Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 39 of 295
Found at i:11027245 original size:16 final size:18
Alignment explanation
Indices: 11027218--11027250 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11027208 TAGAATTGGG
11027218 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
11027235 TTGAG-AAATTAATTTA
1 TTGAGAAAATTAATTTA
11027251 GTTAATTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:11029231 original size:2 final size:2
Alignment explanation
Indices: 11029219--11029250 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
11029209 ATCTTCAAAT
*
11029219 TA TA CA 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
11029251 AACCCACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:11030122 original size:60 final size:60
Alignment explanation
Indices: 11029986--11030159 Score: 147
Period size: 60 Copynumber: 2.9 Consensus size: 60
11029976 TTAATATAAC
* * *
11029986 ATTTGGTACCTAAACTTGACACTTTTTTCTAATTTTGCATCTAAACTTTTTTTTGGTCCA
1 ATTTGATACCTAAACTTGACACTTTTTTCTAAGTTGGCATCTAAACTTTTTTTTGGTCCA
* * * *
11030046 ATTTGATACCCAAACTTGACAC-TTTTTCTTAAGTTGGTA-CTTAA-TTTTTTTTGGGGTTCA
1 ATTTGATACCTAAACTTGACACTTTTTTC-TAAGTTGGCATCTAAACTTTTTTTT--GGTCCA
* * * * * * * * * *
11030106 ATTTTATACCTGAACTTTACTCATTTTCCTAATTTAGCACCTAATCTTTTTTTT
1 ATTTGATACCTAAACTTGACACTTTTTTCTAAGTTGGCATCTAAACTTTTTTTT
11030160 TCGATTTGGT
Statistics
Matches: 90, Mismatches: 18, Indels: 10
0.76 0.15 0.08
Matches are distributed among these distances:
58 8 0.09
59 10 0.11
60 56 0.62
61 8 0.09
62 8 0.09
ACGTcount: A:0.24, C:0.18, G:0.10, T:0.49
Consensus pattern (60 bp):
ATTTGATACCTAAACTTGACACTTTTTTCTAAGTTGGCATCTAAACTTTTTTTTGGTCCA
Found at i:11030664 original size:30 final size:30
Alignment explanation
Indices: 11030630--11030692 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
11030620 ACTTATTTTA
11030630 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
11030660 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
11030690 TTG
1 TTG
11030693 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:11031063 original size:19 final size:20
Alignment explanation
Indices: 11031017--11031063 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
11031007 TTTTAACATC
*
11031017 AATTTTTTGTAGTACTGACA
1 AATTTTTTGTAGTACTAACA
*
11031037 ACA-TTTTTGTAGT-GTAACA
1 A-ATTTTTTGTAGTACTAACA
11031056 AATTTTTT
1 AATTTTTT
11031064 TTAATACTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
18 1 0.04
19 10 0.43
20 11 0.48
21 1 0.04
ACGTcount: A:0.30, C:0.09, G:0.13, T:0.49
Consensus pattern (20 bp):
AATTTTTTGTAGTACTAACA
Found at i:11039338 original size:17 final size:18
Alignment explanation
Indices: 11039300--11039338 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
11039290 CGTGTGACAT
* *
11039300 GCCCGTGTGGGGCCACAT
1 GCCCGTGTGGGCCCACAC
11039318 GCCCGTGT-GGCCCACAC
1 GCCCGTGTGGGCCCACAC
11039335 GCCC
1 GCCC
11039339 AATTTTGGCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.10, C:0.44, G:0.33, T:0.13
Consensus pattern (18 bp):
GCCCGTGTGGGCCCACAC
Found at i:11047546 original size:12 final size:12
Alignment explanation
Indices: 11047519--11047557 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
11047509 ATGCAAATGA
11047519 AATAATTTAA-T
1 AATAATTTAATT
11047530 AATAATTTAATT
1 AATAATTTAATT
11047542 AATAATATT-ATT
1 AATAAT-TTAATT
11047554 AATA
1 AATA
11047558 TAACAATTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 10 0.38
12 14 0.54
13 2 0.08
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
AATAATTTAATT
Found at i:11051644 original size:76 final size:76
Alignment explanation
Indices: 11051488--11051628 Score: 185
Period size: 76 Copynumber: 1.9 Consensus size: 76
11051478 GAATGTCCGG
* * *
11051488 AGTAAGTAGATTGTGCCCAACGCTCATCAGTTTAACCGAAGTAGTAATTGTGCCCAACACTCATC
1 AGTAAGTAGATTGCGCCCAACACTCATCAGTTTAACCGAAGTAATAATTGTGCCCAACACTCATC
11051553 GAAATGTCTAA
66 GAAATGTCTAA
* * ** ** *
11051564 AGTAAGTAGATTGCGCGCAACACTTATTGGTTTAATTGAAGTAATAATTGTGCCCAGCA-TCATC
1 AGTAAGTAGATTGCGCCCAACACTCATCAGTTTAACCGAAGTAATAATTGTGCCCAACACTCATC
11051628 G
66 G
11051629 CATATGGTTG
Statistics
Matches: 55, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
75 6 0.11
76 49 0.89
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (76 bp):
AGTAAGTAGATTGCGCCCAACACTCATCAGTTTAACCGAAGTAATAATTGTGCCCAACACTCATC
GAAATGTCTAA
Found at i:11053361 original size:42 final size:42
Alignment explanation
Indices: 11053282--11053361 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
11053272 GTGTCTTCAC
*
11053282 CCGTGTAACTCACTGAGATGCCCCACACGCTCGTGTGTTGAG
1 CCGTGTAACTCACTGAGATGCCCCACACGCTCATGTGTTGAG
*
11053324 CCGTGTAACTCTA-TGAGTTGCCCCACACGC-CTATGTGT
1 CCGTGTAACTC-ACTGAGATGCCCCACACGCTC-ATGTGT
11053362 CAGGCCGTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
41 1 0.03
42 32 0.94
43 1 0.03
ACGTcount: A:0.19, C:0.31, G:0.24, T:0.26
Consensus pattern (42 bp):
CCGTGTAACTCACTGAGATGCCCCACACGCTCATGTGTTGAG
Found at i:11053369 original size:42 final size:42
Alignment explanation
Indices: 11053282--11053371 Score: 105
Period size: 42 Copynumber: 2.1 Consensus size: 42
11053272 GTGTCTTCAC
* *
11053282 CCGTGTAACTCACTGAGATGCCCCACACGCTCGTGTGTTGAG
1 CCGTGTAACTCACTGAGATGCCCCACACGCTCATGTGTAGAG
*
11053324 CCGTGTAACTCTA-TGAGTTGCCCCACACGC-CTATGTGTCAG-G
1 CCGTGTAACTC-ACTGAGATGCCCCACACGCTC-ATGTGT-AGAG
11053366 CCGTGT
1 CCGTGT
11053372 GCTTGGCAGT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
41 1 0.02
42 39 0.93
43 2 0.05
ACGTcount: A:0.18, C:0.31, G:0.26, T:0.26
Consensus pattern (42 bp):
CCGTGTAACTCACTGAGATGCCCCACACGCTCATGTGTAGAG
Found at i:11054146 original size:40 final size:40
Alignment explanation
Indices: 11054084--11054275 Score: 183
Period size: 40 Copynumber: 4.8 Consensus size: 40
11054074 TTAGGATTAC
* *
11054084 CAAAGTACCAACAGGGGTACGTATGTGCATTCAGTGG-TAT
1 CAAAGTACAAACAGGGGCACGTATGTGCATTCAG-GGATAT
* * *
11054124 CAAAGTACAAATAAGGGCACGTATGTGCATTCAGAGG-TAC
1 CAAAGTACAAACAGGGGCACGTATGTGCATTCAG-GGATAT
* * *
11054164 CGAAGTACAAACAGGGGCACTTATGT-TATTCAGGGATAT
1 CAAAGTACAAACAGGGGCACGTATGTGCATTCAGGGATAT
** ** * * *
11054203 TGAAGTACAAGTAAGGGCACATATGTGCATTTAGGGATAT
1 CAAAGTACAAACAGGGGCACGTATGTGCATTCAGGGATAT
* * *
11054243 CAAAGTATAAACAGGGGCACGCATGTACATTCA
1 CAAAGTACAAACAGGGGCACGTATGTGCATTCA
11054276 AACAATAATT
Statistics
Matches: 121, Mismatches: 29, Indels: 4
0.79 0.19 0.03
Matches are distributed among these distances:
38 2 0.02
39 29 0.24
40 90 0.74
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (40 bp):
CAAAGTACAAACAGGGGCACGTATGTGCATTCAGGGATAT
Found at i:11054218 original size:79 final size:80
Alignment explanation
Indices: 11054081--11054275 Score: 225
Period size: 79 Copynumber: 2.5 Consensus size: 80
11054071 GATTTAGGAT
* * *
11054081 TACCAAAGTACCAACAGGGGTACGTATGTGCATTCAGTGGTATCAAAGTACAAATAAGGGCACGT
1 TACCAAAGTACAAACAGGGGCACGTATGTGCATTCAGTGGTATCAAAGTACAAATAAGGGCACAT
11054146 ATGTGCATTCAGAGG-
66 ATGTGCATTCAG-GGA
* * * ** *
11054161 TACCGAAGTACAAACAGGGGCACTTATGT-TATTCAG-GGATATTGAAGTACAAGTAAGGGCACA
1 TACCAAAGTACAAACAGGGGCACGTATGTGCATTCAGTGG-TATCAAAGTACAAATAAGGGCACA
*
11054224 TATGTGCATTTAGGGA
65 TATGTGCATTCAGGGA
* * * *
11054240 TATCAAAGTATAAACAGGGGCACGCATGTACATTCA
1 TACCAAAGTACAAACAGGGGCACGTATGTGCATTCA
11054276 AACAATAATT
Statistics
Matches: 96, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
78 4 0.04
79 62 0.65
80 30 0.31
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (80 bp):
TACCAAAGTACAAACAGGGGCACGTATGTGCATTCAGTGGTATCAAAGTACAAATAAGGGCACAT
ATGTGCATTCAGGGA
Found at i:11056425 original size:25 final size:25
Alignment explanation
Indices: 11056396--11056447 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
11056386 AAAGTTGTGG
11056396 TTCCTAAAATAGGATTGATTGTGAT
1 TTCCTAAAATAGGATTGATTGTGAT
*
11056421 TTCCTAAAATATGATTGATTGTGAT
1 TTCCTAAAATAGGATTGATTGTGAT
11056446 TT
1 TT
11056448 AGGCTAACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.44
Consensus pattern (25 bp):
TTCCTAAAATAGGATTGATTGTGAT
Found at i:11066369 original size:24 final size:23
Alignment explanation
Indices: 11066320--11066371 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
11066310 GTACTATTCG
* *
11066320 TAATAAAATATATAAATAAATGA
1 TAATAAAATAGATAAATAAATAA
11066343 TAATAATAATAGATAAA-ATAATAA
1 TAATAA-AATAGATAAATA-AATAA
11066367 TAATA
1 TAATA
11066372 TATGTACAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 7 0.28
24 18 0.72
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (23 bp):
TAATAAAATAGATAAATAAATAA
Found at i:11066465 original size:11 final size:11
Alignment explanation
Indices: 11066446--11066503 Score: 57
Period size: 11 Copynumber: 5.4 Consensus size: 11
11066436 ATGGATGAAT
*
11066446 AAATAATAATA
1 AAATGATAATA
11066457 AAATGATAATA
1 AAATGATAATA
*
11066468 AAA-GACAATA
1 AAATGATAATA
*
11066478 AAATAATAAT-
1 AAATGATAATA
*
11066488 AATTGTATAATA
1 AAATG-ATAATA
11066500 AAAT
1 AAAT
11066504 AAATAATGAA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
10 12 0.32
11 22 0.59
12 3 0.08
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.28
Consensus pattern (11 bp):
AAATGATAATA
Found at i:11067351 original size:20 final size:20
Alignment explanation
Indices: 11067315--11067356 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
11067305 ATAAGTATAT
* *
11067315 ATATGCTATGTTGAAAATAA
1 ATATGCAATGTTGAAAAAAA
11067335 ATATGCAATG-TGTAAAAAAA
1 ATATGCAATGTTG-AAAAAAA
11067355 AT
1 AT
11067357 GAAAATATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.50, C:0.05, G:0.14, T:0.31
Consensus pattern (20 bp):
ATATGCAATGTTGAAAAAAA
Found at i:11068509 original size:24 final size:25
Alignment explanation
Indices: 11068445--11068499 Score: 87
Period size: 24 Copynumber: 2.3 Consensus size: 25
11068435 TAATTTATTT
11068445 TTATTTAAA-ATAAATAAATTAATA
1 TTATTTAAATATAAATAAATTAATA
*
11068469 TTATTTAAATATAAATAGATTAA-A
1 TTATTTAAATATAAATAAATTAATA
11068493 TTATTTA
1 TTATTTA
11068500 TTTGTAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 17 0.59
25 12 0.41
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (25 bp):
TTATTTAAATATAAATAAATTAATA
Found at i:11089959 original size:23 final size:22
Alignment explanation
Indices: 11089923--11089967 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
11089913 ATTTGATAAT
11089923 ATGTTTTGATATAACAAATTAAA
1 ATGTTTTGATATAA-AAATTAAA
*
11089946 ATGTTTTCGA-ATAAAAGTTAAA
1 ATGTTTT-GATATAAAAATTAAA
11089968 GTTGAACAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 7 0.35
23 11 0.55
24 2 0.10
ACGTcount: A:0.47, C:0.04, G:0.11, T:0.38
Consensus pattern (22 bp):
ATGTTTTGATATAAAAATTAAA
Found at i:11095856 original size:22 final size:22
Alignment explanation
Indices: 11095828--11095869 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
11095818 AATCAATTAC
11095828 AAAAAGTATCAATACCTTTTCA
1 AAAAAGTATCAATACCTTTTCA
**
11095850 AAAAAGTATGGATACCTTTT
1 AAAAAGTATCAATACCTTTT
11095870 ACTAGGTACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (22 bp):
AAAAAGTATCAATACCTTTTCA
Found at i:11099648 original size:29 final size:27
Alignment explanation
Indices: 11099610--11099688 Score: 95
Period size: 27 Copynumber: 2.8 Consensus size: 27
11099600 TTTAAATTTA
*
11099610 TTAATATTATAATATAGAGAATATAAAAAC
1 TTAA-ATTATAATA-AAAGAAT-TAAAAAC
* *
11099640 TTAAATTATAATAAAAGTATTATAAAC
1 TTAAATTATAATAAAAGAATTAAAAAC
*
11099667 TTAAATTATAATAAAAGTATTA
1 TTAAATTATAATAAAAGAATTA
11099689 TAAATAATTT
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 28 0.61
28 5 0.11
29 9 0.20
30 4 0.09
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.37
Consensus pattern (27 bp):
TTAAATTATAATAAAAGAATTAAAAAC
Found at i:11099674 original size:27 final size:27
Alignment explanation
Indices: 11099636--11099692 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
11099626 GAGAATATAA
11099636 AAACTTAAATTATAATAAAAGTATTAT
1 AAACTTAAATTATAATAAAAGTATTAT
11099663 AAACTTAAATTATAATAAAAGTATTAT
1 AAACTTAAATTATAATAAAAGTATTAT
11099690 AAA
1 AAA
11099693 TAATTTATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (27 bp):
AAACTTAAATTATAATAAAAGTATTAT
Found at i:11105939 original size:9 final size:9
Alignment explanation
Indices: 11105918--11105966 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
11105908 AAATTTATTT
11105918 AAAA-TATA
1 AAAATTATA
11105926 GAAAATTATA
1 -AAAATTATA
* *
11105936 AAAATCACA
1 AAAATTATA
*
11105945 AAAATTACA
1 AAAATTATA
11105954 AAAATTATA
1 AAAATTATA
11105963 AAAA
1 AAAA
11105967 ATCTTAAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
9 31 0.89
10 4 0.11
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.22
Consensus pattern (9 bp):
AAAATTATA
Found at i:11106085 original size:16 final size:16
Alignment explanation
Indices: 11106064--11106095 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
11106054 TATAATTTTT
11106064 TATAAAATTGTAAAAA
1 TATAAAATTGTAAAAA
11106080 TATAAAATTGTAAAAA
1 TATAAAATTGTAAAAA
11106096 GTATTATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (16 bp):
TATAAAATTGTAAAAA
Found at i:11106225 original size:4 final size:4
Alignment explanation
Indices: 11106216--11106241 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
11106206 TGGGGAGTAT
11106216 TACA TACA TACA TACA TACA TACA TA
1 TACA TACA TACA TACA TACA TACA TA
11106242 TTCACTATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (4 bp):
TACA
Found at i:11106645 original size:10 final size:10
Alignment explanation
Indices: 11106614--11106678 Score: 73
Period size: 9 Copynumber: 6.7 Consensus size: 10
11106604 TTCCTATATA
11106614 TTTTATAAA-
1 TTTTATAAAT
*
11106623 TTTTAT-GAT
1 TTTTATAAAT
11106632 TTTTATAAAT
1 TTTTATAAAT
11106642 TTTTAT-AAT
1 TTTTATAAAT
*
11106651 TTTTATAAAA
1 TTTTATAAAT
*
11106661 TTTTACAAAT
1 TTTTATAAAT
11106671 TCTTTATA
1 T-TTTATA
11106679 TATTATTTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
8 1 0.02
9 21 0.46
10 19 0.41
11 5 0.11
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (10 bp):
TTTTATAAAT
Found at i:11106647 original size:19 final size:18
Alignment explanation
Indices: 11106614--11106665 Score: 77
Period size: 19 Copynumber: 2.8 Consensus size: 18
11106604 TTCCTATATA
*
11106614 TTTTATAAATTTTATGAT
1 TTTTATAAATTTTATAAT
11106632 TTTTATAAATTTTTATAAT
1 TTTTATAAA-TTTTATAAT
11106651 TTTTATAAAATTTTA
1 TTTTAT-AAATTTTA
11106666 CAAATTCTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
18 9 0.29
19 19 0.61
20 3 0.10
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
TTTTATAAATTTTATAAT
Found at i:11108664 original size:14 final size:14
Alignment explanation
Indices: 11108629--11108671 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
11108619 TTAATATTAA
*
11108629 ATAAGTAATAAATG
1 ATAAATAATAAATG
*
11108643 TAATAAATGATAAATG
1 --ATAAATAATAAATG
11108659 ATAAATAATAAAT
1 ATAAATAATAAAT
11108672 AAAAGTAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.50
16 12 0.50
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.30
Consensus pattern (14 bp):
ATAAATAATAAATG
Found at i:11127796 original size:42 final size:44
Alignment explanation
Indices: 11127732--11127848 Score: 145
Period size: 43 Copynumber: 2.7 Consensus size: 44
11127722 GAGATGTGAT
* * *
11127732 TTACATGTAAGACCCTGTGTGGGATAGTGGCAT--TTATTACGA-
1 TTACGTGTAAGACCCTGTGTGGGACAGTGGCATCATTAAT-CGAC
*
11127774 TTACGTGTAAGACCATGTGTGGGACA-TCGGCATCATTAATCGAC
1 TTACGTGTAAGACCCTGTGTGGGACAGT-GGCATCATTAATCGAC
11127818 TT-CGTGTAAGACCCTGTGTGGGACAGTGGCA
1 TTACGTGTAAGACCCTGTGTGGGACAGTGGCA
11127849 CCGATGCGTG
Statistics
Matches: 65, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
41 1 0.02
42 28 0.43
43 29 0.45
44 7 0.11
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (44 bp):
TTACGTGTAAGACCCTGTGTGGGACAGTGGCATCATTAATCGAC
Found at i:11132422 original size:14 final size:14
Alignment explanation
Indices: 11132403--11132434 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
11132393 ATACCAATAA
11132403 TTTGATCACTTGAT
1 TTTGATCACTTGAT
11132417 TTTGATCACTTGAT
1 TTTGATCACTTGAT
11132431 TTTG
1 TTTG
11132435 GCATTAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.19, C:0.12, G:0.16, T:0.53
Consensus pattern (14 bp):
TTTGATCACTTGAT
Found at i:11135834 original size:19 final size:19
Alignment explanation
Indices: 11135810--11135860 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
11135800 TTAAAACATT
11135810 TTTAACTTGATTGAAAATC-
1 TTTAACTTGATTG-AAATCA
**
11135829 TTTAACTCAATTGAAATCA
1 TTTAACTTGATTGAAATCA
11135848 TTTTAACTTGATT
1 -TTTAACTTGATT
11135861 TTATCATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 5 0.19
19 11 0.42
20 10 0.38
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (19 bp):
TTTAACTTGATTGAAATCA
Found at i:11145844 original size:12 final size:12
Alignment explanation
Indices: 11145814--11145847 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
11145804 AAATCTCTTT
* *
11145814 ATATATATATAT
1 ATATATTTATAA
11145826 ATATATTTATAA
1 ATATATTTATAA
11145838 ATATATTTAT
1 ATATATTTAT
11145848 TGTATAAGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
ATATATTTATAA
Found at i:11148969 original size:13 final size:13
Alignment explanation
Indices: 11148953--11148993 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
11148943 TTGAAACTTG
11148953 AACTTGAACCTCA
1 AACTTGAACCTCA
11148966 AACTTGAACC-CTA
1 AACTTGAACCTC-A
11148979 AACATTGAA-CTCA
1 AAC-TTGAACCTCA
11148992 AA
1 AA
11148994 TCCCGAACCT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 1 0.04
13 18 0.72
14 6 0.24
ACGTcount: A:0.44, C:0.27, G:0.07, T:0.22
Consensus pattern (13 bp):
AACTTGAACCTCA
Found at i:11149034 original size:7 final size:7
Alignment explanation
Indices: 11149022--11149046 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11149012 GAACCTTGAG
11149022 TCTCGAA
1 TCTCGAA
11149029 TCTCGAA
1 TCTCGAA
11149036 TCTCGAA
1 TCTCGAA
11149043 TCTC
1 TCTC
11149047 AAACCTCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.32, G:0.12, T:0.32
Consensus pattern (7 bp):
TCTCGAA
Found at i:11152113 original size:25 final size:25
Alignment explanation
Indices: 11152041--11152117 Score: 59
Period size: 24 Copynumber: 3.0 Consensus size: 25
11152031 TAAAACTAAA
11152041 TTATATATTTTTATAATAATAATATAATT
1 TTATA-ATTTTTATAA-AAT--TATAATT
* * * **
11152070 TTATTATTTTAAT-AGATTATGTTT
1 TTATAATTTTTATAAAATTATAATT
11152094 TTATAATTTTTATAAAATTA-AATT
1 TTATAATTTTTATAAAATTATAATT
11152118 AAATTTTATC
Statistics
Matches: 37, Mismatches: 10, Indels: 7
0.69 0.19 0.13
Matches are distributed among these distances:
24 18 0.49
25 5 0.14
26 2 0.05
27 1 0.03
28 7 0.19
29 4 0.11
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (25 bp):
TTATAATTTTTATAAAATTATAATT
Found at i:11152123 original size:53 final size:53
Alignment explanation
Indices: 11152041--11152141 Score: 129
Period size: 53 Copynumber: 1.9 Consensus size: 53
11152031 TAAAACTAAA
*
11152041 TTATATATTTTTATAATAATAATATAATTTTATTA-TTTTAATAGATTATGTTT
1 TTATATATTTTTATAATAATAATATAATTTTATCATTTTTAA-AGATTATGTTT
11152094 TTATA-ATTTTTATAA-AATTAA-ATTAAATTTTATCATTTTTAAAGATTA
1 TTATATATTTTTATAATAA-TAATA-T-AATTTTATCATTTTTAAAGATTA
11152142 AAGTGTAATT
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
51 3 0.07
52 14 0.33
53 20 0.47
54 6 0.14
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (53 bp):
TTATATATTTTTATAATAATAATATAATTTTATCATTTTTAAAGATTATGTTT
Found at i:11152853 original size:22 final size:24
Alignment explanation
Indices: 11152826--11152884 Score: 79
Period size: 22 Copynumber: 2.6 Consensus size: 24
11152816 AAAACATGAT
*
11152826 ATTTTAAAACTAT-TTTATAT-AA
1 ATTTTAAAACTATATATATATAAA
*
11152848 ATTTTAATA-TATATATATATAAA
1 ATTTTAAAACTATATATATATAAA
11152871 ATTTTAAAACTATA
1 ATTTTAAAACTATA
11152885 AAAATTCAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 3 0.10
22 14 0.45
23 10 0.32
24 4 0.13
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.47
Consensus pattern (24 bp):
ATTTTAAAACTATATATATATAAA
Found at i:11154245 original size:31 final size:31
Alignment explanation
Indices: 11154197--11154255 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
11154187 AATAACTCAC
11154197 TAAAGTTTACTACAACCATGTTAGATTTAAG
1 TAAAGTTTACTACAACCATGTTAGATTTAAG
* *
11154228 TAAATTTTAGTACAACCATGTTAGATTT
1 TAAAGTTTACTACAACCATGTTAGATTT
11154256 CAAAATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (31 bp):
TAAAGTTTACTACAACCATGTTAGATTTAAG
Found at i:11154850 original size:31 final size:30
Alignment explanation
Indices: 11154814--11154886 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 30
11154804 TAATTTTAAG
*
11154814 GGGAGGAGAGCTTTTGTCAGGCAGCACCTAA
1 GGGAGGAGAGCTTTTGTCAGACAGCACCT-A
* * *
11154845 GGGAGGAGGGCTTTTGTCATACGGCACCTA
1 GGGAGGAGAGCTTTTGTCAGACAGCACCTA
11154875 GGAGAGGAGAGC
1 GG-GAGGAGAGC
11154887 CGTTGTCAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
30 3 0.08
31 33 0.92
ACGTcount: A:0.25, C:0.18, G:0.40, T:0.18
Consensus pattern (30 bp):
GGGAGGAGAGCTTTTGTCAGACAGCACCTA
Found at i:11155627 original size:43 final size:43
Alignment explanation
Indices: 11155536--11155627 Score: 107
Period size: 45 Copynumber: 2.1 Consensus size: 43
11155526 AAGTGATATC
* *
11155536 ATTGTGATTTGCATGCTTTTGTATATATTATTGTGATATTTTTTT
1 ATTGTGATTTGCATGCTTTTATATATATTATTGTG--ATTTTGTT
*
11155581 ATTGTGATTTTCATGCTTTTATATTATATT-TATGTG-TTTTGTT
1 ATTGTGATTTGCATGCTTTTATA-TATATTAT-TGTGATTTTGTT
11155624 ATTG
1 ATTG
11155628 AGTGAAAATG
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
43 10 0.24
45 22 0.52
46 10 0.24
ACGTcount: A:0.20, C:0.04, G:0.15, T:0.61
Consensus pattern (43 bp):
ATTGTGATTTGCATGCTTTTATATATATTATTGTGATTTTGTT
Found at i:11156981 original size:21 final size:21
Alignment explanation
Indices: 11156955--11156995 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
11156945 TGGGTAGATT
11156955 AGCTCTTACGAGCTTCTGTTA
1 AGCTCTTACGAGCTTCTGTTA
11156976 AGCTCTTACGAGCTTCTGTT
1 AGCTCTTACGAGCTTCTGTT
11156996 CAACTTCGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.17, C:0.24, G:0.20, T:0.39
Consensus pattern (21 bp):
AGCTCTTACGAGCTTCTGTTA
Found at i:11161706 original size:138 final size:138
Alignment explanation
Indices: 11161458--11161729 Score: 517
Period size: 138 Copynumber: 2.0 Consensus size: 138
11161448 TATTAATCTA
11161458 TTTTCACTTGCAAGTTTGGGATCAAAGTTTAAAAATTTTATAGCCCAGAATGCTTTGTGTTCTAA
1 TTTTCACTTGCAAGTTTGGGATCAAAGTTTAAAAATTTTATAGCCCAGAATGCTTTGTGTTCTAA
* *
11161523 CTCAAATGGTAGATGATAACTTTTTCCATGAACGAGTCTGTATGGTGATGTCTCTATGGGGGTCT
66 CTCAAATGGTAGATGATAACTTTTTCCATAAACGAGTCTGTATGGTGATGTCTCTATGAGGGTCT
11161588 TAAACGAG
131 TAAACGAG
11161596 TTTTCACTTGCAAGTTTGGGATCAAAGTTTAAAAATTTTATAGCCCAGAATGCTTTGTGTTCTAA
1 TTTTCACTTGCAAGTTTGGGATCAAAGTTTAAAAATTTTATAGCCCAGAATGCTTTGTGTTCTAA
*
11161661 CTCAAATGGTAGATGATAACTTTTTCCATAAACGAGTTTGTATGGTGATGTCTCTATGAGGGTCT
66 CTCAAATGGTAGATGATAACTTTTTCCATAAACGAGTCTGTATGGTGATGTCTCTATGAGGGTCT
11161726 TAAA
131 TAAA
11161730 AGCAGTTCTA
Statistics
Matches: 131, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
138 131 1.00
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (138 bp):
TTTTCACTTGCAAGTTTGGGATCAAAGTTTAAAAATTTTATAGCCCAGAATGCTTTGTGTTCTAA
CTCAAATGGTAGATGATAACTTTTTCCATAAACGAGTCTGTATGGTGATGTCTCTATGAGGGTCT
TAAACGAG
Found at i:11193493 original size:14 final size:15
Alignment explanation
Indices: 11193463--11193491 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
11193453 GGACAAAAAG
11193463 ATTGTATTTTTCTTT
1 ATTGTATTTTTCTTT
11193478 ATTGTATTTTTCTT
1 ATTGTATTTTTCTT
11193492 ATAAAGCCAT
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:0.14, C:0.07, G:0.07, T:0.72
Consensus pattern (15 bp):
ATTGTATTTTTCTTT
Found at i:11194515 original size:8 final size:8
Alignment explanation
Indices: 11194502--11194559 Score: 50
Period size: 8 Copynumber: 7.5 Consensus size: 8
11194492 TTTTCACGTC
11194502 TATTATTA
1 TATTATTA
*
11194510 TATTATCA
1 TATTATTA
*
11194518 TATCATTA
1 TATTATTA
*
11194526 TATCATTA
1 TATTATTA
*
11194534 -ATTGAATA
1 TATT-ATTA
11194542 TATTA-TA
1 TATTATTA
11194549 -ATTATTA
1 TATTATTA
11194556 TATT
1 TATT
11194560 TCCGGATATT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
6 4 0.10
7 6 0.15
8 28 0.68
9 3 0.07
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (8 bp):
TATTATTA
Found at i:11194812 original size:32 final size:31
Alignment explanation
Indices: 11194758--11194825 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
11194748 TCATGTTGTC
*
11194758 ATATATATAGTTTCATTTAAATCAATTTATAT
1 ATATATATAGTTCCATTTAAATCAA-TTATAT
* * *
11194790 ATATATATA-TTCCCTTTCAAATCTATTATGT
1 ATATATATAGTTCCATTT-AAATCAATTATAT
11194821 ATATA
1 ATATA
11194826 GTTTACTTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
31 16 0.52
32 15 0.48
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.49
Consensus pattern (31 bp):
ATATATATAGTTCCATTTAAATCAATTATAT
Found at i:11203073 original size:48 final size:46
Alignment explanation
Indices: 11202974--11203071 Score: 108
Period size: 47 Copynumber: 2.0 Consensus size: 46
11202964 AATTAAATTT
* * *
11202974 AAATATGTAAAATTAAAATATTATTTTAATATAATAATTTCATATAA
1 AAATATATAAAATTAAAATATTATTTT-ATATAAAAATTTCAAATAA
*
11203021 AAATATATAAATTTAAAATCATATATATTT-TATAAAAATTTCAAAGTAA
1 AAATATATAAAATTAAAAT-AT-TAT-TTTATATAAAAATTTCAAA-TAA
11203070 AA
1 AA
11203072 TAAAATAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
47 17 0.40
48 15 0.35
49 8 0.19
50 3 0.07
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (46 bp):
AAATATATAAAATTAAAATATTATTTTATATAAAAATTTCAAATAA
Found at i:11203245 original size:19 final size:19
Alignment explanation
Indices: 11203178--11203246 Score: 59
Period size: 19 Copynumber: 3.6 Consensus size: 19
11203168 ATAGATTTTT
* * *
11203178 AATTTTTTATATATATTTT
1 AATTTTTTAAATTTATTTA
* *
11203197 AA-TTTCTAAAATTACTTTA
1 AATTTTTTAAATTTA-TTTA
*
11203216 AATTATTTTAAATTTATTTC
1 AATT-TTTTAAATTTATTTA
11203236 AATTTTTTAAA
1 AATTTTTTAAA
11203247 ATTTTTTTGG
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
18 8 0.21
19 14 0.36
20 8 0.21
21 9 0.23
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (19 bp):
AATTTTTTAAATTTATTTA
Found at i:11203248 original size:20 final size:22
Alignment explanation
Indices: 11203198--11203250 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 22
11203188 ATATATTTTA
11203198 ATTTCTAAAA-TTACTTTAAATT
1 ATTT-TAAAATTTACTTTAAATT
*
11203220 ATTTT-AAATTTA-TTTCAATT
1 ATTTTAAAATTTACTTTAAATT
11203240 -TTTTAAAATTT
1 ATTTTAAAATTT
11203251 TTTTGGAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
19 4 0.14
20 16 0.57
21 4 0.14
22 4 0.14
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTTTAAAATTTACTTTAAATT
Found at i:11204659 original size:33 final size:33
Alignment explanation
Indices: 11204622--11204757 Score: 167
Period size: 33 Copynumber: 4.3 Consensus size: 33
11204612 GTCTGCTTTA
*
11204622 TGTTTCTCTATTTTCTGTTTCTGTACCGTGTTT
1 TGTTTCTCTATTTTCTGTTTCTGTACCATGTTT
*
11204655 TGTTTCTTTATTTTCTGTTTCTGTACCATGTTT
1 TGTTTCTCTATTTTCTGTTTCTGTACCATGTTT
* * *
11204688 TGTTCCTCTATTTTCTGTAGT-GGT----T-TTT
1 TGTTTCTCTATTTTCTGT-TTCTGTACCATGTTT
11204716 TGTTTCTCTATTTTCTGTTTCTGTACCATGTTT
1 TGTTTCTCTATTTTCTGTTTCTGTACCATGTTT
*
11204749 TGTTCCTCT
1 TGTTTCTCT
11204758 TGCCATTTTT
Statistics
Matches: 86, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
27 1 0.01
28 22 0.26
29 1 0.01
32 1 0.01
33 60 0.70
34 1 0.01
ACGTcount: A:0.07, C:0.18, G:0.14, T:0.61
Consensus pattern (33 bp):
TGTTTCTCTATTTTCTGTTTCTGTACCATGTTT
Found at i:11204660 original size:18 final size:17
Alignment explanation
Indices: 11204637--11204691 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
11204627 CTCTATTTTC
11204637 TGTTTCTGTACCGTGTTT
1 TGTTTCTGTACC-TGTTT
*
11204655 TGTTTCTTTA--T-TTT
1 TGTTTCTGTACCTGTTT
11204669 CTGTTTCTGTACCATGTTT
1 -TGTTTCTGTACC-TGTTT
11204688 TGTT
1 TGTT
11204692 CCTCTATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
14 3 0.10
15 10 0.33
18 14 0.47
19 3 0.10
ACGTcount: A:0.07, C:0.15, G:0.16, T:0.62
Consensus pattern (17 bp):
TGTTTCTGTACCTGTTT
Found at i:11204703 original size:27 final size:28
Alignment explanation
Indices: 11204672--11204733 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
11204662 TTATTTTCTG
11204672 TTTCTGTA-CCATGTTTTGTTCCTCTAT
1 TTTCTGTAGCCATGTTTTGTTCCTCTAT
*** * *
11204699 TTTCTGTAGTGGTTTTTTGTTTCTCTAT
1 TTTCTGTAGCCATGTTTTGTTCCTCTAT
11204727 TTTCTGT
1 TTTCTGT
11204734 TTCTGTACCA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 8 0.28
28 21 0.72
ACGTcount: A:0.08, C:0.16, G:0.15, T:0.61
Consensus pattern (28 bp):
TTTCTGTAGCCATGTTTTGTTCCTCTAT
Found at i:11205847 original size:21 final size:22
Alignment explanation
Indices: 11205821--11205876 Score: 87
Period size: 21 Copynumber: 2.6 Consensus size: 22
11205811 AGTTTCCCCC
11205821 GTTTGCAGTGGCTATACAA-TT
1 GTTTGCAGTGGCTATACAATTT
*
11205842 GTTTGCAGTGGCTATATAATTT
1 GTTTGCAGTGGCTATACAATTT
*
11205864 ATTTGCAGTGGCT
1 GTTTGCAGTGGCT
11205877 CCATCTGCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 18 0.56
22 14 0.44
ACGTcount: A:0.21, C:0.12, G:0.25, T:0.41
Consensus pattern (22 bp):
GTTTGCAGTGGCTATACAATTT
Found at i:11208124 original size:18 final size:19
Alignment explanation
Indices: 11208100--11208144 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 19
11208090 TTTTAAATTT
11208100 TATTAAATTATATATTTAA
1 TATTAAATTATATATTTAA
11208119 -ATTAAA--ATATATTTAA
1 TATTAAATTATATATTTAA
11208135 TATT-AATTAT
1 TATTAAATTAT
11208145 TTAAAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
16 12 0.52
17 3 0.13
18 8 0.35
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TATTAAATTATATATTTAA
Found at i:11208203 original size:66 final size:63
Alignment explanation
Indices: 11208133--11208345 Score: 201
Period size: 61 Copynumber: 3.4 Consensus size: 63
11208123 AAATATATTT
11208133 AATATTAATTATTTAAAATTTTATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTTAAAATTTTA--TTA-AGTATCATATATTATGATTTGAGTAAATTCATATAA
11208198 G
63 G
* * * * * *
11208199 AATATTAATTA-TTAAGAATTTTATTAA--ATTATATATTTTAATTAT-ATTATATTTA-ATAA-
1 AATATTAATTATTTAA-AATTTTATTAAGTATCATATATTATGATT-TGAGTAAATTCATATAAG
* * * * *
11208258 TA-ATTATGTTATTTTATATTTTA--CAGTATCATATATTATGATTTGAGTAAATTCATATAAG
1 AATATTA-ATTATTTAAAATTTTATTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
*
11208319 AATATTAATTATTAAAAATTTTATTAA
1 AATATTAATTATTTAAAATTTTATTAA
11208346 ATTATATATT
Statistics
Matches: 112, Mismatches: 23, Indels: 27
0.69 0.14 0.17
Matches are distributed among these distances:
57 1 0.01
58 5 0.04
59 30 0.27
60 11 0.10
61 33 0.29
62 5 0.04
63 2 0.02
64 3 0.03
65 4 0.04
66 18 0.16
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (63 bp):
AATATTAATTATTTAAAATTTTATTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:11208223 original size:120 final size:120
Alignment explanation
Indices: 11208084--11208387 Score: 495
Period size: 120 Copynumber: 2.5 Consensus size: 120
11208074 TTATTAGTTA
** * *
11208084 TAATTATTTTAAATTTTATTAAATTATATATTTAAATTAAAATATATTTAATATTAATTAT-TTA
1 TAATTATTAAAAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-
*
11208148 AAATTT-TATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATAT
65 -AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATAT
* * *
11208204 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATATTATATTTAATAATAATTATGTTA
1 TAATTATTAAAAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTA
*
11208269 TTTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATAT
66 ATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATAT
11208324 TAATTATTAAAAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
1 TAATTATTAAAAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
11208388 TAAATATGAT
Statistics
Matches: 170, Mismatches: 12, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
119 4 0.02
120 164 0.96
121 2 0.01
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (120 bp):
TAATTATTAAAAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTA
ATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATAT
Found at i:11208247 original size:18 final size:17
Alignment explanation
Indices: 11208216--11208250 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11208206 ATTATTAAGA
11208216 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
11208233 ATTTTAATTATATTATAT
1 ATTTT-ATTAAATTATAT
11208251 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:11208364 original size:18 final size:17
Alignment explanation
Indices: 11208336--11208370 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11208326 ATTATTAAAA
*
11208336 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
11208353 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
11208371 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:11208486 original size:147 final size:149
Alignment explanation
Indices: 11208324--11208598 Score: 500
Period size: 147 Copynumber: 1.9 Consensus size: 149
11208314 ATAAGAATAT
*
11208324 TAATTATTAAAAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAAAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
11208389 AAATATGATTAAATTATTTATTATTGAT-ATTAATAATCTTATTAAAATTTAAATAA-AATAATT
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
11208452 TACCAAAACAAATTTCTGC
131 TACCAAAACAAATTTCTGC
*
11208471 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAAAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
11208536 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
11208599 CAATAATCAT
Statistics
Matches: 122, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
147 90 0.74
148 27 0.22
149 5 0.04
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TAATTATTAAAAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
TACCAAAACAAATTTCTGC
Found at i:11208511 original size:18 final size:17
Alignment explanation
Indices: 11208483--11208517 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11208473 ATTATTAAGA
*
11208483 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
11208500 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
11208518 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:11208728 original size:44 final size:45
Alignment explanation
Indices: 11208679--11208773 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
11208669 TTACACCTCT
* *
11208679 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
11208723 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
11208768 ATTACA
1 ATTACA
11208774 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:11208773 original size:16 final size:16
Alignment explanation
Indices: 11208754--11208805 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
11208744 GATTTGCTAT
* *
11208754 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
11208770 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
11208786 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
11208802 TACA
1 TACA
11208806 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:11219976 original size:12 final size:12
Alignment explanation
Indices: 11219959--11220037 Score: 61
Period size: 13 Copynumber: 6.1 Consensus size: 12
11219949 TAAGTTGAAG
11219959 AAAATAAAATAA
1 AAAATAAAATAA
*
11219971 AAAATAAAAACAA
1 AAAAT-AAAATAA
*
11219984 CTAAAACAAAATTAA
1 --AAAATAAAA-TAA
*
11219999 AAAAGAAAATAAA
1 AAAATAAAAT-AA
11220012 AAAATAATAAT-A
1 AAAATAA-AATAA
11220024 AAAATAAAAATAA
1 AAAAT-AAAATAA
11220037 A
1 A
11220038 CTCAATGATA
Statistics
Matches: 54, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
12 15 0.28
13 26 0.48
14 7 0.13
15 6 0.11
ACGTcount: A:0.80, C:0.04, G:0.01, T:0.15
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:11220015 original size:26 final size:26
Alignment explanation
Indices: 11219970--11220037 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 26
11219960 AAATAAAATA
* *
11219970 AAAAATAAAAACAACTAAAACAA-AATT
1 AAAAATAAAAATAA-AAAAACAATAA-T
*
11219997 AAAAA-AGAAAATAAAAAAATAATAAT
1 AAAAATA-AAAATAAAAAAACAATAAT
11220023 AAAAATAAAAATAAA
1 AAAAATAAAAATAAA
11220038 CTCAATGATA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
26 21 0.60
27 14 0.40
ACGTcount: A:0.79, C:0.04, G:0.01, T:0.15
Consensus pattern (26 bp):
AAAAATAAAAATAAAAAAACAATAAT
Found at i:11220143 original size:16 final size:16
Alignment explanation
Indices: 11220109--11220152 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
11220099 AAATAGAAAT
* *
11220109 AAAAATAGAAAAATAA
1 AAAAATATATAAATAA
* *
11220125 AAATATATATAAATTA
1 AAAAATATATAAATAA
11220141 AAAAATATATAA
1 AAAAATATATAA
11220153 GAAATTAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (16 bp):
AAAAATATATAAATAA
Found at i:11220146 original size:18 final size:18
Alignment explanation
Indices: 11220122--11220167 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
11220112 AATAGAAAAA
*
11220122 TAAAAATATAT-ATAAAT
1 TAAAAATATATAAGAAAT
11220139 TAAAAAATATATAAGAAAT
1 T-AAAAATATATAAGAAAT
11220158 TAAAAATATA
1 TAAAAATATA
11220168 ACAATTAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 1 0.04
18 19 0.73
19 6 0.23
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (18 bp):
TAAAAATATATAAGAAAT
Found at i:11220166 original size:16 final size:15
Alignment explanation
Indices: 11220103--11220168 Score: 53
Period size: 14 Copynumber: 4.1 Consensus size: 15
11220093 AGAAAAAAAT
*
11220103 AGAAATAAAAATAGA
1 AGAAATAAAAATATA
11220118 A-AAATAAAAATATA
1 AGAAATAAAAATATA
*
11220132 TATAAATTAAAAAATATATA
1 -AGAAA-T--AAAA-ATATA
11220152 AGAAATTAAAAATATA
1 AGAAA-TAAAAATATA
11220168 A
1 A
11220169 CAATTAATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
14 12 0.28
15 2 0.05
16 9 0.21
17 5 0.12
19 10 0.23
20 5 0.12
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (15 bp):
AGAAATAAAAATATA
Found at i:11227341 original size:43 final size:42
Alignment explanation
Indices: 11227223--11227460 Score: 140
Period size: 43 Copynumber: 5.6 Consensus size: 42
11227213 TGAAAAAATG
* * * * *
11227223 CCGCTATAGAACATGACTTTTAACGGCGCTTTTCTTATAAACA
1 CCGCTAAAAAACATGACATTTAAC-GTGCTTTTCTTAAAAACA
** * * * * *
11227266 CCATTAAAGAACATGACCTTTAGCGATACTTTTCTTAAAAACT
1 CCGCTAAAAAACATGACATTTAACG-TGCTTTTCTTAAAAACA
** *
11227309 CCGCTAAAAAACATGACATTTAACAGTGCTTTTCCCAAAAACG
1 CCGCTAAAAAACATGACATTTAAC-GTGCTTTTCTTAAAAACA
* * * * * *
11227352 CCGCTAAAAGACATGACATTTAGCGATTC-TTTCTCCACAAACG
1 CCGCTAAAAAACATGACATTTAACG-TGCTTTTCT-TAAAAACA
* * * * *
11227395 CCGCTAAAGAACCA-AACTTTTAACTGCGCTTTTC-CAAAAACA
1 CCGCTAAA-AAACATGACATTTAAC-GTGCTTTTCTTAAAAACA
* *
11227437 CCGCTAAAGAACATGACCTTTAAC
1 CCGCTAAAAAACATGACATTTAAC
11227461 AGCGCTCTCT
Statistics
Matches: 151, Mismatches: 36, Indels: 17
0.74 0.18 0.08
Matches are distributed among these distances:
41 3 0.02
42 28 0.19
43 111 0.74
44 9 0.06
ACGTcount: A:0.36, C:0.26, G:0.12, T:0.27
Consensus pattern (42 bp):
CCGCTAAAAAACATGACATTTAACGTGCTTTTCTTAAAAACA
Found at i:11227366 original size:86 final size:85
Alignment explanation
Indices: 11227241--11227458 Score: 226
Period size: 86 Copynumber: 2.5 Consensus size: 85
11227231 GAACATGACT
* * * ** *
11227241 TTTAACGGCGCTTTTCTTATAAACACCATTAAAGAACATGACCTTTAGCGATACTTT-TCTTAAA
1 TTTAACAGCGCTTTTC-CAAAAACACCGCTAAAGAACATGACCTTTAGCGATACTTTCTC-CAAA
* *
11227305 AACTCCGCTAAA-AAACATGACA
64 AACGCCGCTAAAGAAACA-AACA
* * * * *
11227327 TTTAACAGTGCTTTTCCCAAAAACGCCGCTAAA-AGACATGACATTTAGCGATTCTTTCTCCACA
1 TTTAACAGCGCTTTT-CCAAAAACACCGCTAAAGA-ACATGACCTTTAGCGATACTTTCTCCAAA
* *
11227391 AACGCCGCTAAAGAACCAAACT
64 AACGCCGCTAAAGAAACAAACA
*
11227413 TTTAACTGCGCTTTTCCAAAAACACCGCTAAAGAACATGACCTTTA
1 TTTAACAGCGCTTTTCCAAAAACACCGCTAAAGAACATGACCTTTA
11227459 ACAGCGCTCT
Statistics
Matches: 108, Mismatches: 19, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
85 28 0.26
86 73 0.68
87 7 0.06
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.28
Consensus pattern (85 bp):
TTTAACAGCGCTTTTCCAAAAACACCGCTAAAGAACATGACCTTTAGCGATACTTTCTCCAAAAA
CGCCGCTAAAGAAACAAACA
Found at i:11227509 original size:43 final size:42
Alignment explanation
Indices: 11227382--11227517 Score: 134
Period size: 42 Copynumber: 3.3 Consensus size: 42
11227372 TAGCGATTCT
*
11227382 TTCTCCACAAACGCCGCTAAAGAACCA-AACTTTTAACTGCGC
1 TTCTCCACAAACGCCGCTAAAGAA-CATAACTTTTAACAGCGC
* * * * *
11227424 TTTTCCAAAAACACCGCTAAAGAACATGACCTTTAACAGCGC
1 TTCTCCACAAACGCCGCTAAAGAACATAACTTTTAACAGCGC
* * * * *
11227466 TCTCTCTACAAATGCCGCTAAAGAACTTAACTTTTAGCCGCGC
1 T-TCTCCACAAACGCCGCTAAAGAACATAACTTTTAACAGCGC
11227509 TT-TCC-CAAA
1 TTCTCCACAAA
11227518 AAAGGTCACT
Statistics
Matches: 75, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
40 4 0.05
41 4 0.05
42 35 0.47
43 32 0.43
ACGTcount: A:0.33, C:0.31, G:0.12, T:0.24
Consensus pattern (42 bp):
TTCTCCACAAACGCCGCTAAAGAACATAACTTTTAACAGCGC
Found at i:11228254 original size:46 final size:45
Alignment explanation
Indices: 11228203--11228582 Score: 308
Period size: 46 Copynumber: 8.3 Consensus size: 45
11228193 TTTAAGCAAC
* *
11228203 TAAACAATTCAATTTGCAGTACTTAGAAACTTCAATTTACAACATT
1 TAAACACTTCAATTTGCAGCACTTA-AAACTTCAATTTACAACATT
* * *
11228249 TAAACACTTCAATTTGTAGCACTTTAACACTTCAATTTACAGCATT
1 TAAACACTTCAATTTGCAGCAC-TTAAAACTTCAATTTACAACATT
* * *
11228295 TAAACACTTCAATTTGCAGCACTT-TAACATCTCAATTAACAATATT
1 TAAACACTTCAATTTGCAGCACTTAAAAC-T-TCAATTTACAACATT
* * * * * **
11228341 TATACTCCTCAATTAT--AGCGA--TAAAACATATCAATTTCCAGCAAC
1 TAAACACTTCAATT-TGCAGC-ACTTAAAAC-T-TCAATTTACAACATT
* *
11228386 TAAACACTTCATTTTGCAGTACTTAAACACTTCAATTTACAACATT
1 TAAACACTTCAATTTGCAGCACTTAAA-ACTTCAATTTACAACATT
* * * * *
11228432 TAAGCACTTCAATTTACAACATTTAAACACTTCAATTTACAGCATT
1 TAAACACTTCAATTTGCAGCACTTAAA-ACTTCAATTTACAACATT
* **
11228478 T-AACACTTCAATTTGTAGCACTTTAACCCTTCAATTTA-AAGCATT
1 TAAACACTTCAATTTGCAGCAC-TTAAAACTTCAATTTACAA-CATT
* * *
11228523 TAAACACTTCAATTTGCTGCACTT-TAACATCTCAATTAACAACATT
1 TAAACACTTCAATTTGCAGCACTTAAAAC-T-TCAATTTACAACATT
* *
11228569 TATACACCTCAATT
1 TAAACACTTCAATT
11228583 ATAGCGATAA
Statistics
Matches: 263, Mismatches: 54, Indels: 34
0.75 0.15 0.10
Matches are distributed among these distances:
44 6 0.02
45 64 0.24
46 180 0.68
47 11 0.04
48 2 0.01
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.35
Consensus pattern (45 bp):
TAAACACTTCAATTTGCAGCACTTAAAACTTCAATTTACAACATT
Found at i:11228412 original size:114 final size:113
Alignment explanation
Indices: 11228250--11228624 Score: 436
Period size: 114 Copynumber: 3.3 Consensus size: 113
11228240 TACAACATTT
* *
11228250 AAACACTTCAATTTGTAGC-ACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAG
1 AAACA-TTCAATTTCTAGCAAC-TAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAG
* *
11228314 CACTTTAACATCTCAATTAACAATATTTATACTCCTCAATTATAGCGATA
64 CACTTTAACATCTCAATTAACAACATTTATACACCTCAATTATAGCGATA
* * * * * * *
11228364 AAACATATCAATTTCCAGCAACTAAACACTTCATTTTGCAGTACTTAAACACTTCAATTTACAAC
1 AAACAT-TCAATTTCTAGCAACTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGC
* * * * *
11228429 A-TTTAAGCA-CTTCAATTTACAACATTTAAACACTTCAATTTACAGC-ATT
65 ACTTTAA-CATC-TCAATTAACAACATTTATACACCTCAA-TTATAGCGATA
* * * * * *
11228478 TAACACTTCAATTTGTAGC-ACTTTAACCCTTCAATTTAAAGCATTTAAACACTTCAATTTGCTG
1 AAACA-TTCAATTTCTAGCAAC-TAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAG
11228542 CACTTTAACATCTCAATTAACAACATTTATACACCTCAATTATAGCGATA
64 CACTTTAACATCTCAATTAACAACATTTATACACCTCAATTATAGCGATA
11228592 AAACATCTCAATTTCTAGCAACTAAACACTTCA
1 AAACAT-TCAATTTCTAGCAACTAAACACTTCA
11228625 TTAGTGATGC
Statistics
Matches: 211, Mismatches: 38, Indels: 24
0.77 0.14 0.09
Matches are distributed among these distances:
113 16 0.08
114 178 0.84
115 17 0.08
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.34
Consensus pattern (113 bp):
AAACATTCAATTTCTAGCAACTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCA
CTTTAACATCTCAATTAACAACATTTATACACCTCAATTATAGCGATA
Found at i:11228512 original size:137 final size:137
Alignment explanation
Indices: 11228249--11228582 Score: 347
Period size: 137 Copynumber: 2.4 Consensus size: 137
11228239 TTACAACATT
* * * *
11228249 TAAACACTTCAATTTGTAGCACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAG
1 TAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAACATTTAAACACTTCAATTTACAA
* * *
11228314 CACTTTAACATCTCAATTAACAATATTTATACTCCTCAATTATAGCGATAAAACATATCAATTTC
66 CACTTTAACATCTCAATTAACAACATTTATACACCTCAATTATAGCGATAAAACATATCAATTTA
*
11228379 CAGCAAC
131 AAGCAAC
* * * *
11228386 TAAACACTTCATTTTGCAGTACTTAAACACTTCAATTTACAACATTTAAGCACTTCAATTTACAA
1 TAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAACATTTAAACACTTCAATTTACAA
* * * * * * *
11228451 CA-TTTAAACA-CTTCAATTTACAGCATTTA-ACACTTCAATTTGTAGC-ACTTTAACCCT-TCA
66 CACTTT-AACATC-TCAATTAACAACATTTATACACCTCAA-TTATAGCGA--TAAAACATATCA
**
11228511 ATTTAAAGCATT
126 ATTTAAAGCAAC
* * * *
11228523 TAAACACTTCAATTTGCTGCACTTTAACA-TCTCAATTAACAACATTTATACACCTCAATT
1 TAAACACTTCAATTTGCAGCACTTTAACACT-TCAATTTACAACATTTAAACACTTCAATT
11228583 ATAGCGATAA
Statistics
Matches: 162, Mismatches: 29, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
136 13 0.08
137 144 0.89
138 5 0.03
ACGTcount: A:0.37, C:0.23, G:0.05, T:0.35
Consensus pattern (137 bp):
TAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAACATTTAAACACTTCAATTTACAA
CACTTTAACATCTCAATTAACAACATTTATACACCTCAATTATAGCGATAAAACATATCAATTTA
AAGCAAC
Found at i:11228583 original size:23 final size:22
Alignment explanation
Indices: 11228231--11228582 Score: 253
Period size: 23 Copynumber: 15.4 Consensus size: 22
11228221 GTACTTAGAA
*
11228231 ACTTCAATTTACAACATTTAAAC
1 ACTTCAATTTACAGCATTT-AAC
**
11228254 ACTTCAATTTGTAGCACTTTAAC
1 ACTTCAATTTACAGCA-TTTAAC
11228277 ACTTCAATTTACAGCATTTAAAC
1 ACTTCAATTTACAGCATTT-AAC
*
11228300 ACTTCAATTTGCAGCACTTTAAC
1 ACTTCAATTTACAGCA-TTTAAC
* **
11228323 A-TCTCAATTAACAATATTTATAC
1 ACT-TCAATTTACAGCATTTA-AC
* * * **
11228346 TCCTCAA-TTATAGCGATAAAAC
1 ACTTCAATTTACAGC-ATTTAAC
* * *
11228368 A-TATCAATTTCCAGCAACTAAAC
1 ACT-TCAATTTACAGC-ATTTAAC
* * * *
11228391 ACTTCATTTTGCAGTACTTAAAC
1 ACTTCAATTTACAGCA-TTTAAC
*
11228414 ACTTCAATTTACAACATTTAAGC
1 ACTTCAATTTACAGCATTTAA-C
*
11228437 ACTTCAATTTACAACATTTAAAC
1 ACTTCAATTTACAGCATTT-AAC
11228460 ACTTCAATTTACAGCATTTAAC
1 ACTTCAATTTACAGCATTTAAC
**
11228482 ACTTCAATTTGTAGCACTTTAAC
1 ACTTCAATTTACAGCA-TTTAAC
* *
11228505 CCTTCAATTTAAAGCATTTAAAC
1 ACTTCAATTTACAGCATTT-AAC
* *
11228528 ACTTCAATTTGCTGCACTTTAAC
1 ACTTCAATTTACAGCA-TTTAAC
* *
11228551 A-TCTCAATTAACAACATTTATAC
1 ACT-TCAATTTACAGCATTTA-AC
*
11228574 ACCTCAATT
1 ACTTCAATT
11228583 ATAGCGATAA
Statistics
Matches: 261, Mismatches: 49, Indels: 38
0.75 0.14 0.11
Matches are distributed among these distances:
22 47 0.18
23 202 0.77
24 12 0.05
ACGTcount: A:0.37, C:0.23, G:0.05, T:0.35
Consensus pattern (22 bp):
ACTTCAATTTACAGCATTTAAC
Found at i:11232636 original size:22 final size:21
Alignment explanation
Indices: 11232605--11232651 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
11232595 CCCCAACCCA
* *
11232605 TAAACCATAAACTATAATCCT
1 TAAACCATAAACCATAAACCT
*
11232626 TAAACCCATAATCCATAAACCT
1 TAAA-CCATAAACCATAAACCT
11232648 TAAA
1 TAAA
11232652 ATAGTAACTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (21 bp):
TAAACCATAAACCATAAACCT
Found at i:11232638 original size:15 final size:15
Alignment explanation
Indices: 11232599--11232646 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
11232589 CCCTAACCCC
*
11232599 AACCCATAAACCATA
1 AACCCATAATCCATA
* *
11232614 AA-CTATAATCCTTA
1 AACCCATAATCCATA
11232628 AACCCATAATCCATA
1 AACCCATAATCCATA
11232643 AACC
1 AACC
11232647 TTAAAATAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 11 0.41
15 16 0.59
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (15 bp):
AACCCATAATCCATA
Found at i:11233224 original size:40 final size:40
Alignment explanation
Indices: 11233165--11233285 Score: 161
Period size: 40 Copynumber: 3.0 Consensus size: 40
11233155 GCAACATTTC
*
11233165 AAAAAGCGCCGCTAATGGTCGACCTATAACGGCGTTTTTT
1 AAAAAGCGCCGCTAATGGTCGACCTATAGCGGCGTTTTTT
* * * *
11233205 AAAAAGCGCCACTAGTGGTCGACCTATAGTGACGTTTTTT
1 AAAAAGCGCCGCTAATGGTCGACCTATAGCGGCGTTTTTT
* * * *
11233245 GAAAAGCGCCGCTAATGCTCGATCTATAGCGGCGCTTTTT
1 AAAAAGCGCCGCTAATGGTCGACCTATAGCGGCGTTTTTT
11233285 A
1 A
11233286 TCCAAACGCC
Statistics
Matches: 67, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 67 1.00
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.28
Consensus pattern (40 bp):
AAAAAGCGCCGCTAATGGTCGACCTATAGCGGCGTTTTTT
Found at i:11235996 original size:36 final size:32
Alignment explanation
Indices: 11235947--11236035 Score: 101
Period size: 30 Copynumber: 2.7 Consensus size: 32
11235937 CCCTTATTTC
11235947 TCTCCACCACCACCTCCACCACCACACAATCCAGTT
1 TCTCCACCACCACC-CC-CCACCAC-C-ATCCAGTT
*
11235983 TCTCCACCGCCA-CCCCC-CCACCATCCAGTT
1 TCTCCACCACCACCCCCCACCACCATCCAGTT
*
11236013 TCTCCATCACCACCACCCCACCA
1 TCTCCACCACCACC-CCCCACCA
11236036 TCCAATCACT
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
30 18 0.38
31 2 0.04
32 8 0.17
33 5 0.11
34 2 0.04
35 1 0.02
36 11 0.23
ACGTcount: A:0.24, C:0.57, G:0.03, T:0.16
Consensus pattern (32 bp):
TCTCCACCACCACCCCCCACCACCATCCAGTT
Found at i:11236056 original size:30 final size:30
Alignment explanation
Indices: 11235956--11236056 Score: 121
Period size: 30 Copynumber: 3.4 Consensus size: 30
11235946 CTCTCCACCA
* * *
11235956 CCACCTCCACCACCACACAATCCAGTTTCT
1 CCACCGCCACCACCCCACCATCCAGTTTCT
*
11235986 CCACCGCCACCCCCCCACCATCCAGTTTCT
1 CCACCGCCACCACCCCACCATCCAGTTTCT
* * * **
11236016 CCATCACCACCACCCCACCATCCAATCACT
1 CCACCGCCACCACCCCACCATCCAGTTTCT
11236046 CCACCGCCACC
1 CCACCGCCACC
11236057 TCATGTACAT
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 59 1.00
ACGTcount: A:0.24, C:0.57, G:0.04, T:0.15
Consensus pattern (30 bp):
CCACCGCCACCACCCCACCATCCAGTTTCT
Found at i:11236085 original size:24 final size:24
Alignment explanation
Indices: 11236044--11236102 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 24
11236034 CATCCAATCA
* *
11236044 CTCCACCGCCACCTCATGTACATC
1 CTCCACCACCACCCCATGTACATC
* * *
11236068 CTCCACCACCTCCCCATGTGCGTC
1 CTCCACCACCACCCCATGTACATC
*
11236092 CACCACCACCA
1 CTCCACCACCA
11236103 GCACCACTTC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.54, G:0.08, T:0.17
Consensus pattern (24 bp):
CTCCACCACCACCCCATGTACATC
Found at i:11261416 original size:6 final size:6
Alignment explanation
Indices: 11261396--11261438 Score: 68
Period size: 6 Copynumber: 7.2 Consensus size: 6
11261386 ATAGGAAAAC
* *
11261396 AAAATA AACATA AAAAGA AAAATA AAAATA AAAATA AAAATA A
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA A
11261439 TCAGACTCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:11270585 original size:63 final size:63
Alignment explanation
Indices: 11270512--11270638 Score: 254
Period size: 63 Copynumber: 2.0 Consensus size: 63
11270502 TTAAATTCAA
11270512 AACATTAGATAATAAGATCCGTCTTAGGTTTCATCTTCCCTAGGTATCTAGGGAATTTAGTTC
1 AACATTAGATAATAAGATCCGTCTTAGGTTTCATCTTCCCTAGGTATCTAGGGAATTTAGTTC
11270575 AACATTAGATAATAAGATCCGTCTTAGGTTTCATCTTCCCTAGGTATCTAGGGAATTTAGTTC
1 AACATTAGATAATAAGATCCGTCTTAGGTTTCATCTTCCCTAGGTATCTAGGGAATTTAGTTC
11270638 A
1 A
11270639 TAGTATAAAT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.36
Consensus pattern (63 bp):
AACATTAGATAATAAGATCCGTCTTAGGTTTCATCTTCCCTAGGTATCTAGGGAATTTAGTTC
Found at i:11271339 original size:27 final size:27
Alignment explanation
Indices: 11271301--11271353 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
11271291 TTTTGGATTC
11271301 ACAAACTCTGTAACACCGAATTTCTTT
1 ACAAACTCTGTAACACCGAATTTCTTT
11271328 ACAAACTCTGTAACACCGAATTTCTT
1 ACAAACTCTGTAACACCGAATTTCTT
11271354 GGCTGCAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.34, C:0.26, G:0.08, T:0.32
Consensus pattern (27 bp):
ACAAACTCTGTAACACCGAATTTCTTT
Found at i:11273404 original size:23 final size:22
Alignment explanation
Indices: 11273365--11273409 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
11273355 GTAATTGAGT
**
11273365 TTTAATTTTTTTTAATTTGGCA
1 TTTAATTTTTTCCAATTTGGCA
11273387 TTTAATTTTTTCCCAATTTGGCA
1 TTTAATTTTTT-CCAATTTGGCA
11273410 CATGAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.22, C:0.11, G:0.09, T:0.58
Consensus pattern (22 bp):
TTTAATTTTTTCCAATTTGGCA
Found at i:11277215 original size:6 final size:6
Alignment explanation
Indices: 11277204--11277254 Score: 75
Period size: 6 Copynumber: 8.5 Consensus size: 6
11277194 ATATAAAGAG
** *
11277204 AAAAAT AAAAAT AAGGAT AAAAAT AAAAAT AAAAAT AAAAAT AAACAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
11277252 AAA
1 AAA
11277255 GAATCATCAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:11288073 original size:13 final size:13
Alignment explanation
Indices: 11288055--11288080 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11288045 AAAGTGAGCA
11288055 AAACATGTCCTTT
1 AAACATGTCCTTT
11288068 AAACATGTCCTTT
1 AAACATGTCCTTT
11288081 GATGTCCCAA
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:0.23, G:0.08, T:0.38
Consensus pattern (13 bp):
AAACATGTCCTTT
Found at i:11291098 original size:56 final size:55
Alignment explanation
Indices: 11291027--11291138 Score: 215
Period size: 56 Copynumber: 2.0 Consensus size: 55
11291017 TTAGAATTGA
11291027 TTAAAAAAATCAAAAGTTAATTTGAATTTTAAATTAAGCTTTTAACATTCTTTGT
1 TTAAAAAAATCAAAAGTTAATTTGAATTTTAAATTAAGCTTTTAACATTCTTTGT
11291082 TTAATAAAAATCAAAAGTTAATTTGAATTTTAAATTAAGCTTTTAACATTCTTTGT
1 TTAA-AAAAATCAAAAGTTAATTTGAATTTTAAATTAAGCTTTTAACATTCTTTGT
11291138 T
1 T
11291139 CACTCTCAAC
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
55 4 0.07
56 52 0.93
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (55 bp):
TTAAAAAAATCAAAAGTTAATTTGAATTTTAAATTAAGCTTTTAACATTCTTTGT
Found at i:11300313 original size:46 final size:46
Alignment explanation
Indices: 11300259--11300350 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
11300249 GTTAGGCTAA
11300259 GAGTTTGTTTTTCTATTGAAATAAACTTCTACAATTCAACAATGGT
1 GAGTTTGTTTTTCTATTGAAATAAACTTCTACAATTCAACAATGGT
11300305 GAGTTTGTTTTTCTATTGAAATAAACTTCTACAATTCAACAATGGT
1 GAGTTTGTTTTTCTATTGAAATAAACTTCTACAATTCAACAATGGT
11300351 TTTACCTCCT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (46 bp):
GAGTTTGTTTTTCTATTGAAATAAACTTCTACAATTCAACAATGGT
Found at i:11303923 original size:12 final size:12
Alignment explanation
Indices: 11303895--11303969 Score: 57
Period size: 12 Copynumber: 6.2 Consensus size: 12
11303885 TATAAAGTTC
11303895 AAAATAGGAAA-A
1 AAAATA-GAAATA
11303907 CAAAATAGAAATA
1 -AAAATAGAAATA
*
11303920 AAAA-GGAAAATA
1 AAAATAG-AAATA
* *
11303932 AGAATAAAAATA
1 AAAATAGAAATA
11303944 AAAATA-AAATA
1 AAAATAGAAATA
*
11303955 AAAGATAAAAATA
1 AAA-ATAGAAATA
11303968 AA
1 AA
11303970 GATAAACATA
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
11 9 0.17
12 29 0.56
13 14 0.27
ACGTcount: A:0.76, C:0.01, G:0.09, T:0.13
Consensus pattern (12 bp):
AAAATAGAAATA
Found at i:11303937 original size:6 final size:6
Alignment explanation
Indices: 11303908--11303992 Score: 82
Period size: 6 Copynumber: 14.2 Consensus size: 6
11303898 ATAGGAAAAC
* ** *
11303908 AAAATA GAAATA AAAAGG AAAATA AGAATA AAAATA AAAAT- AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
* * **
11303955 AAAGATA AAAATA AAGATA AACATA ATCATA AAAATA A
1 AAA-ATA AAAATA AAAATA AAAATA AAAATA AAAATA A
11303993 TCAGACTCAA
Statistics
Matches: 64, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
5 5 0.08
6 53 0.83
7 6 0.09
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:11309921 original size:13 final size:13
Alignment explanation
Indices: 11309905--11309937 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
11309895 TTTAATTAAA
*
11309905 TTAGTTAATTAGT
1 TTAGATAATTAGT
11309918 TTAGATAATTAGT
1 TTAGATAATTAGT
11309931 TTA-ATAA
1 TTAGATAA
11309938 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:11323687 original size:25 final size:25
Alignment explanation
Indices: 11323653--11323702 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
11323643 TTATAAAGAG
11323653 AATATCTAGAAAACAATTTCTTCTT
1 AATATCTAGAAAACAATTTCTTCTT
11323678 AATATCTAGAAAACAATTTCTTCTT
1 AATATCTAGAAAACAATTTCTTCTT
11323703 CAGTATCAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (25 bp):
AATATCTAGAAAACAATTTCTTCTT
Found at i:11325239 original size:28 final size:27
Alignment explanation
Indices: 11325207--11325333 Score: 134
Period size: 28 Copynumber: 4.6 Consensus size: 27
11325197 ATTTGATACC
11325207 GAGCACTAAGTGTGCGAAATCGGTCATT
1 GAGCACTAAGTGTGCGAAATCGGT-ATT
* * * *
11325235 GAGCACTAAGTGTGC-AAGTTGATTTT
1 GAGCACTAAGTGTGCGAAATCGGTATT
* *
11325261 AAGCACTAAGTGTGC-AAATTGG-ATTT
1 GAGCACTAAGTGTGCGAAATCGGTA-TT
11325287 CCGAGCACTAAGTGTGCGAAATCGGTTATT
1 --GAGCACTAAGTGTGCGAAATCGG-TATT
11325317 GAGCACTAAGTGTGCGA
1 GAGCACTAAGTGTGCGA
11325334 GAAAATTTTT
Statistics
Matches: 83, Mismatches: 10, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
26 23 0.28
27 5 0.06
28 46 0.55
29 6 0.07
30 2 0.02
31 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.28
Consensus pattern (27 bp):
GAGCACTAAGTGTGCGAAATCGGTATT
Found at i:11325269 original size:54 final size:56
Alignment explanation
Indices: 11325208--11325333 Score: 145
Period size: 54 Copynumber: 2.3 Consensus size: 56
11325198 TTTGATACCG
* *
11325208 AGCACTAAGTGTGCGAAATCGG-TCATT-GAGCACTAAGTGTGC-AAGTTGATT-TTA
1 AGCACTAAGTGTGCGAAATCGGAT--TTCGAGCACTAAGTGTGCGAAATCGATTATTA
* * *
11325262 AGCACTAAGTGTGC-AAATTGGATTTCCGAGCACTAAGTGTGCGAAATCGGTTATTG
1 AGCACTAAGTGTGCGAAATCGGATTT-CGAGCACTAAGTGTGCGAAATCGATTATTA
11325318 AGCACTAAGTGTGCGA
1 AGCACTAAGTGTGCGA
11325334 GAAAATTTTT
Statistics
Matches: 61, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
52 2 0.03
53 6 0.10
54 30 0.49
55 6 0.10
56 16 0.26
57 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (56 bp):
AGCACTAAGTGTGCGAAATCGGATTTCGAGCACTAAGTGTGCGAAATCGATTATTA
Found at i:11325309 original size:82 final size:81
Alignment explanation
Indices: 11325182--11325331 Score: 246
Period size: 82 Copynumber: 1.8 Consensus size: 81
11325172 TTTGAGAGAT
*
11325182 GCACTAAACGTGCAAATTTGATACCGAGCACTAAGTGTGCGAAATCGGTCATTGAGCACTAAGTG
1 GCACTAAACGTGCAAATTGGATACCGAGCACTAAGTGTGCGAAATCGGTCATTGAGCACTAAGTG
11325247 TGCAAGTTGATTTTAA
66 TGCAAGTTGATTTTAA
** * *
11325263 GCACTAAGTGTGCAAATTGGATTTCCGAGCACTAAGTGTGCGAAATCGGTTATTGAGCACTAAGT
1 GCACTAAACGTGCAAATTGGA-TACCGAGCACTAAGTGTGCGAAATCGGTCATTGAGCACTAAGT
11325328 GTGC
65 GTGC
11325332 GAGAAAATTT
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
81 18 0.29
82 45 0.71
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.27
Consensus pattern (81 bp):
GCACTAAACGTGCAAATTGGATACCGAGCACTAAGTGTGCGAAATCGGTCATTGAGCACTAAGTG
TGCAAGTTGATTTTAA
Found at i:11329612 original size:17 final size:17
Alignment explanation
Indices: 11329590--11329623 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
11329580 ACAAGGAAAG
11329590 TTAAAACTGTTGAAGAT
1 TTAAAACTGTTGAAGAT
11329607 TTAAAACTGTTGAAGAT
1 TTAAAACTGTTGAAGAT
11329624 GCACTTGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.18, T:0.35
Consensus pattern (17 bp):
TTAAAACTGTTGAAGAT
Found at i:11333502 original size:11 final size:9
Alignment explanation
Indices: 11333474--11333636 Score: 82
Period size: 10 Copynumber: 17.1 Consensus size: 9
11333464 TGATATGAAC
*
11333474 TTATACAAA
1 TTATAAAAA
11333483 TTATTAAAAA
1 TTA-TAAAAA
11333493 GTTATAAAAA
1 -TTATAAAAA
11333503 TTATAAAAA
1 TTATAAAAA
*
11333512 TCTA-ATAAA
1 T-TATAAAAA
11333521 TTAT-AAAA
1 TTATAAAAA
11333529 TTAATAAAACA
1 TT-ATAAAA-A
*
11333540 -TATTTAAAA
1 TTA-TAAAAA
11333549 TT-TAAAAA
1 TTATAAAAA
*
11333557 TATATTAAAA
1 T-TATAAAAA
11333567 TTCAATAAAAA
1 TT--ATAAAAA
*
11333578 TCATAAAAAA
1 TTAT-AAAAA
*
11333588 ATATAAAAA
1 TTATAAAAA
* *
11333597 GTATTAAAAG
1 TTA-TAAAAA
* * *
11333607 TGATATGAAC
1 TTATA-AAAA
11333617 TTATAAAAA
1 TTATAAAAA
11333626 TTATAATAAA
1 TTATAA-AAA
11333636 T
1 T
11333637 AAATAAACAA
Statistics
Matches: 118, Mismatches: 19, Indels: 33
0.69 0.11 0.19
Matches are distributed among these distances:
8 13 0.11
9 43 0.36
10 51 0.43
11 11 0.09
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.33
Consensus pattern (9 bp):
TTATAAAAA
Found at i:11333511 original size:19 final size:18
Alignment explanation
Indices: 11333474--11333636 Score: 82
Period size: 19 Copynumber: 8.6 Consensus size: 18
11333464 TGATATGAAC
*
11333474 TTATACAAATTATTAAAAA
1 TTATAAAAATTA-TAAAAA
11333493 GTTATAAAAATTATAAAAA
1 -TTATAAAAATTATAAAAA
*
11333512 TCTA-ATAAATTAT-AAAA
1 T-TATAAAAATTATAAAAA
*
11333529 TTAATAAAACA-TATTTAAAA
1 TT-ATAAAA-ATTA-TAAAAA
*
11333549 TT-TAAAAATATATTAAAA
1 TTATAAAAAT-TATAAAAA
*
11333567 TTCAATAAAAATCATAAAAAA
1 TT--ATAAAAATTAT-AAAAA
* * *
11333588 ATATAAAAAGTATTAAAAG
1 TTATAAAAATTA-TAAAAA
* * *
11333607 TGATATGAACTTATAAAAA
1 TTATA-AAAATTATAAAAA
11333626 TTATAATAAAT
1 TTATAA-AAAT
11333637 AAATAAACAA
Statistics
Matches: 110, Mismatches: 18, Indels: 31
0.69 0.11 0.19
Matches are distributed among these distances:
16 1 0.01
17 7 0.06
18 27 0.25
19 39 0.35
20 24 0.22
21 12 0.11
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.33
Consensus pattern (18 bp):
TTATAAAAATTATAAAAA
Found at i:11333521 original size:18 final size:16
Alignment explanation
Indices: 11333500--11333536 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
11333490 AAAGTTATAA
11333500 AAATTATAAAAATCTAAT
1 AAATTAT-AAAAT-TAAT
11333518 AAATTATAAAATTAAT
1 AAATTATAAAATTAAT
11333534 AAA
1 AAA
11333537 ACATATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.37
17 5 0.26
18 7 0.37
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATTATAAAATTAAT
Found at i:11333564 original size:18 final size:17
Alignment explanation
Indices: 11333480--11333568 Score: 65
Period size: 18 Copynumber: 4.8 Consensus size: 17
11333470 GAACTTATAC
11333480 AAATTATTAAAAAGTTATAA
1 AAATTATT-AAAA-TT-TAA
* *
11333500 AAATTATAAAAATCTAA
1 AAATTATTAAAATTTAA
11333517 TAAATTA-TAAAATTAATAA
1 -AAATTATTAAAATT--TAA
11333536 AACA-TATTTAAAATTTAA
1 AA-ATTA-TTAAAATTTAA
11333554 AAATATATTAAAATT
1 AAAT-TATTAAAATT
11333569 CAATAAAAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 18
0.72 0.05 0.23
Matches are distributed among these distances:
17 9 0.16
18 24 0.42
19 10 0.18
20 14 0.25
ACGTcount: A:0.61, C:0.02, G:0.01, T:0.36
Consensus pattern (17 bp):
AAATTATTAAAATTTAA
Found at i:11334222 original size:19 final size:19
Alignment explanation
Indices: 11334119--11334225 Score: 76
Period size: 19 Copynumber: 5.7 Consensus size: 19
11334109 TTTAAATAAG
11334119 TTTTATCAA-TTTTATAATT
1 TTTTAT-AATTTTTATAATT
* *
11334138 TATTAGAATTTTTAT-A-T
1 TTTTATAATTTTTATAATT
* * * *
11334155 TGTTACAATATTTATATTT
1 TTTTATAATTTTTATAATT
* *
11334174 TTTTATAATTTTAATAAGT
1 TTTTATAATTTTTATAATT
* * *
11334193 TTATATCATTTTTATTATT
1 TTTTATAATTTTTATAATT
*
11334212 TTTTATGATTTTTA
1 TTTTATAATTTTTA
11334226 ATCATGTTTA
Statistics
Matches: 66, Mismatches: 19, Indels: 6
0.73 0.21 0.07
Matches are distributed among these distances:
17 13 0.20
18 3 0.05
19 50 0.76
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.63
Consensus pattern (19 bp):
TTTTATAATTTTTATAATT
Found at i:11338188 original size:30 final size:30
Alignment explanation
Indices: 11338148--11338219 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 30
11338138 CTAGGTATTC
*
11338148 CCACACGGGCTGAGTACACACTCGTGTGAG
1 CCACAAGGGCTGAGTACACACTCGTGTGAG
* * *
11338178 CCATAAGGGCTAAGTACACGCTCGTGTGAG
1 CCACAAGGGCTGAGTACACACTCGTGTGAG
*
11338208 CCACACGGGCTG
1 CCACAAGGGCTG
11338220 GCCACACACC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.24, C:0.29, G:0.31, T:0.17
Consensus pattern (30 bp):
CCACAAGGGCTGAGTACACACTCGTGTGAG
Found at i:11339699 original size:46 final size:45
Alignment explanation
Indices: 11339596--11339760 Score: 149
Period size: 46 Copynumber: 3.6 Consensus size: 45
11339586 ATTATGAGAT
* * * * *
11339596 CCAGTGTAAGACCTTGTCTGGGATATGGCATTGGCATTGAGATGAGAG
1 CCAGTGTAAGACCATGTCTGGGACAT-GCA-TCGCCTCGAGATGA-AG
* *
11339644 CTAGAGTAAGA-CATGTCTGGGACATGCATCAGCCTCGAGATGTAAG
1 CCAGTGTAAGACCATGTCTGGGACATGCATC-GCCTCGAGATG-AAG
* *
11339690 CCAGTGTAAGA-CATGTC-GATGACATGCATCGGCTACGAGATG-AG
1 CCAGTGTAAGACCATGTCTG-GGACATGCATCGCCT-CGAGATGAAG
*
11339734 CTAGTGTAAGACCATGTCTGGGACATG
1 CCAGTGTAAGACCATGTCTGGGACATG
11339761 ACATTAGCAT
Statistics
Matches: 98, Mismatches: 13, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
44 12 0.12
45 17 0.17
46 47 0.48
47 13 0.13
48 9 0.09
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (45 bp):
CCAGTGTAAGACCATGTCTGGGACATGCATCGCCTCGAGATGAAG
Found at i:11350065 original size:46 final size:46
Alignment explanation
Indices: 11349998--11350106 Score: 173
Period size: 46 Copynumber: 2.3 Consensus size: 46
11349988 AATAGAGGTT
*
11349998 TTAATTAGAATGAGATTTCAATTAATCAACCTAGAGTCAGTTGTTC
1 TTAATTAGAAAGAGATTTCAATTAATCAACCTAGAGTCAGTTGTTC
*
11350044 TTAATTAGAAAGAGATTTCAATTAATCAACCTAGAGTTAGTTGTTC
1 TTAATTAGAAAGAGATTTCAATTAATCAACCTAGAGTCAGTTGTTC
* *
11350090 TTACTCTCGAAAGAGAT
1 TTAAT-TAGAAAGAGAT
11350107 ATTACCATAA
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
46 48 0.83
47 10 0.17
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.36
Consensus pattern (46 bp):
TTAATTAGAAAGAGATTTCAATTAATCAACCTAGAGTCAGTTGTTC
Found at i:11354822 original size:5 final size:5
Alignment explanation
Indices: 11354812--11354846 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
11354802 ATTGAGTCTA
11354812 TTTAT TTTAT TTTATT TTTAT TTTATT TTTAT TTT
1 TTTAT TTTAT TTTA-T TTTAT TTTA-T TTTAT TTT
11354847 CCCCTTTTCG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 18 0.64
6 10 0.36
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTAT
Found at i:11354832 original size:11 final size:11
Alignment explanation
Indices: 11354812--11354846 Score: 63
Period size: 11 Copynumber: 3.3 Consensus size: 11
11354802 ATTGAGTCTA
11354812 TTTA-TTTTAT
1 TTTATTTTTAT
11354822 TTTATTTTTAT
1 TTTATTTTTAT
11354833 TTTATTTTTAT
1 TTTATTTTTAT
11354844 TTT
1 TTT
11354847 CCCCTTTTCG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 4 0.17
11 20 0.83
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:11354833 original size:16 final size:17
Alignment explanation
Indices: 11354812--11354846 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
11354802 ATTGAGTCTA
11354812 TTTATTTTA-TTTTATT
1 TTTATTTTATTTTTATT
11354828 TTTATTTTATTTTTATT
1 TTTATTTTATTTTTATT
11354845 TT
1 TT
11354847 CCCCTTTTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTATTTTATTTTTATT
Found at i:11361282 original size:72 final size:67
Alignment explanation
Indices: 11361207--11361339 Score: 257
Period size: 67 Copynumber: 2.0 Consensus size: 67
11361197 ATATATTGGT
11361207 AAAATAAAATAAAAGTAAAATCCATATAGAACTACACTTCGTTTATTTTATTTTAGAATAAGGTT
1 AAAATAAAATAAAAGTAAAATCCATATAGAACTACACTTCGTTTATTTTATTTTAGAATAAGGTT
11361272 TA
66 TA
*
11361274 AAAATAAAATAAAAGTAAAATCCATATAGAACTACACTTCTTTTATTTTATTTTAGAATAAGGTT
1 AAAATAAAATAAAAGTAAAATCCATATAGAACTACACTTCGTTTATTTTATTTTAGAATAAGGTT
11361339 T
66 T
11361340 TTTAAACCTT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.46, C:0.09, G:0.08, T:0.37
Consensus pattern (67 bp):
AAAATAAAATAAAAGTAAAATCCATATAGAACTACACTTCGTTTATTTTATTTTAGAATAAGGTT
TA
Found at i:11365702 original size:19 final size:18
Alignment explanation
Indices: 11365663--11365710 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
11365653 TGATTCAATC
*
11365663 TTTTTTTTTTATAATTGT
1 TTTTTTTTTTAAAATTGT
11365681 TTTTATTTTTTAAAATAT-T
1 TTTT-TTTTTTAAAAT-TGT
11365700 TTTTTTGTTTT
1 TTTTTT-TTTT
11365711 TTAATTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 6 0.23
19 19 0.73
20 1 0.04
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.77
Consensus pattern (18 bp):
TTTTTTTTTTAAAATTGT
Found at i:11375123 original size:52 final size:52
Alignment explanation
Indices: 11375049--11375235 Score: 275
Period size: 52 Copynumber: 3.6 Consensus size: 52
11375039 CCATGGAAAC
* * * *
11375049 ATGTGATATGTGCTTCCGTATAAGACCATAGCAGGGCGATGGAATCGGTGTG
1 ATGTGATATGTGCTCCCGTATAAGACCATAACAGGGCTATGGCATCGGTGTG
11375101 ATGTGATATGTGCTCCCGTATAAGACCATAACAGGGCTATGGCATCGGTGTG
1 ATGTGATATGTGCTCCCGTATAAGACCATAACAGGGCTATGGCATCGGTGTG
* * * *
11375153 ATGTGATATGTGTTCCCGTATAAGACCATAATAGGGTTATGGCATCGGTGAG
1 ATGTGATATGTGCTCCCGTATAAGACCATAACAGGGCTATGGCATCGGTGTG
* *
11375205 ATGTGACTATATGCTTCCGTATAAGACCATA
1 ATGTGA-TATGTGCTCCCGTATAAGACCATA
11375236 TCTAAGATAT
Statistics
Matches: 123, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
52 102 0.83
53 21 0.17
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (52 bp):
ATGTGATATGTGCTCCCGTATAAGACCATAACAGGGCTATGGCATCGGTGTG
Found at i:11389321 original size:45 final size:45
Alignment explanation
Indices: 11389257--11389380 Score: 162
Period size: 45 Copynumber: 2.8 Consensus size: 45
11389247 TACACCAAGT
* *
11389257 TGAGTAAGACTATAGCTGAAAGAAGCTATGGCATCATGATA-AAGA
1 TGAGTAAGACCATAGCTGAAAGAAGCTATGACATCATGATAGAA-A
** *
11389302 TGAGTAAGACCATAGCTGAAAGATTCTATGACATCATGATAGAAT
1 TGAGTAAGACCATAGCTGAAAGAAGCTATGACATCATGATAGAAA
*
11389347 TGAGTAAGGCCATAGCTGAAA-AATGCTATGACAT
1 TGAGTAAGACCATAGCTGAAAGAA-GCTATGACAT
11389381 TATGTGAAAG
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
44 1 0.01
45 66 0.96
46 2 0.03
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.24
Consensus pattern (45 bp):
TGAGTAAGACCATAGCTGAAAGAAGCTATGACATCATGATAGAAA
Found at i:11402998 original size:10 final size:10
Alignment explanation
Indices: 11402983--11403032 Score: 75
Period size: 10 Copynumber: 5.0 Consensus size: 10
11402973 TAATTTTAGC
11402983 ATTTATCTTT
1 ATTTATCTTT
11402993 ATTTATCTTT
1 ATTTATCTTT
*
11403003 AATTATCTTT
1 ATTTATCTTT
11403013 ATTTAT-TTGT
1 ATTTATCTT-T
11403023 ATTTATCTTT
1 ATTTATCTTT
11403033 TAGAATTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
9 2 0.06
10 32 0.89
11 2 0.06
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:11404737 original size:15 final size:15
Alignment explanation
Indices: 11404711--11404748 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
11404701 TTAATCACAT
*
11404711 TAATATTATATTAATA
1 TAATA-TATATTAAGA
11404727 TAATATATATTAAGA
1 TAATATATATTAAGA
11404742 TAA-ATAT
1 TAATATAT
11404749 TAGATTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 4 0.19
15 12 0.57
16 5 0.24
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (15 bp):
TAATATATATTAAGA
Found at i:11404764 original size:17 final size:17
Alignment explanation
Indices: 11404710--11404767 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
11404700 CTTAATCACA
11404710 TTAATATTATATT-AAT
1 TTAATATTATATTAAAT
*
11404726 ATAATA-TATATTAAGA-
1 TTAATATTATATTAA-AT
* *
11404742 TAAATATTAGATTAAAT
1 TTAATATTATATTAAAT
11404759 TTAATATTA
1 TTAATATTA
11404768 AATCTTATTA
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
15 6 0.18
16 11 0.33
17 16 0.48
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
TTAATATTATATTAAAT
Found at i:11409232 original size:21 final size:21
Alignment explanation
Indices: 11409189--11409232 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
11409179 ACACACTTAG
*
11409189 CTTAATTGAGCTATTAATGAA
1 CTTAATTGAGCTATTAATAAA
11409210 CTTAATTGAGCTAATTAA-AAA
1 CTTAATTGAGCT-ATTAATAAA
11409231 CT
1 CT
11409233 ACAAGACCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.36
Consensus pattern (21 bp):
CTTAATTGAGCTATTAATAAA
Found at i:11411894 original size:18 final size:18
Alignment explanation
Indices: 11411873--11411919 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
11411863 TCTTTCATTC
*
11411873 TCTTTTTCTTTTTCGCTT
1 TCTTTTTCTTTTTCGATT
*
11411891 TCTTATTCTTTTTCGATT
1 TCTTTTTCTTTTTCGATT
*
11411909 ACTTTTTCTTT
1 TCTTTTTCTTT
11411920 CATTTTTCTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.06, C:0.19, G:0.04, T:0.70
Consensus pattern (18 bp):
TCTTTTTCTTTTTCGATT
Found at i:11417528 original size:4 final size:4
Alignment explanation
Indices: 11417519--11417545 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
11417509 CAGGTTAATG
11417519 GTTA GTTA GTTA GTTA GTTA GTTA GTT
1 GTTA GTTA GTTA GTTA GTTA GTTA GTT
11417546 TAATCTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.26, T:0.52
Consensus pattern (4 bp):
GTTA
Found at i:11418663 original size:18 final size:19
Alignment explanation
Indices: 11418640--11418676 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
11418630 GATATGATAC
*
11418640 TAAAAT-TATTAAAAAAAT
1 TAAAATATATAAAAAAAAT
11418658 TAAAATATATAAAAAAAAT
1 TAAAATATATAAAAAAAAT
11418677 CAGGGAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
TAAAATATATAAAAAAAAT
Found at i:11418964 original size:22 final size:21
Alignment explanation
Indices: 11418929--11418987 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 21
11418919 AAAAGGTATC
* *
11418929 TACAAATTAAATCTATAAGAT
1 TACAAATCATATCTATAAGAT
*
11418950 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TATAAGAT
* *
11418973 TGCATATCATATCTA
1 TACAAATCATATCTA
11418988 AGATTATATC
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
21 4 0.13
22 17 0.57
23 9 0.30
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTATAAGAT
Found at i:11419026 original size:17 final size:19
Alignment explanation
Indices: 11418965--11419018 Score: 94
Period size: 17 Copynumber: 2.9 Consensus size: 19
11418955 AATCATATCT
11418965 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
11418984 TCTAAGATT--ATATCATA
1 TCTAAGATTGCATATCATA
11419001 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
11419019 TGAAGATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
17 17 0.52
19 16 0.48
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:11419486 original size:44 final size:45
Alignment explanation
Indices: 11419368--11419530 Score: 247
Period size: 45 Copynumber: 3.6 Consensus size: 45
11419358 GGAAGGCGAT
*
11419368 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
*
11419413 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * *
11419458 ATCTGCT-TCTTCAATCTGCTCCCAGTCTAATACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * *
11419502 ATCTGTTATCTCCGATTTGCTCCCCGTCT
1 ATCTGCTATCTTCGATCTGCTCCCCGTCT
11419531 CTGTTATCTC
Statistics
Matches: 106, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
44 40 0.38
45 66 0.62
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.31
Consensus pattern (45 bp):
ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
Found at i:11419541 original size:27 final size:27
Alignment explanation
Indices: 11419503--11419557 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
11419493 AGATGCCAAA
*
11419503 TCTGTTATCTCCGATTTGCTCCCCGTC
1 TCTGTTATCTCCAATTTGCTCCCCGTC
*
11419530 TCTGTTATCTCCAATTTTCTCCCCGTC
1 TCTGTTATCTCCAATTTGCTCCCCGTC
11419557 T
1 T
11419558 AATACAGAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.09, C:0.36, G:0.11, T:0.44
Consensus pattern (27 bp):
TCTGTTATCTCCAATTTGCTCCCCGTC
Done.