Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008193.1 Hibiscus syriacus cultivar Beakdansim tig00110812_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: 1025831
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 4 of 5
Found at i:586903 original size:29 final size:29
Alignment explanation
Indices: 586866--586923 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
586856 GCAATCTCTT
* *
586866 GTAGTTCGCCGGGAAGACATGGCGACCTA
1 GTAGGTCGCCCGGAAGACATGGCGACCTA
*
586895 GTAGGTCGCCCGGAAGGCATGGCGACCTA
1 GTAGGTCGCCCGGAAGACATGGCGACCTA
586924 CGATCAACAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.22, C:0.26, G:0.36, T:0.16
Consensus pattern (29 bp):
GTAGGTCGCCCGGAAGACATGGCGACCTA
Found at i:591700 original size:17 final size:17
Alignment explanation
Indices: 591680--591727 Score: 80
Period size: 17 Copynumber: 2.9 Consensus size: 17
591670 TGAGTCCACT
591680 ATATTACTCAGTCTTTG
1 ATATTACTCAGTCTTTG
591697 ATATTACTCAGTCTTTG
1 ATATTACTCAGTCTTTG
*
591714 ATATTGCTC-GTCTT
1 ATATTACTCAGTCTT
591728 CTCCGTCCAC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
16 5 0.17
17 25 0.83
ACGTcount: A:0.21, C:0.19, G:0.12, T:0.48
Consensus pattern (17 bp):
ATATTACTCAGTCTTTG
Found at i:600546 original size:22 final size:22
Alignment explanation
Indices: 600523--600584 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 22
600513 CAAAAAGGGC
600523 AAAAAGAAAAAAGAAAAGAAGCA
1 AAAAAGAAAAAA-AAAAGAAGCA
* *
600546 AAAAAGGAAAAAACAAGAA-CA
1 AAAAAGAAAAAAAAAAGAAGCA
600567 AAAAAGAAAGAACAAAAA
1 AAAAAGAAA-AA-AAAAA
600585 TAAAAAAGGG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 10 0.30
22 8 0.24
23 15 0.45
ACGTcount: A:0.79, C:0.06, G:0.15, T:0.00
Consensus pattern (22 bp):
AAAAAGAAAAAAAAAAGAAGCA
Found at i:600575 original size:20 final size:20
Alignment explanation
Indices: 600523--600592 Score: 68
Period size: 20 Copynumber: 3.3 Consensus size: 20
600513 CAAAAAGGGC
*
600523 AAAAAGAAAAAAGAAAAGAAGCA
1 AAAAAG-AAAAA-ACAAGAA-CA
600546 AAAAAGGAAAAAACAAGAACA
1 AAAAA-GAAAAAACAAGAACA
* * *
600567 AAAAAGAAAGAACAAAAATA
1 AAAAAGAAAAAACAAGAACA
600587 AAAAAG
1 AAAAAG
600593 GGAACAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
20 18 0.43
21 7 0.17
22 6 0.14
23 10 0.24
24 1 0.02
ACGTcount: A:0.79, C:0.06, G:0.14, T:0.01
Consensus pattern (20 bp):
AAAAAGAAAAAACAAGAACA
Found at i:602114 original size:36 final size:36
Alignment explanation
Indices: 602067--602171 Score: 165
Period size: 36 Copynumber: 2.9 Consensus size: 36
602057 GTGCTCATCA
602067 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAACT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAACT
*
602103 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAACT
* * *
602140 TTTTCTCCCTTGAGACAGTTTCTCTTGAAACA
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACA
602172 TAAACATTGA
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
36 32 0.50
37 32 0.50
ACGTcount: A:0.25, C:0.24, G:0.13, T:0.38
Consensus pattern (36 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAACT
Found at i:602161 original size:37 final size:37
Alignment explanation
Indices: 602067--602176 Score: 168
Period size: 37 Copynumber: 3.0 Consensus size: 37
602057 GTGCTCATCA
602067 TTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAACT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
*
602103 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
* * *
602140 TTTTCTCCCTTGAGACAGTTTCTCTTGAAACATAAAC
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACA-AAAC
602177 ATTGAAAACA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
36 31 0.46
37 33 0.49
38 3 0.04
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (37 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
Found at i:602358 original size:35 final size:35
Alignment explanation
Indices: 602276--602371 Score: 113
Period size: 35 Copynumber: 2.7 Consensus size: 35
602266 AACCATTTCC
* * * *
602276 CTTGAGACAGTTTCTTTTGGAACTAAGTTTTTGCTCT
1 CTTGAGACAGTTTCTCTTGAAAC--AGTTTTCGCTAT
602313 CTTGAGACAGTTTCTCTTGAAACA-TTTTCGTCTAT
1 CTTGAGACAGTTTCTCTTGAAACAGTTTTCG-CTAT
*
602348 CTTGAGACAGTTTCCCTTGAAACA
1 CTTGAGACAGTTTCTCTTGAAACA
602372 AAATCTTTGA
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
34 5 0.09
35 27 0.51
37 21 0.40
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.41
Consensus pattern (35 bp):
CTTGAGACAGTTTCTCTTGAAACAGTTTTCGCTAT
Found at i:602456 original size:67 final size:65
Alignment explanation
Indices: 602348--602487 Score: 176
Period size: 68 Copynumber: 2.1 Consensus size: 65
602338 TTTCGTCTAT
* ** *
602348 CTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATTTATTTCTC-TAAAACA-AATTTTGTCTC
1 CTTGAGACAGTTACCCTTGAAACAAAATCTTCAAATTTATTTCCCTTAAAACATAA-TTTGTCTC
602411 C
65 C
* *
602412 CTTGAGACAGTTACTCTTGGAAACACAAAATCTTCAAATTTATTTCCCTTAAAACATAATTTGTT
1 CTTGAGACAGTTACCCTT-G-AA-ACAAAATCTTCAAATTTATTTCCCTTAAAACATAATTTGTC
602477 TCC
63 TCC
602480 CTTGAGAC
1 CTTGAGAC
602488 CGTTCTCATG
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
64 16 0.25
65 1 0.02
66 2 0.03
67 21 0.32
68 23 0.35
69 2 0.03
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.37
Consensus pattern (65 bp):
CTTGAGACAGTTACCCTTGAAACAAAATCTTCAAATTTATTTCCCTTAAAACATAATTTGTCTCC
Found at i:602513 original size:68 final size:67
Alignment explanation
Indices: 602369--602502 Score: 175
Period size: 68 Copynumber: 2.0 Consensus size: 67
602359 TTCCCTTGAA
** * *
602369 ACAAAATCTTTGAATTTATTTCTCTAAAACAAATTTTGTCTCCCTTGAGACAGTTACTCTTGGAA
1 ACAAAATCTTCAAATTTATTTCCCTAAAACAAATTTTGTCTCCCTTGAGACAGTTACTCATGGAA
602434 AC
66 AC
* *
602436 ACAAAATCTTCAAATTTATTTCCCTTAAAACATAA-TTTGTTTCCCTTGAGACCGTT-CTCAT-G
1 ACAAAATCTTCAAATTTATTTCCC-TAAAACA-AATTTTGTCTCCCTTGAGACAGTTACTCATGG
602498 AAAC
64 AAAC
602502 A
1 A
602503 ACAGATATCT
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
66 6 0.10
67 25 0.42
68 26 0.44
69 2 0.03
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.37
Consensus pattern (67 bp):
ACAAAATCTTCAAATTTATTTCCCTAAAACAAATTTTGTCTCCCTTGAGACAGTTACTCATGGAA
AC
Found at i:603386 original size:105 final size:104
Alignment explanation
Indices: 603104--604220 Score: 1520
Period size: 105 Copynumber: 10.9 Consensus size: 104
603094 GCCATCCACG
* * * * *
603104 ATTTCAACTCCACGACGGAGGATATCGTGGCACTCGAGACAACACAAGTTCAAACTTCA--ACGA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTCCAGACAACGCAAGTTC-AACTTCACGACGA
* * *
603167 AGGGACGGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCA
62 AGGGACCGCTGCTTGTCAAC-AACAATTTC-CAATTTCAGAGCCA
* *
603212 ATTTCAACTTCACAACGAAGGATA-TGGACT-CAGACAATGCAAGTTTAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
603275 ACCGCTGGTTGTCAATAAACAATTTCCAATTTCAGAGCCA
66 ACCGCTGCTTGTCAA-CAACAATTTCCAATTTCAGAGCCA
* *
603315 ATTTCAACTTCACAGCGAAGGATATTGGATTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
603380 ACCGCTGGTTGTCAACAACAACTTCCCAATCTT-AGAGCCA
66 ACCGCTGCTTGTCAACAACAA-TTTCCAAT-TTCAGAGCCA
*
603420 ATTTCAACTTCACAACGAAGGATATTGGACT-CAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
603484 ACCGCTGCTTGTCAACAACAACTTCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAATTTCCAATTTCAGAGCCA
603523 A-TTCAACTTCACAACGAAGGATATTGGACTCCCAGACAACGCAAGTTCAACTTCACG-CGAAGG
1 ATTTCAACTTCACAACGAAGGATATTGGACT-CCAGACAACGCAAGTTCAACTTCACGACGAAGG
*
603586 GAGCGCTGCTTGTCAACAA-AATTT-C-A-TTCAGAGCCA
65 GACCGCTGCTTGTCAACAACAATTTCCAATTTCAGAGCCA
** *
603622 ATTTCAACTTCACAGTGAAGGATATTGGACT-CAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
603686 ACCGCTGCTTGTCAAACAACAACTTTCCAATCTCAGAGCCA
66 ACCGCTGCTTGTC-AACAACAA-TTTCCAATTTCAGAGCCA
603727 ATTTCAAC-TCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
603791 ACCGCTGCTTGTCAACAA-AA-TT-C-A-TTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAATTTCCAATTTCAGAGCCA
*
603825 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGGTTCAACTTCACGACGAAGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAA-GTTCAACTTCACGACGAAGG
*
603890 GACCGCTGCTTGTCAGCAA-AATTT-C-A-TTCAGAGCCA
65 GACCGCTGCTTGTCAACAACAATTTCCAATTTCAGAGCCA
* *
603926 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * **
603991 ACCGCTGTTTTGTCAACAACAACTTCCCAATCCCAGAGCCA
66 ACCGCTG-CTTGTCAACAACAA-TTTCCAATTTCAGAGCCA
*
604032 ATTTCAACTTCACAACGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTC-CGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
**
604096 ACCGCTGCTTGTCAACAA-AATTT-C-A-TTC-GATTCA
66 ACCGCTGCTTGTCAACAACAATTTCCAATTTCAGAGCCA
* * *
604130 ATTTCAACTTCACAACGAAGGATA-TGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
604194 ACGGCTGGTTGTCAACAAACAATTTCC
66 ACCGCTGCTTGTCAAC-AACAATTTCC
604221 CGGTGACAAT
Statistics
Matches: 918, Mismatches: 59, Indels: 71
0.88 0.06 0.07
Matches are distributed among these distances:
97 27 0.03
98 91 0.10
99 67 0.07
100 108 0.12
101 73 0.08
102 48 0.05
103 94 0.10
104 156 0.17
105 172 0.19
106 61 0.07
108 21 0.02
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.22
Consensus pattern (104 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGCTTGTCAACAACAATTTCCAATTTCAGAGCCA
Found at i:603749 original size:411 final size:408
Alignment explanation
Indices: 603104--604259 Score: 1570
Period size: 411 Copynumber: 2.8 Consensus size: 408
603094 GCCATCCACG
* * * * * *
603104 ATTTCAACTCCACGACGGAGGATATCGTGGCACTCGAGACAACACAAGTTCAAACTTCA-ACGAA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTCCAGACAACGCAAGTTC-AACTTCACGCGAA
*
603168 GGGACGGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
62 GGGAC-GCTGCTTGTCAAC-AACAACTTCTCAA-TTCAGAGCCAATTTCAACTTCACAACGAAGG
* *
603233 ATA-TGGACTCAGACAATGCAAGTTTAACTTCACGACGAAGGGACCGCTGGTTGTCAATA-AACA
124 ATATTGGACTCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAA-ACAACA
* *
603296 ATTTCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGATTCCAGACAACGCAAGT
188 ATTTCCAA-TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGT
*
603361 TCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATCTTAGAGCCAATTTCA
252 TCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAA-TTCCC-AT-TCAGAGCCAATTTCA
*
603426 ACTTCACAACGAAGGATATTGGACT-CAGACAATGCAA-GTTCAACTTCACGACGAAGGGACCGC
314 ACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGGTTCAACTTCACGACGAAGGGACCGC
603489 TGCTTGTCAACAACAACTTCCAATCTCAGAGCCA
379 TGCTTGTCAACAA-AA-TTCC-AT-TCAGAGCCA
603523 A-TTCAACTTCACAACGAAGGATATTGGACTCCCAGACAACGCAAGTTCAACTTCACGCGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACT-CCAGACAACGCAAGTTCAACTTCACGCGAAGGG
**
603587 AGCGCTGCTTGTCAACAA-AA-TT-TC-ATTCAGAGCCAATTTCAACTTCACAGTGAAGGATATT
65 A-CGCTGCTTGTCAACAACAACTTCTCAATTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
603648 GGACTCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAACAACAACTTTC
129 GGACTCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAACAACAA-TTTC
603713 CAATCTCAGAGCCAATTTCAAC-TCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
193 CAAT-TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
*
603777 TTCACGACGAAGGGACCGCTGCTTGTCAACAA-AATT--CATTCAGAGCCAATTTCAACTTCACA
257 TTCACGACGAAGGGACCGCTGGTTGTCAACAACAATTCCCATTCAGAGCCAATTTCAACTTCACA
*
603839 GCGAAGGATATTGGACTCCAGACAACGCAAGGTTCAACTTCACGACGAAGGGACCGCTGCTTGTC
322 ACGAAGGATATTGGACTCCAGACAACGCAAGGTTCAACTTCACGACGAAGGGACCGCTGCTTGTC
* *
603904 AGCAAAATTTCATTCAGAGCCA
387 AACAAAATTCCATTCAGAGCCA
* *
603926 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG-CGAAGGG
* * * *
603991 ACCGCTGTTTTGTCAACAACAACTTCCCAATCCCAGAGCCAATTTCAACTTCACAACGAAAGATA
65 A-CGCTG-CTTGTCAACAACAACTTCTCAAT-TCAGAGCCAATTTCAACTTCACAACGAAGGATA
*
604056 TTGGACTCCAGACAACGCAAGTTCAACTTC-CGACGAAGGGACCGCTGCTTGTC-AACAA-AATT
127 TTGGACT-CAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAACAACAATT
** * *
604118 T-C-ATTC-GATTCAATTTCAACTTCACAACGAAGGATA-TGGACTCGAGACAACACAAGTTCAA
191 TCCAATTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAA
* * **
604179 CTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCGGT--GA--CAATTTCAACTTC
256 CTTCACGACGAAGGGACCGCTGGTTGTCAAC-AACAA-TTCCCATTCAGAGCCAATTTCAACTTC
* *
604240 ACGACGGAGGATATTGGACT
319 ACAACGAAGGATATTGGACT
604260 TGGAACAATG
Statistics
Matches: 672, Mismatches: 41, Indels: 63
0.87 0.05 0.08
Matches are distributed among these distances:
403 98 0.15
404 92 0.14
405 55 0.08
406 22 0.03
407 44 0.07
408 5 0.01
409 9 0.01
410 94 0.14
411 151 0.22
412 26 0.04
413 2 0.00
414 2 0.00
415 12 0.02
416 38 0.06
417 1 0.00
418 20 0.03
419 1 0.00
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (408 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGCGAAGGGA
CGCTGCTTGTCAACAACAACTTCTCAATTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
ACTCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAACAACAATTTCCAA
TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
CGACGAAGGGACCGCTGGTTGTCAACAACAATTCCCATTCAGAGCCAATTTCAACTTCACAACGA
AGGATATTGGACTCCAGACAACGCAAGGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACA
AAATTCCATTCAGAGCCA
Found at i:605274 original size:17 final size:17
Alignment explanation
Indices: 605252--605286 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
605242 ATGGTTGATT
605252 TATATACATATTATTAA
1 TATATACATATTATTAA
* *
605269 TATATATATATTCTTAA
1 TATATACATATTATTAA
605286 T
1 T
605287 TATTTTTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (17 bp):
TATATACATATTATTAA
Found at i:605338 original size:2 final size:2
Alignment explanation
Indices: 605331--605360 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
605321 TTTATAACTT
605331 TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
605361 TATTTTCGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:606150 original size:2 final size:2
Alignment explanation
Indices: 606143--606197 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
606133 TAGTAAAAGG
606143 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
606185 GA GA GA GA GA GA G
1 GA GA GA GA GA GA G
606198 TTACAAAATA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:607423 original size:34 final size:34
Alignment explanation
Indices: 607380--607448 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
607370 ATATGAAAGA
607380 AATTAACAATAACTGCTCATAGTTATCCAGTCAT
1 AATTAACAATAACTGCTCATAGTTATCCAGTCAT
607414 AATTAACAATAACTGCTCATAGTTATCCAGTCAT
1 AATTAACAATAACTGCTCATAGTTATCCAGTCAT
607448 A
1 A
607449 CCGTGGGGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (34 bp):
AATTAACAATAACTGCTCATAGTTATCCAGTCAT
Found at i:607899 original size:16 final size:16
Alignment explanation
Indices: 607878--607910 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
607868 CTACGTCTAC
607878 ACCATCAGTTAGTTTT
1 ACCATCAGTTAGTTTT
*
607894 ACCATCATTTAGTTTT
1 ACCATCAGTTAGTTTT
607910 A
1 A
607911 GTTTCACACC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.18, G:0.09, T:0.45
Consensus pattern (16 bp):
ACCATCAGTTAGTTTT
Found at i:610446 original size:2 final size:2
Alignment explanation
Indices: 610439--610478 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
610429 ATCGAATCTA
610439 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
610479 CTATGAATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:613303 original size:13 final size:13
Alignment explanation
Indices: 613285--613309 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
613275 ATAATACCAG
613285 TATGAAAGGGTCT
1 TATGAAAGGGTCT
613298 TATGAAAGGGTC
1 TATGAAAGGGTC
613310 CTGCATGTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.28
Consensus pattern (13 bp):
TATGAAAGGGTCT
Found at i:614690 original size:24 final size:24
Alignment explanation
Indices: 614655--614707 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
614645 AAACTGACGT
*
614655 GTAGAATTTGCACCGAAATGCCAC
1 GTAGAATATGCACCGAAATGCCAC
* *
614679 GTAGAATATGCACTGAAGTGCCAC
1 GTAGAATATGCACCGAAATGCCAC
*
614703 ATAGA
1 GTAGA
614708 TTTGTCCCGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.21
Consensus pattern (24 bp):
GTAGAATATGCACCGAAATGCCAC
Found at i:614777 original size:23 final size:23
Alignment explanation
Indices: 614699--614769 Score: 97
Period size: 23 Copynumber: 3.1 Consensus size: 23
614689 CACTGAAGTG
*
614699 CCACATAGATTTGTCCCGAAGGA
1 CCACATAGAATTGTCCCGAAGGA
* *
614722 CCTCATAGAATTGTCCCGAAGCA
1 CCACATAGAATTGTCCCGAAGGA
**
614745 CCACATAGAATTGTCTTGAAGGA
1 CCACATAGAATTGTCCCGAAGGA
614768 CC
1 CC
614770 GCGTAGAACC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.23
Consensus pattern (23 bp):
CCACATAGAATTGTCCCGAAGGA
Found at i:614943 original size:57 final size:59
Alignment explanation
Indices: 614851--614965 Score: 155
Period size: 57 Copynumber: 2.0 Consensus size: 59
614841 CATATAATTA
* * * *
614851 TTCACATAGCATTATTCAACTTATTATTTTCTCACATAG-A-GCATATACTCATAGTAT
1 TTCACATAGCATTATTCAAATGATCATTTTCTCACATAGAACACATATACTCATAGTAT
*
614908 TTCACATAGCATTATTCAAATGATCATTTAT-TCACATTGAACACATATACTCATAGTA
1 TTCACATAGCATTATTCAAATGATCATTT-TCTCACATAGAACACATATACTCATAGTA
614966 ACGAAATCAA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
57 33 0.66
58 2 0.04
59 15 0.30
ACGTcount: A:0.36, C:0.19, G:0.07, T:0.38
Consensus pattern (59 bp):
TTCACATAGCATTATTCAAATGATCATTTTCTCACATAGAACACATATACTCATAGTAT
Found at i:615809 original size:19 final size:20
Alignment explanation
Indices: 615773--615811 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
615763 TCTTATTCAG
615773 ACCTTTAACAAGTCAAATAT
1 ACCTTTAACAAGTCAAATAT
*
615793 ACCTTTAA-AATTCAAATAT
1 ACCTTTAACAAGTCAAATAT
615812 TAACCAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.46, C:0.18, G:0.03, T:0.33
Consensus pattern (20 bp):
ACCTTTAACAAGTCAAATAT
Found at i:620505 original size:25 final size:24
Alignment explanation
Indices: 620454--620514 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
620444 TATTTATTTA
* * * *
620454 ATAAATTATATATCATCTAAGATT
1 ATAAAATATATTTCATCTAAAACT
*
620478 ATAAAGTATATTTACATCTAAAACT
1 ATAAAATATATTT-CATCTAAAACT
620503 ATAAAATATATT
1 ATAAAATATATT
620515 ATAATGTTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
24 11 0.35
25 20 0.65
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.39
Consensus pattern (24 bp):
ATAAAATATATTTCATCTAAAACT
Found at i:638247 original size:12 final size:12
Alignment explanation
Indices: 638230--638279 Score: 68
Period size: 12 Copynumber: 4.3 Consensus size: 12
638220 AAATATGGTA
638230 TGAACAGTACCG
1 TGAACAGTACCG
*
638242 TGAACAGTA--A
1 TGAACAGTACCG
*
638252 TGAACATTACCG
1 TGAACAGTACCG
638264 TGAACAGTACCG
1 TGAACAGTACCG
638276 TGAA
1 TGAA
638280 ATCAAATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
10 8 0.25
12 24 0.75
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (12 bp):
TGAACAGTACCG
Found at i:638257 original size:22 final size:22
Alignment explanation
Indices: 638229--638272 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
638219 AAAATATGGT
638229 ATGAACAGTACCGTGAACAGTA
1 ATGAACAGTACCGTGAACAGTA
*
638251 ATGAACATTACCGTGAACAGTA
1 ATGAACAGTACCGTGAACAGTA
638273 CCGTGAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.41, C:0.18, G:0.20, T:0.20
Consensus pattern (22 bp):
ATGAACAGTACCGTGAACAGTA
Found at i:638918 original size:18 final size:18
Alignment explanation
Indices: 638895--638929 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
638885 ACTGAATATT
638895 TGTCCCGAATGACCACTA
1 TGTCCCGAATGACCACTA
638913 TGTCCCGAATGACCACT
1 TGTCCCGAATGACCACT
638930 GTATAACCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.26, C:0.34, G:0.17, T:0.23
Consensus pattern (18 bp):
TGTCCCGAATGACCACTA
Found at i:640820 original size:14 final size:14
Alignment explanation
Indices: 640801--640854 Score: 80
Period size: 14 Copynumber: 4.1 Consensus size: 14
640791 CGTTCGTGAA
640801 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
640815 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
640829 CG-T---TTATGTT
1 CGTTCGGTTATGTT
640839 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
640853 CG
1 CG
640855 CTTATGTTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
10 9 0.25
11 1 0.03
13 1 0.03
14 25 0.69
ACGTcount: A:0.07, C:0.15, G:0.28, T:0.50
Consensus pattern (14 bp):
CGTTCGGTTATGTT
Found at i:640876 original size:24 final size:24
Alignment explanation
Indices: 640802--640863 Score: 106
Period size: 24 Copynumber: 2.6 Consensus size: 24
640792 GTTCGTGAAC
*
640802 GTTCGGTTATGTTCGTTCGGTTAT
1 GTTCGCTTATGTTCGTTCGGTTAT
*
640826 GTTCGTTTATGTTCGTTCGGTTAT
1 GTTCGCTTATGTTCGTTCGGTTAT
640850 GTTCGCTTATGTTC
1 GTTCGCTTATGTTC
640864 ATTCATTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.08, C:0.15, G:0.26, T:0.52
Consensus pattern (24 bp):
GTTCGCTTATGTTCGTTCGGTTAT
Found at i:641982 original size:16 final size:16
Alignment explanation
Indices: 641957--642021 Score: 85
Period size: 16 Copynumber: 4.1 Consensus size: 16
641947 CCAACGTTTA
*
641957 TGTTCGTTTATGTTCG
1 TGTTCGTTTATATTCG
* *
641973 TGTTCATTTATATTTG
1 TGTTCGTTTATATTCG
* *
641989 TGTTCGTTTATGTTTG
1 TGTTCGTTTATATTCG
642005 TGTTCGTTTATATTCG
1 TGTTCGTTTATATTCG
642021 T
1 T
642022 TTATTTATTA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 42 1.00
ACGTcount: A:0.11, C:0.09, G:0.20, T:0.60
Consensus pattern (16 bp):
TGTTCGTTTATATTCG
Found at i:641998 original size:32 final size:32
Alignment explanation
Indices: 641957--642018 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
641947 CCAACGTTTA
641957 TGTTCGTTTATGTTCGTGTTCATTTATATTTG
1 TGTTCGTTTATGTTCGTGTTCATTTATATTTG
* *
641989 TGTTCGTTTATGTTTGTGTTCGTTTATATT
1 TGTTCGTTTATGTTCGTGTTCATTTATATT
642019 CGTTTATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.11, C:0.08, G:0.19, T:0.61
Consensus pattern (32 bp):
TGTTCGTTTATGTTCGTGTTCATTTATATTTG
Found at i:645697 original size:774 final size:765
Alignment explanation
Indices: 644311--645849 Score: 2819
Period size: 774 Copynumber: 2.0 Consensus size: 765
644301 AATTGATGAT
644311 AACCCGAACGTAAATCAATCTTCGGAACACTGAAGCTCCCTTTAATTGATCAAATAAATTGTTAA
1 AACCCGAACGTAAATCAATCTTCGGAACACTGAAGCTCCCTTTAATTGATCAAATAAATTGTTAA
644376 TTCGGAAAGTGGATATTGTTCTTGATGGTCACCTTATTAAGCTGTCTATAATCAATGCAAAGACG
66 TTCGGAAAGTGGATATTGTTCTTGATGGTCACCTTATTAAGCTGTCTATAATCAATGCAAAGACG
644441 CATTGATCCATCATTCTTTTTTACGAACACACTGGAGACGGTGAGACACTTGGTCTTATAAATCC
131 CATTGATCCATCATTCTTTTTTACGAACACACTGGAGACGGTGAGACACTTGGTCTTATAAATCC
644506 TTTATCTAACAAACCTTGTAACGTATCTTTAACTCTTGTAACTCTTTTGTAGCCATTCTGTATGG
196 TTTATCTAACAAACCTTGTAACGTATCTTTAACTCTTGTAACTCTTTTGTAGCCATTCTGTATGG
644571 AGCCATGACAATAGGCGCAGTTCCAGGCATTATTTAAATCTGAAATTCTACTCTCGGCTGGAGGT
261 AGCCATGACAATAGGCGCAGTTCCAGGCATTATTTAAATCTGAAATTCTACTCTCGGCTGGAGGT
644636 AATCCTGGAAACTTTGCAGGAAATACATCAGAAACTCTTGACTATGGAATTTCTTCGATCCCCTT
326 AATCCTGGAAACTTTGCAGGAAATACATCAGAAACTCTTGACTATGGAATTTCTTCGATCCCCTT
644701 CTTTAGCTATAACATCCAGTACATTAGCAATGAACCCTTGACACCCTGTAGTAGTAACTTCTTTG
391 CTTTAGCTATAACATCCAGTACATTAGCAATGAACCCTTGACACCCTGTAGTAGTAACTTCTTTG
644766 CCGTCATCCTGAGATTACATTGCCAATGGATTCTACCATTCAATAAACACCACGACTTACCCCTT
456 CCGTCATCCTGAGATTACATTGCCAATGGATTCTACCATTCAATAAACACCACGACTTACCCCTT
644831 CCGGACTTCTCAACGTTACCCTTTTCAGTCTACAATCGACATTAGCGTAATAATGATATAACCAA
521 CCGGACTTCTCAACGTTACCCTTTTCAGTCTACAATCGACATTAGCGTAATAATGATATAACCAA
644896 TCCATTCCCAATATCACTTCGAATTCTTCGAAGGGTAATTCCATCAAATTAGCAGGGAATTC-AT
586 TCCATTCCCAATATCACTTCGAATTCTTCGAAGGGTAATTCCATCAAATTAGCAGGGAATTCAAT
*
644960 T-CCTTAA-CTGTATGGG-ATCCTCGACATACCATATTGACCCGA-CACTATGCCCTAAC-GA-T
651 TCCCTTAATCTGTATGGGAATCCTCGACATACCATATTGACCCGAGCACTACGCCCTAACGGATT
645019 AGTCACTATCACCTCATTGCTAGTATCTTCTAACTGAATAATCAATTCTG
716 AGTCACTATCACCTCATTGCTAGTATCTTCTAACTGAATAATCAATTCTG
645069 AACCCGAACGTAAATCAATCTTCGAGAACACTGAAGCTCCCTTTAATTGATCAAAT-AATTGTTA
1 AACCCGAACGTAAATCAATCTTCG-GAACACTGAAGCTCCCTTTAATTGATCAAATAAATTGTTA
645133 ATTCGGGAAAGTGGATACTTGTTCTTGATGGTCCACCTTATTAAGCTGTCTATAATCAATGCAAA
65 ATTC-GGAAAGTGGATA-TTGTTCTTGATGGT-CACCTTATTAAGCTGTCTATAATCAATGCAAA
645198 GACGCATTGAT-CATCATTCTTTTTTACGAACAACACTGGAGACGGTGAGACACTTGGTCTTATA
127 GACGCATTGATCCATCATTCTTTTTTACGAAC-ACACTGGAGACGGTGAGACACTTGGTCTTATA
645262 AATCCTTTATCTAAC-AACTCTTGTAACTGTATCTTTAACTCTTGTAACTCTTTTGTAGCCATTC
191 AATCCTTTATCTAACAAAC-CTTGTAAC-GTATCTTTAACTCTTGTAACTCTTTTGTAGCCATTC
645326 TGTATGGAGCCATGACAATAGGCGCAGTTCCAGGCATTATTTAAATCTGAAATTCTACCTCTCGG
254 TGTATGGAGCCATGACAATAGGCGCAGTTCCAGGCATTATTTAAATCTGAAATTCTA-CTCTCGG
645391 TCTGGAGGTAATCCTGGAAACTTTGCAGGAAATACATCAGAAAACTCTTTGACTAATGGAATTTC
318 -CTGGAGGTAATCCTGGAAACTTTGCAGGAAATACATCAG-AAACTC-TTGACT-ATGGAATTTC
645456 TTCGATCCCCTTTTCTTTAGCTATAACATCCAGTACATTAGCAATGAACCCTTGACATCCCTGTA
379 TTCGATCCCC--TTCTTTAGCTATAACATCCAGTACATTAGCAATGAACCCTTGACA-CCCTGTA
645521 GTAGTAACTTCTTTGCCGTCATCACTGAGATTACATTTGCCAATGGATTCTACCATTCAATAAAC
441 GTAGTAACTTCTTTGCCGTCATC-CTGAGATTACA-TTGCCAATGGATTCTACCATTCAATAAAC
645586 ACCACGACTTCTACCCCTTCCGGACTTCTCAACGTTACCCTTTTCAGTCTACAATCGACATTAGC
504 ACCACGAC-T-TACCCCTTCCGGACTTCTCAACGTTACCCTTTTCAGTCTACAATCGACATTAGC
645651 GTAATAATGATATAACCAATCCATTCCCAATATCACTTCGAATTCTTCGAAGGGTAATTCCATCA
567 GTAATAATGATATAACCAATCCATTCCCAATATCACTTCGAATTCTTCGAAGGGTAATTCCATCA
645716 AATTAGCAGGGAATTCAATTCCCTTAATCTGTATGGGATATCCTCGACATACCATATTGACCCGA
632 AATTAGCAGGGAATTCAATTCCCTTAATCTGTATGGGA-ATCCTCGACATACCATATTGACCCGA
645781 GCACTACGCCCTAACGGATTAGTCACTATCACCTCATTGCTAGTATCTTCTAACTGAATAATCAA
696 GCACTACGCCCTAACGGATTAGTCACTATCACCTCATTGCTAGTATCTTCTAACTGAATAATCAA
645846 TTCT
761 TTCT
645850 CTCACCAACT
Statistics
Matches: 753, Mismatches: 1, Indels: 30
0.96 0.00 0.04
Matches are distributed among these distances:
758 36 0.05
759 43 0.06
760 37 0.05
761 98 0.13
762 93 0.12
763 7 0.01
764 39 0.05
765 6 0.01
766 6 0.01
767 20 0.03
769 45 0.06
770 30 0.04
771 11 0.01
772 37 0.05
773 1 0.00
774 135 0.18
775 3 0.00
776 6 0.01
777 9 0.01
779 26 0.03
780 13 0.02
781 2 0.00
782 50 0.07
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.32
Consensus pattern (765 bp):
AACCCGAACGTAAATCAATCTTCGGAACACTGAAGCTCCCTTTAATTGATCAAATAAATTGTTAA
TTCGGAAAGTGGATATTGTTCTTGATGGTCACCTTATTAAGCTGTCTATAATCAATGCAAAGACG
CATTGATCCATCATTCTTTTTTACGAACACACTGGAGACGGTGAGACACTTGGTCTTATAAATCC
TTTATCTAACAAACCTTGTAACGTATCTTTAACTCTTGTAACTCTTTTGTAGCCATTCTGTATGG
AGCCATGACAATAGGCGCAGTTCCAGGCATTATTTAAATCTGAAATTCTACTCTCGGCTGGAGGT
AATCCTGGAAACTTTGCAGGAAATACATCAGAAACTCTTGACTATGGAATTTCTTCGATCCCCTT
CTTTAGCTATAACATCCAGTACATTAGCAATGAACCCTTGACACCCTGTAGTAGTAACTTCTTTG
CCGTCATCCTGAGATTACATTGCCAATGGATTCTACCATTCAATAAACACCACGACTTACCCCTT
CCGGACTTCTCAACGTTACCCTTTTCAGTCTACAATCGACATTAGCGTAATAATGATATAACCAA
TCCATTCCCAATATCACTTCGAATTCTTCGAAGGGTAATTCCATCAAATTAGCAGGGAATTCAAT
TCCCTTAATCTGTATGGGAATCCTCGACATACCATATTGACCCGAGCACTACGCCCTAACGGATT
AGTCACTATCACCTCATTGCTAGTATCTTCTAACTGAATAATCAATTCTG
Found at i:648147 original size:24 final size:23
Alignment explanation
Indices: 648120--648189 Score: 81
Period size: 22 Copynumber: 3.1 Consensus size: 23
648110 CCACTAGGGG
* *
648120 CACTGAATATTTGTCCCGAATGAC
1 CACTG-ATATATGTCCCGAAGGAC
648144 CACTG-TATATGTCCCGAAGGAC
1 CACTGATATATGTCCCGAAGGAC
* *
648166 CACTG-TATATATCCCAAAGGAC
1 CACTGATATATGTCCCGAAGGAC
648188 CA
1 CA
648190 TTATGTCCCG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
22 37 0.88
24 5 0.12
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (23 bp):
CACTGATATATGTCCCGAAGGAC
Found at i:648159 original size:22 final size:22
Alignment explanation
Indices: 648131--648214 Score: 104
Period size: 22 Copynumber: 4.0 Consensus size: 22
648121 ACTGAATATT
*
648131 TGTCCCGAATGACCACTGTATA
1 TGTCCCGAAGGACCACTGTATA
648153 TGTCCCGAAGGACCACTGTATA
1 TGTCCCGAAGGACCACTGTATA
* *
648175 TATCCCAAAGGACCA---T-TA
1 TGTCCCGAAGGACCACTGTATA
*
648193 TGTCCCGAATGACCACTGTATA
1 TGTCCCGAAGGACCACTGTATA
648215 ACCCTCGACT
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
18 14 0.27
19 1 0.02
21 1 0.02
22 36 0.69
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (22 bp):
TGTCCCGAAGGACCACTGTATA
Found at i:649715 original size:14 final size:14
Alignment explanation
Indices: 649698--649739 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
649688 ATAATAAATA
649698 ATTATAAATATTTT
1 ATTATAAATATTTT
*
649712 ATTATAAA-ATATT
1 ATTATAAATATTTT
* *
649725 ATTTTAATTATTTT
1 ATTATAAATATTTT
649739 A
1 A
649740 AAAATTAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
ATTATAAATATTTT
Found at i:665435 original size:20 final size:20
Alignment explanation
Indices: 665410--665463 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
665400 AATTGGGAAA
*
665410 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
665430 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
665450 GTCGCAACGCGATA
1 ATCGCAACGCGATA
665464 ATACATAATC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:665679 original size:22 final size:22
Alignment explanation
Indices: 665651--665694 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
665641 CACTCTCTCA
665651 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
665673 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
665695 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:665967 original size:20 final size:20
Alignment explanation
Indices: 665938--665981 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
665928 GCGATTTTAG
665938 TTTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATAGTCAT
* **
665958 TTTCGTGTTGCGATTTTCAT
1 TTTCGCGTTGCGATAGTCAT
665978 TTTC
1 TTTC
665982 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.11, C:0.18, G:0.20, T:0.50
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGTCAT
Found at i:667322 original size:18 final size:18
Alignment explanation
Indices: 667301--667345 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
667291 TCCACTTCGG
*
667301 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
667319 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
667337 GAGCCATCA
1 GAGCCATCA
667346 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:667846 original size:20 final size:20
Alignment explanation
Indices: 667821--667866 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
667811 TAGTTTACTT
667821 TCGCAACACGAAAATGACTA
1 TCGCAACACGAAAATGACTA
** * *
667841 TCGCAACGTGGAAATGGCTA
1 TCGCAACACGAAAATGACTA
667861 TCGCAA
1 TCGCAA
667867 TGCGAAATGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:667875 original size:19 final size:19
Alignment explanation
Indices: 667832--667886 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
667822 CGCAACACGA
667832 AAATGACTATCGCAACGTGG
1 AAATGACTATCGCAAC-TGG
*
667852 AAATGGCTATCGCAA-TGCG
1 AAATGACTATCGCAACTG-G
**
667871 AAATGAAAATCGCAAC
1 AAATGACTATCGCAAC
667887 GACAAAATCG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 2 0.07
19 13 0.45
20 14 0.48
ACGTcount: A:0.40, C:0.20, G:0.22, T:0.18
Consensus pattern (19 bp):
AAATGACTATCGCAACTGG
Found at i:667914 original size:19 final size:19
Alignment explanation
Indices: 667860--667923 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
667850 GGAAATGGCT
667860 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
667879 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
*
667893 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
667912 ATCGCAATGCGA
1 ATCGCAATGCGA
667924 TTTGTGTTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
14 10 0.27
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 21 0.57
ACGTcount: A:0.45, C:0.22, G:0.20, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:667957 original size:14 final size:14
Alignment explanation
Indices: 667938--668025 Score: 77
Period size: 14 Copynumber: 5.6 Consensus size: 14
667928 TGTTTCGCGC
667938 TGCGATTTTGTCGT
1 TGCGATTTTGTCGT
*
667952 TGCGATTTCATTTCGCAT
1 TGCGATTT--TGTCG--T
667970 TGCGATTTTGTCGT
1 TGCGATTTTGTCGT
*
667984 TGCGATTTTCATTTCGCAT
1 TGCGA-TTT--TGTCG--T
668003 TGCGATTTTGTCGT
1 TGCGATTTTGTCGT
668017 TGCGATTTT
1 TGCGATTTT
668026 CATTTTGCAT
Statistics
Matches: 61, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
14 24 0.39
15 3 0.05
16 12 0.20
17 4 0.07
18 12 0.20
19 6 0.10
ACGTcount: A:0.11, C:0.17, G:0.23, T:0.49
Consensus pattern (14 bp):
TGCGATTTTGTCGT
Found at i:667999 original size:33 final size:33
Alignment explanation
Indices: 667938--668041 Score: 192
Period size: 33 Copynumber: 3.2 Consensus size: 33
667928 TGTTTCGCGC
667938 TGCGATTTTGTCGTTGCGA-TTTCATTTCGCAT
1 TGCGATTTTGTCGTTGCGATTTTCATTTCGCAT
667970 TGCGATTTTGTCGTTGCGATTTTCATTTCGCAT
1 TGCGATTTTGTCGTTGCGATTTTCATTTCGCAT
*
668003 TGCGATTTTGTCGTTGCGATTTTCATTTTGCAT
1 TGCGATTTTGTCGTTGCGATTTTCATTTCGCAT
668036 TGCGAT
1 TGCGAT
668042 AGCCATTTCC
Statistics
Matches: 70, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
32 19 0.27
33 51 0.73
ACGTcount: A:0.12, C:0.17, G:0.22, T:0.48
Consensus pattern (33 bp):
TGCGATTTTGTCGTTGCGATTTTCATTTCGCAT
Found at i:668060 original size:20 final size:20
Alignment explanation
Indices: 668035--668081 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
668025 TCATTTTGCA
668035 TTGCGATAGCCATTTCCGCG
1 TTGCGATAGCCATTTCCGCG
* *
668055 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGCCATTTCCGCG
668075 TTGCGAT
1 TTGCGAT
668082 TTTAAGTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.15, C:0.23, G:0.26, T:0.36
Consensus pattern (20 bp):
TTGCGATAGCCATTTCCGCG
Found at i:669968 original size:14 final size:14
Alignment explanation
Indices: 669949--669982 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
669939 TGTTTAATTT
669949 ATTTGTAAAAGATG
1 ATTTGTAAAAGATG
* *
669963 ATTTGTAAATGTTG
1 ATTTGTAAAAGATG
669977 ATTTGT
1 ATTTGT
669983 TTAATTGATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (14 bp):
ATTTGTAAAAGATG
Found at i:670159 original size:20 final size:20
Alignment explanation
Indices: 670123--670195 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
670113 CAACGAGAGA
*
670123 ATCGCAATGCG-AAATGGCT
1 ATCGCAACGCGAAAATGGCT
670142 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
* *
670162 ATCGCAACGTGAAAATCGC-
1 ATCGCAACGCGAAAATGGCT
*
670181 AT-GCAACGAGAAAAT
1 ATCGCAACGCGAAAAT
670196 CGCAATGCGA
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
18 12 0.24
19 12 0.24
20 25 0.51
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGGCT
Found at i:670662 original size:20 final size:20
Alignment explanation
Indices: 670577--670670 Score: 100
Period size: 20 Copynumber: 4.7 Consensus size: 20
670567 AACTTTGAAA
* *
670577 ATCGCATTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
* *
670597 ATCACGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
* *
670617 ATCGCGTTGCGATTTTGT-ATT
1 ATCGCGTTGCGA--TAGTCAGT
670638 ATCGCGTTGCGATAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
*
670658 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
670671 TTACTTATTC
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
19 3 0.05
20 43 0.69
21 14 0.23
22 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGT
Found at i:670760 original size:21 final size:21
Alignment explanation
Indices: 670720--670760 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
670710 ACTGTAGACC
**
670720 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
670741 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
670761 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:671019 original size:21 final size:22
Alignment explanation
Indices: 670995--671035 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
670985 GATAAAAAAG
*
670995 GACAAAAGATTATA-ATATAAA
1 GACAAAAGATAATATATATAAA
*
671016 GACAGAAGATAATATATATA
1 GACAAAAGATAATATATATA
671036 TATCATGGCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.59, C:0.05, G:0.12, T:0.24
Consensus pattern (22 bp):
GACAAAAGATAATATATATAAA
Found at i:673133 original size:75 final size:75
Alignment explanation
Indices: 673053--673198 Score: 202
Period size: 75 Copynumber: 1.9 Consensus size: 75
673043 ATTTGACACT
* * *
673053 TTAATATTATGATTTGATTATGAATTTTATTATTTTAGAGTTAATATCGTGGTTTGAATCTTGAG
1 TTAATATTATGATTTGATTATGAATTTTATTATTCTAAACTTAATATCGTGGTTTGAATCTTGAG
673118 ATTTGATATC
66 ATTTGATATC
* * * * * * *
673128 TTAATATTGTGATTTGTTTATGGATTTTATTGTTCTAAACTTAATATTGTGGTTTGAGTCTTGAT
1 TTAATATTATGATTTGATTATGAATTTTATTATTCTAAACTTAATATCGTGGTTTGAATCTTGAG
673193 ATTTGA
66 ATTTGA
673199 CTTTATTTAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
75 61 1.00
ACGTcount: A:0.27, C:0.04, G:0.17, T:0.52
Consensus pattern (75 bp):
TTAATATTATGATTTGATTATGAATTTTATTATTCTAAACTTAATATCGTGGTTTGAATCTTGAG
ATTTGATATC
Found at i:673243 original size:18 final size:19
Alignment explanation
Indices: 673201--673244 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
673191 ATATTTGACT
* *
673201 TTATTTATAATTTTTTACA
1 TTATTTATAATTTTTAAAA
673220 TCTATTTATAA-TTTTAAAA
1 T-TATTTATAATTTTTAAAA
673239 TTATTT
1 TTATTT
673245 TATATGACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 5 0.23
19 8 0.36
20 9 0.41
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (19 bp):
TTATTTATAATTTTTAAAA
Found at i:680255 original size:50 final size:50
Alignment explanation
Indices: 680197--680298 Score: 204
Period size: 50 Copynumber: 2.0 Consensus size: 50
680187 CATCACTAGA
680197 TCAATATAAACAACAAATGACACTCGTAGATGCCTTAAATTGAGGTGTTT
1 TCAATATAAACAACAAATGACACTCGTAGATGCCTTAAATTGAGGTGTTT
680247 TCAATATAAACAACAAATGACACTCGTAGATGCCTTAAATTGAGGTGTTT
1 TCAATATAAACAACAAATGACACTCGTAGATGCCTTAAATTGAGGTGTTT
680297 TC
1 TC
680299 TCTCGTATAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (50 bp):
TCAATATAAACAACAAATGACACTCGTAGATGCCTTAAATTGAGGTGTTT
Found at i:684286 original size:31 final size:31
Alignment explanation
Indices: 684246--684320 Score: 114
Period size: 31 Copynumber: 2.4 Consensus size: 31
684236 ATAATAAAAC
684246 AATAATTCAAATCTCTCTAACAAAAACTTAA
1 AATAATTCAAATCTCTCTAACAAAAACTTAA
* * * *
684277 AATAGTTCAAATCTCTCTAATACAAACTTGA
1 AATAATTCAAATCTCTCTAACAAAAACTTAA
684308 AATAATTCAAATC
1 AATAATTCAAATC
684321 CAAACTGACT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.48, C:0.19, G:0.03, T:0.31
Consensus pattern (31 bp):
AATAATTCAAATCTCTCTAACAAAAACTTAA
Found at i:692896 original size:38 final size:38
Alignment explanation
Indices: 692844--692920 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
692834 AAAATTGAAA
692844 TATAAGTGGACAATCTCGAAGTTTACTCATGTTTTATT
1 TATAAGTGGACAATCTCGAAGTTTACTCATGTTTTATT
*
692882 TATAAGTGGCCAATCTCGAAGTTTACTCATGTTTTATT
1 TATAAGTGGACAATCTCGAAGTTTACTCATGTTTTATT
692920 T
1 T
692921 TTTTTTAACT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.43
Consensus pattern (38 bp):
TATAAGTGGACAATCTCGAAGTTTACTCATGTTTTATT
Found at i:696725 original size:24 final size:24
Alignment explanation
Indices: 696698--696756 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
696688 TGGTCATTGA
* *
696698 ATTAATTTTTTAAAATAATTTAAT
1 ATTAATTTTTTAAAATAAATAAAT
* *
696722 ATTAATTTATAAAAATAAATAAAT
1 ATTAATTTTTTAAAATAAATAAAT
*
696746 ATTTATTTTTT
1 ATTAATTTTTT
696757 CCTAAGTAAA
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:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
ATTAATTTTTTAAAATAAATAAAT
Found at i:700934 original size:21 final size:21
Alignment explanation
Indices: 700875--700934 Score: 63
Period size: 19 Copynumber: 3.0 Consensus size: 21
700865 ATCATATTTT
* *
700875 TATTTTATTATATTTTTAA-A
1 TATTTTATAAAATTTTTAATA
*
700895 -ATTTTATAGAATTTTTAATA
1 TATTTTATAAAATTTTTAATA
700915 TATTTT-TAAAATTTTATAAT
1 TATTTTATAAAATTTT-TAAT
700935 TATCAATAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
19 15 0.45
20 9 0.27
21 9 0.27
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
TATTTTATAAAATTTTTAATA
Found at i:700942 original size:28 final size:29
Alignment explanation
Indices: 700883--700942 Score: 86
Period size: 30 Copynumber: 2.1 Consensus size: 29
700873 TTTATTTTAT
* *
700883 TATATTTTTAAAATTTTATAGAATTTTTAA
1 TATATTTTTAAAATTTTATA-AATTATCAA
700913 TATATTTTTAAAATTTTAT-AATTATCAA
1 TATATTTTTAAAATTTTATAAATTATCAA
700941 TA
1 TA
700943 ATGTAGTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 9 0.32
30 19 0.68
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (29 bp):
TATATTTTTAAAATTTTATAAATTATCAA
Found at i:700958 original size:14 final size:14
Alignment explanation
Indices: 700939--700968 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
700929 TATAATTATC
*
700939 AATAATGTAGTTTT
1 AATAATGTAATTTT
700953 AATAATGTAATTTT
1 AATAATGTAATTTT
700967 AA
1 AA
700969 AAAATCTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (14 bp):
AATAATGTAATTTT
Found at i:701084 original size:16 final size:16
Alignment explanation
Indices: 701063--701095 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
701053 TAAGAACTCA
701063 AGTCGAGCTCAAGTCG
1 AGTCGAGCTCAAGTCG
*
701079 AGTCGAGCTCGAGTCG
1 AGTCGAGCTCAAGTCG
701095 A
1 A
701096 ATCCATTCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.24, G:0.33, T:0.18
Consensus pattern (16 bp):
AGTCGAGCTCAAGTCG
Found at i:702283 original size:21 final size:21
Alignment explanation
Indices: 702241--702348 Score: 128
Period size: 21 Copynumber: 5.1 Consensus size: 21
702231 TTGTGGATTG
* *
702241 TAACTTGGAGAGGTAGGG-CTA
1 TAACTTGGTGATGT-GGGACTA
*
702262 TAGCTTGGTGATGTGGGACTA
1 TAACTTGGTGATGTGGGACTA
702283 TAACTTGGTGATGTGGGACTA
1 TAACTTGGTGATGTGGGACTA
* *
702304 TAACTTGGTGAGGTTGGACTA
1 TAACTTGGTGATGTGGGACTA
* * *
702325 TAACCTGGTGAAGTGGGGCTA
1 TAACTTGGTGATGTGGGACTA
702346 TAA
1 TAA
702349 GCCGGAGAAG
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
20 3 0.04
21 73 0.96
ACGTcount: A:0.25, C:0.10, G:0.35, T:0.30
Consensus pattern (21 bp):
TAACTTGGTGATGTGGGACTA
Found at i:702362 original size:63 final size:63
Alignment explanation
Indices: 702241--702368 Score: 141
Period size: 63 Copynumber: 2.0 Consensus size: 63
702231 TTGTGGATTG
* * * * * * *
702241 TAACTTGGAGAGGTAGGGCTATAGCTTGGTGATGTGGGACTATAACTTGGTGATGTGGGACTA
1 TAACTTGGAGAGGTAGGACTATAACCTGGTGAAGTGGGACTATAACTCGGAGAAGTGGGACTA
* * * *
702304 TAACTTGGTGAGGTTGGACTATAACCTGGTGAAGTGGGGCTATAAGC-CGGAGAAGTGGGGCTA
1 TAACTTGGAGAGGTAGGACTATAACCTGGTGAAGTGGGACTATAA-CTCGGAGAAGTGGGACTA
702367 TA
1 TA
702369 TGATGGAGAT
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
63 52 0.98
64 1 0.02
ACGTcount: A:0.25, C:0.11, G:0.37, T:0.27
Consensus pattern (63 bp):
TAACTTGGAGAGGTAGGACTATAACCTGGTGAAGTGGGACTATAACTCGGAGAAGTGGGACTA
Found at i:702376 original size:21 final size:21
Alignment explanation
Indices: 702334--702386 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
702324 ATAACCTGGT
*
702334 GAAGTGGGGCTATAAGCCGGA
1 GAAGTGGGGCTATAAGACGGA
* *
702355 GAAGTGGGGCTATATGATGGA
1 GAAGTGGGGCTATAAGACGGA
* *
702376 GATGTTGGGCT
1 GAAGTGGGGCT
702387 GTAGGAGGGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.25, C:0.09, G:0.43, T:0.23
Consensus pattern (21 bp):
GAAGTGGGGCTATAAGACGGA
Found at i:702403 original size:21 final size:21
Alignment explanation
Indices: 702373--702515 Score: 169
Period size: 21 Copynumber: 6.8 Consensus size: 21
702363 GCTATATGAT
*
702373 GGAGATGTTGGGCTGTAGGAG
1 GGAGATGTTGGGCTGTAGGAA
* * *
702394 GGTGAGGTTGGACTGTAGGAA
1 GGAGATGTTGGGCTGTAGGAA
* *
702415 GGAGATGTCGGGCTGTAGGAG
1 GGAGATGTTGGGCTGTAGGAA
* *
702436 GGTGAGGTTGGGCTGTAGGAA
1 GGAGATGTTGGGCTGTAGGAA
*
702457 GGAGATGTCGGGCTGTAGGAA
1 GGAGATGTTGGGCTGTAGGAA
* *
702478 GGAGATGTTGGGCTGTATGAT
1 GGAGATGTTGGGCTGTAGGAA
* *
702499 GGAGAAGTGGGGCTGTA
1 GGAGATGTTGGGCTGTA
702516 TGCAGGTGAA
Statistics
Matches: 101, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 101 1.00
ACGTcount: A:0.21, C:0.06, G:0.50, T:0.23
Consensus pattern (21 bp):
GGAGATGTTGGGCTGTAGGAA
Found at i:702419 original size:63 final size:63
Alignment explanation
Indices: 702352--702515 Score: 193
Period size: 63 Copynumber: 2.6 Consensus size: 63
702342 GCTATAAGCC
* * * * * * *
702352 GGAGAAGTGGGGCTATATGATGGAGATGTTGGGCTGTAGGAGGGTGAGGTTGGACTGTAGGAA
1 GGAGATGTCGGGCTGTATGATGGAGAAGTTGGGCTGTAGGAAGGAGAGGTCGGACTGTAGGAA
* * * * * *
702415 GGAGATGTCGGGCTGTAGGAGGGTGAGGTTGGGCTGTAGGAAGGAGATGTCGGGCTGTAGGAA
1 GGAGATGTCGGGCTGTATGATGGAGAAGTTGGGCTGTAGGAAGGAGAGGTCGGACTGTAGGAA
* *
702478 GGAGATGTTGGGCTGTATGATGGAGAAGTGGGGCTGTA
1 GGAGATGTCGGGCTGTATGATGGAGAAGTTGGGCTGTA
702516 TGCAGGTGAA
Statistics
Matches: 83, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
63 83 1.00
ACGTcount: A:0.22, C:0.06, G:0.49, T:0.23
Consensus pattern (63 bp):
GGAGATGTCGGGCTGTATGATGGAGAAGTTGGGCTGTAGGAAGGAGAGGTCGGACTGTAGGAA
Found at i:702420 original size:42 final size:42
Alignment explanation
Indices: 702373--702515 Score: 205
Period size: 42 Copynumber: 3.4 Consensus size: 42
702363 GCTATATGAT
* *
702373 GGAGATGTTGGGCTGTAGGAGGGTGAGGTTGGACTGTAGGAA
1 GGAGATGTCGGGCTGTAGGAGGGTGAGGTTGGGCTGTAGGAA
702415 GGAGATGTCGGGCTGTAGGAGGGTGAGGTTGGGCTGTAGGAA
1 GGAGATGTCGGGCTGTAGGAGGGTGAGGTTGGGCTGTAGGAA
* * * * *
702457 GGAGATGTCGGGCTGTAGGAAGGAGATGTTGGGCTGTATGAT
1 GGAGATGTCGGGCTGTAGGAGGGTGAGGTTGGGCTGTAGGAA
* *
702499 GGAGAAGTGGGGCTGTA
1 GGAGATGTCGGGCTGTA
702516 TGCAGGTGAA
Statistics
Matches: 92, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 92 1.00
ACGTcount: A:0.21, C:0.06, G:0.50, T:0.23
Consensus pattern (42 bp):
GGAGATGTCGGGCTGTAGGAGGGTGAGGTTGGGCTGTAGGAA
Found at i:702516 original size:21 final size:21
Alignment explanation
Indices: 702352--702578 Score: 148
Period size: 21 Copynumber: 10.8 Consensus size: 21
702342 GCTATAAGCC
* * * *
702352 GGAGAAGTGGGGCTATATGAT
1 GGAGAAGTTGGGCTGTAGGAA
* *
702373 GGAGATGTTGGGCTGTAGGAG
1 GGAGAAGTTGGGCTGTAGGAA
* * *
702394 GGTGAGGTTGGACTGTAGGAA
1 GGAGAAGTTGGGCTGTAGGAA
* * *
702415 GGAGATGTCGGGCTGTAGGAG
1 GGAGAAGTTGGGCTGTAGGAA
* *
702436 GGTGAGGTTGGGCTGTAGGAA
1 GGAGAAGTTGGGCTGTAGGAA
* *
702457 GGAGATGTCGGGCTGTAGGAA
1 GGAGAAGTTGGGCTGTAGGAA
* * *
702478 GGAGATGTTGGGCTGTATGAT
1 GGAGAAGTTGGGCTGTAGGAA
* * *
702499 GGAGAAGTGGGGCTGTATGCA
1 GGAGAAGTTGGGCTGTAGGAA
* * * * **
702520 GGTGAACTAGGGCTGTATGCT
1 GGAGAAGTTGGGCTGTAGGAA
* * **
702541 GGTGAAGTAGGGCTGTAGCTA
1 GGAGAAGTTGGGCTGTAGGAA
* *
702562 GGTGAAGTAGGGCTGTA
1 GGAGAAGTTGGGCTGTA
702579 ACTTGGGGAG
Statistics
Matches: 169, Mismatches: 37, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 169 1.00
ACGTcount: A:0.22, C:0.07, G:0.47, T:0.24
Consensus pattern (21 bp):
GGAGAAGTTGGGCTGTAGGAA
Found at i:702533 original size:42 final size:42
Alignment explanation
Indices: 702487--702602 Score: 135
Period size: 42 Copynumber: 2.8 Consensus size: 42
702477 AGGAGATGTT
*
702487 GGGCTGTATGATGGAGAAGTGGGGCTGTATGC-AGGTGAACTA
1 GGGCTGTATGATGGAGAAGTAGGGCTGTA-GCTAGGTGAACTA
* * *
702529 GGGCTGTATGCTGGTGAAGTAGGGCTGTAGCTAGGTGAAGTA
1 GGGCTGTATGATGGAGAAGTAGGGCTGTAGCTAGGTGAACTA
*** * *
702571 GGGCTGTAACTTGGGGAGGTAGGGCTGTAGCT
1 GGGCTGTATGATGGAGAAGTAGGGCTGTAGCT
702603 CGGGGAGGTT
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
41 2 0.03
42 62 0.97
ACGTcount: A:0.21, C:0.10, G:0.44, T:0.25
Consensus pattern (42 bp):
GGGCTGTATGATGGAGAAGTAGGGCTGTAGCTAGGTGAACTA
Found at i:702533 original size:63 final size:62
Alignment explanation
Indices: 702352--702536 Score: 172
Period size: 63 Copynumber: 2.9 Consensus size: 62
702342 GCTATAAGCC
* * * * * * * *
702352 GGAGAAGTGGGGCTATATGATGGAGATGTTGGGCTGTAGGAGGGTGAGGTTGGACTGTAGGAA
1 GGAGATGTCGGGCTGTATGATGGAGAAGTTGGGCTGTA-GAAGGTGAAGTAGGGCTGTAGGAA
* * * * * * *
702415 GGAGATGTCGGGCTGTAGGAGGGTGAGGTTGGGCTGTAGGAAGGAGATGTCGGGCTGTAGGAA
1 GGAGATGTCGGGCTGTATGATGGAGAAGTTGGGCTGTA-GAAGGTGAAGTAGGGCTGTAGGAA
* * * *
702478 GGAGATGTTGGGCTGTATGATGGAGAAGTGGGGCTGTATGCAGGTGAACTAGGGCTGTA
1 GGAGATGTCGGGCTGTATGATGGAGAAGTTGGGCTGTA-GAAGGTGAAGTAGGGCTGTA
702537 TGCTGGTGAA
Statistics
Matches: 98, Mismatches: 24, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
63 98 1.00
ACGTcount: A:0.22, C:0.07, G:0.48, T:0.23
Consensus pattern (62 bp):
GGAGATGTCGGGCTGTATGATGGAGAAGTTGGGCTGTAGAAGGTGAAGTAGGGCTGTAGGAA
Found at i:702592 original size:21 final size:21
Alignment explanation
Indices: 702527--702611 Score: 91
Period size: 21 Copynumber: 4.0 Consensus size: 21
702517 GCAGGTGAAC
* *
702527 TAGGGCTGTATGCT-GGTGAAG
1 TAGGGCTGTA-GCTAGGGGAGG
* *
702548 TAGGGCTGTAGCTAGGTGAAG
1 TAGGGCTGTAGCTAGGGGAGG
* *
702569 TAGGGCTGTAACTTGGGGAGG
1 TAGGGCTGTAGCTAGGGGAGG
*
702590 TAGGGCTGTAGCTCGGGGAGG
1 TAGGGCTGTAGCTAGGGGAGG
702611 T
1 T
702612 TGGAGAATAA
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
20 3 0.05
21 54 0.95
ACGTcount: A:0.19, C:0.11, G:0.46, T:0.25
Consensus pattern (21 bp):
TAGGGCTGTAGCTAGGGGAGG
Found at i:702703 original size:21 final size:21
Alignment explanation
Indices: 702687--702773 Score: 84
Period size: 21 Copynumber: 4.1 Consensus size: 21
702677 GACTGTAGGT
*
702687 AGGTGATGTGGGGCTGTACCC
1 AGGTGAGGTGGGGCTGTACCC
*
702708 AGGTGAGGTGGGGCTATACCC
1 AGGTGAGGTGGGGCTGTACCC
* * * * *
702729 GGGGGAAGTAGGGCTGTAACC
1 AGGTGAGGTGGGGCTGTACCC
* * *
702750 AGGAGAGGTAGGACTGTACCC
1 AGGTGAGGTGGGGCTGTACCC
702771 AGG
1 AGG
702774 AGATGTTGGA
Statistics
Matches: 53, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.22, C:0.17, G:0.44, T:0.17
Consensus pattern (21 bp):
AGGTGAGGTGGGGCTGTACCC
Found at i:702774 original size:21 final size:21
Alignment explanation
Indices: 702700--702786 Score: 75
Period size: 21 Copynumber: 4.1 Consensus size: 21
702690 TGATGTGGGG
* * *
702700 CTGTACCCAGGTGAGGTGGGG
1 CTGTACCCAGGAGAGGTAGGA
* * * * *
702721 CTATACCCGGGGGAAGTAGGG
1 CTGTACCCAGGAGAGGTAGGA
*
702742 CTGTAACCAGGAGAGGTAGGA
1 CTGTACCCAGGAGAGGTAGGA
* *
702763 CTGTACCCAGGAGATGTTGGA
1 CTGTACCCAGGAGAGGTAGGA
702784 CTG
1 CTG
702787 CTGTAACCAG
Statistics
Matches: 52, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 52 1.00
ACGTcount: A:0.23, C:0.18, G:0.40, T:0.18
Consensus pattern (21 bp):
CTGTACCCAGGAGAGGTAGGA
Found at i:702796 original size:24 final size:22
Alignment explanation
Indices: 702736--702811 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 22
702726 CCCGGGGGAA
*
702736 GTAGG-GCTGTAACCAGGAGAG
1 GTAGGAGCTGTAACCAGGAGAT
*
702757 GTAGGA-CTGTACCCAGGAGAT
1 GTAGGAGCTGTAACCAGGAGAT
*
702778 GTTGGACTGCTGTAACCAGGGGATGAT
1 GTAGGA--GCTGTAACCA--GGA-GAT
702805 GTAGGAG
1 GTAGGAG
702812 AGAATGCCAT
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
21 23 0.53
24 8 0.19
25 1 0.02
26 3 0.07
27 8 0.19
ACGTcount: A:0.26, C:0.14, G:0.39, T:0.20
Consensus pattern (22 bp):
GTAGGAGCTGTAACCAGGAGAT
Found at i:709256 original size:27 final size:27
Alignment explanation
Indices: 709224--709277 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
709214 GAAGCAGATG
709224 AGTTAGCAAAAGTTGGTATAGGATGAT
1 AGTTAGCAAAAGTTGGTATAGGATGAT
709251 AGTTAGCAAAAGTTGGTATAGGATGAT
1 AGTTAGCAAAAGTTGGTATAGGATGAT
709278 CTGTGGTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.04, G:0.30, T:0.30
Consensus pattern (27 bp):
AGTTAGCAAAAGTTGGTATAGGATGAT
Found at i:724986 original size:2 final size:2
Alignment explanation
Indices: 724979--725009 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
724969 CAAAAAGGCA
724979 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
725010 AGTAAGAAGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:731291 original size:19 final size:20
Alignment explanation
Indices: 731255--731293 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
731245 TACCTATATA
*
731255 TTTTTATTAGTTTAATTTGT
1 TTTTTATCAGTTTAATTTGT
*
731275 TTTTTATCA-TTTCATTTGT
1 TTTTTATCAGTTTAATTTGT
731294 CACTTTATCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.18, C:0.05, G:0.08, T:0.69
Consensus pattern (20 bp):
TTTTTATCAGTTTAATTTGT
Found at i:739116 original size:37 final size:39
Alignment explanation
Indices: 739074--739150 Score: 140
Period size: 38 Copynumber: 2.0 Consensus size: 39
739064 GCGTTGTATG
739074 TGCTGGCAGC-TGTGTTTTCCGGATAAAT-AAGATGCAT
1 TGCTGGCAGCTTGTGTTTTCCGGATAAATAAAGATGCAT
739111 TGCTGGCAGCTTGTGTTTTCCGGATAAATAAAGATGCAT
1 TGCTGGCAGCTTGTGTTTTCCGGATAAATAAAGATGCAT
739150 T
1 T
739151 TATCCAAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
37 10 0.26
38 18 0.47
39 10 0.26
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.34
Consensus pattern (39 bp):
TGCTGGCAGCTTGTGTTTTCCGGATAAATAAAGATGCAT
Found at i:751577 original size:2 final size:2
Alignment explanation
Indices: 751570--751596 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
751560 CAAAAAGGCA
751570 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
751597 TAGTAAGAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:757961 original size:19 final size:20
Alignment explanation
Indices: 757925--757963 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
757915 TACCTATATA
*
757925 TTTTTATTAGTTTAATTTGT
1 TTTTTATCAGTTTAATTTGT
*
757945 TTTTTATCA-TTTCATTTGT
1 TTTTTATCAGTTTAATTTGT
757964 CACTTTATCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.18, C:0.05, G:0.08, T:0.69
Consensus pattern (20 bp):
TTTTTATCAGTTTAATTTGT
Found at i:770634 original size:87 final size:88
Alignment explanation
Indices: 770535--770793 Score: 251
Period size: 87 Copynumber: 3.0 Consensus size: 88
770525 TTTGAATTTT
* * * *
770535 TTTTCAAACTCACTTTCTACCTTT-TCAATTAAGGCCCTTAAATTTTTTTCAATCTCAATTTCTA
1 TTTTCAATCTCACTTTATACCTTTAT-AATTGAGACCCTTAAATTTTTTTCAATCTCAATTTCTA
*
770599 CCTTTATAATTGAGACCTCTAATG-
65 ACTTTATAATTGAGACCTCTAA-GA
* * * *
770623 TTTT-AATCTCACTTTTTTAGCTTTATAATTGAGACCCTTAAAATTTTTT-AATCTCACTTTCTA
1 TTTTCAATCTCAC-TTTATACCTTTATAATTGAGACCCTTAAATTTTTTTCAATCTCAATTTCTA
* * *
770686 ACTTTCTAATTGAGGCCCCTAAGAA
65 ACTTTATAATTGAGACCTCTAAG-A
* * ** ** *
770711 TTTTCGATCTCA-ATTATACCTTTATAATTGAGTTCC-TATTTTTTTTTCAATCTCAATTTCTAT
1 TTTTCAATCTCACTTTATACCTTTATAATTGAGACCCTTAAATTTTTTTCAATCTCAATTTCTAA
* *
770774 CTTTATAATTAAAACCTCTA
66 CTTTATAATTGAGACCTCTA
770794 TTTTTTTTTT
Statistics
Matches: 138, Mismatches: 27, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
86 9 0.07
87 85 0.62
88 37 0.27
89 7 0.05
ACGTcount: A:0.28, C:0.20, G:0.06, T:0.46
Consensus pattern (88 bp):
TTTTCAATCTCACTTTATACCTTTATAATTGAGACCCTTAAATTTTTTTCAATCTCAATTTCTAA
CTTTATAATTGAGACCTCTAAGA
Found at i:770649 original size:43 final size:43
Alignment explanation
Indices: 770494--770699 Score: 150
Period size: 45 Copynumber: 4.7 Consensus size: 43
770484 CCTAATTTTG
* * ** * *
770494 TAATCTCACTTT-TAACTTTATAATTTAGGCTTTTGAATTTTTTT
1 TAATCTCACTTTCTAACTTTATAATTGAGACCCTT-AA-ATGTTT
* * * * *
770538 TCAAACTCACTTTCTACCTTT-TCAATTAAGGCCCTTAAATTTTTT
1 T-AATCTCACTTTCTAACTTTAT-AATTGAGACCCTTAAA-TGTTT
* *
770583 TCAATCTCAATTTCTACCTTTATAATTGAGA-CCTCT-AATGTTT
1 T-AATCTCACTTTCTAACTTTATAATTGAGACCCT-TAAATGTTT
* * *
770626 TAATCTCACTTTTTTAGCTTTATAATTGAGACCCTTAAAATTTTT
1 TAATCTCAC-TTTCTAACTTTATAATTGAGACCCTT-AAATGTTT
*
770671 TAATCTCACTTTCTAACTTTCTAATTGAG
1 TAATCTCACTTTCTAACTTTATAATTGAG
770700 GCCCCTAAGA
Statistics
Matches: 134, Mismatches: 18, Indels: 20
0.78 0.10 0.12
Matches are distributed among these distances:
42 7 0.05
43 25 0.19
44 26 0.19
45 59 0.44
46 17 0.13
ACGTcount: A:0.27, C:0.18, G:0.06, T:0.48
Consensus pattern (43 bp):
TAATCTCACTTTCTAACTTTATAATTGAGACCCTTAAATGTTT
Found at i:770670 original size:132 final size:131
Alignment explanation
Indices: 770444--770742 Score: 299
Period size: 132 Copynumber: 2.3 Consensus size: 131
770434 TTAAATCTCT
* ** *
770444 AATTTTTTTCAATCCCTTTTTC-ACCTTTATAATCGATGCCCCTAATTTTGTAATCTCACTTTTA
1 AATTTTTTTCAATCTCAATTTCTACCTTTATAATTGA-GCCCCTAATTTTGTAATCTCACTTTTA
* * ** ** *
770508 ACTTTATAATTTAGGCTTTTGAATTTTTTTTCAAACTCACTTTCTACCTTT-TCAATTAAGGCCC
65 ACTTTATAATTGAGACCCTTGAATAATTTTTCAAACTCACTTTCTAACTTTCT-AATTAAGGCCC
*
770572 TTA
129 CTA
*
770575 AATTTTTTTCAATCTCAATTTCTACCTTTATAATTGAGACCTCTAATGTTT-TAATCTCACTTTT
1 AATTTTTTTCAATCTCAATTTCTACCTTTATAATTGAG-CCCCTAAT-TTTGTAATCTCAC--TT
* * * *
770639 TTAGCTTTATAATTGAGACCCTT-AA-AATTTTTTAATCTCACTTTCTAACTTTCTAATTGAGGC
62 TTAACTTTATAATTGAGACCCTTGAATAATTTTTCAAACTCACTTTCTAACTTTCTAATTAAGGC
770702 CCCTA
127 CCCTA
* * *
770707 AGA--ATTTTCGATCTCAA-TTATACCTTTATAATTGAG
1 A-ATTTTTTTCAATCTCAATTTCTACCTTTATAATTGAG
770743 TTCCTATTTT
Statistics
Matches: 141, Mismatches: 20, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
130 18 0.13
131 32 0.23
132 64 0.45
133 7 0.05
134 20 0.14
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.46
Consensus pattern (131 bp):
AATTTTTTTCAATCTCAATTTCTACCTTTATAATTGAGCCCCTAATTTTGTAATCTCACTTTTAA
CTTTATAATTGAGACCCTTGAATAATTTTTCAAACTCACTTTCTAACTTTCTAATTAAGGCCCCT
A
Found at i:770713 original size:45 final size:45
Alignment explanation
Indices: 770376--770783 Score: 199
Period size: 43 Copynumber: 9.4 Consensus size: 45
770366 AAATATTATT
** * * *
770376 TTTC-ACCTTTATAATTGAG-GTCCTAATA-TTATTCAATCTAAC
1 TTTCTACCTTTATAATTGAGACCCCTAAAATTTTTTCAATCTCAC
* * * * * * *
770418 TTTTTATCTTTATAATTTAAATCTCT-AATTTTTTTCAATC-C-C
1 TTTCTACCTTTATAATTGAGACCCCTAAAATTTTTTCAATCTCAC
* * *
770460 TTTTTCACCTTTATAATCGATG-CCCCT--AATTTTGT-AATCTCAC
1 TTTCT-ACCTTTATAATTGA-GACCCCTAAAATTTTTTCAATCTCAC
* * * *** ** *
770503 TTT-TAACTTTATAATTTAGGCTTTTGAATTTTTTTTCAAACTCAC
1 TTTCTACCTTTATAATTGAGACCCCT-AAAATTTTTTCAATCTCAC
* * * * *
770548 TTTCTACCTTT-TCAATTAAGGCCCTTAAATTTTTTTCAATCTCAA
1 TTTCTACCTTTAT-AATTGAGACCCCTAAAATTTTTTCAATCTCAC
* *
770593 TTTCTACCTTTATAATTGAGACCTCT--AATGTTTT-AATCTCAC
1 TTTCTACCTTTATAATTGAGACCCCTAAAATTTTTTCAATCTCAC
* * *
770635 TTTTTTAGCTTTATAATTGAGACCCTTAAAATTTTTT-AATCTCAC
1 -TTTCTACCTTTATAATTGAGACCCCTAAAATTTTTTCAATCTCAC
* * * *
770680 TTTCTAACTTTCTAATTGAGGCCCCTAAGAA--TTTTCGATCTCA-
1 TTTCTACCTTTATAATTGAGACCCCTAA-AATTTTTTCAATCTCAC
* * ** *** *
770723 ATTATACCTTTATAATTGAG-TTCCTATTTTTTTTTCAATCTCAA
1 TTTCTACCTTTATAATTGAGACCCCTAAAATTTTTTCAATCTCAC
*
770767 TTTCTATCTTTATAATT
1 TTTCTACCTTTATAATT
770784 AAAACCTCTA
Statistics
Matches: 276, Mismatches: 67, Indels: 44
0.71 0.17 0.11
Matches are distributed among these distances:
40 1 0.00
41 17 0.06
42 28 0.10
43 90 0.33
44 59 0.21
45 64 0.23
46 17 0.06
ACGTcount: A:0.27, C:0.19, G:0.06, T:0.49
Consensus pattern (45 bp):
TTTCTACCTTTATAATTGAGACCCCTAAAATTTTTTCAATCTCAC
Found at i:776458 original size:2 final size:2
Alignment explanation
Indices: 776451--776485 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
776441 GTAAGTTTAA
776451 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 A
776486 ATAACATTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:776767 original size:31 final size:29
Alignment explanation
Indices: 776668--776768 Score: 112
Period size: 31 Copynumber: 3.3 Consensus size: 29
776658 TTATGATTGG
776668 ATTTAGAGGTTAAATTGATATTTCATCTAAA
1 ATTTAG-GGTTAAATTGATATTT-ATCTAAA
* * * *
776699 ATTTAAGGGTCAAAATGATGTTTTATATAAA
1 ATTT-AGGGTTAAATTGAT-ATTTATCTAAA
776730 ATTTAGGGATTAAATTGATATATTATCTAAA
1 ATTTAGGG-TTAAATTGATAT-TTATCTAAA
776761 ATTTAGGG
1 ATTTAGGG
776769 GTCAAACTCA
Statistics
Matches: 58, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
30 5 0.09
31 48 0.83
32 5 0.09
ACGTcount: A:0.40, C:0.04, G:0.16, T:0.41
Consensus pattern (29 bp):
ATTTAGGGTTAAATTGATATTTATCTAAA
Found at i:780295 original size:18 final size:18
Alignment explanation
Indices: 780272--780341 Score: 77
Period size: 18 Copynumber: 3.7 Consensus size: 18
780262 TTCAGTATTC
*
780272 GTCCCGTAGGACCACTAT
1 GTCCCGAAGGACCACTAT
*
780290 GTCCCGAAGGACCGCTGTATAT
1 GTCCCGAAGGACCAC----TAT
*
780312 GTCCCGTAGGACCACTAT
1 GTCCCGAAGGACCACTAT
780330 GTCCCGAAGGAC
1 GTCCCGAAGGAC
780342 TACTCCTTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
18 27 0.63
22 16 0.37
ACGTcount: A:0.23, C:0.31, G:0.26, T:0.20
Consensus pattern (18 bp):
GTCCCGAAGGACCACTAT
Found at i:781956 original size:64 final size:62
Alignment explanation
Indices: 781848--782004 Score: 156
Period size: 64 Copynumber: 2.5 Consensus size: 62
781838 TAATGAAGGT
* * * **
781848 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAATGCATTCGATG-TTGTATTATTATAGGG
1 ATGCATCGATGCA-TACTAATGCATCGATGCATAAAATGCATTCGATGTTTCTATT-TTA-AAAG
* * *
781912 ATGCATCGATGCATGACTTATGCATCGATGCACT-AATTGTATTCGATGTTTCTATTTTAAAAG
1 ATGCATCGATGCAT-ACTAATGCATCGATGCA-TAAAATGCATTCGATGTTTCTATTTTAAAAG
*
781975 AGTGCATCGATGCATTACCAATGCATCGAT
1 A-TGCATCGATGCA-TACTAATGCATCGAT
782005 ACACCTTCAA
Statistics
Matches: 79, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
63 4 0.05
64 67 0.85
65 8 0.10
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (62 bp):
ATGCATCGATGCATACTAATGCATCGATGCATAAAATGCATTCGATGTTTCTATTTTAAAAG
Found at i:783885 original size:25 final size:24
Alignment explanation
Indices: 783840--783889 Score: 57
Period size: 25 Copynumber: 2.0 Consensus size: 24
783830 GTCAAGTTAG
* *
783840 AATAAAATCCACTCGTTTTATATTT
1 AATAAAATACACTCGTATTAT-TTT
783865 AATAAAATACACTTC-TATTATTTT
1 AATAAAATACAC-TCGTATTATTTT
783889 A
1 A
783890 TAATACCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 4 0.18
25 16 0.73
26 2 0.09
ACGTcount: A:0.40, C:0.14, G:0.02, T:0.44
Consensus pattern (24 bp):
AATAAAATACACTCGTATTATTTT
Found at i:784725 original size:21 final size:21
Alignment explanation
Indices: 784699--784793 Score: 127
Period size: 21 Copynumber: 4.5 Consensus size: 21
784689 GCTGATATGT
*
784699 TGCTTCTCTCTGTGTTGCCGC
1 TGCTTCTCTCTGTGCTGCCGC
*
784720 TGCTTCTCTCTGTGCTGTCGC
1 TGCTTCTCTCTGTGCTGCCGC
* *
784741 TGCTTCTCTCTGTGCTGTCGT
1 TGCTTCTCTCTGTGCTGCCGC
* *
784762 TGCTTCTCACTGTGCTGCTGC
1 TGCTTCTCTCTGTGCTGCCGC
*
784783 TGCTGCTCTCT
1 TGCTTCTCTCT
784794 CTGTTTCTCT
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 65 1.00
ACGTcount: A:0.01, C:0.33, G:0.23, T:0.43
Consensus pattern (21 bp):
TGCTTCTCTCTGTGCTGCCGC
Found at i:784807 original size:42 final size:42
Alignment explanation
Indices: 784699--784809 Score: 113
Period size: 42 Copynumber: 2.6 Consensus size: 42
784689 GCTGATATGT
* * *
784699 TGCTTCTCTCTGTGTTGC-CGCTGCTTCTCTCTGTGCTGTCGC
1 TGCTTCTCTCTGTGCT-CTCGTTGCTTCTCACTGTGCTGTCGC
*
784741 TGCTTCTCTCTGTGCTGTCGTTGCTTCTCACTGTGCTG-CTGC
1 TGCTTCTCTCTGTGCTCTCGTTGCTTCTCACTGTGCTGTC-GC
*
784783 TGCTGCTCTCTCTGT-TTCTC-TTGCTTC
1 TGCT--TCTCTCTGTGCTCTCGTTGCTTC
784810 ATTTTCGGCT
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
41 1 0.02
42 46 0.78
43 3 0.05
44 9 0.15
ACGTcount: A:0.01, C:0.32, G:0.22, T:0.45
Consensus pattern (42 bp):
TGCTTCTCTCTGTGCTCTCGTTGCTTCTCACTGTGCTGTCGC
Found at i:786855 original size:20 final size:20
Alignment explanation
Indices: 786832--786929 Score: 54
Period size: 20 Copynumber: 4.5 Consensus size: 20
786822 GAATTTTTTT
786832 AAAATTTTATAATTTATATA
1 AAAATTTTATAATTTATATA
** *
786852 AAAATTAAATATTTTATAATTAA
1 AAAATTTTATAATTTAT-A-T-A
* *
786875 AAAATAGTTTATAATTAATTTA
1 AAAAT--TTTATAATTTATATA
* *
786897 AATAA-TATATAATTATAAAATA
1 AA-AATTTTATAATT-T-ATATA
786919 AAAATTTTATA
1 AAAATTTTATA
786930 TAAAATTTTT
Statistics
Matches: 56, Mismatches: 13, Indels: 16
0.66 0.15 0.19
Matches are distributed among these distances:
20 22 0.39
21 3 0.05
22 14 0.25
23 9 0.16
25 8 0.14
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (20 bp):
AAAATTTTATAATTTATATA
Found at i:786879 original size:18 final size:18
Alignment explanation
Indices: 786858--786892 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
786848 TATAAAAATT
*
786858 AAATATTTTATAATTAAA
1 AAATAGTTTATAATTAAA
786876 AAATAGTTTATAATTAA
1 AAATAGTTTATAATTAA
786893 TTTAAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (18 bp):
AAATAGTTTATAATTAAA
Found at i:786886 original size:38 final size:38
Alignment explanation
Indices: 786844--786918 Score: 89
Period size: 38 Copynumber: 2.0 Consensus size: 38
786834 AATTTTATAA
* *
786844 TTTAT-ATAAAAATTAAATATTTTATAATTAAAAAATAG
1 TTTATAAT-AAAATTAAATAATATATAATTAAAAAATAG
* * *
786882 TTTATAATTAATTTAAATAATATATAATTATAAAATA
1 TTTATAATAAAATTAAATAATATATAATTAAAAAATA
786919 AAAATTTTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
38 29 0.94
39 2 0.06
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (38 bp):
TTTATAATAAAATTAAATAATATATAATTAAAAAATAG
Found at i:786917 original size:18 final size:18
Alignment explanation
Indices: 786866--786919 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
786856 TTAAATATTT
* * *
786866 TATAATTAAAAAATAGTT
1 TATAATTATAAAATAATA
*
786884 TATAATTAATTTAAATAATA
1 TATAATT-A-TAAAATAATA
786904 TATAATTATAAAATAA
1 TATAATTATAAAATAA
786920 AAATTTTATA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
18 14 0.48
19 2 0.07
20 13 0.45
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (18 bp):
TATAATTATAAAATAATA
Found at i:787187 original size:185 final size:184
Alignment explanation
Indices: 786845--787234 Score: 610
Period size: 185 Copynumber: 2.1 Consensus size: 184
786835 ATTTTATAAT
* *
786845 TTATATAAAA-AT-TA-AATATTTTATAATTAAAAAATAGTTTATAATTAATTTAAATAATATAT
1 TTATATAAAATATATATAATATTTTATAATTAAAAAATAATTTACAATTAATTTAAATAATATAT
* *
786907 AATTATAAAATAAAAATTTTATATAAAATTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTT
66 AATTATAAAATAAAAAATTTATATAAAATTTTTAATTAATTAATATTGATTTAGATTTAAAAGTT
* *
786972 ATTAGATCTTAAATTATTAATTGAGTTTTAAATGATTTGGGCTGAGCCTATTTG
131 ATTAGATCTTAAATTATTAATTGAGTTTTAAATGATTTGGGCTGAGCCCATATG
* *
787026 TTATATATAATATATATAATATTTTTTAATTCAGAAAAATAATTTACAATTAATTTAAATAATAT
1 TTATATAAAATATATATAATATTTTATAATT-A-AAAAATAATTTACAATTAATTTAAATAATAT
*
787091 ATAATTATAAAATAAAAAATTTATAT-AATTTTTTAATTAATTAATATTGATTTAGATTTAAAAG
64 ATAATTATAAAATAAAAAATTTATATAAAATTTTTAATTAATTAATATTGATTTAGATTTAAAAG
* *
787155 TTATT-GAATCTTAAATTATTAATTGAGTTTTAAATGGTTTGGGTTGAGCCCATATG
129 TTATTAG-ATCTTAAATTATTAATTGAGTTTTAAATGATTTGGGCTGAGCCCATATG
*
787211 TTATATAAAATATATTTAATATTT
1 TTATATAAAATATATATAATATTT
787235 AAAATTTTAT
Statistics
Matches: 190, Mismatches: 13, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
181 9 0.05
182 2 0.01
183 2 0.01
184 14 0.07
185 109 0.57
186 54 0.28
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.46
Consensus pattern (184 bp):
TTATATAAAATATATATAATATTTTATAATTAAAAAATAATTTACAATTAATTTAAATAATATAT
AATTATAAAATAAAAAATTTATATAAAATTTTTAATTAATTAATATTGATTTAGATTTAAAAGTT
ATTAGATCTTAAATTATTAATTGAGTTTTAAATGATTTGGGCTGAGCCCATATG
Found at i:792073 original size:16 final size:16
Alignment explanation
Indices: 792052--792084 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
792042 TAATAAATAA
*
792052 ACGAACATAAACGAAC
1 ACGAACATAAACAAAC
792068 ACGAACATAAACAAAC
1 ACGAACATAAACAAAC
792084 A
1 A
792085 ATTTTTTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.61, C:0.24, G:0.09, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACAAAC
Found at i:792173 original size:16 final size:16
Alignment explanation
Indices: 792148--792186 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
792138 CATTTAATAA
792148 ATAAACGAACACGAAC
1 ATAAACGAACACGAAC
*
792164 ATAAATGAACACGAAC
1 ATAAACGAACACGAAC
792180 ATAAACG
1 ATAAACG
792187 TTGGAGACCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.56, C:0.21, G:0.13, T:0.10
Consensus pattern (16 bp):
ATAAACGAACACGAAC
Found at i:793294 original size:14 final size:14
Alignment explanation
Indices: 793277--793308 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
793267 AAAGAACATA
793277 AACGAACATAACCG
1 AACGAACATAACCG
*
793291 AACGAACATAACTG
1 AACGAACATAACCG
793305 AACG
1 AACG
793309 TTCACGAACG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.50, C:0.25, G:0.16, T:0.09
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:796539 original size:9 final size:9
Alignment explanation
Indices: 796481--796541 Score: 65
Period size: 9 Copynumber: 6.9 Consensus size: 9
796471 TTGTAGCTTA
796481 AAAGAGAAG
1 AAAGAGAAG
796490 -AAGAGAAGG
1 AAAGAGAA-G
*
796499 CTAAGA-AAG
1 -AAAGAGAAG
796508 AAAG-GAAG
1 AAAGAGAAG
*
796516 AAAGAAAAG
1 AAAGAGAAG
796525 AAAGAGAAG
1 AAAGAGAAG
796534 AAAGAGAA
1 AAAGAGAA
796542 AAAACGGGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
8 17 0.39
9 21 0.48
10 2 0.05
11 4 0.09
ACGTcount: A:0.66, C:0.02, G:0.31, T:0.02
Consensus pattern (9 bp):
AAAGAGAAG
Found at i:803570 original size:20 final size:20
Alignment explanation
Indices: 803547--803745 Score: 114
Period size: 20 Copynumber: 9.8 Consensus size: 20
803537 TCTCCGGTAT
*
803547 CGTAAATCGTAATGCGATTA
1 CGTAAATCGCAATGCGATTA
* * *
803567 CGT-ATTCGCATTGCGATTTT
1 CGTAAATCGCAATGCGA-TTA
* * *
803587 CCTAATTCGCATTGCGATTTA
1 CGTAAATCGCAATGCGA-TTA
* * * * *
803608 TGT-ATTCGTATTGCGATTTT
1 CGTAAATCGCAATGCGA-TTA
* * * *
803628 CATAATTCGTAATGCGAATA
1 CGTAAATCGCAATGCGATTA
* *
803648 CGTAAATCGTAACGCGATTA
1 CGTAAATCGCAATGCGATTA
* * *
803668 AGTAAATCGCAACGCAATTA
1 CGTAAATCGCAATGCGATTA
*
803688 AGTAAATCGCAATGCGAATTA
1 CGTAAATCGCAATGCG-ATTA
* * * *
803709 GGAAAATCGTAATGCGAATA
1 CGTAAATCGCAATGCGATTA
803729 CGTAAATCGCAATGCGA
1 CGTAAATCGCAATGCGA
803746 ATCTGACTAT
Statistics
Matches: 144, Mismatches: 31, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
19 10 0.07
20 88 0.61
21 46 0.32
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (20 bp):
CGTAAATCGCAATGCGATTA
Found at i:803638 original size:21 final size:21
Alignment explanation
Indices: 803570--803636 Score: 84
Period size: 21 Copynumber: 3.2 Consensus size: 21
803560 GCGATTACGT
*
803570 ATTCGCATTGCGATTTTCCTA
1 ATTCGCATTGCGATTTTCATA
*
803591 ATTCGCATTGCGA-TTT-ATGT
1 ATTCGCATTGCGATTTTCAT-A
*
803611 ATTCGTATTGCGATTTTCATA
1 ATTCGCATTGCGATTTTCATA
803632 ATTCG
1 ATTCG
803637 TAATGCGAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
19 1 0.03
20 15 0.38
21 21 0.54
22 2 0.05
ACGTcount: A:0.21, C:0.18, G:0.16, T:0.45
Consensus pattern (21 bp):
ATTCGCATTGCGATTTTCATA
Found at i:803643 original size:21 final size:20
Alignment explanation
Indices: 803570--803644 Score: 71
Period size: 21 Copynumber: 3.6 Consensus size: 20
803560 GCGATTACGT
* *
803570 ATTCGCATTGCGATTTTCCTA
1 ATTCGTATTGCGA-TTTCATA
* *
803591 ATTCGCATTGCGATTT-ATGT
1 ATTCGTATTGCGATTTCAT-A
803611 ATTCGTATTGCGATTTTCATA
1 ATTCGTATTGCGA-TTTCATA
*
803632 ATTCGTAATGCGA
1 ATTCGTATTGCGA
803645 ATACGTAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
19 1 0.02
20 15 0.33
21 28 0.61
22 2 0.04
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.43
Consensus pattern (20 bp):
ATTCGTATTGCGATTTCATA
Found at i:803658 original size:41 final size:40
Alignment explanation
Indices: 803553--803651 Score: 135
Period size: 41 Copynumber: 2.5 Consensus size: 40
803543 GTATCGTAAA
* *
803553 TCGTAATGCGATTACGTATTCGCATTGCGATTTTCCTAAT
1 TCGTAATGCGATTACGTATTCGTATTGCGATTTTCATAAT
* * *
803593 TCGCATTGCGATTTATGTATTCGTATTGCGATTTTCATAAT
1 TCGTAATGCGA-TTACGTATTCGTATTGCGATTTTCATAAT
*
803634 TCGTAATGCGAATACGTA
1 TCGTAATGCGATTACGTA
803652 AATCGTAACG
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
40 14 0.29
41 35 0.71
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.40
Consensus pattern (40 bp):
TCGTAATGCGATTACGTATTCGTATTGCGATTTTCATAAT
Found at i:803715 original size:21 final size:21
Alignment explanation
Indices: 803638--803747 Score: 120
Period size: 20 Copynumber: 5.4 Consensus size: 21
803628 CATAATTCGT
* *
803638 AATGCGAA-TACGTAAATCGT
1 AATGCGAATTAAGTAAATCGC
*
803658 AACGCG-ATTAAGTAAATCGC
1 AATGCGAATTAAGTAAATCGC
*
803678 AACGC-AATTAAGTAAATCGC
1 AATGCGAATTAAGTAAATCGC
* * *
803698 AATGCGAATTAGGAAAATCGT
1 AATGCGAATTAAGTAAATCGC
*
803719 AATGCGAA-TACGTAAATCGC
1 AATGCGAATTAAGTAAATCGC
803739 AATGCGAAT
1 AATGCGAAT
803748 CTGACTATCG
Statistics
Matches: 76, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
19 1 0.01
20 55 0.72
21 20 0.26
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.22
Consensus pattern (21 bp):
AATGCGAATTAAGTAAATCGC
Found at i:803734 original size:41 final size:41
Alignment explanation
Indices: 803634--803747 Score: 142
Period size: 41 Copynumber: 2.8 Consensus size: 41
803624 TTTTCATAAT
* * *
803634 TCGTAATGCGAATACGTAAATCGTAACGCG-ATTAAGTAAA
1 TCGTAATGCGAATACGTAAATCGCAATGCGAATTAAGAAAA
* * * *
803674 TCGCAACGC-AATTAAGTAAATCGCAATGCGAATTAGGAAAA
1 TCGTAATGCGAA-TACGTAAATCGCAATGCGAATTAAGAAAA
803715 TCGTAATGCGAATACGTAAATCGCAATGCGAAT
1 TCGTAATGCGAATACGTAAATCGCAATGCGAAT
803748 CTGACTATCG
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
39 2 0.03
40 22 0.36
41 35 0.57
42 2 0.03
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (41 bp):
TCGTAATGCGAATACGTAAATCGCAATGCGAATTAAGAAAA
Found at i:804339 original size:19 final size:19
Alignment explanation
Indices: 804294--804360 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
804284 TTCGAGAATG
*
804294 AAAATCGCAACGCGGAAATG
1 AAAATCGCAACGC-GAAATA
**
804314 ACCATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
**
804333 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATA
804352 AAAATCGCA
1 AAAATCGCA
804361 TTGCGATTCT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
19 29 0.73
20 11 0.28
ACGTcount: A:0.46, C:0.27, G:0.18, T:0.09
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:804380 original size:14 final size:14
Alignment explanation
Indices: 804361--804414 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
804351 CAAAATCGCA
804361 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
804375 TTGCGATTTTCATTTCGTG
1 TTGCGA--TTC-TCTC--G
804394 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
804408 TTGCGAT
1 TTGCGAT
804415 AGTCATTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 14 0.42
16 6 0.18
17 6 0.18
19 7 0.21
ACGTcount: A:0.09, C:0.22, G:0.22, T:0.46
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:804403 original size:33 final size:33
Alignment explanation
Indices: 804356--804463 Score: 117
Period size: 33 Copynumber: 3.1 Consensus size: 33
804346 GAAACCAAAA
*
804356 TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
* **
804389 TCGTGTTGCGATTCTCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
804422 TCCGCGTTGCGATTTTCATTCTCTCGTTGCGATTTTCATT
1 T-CGCGTTGCG------ATTCTCTCGTTGCGATTTTCATT
804462 TC
1 TC
804464 AACCAAAAGA
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
33 30 0.49
34 8 0.13
39 1 0.02
40 22 0.36
ACGTcount: A:0.11, C:0.24, G:0.19, T:0.45
Consensus pattern (33 bp):
TCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:804440 original size:20 final size:21
Alignment explanation
Indices: 804400--804463 Score: 78
Period size: 20 Copynumber: 3.1 Consensus size: 21
804390 CGTGTTGCGA
* **
804400 TTCTCTCGTTGCGATAGTCAT
1 TTCTCGCGTTGCGATTTTCAT
804421 TTC-CGCGTTGCGATTTTCA-
1 TTCTCGCGTTGCGATTTTCAT
*
804440 TTCTCTCGTTGCGATTTTCAT
1 TTCTCGCGTTGCGATTTTCAT
804461 TTC
1 TTC
804464 AACCAAAAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
19 3 0.08
20 28 0.76
21 6 0.16
ACGTcount: A:0.11, C:0.25, G:0.17, T:0.47
Consensus pattern (21 bp):
TTCTCGCGTTGCGATTTTCAT
Found at i:806366 original size:94 final size:91
Alignment explanation
Indices: 806138--806415 Score: 397
Period size: 94 Copynumber: 3.1 Consensus size: 91
806128 TAGATTGCTT
* * *
806138 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAAC-TGT-TT-ATTAACACTGTGAAGTTAGTA
1 AGTAAATTTGTTC-GTTGCTGCCAATTCTGCTAAACGTGTATTCTTTAACACTGTGAAGTTAGTA
*
806200 TTTGTCTTTTGTTTTATCTTTTGGTTGA
65 TTTGTC-TTTGTTTTGTCTTTTGGTTGA
*
806228 AGTATATTTG---GTTGCTGCCAATTCTGCTAAACCGTGTATTCTTTAACACTGTGAAGTTAGTA
1 AGTAAATTTGTTCGTTGCTGCCAATTCTGCTAAA-CGTGTATTCTTTAACACTGTGAAGTTAGTA
806290 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
65 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
* *
806318 AGTAAATTTGTTCGTTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTGTTCG-TTGCTGCCAATTCTGCTAAAC-GTGTATTCTTTAACACTGTGAAGTTAGT
806383 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
64 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
806411 AGTAA
1 AGTAA
806416 TGCAATCCAT
Statistics
Matches: 170, Mismatches: 8, Indels: 17
0.87 0.04 0.09
Matches are distributed among these distances:
86 20 0.12
87 1 0.01
88 3 0.02
89 21 0.12
90 44 0.26
93 8 0.05
94 73 0.43
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.47
Consensus pattern (91 bp):
AGTAAATTTGTTCGTTGCTGCCAATTCTGCTAAACGTGTATTCTTTAACACTGTGAAGTTAGTAT
TTGTCTTTGTTTTGTCTTTTGGTTGA
Found at i:806555 original size:19 final size:19
Alignment explanation
Indices: 806504--806594 Score: 75
Period size: 19 Copynumber: 5.0 Consensus size: 19
806494 TCTTTTGGTT
*
806504 GAAATAAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
** **
806523 GAGAATGACTATCGCAACTC
1 GA-AATGAAAATCGCAACGA
806543 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
806562 G--A-G--AATCGCAACGT
1 GAAATGAAAATCGCAACGA
*
806576 GAAATGAAAATCACAACGA
1 GAAATGAAAATCGCAACGA
806595 CAAAATCGCA
Statistics
Matches: 54, Mismatches: 12, Indels: 12
0.69 0.15 0.15
Matches are distributed among these distances:
14 11 0.20
16 2 0.04
17 2 0.04
19 25 0.46
20 14 0.26
ACGTcount: A:0.48, C:0.19, G:0.20, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:806580 original size:33 final size:33
Alignment explanation
Indices: 806533--806627 Score: 111
Period size: 33 Copynumber: 2.8 Consensus size: 33
806523 GAGAATGACT
* *
806533 ATCGCAAC-TCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGT-GAAATGAAAATCGCAACGACAAA
*
806566 ATCGCAACGTGAAATGAAAATCACAACGACAAA
1 ATCGCAACGTGAAATGAAAATCGCAACGACAAA
* **
806599 ATCGCAACGCGAAACCAAAAATCGCAACG
1 ATCGCAACGTGAAA-TGAAAATCGCAACG
806628 CGATTATAGT
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
33 41 0.77
34 12 0.23
ACGTcount: A:0.47, C:0.24, G:0.18, T:0.11
Consensus pattern (33 bp):
ATCGCAACGTGAAATGAAAATCGCAACGACAAA
Found at i:806680 original size:19 final size:20
Alignment explanation
Indices: 806656--806707 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 20
806646 GCGATTTTGT
*
806656 CGTTGCGATTTTCA-TTTCG
1 CGTTGCGATTTTCATTTTCA
**
806675 CGTTGCGATAGTCATTTTTCA
1 CGTTGCGATTTTCA-TTTTCA
806696 CGTTGCGATTTT
1 CGTTGCGATTTT
806708 AAGTTCCAGA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 12 0.46
21 14 0.54
ACGTcount: A:0.13, C:0.19, G:0.21, T:0.46
Consensus pattern (20 bp):
CGTTGCGATTTTCATTTTCA
Found at i:807184 original size:21 final size:21
Alignment explanation
Indices: 807160--807226 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
807150 TCATTCCTCG
807160 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
807181 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
807202 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
807223 AGAG
1 AGAG
807227 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:807184 original size:42 final size:42
Alignment explanation
Indices: 807108--807226 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
807098 GACTCTCCTG
* * * * * * *
807108 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
807150 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
807192 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
807227 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 58 0.91
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:808773 original size:19 final size:19
Alignment explanation
Indices: 808705--808766 Score: 90
Period size: 19 Copynumber: 3.3 Consensus size: 19
808695 AAAAATGACT
*
808705 ATCGCAATGCGAAA-TGAAA
1 ATCGCAACGCGAAACT-AAA
808724 ATCGCAACGCGAAACTAAA
1 ATCGCAACGCGAAACTAAA
808743 ATCGCAACGCGAAACTAAA
1 ATCGCAACGCGAAACTAAA
*
808762 TTCGC
1 ATCGC
808767 GTTGCGATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
19 39 0.98
20 1 0.03
ACGTcount: A:0.44, C:0.24, G:0.18, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAACTAAA
Found at i:808784 original size:19 final size:19
Alignment explanation
Indices: 808762--808912 Score: 89
Period size: 19 Copynumber: 8.7 Consensus size: 19
808752 CGAAACTAAA
808762 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* *
808781 TTCGCTTTGC-A-ATTC--
1 TTCGCGTTGCGATTTTCAT
* *
808796 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
808814 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
808829 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
808847 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
808862 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* **
808880 TTCGCATTGCGATAGTCATT
1 TTCGCGTTGCGATTTTCA-T
808900 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
808913 AGACATTAAG
Statistics
Matches: 96, Mismatches: 20, Indels: 31
0.65 0.14 0.21
Matches are distributed among these distances:
14 24 0.25
15 1 0.01
16 9 0.09
17 9 0.09
18 1 0.01
19 39 0.41
20 13 0.14
ACGTcount: A:0.13, C:0.24, G:0.19, T:0.44
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:808803 original size:33 final size:33
Alignment explanation
Indices: 808766--808892 Score: 227
Period size: 33 Copynumber: 3.8 Consensus size: 33
808756 ACTAAATTCG
* * *
808766 CGTTGCGATTTTCATTTCGCTTTGCAATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
808799 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
808832 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
808865 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
808893 AGTCATTTTC
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 91 1.00
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:808839 original size:14 final size:14
Alignment explanation
Indices: 808820--808874 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
808810 TCATTTCGCA
808820 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
808834 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
808851 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
808867 TTGCGATT
1 TTGCGATT
808875 TTCATTTCGC
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 14 0.41
16 7 0.21
17 7 0.21
19 6 0.18
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.45
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:808904 original size:20 final size:20
Alignment explanation
Indices: 808879--808919 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
808869 GCGATTTTCA
*
808879 TTTCGCATTGCGATAGTCAT
1 TTTCGCATTGCGATAGACAT
*
808899 TTTCGCGTTGCGATAGACAT
1 TTTCGCATTGCGATAGACAT
808919 T
1 T
808920 AAGATGATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.39
Consensus pattern (20 bp):
TTTCGCATTGCGATAGACAT
Found at i:808958 original size:20 final size:20
Alignment explanation
Indices: 808886--808958 Score: 60
Period size: 20 Copynumber: 3.6 Consensus size: 20
808876 TCATTTCGCA
* *
808886 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTACGTG
* *
808906 TTGCGATAGACA-TTAAGATG
1 TTGCGATAGTCATTTACG-TG
*
808926 ATTGCGA-ACGTCATTTCCGTG
1 -TTGCGATA-GTCATTTACGTG
808947 TTGCGATAGTCA
1 TTGCGATAGTCA
808959 AATGAATGCC
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
19 3 0.07
20 23 0.56
21 12 0.29
22 3 0.07
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (20 bp):
TTGCGATAGTCATTTACGTG
Done.