAGGGCTGTTA
243909485 TTTAAATTTTTTTT
64 TTTAAATTTTTTTT
243909499 CTGCAATGGT
Statistics
Matches: 71, Mismatches: 1, Indels: 7
0.90 0.01 0.09
Matches are distributed among these distances:
75 3 0.04
76 13 0.18
77 27 0.38
78 6 0.08
79 22 0.31
ACGTcount: A:0.25, C:0.03, G:0.12, T:0.59
Consensus pattern (80 bp):
GTTTATTTTTAATATTTATATATTTGATTTAATTTGCGTTTTAAGTTGTAATAAGGGCTGTTATT
TAAATTTTTTTTAAT
Found at i:243917653 original size:40 final size:39
Alignment explanation
Indices: 243917609--243917733 Score: 130
Period size: 40 Copynumber: 3.2 Consensus size: 39
243917599 GGGACTCAAC
*
243917609 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
243917649 CCGGATTTAGTAACTCGCACGTATGCCGTC-GATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
243917688 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
243917728 CCGGAT
1 CCGGAT
243917734 ATCATTCGAA
Statistics
Matches: 70, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
39 29 0.41
40 38 0.54
41 3 0.04
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:243917726 original size:79 final size:79
Alignment explanation
Indices: 243917548--243917733 Score: 193
Period size: 80 Copynumber: 2.3 Consensus size: 79
243917538 GCTACACATT
* *
243917548 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTCAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATTACAGTAACTCGCACGAATGCCGTC-GGACTCAACCCG
*
243917612 GATTTAGTAGCTTGCT
64 GATTTAGTAGCTTGCA
* * * * **
243917628 CGAAAGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCACGTATGCCGTC-GATCTTAGTCC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTACAGTAACTCGCACGAATGCCGTCGGA-CTCAACCC
243917690 GGATTTAGTCA-CTTAGCA
63 GGATTTAGT-AGCTT-GCA
243917708 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
243917734 ATCATTCGAA
Statistics
Matches: 89, Mismatches: 10, Indels: 15
0.78 0.09 0.13
Matches are distributed among these distances:
78 2 0.02
79 40 0.45
80 42 0.47
81 5 0.06
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (79 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTACAGTAACTCGCACGAATGCCGTCGGACTCAACCCGGA
TTTAGTAGCTTGCA
Found at i:243924328 original size:15 final size:16
Alignment explanation
Indices: 243924300--243924332 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
243924290 CAAAATCATA
243924300 TCTTGAGTTTTAAAGC
1 TCTTGAGTTTTAAAGC
243924316 TCTTGAG-TTTAAAGC
1 TCTTGAGTTTTAAAGC
243924331 TC
1 TC
243924333 GAAAATCAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.42
Consensus pattern (16 bp):
TCTTGAGTTTTAAAGC
Found at i:243927508 original size:29 final size:29
Alignment explanation
Indices: 243927418--243927577 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
243927408 ACTCGATTTC
* * **
243927418 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
243927447 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
243927475 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
243927505 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
243927534 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
243927563 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
243927578 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:243942378 original size:26 final size:26
Alignment explanation
Indices: 243942348--243942455 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
243942338 TGATACAAAT
* *
243942348 TGATAATGAGTTAGATAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
243942374 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
243942400 CGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
243942426 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
243942452 TGAT
1 TGAT
243942456 GGGATTTCAT
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:243956912 original size:30 final size:29
Alignment explanation
Indices: 243956818--243956919 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
243956808 TATAGTGAAT
* * *
243956818 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
243956847 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
243956875 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
243956905 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
243956920 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:243962789 original size:20 final size:20
Alignment explanation
Indices: 243962764--243962808 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
243962754 TGGTTGAGCA
243962764 TCCGAACTCGTTGAGTTGAG
1 TCCGAACTCGTTGAGTTGAG
243962784 TCCGAACTCGTTGAGTTGAG
1 TCCGAACTCGTTGAGTTGAG
243962804 TCCGA
1 TCCGA
243962809 GTTCGAGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (20 bp):
TCCGAACTCGTTGAGTTGAG
Found at i:243972986 original size:40 final size:40
Alignment explanation
Indices: 243972901--243973009 Score: 134
Period size: 40 Copynumber: 2.8 Consensus size: 40
243972891 CTGGAAATTA
* * *
243972901 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTAC
1 TATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGGATAC
* *
243972942 -ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGT-TATTC
1 TATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGGATAC
243972981 TATCC-GGCTAAGACCCGAAGGCATTGTGC
1 TATCCGGGCTAAGACCCGAAGGCATTGTGC
243973010 ACTGGTTATA
Statistics
Matches: 61, Mismatches: 5, Indels: 7
0.84 0.07 0.10
Matches are distributed among these distances:
38 4 0.07
39 25 0.41
40 32 0.52
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGGATAC
Found at i:243976774 original size:40 final size:40
Alignment explanation
Indices: 243976719--243976968 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
243976709 AACATTGGAA
243976719 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
243976759 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
243976799 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
243976839 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
243976879 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
243976918 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
243976959 CTATATCCGG
1 ATATATCCGG
243976969 TTAAATCCCG
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 189 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:243986128 original size:40 final size:40
Alignment explanation
Indices: 243986063--243986306 Score: 329
Period size: 40 Copynumber: 6.2 Consensus size: 40
243986053 TCTTCGGAAT
* ** *
243986063 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
243986102 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
243986142 TTAGCCCGGATATAACAACTCGCAC-AATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
243986181 TTAGCCCGGATATAACAACT-GCAC-AATGCCTTC-GGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* *
243986218 TTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
243986258 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGGC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
243986298 TTAGCCCGG
1 TTAGCCCGG
243986307 GTATCATTCA
Statistics
Matches: 183, Mismatches: 17, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
37 22 0.12
38 17 0.09
39 46 0.25
40 97 0.53
41 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:243986260 original size:116 final size:120
Alignment explanation
Indices: 243986063--243986306 Score: 383
Period size: 116 Copynumber: 2.1 Consensus size: 120
243986053 TCTTCGGAAT
* *
243986063 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
* * *
243986127 AAATGCCTTCGGGTCTTAGCCCGGATATAA-CAACTCGCA-CAATGCCTTCGGGTC
66 AAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGGC
*
243986181 TTAGCCCGGATATAACAAC-TGCACAA-TGCCTTC-GGTCTTAACCCGGATATAGCAACTCGCAC
1 TTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
243986243 AAATGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGGC
66 AAATGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGGC
243986298 TTAGCCCGG
1 TTAGCCCGG
243986307 GTATCATTCA
Statistics
Matches: 117, Mismatches: 6, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
116 64 0.55
117 30 0.26
118 10 0.09
119 13 0.11
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.23
Consensus pattern (120 bp):
TTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
AAATGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGGC
Found at i:243997437 original size:2 final size:2
Alignment explanation
Indices: 243997432--243997459 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
243997422 AACAAAAAAG
243997432 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
243997460 GAAATAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:243997854 original size:2 final size:2
Alignment explanation
Indices: 243997849--243997881 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
243997839 ATAGGTAACA
243997849 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 A
243997882 AAATATAATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:243999665 original size:4 final size:4
Alignment explanation
Indices: 243999656--243999694 Score: 53
Period size: 4 Copynumber: 9.5 Consensus size: 4
243999646 TTTATTTTGG
243999656 TTAT TTAT TTAT TTATT TTGAT TTAT TT-T TTAT TTAT TT
1 TTAT TTAT TTAT TTA-T TT-AT TTAT TTAT TTAT TTAT TT
243999695 TTGATTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
3 3 0.09
4 22 0.69
5 6 0.19
6 1 0.03
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:243999672 original size:21 final size:21
Alignment explanation
Indices: 243999646--243999695 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
243999636 TAATTTGGAC
243999646 TTTATTTTG-GTTATTTATTTA
1 TTTATTTTGAGTTATTT-TTTA
*
243999667 TTTATTTTGATTTATTTTTTA
1 TTTATTTTGAGTTATTTTTTA
243999688 TTTATTTT
1 TTTATTTT
243999696 TGATTTTTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 21 0.78
22 6 0.22
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (21 bp):
TTTATTTTGAGTTATTTTTTA
Found at i:243999690 original size:11 final size:11
Alignment explanation
Indices: 243999656--243999701 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
243999646 TTTATTTTGG
*
243999656 TTATTTATTTAT
1 TTATTT-TTGAT
243999668 TTA-TTTTGAT
1 TTATTTTTGAT
*
243999678 TTATTTTTTAT
1 TTATTTTTGAT
243999689 TTATTTTTGAT
1 TTATTTTTGAT
243999700 TT
1 TT
243999702 TTTGTGTAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
10 7 0.23
11 20 0.67
12 3 0.10
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (11 bp):
TTATTTTTGAT
Found at i:244002482 original size:21 final size:22
Alignment explanation
Indices: 244002437--244002486 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
244002427 ATGTCACTTT
244002437 TTAGAATAATGCAGCCAAGCCG
1 TTAGAATAATGCAGCCAAGCCG
* *
244002459 TTAGAATAATGCAG-TAATCCG
1 TTAGAATAATGCAGCCAAGCCG
244002480 TTAGAAT
1 TTAGAAT
244002487 CAAGTAGGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 12 0.46
22 14 0.54
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (22 bp):
TTAGAATAATGCAGCCAAGCCG
Found at i:244005924 original size:29 final size:29
Alignment explanation
Indices: 244005890--244006021 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
244005880 TACTCGATTT
* * *
244005890 CGCACACTTAGTGCCATGTGATTT-AAGCC
1 CGCACACTTAGTGCCATAT-ATTTCCAGCA
* *** * *
244005919 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
244005948 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
244005977 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
244006006 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
244006022 ATCTCGTCAC
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:244011570 original size:23 final size:23
Alignment explanation
Indices: 244011540--244011584 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
244011530 CGATCTTTAC
244011540 GATAATCTCTTGCTTCAAATTCA
1 GATAATCTCTTGCTTCAAATTCA
244011563 GATAATCTCTTGCTTCAAATTC
1 GATAATCTCTTGCTTCAAATTC
244011585 TTCTTGCACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (23 bp):
GATAATCTCTTGCTTCAAATTCA
Found at i:244015784 original size:40 final size:40
Alignment explanation
Indices: 244015697--244015908 Score: 212
Period size: 40 Copynumber: 5.3 Consensus size: 40
244015687 CCTTCGGAAT
* * *
244015697 TTAA-CCGGATATAATGACTCGCTCAAATGCCTTCGGGAC
1 TTAACCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
* * * * *
244015736 -GAAGCCCGGTTATAGTGACTCGCACAATTGCCTTCGGGTC
1 TTAA-CCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
* ** *
244015776 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAACCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
* * *
244015816 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAACCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
* * * * *
244015856 TTAGCCCGGATATAATTACTAGCACAATTGCCTTCGGGAC
1 TTAACCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
*
244015896 TTAGCCCGGATAT
1 TTAACCCGGATAT
244015909 CATTCCAATG
Statistics
Matches: 144, Mismatches: 26, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
38 2 0.01
40 140 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
TTAACCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
Found at i:244015822 original size:80 final size:80
Alignment explanation
Indices: 244015697--244015908 Score: 248
Period size: 80 Copynumber: 2.7 Consensus size: 80
244015687 CCTTCGGAAT
* * * ** * ***
244015697 TTAA-CCGGATATAATGACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTGACTCGCAC
1 TTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAACAACTCGCAC
244015761 -AATTGCCTTCGGGTC
66 GAA-TGCCTTCGGGTC
* ** * *
244015776 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCAC
1 TTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAACAACTCGCAC
244015841 GAATGCCTTCGGGTC
66 GAATGCCTTCGGGTC
* * *
244015856 TTAGCCCGGATATAATTACTAGCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 TTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
244015909 CATTCCAATG
Statistics
Matches: 110, Mismatches: 21, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
79 4 0.04
80 104 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (80 bp):
TTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAACAACTCGCAC
GAATGCCTTCGGGTC
Found at i:244025268 original size:80 final size:80
Alignment explanation
Indices: 244025184--244025332 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
244025174 TATGGTAACC
* * * *
244025184 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
244025248 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
244025264 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
244025329 CCGG
66 CCGG
244025333 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:244025274 original size:40 final size:38
Alignment explanation
Indices: 244025225--244025332 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
244025215 ATCACGATTT
*
244025225 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
244025265 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
244025305 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
244025333 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:244034780 original size:27 final size:26
Alignment explanation
Indices: 244034736--244034787 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
244034726 CTCGCTGCAA
*
244034736 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
244034763 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
244034788 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:244034863 original size:27 final size:26
Alignment explanation
Indices: 244034826--244034884 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
244034816 CCACATATAT
*
244034826 ATAT-TGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
244034851 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
244034878 ATATCTG
1 ATATCTG
244034885 GCAGCCTCGC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 4 0.14
26 3 0.11
27 21 0.75
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:244038266 original size:27 final size:26
Alignment explanation
Indices: 244038222--244038273 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
244038212 CTCGCTGCAA
*
244038222 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
244038249 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
244038274 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:244038341 original size:26 final size:27
Alignment explanation
Indices: 244038312--244038371 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
244038302 CCACATATAT
*
244038312 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
244038338 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
244038365 ATATCTG
1 ATATCTG
244038372 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:244044853 original size:24 final size:24
Alignment explanation
Indices: 244044821--244044869 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
244044811 AATATGTGGA
*
244044821 CTTAGTCAATCTATCAACCACAAC
1 CTTACTCAATCTATCAACCACAAC
244044845 CTTACTCAATCTATCAACCACAAC
1 CTTACTCAATCTATCAACCACAAC
244044869 C
1 C
244044870 CAAATCGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.37, G:0.02, T:0.24
Consensus pattern (24 bp):
CTTACTCAATCTATCAACCACAAC
Found at i:244047201 original size:40 final size:40
Alignment explanation
Indices: 244047135--244047301 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
244047125 AAATTGAATG
* * *
244047135 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
244047174 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
244047214 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
244047254 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
244047294 ATATCCGG
1 ATATCCGG
244047302 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:244053001 original size:19 final size:18
Alignment explanation
Indices: 244052977--244053015 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
244052967 AGCTCCCATG
244052977 TAGCTCCACACCAGCTCAT
1 TAGCT-CACACCAGCTCAT
**
244052996 TAGCTCGGACCAGCTCAT
1 TAGCTCACACCAGCTCAT
244053014 TA
1 TA
244053016 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.26, C:0.36, G:0.15, T:0.23
Consensus pattern (18 bp):
TAGCTCACACCAGCTCAT
Found at i:244054636 original size:10 final size:10
Alignment explanation
Indices: 244054621--244054658 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
244054611 ATACAAGTTA
244054621 AAAAAAATCG
1 AAAAAAATCG
*
244054631 AAAAAAATTCA
1 AAAAAAA-TCG
244054642 AAAAAAATCG
1 AAAAAAATCG
244054652 AAAAAAA
1 AAAAAAA
244054659 AAGTGATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.76, C:0.08, G:0.05, T:0.11
Consensus pattern (10 bp):
AAAAAAATCG
Found at i:244054636 original size:11 final size:11
Alignment explanation
Indices: 244054620--244054659 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
244054610 TATACAAGTT
244054620 AAAAAAAATCG
1 AAAAAAAATCG
*
244054631 AAAAAAATTC-
1 AAAAAAAATCG
244054641 AAAAAAAATCG
1 AAAAAAAATCG
244054652 AAAAAAAA
1 AAAAAAAA
244054660 AGTGATTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.78, C:0.07, G:0.05, T:0.10
Consensus pattern (11 bp):
AAAAAAAATCG
Found at i:244063706 original size:40 final size:40
Alignment explanation
Indices: 244063651--244063860 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
244063641 AACATTGGAA
244063651 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
244063691 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
244063731 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
244063771 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
244063810 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
244063851 CTATATCCGG
1 ATATATCCGG
244063861 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:244072783 original size:52 final size:49
Alignment explanation
Indices: 244072701--244072839 Score: 169
Period size: 46 Copynumber: 2.8 Consensus size: 49
244072691 GGGATATTTG
*
244072701 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGCGAAGT-
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAT---GAACTA
* * * *
244072752 TGCGGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGAACTA
1 GGC-ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAACTA
244072799 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
244072840 CGGGTTACAT
Statistics
Matches: 74, Mismatches: 9, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
46 33 0.45
47 4 0.05
49 4 0.05
51 4 0.05
52 29 0.39
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.28
Consensus pattern (49 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAACTA
Found at i:244075733 original size:16 final size:15
Alignment explanation
Indices: 244075706--244075770 Score: 55
Period size: 15 Copynumber: 4.3 Consensus size: 15
244075696 GTATCTTGGG
244075706 TTCTTATATTCTGGATT
1 TTCTT-TATTCTGG-TT
*
244075723 TTCTTTATTCTGGGT
1 TTCTTTATTCTGGTT
* *
244075738 TTCTCTA-TCTTGGAT
1 TTCTTTATTC-TGGTT
244075753 TTC-TTATTC-GGTT
1 TTCTTTATTCTGGTT
244075766 TTCTT
1 TTCTT
244075771 GTTATCTTTG
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
13 6 0.15
14 5 0.12
15 16 0.40
16 8 0.20
17 5 0.12
ACGTcount: A:0.11, C:0.15, G:0.14, T:0.60
Consensus pattern (15 bp):
TTCTTTATTCTGGTT
Found at i:244075891 original size:14 final size:14
Alignment explanation
Indices: 244075874--244075917 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 14
244075864 TTTGATCTTG
244075874 GTATTGTGATTTTA
1 GTATTGTGATTTTA
244075888 GTATTGGGATGATTTTA
1 GTATT--G-TGATTTTA
*
244075905 GTATTGGGATTTT
1 GTATTGTGATTTT
244075918 TTCTAATTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 11 0.42
15 1 0.04
16 1 0.04
17 13 0.50
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.52
Consensus pattern (14 bp):
GTATTGTGATTTTA
Found at i:244075902 original size:17 final size:17
Alignment explanation
Indices: 244075880--244075914 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
244075870 CTTGGTATTG
244075880 TGATTTTAGTATTGGGA
1 TGATTTTAGTATTGGGA
244075897 TGATTTTAGTATTGGGA
1 TGATTTTAGTATTGGGA
244075914 T
1 T
244075915 TTTTTCTAAT
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:0.29, T:0.49
Consensus pattern (17 bp):
TGATTTTAGTATTGGGA
Found at i:244078212 original size:46 final size:48
Alignment explanation
Indices: 244078158--244078291 Score: 179
Period size: 46 Copynumber: 2.9 Consensus size: 48
244078148 ACTGGATTTG
244078158 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-CGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGACGA
* * * *
244078205 -GCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG--ACGA
244078251 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
244078292 GGCGGGTTAC
Statistics
Matches: 73, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
43 4 0.05
45 2 0.03
46 33 0.45
47 31 0.42
48 2 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (48 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGACGA
Found at i:244081138 original size:21 final size:20
Alignment explanation
Indices: 244081104--244081163 Score: 75
Period size: 21 Copynumber: 3.0 Consensus size: 20
244081094 GGCGCAACAT
*
244081104 GCACCTTATGTTGAGCCATA
1 GCACCCTATGTTGAGCCATA
* *
244081124 GCAGCCCTGTGTTGAGTCATA
1 GCA-CCCTATGTTGAGCCATA
*
244081145 GCATCCTATGTTGAGCCAT
1 GCACCCTATGTTGAGCCAT
244081164 TAGCCCAAAG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 16 0.48
21 17 0.52
ACGTcount: A:0.22, C:0.25, G:0.23, T:0.30
Consensus pattern (20 bp):
GCACCCTATGTTGAGCCATA
Found at i:244085484 original size:19 final size:20
Alignment explanation
Indices: 244085460--244085497 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
244085450 GGTACCACCA
244085460 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
244085479 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
244085498 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:244085830 original size:45 final size:47
Alignment explanation
Indices: 244085766--244085935 Score: 235
Period size: 45 Copynumber: 3.7 Consensus size: 47
244085756 ATCCATAAAT
244085766 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-CATCT-AC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTAAC
*
244085811 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTAAC
* * *
244085858 GAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-TAA-C
244085904 GAACTCGGACTCAACTCAACGAGTTCGGATGC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC
244085936 TCACCATCCT
Statistics
Matches: 113, Mismatches: 4, Indels: 12
0.88 0.03 0.09
Matches are distributed among these distances:
43 6 0.05
44 2 0.02
45 40 0.35
46 34 0.30
47 31 0.27
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTAAC
Found at i:244085932 original size:46 final size:45
Alignment explanation
Indices: 244085714--244085932 Score: 218
Period size: 46 Copynumber: 4.8 Consensus size: 45
244085704 TAACCCGCCC
* *
244085714 CTAAGTGAACTCGGACTCAACTCAACGAGCTCGG-GC-A-TTCGCAT
1 CTAA-TGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTT-GCAT
244085758 CCATAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-CAT
1 -C-T-AATGAACTCGGACTCAACTCAACGAGTTCGGA--CCTAGTTGCAT
* *
244085807 CT-ACGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CTAATGAACTCGGACTCAACTCAACGAGTTCGGA--CCTAGTTGCAT
* * *
244085853 CTCACGAACTCGGACTCAACTCAACGAGTTCGGA-C-ATTTGCAT
1 CTAATGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTTGCAT
244085896 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 -C-TAA-TGAACTCGGACTCAACTCAACGAGTTCGGA
244085933 TGCTCACCAT
Statistics
Matches: 155, Mismatches: 7, Indels: 23
0.84 0.04 0.12
Matches are distributed among these distances:
43 6 0.04
44 2 0.01
45 42 0.27
46 63 0.41
47 34 0.22
48 1 0.01
49 4 0.03
50 1 0.01
51 2 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
CTAATGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTTGCAT
Found at i:244085932 original size:93 final size:90
Alignment explanation
Indices: 244085766--244085935 Score: 245
Period size: 93 Copynumber: 1.8 Consensus size: 90
244085756 ATCCATAAAT
244085766 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTCATCTACGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGTTCGGA--CCTAGTTCATCTACGAACTCGGACTCAACTCAAC
244085831 GAGTTCGGATGCCTAGTTACATCTCAC
64 GAGTTCGGATGCCTAGTTACATCTCAC
* *
244085858 GAACTCGGACTCAACTCAACGAGTTCGGA-C-ATTTGCATCCATAAGTGAACTCGGACTCAACTC
1 GAACTCGGACTCAACTCAACGAGTTCGGACCTAGTT-CAT-C-T-A-CGAACTCGGACTCAACTC
244085921 AACGAGTTCGGATGC
61 AACGAGTTCGGATGC
244085936 TCACCATCCT
Statistics
Matches: 71, Mismatches: 2, Indels: 9
0.87 0.02 0.11
Matches are distributed among these distances:
88 3 0.04
89 4 0.06
90 1 0.01
91 1 0.01
92 30 0.42
93 32 0.45
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (90 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACCTAGTTCATCTACGAACTCGGACTCAACTCAACGA
GTTCGGATGCCTAGTTACATCTCAC
Found at i:244091365 original size:40 final size:39
Alignment explanation
Indices: 244091200--244091383 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
244091190 AAATTGAATG
* * *
244091200 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
244091240 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
244091280 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
244091320 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
244091359 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
244091384 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:244091408 original size:80 final size:81
Alignment explanation
Indices: 244091240--244091428 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
244091230 GCTGGAAATT
* * * *
244091240 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
244091305 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
244091321 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
244091384 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
244091400 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
244091429 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:244096954 original size:40 final size:40
Alignment explanation
Indices: 244096917--244097100 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
244096907 GCTACTCGTT
*
244096917 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
244096957 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
244096997 CAAATGCCTTC-GG-CTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
244097035 CGAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
244097076 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
244097101 CATCATTCGA
Statistics
Matches: 129, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
38 35 0.27
39 2 0.02
40 80 0.62
41 12 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:244097047 original size:78 final size:80
Alignment explanation
Indices: 244096917--244097099 Score: 214
Period size: 78 Copynumber: 2.3 Consensus size: 80
244096907 GCTACTCGTT
244096917 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTC-GGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCG
* *
244096981 GATTTAGTAAC-TCGCA
64 GATATAGTAACTTAGCA
* * * **
244096997 CAAATGCCTTCGG-CTTAGTCCGGATT-TAGTAACTCGCACGAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
*
244097060 ATATAGTCACTTAGCA
65 ATATAGTAACTTAGCA
*
244097076 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTC-GGACATAGCCCGG
244097100 ACATCATTCG
Statistics
Matches: 89, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
77 3 0.03
78 52 0.58
79 14 0.16
80 20 0.22
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCA
Found at i:244101575 original size:29 final size:29
Alignment explanation
Indices: 244101473--244101574 Score: 125
Period size: 29 Copynumber: 3.5 Consensus size: 29
244101463 GTGACGAGAT
244101473 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
244101502 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
244101531 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
244101560 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
244101575 GGGTTTAAAA
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 61 0.98
30 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:244101631 original size:28 final size:28
Alignment explanation
Indices: 244101562--244101662 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
244101552 GAAGGGTATG
* * * *
244101562 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
244101592 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
244101620 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
244101649 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
244101663 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:244110420 original size:46 final size:46
Alignment explanation
Indices: 244110353--244110525 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
244110343 TGTAACCCGC
*
244110353 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
244110399 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * *
244110449 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGAC--TCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
244110490 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
244110526 ATGCTCAACC
Statistics
Matches: 110, Mismatches: 8, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
40 1 0.01
41 3 0.03
42 1 0.01
43 2 0.02
44 29 0.26
46 35 0.32
47 28 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:244110518 original size:91 final size:92
Alignment explanation
Indices: 244110361--244110529 Score: 304
Period size: 91 Copynumber: 1.8 Consensus size: 92
244110351 GCCCATAAGT
*
244110361 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACG-TCGCATCCATAAGTGAACTCGGACTCAACTCAA
244110426 CGAGTTCGGATGCCTAGTTACATCTCAC
65 CGAGTTCGGATGCCTAGTTACATCTCAC
*
244110454 GAACTCGGACTCAACTCAACGAGTTCGGAC-TCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACGTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
244110518 GAGTTCGGATGC
66 GAGTTCGGATGC
244110530 TCAACCATCC
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
91 46 0.62
93 28 0.38
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:244112955 original size:15 final size:15
Alignment explanation
Indices: 244112898--244112974 Score: 65
Period size: 15 Copynumber: 5.4 Consensus size: 15
244112888 CAAAGATAAC
*
244112898 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
244112912 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
244112927 GAG-AA-CCCGAATA
1 AAGAAATCCAGAATA
244112940 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
244112955 AAGAGATCCAGGAT-
1 AAGAAATCCAGAATA
244112969 AAGAAA
1 AAGAAA
244112975 CCCAAGATAC
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
13 7 0.14
14 19 0.38
15 24 0.48
ACGTcount: A:0.57, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:244116009 original size:93 final size:93
Alignment explanation
Indices: 244115897--244116067 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
244115887 GCCCATAAGT
* *
244115897 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
244115962 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
244115990 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
244116055 CGAGTTCGGATGC
66 CGAGTTCGGATGC
244116068 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:244116083 original size:46 final size:46
Alignment explanation
Indices: 244115889--244116069 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
244115879 GTAACCGCGC
* * *
244115889 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
244115935 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
244115985 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
244116028 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
244116070 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:244119648 original size:21 final size:19
Alignment explanation
Indices: 244119603--244119665 Score: 63
Period size: 21 Copynumber: 3.1 Consensus size: 19
244119593 AAATGCTCAG
* *
244119603 GCCATGTGGAGGTCTACAC
1 GCCATGTGGAGGCCCACAC
244119622 GCCCATGTGGAGGCCACACAC
1 G-CCATGTGGAGGCC-CACAC
*
244119643 AGCCATGTGAAGGCCCTACAC
1 -GCCATGTGGAGGCCC-ACAC
244119664 GC
1 GC
244119666 TCGTGTGAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
19 1 0.03
20 15 0.41
21 20 0.54
22 1 0.03
ACGTcount: A:0.24, C:0.33, G:0.29, T:0.14
Consensus pattern (19 bp):
GCCATGTGGAGGCCCACAC
Found at i:244121299 original size:24 final size:23
Alignment explanation
Indices: 244121259--244121305 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
244121249 TTATTTAAGT
* *
244121259 ATAAAATTAAACCCAAATTTTAA
1 ATAAAATTAAAACCAAATATTAA
*
244121282 ATAATAATTAAAATCAAATATTAA
1 ATAA-AATTAAAACCAAATATTAA
244121306 TTTAGATTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.32
Consensus pattern (23 bp):
ATAAAATTAAAACCAAATATTAA
Found at i:244125210 original size:12 final size:12
Alignment explanation
Indices: 244125201--244125233 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
244125191 TTGGTTTTGG
244125201 TTTTTCTTTTAT
1 TTTTTCTTTTAT
*
244125213 TTTTTCTTTTTT
1 TTTTTCTTTTAT
244125225 TTTTTCTTT
1 TTTTTCTTT
244125234 CTTTTTCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.88
Consensus pattern (12 bp):
TTTTTCTTTTAT
Found at i:244125222 original size:24 final size:24
Alignment explanation
Indices: 244125178--244125233 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
244125168 TTATTATTTA
*
244125178 TTTTCTTTTTATTTTGGTTTTGGT
1 TTTTCTTTTTATTTTGCTTTTGGT
* **
244125202 TTTTC-TTTTATTTTTTCTTTTTTT
1 TTTTCTTTTTA-TTTTGCTTTTGGT
244125226 TTTTCTTT
1 TTTTCTTT
244125234 CTTTTTCTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 5 0.19
24 19 0.73
25 2 0.08
ACGTcount: A:0.04, C:0.07, G:0.07, T:0.82
Consensus pattern (24 bp):
TTTTCTTTTTATTTTGCTTTTGGT
Found at i:244125238 original size:12 final size:11
Alignment explanation
Indices: 244125178--244125239 Score: 52
Period size: 12 Copynumber: 5.2 Consensus size: 11
244125168 TTATTATTTA
244125178 TTTTCTTTTTAT
1 TTTTCTTTTT-T
** *
244125190 TTTGGTTTTGGT
1 TTTTCTTTT-TT
244125202 TTTTCTTTTATT
1 TTTTCTTTT-TT
244125214 TTTTCTTTTTTT
1 TTTTC-TTTTTT
244125226 TTTTCTTTCTTT
1 TTTTCTTT-TTT
244125238 TT
1 TT
244125240 CTTAGGAAAC
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
11 3 0.08
12 33 0.82
13 4 0.10
ACGTcount: A:0.03, C:0.08, G:0.06, T:0.82
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:244125629 original size:13 final size:13
Alignment explanation
Indices: 244125611--244125646 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
244125601 TGATTTAGGC
244125611 GCCACACAGCTTG
1 GCCACACAGCTTG
*
244125624 GCCACACGGCTTG
1 GCCACACAGCTTG
244125637 GCCACACAGC
1 GCCACACAGC
244125647 CTTGTGGCCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.22, C:0.42, G:0.25, T:0.11
Consensus pattern (13 bp):
GCCACACAGCTTG
Found at i:244125970 original size:20 final size:21
Alignment explanation
Indices: 244125928--244125974 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
244125918 GACCTGTTCG
244125928 CACGGCAATGTCCCTAGTCCA
1 CACGGCAATGTCCCTAGTCCA
*
244125949 CACGGC-ATGTGCCTCAGT-CA
1 CACGGCAATGTCCCT-AGTCCA
244125969 CACGGC
1 CACGGC
244125975 CGTGTGCCCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.21, C:0.38, G:0.23, T:0.17
Consensus pattern (21 bp):
CACGGCAATGTCCCTAGTCCA
Found at i:244126041 original size:40 final size:41
Alignment explanation
Indices: 244125970--244126071 Score: 183
Period size: 40 Copynumber: 2.6 Consensus size: 41
244125960 CCTCAGTCAC
244125970 ACGGCCGTGTG-CCCTCTTCA-ATGAGCATGTATCTTAACT
1 ACGGCCGTGTGCCCCTCTTCACATGAGCATGTATCTTAACT
244126009 ACGGCCGTGTGCCCCTCTTCACATGAGC-TGTATCTTAACT
1 ACGGCCGTGTGCCCCTCTTCACATGAGCATGTATCTTAACT
244126049 ACGGCCGTGTGCCCCTCTTCACA
1 ACGGCCGTGTGCCCCTCTTCACA
244126072 GGGCTTTTGG
Statistics
Matches: 61, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
39 11 0.18
40 44 0.72
41 6 0.10
ACGTcount: A:0.18, C:0.33, G:0.21, T:0.28
Consensus pattern (41 bp):
ACGGCCGTGTGCCCCTCTTCACATGAGCATGTATCTTAACT
Found at i:244127685 original size:25 final size:26
Alignment explanation
Indices: 244127607--244127686 Score: 83
Period size: 25 Copynumber: 3.0 Consensus size: 26
244127597 AAAATTGTAC
* *
244127607 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-A-TATAT
*
244127635 AGCACTATGTGTGC-GAGC-TATATAT
1 AGCACTAAGTGTGCGGA-CTTATATAT
244127660 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTA-TATAT
244127687 GCTTTTGCAT
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
25 19 0.43
26 5 0.11
27 7 0.16
28 13 0.30
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.34
Consensus pattern (26 bp):
AGCACTAAGTGTGCGGACTTATATAT
Found at i:244135503 original size:27 final size:28
Alignment explanation
Indices: 244135446--244135515 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
244135436 AAATTTGTAC
**
244135446 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
244135474 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
244135501 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
244135516 GACTTATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:244137958 original size:30 final size:31
Alignment explanation
Indices: 244137918--244137980 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 31
244137908 CCTTTTCATA
244137918 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
244137949 TTTCA-ATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
244137979 TT
1 TT
244137981 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:244138246 original size:22 final size:22
Alignment explanation
Indices: 244138172--244138332 Score: 218
Period size: 22 Copynumber: 7.0 Consensus size: 22
244138162 TGCTTTATCA
*
244138172 TATAACTGGAGGCCT-AGCCTCTTT
1 TATAACTGG-GGCATAAGCC-C-TT
244138196 TAATAACTGGGGCA-AAGCCCTTTT
1 T-ATAACTGGGGCATAAGCCC--TT
244138220 TATAACTGGGGCATAAGCCCTT
1 TATAACTGGGGCATAAGCCCTT
244138242 TATAACTGGGGCATAAGCCCTT
1 TATAACTGGGGCATAAGCCCTT
244138264 TATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCC-TT
244138287 TATAAACTGGGGCATAAGCCCTT
1 TAT-AACTGGGGCATAAGCCCTT
*
244138310 AATAACTGGGGCATAAGCCCTT
1 TATAACTGGGGCATAAGCCCTT
244138332 T
1 T
244138333 TGCACTTCCT
Statistics
Matches: 128, Mismatches: 3, Indels: 14
0.88 0.02 0.10
Matches are distributed among these distances:
22 63 0.49
23 22 0.17
24 35 0.27
25 8 0.06
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (22 bp):
TATAACTGGGGCATAAGCCCTT
Found at i:244138295 original size:46 final size:46
Alignment explanation
Indices: 244138172--244138333 Score: 226
Period size: 46 Copynumber: 3.5 Consensus size: 46
244138162 TGCTTTATCA
*
244138172 TATAACTGGAGGCCT-AGCCTCTTTTA-ATAACTGGGGCA-AAGCCCTTTT
1 TATAACTGG-GGCATAAGCC-CTTTTATA-AACTGGGGCATAAGCCC--TT
244138220 TATAACTGGGGCATAAGCCC-TTTAT-AACTGGGGCATAAGCCCTT
1 TATAACTGGGGCATAAGCCCTTTTATAAACTGGGGCATAAGCCCTT
244138264 TATAACTGGGGCATAAGCCCTTTTATAAACTGGGGCATAAGCCCTT
1 TATAACTGGGGCATAAGCCCTTTTATAAACTGGGGCATAAGCCCTT
*
244138310 AATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTT
244138334 GCACTTCCTC
Statistics
Matches: 107, Mismatches: 2, Indels: 12
0.88 0.02 0.10
Matches are distributed among these distances:
44 22 0.21
45 15 0.14
46 52 0.49
47 5 0.05
48 13 0.12
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (46 bp):
TATAACTGGGGCATAAGCCCTTTTATAAACTGGGGCATAAGCCCTT
Found at i:244138300 original size:68 final size:68
Alignment explanation
Indices: 244138172--244138332 Score: 238
Period size: 68 Copynumber: 2.3 Consensus size: 68
244138162 TGCTTTATCA
*
244138172 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAGCCCTTTTTATAACTGGGGCATAA
1 TATAACTGG-GGCATAAGCC-C-TTTAATAACTGGGGCAAAGCCCTTTTTATAACTGGGGCATAA
244138236 GCCCTT
63 GCCCTT
244138242 TATAACTGGGGCATAAGCCCTTT-ATAACTGGGGCATAAGCCC-TTTTATAAACTGGGGCATAAG
1 TATAACTGGGGCATAAGCCCTTTAATAACTGGGGCA-AAGCCCTTTTTAT-AACTGGGGCATAAG
244138305 CCCTT
64 CCCTT
*
244138310 AATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
244138333 TGCACTTCCT
Statistics
Matches: 86, Mismatches: 2, Indels: 8
0.90 0.02 0.08
Matches are distributed among these distances:
67 18 0.21
68 50 0.58
69 5 0.06
70 13 0.15
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (68 bp):
TATAACTGGGGCATAAGCCCTTTAATAACTGGGGCAAAGCCCTTTTTATAACTGGGGCATAAGCC
CTT
Found at i:244138407 original size:20 final size:20
Alignment explanation
Indices: 244138379--244138462 Score: 150
Period size: 20 Copynumber: 4.2 Consensus size: 20
244138369 GCATTTATGA
*
244138379 ACATCTCATGTGCATATCAT
1 ACATGTCATGTGCATATCAT
244138399 ACATGTCATGTGCATATCAT
1 ACATGTCATGTGCATATCAT
*
244138419 ACATATCATGTGCATATCAT
1 ACATGTCATGTGCATATCAT
244138439 ACATGTCATGTGCATATCAT
1 ACATGTCATGTGCATATCAT
244138459 ACAT
1 ACAT
244138463 ACATGTTTAT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (20 bp):
ACATGTCATGTGCATATCAT
Found at i:244138434 original size:11 final size:11
Alignment explanation
Indices: 244138384--244138458 Score: 63
Period size: 11 Copynumber: 7.4 Consensus size: 11
244138374 TATGAACATC
244138384 TCATGTGCATA
1 TCATGTGCATA
* *
244138395 TCA--TACATG
1 TCATGTGCATA
244138404 TCATGTGCATA
1 TCATGTGCATA
*
244138415 TCA--TACATA
1 TCATGTGCATA
244138424 TCATGTGCATA
1 TCATGTGCATA
* *
244138435 TCA--TACATG
1 TCATGTGCATA
244138444 TCATGTGCATA
1 TCATGTGCATA
244138455 TCAT
1 TCAT
244138459 ACATACATGT
Statistics
Matches: 48, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
9 22 0.46
11 26 0.54
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:244138549 original size:24 final size:25
Alignment explanation
Indices: 244138504--244138550 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
244138494 ATATATAAAC
* *
244138504 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCATAAAGGTCATTTTTA
244138529 CCTAGGGGCA-AAAGGTCATTTT
1 CCTAGGGGCATAAAGGTCATTTT
244138551 CATATTATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.34
Consensus pattern (25 bp):
CCTAGGGGCATAAAGGTCATTTTTA
Found at i:244139727 original size:25 final size:27
Alignment explanation
Indices: 244139694--244139782 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 27
244139684 CGGAACATAA
*
244139694 GGGCATATT-CGTCATTTTACCATACAG
1 GGGC-TATTACGTCACTTTACCATACAG
*
244139721 GGG-TATTACGGTCACTTTACCTTACAG
1 GGGCTATTAC-GTCACTTTACCATACAG
*
244139748 GGGCT-TTAC-TCACTTTACCCTACAG
1 GGGCTATTACGTCACTTTACCATACAG
244139773 GGGCT-TTACG
1 GGGCTATTACG
244139783 GTCTTTTACC
Statistics
Matches: 55, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
25 28 0.51
26 1 0.02
27 25 0.45
28 1 0.02
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (27 bp):
GGGCTATTACGTCACTTTACCATACAG
Found at i:244139794 original size:25 final size:27
Alignment explanation
Indices: 244139704--244139785 Score: 107
Period size: 25 Copynumber: 3.1 Consensus size: 27
244139694 GGGCATATTC
*
244139704 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCATACAGGGGCT-TTACG
*
244139731 GTCACTTTACCTTACAGGGGCTTTAC-
1 GTCACTTTACCATACAGGGGCTTTACG
*
244139757 -TCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCATACAGGGGCTTTACG
244139783 GTC
1 GTC
244139786 TTTTACCTAA
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
25 24 0.49
27 24 0.49
28 1 0.02
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.33
Consensus pattern (27 bp):
GTCACTTTACCATACAGGGGCTTTACG
Found at i:244139876 original size:27 final size:27
Alignment explanation
Indices: 244139846--244139952 Score: 85
Period size: 27 Copynumber: 3.9 Consensus size: 27
244139836 GTAAATCTAC
244139846 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
244139873 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* * *
244139899 AGAAAGTCAAGGGTATTT-TGTAACTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* * **
244139928 AAATCAGGGGTATTTTGGTAATTTT
1 AAACCAAGGGTATTTCAGTAATTTT
244139953 ACAAATTGAG
Statistics
Matches: 65, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
26 12 0.18
27 32 0.49
28 10 0.15
29 11 0.17
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:244139958 original size:27 final size:27
Alignment explanation
Indices: 244139895--244140055 Score: 167
Period size: 27 Copynumber: 6.1 Consensus size: 27
244139885 TTTCTATAAT
* *
244139895 TTTTAGAAAGTCAAGGGTATTTT-GTAA
1 TTTTACAAA-TCAGGGGTATTTTGGTAA
* **
244139922 CTTTGTAAATCAGGGGTATTTTGGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
*
244139949 TTTTACAAAT-TGAGGGTA-TTTGGTAA
1 TTTTACAAATCAG-GGGTATTTTGGTAA
* *
244139975 -TTTACAAACCAGGTGTATTTTGGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
244140001 TTTTACAAA-CTAGGGGTATTTTGGTAA
1 TTTTACAAATC-AGGGGTATTTTGGTAA
244140028 TTTTACAAAT-A-GGGTATTTT-GTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
244140052 TTTT
1 TTTT
244140056 GTAAATCGAG
Statistics
Matches: 115, Mismatches: 12, Indels: 17
0.80 0.08 0.12
Matches are distributed among these distances:
24 8 0.07
25 21 0.18
26 32 0.28
27 54 0.47
ACGTcount: A:0.30, C:0.06, G:0.21, T:0.43
Consensus pattern (27 bp):
TTTTACAAATCAGGGGTATTTTGGTAA
Found at i:244139997 original size:52 final size:51
Alignment explanation
Indices: 244139908--244140069 Score: 168
Period size: 52 Copynumber: 3.1 Consensus size: 51
244139898 TAGAAAGTCA
* **
244139908 AGGGTATTTTGTAACTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTGGTAACTTTACAAA-CA-GGGTATTTTGGTAATTTTACAAATTG
*
244139961 AGGGTATTTGGTAA-TTTACAAACCAGGTGTATTTTGGTAATTTTACAAACT-
1 AGGGTATTTGGTAACTTTACAAA-CAGG-GTATTTTGGTAATTTTACAAATTG
* * ** *
244140012 AGGGGTATTTTGGTAATTTTACAAATAGGGTATTTT-GTAATTTTGTAAATCG
1 A-GGGTA-TTTGGTAACTTTACAAACAGGGTATTTTGGTAATTTTACAAATTG
244140064 AGGGTA
1 AGGGTA
244140070 AAATAGTAAT
Statistics
Matches: 94, Mismatches: 10, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
51 19 0.20
52 43 0.46
53 24 0.26
54 8 0.09
ACGTcount: A:0.30, C:0.06, G:0.23, T:0.41
Consensus pattern (51 bp):
AGGGTATTTGGTAACTTTACAAACAGGGTATTTTGGTAATTTTACAAATTG
Found at i:244140179 original size:26 final size:27
Alignment explanation
Indices: 244140048--244140311 Score: 256
Period size: 27 Copynumber: 9.8 Consensus size: 27
244140038 AGGGTATTTT
* **
244140048 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
244140075 GTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
244140102 GTAATTCTATAAATCGA-GGTAAAA--
1 GTAATTCTGTAAATCGAGGGTAAAACG
244140126 -TAATT-TGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
244140151 GTAATTCTGTAAGTCGAGGGTAAAAGGTAAAATG
1 GTAATTCTGTAAATCGA--G-----GGTAAAACG
* *
244140185 GTAATTATGTAAATCG-GGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
244140211 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
244140238 GTAATTCTATAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
244140265 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
244140292 GTAATT-TGTAAATCG-GGGTA
1 GTAATTCTGTAAATCGAGGGTA
244140312 TTTGTAATTT
Statistics
Matches: 206, Mismatches: 18, Indels: 28
0.82 0.07 0.11
Matches are distributed among these distances:
22 9 0.04
23 12 0.06
25 5 0.02
26 43 0.21
27 113 0.55
29 1 0.00
31 1 0.00
34 22 0.11
ACGTcount: A:0.41, C:0.07, G:0.23, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:244140180 original size:34 final size:34
Alignment explanation
Indices: 244140142--244140214 Score: 103
Period size: 34 Copynumber: 2.1 Consensus size: 34
244140132 GTAAATCGAG
* *
244140142 GGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAA-
1 GGTAAAACGGTAATTATGTAAATCG-GGGTAAAAT
*
244140176 GGTAAAATGGTAATTATGTAAATCGGGGTAAAAT
1 GGTAAAACGGTAATTATGTAAATCGGGGTAAAAT
244140210 GGTAA
1 GGTAA
244140215 TTTTGTAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
33 8 0.23
34 27 0.77
ACGTcount: A:0.40, C:0.05, G:0.29, T:0.26
Consensus pattern (34 bp):
GGTAAAACGGTAATTATGTAAATCGGGGTAAAAT
Found at i:244140242 original size:87 final size:84
Alignment explanation
Indices: 244140093--244140268 Score: 228
Period size: 87 Copynumber: 2.1 Consensus size: 84
244140083 GTAAATCAAG
* * *
244140093 GGTAAAATAGTAATTCTATAAATCGAGGTAAAATAATTTGTAAATCGAGGGTAAAACGGTAATTC
1 GGTAAAATAGTAATTATATAAATCGAGGTAAAATAATTTGTAAATCAAGGGTAAAACAGTAATTC
* * *
244140158 TGTAAGTCGAGGGTAAAA-
66 TATAAATCAAGGGTAAAAC
* * *
244140176 GGTAAAATGGTAATTATGTAAATCGGGGTAAAATGGTAATTTTGTAAATCAAGGGTAAAACAGTA
1 GGTAAAATAGTAATTATATAAATCGAGGTAAAA---TAA-TTTGTAAATCAAGGGTAAAACAGTA
244140241 ATTCTATAAATCAAGGGTAAAAC
62 ATTCTATAAATCAAGGGTAAAAC
244140264 GGTAA
1 GGTAA
244140269 TTCTATAAAT
Statistics
Matches: 79, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
83 29 0.37
86 3 0.04
87 42 0.53
88 5 0.06
ACGTcount: A:0.43, C:0.07, G:0.23, T:0.28
Consensus pattern (84 bp):
GGTAAAATAGTAATTATATAAATCGAGGTAAAATAATTTGTAAATCAAGGGTAAAACAGTAATTC
TATAAATCAAGGGTAAAAC
Found at i:244143175 original size:31 final size:31
Alignment explanation
Indices: 244143134--244143197 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
244143124 CCTTTTCATA
*
244143134 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
244143165 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
244143196 TT
1 TT
244143198 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:244143461 original size:22 final size:22
Alignment explanation
Indices: 244143386--244143565 Score: 235
Period size: 22 Copynumber: 8.0 Consensus size: 22
244143376 TGCTTTATCA
*
244143386 TATAACTGGAGGCCT-AGCCTCTTT
1 TATAACTGG-GGCATAAGCC-C-TT
*
244143410 TAATAACTGGGGCAAAAGCCCTTTT
1 T-ATAACTGGGGCATAAGCCC--TT
244143435 TATAACTGGGGCATAAGCCCTT
1 TATAACTGGGGCATAAGCCCTT
244143457 TATAACTGGGGCATAAGCCC-T
1 TATAACTGGGGCATAAGCCCTT
244143478 TATAACTGGGG--TAAGCCCTT
1 TATAACTGGGGCATAAGCCCTT
244143498 TATAACTGGGGCATAAGCCCTT
1 TATAACTGGGGCATAAGCCCTT
244143520 TAATAACT-GGGCATAAGCCCTT
1 T-ATAACTGGGGCATAAGCCCTT
244143542 TAATAACTGGGGCATAAGCCCTT
1 T-ATAACTGGGGCATAAGCCCTT
244143565 T
1 T
244143566 TTCACTTCCT
Statistics
Matches: 145, Mismatches: 3, Indels: 17
0.88 0.02 0.10
Matches are distributed among these distances:
19 7 0.05
20 12 0.08
21 12 0.08
22 54 0.37
23 21 0.14
24 23 0.16
25 16 0.11
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (22 bp):
TATAACTGGGGCATAAGCCCTT
Found at i:244143515 original size:63 final size:66
Alignment explanation
Indices: 244143408--244143565 Score: 234
Period size: 63 Copynumber: 2.4 Consensus size: 66
244143398 CCTAGCCTCT
*
244143408 TTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGCCCTTT-ATAACTGGGGCATA
1 TTTAATAACTGGGG-ATAAGCCC--TTTATAACTGGGGCATAAGCCCTTTAATAACT-GGGCATA
244143472 AGCCC
62 AGCCC
244143477 -TT-ATAACTGGGG-TAAGCCCTTTATAACTGGGGCATAAGCCCTTTAATAACTGGGCATAAGCC
1 TTTAATAACTGGGGATAAGCCCTTTATAACTGGGGCATAAGCCCTTTAATAACTGGGCATAAGCC
244143539 C
66 C
244143540 TTTAATAACTGGGGCATAAGCCCTTT
1 TTTAATAACTGGGG-ATAAGCCCTTT
244143566 TTCACTTCCT
Statistics
Matches: 83, Mismatches: 1, Indels: 12
0.86 0.01 0.12
Matches are distributed among these distances:
63 37 0.45
64 8 0.10
65 16 0.19
67 20 0.24
68 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (66 bp):
TTTAATAACTGGGGATAAGCCCTTTATAACTGGGGCATAAGCCCTTTAATAACTGGGCATAAGCC
C
Found at i:244143640 original size:20 final size:20
Alignment explanation
Indices: 244143612--244143655 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
244143602 GCATTTATGA
244143612 ACATCTCATGTGCATATCAT
1 ACATCTCATGTGCATATCAT
*
244143632 ACATGTCATGTGCATATCAT
1 ACATCTCATGTGCATATCAT
244143652 ACAT
1 ACAT
244143656 ACCATGTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (20 bp):
ACATCTCATGTGCATATCAT
Found at i:244143661 original size:20 final size:20
Alignment explanation
Indices: 244143618--244143662 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
244143608 ATGAACATCT
**
244143618 CATGTGCATATCATACATGT
1 CATGTGCATATCATACATAC
244143638 CATGTGCATATCATACATAC
1 CATGTGCATATCATACATAC
244143658 CATGT
1 CATGT
244143663 TTATCAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.33
Consensus pattern (20 bp):
CATGTGCATATCATACATAC
Found at i:244143742 original size:24 final size:25
Alignment explanation
Indices: 244143697--244143743 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
244143687 TCATATAAAC
* *
244143697 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCATAAAGGTCATTTTTA
244143722 CCTAGGGGCA-AAAGGTCATTTT
1 CCTAGGGGCATAAAGGTCATTTT
244143744 CATATTATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.34
Consensus pattern (25 bp):
CCTAGGGGCATAAAGGTCATTTTTA
Found at i:244147326 original size:40 final size:40
Alignment explanation
Indices: 244147281--244147410 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
244147271 CGGAATACAA
244147281 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
244147321 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
244147361 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
244147401 CCGGATATAA
1 CCGGATATAA
244147411 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:244147425 original size:40 final size:40
Alignment explanation
Indices: 244147281--244147444 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
244147271 CGGAATACAA
* **
244147281 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
244147321 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
244147361 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
244147401 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
244147441 CCGG
1 CCGG
244147445 TATCATTCAA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Done.