Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000402.1 Hibiscus syriacus cultivar Beakdansim tig00000738_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: 1701760
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 7
Found at i:278359 original size:18 final size:18
Alignment explanation
Indices: 278336--278371 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
278326 AAGCCGGTTG
*
278336 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
278354 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
278372 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.25, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:280659 original size:24 final size:24
Alignment explanation
Indices: 280625--280678 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
280615 CCATCACATC
280625 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
280649 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
280673 ATCAAA
1 ATCAAA
280679 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:280692 original size:24 final size:24
Alignment explanation
Indices: 280625--280692 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
280615 CCATCACATC
* * *
280625 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
280649 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
280673 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
280693 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:281421 original size:14 final size:15
Alignment explanation
Indices: 281387--281424 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
281377 GAAATCATTG
281387 AAAAATTATATAGAA
1 AAAAATTATATAGAA
281402 ATAAAATTATATA-AA
1 A-AAAATTATATAGAA
281417 AAAAATTA
1 AAAAATTA
281425 GAGATGGGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.32
15 4 0.18
16 11 0.50
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (15 bp):
AAAAATTATATAGAA
Found at i:281647 original size:20 final size:20
Alignment explanation
Indices: 281619--281665 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
281609 TGACTTCTGT
*
281619 GTTGTGATTTACAAATTCGC
1 GTTGCGATTTACAAATTCGC
*
281639 GTTGCGATTTACAGATTCGC
1 GTTGCGATTTACAAATTCGC
281659 GTTGCGA
1 GTTGCGA
281666 AATTGGAAAT
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:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (20 bp):
GTTGCGATTTACAAATTCGC
Found at i:281702 original size:20 final size:21
Alignment explanation
Indices: 281631--281706 Score: 77
Period size: 20 Copynumber: 3.8 Consensus size: 21
281621 TGTGATTTAC
* **
281631 AAATTCGCGTTGCG-ATTTAC
1 AAATTCGCGTTGCGAAATTGG
*
281651 AGATTCGCGTTGCGAAATTGG
1 AAATTCGCGTTGCGAAATTGG
*
281672 AAATT-GGGTTGCGAAATTGG
1 AAATTCGCGTTGCGAAATTGG
*
281692 -AGTTCGCGTTGCGAA
1 AAATTCGCGTTGCGAA
281707 TTTGTTGGTC
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
19 3 0.07
20 36 0.78
21 7 0.15
ACGTcount: A:0.25, C:0.14, G:0.30, T:0.30
Consensus pattern (21 bp):
AAATTCGCGTTGCGAAATTGG
Found at i:283467 original size:2 final size:2
Alignment explanation
Indices: 283462--283514 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
283452 TTCACAGCAA
283462 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
*
283504 AT AT AT GT AT A
1 AT AT AT AT AT A
283515 CCATTGATAT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:292695 original size:69 final size:69
Alignment explanation
Indices: 292615--292750 Score: 227
Period size: 69 Copynumber: 2.0 Consensus size: 69
292605 TTTCACCTCC
* **
292615 ACAACAATCACCTCCATTGCTATCTACATCCACCACTATTCCTTCTTCATCATATACTTTATCAC
1 ACAACAATCACCTCCATTGCTACCTACATCCACCACTATTCCACCTTCATCATATACTTTATCAC
292680 CTTT
66 CTTT
* *
292684 ACAACAGTCACCTCCATTGCTACCTACATCCACCACTATTCCACCTTCATCATCTACTTTATCAC
1 ACAACAATCACCTCCATTGCTACCTACATCCACCACTATTCCACCTTCATCATATACTTTATCAC
292749 CT
66 CT
292751 CCATTGCTAC
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 62 1.00
ACGTcount: A:0.27, C:0.38, G:0.02, T:0.33
Consensus pattern (69 bp):
ACAACAATCACCTCCATTGCTACCTACATCCACCACTATTCCACCTTCATCATATACTTTATCAC
CTTT
Found at i:294829 original size:162 final size:162
Alignment explanation
Indices: 294651--294965 Score: 603
Period size: 162 Copynumber: 1.9 Consensus size: 162
294641 AATTTAACTT
294651 GATAAATTCGCAAGTAATTCGTTACTTTTTTAATTATTTTTTAGTAATTACCTTAAAAATTGTTT
1 GATAAATTCGCAAGTAATTCGTTACTTTTTTAATTATTTTTTAGTAATTACCTTAAAAATTGTTT
294716 CATTAAAAAATCTAATTAATAATTATTAATTTATTACTAGATAATAAAAGTGATACTAAATTACT
66 CATTAAAAAATCTAATTAATAATTATTAATTTATTACTAGATAATAAAAGTGATACTAAATTACT
*
294781 AATTAATAATTACTACTTATTTAACTTGACTC
131 AATTAATAATTACTACTAATTTAACTTGACTC
294813 GATAAATTCGCAAGTAATTCGTTACTTTTTTAATTATTTTTTAGTAATTACCTTAAAAATTGTTT
1 GATAAATTCGCAAGTAATTCGTTACTTTTTTAATTATTTTTTAGTAATTACCTTAAAAATTGTTT
* *
294878 CATTAAAAAATCTAATTATTAATTATTAATTTATTACTGGATAATAAAAGTGATACTAAATTACT
66 CATTAAAAAATCTAATTAATAATTATTAATTTATTACTAGATAATAAAAGTGATACTAAATTACT
294943 AATTAATAATTACTACTAATTTA
131 AATTAATAATTACTACTAATTTA
294966 TTATTTTTAA
Statistics
Matches: 150, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
162 150 1.00
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.44
Consensus pattern (162 bp):
GATAAATTCGCAAGTAATTCGTTACTTTTTTAATTATTTTTTAGTAATTACCTTAAAAATTGTTT
CATTAAAAAATCTAATTAATAATTATTAATTTATTACTAGATAATAAAAGTGATACTAAATTACT
AATTAATAATTACTACTAATTTAACTTGACTC
Found at i:298558 original size:39 final size:39
Alignment explanation
Indices: 298430--298546 Score: 209
Period size: 39 Copynumber: 3.0 Consensus size: 39
298420 AATGTATGTG
*
298430 TGAGTTATATTAAGATTAGGATTAATTATTAGTATTTTA
1 TGAGTTATATTACGATTAGGATTAATTATTAGTATTTTA
298469 TGAGTTATATTACGATTAGGATTAATTATTAGTATTTTA
1 TGAGTTATATTACGATTAGGATTAATTATTAGTATTTTA
*
298508 TGAGTTATATTACGATCAGGATTAATTATTAGT-TTTTA
1 TGAGTTATATTACGATTAGGATTAATTATTAGTATTTTA
298546 T
1 T
298547 TTTATTTTAT
Statistics
Matches: 76, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
38 6 0.08
39 70 0.92
ACGTcount: A:0.33, C:0.03, G:0.15, T:0.49
Consensus pattern (39 bp):
TGAGTTATATTACGATTAGGATTAATTATTAGTATTTTA
Found at i:300637 original size:81 final size:81
Alignment explanation
Indices: 300502--300743 Score: 396
Period size: 81 Copynumber: 3.0 Consensus size: 81
300492 AAACACAACC
* *
300502 ACCTAACACCACTACCGCACCTAACATT-AAAATCATACACCAAACCATTAACCCATTGGACTCT
1 ACCTAACACCACTACCACACCTGACATTGAAAA-CATACACCAAACCATTAACCCATTGGACTCT
* *
300566 TCAAAAACACCAAATCA
65 CCTAAAACACCAAATCA
*
300583 ACCTAACACCACTACCACACCTGACATTGAAAACATACACCAAATCATTAACCCATTGGACTCTC
1 ACCTAACACCACTACCACACCTGACATTGAAAACATACACCAAACCATTAACCCATTGGACTCTC
*
300648 CTAAAACACCAAATCC
66 CTAAAACACCAAATCA
* *
300664 ACCTAACACCACTACCACACCTGACACTGAAAACATACACCAAACCATTAACCCATTGGATTCTC
1 ACCTAACACCACTACCACACCTGACATTGAAAACATACACCAAACCATTAACCCATTGGACTCTC
300729 CTAAAACACCAAATC
66 CTAAAACACCAAATC
300744 CATTTGTGTC
Statistics
Matches: 151, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
81 147 0.97
82 4 0.03
ACGTcount: A:0.42, C:0.36, G:0.05, T:0.18
Consensus pattern (81 bp):
ACCTAACACCACTACCACACCTGACATTGAAAACATACACCAAACCATTAACCCATTGGACTCTC
CTAAAACACCAAATCA
Found at i:303615 original size:41 final size:41
Alignment explanation
Indices: 303558--303635 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
303548 TAATGCAGAA
303558 AATCAAGCACATGGCAACAAACTTACTATCCATTATCATTT
1 AATCAAGCACATGGCAACAAACTTACTATCCATTATCATTT
*
303599 AATCAAGCACATGGCAACAAACTTATTATCCATTATC
1 AATCAAGCACATGGCAACAAACTTACTATCCATTATC
303636 CTTTTAACAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.40, C:0.24, G:0.08, T:0.28
Consensus pattern (41 bp):
AATCAAGCACATGGCAACAAACTTACTATCCATTATCATTT
Found at i:327002 original size:52 final size:50
Alignment explanation
Indices: 326852--327014 Score: 200
Period size: 52 Copynumber: 3.1 Consensus size: 50
326842 TATCCAATTT
* *
326852 TTTTAAGAGAAAAATGTTTTTTATTATTGATATAATTTAATAAATTCAAAAAAA
1 TTTTAAGAGAAAAATCTTTTTTATTATTGATATAATTTAATAAATT----TAAA
* * *
326906 ATTTAAGAGAACAATGCCTTTTTATTATTGATATAATTTAATAAATTTAAGA
1 TTTTAAGAGAAAAAT-CTTTTTTATTATTGATATAATTTAATAAATTTAA-A
* *
326958 TTTTCAAGAGAATAATTTTTTTTATTATTGATATAATTTAATAAATTTAAA
1 TTTT-AAGAGAAAAATCTTTTTTATTATTGATATAATTTAATAAATTTAAA
327009 TTTTAA
1 TTTTAA
327015 TGCTTAAAAG
Statistics
Matches: 97, Mismatches: 9, Indels: 10
0.84 0.08 0.09
Matches are distributed among these distances:
50 2 0.02
51 7 0.07
52 36 0.37
53 10 0.10
54 13 0.13
55 29 0.30
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (50 bp):
TTTTAAGAGAAAAATCTTTTTTATTATTGATATAATTTAATAAATTTAAA
Found at i:328580 original size:18 final size:18
Alignment explanation
Indices: 328557--328594 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
328547 TCGAGAGAGT
328557 CAGACAACGGTTCTGAGC
1 CAGACAACGGTTCTGAGC
*
328575 CAGACAACGGTTCTGGGC
1 CAGACAACGGTTCTGAGC
328593 CA
1 CA
328595 AGTTCAATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.16
Consensus pattern (18 bp):
CAGACAACGGTTCTGAGC
Found at i:329058 original size:11 final size:11
Alignment explanation
Indices: 329017--329041 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
329007 AGACATTACA
329017 CGCCCCGCATC
1 CGCCCCGCATC
329028 CGCCCCGCATC
1 CGCCCCGCATC
329039 CGC
1 CGC
329042 TCGCCCCACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.64, G:0.20, T:0.08
Consensus pattern (11 bp):
CGCCCCGCATC
Found at i:330255 original size:12 final size:12
Alignment explanation
Indices: 330238--330274 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
330228 TTTGAGATAA
*
330238 TACATGTACATG
1 TACATGTATATG
330250 TACATGTATATG
1 TACATGTATATG
*
330262 TATATGTATATG
1 TACATGTATATG
330274 T
1 T
330275 CAACATGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.43
Consensus pattern (12 bp):
TACATGTATATG
Found at i:334204 original size:24 final size:24
Alignment explanation
Indices: 334174--334232 Score: 109
Period size: 24 Copynumber: 2.5 Consensus size: 24
334164 ATTTAGAAGT
334174 TCAATTGAAGCCTAAAATTTGAGC
1 TCAATTGAAGCCTAAAATTTGAGC
*
334198 TCAATTGAAACCTAAAATTTGAGC
1 TCAATTGAAGCCTAAAATTTGAGC
334222 TCAATTGAAGC
1 TCAATTGAAGC
334233 GAAAGAATAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (24 bp):
TCAATTGAAGCCTAAAATTTGAGC
Found at i:336270 original size:11 final size:11
Alignment explanation
Indices: 336229--336253 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
336219 AGACATTACA
336229 CGCCCCGCATC
1 CGCCCCGCATC
336240 CGCCCCGCATC
1 CGCCCCGCATC
336251 CGC
1 CGC
336254 TCGCCCCACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.64, G:0.20, T:0.08
Consensus pattern (11 bp):
CGCCCCGCATC
Found at i:337254 original size:20 final size:20
Alignment explanation
Indices: 337218--337255 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
337208 ATCCTATTCC
**
337218 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
337238 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
337256 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:338811 original size:60 final size:60
Alignment explanation
Indices: 338743--338861 Score: 166
Period size: 60 Copynumber: 2.0 Consensus size: 60
338733 GTCCCCTAAC
* * * * * * *
338743 TATAGGGTACTGTTTTGTTGAGTCCTTCTACTATTAAAAATTATGAAATAGTCTCTTGAT
1 TATAGGGTACTGCTTTGTTGAGTACTTCAACTATTAAAAAGTATAAAATACTCACTTGAT
*
338803 TATAGGGTATTGCTTTGTTGAGTACTTCAACTATTAAAAAGTATAAAATACTCACTTGA
1 TATAGGGTACTGCTTTGTTGAGTACTTCAACTATTAAAAAGTATAAAATACTCACTTGA
338862 CTATTTATAT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
60 51 1.00
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (60 bp):
TATAGGGTACTGCTTTGTTGAGTACTTCAACTATTAAAAAGTATAAAATACTCACTTGAT
Found at i:339538 original size:22 final size:22
Alignment explanation
Indices: 339491--339532 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
339481 ATATAAAATT
*
339491 AAATATTAAAATTTTCATTATA
1 AAATATTAAAATATTCATTATA
*
339513 AAATATTATAATATTC-TTAT
1 AAATATTAAAATATTCATTAT
339533 TGAAATCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATATTAAAATATTCATTATA
Found at i:339618 original size:26 final size:25
Alignment explanation
Indices: 339571--339620 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
339561 AGACAGAGAA
*
339571 AAATTATATATTTATTATTAATTTT
1 AAATTATATATATATTATTAATTTT
339596 AAATTAATATACTATATTA-TAATTT
1 AAATT-ATATA-TATATTATTAATTT
339621 GACAAGCTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 5 0.23
26 11 0.50
27 6 0.27
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (25 bp):
AAATTATATATATATTATTAATTTT
Found at i:341549 original size:18 final size:16
Alignment explanation
Indices: 341508--341550 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
341498 ATACTTGCAA
*
341508 TATCGATACCCTAGGG
1 TATCGATACCCTAGAG
*
341524 TATTGATACCCTGATGAG
1 TATCGATACCCT-A-GAG
341542 TATCGATAC
1 TATCGATAC
341551 AAAAAATGAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 11 0.50
17 1 0.05
18 10 0.45
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (16 bp):
TATCGATACCCTAGAG
Found at i:348195 original size:39 final size:38
Alignment explanation
Indices: 348108--348230 Score: 185
Period size: 38 Copynumber: 3.2 Consensus size: 38
348098 TGGTTAGTGA
**
348108 ATGCTTAAACCAAAAATGAATAACATATGTTGTAATAT
1 ATGCTTAAACCAAAAATGAATAATGTATGTTGTAATAT
348146 ATGCTTAAACCAAAAATGAATAATGTATGCTTGTAATAT
1 ATGCTTAAACCAAAAATGAATAATGTATG-TTGTAATAT
*
348185 ATGCTCAAACCAAAAATGAATAATGTATGTTCGT-ATAT
1 ATGCTTAAACCAAAAATGAATAATGTATGTT-GTAATAT
*
348223 ATGATTAA
1 ATGCTTAA
348231 TGGTGTGGCA
Statistics
Matches: 78, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
38 39 0.50
39 39 0.50
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.33
Consensus pattern (38 bp):
ATGCTTAAACCAAAAATGAATAATGTATGTTGTAATAT
Found at i:362820 original size:30 final size:30
Alignment explanation
Indices: 362784--362882 Score: 171
Period size: 30 Copynumber: 3.3 Consensus size: 30
362774 CAAAGGGTGA
362784 TGGATATCCCTGAGGAGGGTAGCCTTGTGG
1 TGGATATCCCTGAGGAGGGTAGCCTTGTGG
362814 TGGATATCCCTGAGGAGGGTAGCCTTGTGG
1 TGGATATCCCTGAGGAGGGTAGCCTTGTGG
* * *
362844 TGGATATCCCTGAGTAAGGTAACCTTGTGG
1 TGGATATCCCTGAGGAGGGTAGCCTTGTGG
362874 TGGATATCC
1 TGGATATCC
362883 GTGCGAATTA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 66 1.00
ACGTcount: A:0.19, C:0.17, G:0.35, T:0.28
Consensus pattern (30 bp):
TGGATATCCCTGAGGAGGGTAGCCTTGTGG
Found at i:364455 original size:29 final size:28
Alignment explanation
Indices: 364406--364483 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
364396 TAGATAAATT
* * *
364406 TAATTGATTCTTTTATTAAGTTCAAGGGCC
1 TAATTGATT-TTTTA-AAAGTTCAAGGACA
*
364436 TAATTGATTTTTTAGAAAGTTTAAGGACA
1 TAATTGATTTTTTA-AAAGTTCAAGGACA
* *
364465 TATTTAATTTTTTAAAAGT
1 TAATTGATTTTTTAAAAGT
364484 ATTAAGATAT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
28 5 0.12
29 27 0.66
30 9 0.22
ACGTcount: A:0.33, C:0.06, G:0.14, T:0.46
Consensus pattern (28 bp):
TAATTGATTTTTTAAAAGTTCAAGGACA
Found at i:369021 original size:16 final size:16
Alignment explanation
Indices: 369000--369045 Score: 83
Period size: 16 Copynumber: 2.9 Consensus size: 16
368990 GAGAGTGGTT
369000 AGCCAGTACATGGCGA
1 AGCCAGTACATGGCGA
*
369016 AGCCAGTATATGGCGA
1 AGCCAGTACATGGCGA
369032 AGCCAGTACATGGC
1 AGCCAGTACATGGC
369046 AATAGGGAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.30, C:0.24, G:0.30, T:0.15
Consensus pattern (16 bp):
AGCCAGTACATGGCGA
Found at i:369861 original size:65 final size:65
Alignment explanation
Indices: 369727--369887 Score: 256
Period size: 65 Copynumber: 2.5 Consensus size: 65
369717 GTGCACCAAG
*
369727 TGTGCATCGATGCATAAAATGCATTCGATG-TTTCAAAATAGCCTGAGTGCATCGATGCATGGCT
1 TGTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATACCCTGAGTGCATCGATGCATGGCT
* *
369791 GGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ACCCTGAGTGCATCGATGCATGG-
1 TGTGCATCGATGCATAAAATGCATTCGATGTTTTCA-AAATACCCTGAGTGCATCGATGCATGGC
369854 T
65 T
369855 ATGTGCATCGATGCATAAAATGCATTCGATGTT
1 -TGTGCATCGATGCATAAAATGCATTCGATGTT
369888 CAATTTATTT
Statistics
Matches: 89, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
64 29 0.33
65 57 0.64
66 3 0.03
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (65 bp):
TGTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATACCCTGAGTGCATCGATGCATGGCT
Found at i:369926 original size:65 final size:65
Alignment explanation
Indices: 369728--369935 Score: 255
Period size: 65 Copynumber: 3.2 Consensus size: 65
369718 TGCACCAAGT
* *
369728 GTGCATCGATGCATAAAATGCATTCGATGTTTCAA-AATAGCCTGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCAATAATACCCTGAGTGCATCGATGCATGGTTG
* *
369792 GTGCATCGATGCATCAAATGCATTCGATGTTTTC-ATAAAACCCTGAGTGCATCGATGCATGGTA
1 GTGCATCGATGCATAAAATGCATTCGATG-TTTCAATAATACCCTGAGTGCATCGATGCATGGT-
369856 T-
64 TG
* ** * *
369857 GTGCATCGATGCATAAAATGCATTCGATG-TTCAATTTATTTCATG-GTGTATCGATGCATGGAT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCAA-TAATACCCTGAGTGCATCGATGCATGG-T
369920 TG
64 TG
*
369922 GTGCATCGGTGCAT
1 GTGCATCGATGCAT
369936 CACTTTGAAA
Statistics
Matches: 125, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
63 3 0.02
64 46 0.37
65 75 0.60
66 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (65 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTCAATAATACCCTGAGTGCATCGATGCATGGTTG
Found at i:372631 original size:20 final size:20
Alignment explanation
Indices: 372606--372678 Score: 110
Period size: 20 Copynumber: 3.6 Consensus size: 20
372596 ATCCGACAGA
* *
372606 TGCATCGATGCATGGCCTTG
1 TGCATCGATGCACGACCTTG
372626 TGCATCGATGCACGACCTTG
1 TGCATCGATGCACGACCTTG
*
372646 TGCATCGGTGCACGACCTTG
1 TGCATCGATGCACGACCTTG
*
372666 TGCATCGGTGCAC
1 TGCATCGATGCAC
372679 ATTCAAGGCG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (20 bp):
TGCATCGATGCACGACCTTG
Found at i:378739 original size:65 final size:65
Alignment explanation
Indices: 378541--378748 Score: 264
Period size: 65 Copynumber: 3.2 Consensus size: 65
378531 TGCACCAAGT
* *
378541 GTGCATCGATGCATAAAATGCATTCGATGTTTCAA-AATAGCCTGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCAATAATACCCTGAGTGCATCGATGCATGGTTG
* *
378605 GTGCATCGATGCATCAAATGCATTCGATGTTTTC-ATAAAACCCTGAGTGCATCGATGCATGGTA
1 GTGCATCGATGCATAAAATGCATTCGATG-TTTCAATAATACCCTGAGTGCATCGATGCATGGT-
378669 T-
64 TG
* ** *
378670 GTGCATCGATGCATAAAATGCATTCGATG-TTCAATTTATTTCATG-GTGCATCGATGCATGGAT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCAA-TAATACCCTGAGTGCATCGATGCATGG-T
378733 TG
64 TG
*
378735 GTGCATCGGTGCAT
1 GTGCATCGATGCAT
378749 CACTTTGAAA
Statistics
Matches: 126, Mismatches: 11, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
63 3 0.02
64 47 0.37
65 75 0.60
66 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTCAATAATACCCTGAGTGCATCGATGCATGGTTG
Found at i:379454 original size:4 final size:4
Alignment explanation
Indices: 379445--380799 Score: 2293
Period size: 4 Copynumber: 338.8 Consensus size: 4
379435 ATCAAGGAAT
* *
379445 ATAC ATAC ATAA AAAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
379493 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
379541 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
379589 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
379637 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
379685 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
379733 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
379781 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
379829 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
379877 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATGC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * * * * * *
379925 ATGC ATGC ATGC ATGC ATGC ATGC ATAC ATGC ATGC ATGC ATAC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * *
379973 ATAC ATGC ATGC ATAC ATAC ATTC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
380021 ATGC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * * *
380069 ATAC ATGC ATAC ATGC ATAC ATGC ATAT ATAC ATGC ATGC ATGC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * *
380117 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATGC ATGC ATGC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
380165 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
380213 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
380261 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT-- ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
380307 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
380355 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
380403 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
380451 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
380499 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
380547 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
380595 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * *
380643 ATAC ATAC ATAC ATAC ATAC ATAC ATAC AAGTAC GTAC ATGC ACAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC -A-TAC ATAC ATAC ATAC ATAC
* * ** * * * * *
380693 ATAC ATAT GTGT GTAC ATAC ATA- AGTAC GTAC ATAC ACAC ATAC GTAT
1 ATAC ATAC ATAC ATAC ATAC ATAC A-TAC ATAC ATAC ATAC ATAC ATAC
*
380741 ATAC ACAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
380789 ATAC ATAC ATA
1 ATAC ATAC ATA
380800 TGTATGTACG
Statistics
Matches: 1293, Mismatches: 52, Indels: 12
0.95 0.04 0.01
Matches are distributed among these distances:
2 2 0.00
3 1 0.00
4 1286 0.99
5 1 0.00
6 3 0.00
ACGTcount: A:0.48, C:0.25, G:0.02, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:382515 original size:48 final size:48
Alignment explanation
Indices: 382423--382518 Score: 131
Period size: 48 Copynumber: 2.0 Consensus size: 48
382413 AATAAGAATA
* ** *
382423 AAAATGATTATTTAGTCAAATGTTAGAACTAAAATATTTAAAAAAATC
1 AAAATGATTATTTAATCAAACATTAGAACGAAAATATTTAAAAAAATC
382471 AAAATGATTATTTAATCAAACATTGAGATACGAAAA-ATTTAAAAAAAT
1 AAAATGATTATTTAATCAAACATT-AGA-ACGAAAATATTTAAAAAAAT
382519 ATAAAAAAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
48 21 0.50
49 15 0.36
50 6 0.14
ACGTcount: A:0.54, C:0.06, G:0.08, T:0.31
Consensus pattern (48 bp):
AAAATGATTATTTAATCAAACATTAGAACGAAAATATTTAAAAAAATC
Found at i:383100 original size:27 final size:27
Alignment explanation
Indices: 383066--383117 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
383056 CATATATCAT
383066 GTCATTTAAAATAATGATATGACATGC
1 GTCATTTAAAATAATGATATGACATGC
* *
383093 GTCATTTAAAATGATGATGTGACAT
1 GTCATTTAAAATAATGATATGACAT
383118 ATAAAAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (27 bp):
GTCATTTAAAATAATGATATGACATGC
Found at i:386294 original size:11 final size:11
Alignment explanation
Indices: 386280--386305 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
386270 ATGATATATG
386280 TATGAAAAAAA
1 TATGAAAAAAA
386291 TATGAAAAAAA
1 TATGAAAAAAA
386302 TATG
1 TATG
386306 TACATTGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.12, T:0.23
Consensus pattern (11 bp):
TATGAAAAAAA
Found at i:388247 original size:6 final size:6
Alignment explanation
Indices: 388236--388267 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
388226 TATCTCGGTT
388236 ATATAA ATATAA ATATAA ATATAAA ATATAA A
1 ATATAA ATATAA ATATAA ATAT-AA ATATAA A
388268 ATTTATTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
ATATAA
Found at i:400180 original size:15 final size:14
Alignment explanation
Indices: 400151--400203 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
400141 ACATATGACA
* *
400151 TTTCATTTTCTTTT
1 TTTCTTTTTCATTT
400165 TTTCTTCTTTCATTT
1 TTTCTT-TTTCATTT
*
400180 TTCACTTTTTCATTT
1 TT-TCTTTTTCATTT
*
400195 TTTATTTTT
1 TTTCTTTTT
400204 AAACTAAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
14 10 0.31
15 19 0.59
16 3 0.09
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTCTTTTTCATTT
Found at i:400340 original size:41 final size:42
Alignment explanation
Indices: 400272--400397 Score: 137
Period size: 43 Copynumber: 3.0 Consensus size: 42
400262 TAAAACAACC
* * * *
400272 TGCTCGAAGGTCTTACAAATGGCCCGAAGGACTT-ATCATCT
1 TGCTCGAAAGACTTACAGATGGCCCGAAGGACTTAATCATCA
* * * *
400313 TGCTTGAAAGACTTACAGATGACCCGAAGTATTTCAATCATCA
1 TGCTCGAAAGACTTACAGATGGCCCGAAGGACTT-AATCATCA
** *
400356 TGCTCGAAAGACTTATTGATGGCCCAAAGGACTTAATCATCA
1 TGCTCGAAAGACTTACAGATGGCCCGAAGGACTTAATCATCA
400398 AGAAACCTTT
Statistics
Matches: 68, Mismatches: 15, Indels: 3
0.79 0.17 0.03
Matches are distributed among these distances:
41 27 0.40
42 8 0.12
43 33 0.49
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (42 bp):
TGCTCGAAAGACTTACAGATGGCCCGAAGGACTTAATCATCA
Found at i:400514 original size:75 final size:75
Alignment explanation
Indices: 400389--400529 Score: 237
Period size: 75 Copynumber: 1.9 Consensus size: 75
400379 CCAAAGGACT
* *
400389 TAATCATCAAGAAACCTTTGAAAATCAAACTTGGCTTCTTTAAAATTTCATTTGAAAACATCATA
1 TAATCATCAAGAAACCATTGAAAATCAAACTTGGCTTCTTTAAAAATTCATTTGAAAACATCATA
400454 TCGGTCAGGG
66 TCGGTCAGGG
* * *
400464 TAATCGTCAATAAACCATTGAAAATCAAACTTGGCTTCTTTAAAAATTCATTTGAAAATATCATA
1 TAATCATCAAGAAACCATTGAAAATCAAACTTGGCTTCTTTAAAAATTCATTTGAAAACATCATA
400529 T
66 T
400530 GGTTGGGTAA
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
75 61 1.00
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (75 bp):
TAATCATCAAGAAACCATTGAAAATCAAACTTGGCTTCTTTAAAAATTCATTTGAAAACATCATA
TCGGTCAGGG
Found at i:412401 original size:261 final size:262
Alignment explanation
Indices: 411937--415084 Score: 2913
Period size: 261 Copynumber: 11.7 Consensus size: 262
411927 AATGCAGTGT
* * * *
411937 TGCCTGTTTTTGAAGCAAAATCAGCAGAAGACATTGATATGGCTTTTAAGCAACTTCATGAAGGG
1 TGCCTGTTCTTGAAGCAAGATCAGCAGAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGGG
* * * *
412002 GTCGATGTTGAGGAAGTGATTGTTCCGAGTATGATTGAGAAACTGCAAGATCACT-CAGCTAACA
66 GTCGATGTTGAGGAAGTGATTGTTCCAAGTATGATTGAGAAACTGCAAGATCA-TGGAGATATCA
* * *
412066 AATCAAAATTACCTGCTGTCGAGGCAAGATCTCTGGAGGACATACATAAAGCATTTCAACAAGCT
130 AATCAAAATTACCTGTTGTCGAGGCAAGATCTCTGGAGGATATACATAAA-CATTTCATCAAGCT
*
412131 CCGGAATCTAGTCCAGCTGAGCTGCCACCTTCTTCAGGC-T-ATACAAAGACCGAGAATAATGTG
194 CCGGAATCTAGTCCAGCTGAGCTGCCACATTCTTCAGGCTTAATACAAAGACCGAGAATAATGTG
*
412194 GCGC
259 GTGC
* * *
412198 TGCCTGTTCTTGAAGCAAGATCAGCAGAAGATATTGATTTGGCTTTTAGGCAACTTCAAGAAGGA
1 TGCCTGTTCTTGAAGCAAGATCAGCAGAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGGG
* * * * * * *
412263 GTGGATGTTGAGGAAGTAATTGTTCCTATTATGATTGAGAAACTGCAAGATTATGCAGATAACAA
66 GTCGATGTTGAGGAAGTGATTGTTCCAAGTATGATTGAGAAACTGCAAGATCATGGAGATATCAA
* * * * *
412328 ACCAAAACTACCTGTTGTCGAGGCAAGATCTCTGCAGGATATACATAAAAATTTTCATCAAGTTC
131 ATCAAAATTACCTGTTGTCGAGGCAAGATCTCTGGAGGATATACATAAACA-TTTCATCAAGCTC
* * *
412393 CGGAATCTAGTCCAGTTGAGCTACCACATTCTTCAGGCTTAAAGAACAAATCCTCAAAAGATATT
195 CGGAATCTAGTCCAGCTGAGCTGCCACATTCTTCAGGCTT--------AAT--AC-AAAG--A--
*
412458 CAGACGAAGACTAATGTGGTGC
245 C---CG-AGAATAATGTGGTGC
* * *
412480 TGCCTGTTCTTGAAGCAA-ATCGGCAGATGATATTGATATGGCTTTTAAGCAACTTCATGAAGGG
1 TGCCTGTTCTTGAAGCAAGATCAGCAGAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGGG
* ** * *
412544 GTTGATG-TGAGGAAGTGATTGTTCCAAGTATGATTGAGAAACCACAGGATCATGGAGATATCAG
66 GTCGATGTTGAGGAAGTGATTGTTCCAAGTATGATTGAGAAACTGCAAGATCATGGAGATATCAA
* *
412608 ATCAAAATTACCTGTAGTCGAGGCAAGATCTCTGGAGGATATACATAAAGCATTTCAACAAGCTC
131 ATCAAAATTACCTGTTGTCGAGGCAAGATCTCTGGAGGATATACATAAA-CATTTCATCAAGCTC
* * ** ** * * ** *
412673 CAGAATCTATTCCAGCTGAGCAACTGCCTTCTTCAGGC-T-ATACGAAGGTCGAGACTAATGTGG
195 CGGAATCTAGTCCAGCTGAGCTGCCACATTCTTCAGGCTTAATACAAAGACCGAGAATAATGTGG
412736 TGC
260 TGC
*
412739 TGCCTGTTCTTGAAGCAAGATCAGCAGAAGATATTGATTTGGCTTTTAAGCAACTTCACGAAGGG
1 TGCCTGTTCTTGAAGCAAGATCAGCAGAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGGG
* * **
412804 GTCGATGTTGAGGAAATAATTGTTCCAAGTATGATTGAGAAACTGCAAGATCATATAGATAGT-A
66 GTCGATGTTGAGGAAGTGATTGTTCCAAGTATGATTGAGAAACTGCAAGATCATGGAGATA-TCA
* * * * ** * *
412868 AA-GAAACACTACCTGTTGTCGAGGCAAGATCACTGGAGGATATATATAAAGTTTTTCATGAACC
130 AATCAAA-ATTACCTGTTGTCGAGGCAAGATCTCTGGAGGATATACATAAA-CATTTCATCAAGC
* * * *
412932 TGCGGAATCTAGTCAACCTGAGCTGCCACATTCTTCAGGCTTAAAGAACAAATCATCAAAAAACA
193 TCCGGAATCTAGTCCAGCTGAGCTGCCACATTCTTCAGGCTT--------AAT-A-C-AAAGAC-
**
412997 CAAAGACTCAGACGAATGTGGTGC
246 C---G----AGAATAATGTGGTGC
* * *
413021 TGCCTGTTCTTGAAGCAAAATCAGCAGAAGACATTGATATGGCTTTTAAGCAACTTCATGAAGGG
1 TGCCTGTTCTTGAAGCAAGATCAGCAGAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGGG
* * * *
413086 GTCGATGTTGAGGAAGTGA-TGTTCCGAGTATGATTGAGAAACTGCAA-ATCACT-CAGCTAACA
66 GTCGATGTTGAGGAAGTGATTGTTCCAAGTATGATTGAGAAACTGCAAGATCA-TGGAGATATCA
* * *
413148 AATCAAAATTACCTGTTGTCGAGGCAAGATCTCTGG-GGACATACATAATGCATTTCAACAAGCT
130 AATCAAAATTACCTGTTGTCGAGGCAAGATCTCTGGAGGATATACATAA-ACATTTCATCAAGCT
* * *
413212 CCGGAATCTAGTCCTGCTGAGCTGCCACCTTCTTCAGGC--CATACAAAGACCGAGAATAATGTG
194 CCGGAATCTAGTCCAGCTGAGCTGCCACATTCTTCAGGCTTAATACAAAGACCGAGAATAATGTG
413275 GTGC
259 GTGC
* * *
413279 TGCCTGTTCTTGAAGCAAGATCAGTAGAAGATATTGATTTGGTTTTTAAGCAACTTC---AAGGA
1 TGCCTGTTCTTGAAGCAAGATCAGCAGAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGGG
* * * * * * *
413341 GTGGATGTTGAGGAAGTAATTGTTCCTAGTATGATTGAGAAACTGCTAGATTATGCAGATAACAA
66 GTCGATGTTGAGGAAGTGATTGTTCCAAGTATGATTGAGAAACTGCAAGATCATGGAGATATCAA
* * * * *
413406 A-CCAAACTA-CTGTTGTCGAGGCAAGATCTCTGCAGGATATACATAAAAATTTCATCAAGTTCC
131 ATCAAAATTACCTGTTGTCGAGGCAAGATCTCTGGAGGATATACATAAACATTTCATCAAGCTCC
* * **
413469 GGAATCTAGTCCAGTTGAGCTGCCACATTCTTCAGGCTTAAAGAACAAATCCTCAGAAGATATTC
196 GGAATCTAGTCCAGCTGAGCTGCCACATTCTTCAGGCTT-AA-TACAAAGAC-C-G-AGA-A-T-
* *
413534 AGACGAAGACTAATGTGC
253 --A--ATG--T--GGTGC
* * *
413552 TGCCTGTTCTTGAAGCAA-ATCGGCAGATGATATTG-TATGGCTTTTAAGCAACTTCATGAAGGG
1 TGCCTGTTCTTGAAGCAAGATCAGCAGAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGGG
* ** * *
413615 GTTGATGTTGAGGAAGTGATTGTTCCAAGTATGATTGAGAAACCACAGGATCATGGAGATATCAG
66 GTCGATGTTGAGGAAGTGATTGTTCCAAGTATGATTGAGAAACTGCAAGATCATGGAGATATCAA
* *
413680 ATCAAAATTACCTGTAGTCGAGGCAAGATCTCTGGAGGATATACATAAAGCATTTCAACAAGCTC
131 ATCAAAATTACCTGTTGTCGAGGCAAGATCTCTGGAGGATATACATAAA-CATTTCATCAAGCTC
* * ** * * ** *
413745 CAGAATCTATTCCAGCTGAGCAACCGCCTTCTTCAGGC-T-ATACAAAGGTCGAGACTAATGT-G
195 CGGAATCTAGTCCAGCTGAGCTGCCACATTCTTCAGGCTTAATACAAAGACCGAGAATAATGTGG
413807 -GC
260 TGC
*
413809 TGCCTGTTCTTGAAGCAAGATCAGCAGAAGATATTGATTTGGCTTTTAAGCAACTTCACGAAGGG
1 TGCCTGTTCTTGAAGCAAGATCAGCAGAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGGG
* * * **
413874 GTCGATGTTGAGGAAATAATTGTTCCGAGTATGATTGAG-AACTGCAAGATCATATAGATAGT-A
66 GTCGATGTTGAGGAAGTGATTGTTCCAAGTATGATTGAGAAACTGCAAGATCATGGAGATA-TCA
* * * * * ** * *
413937 AA-GAAACACTACCTGTTGTCGGGGCAAGATCACTGGAGGATATATATAAAGTTTTTCATGAACC
130 AATCAAA-ATTACCTGTTGTCGAGGCAAGATCTCTGGAGGATATACATAAA-CATTTCATCAAGC
* * * * *
414001 TGCGGAATCTTGTCAACCTGAGCTGCCACATTGTTCAGGCTTAAAGAACAAATCATCAAAAGACA
193 TCCGGAATCTAGTCCAGCTGAGCTGCCACATTCTTCAGGCTT--------AAT-A-C-AAAGAC-
*
414066 CAAAGACCGAGACAAATGTGGTGC
246 C---GA--GA-A-TAATGTGGTGC
* * * *
414090 TGCCTGTTCTTGAAGCAAAATCAGCAGAAGATATTGATTTGGCCTTTAAGCAACTTAACGAAGGG
1 TGCCTGTTCTTGAAGCAAGATCAGCAGAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGGG
* *
414155 GTCGATGTTGAGGAAGTGATTGTTCCAAGTATGATTGAGAAACCGCAGGATCATGGAGATATCAA
66 GTCGATGTTGAGGAAGTGATTGTTCCAAGTATGATTGAGAAACTGCAAGATCATGGAGATATCAA
* * **
414220 ATCAAAGTTACCTGTTGTCGAGGCAAGATCTCTGGAAGATATACATAAAGTTTTTCATCAA-CGT
131 ATCAAAATTACCTGTTGTCGAGGCAAGATCTCTGGAGGATATACATAAA-CATTTCATCAAGC-T
* * * ** *
414284 GCAGATTCTAGTAAACCTGAGCTGCCACATTCTTCAGGCTTAAAGAACAAATCATCAAAAGATAC
194 CCGGAATCTAGTCCAGCTGAGCTGCCACATTCTTCAGGCTT--------AAT-A-C-AAAG--AC
* *
414349 AAACTGA-AACCAACG-GGCTGC
246 ---C-GAGAA-TAATGTGG-TGC
* * *
414370 TGCCTGCTCTTGAAGCAA-ATCAGCAGAAGATATTGATTT-GCCTTTAAGCAACTTCACGAAGGG
1 TGCCTGTTCTTGAAGCAAGATCAGCAGAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGGG
* * ** *
414433 GTCGATGTTGAGGAAGTAATTGTTCCAAATATGATTGAGAAACCACAGGATCATGGAGATATCAA
66 GTCGATGTTGAGGAAGTGATTGTTCCAAGTATGATTGAGAAACTGCAAGATCATGGAGATATCAA
* * ** **
414498 ATCAAAATTACCTGTTGTCGAGGCAAGATCACCGGAGGATATACATAAAGTTTTTCATCAAAATC
131 ATCAAAATTACCTGTTGTCGAGGCAAGATCTCTGGAGGATATACATAAA-CATTTCATCAAGCTC
* * *
414563 CGGAATCTAGTCAACCTGAGATGCCACATTCTTCAGGCTTAAAGAACAAATCATCAAAAGATACA
195 CGGAATCTAGTCCAGCTGAGCTGCCACATTCTTCA-G------G--C---T--T----A-ATACA
**
414628 AAGACCGAGACCAATGTGGTGC
241 AAGACCGAGAATAATGTGGTGC
* * *
414650 TGCCTGCTCTTGAAGCAAAATCAGCAGAAGATATTGATTTGGCTTTTAAGCAACTTCCTGAAGGG
1 TGCCTGTTCTTGAAGCAAGATCAGCAGAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGGG
* * * * * *
414715 ATCGATGTTGAAGAAGTGATTATTCAAAGTATTATTGAGAAAC--CAAAGGATCATGGAGATGTC
66 GTCGATGTTGAGGAAGTGATTGTTCCAAGTATGATTGAGAAACTGC-AA-GATCATGGAGATATC
* ** *** *
414778 GAATCTGAATTACCTACAGTCGAGGCAAGATCTCTGGAGGATATACATAAAGCATTTCAACAAGC
129 AAATCAAAATTACCTGTTGTCGAGGCAAGATCTCTGGAGGATATACATAAA-CATTTCATCAAGC
* * * * *
414843 TCCAGAATCTAGTTCAGCTGAGCTGCCGCTTTCTTCAGGC-T-ATACGAAGACCGAGACA-AATG
193 TCCGGAATCTAGTCCAGCTGAGCTGCCACATTCTTCAGGCTTAATACAAAGACCGAGA-ATAATG
*
414905 TGGCGC
257 TGGTGC
*
414911 TGCCTGTTCTTGAAGCAAGATCAGCAGAAGATATTGATTTGGCTTTTAAGCAACTTCATGTAGGG
1 TGCCTGTTCTTGAAGCAAGATCAGCAGAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGGG
* * * *
414976 GTTGATGTTGAGGAAGTGATTGTTCCTAGTATGATTGAGAAAAC-ACAGGATCATGGAGATATCA
66 GTCGATGTTGAGGAAGTGATTGTTCCAAGTATGATTGAG-AAACTGCAAGATCATGGAGATATCA
* *
415040 AATCAAAATTACCTGTTGTCGAGGCAAAATATCTGGAGGAT-TACA
130 AATCAAAATTACCTGTTGTCGAGGCAAGATCTCTGGAGGATATACA
415085 GAACGCTTTG
Statistics
Matches: 2408, Mismatches: 337, Indels: 285
0.79 0.11 0.09
Matches are distributed among these distances:
255 91 0.04
256 44 0.02
257 36 0.01
258 176 0.07
259 102 0.04
260 60 0.02
261 497 0.21
262 12 0.00
263 4 0.00
264 1 0.00
265 2 0.00
266 5 0.00
267 6 0.00
268 5 0.00
269 5 0.00
270 6 0.00
271 28 0.01
272 17 0.01
273 30 0.01
274 66 0.03
275 10 0.00
276 38 0.02
277 45 0.02
278 176 0.07
279 83 0.03
280 226 0.09
281 210 0.09
282 401 0.17
283 3 0.00
284 6 0.00
285 1 0.00
286 6 0.00
287 2 0.00
288 4 0.00
289 2 0.00
290 1 0.00
292 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.26
Consensus pattern (262 bp):
TGCCTGTTCTTGAAGCAAGATCAGCAGAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGGG
GTCGATGTTGAGGAAGTGATTGTTCCAAGTATGATTGAGAAACTGCAAGATCATGGAGATATCAA
ATCAAAATTACCTGTTGTCGAGGCAAGATCTCTGGAGGATATACATAAACATTTCATCAAGCTCC
GGAATCTAGTCCAGCTGAGCTGCCACATTCTTCAGGCTTAATACAAAGACCGAGAATAATGTGGT
GC
Found at i:413032 original size:541 final size:541
Alignment explanation
Indices: 411923--415084 Score: 4080
Period size: 541 Copynumber: 5.8 Consensus size: 541
411913 TGAAGACTCG
** * * *
411923 GACTAATGCAGTGTTGCCTGTTTTTGAAGCAAAATCAGCAGAAGACATTGATATGGCTTTTAAGC
1 GACTAATGTGGTGCTGCCTGTTCTTGAAGCAAAATCAGCAGAAGATATTGATATGGCTTTTAAGC
* ** *
411988 AACTTCATGAAGGGGTCGATGTTGAGGAAGTGATTGTTCCGAGTATGATTGAGAAACTGCAAGAT
66 AACTTCATGAAGGGGTCGATGTTGAGGAAGTGATTGTTCCAAGTATGATTGAGAAACCACAGGAT
* * * *
412053 CACT-CAGCTAACAAATCAAAATTACCTGCT-GTCGAGGCAAGATCTCTGGAGGACATACATAAA
131 CA-TGGAGATATCAAATCAAAATTACCTG-TAGTCGAGGCAAGATCTCTGGAGGATATACATAAA
*
412116 GCATTTCAACAAGCTCCGGAATCTAGTCCAGCTGAGCTGCCACCTTCTTCAGGCTATACAAAGAC
194 GCATTTCAACAAGCTCCAGAATCTAGTCCAGCTGAGCTGCCACCTTCTTCAGGCTATACAAAGAC
* *
412181 CGAGAATAATGTGGCGCTGCCTGTTCTTGAAGCAAGATCAGCAGAAGATATTGATTTGGCTTTTA
259 CGAGACTAATGTGGTGCTGCCTGTTCTTGAAGCAAGATCAGCAGAAGATATTGATTTGGCTTTTA
* * * * *
412246 GGCAACTTCAAGAAGGAGTGGATGTTGAGGAAGTAATTGTTCCTATTATGATTGAGAAACTGCAA
324 AGCAACTTCACGAAGGGGTCGATGTTGAGGAAGTAATTGTTCCTAGTATGATTGAGAAACTGCAA
* * * *
412311 GATTATGCAGATAACAAACCAAAACTACCTGTTGTCGAGGCAAGATCTCTGCAGGATATACATAA
389 GATCATGCAGATAATAAA-CAAAACTACCTGTTGTCGAGGCAAGATCACTGGAGGATATACATAA
** ** * ** *
412376 AAATTTTCATCAAGTTCCGGAATCTAGTCCAGTTGAGCTACCACATTCTTCAGGCTTAAAGAACA
453 AGTTTTTCATCAACCTCCGGAATCTAGTCAACCTGAGCTGCCACATTCTTCAGGCTTAAAGAACA
* *** *
412441 AATCCTCAAAAGATATTCAGACGAA
518 AATCATCAAAAGATACAAAGAC-CA
* *
412466 GACTAATGTGGTGCTGCCTGTTCTTGAAGC-AAATCGGCAGATGATATTGATATGGCTTTTAAGC
1 GACTAATGTGGTGCTGCCTGTTCTTGAAGCAAAATCAGCAGAAGATATTGATATGGCTTTTAAGC
*
412530 AACTTCATGAAGGGGTTGATG-TGAGGAAGTGATTGTTCCAAGTATGATTGAGAAACCACAGGAT
66 AACTTCATGAAGGGGTCGATGTTGAGGAAGTGATTGTTCCAAGTATGATTGAGAAACCACAGGAT
*
412594 CATGGAGATATCAGATCAAAATTACCTGTAGTCGAGGCAAGATCTCTGGAGGATATACATAAAGC
131 CATGGAGATATCAAATCAAAATTACCTGTAGTCGAGGCAAGATCTCTGGAGGATATACATAAAGC
* ** ** * **
412659 ATTTCAACAAGCTCCAGAATCTATTCCAGCTGAGCAACTGCCTTCTTCAGGCTATACGAAGGTCG
196 ATTTCAACAAGCTCCAGAATCTAGTCCAGCTGAGCTGCCACCTTCTTCAGGCTATACAAAGACCG
412724 AGACTAATGTGGTGCTGCCTGTTCTTGAAGCAAGATCAGCAGAAGATATTGATTTGGCTTTTAAG
261 AGACTAATGTGGTGCTGCCTGTTCTTGAAGCAAGATCAGCAGAAGATATTGATTTGGCTTTTAAG
* *
412789 CAACTTCACGAAGGGGTCGATGTTGAGGAAATAATTGTTCCAAGTATGATTGAGAAACTGCAAGA
326 CAACTTCACGAAGGGGTCGATGTTGAGGAAGTAATTGTTCCTAGTATGATTGAGAAACTGCAAGA
** * * *
412854 TCATATAGATAGTAAAGAAACACTACCTGTTGTCGAGGCAAGATCACTGGAGGATATATATAAAG
391 TCATGCAGATAATAAACAAA-ACTACCTGTTGTCGAGGCAAGATCACTGGAGGATATACATAAAG
* *
412919 TTTTTCATGAACCTGCGGAATCTAGTCAACCTGAGCTGCCACATTCTTCAGGCTTAAAGAACAAA
455 TTTTTCATCAACCTCCGGAATCTAGTCAACCTGAGCTGCCACATTCTTCAGGCTTAAAGAACAAA
* *
412984 TCATCAAAAAACACAAAGACTCA
520 TCATCAAAAGATACAAAGAC-CA
* *
413007 GACGAATGTGGTGCTGCCTGTTCTTGAAGCAAAATCAGCAGAAGACATTGATATGGCTTTTAAGC
1 GACTAATGTGGTGCTGCCTGTTCTTGAAGCAAAATCAGCAGAAGATATTGATATGGCTTTTAAGC
* ** *
413072 AACTTCATGAAGGGGTCGATGTTGAGGAAGTGA-TGTTCCGAGTATGATTGAGAAACTGCA-AAT
66 AACTTCATGAAGGGGTCGATGTTGAGGAAGTGATTGTTCCAAGTATGATTGAGAAACCACAGGAT
* * * * * *
413135 CACT-CAGCTAACAAATCAAAATTACCTGTTGTCGAGGCAAGATCTCTGG-GGACATACATAATG
131 CA-TGGAGATATCAAATCAAAATTACCTGTAGTCGAGGCAAGATCTCTGGAGGATATACATAAAG
* * *
413198 CATTTCAACAAGCTCCGGAATCTAGTCCTGCTGAGCTGCCACCTTCTTCAGGCCATACAAAGACC
195 CATTTCAACAAGCTCCAGAATCTAGTCCAGCTGAGCTGCCACCTTCTTCAGGCTATACAAAGACC
* * *
413263 GAGAATAATGTGGTGCTGCCTGTTCTTGAAGCAAGATCAGTAGAAGATATTGATTTGGTTTTTAA
260 GAGACTAATGTGGTGCTGCCTGTTCTTGAAGCAAGATCAGCAGAAGATATTGATTTGGCTTTTAA
* * *
413328 GCAACTT--C-AAGGAGTGGATGTTGAGGAAGTAATTGTTCCTAGTATGATTGAGAAACTGCTAG
325 GCAACTTCACGAAGGGGTCGATGTTGAGGAAGTAATTGTTCCTAGTATGATTGAGAAACTGCAAG
* * * * *
413390 ATTATGCAGATAACAAACCAAACTA-CTGTTGTCGAGGCAAGATCTCTGCAGGATATACATAAA-
390 ATCATGCAGATAATAAACAAAACTACCTGTTGTCGAGGCAAGATCACTGGAGGATATACATAAAG
** ** * **
413453 AATTTCATCAAGTTCCGGAATCTAGTCCAGTTGAGCTGCCACATTCTTCAGGCTTAAAGAACAAA
455 TTTTTCATCAACCTCCGGAATCTAGTCAACCTGAGCTGCCACATTCTTCAGGCTTAAAGAACAAA
* * *** *
413518 TCCTCAGAAGATATTCAGACGAA
520 TCATCAAAAGATACAAAGAC-CA
* *
413541 GACTAA--T-GTGCTGCCTGTTCTTGAAGC-AAATCGGCAGATGATATTG-TATGGCTTTTAAGC
1 GACTAATGTGGTGCTGCCTGTTCTTGAAGCAAAATCAGCAGAAGATATTGATATGGCTTTTAAGC
*
413601 AACTTCATGAAGGGGTTGATGTTGAGGAAGTGATTGTTCCAAGTATGATTGAGAAACCACAGGAT
66 AACTTCATGAAGGGGTCGATGTTGAGGAAGTGATTGTTCCAAGTATGATTGAGAAACCACAGGAT
*
413666 CATGGAGATATCAGATCAAAATTACCTGTAGTCGAGGCAAGATCTCTGGAGGATATACATAAAGC
131 CATGGAGATATCAAATCAAAATTACCTGTAGTCGAGGCAAGATCTCTGGAGGATATACATAAAGC
* ** * **
413731 ATTTCAACAAGCTCCAGAATCTATTCCAGCTGAGCAACCGCCTTCTTCAGGCTATACAAAGGTCG
196 ATTTCAACAAGCTCCAGAATCTAGTCCAGCTGAGCTGCCACCTTCTTCAGGCTATACAAAGACCG
413796 AGACTAATGT-G-GCTGCCTGTTCTTGAAGCAAGATCAGCAGAAGATATTGATTTGGCTTTTAAG
261 AGACTAATGTGGTGCTGCCTGTTCTTGAAGCAAGATCAGCAGAAGATATTGATTTGGCTTTTAAG
* *
413859 CAACTTCACGAAGGGGTCGATGTTGAGGAAATAATTGTTCCGAGTATGATTGAG-AACTGCAAGA
326 CAACTTCACGAAGGGGTCGATGTTGAGGAAGTAATTGTTCCTAGTATGATTGAGAAACTGCAAGA
** * * * *
413923 TCATATAGATAGTAAAGAAACACTACCTGTTGTCGGGGCAAGATCACTGGAGGATATATATAAAG
391 TCATGCAGATAATAAACAAA-ACTACCTGTTGTCGAGGCAAGATCACTGGAGGATATACATAAAG
* * * *
413988 TTTTTCATGAACCTGCGGAATCTTGTCAACCTGAGCTGCCACATTGTTCAGGCTTAAAGAACAAA
455 TTTTTCATCAACCTCCGGAATCTAGTCAACCTGAGCTGCCACATTCTTCAGGCTTAAAGAACAAA
*
414053 TCATCAAAAGACACAAAGACCGA
520 TCATCAAAAGATACAAAGACC-A
* * *
414076 GACAAATGTGGTGCTGCCTGTTCTTGAAGCAAAATCAGCAGAAGATATTGATTTGGCCTTTAAGC
1 GACTAATGTGGTGCTGCCTGTTCTTGAAGCAAAATCAGCAGAAGATATTGATATGGCTTTTAAGC
* * *
414141 AACTTAACGAAGGGGTCGATGTTGAGGAAGTGATTGTTCCAAGTATGATTGAGAAACCGCAGGAT
66 AACTTCATGAAGGGGTCGATGTTGAGGAAGTGATTGTTCCAAGTATGATTGAGAAACCACAGGAT
* * * *
414206 CATGGAGATATCAAATCAAAGTTACCTGTTGTCGAGGCAAGATCTCTGGAAGATATACATAAAGT
131 CATGGAGATATCAAATCAAAATTACCTGTAGTCGAGGCAAGATCTCTGGAGGATATACATAAAGC
* * * * ** * *
414271 TTTTCATCAA-CGTGCAGATTCTAGTAAACCTGAGCTGCCACATTCTTCAGGCTTAAAGAACAAA
196 ATTTCAACAAGC-TCCAGAATCTAGTCCAGCTGAGCTGCCACCTTCTTCAGGC-T---------A
* * * *
414335 TCATCAAAAGATACAAACTGAAACCAACG-GGCTGCTGCCTGCTCTTGAAGCAA-ATCAGCAGAA
250 T-A-C-AAAG--AC---C-GAGACTAATGTGG-TGCTGCCTGTTCTTGAAGCAAGATCAGCAGAA
* * *
414398 GATATTGATTT-GCCTTTAAGCAACTTCACGAAGGGGTCGATGTTGAGGAAGTAATTGTTCCAAA
305 GATATTGATTTGGCTTTTAAGCAACTTCACGAAGGGGTCGATGTTGAGGAAGTAATTGTTCCTAG
** * * *
414462 TATGATTGAGAAACCACAGGATCATGGAGAT-ATCAAATCAAAATTACCTGTTGTCGAGGCAAGA
370 TATGATTGAGAAACTGCAAGATCATGCAGATAAT-AAA-CAAAACTACCTGTTGTCGAGGCAAGA
* ** *
414526 TCACCGGAGGATATACATAAAGTTTTTCATCAAAATCCGGAATCTAGTCAACCTGAGATGCCACA
433 TCACTGGAGGATATACATAAAGTTTTTCATCAACCTCCGGAATCTAGTCAACCTGAGCTGCCACA
414591 TTCTTCAGGCTTAAAGAACAAATCATCAAAAGATACAAAGACCGA
498 TTCTTCAGGCTTAAAGAACAAATCATCAAAAGATACAAAGACC-A
* * *
414636 GACCAATGTGGTGCTGCCTGCTCTTGAAGCAAAATCAGCAGAAGATATTGATTTGGCTTTTAAGC
1 GACTAATGTGGTGCTGCCTGTTCTTGAAGCAAAATCAGCAGAAGATATTGATATGGCTTTTAAGC
* * * * * * *
414701 AACTTCCTGAAGGGATCGATGTTGAAGAAGTGATTATTCAAAGTATTATTGAGAAACCAAAGGAT
66 AACTTCATGAAGGGGTCGATGTTGAGGAAGTGATTGTTCCAAGTATGATTGAGAAACCACAGGAT
* * ** **
414766 CATGGAGATGTCGAATCTGAATTACCTACAGTCGAGGCAAGATCTCTGGAGGATATACATAAAGC
131 CATGGAGATATCAAATCAAAATTACCTGTAGTCGAGGCAAGATCTCTGGAGGATATACATAAAGC
* * * *
414831 ATTTCAACAAGCTCCAGAATCTAGTTCAGCTGAGCTGCCGCTTTCTTCAGGCTATACGAAGACCG
196 ATTTCAACAAGCTCCAGAATCTAGTCCAGCTGAGCTGCCACCTTCTTCAGGCTATACAAAGACCG
* *
414896 AGACAAATGTGGCGCTGCCTGTTCTTGAAGCAAGATCAGCAGAAGATATTGATTTGGCTTTTAAG
261 AGACTAATGTGGTGCTGCCTGTTCTTGAAGCAAGATCAGCAGAAGATATTGATTTGGCTTTTAAG
* * * * * *
414961 CAACTTCATGTAGGGGTTGATGTTGAGGAAGTGATTGTTCCTAGTATGATTGAGAAAAC-ACAGG
326 CAACTTCACGAAGGGGTCGATGTTGAGGAAGTAATTGTTCCTAGTATGATTGAG-AAACTGCAAG
* * *
415025 ATCATGGAGAT-ATCAAATCAAAATTACCTGTTGTCGAGGCAAAAT-ATCTGGAGGAT-TACA
390 ATCATGCAGATAAT-AAA-CAAAACTACCTGTTGTCGAGGCAAGATCA-CTGGAGGATATACA
415085 GAACGCTTTG
Statistics
Matches: 2276, Mismatches: 289, Indels: 109
0.85 0.11 0.04
Matches are distributed among these distances:
529 46 0.02
530 97 0.04
531 65 0.03
532 102 0.04
533 44 0.02
534 109 0.05
535 109 0.05
536 4 0.00
537 64 0.03
538 21 0.01
539 18 0.01
540 311 0.14
541 494 0.22
542 156 0.07
543 150 0.07
544 4 0.00
545 2 0.00
547 3 0.00
548 1 0.00
549 1 0.00
550 4 0.00
551 1 0.00
552 1 0.00
553 4 0.00
558 1 0.00
559 69 0.03
560 372 0.16
561 23 0.01
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (541 bp):
GACTAATGTGGTGCTGCCTGTTCTTGAAGCAAAATCAGCAGAAGATATTGATATGGCTTTTAAGC
AACTTCATGAAGGGGTCGATGTTGAGGAAGTGATTGTTCCAAGTATGATTGAGAAACCACAGGAT
CATGGAGATATCAAATCAAAATTACCTGTAGTCGAGGCAAGATCTCTGGAGGATATACATAAAGC
ATTTCAACAAGCTCCAGAATCTAGTCCAGCTGAGCTGCCACCTTCTTCAGGCTATACAAAGACCG
AGACTAATGTGGTGCTGCCTGTTCTTGAAGCAAGATCAGCAGAAGATATTGATTTGGCTTTTAAG
CAACTTCACGAAGGGGTCGATGTTGAGGAAGTAATTGTTCCTAGTATGATTGAGAAACTGCAAGA
TCATGCAGATAATAAACAAAACTACCTGTTGTCGAGGCAAGATCACTGGAGGATATACATAAAGT
TTTTCATCAACCTCCGGAATCTAGTCAACCTGAGCTGCCACATTCTTCAGGCTTAAAGAACAAAT
CATCAAAAGATACAAAGACCA
Found at i:414819 original size:282 final size:280
Alignment explanation
Indices: 413784--415084 Score: 1577
Period size: 282 Copynumber: 4.7 Consensus size: 280
413774 TCTTCAGGCT
** * *
413784 ATACAAAGGTCGAGACTAATGT-G-GCTGCCTGTTCTTGAAGCAAGATCAGCAGAAGATATTGAT
1 ATACAAAGACCGAGACAAATGTGGTGCTGCCTGTTCTTGAAGCAAAATCAGCAGAAGATATTGAT
* * *
413847 TTGGCTTTTAAGCAACTTCACGAAGGGGTCGATGTTGAGGAAATAATTGTTCCGAGTATGATTGA
66 TTGGCTTTTAAGCAACTTC-CGAAGGGGTCGATGTTGAGGAAGTGATTGTTCCAAGTATGATTGA
** * ** ** * * *
413912 G-AACTGCAAGATCATATAGATAGT-AAAGAAACACTACCTGTTGTCGGGGCAAGATCACTGGAG
130 GAAACCACAGGATCATGGAGATA-TCAAATCAA-ATTACCTGTTGTCGAGGCAAGATCTCTGGAG
* * * * * *
413975 GATATATATAAAGTTTTTCATGAACCTGCGGAATCTTGTCAACCTGAGCTGCCACATTGTTCAGG
193 GATATACATAAAGTTTTTCATCAACCTCCAGAATCTAGTCAACCTGAGCTGCCACATTCTTCAGG
414040 CTTAAAGAACAAATCATCAAAAG
258 CTTAAAGAACAAATCATCAAAAG
*
414063 ACACAAAGACCGAGACAAATGTGGTGCTGCCTGTTCTTGAAGCAAAATCAGCAGAAGATATTGAT
1 ATACAAAGACCGAGACAAATGTGGTGCTGCCTGTTCTTGAAGCAAAATCAGCAGAAGATATTGAT
* *
414128 TTGGCCTTTAAGCAACTTAACGAAGGGGTCGATGTTGAGGAAGTGATTGTTCCAAGTATGATTGA
66 TTGGCTTTTAAGCAACTT-CCGAAGGGGTCGATGTTGAGGAAGTGATTGTTCCAAGTATGATTGA
* *
414193 GAAACCGCAGGATCATGGAGATATCAAATCAAAGTTACCTGTTGTCGAGGCAAGATCTCTGGAAG
130 GAAACCACAGGATCATGGAGATATCAAATCAAA-TTACCTGTTGTCGAGGCAAGATCTCTGGAGG
* * * *
414258 ATATACATAAAGTTTTTCATCAACGTGCAGATTCTAGTAAACCTGAGCTGCCACATTCTTCAGGC
194 ATATACATAAAGTTTTTCATCAACCTCCAGAATCTAGTCAACCTGAGCTGCCACATTCTTCAGGC
414323 TTAAAGAACAAATCATCAAAAG
259 TTAAAGAACAAATCATCAAAAG
* * * * *
414345 ATAC-AA-ACTGAAACCAACG-GGCTGCTGCCTGCTCTTGAAGC-AAATCAGCAGAAGATATTGA
1 ATACAAAGACCGAGACAAATGTGG-TGCTGCCTGTTCTTGAAGCAAAATCAGCAGAAGATATTGA
* * *
414406 TTT-GCCTTTAAGCAACTTCACGAAGGGGTCGATGTTGAGGAAGTAATTGTTCCAAATATGATTG
65 TTTGGCTTTTAAGCAACTTC-CGAAGGGGTCGATGTTGAGGAAGTGATTGTTCCAAGTATGATTG
* *
414470 AGAAACCACAGGATCATGGAGATATCAAATCAAAATTACCTGTTGTCGAGGCAAGATCACCGGAG
129 AGAAACCACAGGATCATGGAGATATCAAATC-AAATTACCTGTTGTCGAGGCAAGATCTCTGGAG
** * *
414535 GATATACATAAAGTTTTTCATCAAAATCCGGAATCTAGTCAACCTGAGATGCCACATTCTTCAGG
193 GATATACATAAAGTTTTTCATCAACCTCCAGAATCTAGTCAACCTGAGCTGCCACATTCTTCAGG
414600 CTTAAAGAACAAATCATCAAAAG
258 CTTAAAGAACAAATCATCAAAAG
* *
414623 ATACAAAGACCGAGACCAATGTGGTGCTGCCTGCTCTTGAAGCAAAATCAGCAGAAGATATTGAT
1 ATACAAAGACCGAGACAAATGTGGTGCTGCCTGTTCTTGAAGCAAAATCAGCAGAAGATATTGAT
* * * * *
414688 TTGGCTTTTAAGCAACTTCCTGAAGGGATCGATGTTGAAGAAGTGATTATTCAAAGTATTATTGA
66 TTGGCTTTTAAGCAACTTCC-GAAGGGGTCGATGTTGAGGAAGTGATTGTTCCAAGTATGATTGA
* * * * ***
414753 GAAACCAAAGGATCATGGAGATGTCGAATCTGAATTACCTACAGTCGAGGCAAGATCTCTGGAGG
130 GAAACCACAGGATCATGGAGATATCAAATC-AAATTACCTGTTGTCGAGGCAAGATCTCTGGAGG
** * * * * *
414818 ATATACATAAAGCATTTCAACAAGCTCCAGAATCTAGTTC-AGCTGAGCTGCCGCTTTCTTCAGG
194 ATATACATAAAGTTTTTCATCAACCTCCAGAATCTAG-TCAACCTGAGCTGCCACATTCTTCAGG
414882 C-T---------AT-A-C----G
258 CTTAAAGAACAAATCATCAAAAG
* *
414889 -----AAGACCGAGACAAATGTGGCGCTGCCTGTTCTTGAAGCAAGATCAGCAGAAGATATTGAT
1 ATACAAAGACCGAGACAAATGTGGTGCTGCCTGTTCTTGAAGCAAAATCAGCAGAAGATATTGAT
* * * *
414949 TTGGCTTTTAAGCAACTTCATGTAGGGGTTGATGTTGAGGAAGTGATTGTTCCTAGTATGATTGA
66 TTGGCTTTTAAGCAACTTC-CGAAGGGGTCGATGTTGAGGAAGTGATTGTTCCAAGTATGATTGA
* * *
415014 GAAAACACAGGATCATGGAGATATCAAATCAAAATTACCTGTTGTCGAGGCAAAATATCTGGAGG
130 GAAACCACAGGATCATGGAGATATCAAATC-AAATTACCTGTTGTCGAGGCAAGATCTCTGGAGG
415079 AT-TACA
194 ATATACA
415085 GAACGCTTTG
Statistics
Matches: 902, Mismatches: 103, Indels: 53
0.85 0.10 0.05
Matches are distributed among these distances:
260 4 0.00
261 167 0.19
266 1 0.00
270 1 0.00
271 1 0.00
272 2 0.00
278 199 0.22
279 48 0.05
280 57 0.06
281 130 0.14
282 290 0.32
283 2 0.00
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.26
Consensus pattern (280 bp):
ATACAAAGACCGAGACAAATGTGGTGCTGCCTGTTCTTGAAGCAAAATCAGCAGAAGATATTGAT
TTGGCTTTTAAGCAACTTCCGAAGGGGTCGATGTTGAGGAAGTGATTGTTCCAAGTATGATTGAG
AAACCACAGGATCATGGAGATATCAAATCAAATTACCTGTTGTCGAGGCAAGATCTCTGGAGGAT
ATACATAAAGTTTTTCATCAACCTCCAGAATCTAGTCAACCTGAGCTGCCACATTCTTCAGGCTT
AAAGAACAAATCATCAAAAG
Found at i:416606 original size:158 final size:157
Alignment explanation
Indices: 416401--416795 Score: 526
Period size: 158 Copynumber: 2.5 Consensus size: 157
416391 CTTGATTTCA
* * * * *
416401 TTATTTCTGCAATTCCTCCTTCATTTTAAGTCCATTTTTTAACCAAATTTGAACCACATGCTCCT
1 TTATTTCTTCAATTCCTCATTTATTTTAAGTCCCTTTTTTTACCAAATTTGAACCACATGCTCCT
* * *
416466 AAACCACATTAGAATACATGTGTACTTTCAATTCCTCTTTTTGATAACAAATTTTTTATTTTTCA
66 AAACCACAATAGAATACATGTG-ACTTTCAATTCCTATTTTTGATAA-AAATTTTTTATTTTTAA
416531 ATTTAGTCCTTCAATCTTTCAT-ATCTCC
129 ATTTAGTCCTTCAATCTTTCATAATCTCC
* * * *
416559 TTATTTCTTCAATTCGTCTTTTGTTTTAAGTCCCTTTTTTTACCAAATTTGAGCCACATGCTCCT
1 TTATTTCTTCAATTCCTCATTTATTTTAAGTCCCTTTTTTTACCAAATTTGAACCACATGCTCCT
* * * *
416624 AAACCATAGTAGAATACATGTGACTTTCAATTCCTATTTTTTATAAGAATTTTTTATTTTTAAAT
66 AAACCACAATAGAATACATGTGACTTTCAATTCCTATTTTTGATAAAAATTTTTTATTTTTAAAT
* *
416689 TTAGTCCTTCAATTTTTCATAATGTCC
131 TTAGTCCTTCAATCTTTCATAATCTCC
* ** * *
416716 TTATTCCTTCAATTTTTGATTTATTTTAAGT-CC-TTTTTTACCAAATTTGAACCACATGCTCGT
1 TTATTTCTTCAATTCCTCATTTATTTTAAGTCCCTTTTTTTACCAAATTTGAACCACATGCTCCT
* *
416779 ATACCACAATATAATAC
66 AAACCACAATAGAATAC
416796 CTATGTAACT
Statistics
Matches: 208, Mismatches: 28, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
155 41 0.20
156 38 0.18
157 52 0.25
158 77 0.37
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.46
Consensus pattern (157 bp):
TTATTTCTTCAATTCCTCATTTATTTTAAGTCCCTTTTTTTACCAAATTTGAACCACATGCTCCT
AAACCACAATAGAATACATGTGACTTTCAATTCCTATTTTTGATAAAAATTTTTTATTTTTAAAT
TTAGTCCTTCAATCTTTCATAATCTCC
Found at i:416818 original size:156 final size:157
Alignment explanation
Indices: 416423--416821 Score: 502
Period size: 157 Copynumber: 2.5 Consensus size: 157
416413 TTCCTCCTTC
* * *
416423 ATTTTAAGTCCATTTTTTAACCAAATTTGAACCACATGCTCCTAAACCACATTAGAATACATGTG
1 ATTTTAAGTCCATTTTTT-ACCAAATTTGAACCACATGCTCCTAAACCACAATAGAATACCTATG
* * *
416488 TACTTTCAATTCCTCTTTTTGATAACAAATTTTTTATTTTTCAATTTAGTCCTTCAATCTTTCAT
65 TACTTTCAATTCCTATTTTTTATAACAAATTTTTTATTTTTAAATTTAGTCCTTCAATCTTTCAT
* *
416553 ATCTCCTTATTTCTTCAATTCGTCTTTT
130 ATCTCCTTATTCCTTCAATTCGTCATTT
* * * * *
416581 GTTTTAAGTCCCTTTTTTTACCAAATTTGAGCCACATGCTCCTAAACCATAGTAGAATA-C-ATG
1 ATTTTAAGT-CCATTTTTTACCAAATTTGAACCACATGCTCCTAAACCACAATAGAATACCTATG
* *
416644 TGACTTTCAATTCCTATTTTTTATAA-GAATTTTTTATTTTTAAATTTAGTCCTTCAATTTTTCA
65 T-ACTTTCAATTCCTATTTTTTATAACAAATTTTTTATTTTTAAATTTAGTCCTTCAATCTTTCA
* ** *
416708 TAATGTCCTTATTCCTTCAATTTTTGATTT
129 T-ATCTCCTTATTCCTTCAATTCGTCATTT
* * *
416738 ATTTTAAGTCC-TTTTTTACCAAATTTGAACCACATGCTCGTATACCACAATATAATACCTATGT
1 ATTTTAAGTCCATTTTTTACCAAATTTGAACCACATGCTCCTAAACCACAATAGAATACCTATGT
**
416802 AACTTT-AATTGTTATTTTTT
66 -ACTTTCAATTCCTATTTTTT
416822 TACTAAAGAT
Statistics
Matches: 208, Mismatches: 28, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
155 40 0.19
156 54 0.26
157 61 0.29
158 45 0.22
159 8 0.04
ACGTcount: A:0.28, C:0.19, G:0.07, T:0.46
Consensus pattern (157 bp):
ATTTTAAGTCCATTTTTTACCAAATTTGAACCACATGCTCCTAAACCACAATAGAATACCTATGT
ACTTTCAATTCCTATTTTTTATAACAAATTTTTTATTTTTAAATTTAGTCCTTCAATCTTTCATA
TCTCCTTATTCCTTCAATTCGTCATTT
Found at i:418078 original size:19 final size:19
Alignment explanation
Indices: 418054--418091 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
418044 TCTAAGTAGG
418054 AGGTATTATTGCAATTATT
1 AGGTATTATTGCAATTATT
418073 AGGTATTATTGCAATTATT
1 AGGTATTATTGCAATTATT
418092 CTTGAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.16, T:0.47
Consensus pattern (19 bp):
AGGTATTATTGCAATTATT
Found at i:418362 original size:14 final size:14
Alignment explanation
Indices: 418343--418370 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
418333 TTTCAATTTT
418343 GAGTTATTCGAGTC
1 GAGTTATTCGAGTC
418357 GAGTTATTCGAGTC
1 GAGTTATTCGAGTC
418371 AACTCGAATT
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:0.21, C:0.14, G:0.29, T:0.36
Consensus pattern (14 bp):
GAGTTATTCGAGTC
Found at i:418829 original size:154 final size:156
Alignment explanation
Indices: 418516--418883 Score: 501
Period size: 154 Copynumber: 2.4 Consensus size: 156
418506 TCCTCCTTCA
* *
418516 TTTAAGTCCATTTTTAACCAAATTTGAACCACATGCTCCTAAACCACAGTAGAATACATGTGTAC
1 TTTAAGTCCATTTTTTACCAAATTTGAACCACATGCTCCTAAACCACAGTAGAATACATATGTAC
418581 TTTCAATTCCTCTTTTGATAACAAATTTTTTATTTTTCAATTTAATCCTTCAATCTTTCATATCT
66 TTTCAATTCCTCTTTTGATAACAAATTTTTTATTTTTCAATTTAATCCTTCAATCTTTCATATCT
* *
418646 CCTTATTTCTTCAATTCGTCATTTGT
131 CCTTATTCCTTCAATTCGTCATTTAT
* * *
418672 TTTAAGTCCGTTTTTTACCAAATTTGAGCCACATGCTCCTAAA-CATAGTAGAATACATATG-AC
1 TTTAAGTCCATTTTTTACCAAATTTGAACCACATGCTCCTAAACCACAGTAGAATACATATGTAC
* * * * * *
418735 TTTCAATTCCTATTTT-TTATAGAAA-TTTTTATTTTTGAATTTAGTCCTTCAATTTTTCATAAT
66 TTTCAATTCCTCTTTTGATA-ACAAATTTTTTATTTTTCAATTTAATCCTTCAATCTTTCAT-AT
* * *
418798 GTCCTTATTCCTTCAATTTGTGATTTAT
129 CTCCTTATTCCTTCAATTCGTCATTTAT
* * * *
418826 TTTAAGTCCTTTGTTTTACCAAATTTGAACCACATGCTCATATACCACAATAGAATAC
1 TTTAAGTCCATT-TTTTACCAAATTTGAACCACATGCTCCTAAACCACAGTAGAATAC
418884 CTTTGTAACT
Statistics
Matches: 186, Mismatches: 22, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
153 34 0.18
154 57 0.31
155 44 0.24
156 51 0.27
ACGTcount: A:0.29, C:0.19, G:0.08, T:0.44
Consensus pattern (156 bp):
TTTAAGTCCATTTTTTACCAAATTTGAACCACATGCTCCTAAACCACAGTAGAATACATATGTAC
TTTCAATTCCTCTTTTGATAACAAATTTTTTATTTTTCAATTTAATCCTTCAATCTTTCATATCT
CCTTATTCCTTCAATTCGTCATTTAT
Found at i:420180 original size:21 final size:20
Alignment explanation
Indices: 420151--420227 Score: 93
Period size: 20 Copynumber: 3.8 Consensus size: 20
420141 ATGAATACGA
*
420151 TGAACAATATCGATACTAAT
1 TGAAGAATATCGATACTAAT
420171 TGAAGTAATATCGATACTAAT
1 TGAAG-AATATCGATACTAAT
* *
420192 TGAAGCATATCGATACTGAT
1 TGAAGAATATCGATACTAAT
*
420212 GTGAAG-GTATCGATAC
1 -TGAAGAATATCGATAC
420228 CAAGATGAGG
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
20 26 0.51
21 25 0.49
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (20 bp):
TGAAGAATATCGATACTAAT
Found at i:420203 original size:20 final size:19
Alignment explanation
Indices: 420157--420227 Score: 88
Period size: 21 Copynumber: 3.5 Consensus size: 19
420147 ACGATGAACA
420157 ATATCGATACTAATTGAAG
1 ATATCGATACTAATTGAAG
420176 TAATATCGATACTAATTGAAG
1 --ATATCGATACTAATTGAAG
*
420197 CATATCGATACTGATGTGAAG
1 -ATATCGATACTAAT-TGAAG
*
420218 GTATCGATAC
1 ATATCGATAC
420228 CAAGATGAGG
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
20 22 0.48
21 24 0.52
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (19 bp):
ATATCGATACTAATTGAAG
Found at i:420749 original size:19 final size:18
Alignment explanation
Indices: 420725--420785 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 18
420715 AATTATATTT
420725 ATTAATTTTATAAATAGTA
1 ATTAATTTTATAAATA-TA
** *
420744 ATTAATTAAAGAAAATATA
1 ATTAATTTTA-TAAATATA
420763 ATTAATTCTTATATAATATA
1 ATTAATT-TTATA-AATATA
420783 ATT
1 ATT
420786 TTTAAATAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (18 bp):
ATTAATTTTATAAATATA
Found at i:422275 original size:170 final size:171
Alignment explanation
Indices: 421993--422331 Score: 637
Period size: 170 Copynumber: 2.0 Consensus size: 171
421983 GTGAGTTCCC
*
421993 CCAGCCTAACTCTATCTCCTCTATTTGATTCATAATTCTCTTGATTTCGTATCATATTTTTATTT
1 CCAGCCTAACTCTATCTCCTCTATTGGATTCATAATTCTCTTGATTTCGTATCATATTTTTATTT
422058 AAAATTTTATATATTTATATTTACATTAATGTCGATTTGCTAATAAC-TTTATTTTGTAGTG-TT
66 AAAATTTTATATATTTATATTTACATTAATGTCGATTTGCTAATAACTTTTA-TTTGTAGTGTTT
*
422121 AAGGTATTTGTGTTATTTAATTAATATGAGATGCTTATAACA
130 AAGGTATTTGTGTTATTTAATTAATATGAGATGATTATAACA
422163 CCAGCCTAACTCTATCTCCTCTATTGGATTCATAATTCTCTTGATTTCGTATCATATTTTTATTT
1 CCAGCCTAACTCTATCTCCTCTATTGGATTCATAATTCTCTTGATTTCGTATCATATTTTTATTT
422228 AAAATTTTATATATTTATATTTACATTAATGTCGATTTGCTAATAACTTTTATTTGTAGTGTTTA
66 AAAATTTTATATATTTATATTTACATTAATGTCGATTTGCTAATAACTTTTATTTGTAGTGTTTA
422293 AGGTATTTGTGTTATTTAATTAATATGAGATGATTATAA
131 AGGTATTTGTGTTATTTAATTAATATGAGATGATTATAA
422332 GTTAGTATAG
Statistics
Matches: 165, Mismatches: 2, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
170 120 0.73
171 45 0.27
ACGTcount: A:0.29, C:0.12, G:0.10, T:0.49
Consensus pattern (171 bp):
CCAGCCTAACTCTATCTCCTCTATTGGATTCATAATTCTCTTGATTTCGTATCATATTTTTATTT
AAAATTTTATATATTTATATTTACATTAATGTCGATTTGCTAATAACTTTTATTTGTAGTGTTTA
AGGTATTTGTGTTATTTAATTAATATGAGATGATTATAACA
Found at i:423092 original size:22 final size:22
Alignment explanation
Indices: 423067--423125 Score: 64
Period size: 25 Copynumber: 2.5 Consensus size: 22
423057 ATATATATAT
423067 ATATTAACTTAAAAATATTTTA
1 ATATTAACTTAAAAATATTTTA
* *
423089 ATATTAACTTGTTAAATATATTTTG
1 ATATTAAC---TTAAAAATATTTTA
*
423114 TTATTAACTTAA
1 ATATTAACTTAA
423126 TTTAAAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
22 12 0.39
25 19 0.61
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.49
Consensus pattern (22 bp):
ATATTAACTTAAAAATATTTTA
Found at i:423109 original size:25 final size:25
Alignment explanation
Indices: 423075--423140 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
423065 ATATATTAAC
423075 TTAAAAATATTTTAATATTAACTTG
1 TTAAAAATATTTTAATATTAACTTG
* ** *
423100 TTAAATATATTTTGTTATTAACTTAAT
1 TTAAAAATATTTTAATATTAACTT--G
423127 TTAAAAATATTTTA
1 TTAAAAATATTTTA
423141 TTTTTATTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
25 21 0.64
27 12 0.36
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (25 bp):
TTAAAAATATTTTAATATTAACTTG
Found at i:423137 original size:27 final size:27
Alignment explanation
Indices: 423070--423163 Score: 93
Period size: 27 Copynumber: 3.6 Consensus size: 27
423060 TATATATATA
* *
423070 TTAACTTAAAAATATTTTAATATTAAC
1 TTAATTTAAAAATATTTTATTATTAAC
* * *
423097 TT--GTTAAATATATTTTGTTATTAAC
1 TTAATTTAAAAATATTTTATTATTAAC
* **
423122 TTAATTTAAAAATATTTTATTTTTATT
1 TTAATTTAAAAATATTTTATTATTAAC
*
423149 TTCATTTAAAAATAT
1 TTAATTTAAAAATAT
423164 ATATTTTATG
Statistics
Matches: 54, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
25 21 0.39
27 33 0.61
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.53
Consensus pattern (27 bp):
TTAATTTAAAAATATTTTATTATTAAC
Found at i:423339 original size:31 final size:31
Alignment explanation
Indices: 423297--423371 Score: 123
Period size: 31 Copynumber: 2.4 Consensus size: 31
423287 TAACCCGTGA
*
423297 TGACCACATCTTAATTAAACAAAAATGAAAG
1 TGACCATATCTTAATTAAACAAAAATGAAAG
*
423328 TGACCATATCTTAATTAAATAAAAATGAAAG
1 TGACCATATCTTAATTAAACAAAAATGAAAG
*
423359 TGATCATATCTTA
1 TGACCATATCTTA
423372 TATTTTTTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.48, C:0.13, G:0.09, T:0.29
Consensus pattern (31 bp):
TGACCATATCTTAATTAAACAAAAATGAAAG
Found at i:423771 original size:23 final size:24
Alignment explanation
Indices: 423728--423783 Score: 87
Period size: 23 Copynumber: 2.4 Consensus size: 24
423718 ACAATAATTG
* *
423728 GTGATTTTTCTTGACATAAAAAAA
1 GTGATTTTTCTTAACAAAAAAAAA
423752 GTGATTTTT-TTAACAAAAAAAAA
1 GTGATTTTTCTTAACAAAAAAAAA
423775 GTGATTTTT
1 GTGATTTTT
423784 AACTAACAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 21 0.70
24 9 0.30
ACGTcount: A:0.41, C:0.05, G:0.12, T:0.41
Consensus pattern (24 bp):
GTGATTTTTCTTAACAAAAAAAAA
Found at i:432428 original size:248 final size:246
Alignment explanation
Indices: 431992--432481 Score: 811
Period size: 248 Copynumber: 2.0 Consensus size: 246
431982 AAAAAAAAAA
* *
431992 TTAAAGCACAGAAAGGGGCTTTCAACAGTCAAAGTTTTATGCCACGACATTTTAAGAACTCTTAT
1 TTAAAGCACAAAAAGGGGCTTTCAACAGTCAAAGTTATATGCCACGACATTTTAAGAACTCTTAT
* * *
432057 AAAAAATTCCTAGATTACTCAAGCATGGAAAGCATACAATCGTGTATTCAAGAATTTCAGAGAAA
66 AAAAAATTCCTAAATTACTCAAGCATGGAAAGAATACAATCATGTATTCAAGAATTTCAGAGAAA
* *
432122 CAAGTCCTAGGATTGGTTCTATCATCCTCAACTAGTCATGTGCATTCTATCCTAGCCATCAAATT
131 CAAGTCCTAGGATTGGTTCTATCATCCTCAACCAGTCATGTACATTCTATCCTAGCCATCAAATT
* * *
432187 CATTATCATTGGGCATCCTTAACTAATTCCAGAAAATTATTCAGGCATTTT
196 CATCATCATTAGGCATCCTTAACTAATTCCAGAAAACTATTCAGGCATTTT
* *
432238 TTAAAGCATAAAAATGGGCTTTCAACAGTCAAAGTTATATGCCACGACATTTTAAGAATTCTCTT
1 TTAAAGCACAAAAAGGGGCTTTCAACAGTCAAAGTTATATGCCACGACATTTTAAGAA--CTCTT
* * *
432303 ATAAAAAATTCTTAAATTCCTTAAGCATGGAAAGAATACAATCATGTATTCAAGAATTTCAGAGA
64 ATAAAAAATTCCTAAATTACTCAAGCATGGAAAGAATACAATCATGTATTCAAGAATTTCAGAGA
432368 AACAAGTCCTAAGG-TTGGTTCTATCATCCTCAACCAGTCATGTACATTCTATCCTAGCCATCAA
129 AACAAGTCCT-AGGATTGGTTCTATCATCCTCAACCAGTCATGTACATTCTATCCTAGCCATCAA
432432 ATTCATCATCATTAGGCATCCTTAACTAATTCCAGAAAACTATTCAGGCA
193 ATTCATCATCATTAGGCATCCTTAACTAATTCCAGAAAACTATTCAGGCA
432482 ATTACTAATG
Statistics
Matches: 226, Mismatches: 15, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
246 54 0.24
248 169 0.75
249 3 0.01
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (246 bp):
TTAAAGCACAAAAAGGGGCTTTCAACAGTCAAAGTTATATGCCACGACATTTTAAGAACTCTTAT
AAAAAATTCCTAAATTACTCAAGCATGGAAAGAATACAATCATGTATTCAAGAATTTCAGAGAAA
CAAGTCCTAGGATTGGTTCTATCATCCTCAACCAGTCATGTACATTCTATCCTAGCCATCAAATT
CATCATCATTAGGCATCCTTAACTAATTCCAGAAAACTATTCAGGCATTTT
Found at i:442658 original size:14 final size:14
Alignment explanation
Indices: 442639--442673 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
442629 AAGTCACATC
442639 TATTCAATTATACT
1 TATTCAATTATACT
442653 TATTCAATTATACT
1 TATTCAATTATACT
442667 TATTCAA
1 TATTCAA
442674 CAAATATCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (14 bp):
TATTCAATTATACT
Found at i:442712 original size:21 final size:21
Alignment explanation
Indices: 442688--442727 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
442678 TATCTTCACT
442688 AAAAGGTCTTAACTATTCATC
1 AAAAGGTCTTAACTATTCATC
*
442709 AAAAGGTCTTAACTTTTCA
1 AAAAGGTCTTAACTATTCA
442728 ATCCTTTCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (21 bp):
AAAAGGTCTTAACTATTCATC
Found at i:451298 original size:22 final size:22
Alignment explanation
Indices: 451270--451317 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
451260 ATGATATACA
*
451270 AACACTAAAACAACGCTAAATG
1 AACACTAAAACAACGCTAAACG
**
451292 AACACTAAATGAACGCTAAACG
1 AACACTAAAACAACGCTAAACG
451314 AACA
1 AACA
451318 TGAACAAGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.54, C:0.23, G:0.10, T:0.12
Consensus pattern (22 bp):
AACACTAAAACAACGCTAAACG
Found at i:451299 original size:11 final size:11
Alignment explanation
Indices: 451270--451317 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
451260 ATGATATACA
**
451270 AACACTAAAAC
1 AACACTAAATG
*
451281 AACGCTAAATG
1 AACACTAAATG
451292 AACACTAAATG
1 AACACTAAATG
* *
451303 AACGCTAAACG
1 AACACTAAATG
451314 AACA
1 AACA
451318 TGAACAAGTT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.54, C:0.23, G:0.10, T:0.12
Consensus pattern (11 bp):
AACACTAAATG
Found at i:451352 original size:24 final size:23
Alignment explanation
Indices: 451319--451369 Score: 75
Period size: 24 Copynumber: 2.2 Consensus size: 23
451309 AAACGAACAT
*
451319 GAACAAGTTCATGAGCATATAAAC
1 GAACAAGTTCATGAACAT-TAAAC
*
451343 GAACACGTTCATGAACATTAAAC
1 GAACAAGTTCATGAACATTAAAC
451366 GAAC
1 GAAC
451370 GCTAAATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 9 0.36
24 16 0.64
ACGTcount: A:0.45, C:0.20, G:0.16, T:0.20
Consensus pattern (23 bp):
GAACAAGTTCATGAACATTAAAC
Found at i:451423 original size:24 final size:23
Alignment explanation
Indices: 451387--451450 Score: 56
Period size: 24 Copynumber: 2.7 Consensus size: 23
451377 AAACATGTTC
**
451387 ACGAACACATTCGTGAACATATAA
1 ACGAACATGTTCGTGAACAT-TAA
**
451411 ACGAACATGTTCGAAAACATTAA
1 ACGAACATGTTCGTGAACATTAA
* * *
451434 ATGAATATGTTTGTGAA
1 ACGAACATGTTCGTGAA
451451 TAATAAATAA
Statistics
Matches: 31, Mismatches: 9, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
23 15 0.48
24 16 0.52
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.27
Consensus pattern (23 bp):
ACGAACATGTTCGTGAACATTAA
Found at i:451848 original size:2 final size:2
Alignment explanation
Indices: 451841--451866 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
451831 GGATCCTAGC
451841 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
451867 ATCTTGGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:453811 original size:16 final size:16
Alignment explanation
Indices: 453787--453823 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
453777 GATAAGTTCT
*
453787 TTTTA-TTGCAATAGC
1 TTTTAGTTGCAAAAGC
453802 TTTTAGTTGCAAAAGC
1 TTTTAGTTGCAAAAGC
453818 TTTTAG
1 TTTTAG
453824 CTTTTAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.46
Consensus pattern (16 bp):
TTTTAGTTGCAAAAGC
Found at i:453922 original size:16 final size:16
Alignment explanation
Indices: 453897--453935 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
453887 TAGATAAGTT
* *
453897 CTTTTTGTTGCAATAG
1 CTTTTAGTTGCAAAAG
453913 CTTTTAGTTGCAAAAG
1 CTTTTAGTTGCAAAAG
453929 CTTTTAG
1 CTTTTAG
453936 CTTTTAGAAA
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:0.23, C:0.13, G:0.18, T:0.46
Consensus pattern (16 bp):
CTTTTAGTTGCAAAAG
Found at i:453922 original size:112 final size:112
Alignment explanation
Indices: 453725--454000 Score: 516
Period size: 112 Copynumber: 2.5 Consensus size: 112
453715 ATGTGCACTA
*
453725 AAACAAGTTGTTTTTTGTTGCTTAAATGAATGAATTGTTTTTACGTCCTATAGATAAGTTCTTTT
1 AAACAAGTTGTTTTTTGTTGCTTAAATGAATGAAATGTTTTTACGTCCTATAGATAAGTTCTTTT
453790 TATTGCAATAGCTTTTAGTTGCAAAAGCTTTTAGCTTTTAGAAACAT
66 TATTGCAATAGCTTTTAGTTGCAAAAGCTTTTAGCTTTTAGAAACAT
453837 AAACAAGTTGTTTTTTGTTGCTTAAATGAATGAAATGTTTTTACGTCCTATAGATAAGTTCTTTT
1 AAACAAGTTGTTTTTTGTTGCTTAAATGAATGAAATGTTTTTACGTCCTATAGATAAGTTCTTTT
*
453902 TGTTGCAATAGCTTTTAGTTGCAAAAGCTTTTAGCTTTTAGAAACAT
66 TATTGCAATAGCTTTTAGTTGCAAAAGCTTTTAGCTTTTAGAAACAT
*
453949 AAACAAGTTGTTTTTTTGTTGCTTAAATGAATGAACTGTTTTTACGTCCTAT
1 AAACAAGTTG-TTTTTTGTTGCTTAAATGAATGAAATGTTTTTACGTCCTAT
454001 GATTTTACTG
Statistics
Matches: 160, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
112 120 0.75
113 40 0.25
ACGTcount: A:0.29, C:0.11, G:0.16, T:0.45
Consensus pattern (112 bp):
AAACAAGTTGTTTTTTGTTGCTTAAATGAATGAAATGTTTTTACGTCCTATAGATAAGTTCTTTT
TATTGCAATAGCTTTTAGTTGCAAAAGCTTTTAGCTTTTAGAAACAT
Found at i:455220 original size:2 final size:2
Alignment explanation
Indices: 455213--455243 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
455203 TTTCTCTTTC
455213 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 A
455244 ATGCCACCTA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:459125 original size:29 final size:29
Alignment explanation
Indices: 459079--459137 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
459069 AATTGACACA
* *
459079 TAAATTCTAGATAGAATACTAATTAAACC
1 TAAATTCTACATAAAATACTAATTAAACC
* *
459108 TAAATTTTACATAAAATACTAATTTAACC
1 TAAATTCTACATAAAATACTAATTAAACC
459137 T
1 T
459138 TTGAACTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.47, C:0.14, G:0.03, T:0.36
Consensus pattern (29 bp):
TAAATTCTACATAAAATACTAATTAAACC
Found at i:459474 original size:28 final size:28
Alignment explanation
Indices: 459438--459497 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
459428 AAATGAAACT
459438 AAAACATAATGTTAGATATGTTTTTGAA
1 AAAACATAATGTTAGATATGTTTTTGAA
459466 AAAACATAATGTTAGATATGTTTTTGAA
1 AAAACATAATGTTAGATATGTTTTTGAA
459494 AAAA
1 AAAA
459498 AATAGTTGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.47, C:0.03, G:0.13, T:0.37
Consensus pattern (28 bp):
AAAACATAATGTTAGATATGTTTTTGAA
Found at i:462530 original size:2 final size:2
Alignment explanation
Indices: 462523--462547 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
462513 TTTAAGATGA
462523 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
462548 AATACAATAA
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:468788 original size:17 final size:17
Alignment explanation
Indices: 468766--468799 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
468756 TTTACAAGGC
468766 AGCAGCAGAC-AACAACA
1 AGCAGC-GACAAACAACA
468783 AGCAGCGACAAACAACA
1 AGCAGCGACAAACAACA
468800 TTGTATCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.53, C:0.29, G:0.18, T:0.00
Consensus pattern (17 bp):
AGCAGCGACAAACAACA
Found at i:469214 original size:18 final size:17
Alignment explanation
Indices: 469193--469257 Score: 51
Period size: 17 Copynumber: 3.6 Consensus size: 17
469183 CCTACAAAAT
469193 TAAAAATAAAATCATTAA
1 TAAAAATAAAAT-ATTAA
469211 TAAAAAATTCAAAATATTAA
1 T-AAAAA-T-AAAATATTAA
* * *
469231 TGAAATTAAAATAAATAA
1 TAAAAATAAAAT-ATTAA
469249 T-AAAATAAA
1 TAAAAATAAA
469258 TAATATATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
17 12 0.31
18 7 0.18
19 8 0.21
20 7 0.18
21 5 0.13
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.28
Consensus pattern (17 bp):
TAAAAATAAAATATTAA
Found at i:469254 original size:12 final size:12
Alignment explanation
Indices: 469237--469262 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
469227 TTAATGAAAT
469237 TAAAATAAATAA
1 TAAAATAAATAA
469249 TAAAATAAATAA
1 TAAAATAAATAA
469261 TA
1 TA
469263 TATTTACCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (12 bp):
TAAAATAAATAA
Found at i:472186 original size:23 final size:23
Alignment explanation
Indices: 472152--472219 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
472142 CATCTTATAT
*
472152 GGCACTTCGGTGTATTTCTACGC
1 GGCACTTCGGTGCATTTCTACGC
* * *
472175 GGCACTTAGGTGCAATTCTACGT
1 GGCACTTCGGTGCATTTCTACGC
*
472198 GGCACTTCGGTGCATTTATACG
1 GGCACTTCGGTGCATTTCTACG
472220 AACTGTGGTG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.18, C:0.24, G:0.26, T:0.32
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTCTACGC
Found at i:475000 original size:46 final size:46
Alignment explanation
Indices: 474930--475069 Score: 137
Period size: 46 Copynumber: 3.0 Consensus size: 46
474920 TCAATTAGGC
* * * * *
474930 AAGAGGAACAGAAGAAGAAAAGTCTCATTAAGATTTAGAGTTAGAG
1 AAGATGAACATAAGAATAAGAGTCTCATTAAGATTTAGGGTTAGAG
*
474976 AAGAT-AA-AT-AGAATATGAAGAGTCTTAGTT-AGATTTAGGGTTAGAG
1 AAGATGAACATAAG-A-AT-AAGAGTCTCA-TTAAGATTTAGGGTTAGAG
*
475022 AAGATGAACATAAGAATAAGAGTCTC-TGTAAGATTTAGGGTTAAAG
1 AAGATGAACATAAGAATAAGAGTCTCAT-TAAGATTTAGGGTTAGAG
475068 AA
1 AA
475070 TAAGAAGATG
Statistics
Matches: 77, Mismatches: 8, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
43 2 0.03
44 3 0.04
45 4 0.05
46 57 0.74
47 6 0.08
48 3 0.04
49 2 0.03
ACGTcount: A:0.45, C:0.05, G:0.25, T:0.25
Consensus pattern (46 bp):
AAGATGAACATAAGAATAAGAGTCTCATTAAGATTTAGGGTTAGAG
Found at i:475112 original size:26 final size:26
Alignment explanation
Indices: 475071--475166 Score: 113
Period size: 26 Copynumber: 3.7 Consensus size: 26
475061 GTTAAAGAAT
*
475071 AAGAAGATGAATAATACTTGGAGGAG
1 AAGAAGATGAACAATACTTGGAGGAG
* * *
475097 GAGGAGATGAACAATACTTGTAGGAG
1 AAGAAGATGAACAATACTTGGAGGAG
* * *
475123 AAGAAGATGAATAGTACTTAGG-GAAG
1 AAGAAGATGAACAATACTT-GGAGGAG
475149 AAGAAGATGAACAATACT
1 AAGAAGATGAACAATACT
475167 CAGTTATATT
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
26 56 0.98
27 1 0.02
ACGTcount: A:0.46, C:0.06, G:0.29, T:0.19
Consensus pattern (26 bp):
AAGAAGATGAACAATACTTGGAGGAG
Found at i:475605 original size:102 final size:101
Alignment explanation
Indices: 475372--475619 Score: 243
Period size: 102 Copynumber: 2.4 Consensus size: 101
475362 ACATATTGGG
* **
475372 TCTTGGGTTTGGGTGTTTGTAA-AGTCAAACAAGGG-TTTAGGGATGAAGAAAAGATGAACACGG
1 TCTTGGGTTTTGGTGTTTGTAAGA-TCAAATGAGGGTTTTAGGGATGAAGAAAAGATGAACACGG
* * * *
475435 GTTGAGTTTTAGGTTTTGATCTAAAAAATAGGTTAGG
65 GTTGAGTTTTAGGTTCTGATCAAAAAAACAGGTTAGA
* * * * * * ** *
475472 TATTGGATTTTGGTGTTTATAAGAATTAAATGAGGGTTTTAGTGATGAA-CACGGATGAACATGG
1 TCTTGGGTTTTGGTGTTTGTAAG-ATCAAATGAGGGTTTTAGGGATGAAGAAAAGATGAACACGG
* *
475536 GTTGAGTTTTGGGTGTCTGAT-AAAAAAAGCAGGTTTGA
65 GTTGAGTTTTAGGT-TCTGATCAAAAAAA-CAGGTTAGA
* *
475574 TCTTGGGTTTTGGTGTTTGTAGAGATCAAATGAGGATTTTGGGGAT
1 TCTTGGGTTTTGGTGTTTGTA-AGATCAAATGAGGGTTTTAGGGAT
475620 AAACAAGGGT
Statistics
Matches: 117, Mismatches: 25, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
100 18 0.15
101 38 0.32
102 59 0.50
103 2 0.02
ACGTcount: A:0.29, C:0.05, G:0.31, T:0.35
Consensus pattern (101 bp):
TCTTGGGTTTTGGTGTTTGTAAGATCAAATGAGGGTTTTAGGGATGAAGAAAAGATGAACACGGG
TTGAGTTTTAGGTTCTGATCAAAAAAACAGGTTAGA
Found at i:476107 original size:2 final size:2
Alignment explanation
Indices: 476100--476346 Score: 221
Period size: 2 Copynumber: 119.0 Consensus size: 2
476090 TATGTTCATG
476100 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
476142 TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA CTA TA TA GTA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA
* *
476186 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA CT- TA TA GTA TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA
* * * * * *
476229 TA AA TA TA AA CTA TA TA -A TG TA TA CA TA GTT TA TA TA AA CTA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA
* * * *
476271 TA TA GTT TA TA TA TA GTA TA TA AA TA TA AA CTA TA TA GTT TA TA
1 TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA -TA TA TA
* * *
476315 TA TA AA CTA TA TA -A TA TA TA AA TA TA AA TA TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
476347 AGTATACAAA
Statistics
Matches: 198, Mismatches: 32, Indels: 30
0.76 0.12 0.12
Matches are distributed among these distances:
1 3 0.02
2 181 0.91
3 14 0.07
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (2 bp):
TA
Found at i:476283 original size:11 final size:11
Alignment explanation
Indices: 476269--476444 Score: 54
Period size: 11 Copynumber: 16.5 Consensus size: 11
476259 TTATATAAAC
*
476269 TATATAGTTTA
1 TATATAGTATA
476280 TATATAGTATA
1 TATATAGTATA
* *
476291 TAAATA-TAAA
1 TATATAGTATA
476301 CTATATAGT-T-
1 -TATATAGTATA
*
476311 TATATA-TAAA
1 TATATAGTATA
*
476321 CTATATAATATA
1 -TATATAGTATA
* *
476333 TAAATA-TAAA
1 TATATAGTATA
476343 TATA-AGTATA
1 TATATAGTATA
* * *
476353 CAAATA-TAAA
1 TATATAGTATA
476363 CTATATAGT-TA
1 -TATATAGTATA
476374 -ATATA-TAGTA
1 TATATAGTA-TA
* * *
476384 CACATAGTTTA
1 TATATAGTATA
*
476395 TATATAGTTTA
1 TATATAGTATA
*
476406 TA-ACTA-TAAAA
1 TATA-TAGT-ATA
476417 TATATAGTATA
1 TATATAGTATA
*
476428 TAAATATGTA-A
1 TATATA-GTATA
476439 TATATA
1 TATATA
476445 AACTACAAGT
Statistics
Matches: 120, Mismatches: 26, Indels: 38
0.65 0.14 0.21
Matches are distributed among these distances:
8 2 0.02
9 12 0.10
10 21 0.17
11 74 0.62
12 11 0.09
ACGTcount: A:0.50, C:0.04, G:0.06, T:0.40
Consensus pattern (11 bp):
TATATAGTATA
Found at i:476334 original size:20 final size:21
Alignment explanation
Indices: 476023--476444 Score: 213
Period size: 20 Copynumber: 20.1 Consensus size: 21
476013 ACATTCAATG
*
476023 TATATAAATTATA-AGTAT-TA
1 TATATAAACTATATA-TATATA
*
476043 -ATATAAACTATATATATTTA
1 TATATAAACTATATATATATA
* * *
476063 -ATATATACTATATGTAT-GA
1 TATATAAACTATATATATATA
* * * *
476082 TGTATGAA-TATGTTCATGTATA
1 TATATAAACTAT-AT-ATATATA
*
476104 TATATATA-TATATATATATA
1 TATATAAACTATATATATATA
*
476124 TATATATA-TATATATATATA
1 TATATAAACTATATATATATA
*
476144 TATATATA-TATATATATATA
1 TATATAAACTATATATATATA
476164 TATATAAACTATATAGTATATA
1 TATATAAACTATATA-TATATA
*
476186 TATATATATATATATATATATATA
1 TATATA-A-A-CTATATATATATA
*
476210 TATATAAACT-TATAGTATTTA
1 TATATAAACTATATA-TATATA
* *
476231 AATATAAACTATATA-ATGTA
1 TATATAAACTATATATATATA
* * * *
476251 TACAT--AGTTTATATAAACTA
1 TATATAAACTATATATATA-TA
**
476271 TATAGTTTA-TATATAGTATATA
1 TATA-TAAACTATATA-TATATA
*
476293 AATATAAACTATATAGT-T-TA
1 TATATAAACTATATA-TATATA
476313 TATATAAACTATATAATATATA
1 TATATAAACTATAT-ATATATA
* *
476335 AATATAAA-TATA-AGTATACA
1 TATATAAACTATATA-TATATA
*
476355 AATATAAACTATATAGT-TAATA
1 TATATAAACTATATA-TAT-ATA
* *
476377 TATAGTACAC-ATAGTTTATATA
1 TATA-TAAACTATA-TATATATA
* *
476399 TAGTTTATAACTATAAAATATATA
1 TA-TATA-AACTAT-ATATATATA
*
476423 GTATATAAA-TATGTA-ATATA
1 -TATATAAACTATATATATATA
476443 TA
1 TA
476445 AACTACAAGT
Statistics
Matches: 319, Mismatches: 48, Indels: 71
0.73 0.11 0.16
Matches are distributed among these distances:
18 6 0.02
19 22 0.07
20 126 0.39
21 40 0.13
22 75 0.24
23 17 0.05
24 24 0.08
25 9 0.03
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.43
Consensus pattern (21 bp):
TATATAAACTATATATATATA
Found at i:476351 original size:62 final size:63
Alignment explanation
Indices: 476112--476434 Score: 257
Period size: 62 Copynumber: 4.9 Consensus size: 63
476102 TATATATATA
* * * * *
476112 TATATA-TATATATATATATATATATATATATATATATATATATATA-TATATATATATAAAC
1 TATATAGTTTATATATAAATATATATATATATAAATATAAATATATAGTATATAAATATAAAC
* *
476173 TATATAGTATATATATATATATATATATATATATATATATATAAACT-TATAGTATTTAAATATA
1 TATATAGT-T-TATATATA-A-ATATATATATATATAAATATAAA-TATATAGTATATAAATATA
476237 AAC
61 AAC
* * * * * * **
476240 TATATAATGTATACAT-AGT-T-TATATAAACTATATAGTTTATATATAGTATATAAATATAAAC
1 TATATAGTTTATATATAAATATATATATATA-TAAATA-TAAATATATAGTATATAAATATAAAC
*
476302 TATATAGTTTATATATAAACTATATA-ATATATAAATATAAATATA-AGTATACAAATATAAAC
1 TATATAGTTTATATATAAA-TATATATATATATAAATATAAATATATAGTATATAAATATAAAC
*
476364 TATATAGTTAATATATAGTACACATAGTTTATATATAGTTTATAACTATAAAATATATAGTATAT
1 TATATAGTT--TATATA-TA-A-ATA---TATATATA---TATAAATAT-AAATATATAGTATAT
476429 AAATAT
54 AAATAT
476435 GTAATATATA
Statistics
Matches: 210, Mismatches: 24, Indels: 42
0.76 0.09 0.15
Matches are distributed among these distances:
60 7 0.03
61 14 0.07
62 61 0.29
63 8 0.04
64 20 0.10
65 13 0.06
66 31 0.15
67 22 0.10
69 4 0.02
70 3 0.01
73 8 0.04
74 7 0.03
75 12 0.06
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.43
Consensus pattern (63 bp):
TATATAGTTTATATATAAATATATATATATATAAATATAAATATATAGTATATAAATATAAAC
Found at i:476419 original size:22 final size:22
Alignment explanation
Indices: 476394--476504 Score: 71
Period size: 22 Copynumber: 5.0 Consensus size: 22
476384 CACATAGTTT
* *
476394 ATATATAGTTTATAACTATAAA
1 ATATATAGTATATAAATATAAA
**
476416 ATATATAGTATATAAATATGTA
1 ATATATAGTATATAAATATAAA
* * *
476438 ATATATA-AACTACAAGTATAAA
1 ATATATAGTA-TATAAATATAAA
* * * *
476460 ATATAAACTATGTAGTATATAAA
1 ATATATAGTATATA-AATATAAA
* *
476483 CTATATAATATATAAACTATAA
1 ATATATAGTATATAAA-TATAA
476505 GTATATAATT
Statistics
Matches: 65, Mismatches: 20, Indels: 7
0.71 0.22 0.08
Matches are distributed among these distances:
21 1 0.02
22 42 0.65
23 22 0.34
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.36
Consensus pattern (22 bp):
ATATATAGTATATAAATATAAA
Found at i:476431 original size:16 final size:16
Alignment explanation
Indices: 476410--476512 Score: 68
Period size: 15 Copynumber: 6.3 Consensus size: 16
476400 AGTTTATAAC
476410 TATAAAATATATAGTA
1 TATAAAATATATAGTA
* *
476426 TAT-AAATATGTAATA
1 TATAAAATATATAGTA
* *
476441 TATAAACTACA-AGTA
1 TATAAAATATATAGTA
*
476456 TAAAATATAAACTATGTAGTA
1 T---ATA-AAA-TATATAGTA
* *
476477 TATAAACTATATAATA
1 TATAAAATATATAGTA
*
476493 TATAAACTATA-AGTA
1 TATAAAATATATAGTA
476508 TATAA
1 TATAA
476513 TTATAACTAT
Statistics
Matches: 67, Mismatches: 13, Indels: 15
0.71 0.14 0.16
Matches are distributed among these distances:
15 25 0.37
16 25 0.37
17 2 0.03
18 6 0.09
19 2 0.03
20 2 0.03
21 5 0.07
ACGTcount: A:0.54, C:0.05, G:0.06, T:0.35
Consensus pattern (16 bp):
TATAAAATATATAGTA
Found at i:476503 original size:14 final size:14
Alignment explanation
Indices: 476454--476526 Score: 58
Period size: 16 Copynumber: 4.9 Consensus size: 14
476444 AAACTACAAG
*
476454 TATAAAATATAAAC
1 TATAATATATAAAC
*
476468 TATGTAGTATATAAAC
1 TA--TAATATATAAAC
476484 TATATAATATATAAAC
1 --TATAATATATAAAC
*
476500 TATAAGTATAT-AAT
1 TATAA-TATATAAAC
476514 TATAACTATATAA
1 TATAA-TATATAA
476527 TTTATACGTA
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.40
15 6 0.12
16 21 0.44
18 2 0.04
ACGTcount: A:0.53, C:0.05, G:0.04, T:0.37
Consensus pattern (14 bp):
TATAATATATAAAC
Found at i:476520 original size:20 final size:22
Alignment explanation
Indices: 476484--476523 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
476474 GTATATAAAC
476484 TATATAATATATAAACTATAAG
1 TATATAATATATAAACTATAAG
476506 TATATAAT-TAT-AACTATA
1 TATATAATATATAAACTATA
476524 TAATTTATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 3 0.17
22 8 0.44
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.40
Consensus pattern (22 bp):
TATATAATATATAAACTATAAG
Found at i:476527 original size:14 final size:13
Alignment explanation
Indices: 476486--476573 Score: 53
Period size: 14 Copynumber: 6.7 Consensus size: 13
476476 ATATAAACTA
*
476486 TATAATATATAAAC
1 TATAATATAT-AAT
476500 TATAAGTATATAAT
1 TATAA-TATATAAT
476514 TATAACTATATAATT
1 TATAA-TATATAA-T
*
476529 TATACGTAT-TATAT
1 TATA-ATATATA-AT
476543 TAT--TATATAA-
1 TATAATATATAAT
476553 TATACATAT-TAA-
1 TATA-ATATATAAT
476565 TATAATATA
1 TATAATATA
476574 ATTGTTTTAA
Statistics
Matches: 62, Mismatches: 3, Indels: 20
0.73 0.04 0.24
Matches are distributed among these distances:
10 3 0.05
11 8 0.13
12 9 0.15
13 3 0.05
14 25 0.40
15 14 0.23
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (13 bp):
TATAATATATAAT
Found at i:476532 original size:29 final size:28
Alignment explanation
Indices: 476454--476551 Score: 72
Period size: 29 Copynumber: 3.3 Consensus size: 28
476444 AAACTACAAG
* * *
476454 TATAAAATATAAACTATGTAGTATATAAACT
1 TATAATATATAAACTAT-AAGTAT-TATA-T
476485 ATATAATATATAAACTATAAGTA-TATAAT
1 -TATAATATATAAACTATAAGTATTAT-AT
** *
476514 TATAACTATATAATTTATACGTATTATAT
1 TATAA-TATATAAACTATAAGTATTATAT
*
476543 TATTATATA
1 TATAATATA
476552 ATATACATAT
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
28 9 0.16
29 23 0.41
30 4 0.07
31 4 0.07
32 16 0.29
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.42
Consensus pattern (28 bp):
TATAATATATAAACTATAAGTATTATAT
Found at i:476556 original size:24 final size:22
Alignment explanation
Indices: 476520--476575 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 22
476510 TAATTATAAC
*
476520 TATATAATTTATACGTATTATATTAT
1 TATATAA--TATACATATTA-A-TAT
476546 TATATAATATACATATTAATAT
1 TATATAATATACATATTAATAT
*
476568 AATATAAT
1 TATATAAT
476576 TGTTTTAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 10 0.36
23 1 0.04
24 10 0.36
26 7 0.25
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (22 bp):
TATATAATATACATATTAATAT
Found at i:477547 original size:31 final size:31
Alignment explanation
Indices: 477462--477549 Score: 113
Period size: 31 Copynumber: 2.8 Consensus size: 31
477452 TAATACTCAT
* * **
477462 GTGCATTATCTGGATGCAAACCTAACATATT
1 GTGCATTATCTGAATGCAAACCTGACATACA
* *
477493 GTGCAATATTTGAATGCAAACCTGACATACA
1 GTGCATTATCTGAATGCAAACCTGACATACA
*
477524 GTGCATTATCTGAATGTAAACCTGAC
1 GTGCATTATCTGAATGCAAACCTGAC
477550 TAGTATATGG
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (31 bp):
GTGCATTATCTGAATGCAAACCTGACATACA
Found at i:480194 original size:31 final size:31
Alignment explanation
Indices: 480158--480216 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
480148 AACTTAAAAG
* *
480158 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
480189 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
480217 CCATACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:480267 original size:22 final size:22
Alignment explanation
Indices: 480241--480283 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
480231 TAATAAATTA
*
480241 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATCCATAT
480263 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
480284 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:480292 original size:22 final size:22
Alignment explanation
Indices: 480243--480291 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
480233 ATAAATTATT
* **
480243 TAAAATAAATCAATTCATATTT
1 TAAAATAAATCAATCCATATAA
480265 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
480288 TAAA
1 TAAA
480292 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:480295 original size:54 final size:54
Alignment explanation
Indices: 480231--481111 Score: 1084
Period size: 54 Copynumber: 16.4 Consensus size: 54
480221 ACAACTACAA
*
480231 TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
480285 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
480339 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* * * *
480393 TAATAAAGTAATTAAAATAAATAAATCCCTATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
480447 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* * * **
480501 TAATAAAGTATTTAAAATAAATCAATTCATACAACTACAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATAC
** * ** * ** **
480558 TTTTAAAATAAAT-CAATTCATACTAATAAAGTA-TTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAAT-C-AATCCA-TATTTTAAAATAAATCAATCCATAC
*
480613 -AACTACA--A--T--AATAAATCAATCCATA-TTTAAAATAAATCAATCCATAC
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
480660 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATACATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
480714 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
480768 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* * * **
480822 TAATAAAGTATTTAAAATAATTCAATCCATACAACTACAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATAC
** * ** * ** **
480879 TTTTAAAATAAAT-CAATTCATACTAATAAAGTA-TTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAAT-C-AATCCA-TATTTTAAAATAAATCAATCCATAC
*
480934 -AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* *
480982 TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATACATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* *
481036 TAATACATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
481090 TAATAAATTATTTAAAATAAAT
1 TAATAAATTATTTAAAATAAAT
481112 TATTTTAAAA
Statistics
Matches: 723, Mismatches: 70, Indels: 68
0.84 0.08 0.08
Matches are distributed among these distances:
47 29 0.04
48 35 0.05
49 5 0.01
50 11 0.02
51 3 0.00
52 1 0.00
53 18 0.02
54 530 0.73
55 12 0.02
56 11 0.02
57 26 0.04
58 40 0.06
59 2 0.00
ACGTcount: A:0.52, C:0.13, G:0.01, T:0.34
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
Found at i:480321 original size:22 final size:22
Alignment explanation
Indices: 480295--480337 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
480285 TAATAAATTA
480295 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
480317 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
480338 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:480346 original size:22 final size:22
Alignment explanation
Indices: 480297--480345 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
480287 ATAAATTATT
**
480297 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
480319 TAAAATAAATCAATTCATACTAA
1 TAAAATAAATCAATCCATA-TAA
480342 TAAA
1 TAAA
480346 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:480375 original size:22 final size:22
Alignment explanation
Indices: 480349--480391 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
480339 TAATAAATTA
480349 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
480371 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
480392 CTAATAAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:480483 original size:22 final size:22
Alignment explanation
Indices: 480457--480499 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
480447 TAATAAATTA
480457 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
480479 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
480500 CTAATAAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:480549 original size:26 final size:26
Alignment explanation
Indices: 480516--480637 Score: 92
Period size: 26 Copynumber: 4.6 Consensus size: 26
480506 AAGTATTTAA
*
480516 AATAAATCAATTCATACAACTACAAT
1 AATAAATCAATCCATACAACTACAAT
* **
480542 AATAAATCAATCCAT---ATTTTAA-
1 AATAAATCAATCCATACAACTACAAT
* *
480564 AATAAATCAATTCATACTAA-TAAAGTATTT
1 AATAAATCAATCCATAC-AACTACA--A--T
480594 AAAATAAATCAATCCATACAACTACAAT
1 --AATAAATCAATCCATACAACTACAAT
480622 AATAAATCAATCCATA
1 AATAAATCAATCCATA
480638 TTTAAAATAA
Statistics
Matches: 75, Mismatches: 9, Indels: 24
0.69 0.08 0.22
Matches are distributed among these distances:
22 14 0.19
23 4 0.05
25 2 0.03
26 31 0.41
27 1 0.01
28 1 0.01
30 1 0.01
31 2 0.03
32 19 0.25
ACGTcount: A:0.53, C:0.16, G:0.01, T:0.30
Consensus pattern (26 bp):
AATAAATCAATCCATACAACTACAAT
Found at i:480563 original size:80 final size:80
Alignment explanation
Indices: 480300--481012 Score: 790
Period size: 80 Copynumber: 8.9 Consensus size: 80
480290 AATTATTTAA
* *
480300 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAAGTATTTAAAATAAATCAAT
* **
480365 CCAT---ATTTTAA-
66 CCATACAACTACAAT
** * * * *
480376 AATAAATCAATCCATACTAATAAAGT-AATTAA--AATA--AATAAATCCCTATTTTAAAATAAA
1 AATAAATCAATCCATA-TTTTAAAATAAATCAATCCATACTAATAAA---GTA-TTTAAAATAAA
*
480436 TCAATCCATACTAA-TAAATTATTT
61 TCAATCCATAC-AACTACA--A--T
480460 AAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAAGTATTTAAAATAAATCA
1 --AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAAGTATTTAAAATAAATCA
*
480525 ATTCATACAACTACAAT
64 ATCCATACAACTACAAT
*
480542 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAAGTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAAGTATTTAAAATAAATCAAT
480607 CCATACAACTACAAT
66 CCATACAACTACAAT
*
480622 AATAAATCAATCCATA-TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAAGTATTTAAAATAAATCAAT
* *
480686 CCATATTTTAAAATA-AAT
66 CCATA----CAACTACAAT
* **
480704 CAATACATACTAATAAAT-TATTTAAAATAAATCAAT-C---C--AT--A-T-TTTAAAATAAAT
1 -AATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATACTAATAAAGTATTTAAAATAAAT
*
480758 CAATCCATACTAA-TAAATTATTT
62 CAATCCATAC-AACTACA--A--T
*
480781 AAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAAGTATTTAAAATAATTCA
1 --AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAAGTATTTAAAATAAATCA
480846 ATCCATACAACTACAAT
64 ATCCATACAACTACAAT
*
480863 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAAGTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAAGTATTTAAAATAAATCAAT
480928 CCATACAACTACAAT
66 CCATACAACTACAAT
*
480943 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAAGTATTTAAAATAAATCAAT
*
481008 TCATA
66 CCATA
481013 TTTTAAAATA
Statistics
Matches: 550, Mismatches: 37, Indels: 96
0.81 0.05 0.14
Matches are distributed among these distances:
72 8 0.01
73 3 0.01
74 3 0.01
75 3 0.01
76 83 0.15
77 11 0.02
78 7 0.01
79 53 0.10
80 243 0.44
81 1 0.00
82 8 0.01
83 10 0.02
84 4 0.01
85 17 0.03
86 85 0.15
87 2 0.00
88 3 0.01
90 6 0.01
ACGTcount: A:0.52, C:0.14, G:0.01, T:0.33
Consensus pattern (80 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAAGTATTTAAAATAAATCAAT
CCATACAACTACAAT
Found at i:480646 original size:21 final size:21
Alignment explanation
Indices: 480589--480658 Score: 77
Period size: 21 Copynumber: 3.1 Consensus size: 21
480579 ACTAATAAAG
480589 TATTTAAAATAAATCAATCCA
1 TATTTAAAATAAATCAATCCA
**
480610 TACAACTACAATAATAAATCAATCCA
1 T---A-TTTAA-AATAAATCAATCCA
480636 TATTTAAAATAAATCAATCCA
1 TATTTAAAATAAATCAATCCA
480657 TA
1 TA
480659 CTAATAAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
21 17 0.43
22 3 0.08
23 1 0.03
24 1 0.03
25 3 0.08
26 15 0.38
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (21 bp):
TATTTAAAATAAATCAATCCA
Found at i:480696 original size:22 final size:22
Alignment explanation
Indices: 480670--480712 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
480660 TAATAAATTA
*
480670 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATACATAT
480692 TTTAAAATAAATCAATACATA
1 TTTAAAATAAATCAATACATA
480713 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATACATAT
Found at i:480721 original size:22 final size:22
Alignment explanation
Indices: 480672--480720 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
480662 ATAAATTATT
* **
480672 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATACATATAA
480694 TAAAATAAATCAATACATACTAA
1 TAAAATAAATCAATACATA-TAA
480717 TAAA
1 TAAA
480721 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATACATATAA
Found at i:480750 original size:22 final size:22
Alignment explanation
Indices: 480724--480766 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
480714 TAATAAATTA
480724 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
480746 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
480767 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:480775 original size:22 final size:22
Alignment explanation
Indices: 480726--480774 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
480716 ATAAATTATT
**
480726 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
480748 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
480771 TAAA
1 TAAA
480775 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:480804 original size:22 final size:22
Alignment explanation
Indices: 480778--480820 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
480768 TAATAAATTA
480778 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
480800 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
480821 CTAATAAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:480872 original size:26 final size:26
Alignment explanation
Indices: 480837--480958 Score: 92
Period size: 26 Copynumber: 4.6 Consensus size: 26
480827 AAGTATTTAA
*
480837 AATAATTCAATCCATACAACTACAAT
1 AATAAATCAATCCATACAACTACAAT
* **
480863 AATAAATCAATCCAT---ATTTTAA-
1 AATAAATCAATCCATACAACTACAAT
* *
480885 AATAAATCAATTCATACTAA-TAAAGTATTT
1 AATAAATCAATCCATAC-AACTACA--A--T
480915 AAAATAAATCAATCCATACAACTACAAT
1 --AATAAATCAATCCATACAACTACAAT
480943 AATAAATCAATCCATA
1 AATAAATCAATCCATA
480959 TTTTAAAATA
Statistics
Matches: 75, Mismatches: 9, Indels: 24
0.69 0.08 0.22
Matches are distributed among these distances:
22 14 0.19
23 4 0.05
25 2 0.03
26 31 0.41
27 1 0.01
28 1 0.01
30 1 0.01
31 2 0.03
32 19 0.25
ACGTcount: A:0.52, C:0.17, G:0.01, T:0.30
Consensus pattern (26 bp):
AATAAATCAATCCATACAACTACAAT
Found at i:480899 original size:321 final size:322
Alignment explanation
Indices: 480300--481111 Score: 1518
Period size: 321 Copynumber: 2.5 Consensus size: 322
480290 AATTATTTAA
*
480300 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
* * * * *
480365 CCATATTTTAAAATAAATCAATCCATACTAATAAAGTAATTAAAATAAATAAATCCCTATTTTAA
66 CCATATTTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAA
480430 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAAT
131 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAAT
*
480495 CCATACTAATAAAGTATTTAAAATAAATCAATTCATACAACTACAATAATAAATCAATCCATATT
196 CCATACTAATAAAGTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATT
480560 TTAAAATAAATCAATTCATACTAATAAAGTATTTAAAATAAATCAATCCATACAACTACAAT
261 TTAAAATAAATCAATTCATACTAATAAAGTATTTAAAATAAATCAATCCATACAACTACAAT
480622 AATAAATCAATCCATA-TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
480686 CCATATTTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAA
66 CCATATTTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAA
480751 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAAT
131 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAAT
*
480816 CCATACTAATAAAGTATTTAAAATAATTCAATCCATACAACTACAATAATAAATCAATCCATATT
196 CCATACTAATAAAGTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATT
480881 TTAAAATAAATCAATTCATACTAATAAAGTATTTAAAATAAATCAATCCATACAACTACAAT
261 TTAAAATAAATCAATTCATACTAATAAAGTATTTAAAATAAATCAATCCATACAACTACAAT
480943 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
* *
481008 TCATATTTTAAAATAAATCAATACATACTAATACATTATTTAAAATAAATCAATCCATATTTTAA
66 CCATATTTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAA
*
481073 AATAAATCAATTCATACTAATAAATTATTTAAAATAAAT
131 AATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
481112 TATTTTAAAA
Statistics
Matches: 478, Mismatches: 11, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
321 313 0.65
322 165 0.35
ACGTcount: A:0.52, C:0.13, G:0.01, T:0.34
Consensus pattern (322 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
CCATATTTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAA
AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAAT
CCATACTAATAAAGTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATT
TTAAAATAAATCAATTCATACTAATAAAGTATTTAAAATAAATCAATCCATACAACTACAAT
Found at i:480989 original size:22 final size:23
Alignment explanation
Indices: 480914--480988 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 23
480904 ATAAAGTATT
480914 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
**
480936 CTACAATAATAAATCAATCCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
480962 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
480985 TAAA
1 TAAA
480989 TTATTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
22 16 0.37
23 8 0.19
25 3 0.07
26 16 0.37
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:481018 original size:22 final size:22
Alignment explanation
Indices: 480992--481034 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
480982 TAATAAATTA
*
480992 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATACATAT
481014 TTTAAAATAAATCAATACATA
1 TTTAAAATAAATCAATACATA
481035 CTAATACATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATACATAT
Found at i:481072 original size:22 final size:22
Alignment explanation
Indices: 481046--481146 Score: 85
Period size: 22 Copynumber: 4.5 Consensus size: 22
481036 TAATACATTA
481046 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
481068 TTTAAAATAAATCAATTCATACT
1 TTTAAAATAAATCAATCCATA-T
** * ** * **
481091 AATAAATTATTTAAAATAAATTAT
1 TTTAAAATAAAT-CAATCCA-TAT
481115 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
481137 TTTATAATAA
1 TTTAAAATAA
481147 TTTATTTTAA
Statistics
Matches: 58, Mismatches: 18, Indels: 6
0.71 0.22 0.07
Matches are distributed among these distances:
22 32 0.55
23 12 0.21
24 12 0.21
25 2 0.03
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:481120 original size:15 final size:15
Alignment explanation
Indices: 481091--481178 Score: 88
Period size: 15 Copynumber: 5.5 Consensus size: 15
481081 AATTCATACT
481091 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
481105 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
481120 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
*
481142 AATAATTTATTTTAA
1 AATAAATTATTTTAA
481157 AATAAATTATTTTAA
1 AATAAATTATTTTAA
481172 AATAAAT
1 AATAAAT
481179 AACCTTATTA
Statistics
Matches: 62, Mismatches: 4, Indels: 15
0.77 0.05 0.19
Matches are distributed among these distances:
14 9 0.15
15 36 0.58
17 1 0.02
18 2 0.03
19 3 0.05
20 1 0.02
22 10 0.16
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.44
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:481175 original size:52 final size:47
Alignment explanation
Indices: 480957--481201 Score: 212
Period size: 54 Copynumber: 4.9 Consensus size: 47
480947 AATCAATCCA
*
480957 TATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATT
1 TATTTTAAAATAAATCAATCCATAATAATAAATTATTTAAAAT--A--AA-T
* * *
481009 CATATTTTAAAATAAATCAATACATACTAATACATTATTTAAAATAAATCAAT
1 --TATTTTAAAATAAATCAATCCATAATAATAAATTATTTAAAAT--A--AAT
* *
481062 CCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAAT
1 ---TATTTTAAAATAAATCAATCCATAATAATAAATTATTTAAAATAAAT
*
481112 TATTTTAAAATAAATCAATCCATATTTTATAATAATTTATTTTAAAATAAAT
1 TATTTTAAAATAAATCAATCCATA----ATAATAAATTA-TTTAAAATAAAT
*
481164 TATTTTAAAATAAAT-AA-CC-T--TATTAAATTATTTAAAAT
1 TATTTTAAAATAAATCAATCCATAATAATAAATTATTTAAAAT
481202 TATTTTAATA
Statistics
Matches: 176, Mismatches: 9, Indels: 24
0.84 0.04 0.11
Matches are distributed among these distances:
42 8 0.05
43 8 0.05
47 23 0.13
49 1 0.01
50 5 0.03
51 11 0.06
52 28 0.16
53 1 0.01
54 91 0.52
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (47 bp):
TATTTTAAAATAAATCAATCCATAATAATAAATTATTTAAAATAAAT
Found at i:482735 original size:98 final size:100
Alignment explanation
Indices: 482562--482751 Score: 235
Period size: 98 Copynumber: 1.9 Consensus size: 100
482552 ATCTCAAAGT
* * * * *
482562 CATTTTGTGTCATGTTTTTTTAAAGTTTATAAACAATTTAATTGGAAAAAATTTAAAGATTGATT
1 CATTTTGTATCACGTTTTTTTAAAGTTTATAAACAATTTAATT-GAAAAAATTCAAACATTAATT
*
482627 TAATAAAAAAA-CCAAAGAATAATTTAACCAAATTA
65 TAATAAAAAAATCCAAAGAACAATTTAACCAAATTA
* * *
482662 CATTTTGTATCACG-TTTTTT-AGGTTTGTAGACAATTTAATT-AAAAAATTCAAACATTAATTT
1 CATTTTGTATCACGTTTTTTTAAAGTTTATAAACAATTTAATTGAAAAAATTCAAACATTAATTT
*
482724 AATATAAAAAAATTCAAAGAACAATTTA
66 -A-ATAAAAAAATCCAAAGAACAATTTA
482752 TTTAAATTAT
Statistics
Matches: 77, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
96 18 0.23
97 1 0.01
98 27 0.35
99 19 0.25
100 12 0.16
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.38
Consensus pattern (100 bp):
CATTTTGTATCACGTTTTTTTAAAGTTTATAAACAATTTAATTGAAAAAATTCAAACATTAATTT
AATAAAAAAATCCAAAGAACAATTTAACCAAATTA
Found at i:482749 original size:27 final size:25
Alignment explanation
Indices: 482692--482757 Score: 78
Period size: 27 Copynumber: 2.6 Consensus size: 25
482682 AGGTTTGTAG
482692 ACAATTTAATTAAAAAATTCAAACA
1 ACAATTTAATTAAAAAATTCAAACA
** *
482717 TTAATTTAATATAAAAAAATTCAAAGA
1 ACAATTTAAT-T-AAAAAATTCAAACA
*
482744 ACAATTTATTTAAA
1 ACAATTTAATTAAA
482758 TTATAAAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
25 11 0.33
26 2 0.06
27 20 0.61
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.33
Consensus pattern (25 bp):
ACAATTTAATTAAAAAATTCAAACA
Found at i:483510 original size:3 final size:3
Alignment explanation
Indices: 483497--483549 Score: 74
Period size: 3 Copynumber: 18.0 Consensus size: 3
483487 TTTTTTATCG
483497 TTA TT- TTA TTA TTA TTA TTA TTA TTTA TTA TTA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
*
483541 TTA ATA TTA
1 TTA TTA TTA
483550 CATATTACAA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
2 4 0.09
3 38 0.84
4 3 0.07
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:483554 original size:16 final size:15
Alignment explanation
Indices: 483497--483556 Score: 65
Period size: 14 Copynumber: 4.2 Consensus size: 15
483487 TTTTTTATCG
*
483497 TTATT-TTATTATTA
1 TTATTATTATTAATA
483511 TTATTATTATT--TA
1 TTATTATTATTAATA
483524 TTATTATTATT-ATA
1 TTATTATTATTAATA
*
483538 TTATTAATATTACATA
1 TTATTATTATTA-ATA
483554 TTA
1 TTA
483557 CAATTTTGCA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
13 13 0.32
14 17 0.41
15 5 0.12
16 6 0.15
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (15 bp):
TTATTATTATTAATA
Found at i:483556 original size:30 final size:30
Alignment explanation
Indices: 483497--483556 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
483487 TTTTTTATCG
* **
483497 TTATTTTATTATTATTATTATTATTTATTA
1 TTATTTTATTATTATTAATATTACATATTA
483527 TTATTATTA-TATTATTAATATTACATATTA
1 TTATT-TTATTATTATTAATATTACATATTA
483557 CAATTTTGCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 23 0.88
31 3 0.12
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (30 bp):
TTATTTTATTATTATTAATATTACATATTA
Found at i:483650 original size:25 final size:25
Alignment explanation
Indices: 483621--483669 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
483611 CCCAACCCAT
483621 CAGATTAGGGTTTCAAACCCTAAAC
1 CAGATTAGGGTTTCAAACCCTAAAC
483646 CAGATTAGGGTTTCAAACCCTAAA
1 CAGATTAGGGTTTCAAACCCTAAA
483670 TGTTCCAGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.24
Consensus pattern (25 bp):
CAGATTAGGGTTTCAAACCCTAAAC
Found at i:490340 original size:13 final size:12
Alignment explanation
Indices: 490318--490365 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
490308 AAGATCAAAC
490318 CAAAGAAAAAAAT
1 CAAAG-AAAAAAT
*
490331 CAAAGCAAAAAT
1 CAAAGAAAAAAT
*
490343 CAAAG-AAAAAG
1 CAAAGAAAAAAT
490354 CAAAGAACAAAA
1 CAAAGAA-AAAA
490366 GAGGACAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
11 10 0.32
12 12 0.39
13 9 0.29
ACGTcount: A:0.73, C:0.12, G:0.10, T:0.04
Consensus pattern (12 bp):
CAAAGAAAAAAT
Done.