Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008087.1 Hibiscus syriacus cultivar Beakdansim tig00110597_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 8279816
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 26 of 37
Found at i:6001893 original size:16 final size:16
Alignment explanation
Indices: 6001872--6001907 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
6001862 GGGTTACGAT
*
6001872 GTTGAAGTTGTTTGCA
1 GTTGAAGCTGTTTGCA
6001888 GTTGAAGCTGTTTGCA
1 GTTGAAGCTGTTTGCA
6001904 GTTG
1 GTTG
6001908 CCACATAGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.17, C:0.08, G:0.33, T:0.42
Consensus pattern (16 bp):
GTTGAAGCTGTTTGCA
Found at i:6002924 original size:12 final size:12
Alignment explanation
Indices: 6002907--6002961 Score: 57
Period size: 13 Copynumber: 4.9 Consensus size: 12
6002897 TCAAGAACAA
6002907 AAAGAGAAAATC
1 AAAGAGAAAATC
*
6002919 AAAGAGAAAAAGC
1 AAAGAG-AAAATC
6002932 AAAGAGAAAAT-
1 AAAGAGAAAATC
6002943 AAA-A-AAAA-C
1 AAAGAGAAAATC
6002952 AAAG-GAAAAT
1 AAAGAGAAAAT
6002962 TGAAGAAAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
9 7 0.19
10 5 0.14
11 3 0.08
12 10 0.28
13 11 0.31
ACGTcount: A:0.73, C:0.05, G:0.16, T:0.05
Consensus pattern (12 bp):
AAAGAGAAAATC
Found at i:6002955 original size:25 final size:25
Alignment explanation
Indices: 6002907--6002955 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
6002897 TCAAGAACAA
* *
6002907 AAAGAGAAAATCAAAGAGAAAAAGC
1 AAAGAGAAAATCAAAAAAAAAAAGC
6002932 AAAGAGAAAAT-AAAAAAAACAAAG
1 AAAGAGAAAATCAAAAAAAA-AAAG
6002956 GAAAATTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.73, C:0.06, G:0.16, T:0.04
Consensus pattern (25 bp):
AAAGAGAAAATCAAAAAAAAAAAGC
Found at i:6004076 original size:31 final size:32
Alignment explanation
Indices: 6004034--6004120 Score: 122
Period size: 31 Copynumber: 2.8 Consensus size: 32
6004024 ATCTTTGAAT
*
6004034 ATTCAACATCAAATGTTGGGGTATTTTTT-AG
1 ATTCAACATCAAATGTTGGGGCATTTTTTGAG
* *
6004065 ATTTAACATCAAATGTTGAGGCATTTTTTGAG
1 ATTCAACATCAAATGTTGGGGCATTTTTTGAG
* *
6004097 ATTCAACATCGAATATTGGGGCAT
1 ATTCAACATCAAATGTTGGGGCAT
6004121 CTTTGGGAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
31 26 0.54
32 22 0.46
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (32 bp):
ATTCAACATCAAATGTTGGGGCATTTTTTGAG
Found at i:6005008 original size:106 final size:106
Alignment explanation
Indices: 6004755--6005011 Score: 390
Period size: 106 Copynumber: 2.4 Consensus size: 106
6004745 GACGAACGGG
* * *
6004755 TTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGAATATTGGACTCGAGACAACACAAGT
1 TTTCCCAGTTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTAGACTCGAGACAACACAAGT
**
6004820 TCAAGTTCACAACGAAGGGACGACTGGTTGTCAACAAACAA
66 TCAACATCACAACGAAGGGACGACTGGTTGTCAACAAACAA
* * *
6004861 TTTCCCAGTTTCAAAACCAATTTCAACTTCACAGCAAAGGATATTAGACTCGAGACAACACAAGT
1 TTTCCCAGTTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTAGACTCGAGACAACACAAGT
*
6004926 TCAACATCACATCGAAGGGACGACTGGTTGTCAACAAACAA
66 TCAACATCACAACGAAGGGACGACTGGTTGTCAACAAACAA
* * *
6004967 TTTCCCAGTTCCAGAGCCAATTTTAACTTCAC-GTCGGAGGATATT
1 TTTCCCAGTTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATT
6005012 GGTCTCAAAA
Statistics
Matches: 135, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
105 1 0.01
106 134 0.99
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (106 bp):
TTTCCCAGTTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTAGACTCGAGACAACACAAGT
TCAACATCACAACGAAGGGACGACTGGTTGTCAACAAACAA
Found at i:6005365 original size:15 final size:15
Alignment explanation
Indices: 6005345--6005379 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
6005335 TTTTGTCTCT
*
6005345 CTTGAGATAGTTTCC
1 CTTGAGACAGTTTCC
*
6005360 CTTGAGACAGTTTCT
1 CTTGAGACAGTTTCC
6005375 CTTGA
1 CTTGA
6005380 AGCATATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (15 bp):
CTTGAGACAGTTTCC
Found at i:6005564 original size:35 final size:36
Alignment explanation
Indices: 6005522--6005608 Score: 124
Period size: 36 Copynumber: 2.4 Consensus size: 36
6005512 TTTGAATACA
6005522 ATTTCTCTTGAAACAC-AAAAAAAACCTTTGAA-ATT
1 ATTTCTCTTGAAACACAAAAAAAAACCTTTGAAGA-T
*
6005557 ATTTCTCTTGAAACACAAAAAAAAATCTTTGAAGAT
1 ATTTCTCTTGAAACACAAAAAAAAACCTTTGAAGAT
* *
6005593 GTTTCTCTTAAAACAC
1 ATTTCTCTTGAAACAC
6005609 CAAACCCTCA
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
35 16 0.34
36 30 0.64
37 1 0.02
ACGTcount: A:0.44, C:0.17, G:0.07, T:0.32
Consensus pattern (36 bp):
ATTTCTCTTGAAACACAAAAAAAAACCTTTGAAGAT
Found at i:6006836 original size:49 final size:48
Alignment explanation
Indices: 6006763--6006878 Score: 148
Period size: 49 Copynumber: 2.4 Consensus size: 48
6006753 TTTTTTTAGA
*
6006763 TTATATATATATATATA-TATTATTTTTTTA-TTATTAGTTTTAT-TAAT
1 TTATATATATATATATATTACTATTTTTTTATTTATTA-TTTTATAT-AT
*
6006810 TTATATATATATATATATTCACTATTTTTTTATTTTTTATTTTATATAT
1 TTATATATATATATATATT-ACTATTTTTTTATTTATTATTTTATATAT
* *
6006859 ATATATATATAAATATATTA
1 TTATATATATATATATATTA
6006879 TTTTTACTTT
Statistics
Matches: 61, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
47 17 0.28
48 2 0.03
49 36 0.59
50 6 0.10
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (48 bp):
TTATATATATATATATATTACTATTTTTTTATTTATTATTTTATATAT
Found at i:6006940 original size:24 final size:22
Alignment explanation
Indices: 6006874--6006962 Score: 81
Period size: 24 Copynumber: 3.9 Consensus size: 22
6006864 TATATAAATA
*
6006874 TATTATTTTTACTTTTTTTA-T
1 TATTATTTTTTCTTTTTTTATT
*
6006895 TATTACTTTATTTGTTTGTTTTATT
1 TATTA-TTT-TTTCTTT-TTTTATT
*
6006920 TATATATTTTTTCTTCTTTTTCTT
1 TAT-TATTTTTTCTT-TTTTTATT
* *
6006944 TATTTTTTTTTATTTTTTT
1 TATTATTTTTTCTTTTTTT
6006963 TATATTTACT
Statistics
Matches: 56, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
21 5 0.09
22 8 0.14
23 14 0.25
24 19 0.34
25 8 0.14
26 2 0.04
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.78
Consensus pattern (22 bp):
TATTATTTTTTCTTTTTTTATT
Found at i:6006949 original size:20 final size:19
Alignment explanation
Indices: 6006924--6006965 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
6006914 TTTATTTATA
*
6006924 TATTTTTTCTTCTTTTTCTT
1 TATTTTTTCTTATTTTT-TT
*
6006944 TATTTTTTTTTATTTTTTT
1 TATTTTTTCTTATTTTTTT
6006963 TAT
1 TAT
6006966 ATTTACTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (19 bp):
TATTTTTTCTTATTTTTTT
Found at i:6007043 original size:26 final size:25
Alignment explanation
Indices: 6006999--6007065 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 25
6006989 CTTTGCTTTC
*
6006999 TTTTTCTT-ATCTTTTATTTAATTTAT
1 TTTTTCTTCAT-TTTAATTTAA-TTAT
6007025 TTTTTCTTCATTTTAATTTAATTAT
1 TTTTTCTTCATTTTAATTTAATTAT
6007050 TTATTTCTTACATTTT
1 TT-TTTCTT-CATTTT
6007066 TATCTAACAT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
25 6 0.16
26 23 0.62
27 8 0.22
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.70
Consensus pattern (25 bp):
TTTTTCTTCATTTTAATTTAATTAT
Found at i:6035543 original size:21 final size:21
Alignment explanation
Indices: 6035517--6035561 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
6035507 GATTTATGGG
* *
6035517 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
6035538 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
6035559 CAA
1 CAA
6035562 ACGACAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:6036166 original size:18 final size:18
Alignment explanation
Indices: 6036143--6036177 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
6036133 CTAGGAGATT
6036143 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
6036161 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
6036178 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:6036263 original size:21 final size:22
Alignment explanation
Indices: 6036234--6036277 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
6036224 GTTGTATGAT
6036234 AGAAAATTAT-GAAGTTATATG
1 AGAAAATTATAGAAGTTATATG
* *
6036255 AGAAGATTATAGGAGTTATATG
1 AGAAAATTATAGAAGTTATATG
6036277 A
1 A
6036278 AATTGAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.32
Consensus pattern (22 bp):
AGAAAATTATAGAAGTTATATG
Found at i:6037239 original size:149 final size:149
Alignment explanation
Indices: 6037059--6037362 Score: 572
Period size: 149 Copynumber: 2.0 Consensus size: 149
6037049 GAGTCGAGGG
6037059 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
*
6037124 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
* *
6037189 TGTGGCACTACGGTGCAAT
131 TATGGCACTACAGTGCAAT
*
6037208 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGGAAGACACAT
1 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
6037273 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
6037338 TATGGCACTACAGTGCAAT
131 TATGGCACTACAGTGCAAT
6037357 TCTACG
1 TCTACG
6037363 GGGCACTTCG
Statistics
Matches: 151, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
149 151 1.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
TATGGCACTACAGTGCAAT
Found at i:6037385 original size:23 final size:23
Alignment explanation
Indices: 6037341--6037385 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
6037331 ATCATTATAT
*
6037341 GGCACTACAGTGCAATTCTACGG
1 GGCACTACAGTGCAATTATACGG
* * *
6037364 GGCACTTCGGTGCATTTATACG
1 GGCACTACAGTGCAATTATACG
6037386 AGCTGTGGTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACAGTGCAATTATACGG
Found at i:6040679 original size:21 final size:21
Alignment explanation
Indices: 6040653--6040697 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
6040643 GATTTCTGGG
* *
6040653 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
6040674 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
6040695 CAA
1 CAA
6040698 ACGACAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:6041302 original size:18 final size:18
Alignment explanation
Indices: 6041279--6041313 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
6041269 CTAGGAGATT
6041279 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
6041297 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
6041314 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:6041399 original size:21 final size:22
Alignment explanation
Indices: 6041370--6041413 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
6041360 GTTGTATGAT
6041370 AGAAAATTAT-GAAGTTATATG
1 AGAAAATTATAGAAGTTATATG
* *
6041391 AGAAGATTATAGGAGTTATATG
1 AGAAAATTATAGAAGTTATATG
6041413 A
1 A
6041414 AATTGAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.32
Consensus pattern (22 bp):
AGAAAATTATAGAAGTTATATG
Found at i:6041643 original size:2 final size:2
Alignment explanation
Indices: 6041636--6041697 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
6041626 GAACATGTGA
6041636 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6041678 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
6041698 GTCTAAGAGA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6042414 original size:149 final size:149
Alignment explanation
Indices: 6042233--6042535 Score: 579
Period size: 149 Copynumber: 2.0 Consensus size: 149
6042223 GAGTCGAGGG
*
6042233 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACACGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
*
6042298 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
6042363 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
*
6042382 TCTACACGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGGAAGACACAT
1 TCTACACGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
6042447 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
6042512 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
6042531 TCTAC
1 TCTAC
6042536 GGGGCACTTC
Statistics
Matches: 151, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
149 151 1.00
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.35
Consensus pattern (149 bp):
TCTACACGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:6042559 original size:23 final size:23
Alignment explanation
Indices: 6042515--6042559 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
6042505 ATCATTATAT
*
6042515 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
6042538 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
6042560 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:6050989 original size:58 final size:60
Alignment explanation
Indices: 6050878--6051003 Score: 157
Period size: 58 Copynumber: 2.1 Consensus size: 60
6050868 ATGGTTGAGT
* * * *
6050878 GATCGTTTTGTAACTTTTAATAGTAAGGGGACTCAACAAAATATCATTATATAGCCG-GG
1 GATCATTTTGTAACTTTTAATAGTAAGAGGACTCAACAAAATAACATCATATAGCCGAGG
* * * *
6050937 GATCATTTTGTAAC-TTTAATAGTTAGAGGACTCAACAAAATAACGTCCTATAGTCGAGG
1 GATCATTTTGTAACTTTTAATAGTAAGAGGACTCAACAAAATAACATCATATAGCCGAGG
*
6050996 GACCATTT
1 GATCATTT
6051004 GCATACTTTA
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
58 35 0.61
59 22 0.39
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (60 bp):
GATCATTTTGTAACTTTTAATAGTAAGAGGACTCAACAAAATAACATCATATAGCCGAGG
Found at i:6059235 original size:26 final size:26
Alignment explanation
Indices: 6059206--6059258 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
6059196 TAACCTGCCA
6059206 AAATTAAGCAACTTCAGTGACTTGTT
1 AAATTAAGCAACTTCAGTGACTTGTT
6059232 AAATTAAGCAACTTCAGTGACTTGTT
1 AAATTAAGCAACTTCAGTGACTTGTT
6059258 A
1 A
6059259 TTGGAATTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (26 bp):
AAATTAAGCAACTTCAGTGACTTGTT
Found at i:6062368 original size:14 final size:14
Alignment explanation
Indices: 6062349--6062384 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
6062339 CTCAAGGGTT
6062349 AAACAATAATGCAG
1 AAACAATAATGCAG
6062363 AAACAATAATGCAG
1 AAACAATAATGCAG
6062377 AAACAATA
1 AAACAATA
6062385 TTTAATCGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.61, C:0.14, G:0.11, T:0.14
Consensus pattern (14 bp):
AAACAATAATGCAG
Found at i:6070628 original size:34 final size:35
Alignment explanation
Indices: 6070590--6070657 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
6070580 TATAGGAGAT
*
6070590 TATTTATTTTC-TTTTAACATTGTTTCACACTCAC
1 TATTTATTTTCTTTTTAACATTGTTACACACTCAC
*
6070624 TATTTATTTTCTTTTTAACGTTGTTACACACTCA
1 TATTTATTTTCTTTTTAACATTGTTACACACTCA
6070658 AAATGAAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 11 0.35
35 20 0.65
ACGTcount: A:0.24, C:0.19, G:0.04, T:0.53
Consensus pattern (35 bp):
TATTTATTTTCTTTTTAACATTGTTACACACTCAC
Found at i:6083155 original size:44 final size:44
Alignment explanation
Indices: 6083078--6083169 Score: 143
Period size: 44 Copynumber: 2.1 Consensus size: 44
6083068 TACACCAATA
*
6083078 ACAGTACATAAAACTTAAAAACATCTCCCGCCATAAAAGCCTTC
1 ACAGAACATAAAACTTAAAAACATCTCCCGCCATAAAAGCCTTC
6083122 ACAGAACATAAAACTTAAAAACA-C-CCTCTGCCATAAAAGCCTTC
1 ACAGAACATAAAACTTAAAAACATCTCC-C-GCCATAAAAGCCTTC
6083166 ACAG
1 ACAG
6083170 TAGACCAAAG
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
42 2 0.04
43 2 0.04
44 41 0.91
ACGTcount: A:0.45, C:0.29, G:0.08, T:0.18
Consensus pattern (44 bp):
ACAGAACATAAAACTTAAAAACATCTCCCGCCATAAAAGCCTTC
Found at i:6083917 original size:14 final size:14
Alignment explanation
Indices: 6083898--6083925 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6083888 TAACAGACTT
6083898 GTCTGTTTTCTACA
1 GTCTGTTTTCTACA
6083912 GTCTGTTTTCTACA
1 GTCTGTTTTCTACA
6083926 TGGTATCAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.14, T:0.50
Consensus pattern (14 bp):
GTCTGTTTTCTACA
Found at i:6085742 original size:51 final size:51
Alignment explanation
Indices: 6085683--6085783 Score: 184
Period size: 51 Copynumber: 2.0 Consensus size: 51
6085673 TCAGGGGGAG
* *
6085683 AGTTACAAGGAATTTCAGCCTGTTCAAACCGATATTTCTTTACAGCCTATT
1 AGTTACAAGGAATTTCAACCTGTTCAAACCGATATTTCTTTACAACCTATT
6085734 AGTTACAAGGAATTTCAACCTGTTCAAACCGATATTTCTTTACAACCTAT
1 AGTTACAAGGAATTTCAACCTGTTCAAACCGATATTTCTTTACAACCTAT
6085784 CCTTTCCTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.35
Consensus pattern (51 bp):
AGTTACAAGGAATTTCAACCTGTTCAAACCGATATTTCTTTACAACCTATT
Found at i:6088018 original size:14 final size:14
Alignment explanation
Indices: 6087999--6088026 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6087989 TAACAGACTT
6087999 GTCTGTTTTCTACA
1 GTCTGTTTTCTACA
6088013 GTCTGTTTTCTACA
1 GTCTGTTTTCTACA
6088027 TCCTCCTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.14, T:0.50
Consensus pattern (14 bp):
GTCTGTTTTCTACA
Found at i:6107974 original size:42 final size:42
Alignment explanation
Indices: 6107898--6108028 Score: 203
Period size: 42 Copynumber: 3.2 Consensus size: 42
6107888 CATATTCGCA
* * *
6107898 TTGCGATAGTCCAAGTTCGTGTTACGA-TT-TTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
6107938 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
* *
6107980 TTGCGATAGTCGAAGTTCGCATTGCGATTTATTTCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
6108022 TTGCGAT
1 TTGCGAT
6108029 TTGGTGGTAT
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
40 24 0.29
41 2 0.02
42 58 0.69
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.37
Consensus pattern (42 bp):
TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
Found at i:6108004 original size:21 final size:20
Alignment explanation
Indices: 6107892--6108007 Score: 83
Period size: 21 Copynumber: 5.6 Consensus size: 20
6107882 GATTTACATA
6107892 TTCGCATTGCGATAGTCCAAG
1 TTCGC-TTGCGATAGTCCAAG
* * ** *
6107913 TTCGTGTTACGATTTTCCAAA
1 TTCG-CTTGCGATAGTCCAAG
*
6107934 TTCG-TTGCGATAGTCGAAG
1 TTCGCTTGCGATAGTCCAAG
* *
6107953 TTCGCGTTGCGATTTATTCCAAA
1 TTCGC-TTGCGA--TAGTCCAAG
*
6107976 TTCG-TTGCGATAGTCGAAG
1 TTCGCTTGCGATAGTCCAAG
6107995 TTCGCATTGCGAT
1 TTCGC-TTGCGAT
6108008 TTATTTCAAA
Statistics
Matches: 72, Mismatches: 16, Indels: 14
0.71 0.16 0.14
Matches are distributed among these distances:
19 24 0.33
21 38 0.53
23 10 0.14
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (20 bp):
TTCGCTTGCGATAGTCCAAG
Found at i:6108025 original size:21 final size:21
Alignment explanation
Indices: 6107957--6108030 Score: 73
Period size: 21 Copynumber: 3.5 Consensus size: 21
6107947 TCGAAGTTCG
*
6107957 CGTTGCGATTTATTCCAAATT
1 CGTTGCGATTTATTTCAAATT
* *
6107978 CGTTGCGA--TA-GTCGAAGTT
1 CGTTGCGATTTATTTC-AAATT
6107997 CGCATTGCGATTTATTTCAAATT
1 CG--TTGCGATTTATTTCAAATT
6108020 CGTTGCGATTT
1 CGTTGCGATTT
6108031 GGTGGTATTG
Statistics
Matches: 42, Mismatches: 5, Indels: 12
0.71 0.08 0.20
Matches are distributed among these distances:
18 1 0.02
19 8 0.19
21 23 0.55
23 8 0.19
24 2 0.05
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.41
Consensus pattern (21 bp):
CGTTGCGATTTATTTCAAATT
Found at i:6108044 original size:42 final size:42
Alignment explanation
Indices: 6107873--6108028 Score: 196
Period size: 42 Copynumber: 3.8 Consensus size: 42
6107863 ACTTGGACTA
* *
6107873 TCGCATTGCGATTTA---CATATTCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATTTATTCCAAATTCG--TTGCGATAGTCGAAGT
** *
6107914 TCGTGTTACGA-TT-TTCCAAATTCGTTGCGATAGTCGAAGT
1 TCGCATTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGT
*
6107954 TCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGT
1 TCGCATTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGT
*
6107996 TCGCATTGCGATTTATTTCAAATTCGTTGCGAT
1 TCGCATTGCGATTTATTCCAAATTCGTTGCGAT
6108029 TTGGTGGTAT
Statistics
Matches: 101, Mismatches: 9, Indels: 9
0.85 0.08 0.08
Matches are distributed among these distances:
40 26 0.26
41 10 0.10
42 65 0.64
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.37
Consensus pattern (42 bp):
TCGCATTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGT
Found at i:6108118 original size:6 final size:6
Alignment explanation
Indices: 6108107--6108155 Score: 75
Period size: 6 Copynumber: 8.5 Consensus size: 6
6108097 GACACGTATT
*
6108107 ACCACG ACCACG ACCACG AACACG ACCACG ACCACG ACC-CG ACC-CG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
6108153 ACC
1 ACC
6108156 CAAGACGAGA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
5 10 0.24
6 31 0.76
ACGTcount: A:0.33, C:0.51, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:6108670 original size:6 final size:6
Alignment explanation
Indices: 6108651--6108724 Score: 123
Period size: 6 Copynumber: 12.5 Consensus size: 6
6108641 GTCCGTCTCG
*
6108651 GGTCG- GGTCAT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
*
6108698 GGTCGT GGTCGT GGTCAT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGT
6108725 AATACGTGTC
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
5 4 0.06
6 60 0.94
ACGTcount: A:0.03, C:0.16, G:0.49, T:0.32
Consensus pattern (6 bp):
GGTCGT
Found at i:6108847 original size:21 final size:20
Alignment explanation
Indices: 6108821--6109041 Score: 137
Period size: 21 Copynumber: 10.7 Consensus size: 20
6108811 ATTTTGGACT
6108821 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAAT-A
* * *
6108842 ATCGCAACACGAACTTCGACT-
1 ATCGC-A-ACGAATTTGGAATA
*
6108863 ATCGCAACGAACTTGGAATAA
1 ATCGCAACGAATTTGGAAT-A
*
6108884 ATCGCAACGCGAATTTGG-ATT
1 ATCGCAA--CGAATTTGGAATA
*
6108905 ATTGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAAT-A
* *
6108926 ATCGCAACGCGAACTTGGACT-
1 ATCGCAA--CGAATTTGGAATA
6108947 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAAT-A
* * *
6108968 ATCGCAACGCGAACTTCGACT-
1 ATCGCAA--CGAATTTGGAATA
* * * *
6108989 ATCACAACGAACTTCGACT-
1 ATCGCAACGAATTTGGAATA
*
6109008 ATCGTAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAAT-A
*
6109029 ATCACAACGAATT
1 ATCGCAACGAATT
6109042 ATAGATCGCA
Statistics
Matches: 159, Mismatches: 25, Indels: 32
0.74 0.12 0.15
Matches are distributed among these distances:
19 56 0.35
20 3 0.02
21 60 0.38
22 3 0.02
23 37 0.23
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGAATTTGGAATA
Found at i:6108879 original size:42 final size:42
Alignment explanation
Indices: 6108817--6108999 Score: 294
Period size: 42 Copynumber: 4.4 Consensus size: 42
6108807 TGCGATTTTG
*
6108817 GACTATCGCAACGAATTTGGAATAAATCGCAACACGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
* * *
6108859 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAATTTG
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
* * *
6108901 GATTATTGCAACGAATTTGGAATAAATCGCAACGCGAACTTG
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
6108943 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
*
6108985 GACTATCACAACGAA
1 GACTATCGCAACGAA
6109000 CTTCGACTAT
Statistics
Matches: 129, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 129 1.00
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (42 bp):
GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
Found at i:6109627 original size:28 final size:27
Alignment explanation
Indices: 6109592--6109659 Score: 73
Period size: 29 Copynumber: 2.4 Consensus size: 27
6109582 AAAAAGAGAA
* *
6109592 AAGAAAGAGAGTAACAGAGATCGACGAC
1 AAGAAAGAGAGGAACACAGATCGAC-AC
*
6109620 AAGAAAGAAGAGGAACACATATCGACAC
1 AAGAAAG-AGAGGAACACAGATCGACAC
*
6109648 GAGCAAAGAGAG
1 AAG-AAAGAGAG
6109660 AAAAAGCAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
28 15 0.44
29 19 0.56
ACGTcount: A:0.51, C:0.15, G:0.28, T:0.06
Consensus pattern (27 bp):
AAGAAAGAGAGGAACACAGATCGACAC
Found at i:6116758 original size:18 final size:16
Alignment explanation
Indices: 6116689--6116758 Score: 59
Period size: 18 Copynumber: 4.1 Consensus size: 16
6116679 CTCATCCAGC
* *
6116689 AAAGAAAGAAGAAGTAA
1 AAAGAAA-AAAAAGAAA
6116706 AAAGAAAAAAAAGATGAA
1 AAAGAAAAAAAAGA--AA
**
6116724 AAAGAAAAATGAGAAA
1 AAAGAAAAAAAAGAAA
6116740 AAAGATAAAGAAAAGAAA
1 AAAGA-AAA-AAAAGAAA
6116758 A
1 A
6116759 GGGAAAAAAG
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
16 12 0.28
17 10 0.23
18 21 0.49
ACGTcount: A:0.76, C:0.00, G:0.19, T:0.06
Consensus pattern (16 bp):
AAAGAAAAAAAAGAAA
Found at i:6116767 original size:27 final size:25
Alignment explanation
Indices: 6116704--6116767 Score: 67
Period size: 27 Copynumber: 2.5 Consensus size: 25
6116694 AAGAAGAAGT
*
6116704 AAAAA-GAAAAAAAAGATGAAAAAG
1 AAAAAGGAAAAAAAAGATAAAAAAG
* *
6116728 AAAAATGAGAAAAAAGATAAAGAAAAG
1 AAAAAGGAAAAAAAAGAT-AA-AAAAG
*
6116755 AAAAGGGAAAAAA
1 AAAAAGGAAAAAA
6116768 GGGAGAAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
24 5 0.16
25 11 0.34
26 1 0.03
27 15 0.47
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.05
Consensus pattern (25 bp):
AAAAAGGAAAAAAAAGATAAAAAAG
Found at i:6120925 original size:22 final size:22
Alignment explanation
Indices: 6120895--6120975 Score: 135
Period size: 22 Copynumber: 3.7 Consensus size: 22
6120885 ACATCTACAT
6120895 TCTTTTCAAAGATGATAGATTC
1 TCTTTTCAAAGATGATAGATTC
*
6120917 TCTCTTCAAAGATGATAGATTC
1 TCTTTTCAAAGATGATAGATTC
* *
6120939 TCTTTTTAAATATGATAGATTC
1 TCTTTTCAAAGATGATAGATTC
6120961 TCTTTTCAAAGATGA
1 TCTTTTCAAAGATGA
6120976 AAGCTTTATT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 53 1.00
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (22 bp):
TCTTTTCAAAGATGATAGATTC
Found at i:6121765 original size:167 final size:164
Alignment explanation
Indices: 6121489--6121816 Score: 584
Period size: 167 Copynumber: 2.0 Consensus size: 164
6121479 AAAATGAGCA
6121489 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAATAATGAGAAAACGAT
1 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAATAATGAGAAAACGAT
*
6121554 TTCCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTGAAAAGTATGAAAACGATTTCCT
66 TTCCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTCCT
*
6121619 TAGTTTTTTTTTACTTAGTATACTATTTCCAACAGCC
131 TAG---TTTTTTACTTAGTAAACTATTTCCAACAGCC
** *
6121656 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTTGAAAAATAATGAGAAAATGAT
1 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAATAATGAGAAAACGAT
6121721 TTCCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTCCT
66 TTCCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTCCT
6121786 TAGTTTTTTACTTAGTAAACTATTTCCAACA
131 TAGTTTTTTACTTAGTAAACTATTTCCAACA
6121817 TCTGTAAGAC
Statistics
Matches: 156, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
164 27 0.17
167 129 0.83
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.39
Consensus pattern (164 bp):
TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAATAATGAGAAAACGAT
TTCCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTCCT
TAGTTTTTTACTTAGTAAACTATTTCCAACAGCC
Found at i:6121920 original size:73 final size:73
Alignment explanation
Indices: 6121815--6121980 Score: 305
Period size: 73 Copynumber: 2.3 Consensus size: 73
6121805 CTATTTCCAA
*
6121815 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAACC
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAACCTTCGGGAGCTTTTTGATCTTAAACC
6121880 CTCAGGGT
66 CTCAGGGT
*
6121888 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAACCTTCGGGAGCTTTTTGATCTTAAATC
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAACCTTCGGGAGCTTTTTGATCTTAAACC
*
6121953 TTCAGGGT
66 CTCAGGGT
6121961 CATCTGTAAGACCTACAGTG
1 CATCTGTAAGACCTACAGTG
6121981 TAACACCCCA
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 90 1.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (73 bp):
CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAACCTTCGGGAGCTTTTTGATCTTAAACC
CTCAGGGT
Found at i:6122913 original size:23 final size:23
Alignment explanation
Indices: 6122887--6122931 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
6122877 CACCACATCT
6122887 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
*
6122910 CATATAATTGCACCGGAGTGCC
1 CATATAATTGCACCGAAGTGCC
6122932 GCGTAGAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:6122941 original size:23 final size:23
Alignment explanation
Indices: 6122887--6122942 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
6122877 CACCACATCT
*
6122887 CATATAATTGCACCGAAGTGCCA
1 CATAGAATTGCACCGAAGTGCCA
* * *
6122910 CATATAATTGCACCGGAGTGCCG
1 CATAGAATTGCACCGAAGTGCCA
*
6122933 CGTAGAATTG
1 CATAGAATTG
6122943 TATCGTAGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.23
Consensus pattern (23 bp):
CATAGAATTGCACCGAAGTGCCA
Found at i:6123142 original size:103 final size:103
Alignment explanation
Indices: 6122974--6123188 Score: 385
Period size: 103 Copynumber: 2.1 Consensus size: 103
6122964 TGTCCATAAG
* *
6122974 GACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGAC
1 GACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGAC
6123039 TTCACACATGTTCCAAAGAATACATATATGTCCCGAAA
66 TTCACACATGTTCCAAAGAATACATATATGTCCCGAAA
* *
6123077 GACCACATATCATTCCTTAAGAATCATATACATATGCCAATGATCAAGTATGTGTCTCACCAGAC
1 GACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGAC
*
6123142 TTCACACATGTTCCAAAGAATACATATATGTCCCGAAG
66 TTCACACATGTTCCAAAGAATACATATATGTCCCGAAA
6123180 GACCACATA
1 GACCACATA
6123189 GACCCTCGAC
Statistics
Matches: 107, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 107 1.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.27
Consensus pattern (103 bp):
GACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGAC
TTCACACATGTTCCAAAGAATACATATATGTCCCGAAA
Found at i:6124127 original size:64 final size:64
Alignment explanation
Indices: 6123979--6124136 Score: 151
Period size: 64 Copynumber: 2.5 Consensus size: 64
6123969 CTATCGGTGT
* * ** * ** *
6123979 ATCGATACACTACCTGTGCATCGATGCATAAAATACATTCGATGTTTGTTTATTACTGGGATGC
1 ATCGATGCACTACTTGTGCATCGATGCACCAAATACATTCGATGTTTGTTGATTAAAGAGATGC
* * * *
6124043 ATCGATGCA-TGCCTTATGCATCGATGCACCAATTGCATTCGATGTTT-TTAGATTAAA-AGAGT
1 ATCGATGCACT-ACTTGTGCATCGATGCACCAAATACATTCGATGTTTGTT-GATTAAAGAGA-T
6124105 GC
63 GC
*
6124107 ATCGATGCACTACTTGTGCATCGATACACC
1 ATCGATGCACTACTTGTGCATCGATGCACC
6124137 TTCAAACAAT
Statistics
Matches: 75, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
63 5 0.07
64 69 0.92
65 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (64 bp):
ATCGATGCACTACTTGTGCATCGATGCACCAAATACATTCGATGTTTGTTGATTAAAGAGATGC
Found at i:6125412 original size:73 final size:73
Alignment explanation
Indices: 6124903--6125400 Score: 897
Period size: 73 Copynumber: 6.8 Consensus size: 73
6124893 GGATGTTACA
*
6124903 TACAGTGCATGATGTTTTCAAAAAGCCTTTGGGAGCTTTTTGATCTTAAACCCTCAGGGTCATCT
1 TACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAACCCTCAGGGTCATCT
6124968 GTAAGACC
66 GTAAGACC
6124976 TACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAACCCTCAGGGTCATCT
1 TACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAACCCTCAGGGTCATCT
6125041 GTAAGACC
66 GTAAGACC
*
6125049 TACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAATCCTCAGGGTCATCT
1 TACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAACCCTCAGGGTCATCT
6125114 GTAAGACC
66 GTAAGACC
* *
6125122 TACAGTGCATGATGTTTTCAAAAAGCTTTCAGGAGCTTTTTGATCTTAAACCCTCAGGGTCATCT
1 TACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAACCCTCAGGGTCATCT
6125187 GTAAGACC
66 GTAAGACC
* *
6125195 TACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAATCCTCAGGGCCATCT
1 TACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAACCCTCAGGGTCATCT
6125260 GTAAGACC
66 GTAAGACC
* *
6125268 TACAGTGCATGATGTTTTCAAAAAGCATTCGGGCGCTTTTTGATCTTAAACCCTCAGGGTCATCT
1 TACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAACCCTCAGGGTCATCT
*
6125333 GTAAGACT
66 GTAAGACC
* *
6125341 TACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATTTTAAAGCCTCAGGGT
1 TACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAACCCTCAGGGT
6125401 TATTCATAAG
Statistics
Matches: 407, Mismatches: 18, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 407 1.00
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (73 bp):
TACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAACCCTCAGGGTCATCT
GTAAGACC
Found at i:6125561 original size:3 final size:3
Alignment explanation
Indices: 6125553--6125594 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
6125543 TTTTTTAATT
6125553 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6125595 AATAAAATAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:6135947 original size:18 final size:18
Alignment explanation
Indices: 6135902--6135948 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 18
6135892 GTGTTTGGTT
**
6135902 CAGGGAATGTAAGATTAC
1 CAGGGAATAAAAGATTAC
6135920 CAATGGGAATAAAAGATTAC
1 C-A-GGGAATAAAAGATTAC
6135940 CAGGGAATA
1 CAGGGAATA
6135949 GGATTATTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 8 0.32
19 2 0.08
20 15 0.60
ACGTcount: A:0.45, C:0.11, G:0.26, T:0.19
Consensus pattern (18 bp):
CAGGGAATAAAAGATTAC
Found at i:6136171 original size:37 final size:37
Alignment explanation
Indices: 6136098--6136172 Score: 91
Period size: 37 Copynumber: 2.0 Consensus size: 37
6136088 GTTGGAAAAT
*
6136098 ATTTATATATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAATTTAAAATCATAAA
* *
6136135 ATTTATATAATTTT-TTTTACAAATTTGAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTAAAAAATTT-AAAATCATAAA
6136172 A
1 A
6136173 AGGTTTAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 24 0.73
38 9 0.27
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.48
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAATTTAAAATCATAAA
Found at i:6137254 original size:20 final size:19
Alignment explanation
Indices: 6137188--6137279 Score: 76
Period size: 20 Copynumber: 4.6 Consensus size: 19
6137178 TCAGTTTCCA
* *
6137188 AATTCGCAACGCGAATCTGT
1 AATTCGCAACACGAAT-TTT
* * *
6137208 AAATCACAACACTGAATTTCA
1 AATTCGCAACAC-GAATTT-T
* *
6137229 AATTCGCAACTCGATTTTT
1 AATTCGCAACACGAATTTT
6137248 GAATTCGCAACACGAATTTT
1 -AATTCGCAACACGAATTTT
6137268 AATTTCGCAACA
1 AA-TTCGCAACA
6137280 GCATCAACTC
Statistics
Matches: 56, Mismatches: 12, Indels: 8
0.74 0.16 0.11
Matches are distributed among these distances:
19 2 0.04
20 41 0.73
21 13 0.23
ACGTcount: A:0.36, C:0.23, G:0.12, T:0.29
Consensus pattern (19 bp):
AATTCGCAACACGAATTTT
Found at i:6138193 original size:24 final size:24
Alignment explanation
Indices: 6138166--6138219 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
6138156 GTATTCGAAA
6138166 TTTGATCATGGTCAATACCCAGAC
1 TTTGATCATGGTCAATACCCAGAC
* * *
6138190 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCATGGTCAATACCCAGAC
6138214 TTTGAT
1 TTTGAT
6138220 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.39
Consensus pattern (24 bp):
TTTGATCATGGTCAATACCCAGAC
Found at i:6139001 original size:20 final size:20
Alignment explanation
Indices: 6138978--6139022 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
6138968 GGGTATATCG
*
6138978 GCGAATTTGACTTTCGCGTT
1 GCGAATTTGACTTTCACGTT
*
6138998 GCGAATTTGACTTTTACGTT
1 GCGAATTTGACTTTCACGTT
6139018 GCGAA
1 GCGAA
6139023 AGTGTACATT
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:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (20 bp):
GCGAATTTGACTTTCACGTT
Found at i:6139131 original size:25 final size:25
Alignment explanation
Indices: 6139095--6139142 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
6139085 ATCAATTAAG
*
6139095 CATTGTTGTGGGTACATTATTTGAA
1 CATTGTTATGGGTACATTATTTGAA
*
6139120 CATTGTTATGGGTATATTATTTG
1 CATTGTTATGGGTACATTATTTG
6139143 GAAAATAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.23, C:0.06, G:0.23, T:0.48
Consensus pattern (25 bp):
CATTGTTATGGGTACATTATTTGAA
Found at i:6139570 original size:24 final size:24
Alignment explanation
Indices: 6139526--6139571 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
6139516 TGTAATTGGA
* *
6139526 GTTTGAATTTAAATTTCAATTTAT
1 GTTTGAATTTAAATATAAATTTAT
*
6139550 GTTTGAATTTCAATATAAATTT
1 GTTTGAATTTAAATATAAATTT
6139572 CGGCTCCACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.35, C:0.04, G:0.09, T:0.52
Consensus pattern (24 bp):
GTTTGAATTTAAATATAAATTTAT
Found at i:6140724 original size:29 final size:29
Alignment explanation
Indices: 6140665--6140724 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 29
6140655 TTTTTGTTGT
** ****
6140665 GATTGTTGCGAAAGTCAAATTCGCGTTGC
1 GATTGTTGCGAAAGTCAAATAAGAAACGC
6140694 GATTGTTGCGAAAGTCAAATAAGAAACGC
1 GATTGTTGCGAAAGTCAAATAAGAAACGC
6140723 GA
1 GA
6140725 AATCGCAACG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.25
Consensus pattern (29 bp):
GATTGTTGCGAAAGTCAAATAAGAAACGC
Found at i:6140932 original size:64 final size:65
Alignment explanation
Indices: 6140831--6140983 Score: 254
Period size: 64 Copynumber: 2.4 Consensus size: 65
6140821 AATTTAAAAC
6140831 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAAGAATTA-TTTACACATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAAGAATTATTTTACACATCAATTA
*** * *
6140895 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTTCCTCATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAAGAATTATTTTACACATCAATTA
6140960 AACAAATCAACTTTTACAAATCAA
1 AACAAATCAACTTTTACAAATCAA
6140984 CTTTTAATAC
Statistics
Matches: 83, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
64 46 0.55
65 37 0.45
ACGTcount: A:0.52, C:0.18, G:0.02, T:0.29
Consensus pattern (65 bp):
AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAAGAATTATTTTACACATCAATTA
Found at i:6140980 original size:14 final size:14
Alignment explanation
Indices: 6140961--6140989 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
6140951 CATCAATTAA
6140961 ACAAATCAACTTTT
1 ACAAATCAACTTTT
6140975 ACAAATCAACTTTT
1 ACAAATCAACTTTT
6140989 A
1 A
6140990 ATACATCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:6142286 original size:21 final size:21
Alignment explanation
Indices: 6142262--6142364 Score: 82
Period size: 21 Copynumber: 4.9 Consensus size: 21
6142252 GTGGGAGAGA
*
6142262 CCTCTTGAATGATGACAGGGG
1 CCTCTTGAACGATGACAGGGG
* ** *
6142283 CCTCTTGAACGGTGGGAGGAG
1 CCTCTTGAACGATGACAGGGG
* * *
6142304 CCTCTTGAAGGATGATAAGGG
1 CCTCTTGAACGATGACAGGGG
* *
6142325 CCTCTTGAACGAT-AGGAGAGG
1 CCTCTTGAACGATGA-CAGGGG
* *
6142346 CCTCTTGAATGCTGACAGG
1 CCTCTTGAACGATGACAGG
6142365 TGAATTGGGC
Statistics
Matches: 61, Mismatches: 19, Indels: 4
0.73 0.23 0.05
Matches are distributed among these distances:
20 1 0.02
21 59 0.97
22 1 0.02
ACGTcount: A:0.24, C:0.19, G:0.34, T:0.22
Consensus pattern (21 bp):
CCTCTTGAACGATGACAGGGG
Found at i:6142308 original size:42 final size:41
Alignment explanation
Indices: 6142242--6142364 Score: 156
Period size: 42 Copynumber: 2.9 Consensus size: 41
6142232 GTGAATCGGG
*
6142242 CTCTCGAACGGTGGGAGAGACCTCTTGAATGATGACAGGGGC
1 CTCTTGAACGGTGGGAGAG-CCTCTTGAATGATGACAGGGGC
* * *
6142284 CTCTTGAACGGTGGGAGGAGCCTCTTGAAGGATGATAAGGGC
1 CTCTTGAACGGTGGGA-GAGCCTCTTGAATGATGACAGGGGC
* * *
6142326 CTCTTGAACGATAGGAGAGGCCTCTTGAATGCTGACAGG
1 CTCTTGAACGGTGGGAGA-GCCTCTTGAATGATGACAGG
6142365 TGAATTGGGC
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
41 2 0.03
42 64 0.93
43 3 0.04
ACGTcount: A:0.24, C:0.20, G:0.35, T:0.21
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGAGCCTCTTGAATGATGACAGGGGC
Found at i:6142701 original size:21 final size:21
Alignment explanation
Indices: 6142677--6142722 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
6142667 CCATTGTCAT
*
6142677 CACGTAAA-ACCTTTACCTCAC
1 CACGTAAAGACC-GTACCTCAC
*
6142698 CACGTAAAGACCGTACCTCAT
1 CACGTAAAGACCGTACCTCAC
6142719 CACG
1 CACG
6142723 CCATGCATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.33, C:0.37, G:0.11, T:0.20
Consensus pattern (21 bp):
CACGTAAAGACCGTACCTCAC
Found at i:6142719 original size:42 final size:42
Alignment explanation
Indices: 6142627--6142722 Score: 108
Period size: 42 Copynumber: 2.3 Consensus size: 42
6142617 GTAGAGCGGC
*
6142627 TACCTCATCACGTAAAGTTGATACCTCACCACGTAAAGCACCA
1 TACCTCATCACGTAAACTT-ATACCTCACCACGTAAAGCACCA
** *
6142670 T-TGTCATCACGTAAAACCTT-TACCTCACCACGTAAAG-ACCG
1 TACCTCATCACGT-AAA-CTTATACCTCACCACGTAAAGCACCA
6142711 TACCTCATCACG
1 TACCTCATCACG
6142723 CCATGCATCA
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
41 4 0.09
42 34 0.77
43 4 0.09
44 2 0.05
ACGTcount: A:0.32, C:0.33, G:0.11, T:0.23
Consensus pattern (42 bp):
TACCTCATCACGTAAACTTATACCTCACCACGTAAAGCACCA
Found at i:6143846 original size:10 final size:10
Alignment explanation
Indices: 6143833--6143867 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
6143823 TGGTTCTCTC
*
6143833 TTGATTCTTG
1 TTGATTGTTG
6143843 TTGATTGTTG
1 TTGATTGTTG
*
6143853 TTTATTGTTG
1 TTGATTGTTG
6143863 TTGAT
1 TTGAT
6143868 CAATGGCTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.11, C:0.03, G:0.23, T:0.63
Consensus pattern (10 bp):
TTGATTGTTG
Found at i:6144201 original size:45 final size:46
Alignment explanation
Indices: 6144113--6144203 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 46
6144103 TTTGAAAAAC
* *
6144113 CTGAGTGCATCGATACATGGTCTTGTGCATCGATGCATCAAATGCA
1 CTGAGTGCATCGATACATGGTCATGTGCATCGATGCATAAAATGCA
*
6144159 CTGAGTGCATCGATGCATGGT-ATGTGCATCGATGCATAAAATGCA
1 CTGAGTGCATCGATACATGGTCATGTGCATCGATGCATAAAATGCA
6144204 TTTGATGCTG
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 22 0.52
46 20 0.48
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (46 bp):
CTGAGTGCATCGATACATGGTCATGTGCATCGATGCATAAAATGCA
Found at i:6144890 original size:2 final size:2
Alignment explanation
Indices: 6144883--6144914 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6144873 AATCAAACCA
6144883 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6144915 CAAGTTTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6145408 original size:21 final size:21
Alignment explanation
Indices: 6145384--6145423 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
6145374 GTGCCGGAGG
6145384 AGGAGAAGCACGAGAAGAGTT
1 AGGAGAAGCACGAGAAGAGTT
* * *
6145405 AGGAGCAGCTCGTGAAGAG
1 AGGAGAAGCACGAGAAGAG
6145424 CTAGCTCCCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.40, T:0.10
Consensus pattern (21 bp):
AGGAGAAGCACGAGAAGAGTT
Found at i:6150833 original size:22 final size:21
Alignment explanation
Indices: 6150791--6150830 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
6150781 GAGTTTATTT
*
6150791 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
6150812 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
6150831 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:6152861 original size:19 final size:20
Alignment explanation
Indices: 6152818--6152870 Score: 83
Period size: 19 Copynumber: 2.7 Consensus size: 20
6152808 AAAAACCTGA
6152818 GTGCATCGATGCATGGTCTT
1 GTGCATCGATGCATGGTCTT
6152838 GTGCATCGATGCAT-GT-TAT
1 GTGCATCGATGCATGGTCT-T
6152857 GTGCATCGATGCAT
1 GTGCATCGATGCAT
6152871 AAAAAGCATT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 1 0.03
19 17 0.53
20 14 0.44
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.34
Consensus pattern (20 bp):
GTGCATCGATGCATGGTCTT
Found at i:6152923 original size:20 final size:20
Alignment explanation
Indices: 6152898--6152935 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
6152888 TGAAAAATTA
6152898 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
6152918 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
6152936 CACTTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:6154146 original size:30 final size:30
Alignment explanation
Indices: 6154103--6154174 Score: 117
Period size: 30 Copynumber: 2.4 Consensus size: 30
6154093 AAACATTTAA
*
6154103 AAGGATAACATATAGGTTTAGTGCAGGTTC
1 AAGGACAACATATAGGTTTAGTGCAGGTTC
* *
6154133 AAGGACAATATATATGTTTAGTGCAGGTTC
1 AAGGACAACATATAGGTTTAGTGCAGGTTC
6154163 AAGGACAACATA
1 AAGGACAACATA
6154175 AAGAGTAGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.38, C:0.11, G:0.24, T:0.28
Consensus pattern (30 bp):
AAGGACAACATATAGGTTTAGTGCAGGTTC
Found at i:6154345 original size:19 final size:20
Alignment explanation
Indices: 6154306--6154354 Score: 82
Period size: 19 Copynumber: 2.5 Consensus size: 20
6154296 TCTGAAACTT
*
6154306 AAAATCGCAACGCGAAAATG
1 AAAATTGCAACGCGAAAATG
6154326 AAAATTGCAACGCG-AAATG
1 AAAATTGCAACGCGAAAATG
6154345 AAAATTGCAA
1 AAAATTGCAA
6154355 GTTGAAACTA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.51, C:0.16, G:0.18, T:0.14
Consensus pattern (20 bp):
AAAATTGCAACGCGAAAATG
Found at i:6154765 original size:22 final size:22
Alignment explanation
Indices: 6154738--6154799 Score: 106
Period size: 22 Copynumber: 2.8 Consensus size: 22
6154728 GATGGAGATA
*
6154738 GACGGATTTCGCCGGAGATTGG
1 GACGGATTTCGCCGGAGATGGG
6154760 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
6154782 GACGGATGTCGCCGGAGA
1 GACGGATTTCGCCGGAGA
6154800 GAGTGAGAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.19, C:0.19, G:0.44, T:0.18
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:6154972 original size:20 final size:20
Alignment explanation
Indices: 6154947--6154991 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
6154937 CGCGCTTTGT
*
6154947 GAATTTGACTTCTGTGTTGC
1 GAATTTGACTTCTGCGTTGC
6154967 GAATTTGACTTCTGCGTTGC
1 GAATTTGACTTCTGCGTTGC
6154987 GAATT
1 GAATT
6154992 AAATCGCAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.18, C:0.16, G:0.24, T:0.42
Consensus pattern (20 bp):
GAATTTGACTTCTGCGTTGC
Found at i:6156269 original size:15 final size:15
Alignment explanation
Indices: 6156249--6156283 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
6156239 CAATTCTAAA
*
6156249 GGTGGTGGAGGCCGT
1 GGTGGTGGACGCCGT
*
6156264 GGTGGTGGACGTCGT
1 GGTGGTGGACGCCGT
6156279 GGTGG
1 GGTGG
6156284 GGGTGAGGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.06, C:0.11, G:0.60, T:0.23
Consensus pattern (15 bp):
GGTGGTGGACGCCGT
Found at i:6158680 original size:19 final size:20
Alignment explanation
Indices: 6158652--6158690 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
6158642 TTTGAGAAAA
*
6158652 ATCGG-TTTTTTTTAACCGG
1 ATCGGATTTTTTTAAACCGG
6158671 ATCGGATTTTTTTAAACCGG
1 ATCGGATTTTTTTAAACCGG
6158691 TTATTTTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.44
Consensus pattern (20 bp):
ATCGGATTTTTTTAAACCGG
Found at i:6161057 original size:21 final size:21
Alignment explanation
Indices: 6161033--6161074 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
6161023 AGTTTATTTT
6161033 TAAACTTTATTTCAATTATCG
1 TAAACTTTATTTCAATTATCG
* *
6161054 TAAATTTTGTTTCAATTATCG
1 TAAACTTTATTTCAATTATCG
6161075 AACTTGAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.12, G:0.07, T:0.50
Consensus pattern (21 bp):
TAAACTTTATTTCAATTATCG
Found at i:6161122 original size:33 final size:33
Alignment explanation
Indices: 6161069--6161167 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
6161059 TTTGTTTCAA
*
6161069 TTATCGAACTT-GAAGTTTTTAAGTATTTGAAT
1 TTATCAAACTTGGAAGTTTTTAAGTATTTGAAT
6161101 TTATCAAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCAAACTTGGAAGTTTTTAAGTATTTGAAT
* *
6161134 TTATCAAACTTGGAAGTATTTAAGTATTTCAAT
1 TTATCAAACTTGGAAGTTTTTAAGTATTTGAAT
6161167 T
1 T
6161168 ATGTTGAGTT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 10 0.16
33 53 0.84
ACGTcount: A:0.33, C:0.07, G:0.14, T:0.45
Consensus pattern (33 bp):
TTATCAAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:6162296 original size:14 final size:14
Alignment explanation
Indices: 6162277--6162315 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
6162267 ATAATATTAA
6162277 AATCGGTTTTTTAT
1 AATCGGTTTTTTAT
6162291 AATCGG-TTTTT-T
1 AATCGGTTTTTTAT
*
6162303 AACCGGTTTTTTA
1 AATCGGTTTTTTA
6162316 AAAAAATCGG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
12 6 0.27
13 10 0.45
14 6 0.27
ACGTcount: A:0.21, C:0.10, G:0.15, T:0.54
Consensus pattern (14 bp):
AATCGGTTTTTTAT
Found at i:6174145 original size:2 final size:2
Alignment explanation
Indices: 6174140--6174164 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6174130 ACACACACAC
6174140 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 A
6174165 CAGAGACACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6177513 original size:64 final size:64
Alignment explanation
Indices: 6177433--6177653 Score: 230
Period size: 64 Copynumber: 3.5 Consensus size: 64
6177423 TTAAAGGTGT
** * **
6177433 ATCGATGCATTGGTAGTGCATTGATGCA-CTCTTTTAA-AATAAAAACATCGAATGCAATTCATG
1 ATCGATGCATAAGTAGTGCATCGATGCATC-CCATTAATAAT-AAAACATCGAATGCAATTCATG
6177496 C
64 C
* **
6177497 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATGAAACATCGAATGCAATTGGTGC
1 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCATGC
* ** ** * * ** *
6177561 ATCGATGCATAAGGAGTGCATCGATGCATCCCAGCAATAATACTACATTGAATACCTTTTATGC
1 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCATGC
* *
6177625 ACCGATGCATCAGTAGTGCATCGATGCAT
1 ATCGATGCATAAGTAGTGCATCGATGCAT
6177654 ACCTTCATTA
Statistics
Matches: 132, Mismatches: 23, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
64 128 0.97
65 4 0.03
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (64 bp):
ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCATGC
Found at i:6179152 original size:103 final size:103
Alignment explanation
Indices: 6178973--6179187 Score: 367
Period size: 103 Copynumber: 2.1 Consensus size: 103
6178963 TATCCATAAG
* *
6178973 GACCACATATCATTCCTTAAGAATAATATACATATACTAGGGATCAAGTATGTGTCTCACCAGAC
1 GACCACATATCATTCCTTAAGAATAATATACATATACCAAGGATCAAGTATGTGTCTCACCAGAC
*
6179038 TTCACACATGTTCCAAAGAATACATATATGTCTCGAAA
66 TTCACACATGTTCCAAAGAATACATATATGTCCCGAAA
* * *
6179076 GACCACATATCATTCCTTAAGAATCATATACATATGCCAATGATCAAGTATGTGTCTCACCAGAC
1 GACCACATATCATTCCTTAAGAATAATATACATATACCAAGGATCAAGTATGTGTCTCACCAGAC
*
6179141 TTCACACATGTTCCAAAGAATACATATATGTCCCGAAG
66 TTCACACATGTTCCAAAGAATACATATATGTCCCGAAA
6179179 GACCACATA
1 GACCACATA
6179188 GACCCTCGAC
Statistics
Matches: 105, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 105 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (103 bp):
GACCACATATCATTCCTTAAGAATAATATACATATACCAAGGATCAAGTATGTGTCTCACCAGAC
TTCACACATGTTCCAAAGAATACATATATGTCCCGAAA
Found at i:6184536 original size:23 final size:23
Alignment explanation
Indices: 6184510--6184578 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
6184500 CACCACAGCT
6184510 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
** * *
6184533 CATATAATTAAACCGGAGTGCCG
1 CATATAATTGCACCGAAGTGCCA
* * *
6184556 CGTAGAATTGCACCGTAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
6184579 TATAAAAATG
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.32, C:0.25, G:0.22, T:0.22
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:6184765 original size:103 final size:103
Alignment explanation
Indices: 6184597--6184811 Score: 376
Period size: 103 Copynumber: 2.1 Consensus size: 103
6184587 TGTCCATAAG
* *
6184597 GACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGAC
1 GACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGAC
6184662 TTCAAACATGTTCCAAAGAATACATATATGTCCCGAAA
66 TTCAAACATGTTCCAAAGAATACATATATGTCCCGAAA
*
6184700 GACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGAC
1 GACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGAC
* * *
6184765 TTCACACATGTTTCAAAGAATACATATATGTCCCGAAG
66 TTCAAACATGTTCCAAAGAATACATATATGTCCCGAAA
6184803 GACCACATA
1 GACCACATA
6184812 GACCCTCGAC
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 106 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (103 bp):
GACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGAC
TTCAAACATGTTCCAAAGAATACATATATGTCCCGAAA
Found at i:6185750 original size:64 final size:64
Alignment explanation
Indices: 6185597--6185759 Score: 154
Period size: 64 Copynumber: 2.5 Consensus size: 64
6185587 ATTCCCTATC
* * * * ** *
6185597 GATGAATCGATGCACTACTTGTGCATC-AGTGCACAAAATACATTCGATGTTTGTTTATTATTGG
1 GATGCATCGATGCACTACCTGTGCATCGA-TGCACCAAATACATTCGATGTTTGTTGATTAAAGA
* * * *
6185661 GATGCATCGATGCA-TGCCTTATGCATCGATGCACCAATTGCATTCGATGTTT-TTAGATTAAA-
1 GATGCATCGATGCACTACC-TGTGCATCGATGCACCAAATACATTCGATGTTTGTT-GATTAAAG
6185723 A
64 A
*
6185724 GAGTGCATCGATGCACTACCTGTGCATCGATACACC
1 GA-TGCATCGATGCACTACCTGTGCATCGATGCACC
6185760 TTCAAACAAT
Statistics
Matches: 80, Mismatches: 14, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
63 6 0.08
64 70 0.88
65 4 0.05
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (64 bp):
GATGCATCGATGCACTACCTGTGCATCGATGCACCAAATACATTCGATGTTTGTTGATTAAAGA
Found at i:6186589 original size:24 final size:23
Alignment explanation
Indices: 6186543--6186596 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
6186533 TATGACTTGT
*
6186543 GATATGAGAACATGATATGAAGA
1 GATATGAGAACATGATATCAAGA
6186566 GATATGAGATACATGATCA-CAAGA
1 GATATGAGA-ACATGAT-ATCAAGA
*
6186590 GAAATGA
1 GATATGA
6186597 TATGAGTACA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 9 0.33
24 17 0.63
25 1 0.04
ACGTcount: A:0.48, C:0.07, G:0.24, T:0.20
Consensus pattern (23 bp):
GATATGAGAACATGATATCAAGA
Found at i:6186712 original size:15 final size:15
Alignment explanation
Indices: 6186694--6186726 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
6186684 GAGGGTATAA
*
6186694 TAGTCCTTCGGGATG
1 TAGTCCTTCGAGATG
6186709 TAGTCCTTCGAGATG
1 TAGTCCTTCGAGATG
6186724 TAG
1 TAG
6186727 AGGTCCTACG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.30, T:0.33
Consensus pattern (15 bp):
TAGTCCTTCGAGATG
Found at i:6187504 original size:64 final size:63
Alignment explanation
Indices: 6187436--6187618 Score: 196
Period size: 64 Copynumber: 2.8 Consensus size: 63
6187426 CCGTTGGACT
*
6187436 CCTAGTGCATCGGTGCACTAAGAGTGCATCGATGCATGAAGTGCATTCGATGTTTAA-AAAAT-A
1 CCTAGTGCATCGATGCA-T-AGAGTGCATCGATGCATGAA-TGCATTCGATGTTTAATAAAATCA
6187499 G
63 G
* * *
6187500 CCTAGTGCATCGATGCATGGATTGTGCATCGATGCATCAAATGCATTCGATGTTTTAATTAAATC
1 CCTAGTGCATCGATGCATAGA--GTGCATCGATGCAT-GAATGCATTCGATG-TTTAATAAAATC
6187565 AG
62 AG
*
6187567 ---AGTGCATCGATGCATGGAGAGTGCATCGGTGCATGGAATGCATTCGATGTTT
1 CCTAGTGCATCGATGCAT--AGAGTGCATCGATGCAT-GAATGCATTCGATGTTT
6187619 CAACTTATTC
Statistics
Matches: 103, Mismatches: 8, Indels: 17
0.80 0.06 0.13
Matches are distributed among these distances:
62 2 0.02
63 4 0.04
64 82 0.80
65 7 0.07
66 6 0.06
67 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (63 bp):
CCTAGTGCATCGATGCATAGAGTGCATCGATGCATGAATGCATTCGATGTTTAATAAAATCAG
Found at i:6187589 original size:19 final size:19
Alignment explanation
Indices: 6187565--6187615 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
6187555 TAATTAAATC
6187565 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
6187584 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
6187603 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
6187616 TTTCAACTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:6187653 original size:21 final size:21
Alignment explanation
Indices: 6187629--6187668 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6187619 CAACTTATTC
*
6187629 ATTGATGCATTGATGCATGGT
1 ATTGATGCATCGATGCATGGT
*
6187650 ATTGATGCATCGGTGCATG
1 ATTGATGCATCGATGCATG
6187669 CCTTTGAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.12, G:0.30, T:0.35
Consensus pattern (21 bp):
ATTGATGCATCGATGCATGGT
Found at i:6188729 original size:25 final size:25
Alignment explanation
Indices: 6188700--6188755 Score: 112
Period size: 25 Copynumber: 2.2 Consensus size: 25
6188690 GAAGAACCAA
6188700 AATCCGGTGCGTTCATCTTGAACCC
1 AATCCGGTGCGTTCATCTTGAACCC
6188725 AATCCGGTGCGTTCATCTTGAACCC
1 AATCCGGTGCGTTCATCTTGAACCC
6188750 AATCCG
1 AATCCG
6188756 CTTTCTTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.21, C:0.32, G:0.20, T:0.27
Consensus pattern (25 bp):
AATCCGGTGCGTTCATCTTGAACCC
Found at i:6190273 original size:24 final size:23
Alignment explanation
Indices: 6190202--6190281 Score: 94
Period size: 24 Copynumber: 3.5 Consensus size: 23
6190192 CATGATCTTG
*
6190202 TGCATCGATGCACATTCAAGGCA
1 TGCATCGATGCACATTCAAGGGA
* *
6190225 TGCATCGGTG--CA-TCATGCGGA
1 TGCATCGATGCACATTCAAG-GGA
6190246 TGCATCGATGCACATTCAAAGGGA
1 TGCATCGATGCACATTC-AAGGGA
6190270 TGCATCGATGCA
1 TGCATCGATGCA
6190282 TTGTTAAGTG
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
20 4 0.09
21 13 0.28
23 11 0.23
24 17 0.36
25 2 0.04
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.23
Consensus pattern (23 bp):
TGCATCGATGCACATTCAAGGGA
Found at i:6190294 original size:44 final size:42
Alignment explanation
Indices: 6190180--6190296 Score: 112
Period size: 44 Copynumber: 2.7 Consensus size: 42
6190170 AAACCCGACC
*
6190180 GATGCATCGATGCA-TGATCTTGTGCATCGATGCACATTCAAGG
1 GATGCATCGATGCATTG-T-TAGTGCATCGATGCACATTCAAGG
* * **
6190223 CATGCATCGGTGCATCATG-CGGATGCATCGATGCACATTCAAAGG
1 GATGCATCGATGCAT--TGTTAG-TGCATCGATGCACATTC-AAGG
6190268 GATGCATCGATGCATTGTTAAGTGCATCG
1 GATGCATCGATGCATTGTT-AGTGCATCG
6190297 GTGTATTAAG
Statistics
Matches: 59, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
43 15 0.25
44 24 0.41
45 18 0.31
46 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (42 bp):
GATGCATCGATGCATTGTTAGTGCATCGATGCACATTCAAGG
Found at i:6196137 original size:18 final size:17
Alignment explanation
Indices: 6196083--6196131 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
6196073 TTGGACTCCT
* *
6196083 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TGA
6196101 GAGTGCATCGATGCATGA
1 -AGTGCATCGATGCATGA
6196119 AGTGCATTCGATG
1 AGTGCA-TCGATG
6196132 TTTGAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATGA
Found at i:6196189 original size:64 final size:63
Alignment explanation
Indices: 6196100--6196262 Score: 195
Period size: 64 Copynumber: 2.6 Consensus size: 63
6196090 CGGTGCACTA
* *
6196100 AGAGTGCATCGATGCATGAAGTGCATTCGATGTTTGAA-AAAT-AGCCTGGTGCATCAATGCATG
1 AGAGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAAATCAG---AGTGCATCAATGCATG
6196163 G
63 G
** * * *
6196164 ATTGTGCATCGATGCATCAAATGCATTCGATGTTTTAATTAAATCAGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGAAATGCATTCGATGTTTGAA-TAAATCAGAGTGCATCAATGCATGG
* *
6196228 AGAGTGCATCGGTGCATGGAATGCATTCGATGTTT
1 AGAGTGCATCGATGCATGAAATGCATTCGATGTTT
6196263 CAACTTATTC
Statistics
Matches: 84, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
64 78 0.93
66 4 0.05
67 2 0.02
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (63 bp):
AGAGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAAATCAGAGTGCATCAATGCATGG
Found at i:6196233 original size:19 final size:19
Alignment explanation
Indices: 6196209--6196259 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
6196199 TAATTAAATC
6196209 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
6196228 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
6196247 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
6196260 TTTCAACTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:6196302 original size:13 final size:13
Alignment explanation
Indices: 6196284--6196312 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
6196274 TTGATGCATC
6196284 GATGCATGGTATT
1 GATGCATGGTATT
6196297 GATGCATGGTATT
1 GATGCATGGTATT
6196310 GAT
1 GAT
6196313 ACATCGGTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.24, C:0.07, G:0.31, T:0.38
Consensus pattern (13 bp):
GATGCATGGTATT
Found at i:6204227 original size:19 final size:19
Alignment explanation
Indices: 6204203--6204241 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
6204193 TGACCGTTGG
*
6204203 ACTCTTAGTGCATCGGTGC
1 ACTCTTAGTGCATCGATGC
6204222 ACTCTTAGTGCATCGATGC
1 ACTCTTAGTGCATCGATGC
6204241 A
1 A
6204242 TGAAGTGCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.31
Consensus pattern (19 bp):
ACTCTTAGTGCATCGATGC
Found at i:6204342 original size:64 final size:64
Alignment explanation
Indices: 6204228--6204370 Score: 189
Period size: 64 Copynumber: 2.2 Consensus size: 64
6204218 GTGCACTCTT
* * * *
6204228 AGTGCATCGATGCATGAAGTGCATTCGATGTTTGAAAAATAACCTGGTGCATCGATGCATGGAT
1 AGTGCATCGATGCATCAAATGCATTCGATGTTTGAAAAATAACCAGGTGCATCGATGCATGGAG
* * ** *
6204292 TGTGCATCGATGCATCAAATGCATTCGATGTTTTAATTA-AATCAGAGTGCATCGATGCATGGAG
1 AGTGCATCGATGCATCAAATGCATTCGATGTTTGAAAAATAACCAG-GTGCATCGATGCATGGAG
6204356 AGTGCATCGATGCAT
1 AGTGCATCGATGCAT
6204371 GGAGAGTGCA
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
63 4 0.06
64 64 0.94
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.29
Consensus pattern (64 bp):
AGTGCATCGATGCATCAAATGCATTCGATGTTTGAAAAATAACCAGGTGCATCGATGCATGGAG
Found at i:6204359 original size:19 final size:19
Alignment explanation
Indices: 6204335--6204404 Score: 108
Period size: 19 Copynumber: 3.7 Consensus size: 19
6204325 TAATTAAATC
6204335 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
6204354 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
6204373 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
6204392 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
6204405 TTTCAACTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
17 4 0.08
18 6 0.12
19 38 0.79
ACGTcount: A:0.26, C:0.16, G:0.36, T:0.23
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:6204442 original size:21 final size:21
Alignment explanation
Indices: 6204418--6204457 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6204408 CAACTTATTC
*
6204418 ATTGATGCATTGATGCATGGT
1 ATTGATGCATCGATGCATGGT
*
6204439 ATTGATGCATCGGTGCATG
1 ATTGATGCATCGATGCATG
6204458 CCTTTGAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.12, G:0.30, T:0.35
Consensus pattern (21 bp):
ATTGATGCATCGATGCATGGT
Found at i:6210919 original size:40 final size:43
Alignment explanation
Indices: 6210864--6210959 Score: 144
Period size: 40 Copynumber: 2.3 Consensus size: 43
6210854 AATATACTTG
*
6210864 ACCTAAAATGTTATATGTTAAGTAACA-TTTTTTATT-T-GCA
1 ACCTAAAATGTTATATGTTAAGTAACATTTTTTTATTATACCA
**
6210904 ACCTAAAATGTTATATGTTTGGTAACATTTTTTTATTATACCA
1 ACCTAAAATGTTATATGTTAAGTAACATTTTTTTATTATACCA
6210947 ACCTAAAATGTTA
1 ACCTAAAATGTTA
6210960 CCAGTATATA
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
40 25 0.50
41 9 0.18
42 1 0.02
43 15 0.30
ACGTcount: A:0.35, C:0.11, G:0.09, T:0.44
Consensus pattern (43 bp):
ACCTAAAATGTTATATGTTAAGTAACATTTTTTTATTATACCA
Found at i:6212019 original size:14 final size:15
Alignment explanation
Indices: 6211963--6212043 Score: 103
Period size: 15 Copynumber: 5.5 Consensus size: 15
6211953 TTTCGGAAAA
*
6211963 TGAATTACTGTAATT
1 TGAATTACTGGAATT
**
6211978 TGAATTACTGGAAAA
1 TGAATTACTGGAATT
6211993 TGAATTACTGGAATT
1 TGAATTACTGGAATT
6212008 TGAATT-CTGGAATT
1 TGAATTACTGGAATT
**
6212022 TGAATT-CTGGAAAA
1 TGAATTACTGGAATT
6212036 TGAATTAC
1 TGAATTAC
6212044 ATTTCTGGAA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
14 26 0.45
15 32 0.55
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.37
Consensus pattern (15 bp):
TGAATTACTGGAATT
Found at i:6212040 original size:20 final size:20
Alignment explanation
Indices: 6212026--6212075 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
6212016 GGAATTTGAA
6212026 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
6212046 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
6212066 TTCTGGAAAA
1 TTCTGGAAAA
6212076 CATCTGGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:6212476 original size:22 final size:24
Alignment explanation
Indices: 6212399--6212468 Score: 81
Period size: 24 Copynumber: 2.8 Consensus size: 24
6212389 CTTTACTAAA
6212399 ATATTATTTAATATATAAATAATATTAT
1 ATATTA-TTAA-ATATAAA-AA-ATTAT
6212427 -TCATTATTAAATATAAAAAATTAT
1 AT-ATTATTAAATATAAAAAATTAT
6212451 ATATTATTAAATA-AAAAA
1 ATATTATTAAATATAAAAA
6212469 TATAATATCT
Statistics
Matches: 40, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
23 5 0.12
24 16 0.40
25 3 0.08
26 7 0.17
27 5 0.12
28 4 0.10
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (24 bp):
ATATTATTAAATATAAAAAATTAT
Found at i:6212476 original size:24 final size:24
Alignment explanation
Indices: 6212399--6212481 Score: 78
Period size: 24 Copynumber: 3.3 Consensus size: 24
6212389 CTTTACTAAA
* *
6212399 ATATTATTTAATATATAAATAATATT
1 ATATTA-TTAA-ATATAAAAAATAAT
*
6212425 ATTCATTATTAAATATAAAAAATTAT
1 A-T-ATTATTAAATATAAAAAATAAT
6212451 ATATTATTAAATA-AAAAATATAAT
1 ATATTATTAAATATAAAAA-ATAAT
*
6212475 ATCTTAT
1 ATATTAT
6212482 ATTATAATAT
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
23 5 0.10
24 21 0.43
25 1 0.02
26 13 0.27
27 5 0.10
28 4 0.08
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (24 bp):
ATATTATTAAATATAAAAAATAAT
Found at i:6212528 original size:23 final size:22
Alignment explanation
Indices: 6212449--6212554 Score: 67
Period size: 21 Copynumber: 4.7 Consensus size: 22
6212439 ATAAAAAATT
*
6212449 ATATATTATTAAATAAAAAATATA
1 ATATATTATTAAAT-AATAATA-A
* *
6212473 ATATCTTA-TATTATAAT-ATAA
1 ATATATTATTA-AATAATAATAA
* *
6212494 TTGATTATTTATTAAACTAATAATAT
1 AT-A-TA-TTATTAAA-TAATAATAA
*
6212520 ATATATTA-TAAATATTAATAA
1 ATATATTATTAAATAATAATAA
6212541 ATATATT-TTAAATA
1 ATATATTATTAAATA
6212555 TTTTAATAAT
Statistics
Matches: 64, Mismatches: 10, Indels: 19
0.69 0.11 0.20
Matches are distributed among these distances:
21 22 0.34
22 8 0.12
23 8 0.12
24 15 0.23
25 7 0.11
26 4 0.06
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (22 bp):
ATATATTATTAAATAATAATAA
Found at i:6212563 original size:23 final size:21
Alignment explanation
Indices: 6212505--6212556 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
6212495 TGATTATTTA
* *
6212505 TTAAACTAATAATATATATATT
1 TTAAA-TATTAATAAATATATT
*
6212527 ATAAATATTAATAAATATATT
1 TTAAATATTAATAAATATATT
6212548 TTAAATATT
1 TTAAATATT
6212557 TTAATAATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
TTAAATATTAATAAATATATT
Found at i:6212797 original size:42 final size:42
Alignment explanation
Indices: 6212745--6212942 Score: 274
Period size: 42 Copynumber: 4.7 Consensus size: 42
6212735 ATGAATTTCG
6212745 TTCCGGAAAACGAATTACGTGAAACAAACACCGGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACCGGAAAACATT
* * * *
6212787 TTCCGAAAAACGAATTACGTTAAACAAGCA-CGGGAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACCGGAAAACATT
* * *
6212828 TTCCGGAAAACGAATTACGTGAAATAAACACGGGAAAATATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACCGGAAAACATT
*
6212870 TTCCGGAAAACGAATTACGTGAAACAAGCA-CGGAAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACCGG-AAAACATT
* * *
6212912 TTCCGAAAAACGAATTACATGAAATAAACAC
1 TTCCGGAAAACGAATTACGTGAAACAAACAC
6212943 GAAATTTCGG
Statistics
Matches: 134, Mismatches: 19, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
41 38 0.28
42 96 0.72
ACGTcount: A:0.46, C:0.19, G:0.17, T:0.19
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACCGGAAAACATT
Found at i:6212843 original size:83 final size:84
Alignment explanation
Indices: 6212745--6212942 Score: 317
Period size: 83 Copynumber: 2.4 Consensus size: 84
6212735 ATGAATTTCG
* *
6212745 TTCCGGAAAACGAATTACGTGAAACAAACACCGGAAAACATTTTCCGAAAAACGAATTACGTTAA
1 TTCCGGAAAACGAATTACGTGAAATAAACACCGGAAAACATTTTCCGAAAAACGAATTACGTGAA
*
6212810 ACAAGCACGG-GAAACATT
66 ACAAGCACGGAAAAACATT
* * *
6212828 TTCCGGAAAACGAATTACGTGAAATAAACACGGGAAAATATTTTCCGGAAAACGAATTACGTGAA
1 TTCCGGAAAACGAATTACGTGAAATAAACACCGGAAAACATTTTCCGAAAAACGAATTACGTGAA
6212893 ACAAGCACGGAAAAACATT
66 ACAAGCACGGAAAAACATT
* *
6212912 TTCCGAAAAACGAATTACATGAAATAAACAC
1 TTCCGGAAAACGAATTACGTGAAATAAACAC
6212943 GAAATTTCGG
Statistics
Matches: 106, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
83 70 0.66
84 36 0.34
ACGTcount: A:0.46, C:0.19, G:0.17, T:0.19
Consensus pattern (84 bp):
TTCCGGAAAACGAATTACGTGAAATAAACACCGGAAAACATTTTCCGAAAAACGAATTACGTGAA
ACAAGCACGGAAAAACATT
Found at i:6223199 original size:2 final size:2
Alignment explanation
Indices: 6223187--6223226 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
6223177 TAAACTATCA
6223187 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6223227 ACATGAGTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:6227782 original size:25 final size:25
Alignment explanation
Indices: 6227745--6227800 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
6227735 ACTTTCATCT
6227745 AGCATTAGAAGATGAAGTATTGTCA
1 AGCATTAGAAGATGAAGTATTGTCA
*
6227770 AGCATTAGCAGATGAAGTATTGTCA
1 AGCATTAGAAGATGAAGTATTGTCA
6227795 AGCATT
1 AGCATT
6227801 GAGGAGACGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.29
Consensus pattern (25 bp):
AGCATTAGAAGATGAAGTATTGTCA
Found at i:6228963 original size:21 final size:21
Alignment explanation
Indices: 6228937--6228977 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
6228927 TTTGTATGAC
6228937 CATTGTATAACAAGTAAGCAA
1 CATTGTATAACAAGTAAGCAA
6228958 CATTGTATAACAAGTAAGCA
1 CATTGTATAACAAGTAAGCA
6228978 GCACTGGTTG
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:0.46, C:0.15, G:0.15, T:0.24
Consensus pattern (21 bp):
CATTGTATAACAAGTAAGCAA
Found at i:6231593 original size:36 final size:36
Alignment explanation
Indices: 6231546--6231627 Score: 112
Period size: 36 Copynumber: 2.3 Consensus size: 36
6231536 AAGTAAAACA
* *
6231546 ATGACAACATTAATGGGA-CGACTGATTTGGTCCAAG
1 ATGACAGCATTAAT-GGATCGACTGATTTAGTCCAAG
*
6231582 ATGACAGCATTAATGGATCGGCTGATTTAGTCCAAG
1 ATGACAGCATTAATGGATCGACTGATTTAGTCCAAG
*
6231618 TTGACAGCAT
1 ATGACAGCAT
6231628 ATTTTTGTTG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
35 3 0.07
36 38 0.93
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (36 bp):
ATGACAGCATTAATGGATCGACTGATTTAGTCCAAG
Found at i:6233709 original size:16 final size:16
Alignment explanation
Indices: 6233688--6233721 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
6233678 TATATGGTAT
*
6233688 TATTATTTAAATTATA
1 TATTATATAAATTATA
6233704 TATTATATAAATTATA
1 TATTATATAAATTATA
6233720 TA
1 TA
6233722 AAATGTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TATTATATAAATTATA
Found at i:6233771 original size:17 final size:17
Alignment explanation
Indices: 6233727--6233772 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
6233717 ATATAAAATG
* *
6233727 TATTTTTTAAA-AAATT
1 TATTTTCTAAACAGATT
6233743 TATTTTCTAAACAGATT
1 TATTTTCTAAACAGATT
6233760 TAATTTTC-AAACA
1 T-ATTTTCTAAACA
6233773 AAATATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 10 0.38
17 10 0.38
18 6 0.23
ACGTcount: A:0.41, C:0.09, G:0.02, T:0.48
Consensus pattern (17 bp):
TATTTTCTAAACAGATT
Found at i:6233811 original size:26 final size:26
Alignment explanation
Indices: 6233782--6233831 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
6233772 AAAATATTTT
6233782 TTTTAATTTTTTAATTTTATCATATG
1 TTTTAATTTTTTAATTTTATCATATG
*
6233808 TTTTTATTTTTTAATTTTATCATA
1 TTTTAATTTTTTAATTTTATCATA
6233832 AAAGTTATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (26 bp):
TTTTAATTTTTTAATTTTATCATATG
Found at i:6238276 original size:32 final size:31
Alignment explanation
Indices: 6238199--6238285 Score: 102
Period size: 32 Copynumber: 2.8 Consensus size: 31
6238189 TTGATTTCTC
* * *
6238199 TAAACTTATCATTAAATTTATCGAATTGTTC
1 TAAAATTATCATTAAATTTATCAAATTGTTA
* *
6238230 TAAAATGACCATTAAATTTTATCAAATTGTTA
1 TAAAATTATCATTAAA-TTTATCAAATTGTTA
* *
6238262 TACAATTATGATTAAATTTATCAA
1 TAAAATTATCATTAAATTTATCAA
6238286 TTTTTACTCT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
31 21 0.46
32 25 0.54
ACGTcount: A:0.41, C:0.10, G:0.06, T:0.43
Consensus pattern (31 bp):
TAAAATTATCATTAAATTTATCAAATTGTTA
Found at i:6240800 original size:12 final size:12
Alignment explanation
Indices: 6240779--6240809 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
6240769 TATAATTATT
6240779 TTAAATATTATAA
1 TTAAA-ATTATAA
6240792 TTAAAATTATAA
1 TTAAAATTATAA
6240804 TTAAAA
1 TTAAAA
6240810 ACTTCAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.72
13 5 0.28
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
TTAAAATTATAA
Done.