Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007909.1 Hibiscus syriacus cultivar Beakdansim tig00110303_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: 3382237
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 17
Found at i:382272 original size:18 final size:18
Alignment explanation
Indices: 382249--382286 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
382239 AATGTTAAAA
*
382249 TGTTTGATCACTTTTTCT
1 TGTTTGATCACTTTTCCT
382267 TGTTTGATCACTTTTCCT
1 TGTTTGATCACTTTTCCT
382285 TG
1 TG
382287 AATGATTTAT
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:0.11, C:0.18, G:0.13, T:0.58
Consensus pattern (18 bp):
TGTTTGATCACTTTTCCT
Found at i:382292 original size:18 final size:18
Alignment explanation
Indices: 382253--382292 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
382243 TTAAAATGTT
* **
382253 TGATCACTTTTTCTTGTT
1 TGATCACTTTTCCTTGAA
382271 TGATCACTTTTCCTTGAA
1 TGATCACTTTTCCTTGAA
382289 TGAT
1 TGAT
382293 TTATTGTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.17, G:0.12, T:0.53
Consensus pattern (18 bp):
TGATCACTTTTCCTTGAA
Found at i:391437 original size:15 final size:15
Alignment explanation
Indices: 391399--391454 Score: 78
Period size: 15 Copynumber: 3.8 Consensus size: 15
391389 CCTTAGCCCA
*
391399 GTCTGAGTCAAC-CT
1 GTCTGAGTCAACTCG
*
391413 GTCCGAGTCAACTCG
1 GTCTGAGTCAACTCG
*
391428 GTCTGAGTCAACTAG
1 GTCTGAGTCAACTCG
391443 GTCTGAGTCAAC
1 GTCTGAGTCAAC
391455 CCATTGACTT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
14 11 0.30
15 26 0.70
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (15 bp):
GTCTGAGTCAACTCG
Found at i:391479 original size:13 final size:14
Alignment explanation
Indices: 391458--391495 Score: 62
Period size: 13 Copynumber: 2.9 Consensus size: 14
391448 AGTCAACCCA
391458 TTGACTTTGACCTG
1 TTGACTTTGACCTG
391472 TT-ACTTTGA-CTG
1 TTGACTTTGACCTG
391484 TTGACTTTGACC
1 TTGACTTTGACC
391496 AAAAAATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 5 0.23
13 14 0.64
14 3 0.14
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.45
Consensus pattern (14 bp):
TTGACTTTGACCTG
Found at i:402310 original size:19 final size:19
Alignment explanation
Indices: 402283--402330 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
402273 ACGATGCTTG
*
402283 GGTCATCACAAGGTACAAT
1 GGTCCTCACAAGGTACAAT
402302 GGTCCTCACAAGGTACAAT
1 GGTCCTCACAAGGTACAAT
*
402321 AGTCCTCACA
1 GGTCCTCACA
402331 CATGTTTACG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (19 bp):
GGTCCTCACAAGGTACAAT
Found at i:404472 original size:23 final size:23
Alignment explanation
Indices: 404442--404492 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
404432 TCAAAATTCA
404442 TTAATTACTTTTAATCAAAACAT
1 TTAATTACTTTTAATCAAAACAT
404465 TTAATTACTTTTAATCAAAACAT
1 TTAATTACTTTTAATCAAAACAT
404488 TTAAT
1 TTAAT
404493 AAAATTCTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.43, C:0.12, G:0.00, T:0.45
Consensus pattern (23 bp):
TTAATTACTTTTAATCAAAACAT
Found at i:405795 original size:27 final size:27
Alignment explanation
Indices: 405749--405835 Score: 147
Period size: 27 Copynumber: 3.2 Consensus size: 27
405739 ATATTATTTG
*
405749 AAAATTATTCGAACCCTAATATATGAAT
1 AAAATT-TTTGAACCCTAATATATGAAT
405777 AAAATTTTTGAACCCTAATATATGAAT
1 AAAATTTTTGAACCCTAATATATGAAT
*
405804 AAAATTTTTGAACCCTAATATACGAAT
1 AAAATTTTTGAACCCTAATATATGAAT
405831 AAAAT
1 AAAAT
405836 AAATTATTTG
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
27 51 0.89
28 6 0.11
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.33
Consensus pattern (27 bp):
AAAATTTTTGAACCCTAATATATGAAT
Found at i:407759 original size:360 final size:358
Alignment explanation
Indices: 407089--407810 Score: 1320
Period size: 360 Copynumber: 2.0 Consensus size: 358
407079 ATTGATATAA
*
407089 ATATTATTAATAAAAACATTGATGTGTATTATATAATAATACAATGTGACATGAACGTTAATTAT
1 ATATTACTAATAAAAACATTGATGTGTATTATATAATAATACAATGTGACATGAACGTTAATTAT
407154 ATTTATTTTAACACACATTGAAGTCATCATTTATAATAAAATTAAAATATTGTTTACTTTTATTT
66 ATTTATTTTAACACACATTGAAGTCATCATTTATAATAAAATTAAAATATTGTTTACTTTTATTT
407219 TTTTTATCGATTTGTTTACAATTAATTCTACATTTGAAGGTTAATGATATTTTATTTAAACCTGA
131 TTTTTATCGATTTGTTTACAATTAATTCTACATTTGAAGGTTAATGATATTTTATTTAAACCTGA
407284 TATTAATTATCATGCATATCATTATATTATTATATAATATACATTATTATTTACATGAAAATTAA
196 TATTAATTATCATGCATATCATTATATTATTATATAATATACATTATTATTTACATGAAAATTAA
* *
407349 CAATTTCTATAACACTTCTATTAATATAAAATATGATTAATAGATACTAATAGTTTAGAGATGAA
261 CAATTTCTATAACACTTCTATCAATATAAAATATGATTAACAGATACTAATAGTTTAGAGATGAA
407414 ATTAAAATATTT-AAAAAATTAAAGATTAATTT
326 ATTAAAATATTTAAAAAAATTAAAGATTAATTT
407446 ATATTACTAATAAAAACATTGATGTGTATTATATAATAATACAATGTGACATGAACGTTAATTAT
1 ATATTACTAATAAAAACATTGATGTGTATTATATAATAATACAATGTGACATGAACGTTAATTAT
* *
407511 CTTTTTTTTAACACACATTGAAGTCATCATTTATAATAAAATTAAAATATTGTTTACTTTTACTT
66 ATTTATTTTAACACACATTGAAGTCATCATTTATAATAAAATTAAAATATTGTTTACTTTTA---
407576 TTTTTTTTATCGATTTGTTTACAATTAATTCTACATTTGAAGGTTAATGATATTTTATTTAAACC
128 TTTTTTTTATCGATTTGTTTACAATTAATTCTACATTTGAAGGTTAATGATATTTTATTTAAACC
*
407641 TGATATTAATTATCATGCATATCATTATATTATTATATAATATACATTATTATTTACATGAAATT
193 TGATATTAATTATCATGCATATCATTATATTATTATATAATATACATTATTATTTACATGAAAAT
* * **
407706 TAACAATTTCTATAACACTTCTCTCAATATAGAATATGATTAACATTTACTAATAGTTTAGAGAT
258 TAACAATTTCTATAACACTTCTATCAATATAAAATATGATTAACAGATACTAATAGTTTAGAGAT
407771 GAAATTAAAATATTTAAAAAAATTAAAGATTAATTT
323 GAAATTAAAATATTTAAAAAAATTAAAGATTAATTT
407807 ATAT
1 ATAT
407811 CGAGAATCAT
Statistics
Matches: 351, Mismatches: 10, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
357 124 0.35
360 203 0.58
361 24 0.07
ACGTcount: A:0.41, C:0.08, G:0.07, T:0.44
Consensus pattern (358 bp):
ATATTACTAATAAAAACATTGATGTGTATTATATAATAATACAATGTGACATGAACGTTAATTAT
ATTTATTTTAACACACATTGAAGTCATCATTTATAATAAAATTAAAATATTGTTTACTTTTATTT
TTTTTATCGATTTGTTTACAATTAATTCTACATTTGAAGGTTAATGATATTTTATTTAAACCTGA
TATTAATTATCATGCATATCATTATATTATTATATAATATACATTATTATTTACATGAAAATTAA
CAATTTCTATAACACTTCTATCAATATAAAATATGATTAACAGATACTAATAGTTTAGAGATGAA
ATTAAAATATTTAAAAAAATTAAAGATTAATTT
Found at i:408912 original size:3 final size:3
Alignment explanation
Indices: 408904--408961 Score: 91
Period size: 3 Copynumber: 19.7 Consensus size: 3
408894 TGTCGACTTA
* *
408904 CCT CCT CCT CCT CCT CC- CCT CCT CCG CCC CCT CCT CCT CCT CCT CCT
1 CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT
408951 CCT CCT CCT CC
1 CCT CCT CCT CC
408962 CCGCCCTATA
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
2 2 0.04
3 49 0.96
ACGTcount: A:0.00, C:0.71, G:0.02, T:0.28
Consensus pattern (3 bp):
CCT
Found at i:408934 original size:12 final size:12
Alignment explanation
Indices: 408910--408967 Score: 57
Period size: 12 Copynumber: 5.0 Consensus size: 12
408900 CTTACCTCCT
*
408910 CCTCCTCC-TCC
1 CCTCCTCCGCCC
408921 CCTCCTCCGCCC
1 CCTCCTCCGCCC
* *
408933 CCTCCTCCTCCT
1 CCTCCTCCGCCC
* *
408945 CCTCCTCCTCCT
1 CCTCCTCCGCCC
408957 CCTCC-CCGCCC
1 CCTCCTCCGCCC
408968 TATAAATGGC
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
11 12 0.29
12 29 0.71
ACGTcount: A:0.00, C:0.72, G:0.03, T:0.24
Consensus pattern (12 bp):
CCTCCTCCGCCC
Found at i:411447 original size:17 final size:15
Alignment explanation
Indices: 411405--411455 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 15
411395 CGTTCAAAAG
411405 ATAAAATTAATAT-A
1 ATAAAATTAATATGA
* *
411419 ATTAAATGAATATGGGA
1 ATAAAATTAATAT--GA
411436 ATAAAATTAATATG-
1 ATAAAATTAATATGA
411450 ATAAAA
1 ATAAAA
411456 ATATAGATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
14 17 0.57
15 1 0.03
17 12 0.40
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.31
Consensus pattern (15 bp):
ATAAAATTAATATGA
Found at i:411465 original size:26 final size:29
Alignment explanation
Indices: 411403--411467 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 29
411393 ATCGTTCAAA
411403 AGATAAAATTAATATAATTAAATGAATATG
1 AGATAAAATTAATATAATTAAA-GAATATG
* *
411433 GGAATAAAATTAATATGA-TAAA-AATAT-
1 AG-ATAAAATTAATATAATTAAAGAATATG
411460 AGATAAAA
1 AGATAAAA
411468 CTTCTAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
26 6 0.19
27 1 0.03
28 5 0.16
30 5 0.16
31 14 0.45
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.29
Consensus pattern (29 bp):
AGATAAAATTAATATAATTAAAGAATATG
Found at i:413075 original size:17 final size:16
Alignment explanation
Indices: 413037--413081 Score: 58
Period size: 14 Copynumber: 2.9 Consensus size: 16
413027 TTAACCGATC
*
413037 TGACCCGACCCGTCTA
1 TGACCCGACCCGACTA
413053 --ACCCGACCCGACTA
1 TGACCCGACCCGACTA
413067 TTGACCCGACCCGAC
1 -TGACCCGACCCGAC
413082 CCGACCGTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 13 0.52
17 12 0.48
ACGTcount: A:0.22, C:0.47, G:0.18, T:0.13
Consensus pattern (16 bp):
TGACCCGACCCGACTA
Found at i:413081 original size:22 final size:22
Alignment explanation
Indices: 413053--413104 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
413043 GACCCGTCTA
*
413053 ACCCGACCCGACTATTGACCCG
1 ACCCGACCCGACCATTGACCCG
*
413075 ACCCGACCCGACCGTTGACCCG
1 ACCCGACCCGACCATTGACCCG
413097 ACCCGACC
1 ACCCGACC
413105 GTTGACCGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.21, C:0.50, G:0.19, T:0.10
Consensus pattern (22 bp):
ACCCGACCCGACCATTGACCCG
Found at i:413094 original size:17 final size:17
Alignment explanation
Indices: 413074--413111 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
413064 CTATTGACCC
413074 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
413091 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
413108 GACC
1 GACC
413112 GTTGACCGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.18, C:0.47, G:0.24, T:0.11
Consensus pattern (17 bp):
GACCCGACCCGACCGTT
Found at i:420330 original size:14 final size:13
Alignment explanation
Indices: 420307--420360 Score: 62
Period size: 14 Copynumber: 4.3 Consensus size: 13
420297 AAACCGGTTT
420307 GACCGATCTGACCC
1 GACCG-TCTGACCC
420321 GACCCGTCTGACCC
1 GA-CCGTCTGACCC
420335 GACC--C-GACCC
1 GACCGTCTGACCC
420345 GACCGT-TGACCC
1 GACCGTCTGACCC
420357 GACC
1 GACC
420361 CGACCGTTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
10 9 0.25
11 1 0.03
12 9 0.25
13 2 0.06
14 12 0.33
15 3 0.08
ACGTcount: A:0.19, C:0.48, G:0.22, T:0.11
Consensus pattern (13 bp):
GACCGTCTGACCC
Found at i:420357 original size:17 final size:17
Alignment explanation
Indices: 420335--420372 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
420325 CGTCTGACCC
420335 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
420352 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
420369 GACC
1 GACC
420373 GTTGACCGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.18, C:0.47, G:0.24, T:0.11
Consensus pattern (17 bp):
GACCCGACCCGACCGTT
Found at i:422012 original size:43 final size:43
Alignment explanation
Indices: 421912--422054 Score: 121
Period size: 43 Copynumber: 3.3 Consensus size: 43
421902 TACAGCTGCA
* * * *
421912 TTTTTGG-AACAAATGCCGA-AAAAGATCGATATCTATAACGGCG
1 TTTTTGGAAACAAACGCC-ACAAAAGAT-AAGATCTATAGCGGCG
**
421955 TTTTTGGGGA-AAACGCCACAAAAGATAAGATCTATAGCGGCG
1 TTTTTGGAAACAAACGCCACAAAAGATAAGATCTATAGCGGCG
** * * * *
421997 TTTTTGGAAACAAACGCTGCAAAAGGTCAGATTTATAGCGGCT
1 TTTTTGGAAACAAACGCCACAAAAGATAAGATCTATAGCGGCG
* *
422040 TTTTTTGATACAAAC
1 TTTTTGGAAACAAAC
422055 ACTGCAAAAG
Statistics
Matches: 82, Mismatches: 15, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
42 22 0.27
43 59 0.72
44 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (43 bp):
TTTTTGGAAACAAACGCCACAAAAGATAAGATCTATAGCGGCG
Found at i:422060 original size:43 final size:43
Alignment explanation
Indices: 421942--422065 Score: 124
Period size: 43 Copynumber: 2.9 Consensus size: 43
421932 AAAGATCGAT
* ** * ** *
421942 ATCTATAACGGCGTTTTTGGGGA-AAACGCCACAAAAGATAAG
1 ATCTATAGCGGCGTTTTTGGAAACAAACACTGCAAAAGGTAAG
* *
421984 ATCTATAGCGGCGTTTTTGGAAACAAACGCTGCAAAAGGTCAG
1 ATCTATAGCGGCGTTTTTGGAAACAAACACTGCAAAAGGTAAG
* * * *
422027 ATTTATAGCGGCTTTTTTTGATACAAACACTGCAAAAGG
1 ATCTATAGCGGCGTTTTTGGAAACAAACACTGCAAAAGG
422066 GCTCATGATA
Statistics
Matches: 69, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
42 20 0.29
43 49 0.71
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.26
Consensus pattern (43 bp):
ATCTATAGCGGCGTTTTTGGAAACAAACACTGCAAAAGGTAAG
Found at i:422132 original size:3 final size:3
Alignment explanation
Indices: 422124--422165 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
422114 ACTAATATGA
422124 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
422166 CTCTAAGGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:424669 original size:41 final size:41
Alignment explanation
Indices: 424603--424769 Score: 169
Period size: 41 Copynumber: 4.1 Consensus size: 41
424593 GGCGTTTGAT
* * * *
424603 GTATGAGTTTATAGCGGCGTTTGTATATAAATACCACTAAA
1 GTATAAGTCTATAGCGACGTTTGTATAAAAATACCACTAAA
*
424644 GTATAAGTGTATAGCGACGTTTGTATAAAAAAGTA--ACTAAA
1 GTATAAGTCTATAGCGACGTTTGTAT-AAAAA-TACCACTAAA
* *
424685 GTACAAGTCTATAGCGGA-GTTTGTATAAAAATGCCACTAAA
1 GTATAAGTCTATAGC-GACGTTTGTATAAAAATACCACTAAA
* * * * **
424726 GTATGAGTCTTTAGCGGCGTTTGTATATAAACGCCACTAAA
1 GTATAAGTCTATAGCGACGTTTGTATAAAAATACCACTAAA
424767 GTA
1 GTA
424770 CTACTCTGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
39 1 0.01
40 6 0.06
41 92 0.86
42 6 0.06
43 2 0.02
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.31
Consensus pattern (41 bp):
GTATAAGTCTATAGCGACGTTTGTATAAAAATACCACTAAA
Found at i:424749 original size:82 final size:82
Alignment explanation
Indices: 424612--424770 Score: 219
Period size: 82 Copynumber: 1.9 Consensus size: 82
424602 TGTATGAGTT
* * *
424612 TATAGCGGCGTTTGTATATAAATACCACTAAAGTATAAGTGTATAGCGACGTTTGTATAAAAAAG
1 TATAGCGGAGTTTGTATAAAAATACCACTAAAGTATAAGTCTATAGCGACGTTTGTATAAAAAAG
*
424677 TAACTAAAGTACAAGTC
66 CAACTAAAGTACAAGTC
* * * * * *
424694 TATAGCGGAGTTTGTATAAAAATGCCACTAAAGTATGAGTCTTTAGCGGCGTTTGTATATAAACG
1 TATAGCGGAGTTTGTATAAAAATACCACTAAAGTATAAGTCTATAGCGACGTTTGTATAAAAAAG
*
424759 CCACTAAAGTAC
66 CAACTAAAGTAC
424771 TACTCTGTTG
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
82 66 1.00
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (82 bp):
TATAGCGGAGTTTGTATAAAAATACCACTAAAGTATAAGTCTATAGCGACGTTTGTATAAAAAAG
CAACTAAAGTACAAGTC
Found at i:429900 original size:139 final size:137
Alignment explanation
Indices: 429633--429935 Score: 376
Period size: 139 Copynumber: 2.2 Consensus size: 137
429623 CATTTTCTGT
* * * *
429633 CATCCTGCGTTATTAATGACCCATTCTGAAGAGTATTAATGACCCGTTTTGACATTTTCGGGCAT
1 CATCCTGCATTATTAATGGCCCGTTCTGAAGAGTATTAATGACCCATTTTGACATTTTCGGGCAT
* *
429698 GGTGCATTATTAGAGATGATATTTCACTGAAAAGTTGAGGAAAATGATTAACAAGGCACTGAAAA
66 GGTGCATTATTAGAGATGACATTTCACTGAAAAGTTGAGGAAAATGATTAACAAGGCAATGAAAA
429763 TGTGT-TGG
131 -GT-TATGG
* ***
429771 CATCTTGCATTATTAATGGCCCGTTCTGAAGAGTATTAATGGTTCATTTTGACATTTTTCGGGCA
1 CATCCTGCATTATTAATGGCCCGTTCTGAAGAGTATTAATGACCCATTTTGACA-TTTTCGGGCA
* * * ***
429836 TGGTGCATTATTAGAGATGACATTTCACTGAAAAGTT-ACTGAAGATGATTGATGGGGCAATGAA
65 TGGTGCATTATTAGAGATGACATTTCACTGAAAAGTTGA-GGAAAATGATTAACAAGGCAATGAA
429900 AAGTTACTGG
129 AAGTTA-TGG
**
429910 CATCCTATATTATTAAATGGCCCGTT
1 CATCCTGCATTATT-AATGGCCCGTT
429936 TTGACATTTT
Statistics
Matches: 141, Mismatches: 19, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
137 1 0.01
138 49 0.35
139 80 0.57
140 11 0.08
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.34
Consensus pattern (137 bp):
CATCCTGCATTATTAATGGCCCGTTCTGAAGAGTATTAATGACCCATTTTGACATTTTCGGGCAT
GGTGCATTATTAGAGATGACATTTCACTGAAAAGTTGAGGAAAATGATTAACAAGGCAATGAAAA
GTTATGG
Found at i:432866 original size:3 final size:3
Alignment explanation
Indices: 432852--432894 Score: 77
Period size: 3 Copynumber: 14.0 Consensus size: 3
432842 GTTTTCTAAG
432852 TCT TCAT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TC-T TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
432895 CCTCATCCTC
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:434706 original size:34 final size:34
Alignment explanation
Indices: 434668--434733 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
434658 CTACATCACA
* *
434668 TATTCTAACACCATTAAATATTGCAACAAAATGC
1 TATTCTAACACAAGTAAATATTGCAACAAAATGC
434702 TATTCTAACACAAGTAAATATTGCAACAAAAT
1 TATTCTAACACAAGTAAATATTGCAACAAAAT
434734 ACAATCTTCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.47, C:0.18, G:0.06, T:0.29
Consensus pattern (34 bp):
TATTCTAACACAAGTAAATATTGCAACAAAATGC
Found at i:435677 original size:19 final size:20
Alignment explanation
Indices: 435640--435677 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
435630 CAAGCTTCTC
* *
435640 TAGCACAAAGGATCGATCCT
1 TAGCACAAAAGATCAATCCT
435660 TAGCA-AAAAGATCAATCC
1 TAGCACAAAAGATCAATCC
435678 CTTTGACCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.42, C:0.24, G:0.16, T:0.18
Consensus pattern (20 bp):
TAGCACAAAAGATCAATCCT
Found at i:437615 original size:21 final size:19
Alignment explanation
Indices: 437591--437654 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 19
437581 CTTTCTGGCT
*
437591 CAAAGGATCGATCCTTTTGA
1 CAAAGGATCGATCC-CTTGA
*
437611 CCAAATGATCGATTCCCTTGA
1 -CAAAGGATCGA-TCCCTTGA
* *
437632 AAAAGGATCGATCTCTTGGA
1 CAAAGGATCGATCCCTT-GA
437652 CAA
1 CAA
437655 CAATGAGTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
19 5 0.14
20 13 0.37
21 14 0.40
22 3 0.09
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.27
Consensus pattern (19 bp):
CAAAGGATCGATCCCTTGA
Found at i:437695 original size:20 final size:21
Alignment explanation
Indices: 437670--437721 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
437660 AGTTTGGGAA
437670 CGATCCCTTGAC-AAAAGGAT
1 CGATCCCTTGACAAAAAGGAT
**
437690 CGATCCCTTCCCAAAAAGGAT
1 CGATCCCTTGACAAAAAGGAT
437711 CGATCTCCTTG
1 CGATC-CCTTG
437722 GTATAACAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 10 0.37
21 13 0.48
22 4 0.15
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (21 bp):
CGATCCCTTGACAAAAAGGAT
Found at i:438770 original size:53 final size:53
Alignment explanation
Indices: 438704--438915 Score: 255
Period size: 53 Copynumber: 4.0 Consensus size: 53
438694 AAAAGTGTAG
* ** * *
438704 CAATTAACACATACATACACCGGTGCAAGTATGTACATCTCTCGATAGCTTAA
1 CAATTAACACATACTTACACCGGTATAAGTATGTACATCTCTCAATATCTTAA
* * * *
438757 CAATTAACGCATACTTACACCGATATAAGTCTGTACATCTTTCAATATCTTAGA
1 CAATTAACACATACTTACACCGGTATAAGTATGTACATCTCTCAATATCTTA-A
* * * * * *
438811 -AATTGACACATACTTACACTGTTGTAAGTATGTATATCTCTCAATATCTTAT
1 CAATTAACACATACTTACACCGGTATAAGTATGTACATCTCTCAATATCTTAA
* *
438863 CAATTAACACATACTTACATCGGTATAAGTATTTACATCTCTCAATATCTTAA
1 CAATTAACACATACTTACACCGGTATAAGTATGTACATCTCTCAATATCTTAA
438916 TACCTAAAAA
Statistics
Matches: 131, Mismatches: 26, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
53 130 0.99
54 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.34
Consensus pattern (53 bp):
CAATTAACACATACTTACACCGGTATAAGTATGTACATCTCTCAATATCTTAA
Found at i:438900 original size:106 final size:106
Alignment explanation
Indices: 438705--438914 Score: 285
Period size: 106 Copynumber: 2.0 Consensus size: 106
438695 AAAGTGTAGC
* *
438705 AATTAACACATACATACACCGGTGCAAGTATGTACATCTCTCGATAGCTTAACAATTAACGCATA
1 AATTAACACATACATACACCGGTGCAAGTATGTACATCTCTCAATAGCTTAACAATTAACACATA
* *
438770 CTTACACCGATATAAGTCTGTACATCTTTCAATATCTTAGA
66 CTTACACCGATATAAGTATGTACATCTCTCAATATCTTAGA
* * * * * * * *
438811 AATTGACACATACTTACACTGTTGTAAGTATGTATATCTCTCAATATCTTATCAATTAACACATA
1 AATTAACACATACATACACCGGTGCAAGTATGTACATCTCTCAATAGCTTAACAATTAACACATA
* * *
438876 CTTACATCGGTATAAGTATTTACATCTCTCAATATCTTA
66 CTTACACCGATATAAGTATGTACATCTCTCAATATCTTA
438915 ATACCTAAAA
Statistics
Matches: 89, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
106 89 1.00
ACGTcount: A:0.35, C:0.21, G:0.10, T:0.34
Consensus pattern (106 bp):
AATTAACACATACATACACCGGTGCAAGTATGTACATCTCTCAATAGCTTAACAATTAACACATA
CTTACACCGATATAAGTATGTACATCTCTCAATATCTTAGA
Found at i:439034 original size:2 final size:2
Alignment explanation
Indices: 439027--439062 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
439017 ATTTTATTGA
439027 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
439063 TAGAGAATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:440351 original size:29 final size:29
Alignment explanation
Indices: 440309--440366 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
440299 GTAATTATTG
*
440309 TTACCTTCCATCCCAAGCGACAAAGGGGA
1 TTACCTTCCATCCCAAGCAACAAAGGGGA
440338 TTACCTTCCATCCCAAGCAACAAAGGGGA
1 TTACCTTCCATCCCAAGCAACAAAGGGGA
440367 GTTTAAAGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.33, C:0.31, G:0.19, T:0.17
Consensus pattern (29 bp):
TTACCTTCCATCCCAAGCAACAAAGGGGA
Found at i:440782 original size:30 final size:30
Alignment explanation
Indices: 440746--440803 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
440736 TCATACAATT
*
440746 AATATTCCCGGGGCTGAGAAATCGGAATCC
1 AATATTCCCGAGGCTGAGAAATCGGAATCC
440776 AATATTCCCGAGGCTGAGAAATCGGAAT
1 AATATTCCCGAGGCTGAGAAATCGGAAT
440804 TCATCAAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.21
Consensus pattern (30 bp):
AATATTCCCGAGGCTGAGAAATCGGAATCC
Found at i:450156 original size:30 final size:30
Alignment explanation
Indices: 450120--450182 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
450110 ACAATCCTCT
*
450120 AACATTTAGTCCGTTTGCAATATGGTACCC
1 AACATTTAGTACGTTTGCAATATGGTACCC
* *
450150 AACATTTAGTATGTTTGCAATATGGTCCCC
1 AACATTTAGTACGTTTGCAATATGGTACCC
450180 AAC
1 AAC
450183 TGTTTGACAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (30 bp):
AACATTTAGTACGTTTGCAATATGGTACCC
Found at i:463108 original size:19 final size:18
Alignment explanation
Indices: 463077--463112 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
463067 TTTCACTAAT
*
463077 AGAGGAAATATTACAAAG
1 AGAGGAAAGATTACAAAG
463095 AGAGAGAAAGATTACAAA
1 AGAG-GAAAGATTACAAA
463113 TAACCTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.58, C:0.06, G:0.22, T:0.14
Consensus pattern (18 bp):
AGAGGAAAGATTACAAAG
Found at i:466884 original size:25 final size:25
Alignment explanation
Indices: 466856--466911 Score: 112
Period size: 25 Copynumber: 2.2 Consensus size: 25
466846 GAGCCAGATC
466856 TTCATCTTCAAAAGTCACGTCCATA
1 TTCATCTTCAAAAGTCACGTCCATA
466881 TTCATCTTCAAAAGTCACGTCCATA
1 TTCATCTTCAAAAGTCACGTCCATA
466906 TTCATC
1 TTCATC
466912 AGATCAGTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.30, C:0.29, G:0.07, T:0.34
Consensus pattern (25 bp):
TTCATCTTCAAAAGTCACGTCCATA
Found at i:468890 original size:22 final size:24
Alignment explanation
Indices: 468863--468908 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
468853 TAAATCACAT
468863 AATTAAAAGAAAAAT-T-ATTAAA
1 AATTAAAAGAAAAATATAATTAAA
*
468885 AATTAAAATAAAAATATAATTAAA
1 AATTAAAAGAAAAATATAATTAAA
468909 TTTCAAATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 14 0.67
23 1 0.05
24 6 0.29
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (24 bp):
AATTAAAAGAAAAATATAATTAAA
Found at i:469022 original size:38 final size:39
Alignment explanation
Indices: 468949--469027 Score: 108
Period size: 38 Copynumber: 2.1 Consensus size: 39
468939 TTTAAAAAAT
* *
468949 AATTTAGAATGTTCATGTGAAATAATTTAAAAAATTAAG
1 AATTTAAAATGTTCATGTCAAATAATTTAAAAAATTAAG
*
468988 AATTTAAAATGTT-ATGTC-AATAAATTTAAGAAATTAAG
1 AATTTAAAATGTTCATGTCAAAT-AATTTAAAAAATTAAG
469026 AA
1 AA
469028 CTTTGGTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
37 3 0.08
38 21 0.58
39 12 0.33
ACGTcount: A:0.51, C:0.03, G:0.11, T:0.35
Consensus pattern (39 bp):
AATTTAAAATGTTCATGTCAAATAATTTAAAAAATTAAG
Found at i:478763 original size:23 final size:22
Alignment explanation
Indices: 478737--478779 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
478727 TATAAATTAT
478737 ATATATATAATATTAAAAAAAGA
1 ATATAT-TAATATTAAAAAAAGA
* *
478760 ATATATTACTCTTAAAAAAA
1 ATATATTAATATTAAAAAAA
478780 TTGATCATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (22 bp):
ATATATTAATATTAAAAAAAGA
Found at i:478966 original size:3 final size:3
Alignment explanation
Indices: 478960--479003 Score: 61
Period size: 3 Copynumber: 14.3 Consensus size: 3
478950 AATAATAATA
* *
478960 ATT ATT ATT ATT ATT ATT TTT ATT ATT ATT AATT ATT TTT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT A
479004 CATTTTGTGC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:480696 original size:21 final size:22
Alignment explanation
Indices: 480658--480698 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
480648 TATGTATATA
*
480658 TTGTAAATGTTGTTATTTTATG
1 TTGTAAATATTGTTATTTTATG
480680 TTGTAAATATT-TTATTTTA
1 TTGTAAATATTGTTATTTTA
480699 CATCATATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.61
Consensus pattern (22 bp):
TTGTAAATATTGTTATTTTATG
Found at i:482388 original size:29 final size:31
Alignment explanation
Indices: 482336--482413 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 31
482326 TCTCACCTGT
482336 ATTAACTAATTTCTTTTCTATTG-TTGTG-C
1 ATTAACTAATTTCTTTTCTATTGTTTGTGAC
*
482365 ATTAACTAATTTCTTTAT-TTTTGTTTGTGTAC
1 ATTAACTAATTTCTTT-TCTATTGTTTGTG-AC
* *
482397 ACTAACTTATTTCTTTT
1 ATTAACTAATTTCTTTT
482414 GTCTTTGTCA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
29 20 0.48
30 6 0.14
31 1 0.02
32 15 0.36
ACGTcount: A:0.22, C:0.13, G:0.08, T:0.58
Consensus pattern (31 bp):
ATTAACTAATTTCTTTTCTATTGTTTGTGAC
Found at i:484755 original size:6 final size:6
Alignment explanation
Indices: 484744--484785 Score: 57
Period size: 6 Copynumber: 6.5 Consensus size: 6
484734 ATCAATAGTT
484744 TTTGCA TTTGCA TTTGCA TTTGCA TCTTTGCA TTTTGCA TTT
1 TTTGCA TTTGCA TTTGCA TTTGCA --TTTGCA -TTTGCA TTT
484786 CGTTTTTAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
6 21 0.64
7 6 0.18
8 6 0.18
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.55
Consensus pattern (6 bp):
TTTGCA
Found at i:487626 original size:44 final size:43
Alignment explanation
Indices: 487517--487637 Score: 102
Period size: 44 Copynumber: 2.8 Consensus size: 43
487507 CAAAATCCCC
* *
487517 TGGCCAAGACTTATGAACAGATGAGCAGTG--TCAACCCTAGA
1 TGGCCAAGACTTATAAACAAATGAGCAGTGTATCAACCCTAGA
** * **** * *
487558 TAACCAAGACTTATCATTGTATGAGCAGTGTTATCATCCCTATA
1 TGGCCAAGACTTATAAACAAATGAGCAGTG-TATCAACCCTAGA
*
487602 TGGCCAAGACTTATAAACAAATGAGCAATGTCATCA
1 TGGCCAAGACTTATAAACAAATGAGCAGTGT-ATCA
487638 CCTGACCAGA
Statistics
Matches: 59, Mismatches: 17, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
41 23 0.39
43 1 0.02
44 35 0.59
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.26
Consensus pattern (43 bp):
TGGCCAAGACTTATAAACAAATGAGCAGTGTATCAACCCTAGA
Found at i:487889 original size:126 final size:126
Alignment explanation
Indices: 487601--488184 Score: 696
Period size: 126 Copynumber: 4.6 Consensus size: 126
487591 TCATCCCTAT
* * * * * *
487601 ATGGCCAAGACTTATAAACAAATGAGCAATGTCATCACCTGACCAGATCTCCTCATTATGTATGT
1 ATGGCCAAGACTCATGAACAGATGAGCAGTGTCATCACCTGACCAGATCTCCTCATTATGTAGGA
* * * * * *
487666 GTTATGTCAACTTAGATAACCA-TCCATCCCCCATCAGAGTGAAACCATGTTATCACCCTTAG
66 GTTGTGTCAACTTAGATAACCAGT-CGT-CCCTATCAGAGTGGAACCGTGTTATCACCTTTAG
*
487728 ATGGCCAAGACTCATGAACAGATGAGCAGTGTCATCACCTGATCAGATCTCCTCATTATGTAGGA
1 ATGGCCAAGACTCATGAACAGATGAGCAGTGTCATCACCTGACCAGATCTCCTCATTATGTAGGA
* *
487793 GTTGTGTCAACTTAGATAACCAGTCGTCCCTATCATATTGGAACCGTGTTATCACCTTTAG
66 GTTGTGTCAACTTAGATAACCAGTCGTCCCTATCAGAGTGGAACCGTGTTATCACCTTTAG
*
487854 ATGGCCAAGACTCATGAACAGATGAGCAGTGTCATCACCTGAACAGATCTCCTCATTATGTAGGA
1 ATGGCCAAGACTCATGAACAGATGAGCAGTGTCATCACCTGACCAGATCTCCTCATTATGTAGGA
*
487919 GTTGTTTCAACTTAGATAACCAG-CTGTCTCC-ATCAGAGTGGAACCGTGTTATCACCTTTAG
66 GTTGTGTCAACTTAGATAACCAGTC-GTC-CCTATCAGAGTGGAACCGTGTTATCACCTTTAG
* * *
487980 ATGACCAAAACTCATGAACAGATGAGCACTGTCATCACCTGACCAGATCTCCTCATTATGTAGGA
1 ATGGCCAAGACTCATGAACAGATGAGCAGTGTCATCACCTGACCAGATCTCCTCATTATGTAGGA
* * * * **
488045 GTCGTGTCACCCCTAGATAACCAGTCGT-CCTCATCA-TGTAGGAACCGTGTTATCATTTTTAG
66 GTTGTGTCA-ACTTAGATAACCAGTCGTCCCT-ATCAGAGT-GGAACCGTGTTATCACCTTTAG
* * * ** * * *
488107 ATGGCCATA-ACTCTTCATCACGTATGAGTTGTGTCATCACCCGACCTA-ATCTCCTCATCACGT
1 ATGGCCA-AGACTCATGAACA-G-ATGAGCAGTGTCATCACCTGACC-AGATCTCCTCATTATGT
**
488170 AGGAGCCGTGTCAAC
62 AGGAGTTGTGTCAAC
488185 CCTTAGACGA
Statistics
Matches: 403, Mismatches: 42, Indels: 23
0.86 0.09 0.05
Matches are distributed among these distances:
125 3 0.01
126 215 0.53
127 135 0.33
128 5 0.01
129 44 0.11
130 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (126 bp):
ATGGCCAAGACTCATGAACAGATGAGCAGTGTCATCACCTGACCAGATCTCCTCATTATGTAGGA
GTTGTGTCAACTTAGATAACCAGTCGTCCCTATCAGAGTGGAACCGTGTTATCACCTTTAG
Found at i:488064 original size:253 final size:253
Alignment explanation
Indices: 487601--488113 Score: 751
Period size: 253 Copynumber: 2.0 Consensus size: 253
487591 TCATCCCTAT
* * * *
487601 ATGGCCAAGACTTATAAACAAATGAGCAATGTCATCACCTGACCAGATCTCCTCATTATGTATGT
1 ATGGCCAAGACTCATAAACAAATGAGCAATGTCATCACCTGAACAGATCTCCTCATTATGTAGGA
*
487666 GTTATGTCAACTTAGATAACCATCCATCCCCCATCAGAGTGAAACCATGTTATCACCCTTAGATG
66 GTTATGTCAACTTAGATAACCAGCCATCCCCCATCAGAGTGAAACCATGTTATCACCCTTAGATG
* * * * *
487731 GCCAAGACTCATGAACAGATGAGCAGTGTCATCACCTGATCAGATCTCCTCATTATGTAGGAGTT
131 ACCAAAACTCATGAACAGATGAGCACTGTCATCACCTGACCAGATCTCCTCATTATGTAGGAGTC
* *
487796 GTGTCAACTTAGATAACCAGTCGTCC-CTATCATATTGGAACCGTGTTATCACCTTTAG
196 GTGTCAACCTAGATAACCAGTCGTCCTC-ATCATATAGGAACCGTGTTATCACCTTTAG
* * *
487854 ATGGCCAAGACTCATGAACAGATGAGCAGTGTCATCACCTGAACAGATCTCCTCATTATGTAGGA
1 ATGGCCAAGACTCATAAACAAATGAGCAATGTCATCACCTGAACAGATCTCCTCATTATGTAGGA
* * ** * * * *
487919 GTTGTTTCAACTTAGATAACCAGCTGT-CTCCATCAGAGTGGAACCGTGTTATCACCTTTAGATG
66 GTTATGTCAACTTAGATAACCAGCCATCCCCCATCAGAGTGAAACCATGTTATCACCCTTAGATG
487983 ACCAAAACTCATGAACAGATGAGCACTGTCATCACCTGACCAGATCTCCTCATTATGTAGGAGTC
131 ACCAAAACTCATGAACAGATGAGCACTGTCATCACCTGACCAGATCTCCTCATTATGTAGGAGTC
* * **
488048 GTGTCACCCCTAGATAACCAGTCGTCCTCATCATGTAGGAACCGTGTTATCATTTTTAG
196 GTGTCA-ACCTAGATAACCAGTCGTCCTCATCATATAGGAACCGTGTTATCACCTTTAG
488107 ATGGCCA
1 ATGGCCA
488114 TAACTCTTCA
Statistics
Matches: 231, Mismatches: 27, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
252 99 0.43
253 131 0.57
254 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (253 bp):
ATGGCCAAGACTCATAAACAAATGAGCAATGTCATCACCTGAACAGATCTCCTCATTATGTAGGA
GTTATGTCAACTTAGATAACCAGCCATCCCCCATCAGAGTGAAACCATGTTATCACCCTTAGATG
ACCAAAACTCATGAACAGATGAGCACTGTCATCACCTGACCAGATCTCCTCATTATGTAGGAGTC
GTGTCAACCTAGATAACCAGTCGTCCTCATCATATAGGAACCGTGTTATCACCTTTAG
Found at i:490105 original size:21 final size:22
Alignment explanation
Indices: 490067--490107 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
490057 TATGTACATA
*
490067 TTGTAAATGTTGTTATTTTATG
1 TTGTAAATATTGTTATTTTATG
490089 TTGTAAATATT-TTATTTTA
1 TTGTAAATATTGTTATTTTA
490108 CATCATATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.61
Consensus pattern (22 bp):
TTGTAAATATTGTTATTTTATG
Found at i:498189 original size:13 final size:13
Alignment explanation
Indices: 498171--498196 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
498161 GCATCTGTAT
498171 AACCAAAATCAAC
1 AACCAAAATCAAC
498184 AACCAAAATCAAC
1 AACCAAAATCAAC
498197 GGTTTGATGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.31, G:0.00, T:0.08
Consensus pattern (13 bp):
AACCAAAATCAAC
Found at i:498828 original size:20 final size:21
Alignment explanation
Indices: 498803--498854 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
498793 TTTTCCCAAT
*
498803 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
498823 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
498844 TCGCAATGCGA
1 TCGCAATGCGA
498855 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:498868 original size:20 final size:20
Alignment explanation
Indices: 498843--498956 Score: 113
Period size: 20 Copynumber: 5.7 Consensus size: 20
498833 AATTGGGAAA
*
498843 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
498863 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* * *
498883 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
498904 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
498924 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
498944 TTCGCAACGCGAT
1 ATCGCAACGCGAT
498957 TTACATAGTG
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
19 2 0.02
20 64 0.79
21 13 0.16
22 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:498905 original size:61 final size:61
Alignment explanation
Indices: 498840--498956 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
498830 GCGAATTGGG
* * * * *
498840 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * *
498901 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGAT
498957 TTACATAGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:499549 original size:19 final size:19
Alignment explanation
Indices: 499513--499554 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
499503 ACGAGAGAAT
*
499513 CGCAACGCGAAATAAAAAA
1 CGCAACGCGAAACAAAAAA
* *
499532 CGCAACGCGAAACCAAAAT
1 CGCAACGCGAAACAAAAAA
499551 CGCA
1 CGCA
499555 TTGCGATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.50, C:0.29, G:0.17, T:0.05
Consensus pattern (19 bp):
CGCAACGCGAAACAAAAAA
Found at i:499572 original size:19 final size:19
Alignment explanation
Indices: 499550--499675 Score: 101
Period size: 19 Copynumber: 7.1 Consensus size: 19
499540 GAAACCAAAA
*
499550 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
499569 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
499583 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
499602 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
499616 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
* *
499635 TCGCATTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
499654 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
499674 TC
1 TC
499676 AACCAAAAGA
Statistics
Matches: 84, Mismatches: 12, Indels: 22
0.71 0.10 0.19
Matches are distributed among these distances:
14 20 0.24
16 5 0.06
17 6 0.07
19 37 0.44
20 16 0.19
ACGTcount: A:0.13, C:0.24, G:0.19, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:499591 original size:14 final size:14
Alignment explanation
Indices: 499572--499627 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
499562 TTTCATTTCG
499572 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
499586 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
499605 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
499619 CGTTGCGAT
1 CGTTGCGAT
499628 AGTCATTTCG
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 19 0.54
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:499597 original size:33 final size:33
Alignment explanation
Indices: 499555--499650 Score: 165
Period size: 33 Copynumber: 2.9 Consensus size: 33
499545 CAAAATCGCA
499555 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
499588 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
** *
499621 TTGCGATAGTCATTTCGCATTGCGATTCTC
1 TTGCGATTTTCATTTCGCGTTGCGATTCTC
499651 ATTATCTCGT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.11, C:0.24, G:0.21, T:0.44
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:501227 original size:63 final size:63
Alignment explanation
Indices: 501128--501258 Score: 262
Period size: 63 Copynumber: 2.1 Consensus size: 63
501118 GTTACGTGAT
501128 GAGGTCAATGCCTTGCGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
1 GAGGTCAATGCCTTGCGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
501191 GAGGTCAATGCCTTGCGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
1 GAGGTCAATGCCTTGCGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
501254 GAGGT
1 GAGGT
501259 GTCTACTTTA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 68 1.00
ACGTcount: A:0.21, C:0.18, G:0.37, T:0.24
Consensus pattern (63 bp):
GAGGTCAATGCCTTGCGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
Found at i:501570 original size:17 final size:17
Alignment explanation
Indices: 501540--501572 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
501530 GTTGCTGCCA
501540 ATTCTGTTAAACTGTGT
1 ATTCTGTTAAACTGTGT
501557 ATTCT-TTAACACTGTG
1 ATTCTGTTAA-ACTGTG
501573 AAGTTAGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.45
Consensus pattern (17 bp):
ATTCTGTTAAACTGTGT
Found at i:501588 original size:95 final size:89
Alignment explanation
Indices: 501425--501611 Score: 284
Period size: 91 Copynumber: 2.0 Consensus size: 89
501415 TAGATTACTT
501425 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAATTGTTTAGTAACACTGTGAAGTTAGTATTT
1 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAATTGTTTAGTAACACTGTGAAGTTAGTATTT
501490 GTCTTTTTGTTTTGTCTTTTGGTTGA
66 GTC--TTTGTTTTGTCTTTTGGTTGA
* * **
501516 AGTAAATTTATTCGGTTGCTGCCAATTCTGTTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAA-T-TGT-TT-AGTAACACTGTGAAGTTAGT
501581 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
62 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
501609 AGT
1 AGT
501612 TTTGAAATAT
Statistics
Matches: 88, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
91 33 0.38
92 1 0.01
93 27 0.31
94 2 0.02
95 25 0.28
ACGTcount: A:0.21, C:0.11, G:0.20, T:0.48
Consensus pattern (89 bp):
AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAATTGTTTAGTAACACTGTGAAGTTAGTATTT
GTCTTTGTTTTGTCTTTTGGTTGA
Found at i:501907 original size:42 final size:42
Alignment explanation
Indices: 501831--502033 Score: 194
Period size: 42 Copynumber: 4.8 Consensus size: 42
501821 GACTCGCCTG
* * * * * * *
501831 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
501873 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * * * * * * *
501915 TCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCTCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* *
501957 TCATTCCTCGAGAGTCCCCTACCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
501999 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
502034 CCCGATTCAC
Statistics
Matches: 130, Mismatches: 29, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
41 4 0.03
42 124 0.95
43 2 0.02
ACGTcount: A:0.24, C:0.36, G:0.17, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:502012 original size:84 final size:84
Alignment explanation
Indices: 501831--502003 Score: 310
Period size: 84 Copynumber: 2.1 Consensus size: 84
501821 GACTCGCCTG
* *
501831 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCTCCC
1 TCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCTACC
501896 ACCGTTCAAGAGGCCACTA
66 ACCGTTCAAGAGGCCACTA
*
501915 TCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCTCTATCATTCCTCGAGAGTCCCCTACC
1 TCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCTACC
*
501980 ACCGTTCAAGAGGCCACTG
66 ACCGTTCAAGAGGCCACTA
501999 TCATC
1 TCATC
502004 GTTGAAGAGG
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 85 1.00
ACGTcount: A:0.23, C:0.37, G:0.16, T:0.24
Consensus pattern (84 bp):
TCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCTACC
ACCGTTCAAGAGGCCACTA
Found at i:502033 original size:84 final size:84
Alignment explanation
Indices: 501831--502033 Score: 273
Period size: 84 Copynumber: 2.4 Consensus size: 84
501821 GACTCGCCTG
* * * * *
501831 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCTCCC
1 TCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGCCCCTATCATTCCTCGAGAGTCCCCTACC
501896 ACCGTTCAAGAGGCCACTA
66 ACCGTTCAAGAGGCCACTA
* * * *
501915 TCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCTCTATCATTCCTCGAGAGTCCCCTACC
1 TCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGCCCCTATCATTCCTCGAGAGTCCCCTACC
*
501980 ACCGTTCAAGAGGCCACTG
66 ACCGTTCAAGAGGCCACTA
** *
501999 TCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 TCATCCCTCAAGA-GTCCACTCCCACCATTCAAGAG
502034 CCCGATTCAC
Statistics
Matches: 108, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
84 104 0.96
85 4 0.04
ACGTcount: A:0.24, C:0.36, G:0.17, T:0.23
Consensus pattern (84 bp):
TCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGCCCCTATCATTCCTCGAGAGTCCCCTACC
ACCGTTCAAGAGGCCACTA
Found at i:503411 original size:14 final size:14
Alignment explanation
Indices: 503392--503427 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
503382 ATTGTTTAAT
503392 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
503406 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
503420 TGATTTGT
1 TGATTTGT
503428 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:503579 original size:33 final size:33
Alignment explanation
Indices: 503534--503623 Score: 135
Period size: 33 Copynumber: 2.7 Consensus size: 33
503524 AAAAAGTACT
* * *
503534 ATCGCAATGCGAAATGAAAATTGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACAAGAGA
503567 ATCGCAACGCGAAATGAAAATCGCAACAAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACAAGAGA
* *
503600 ATCGCAACGCGAAATTAAATTCGC
1 ATCGCAACGCGAAATGAAAATCGC
503624 GTTGCGATTT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 52 1.00
ACGTcount: A:0.44, C:0.20, G:0.21, T:0.14
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACAAGAGA
Found at i:503590 original size:19 final size:19
Alignment explanation
Indices: 503534--503593 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
503524 AAAAAGTACT
*
503534 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
* *
503553 ATTGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
503567 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
503586 ATCGCAAC
1 ATCGCAAC
503594 AAGAGAATCG
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
14 9 0.28
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 17 0.53
ACGTcount: A:0.45, C:0.20, G:0.22, T:0.13
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:503641 original size:19 final size:19
Alignment explanation
Indices: 503619--503769 Score: 62
Period size: 19 Copynumber: 8.7 Consensus size: 19
503609 CGAAATTAAA
503619 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* **
503638 TTCGCATTGCGA--TTCCC
1 TTCGCGTTGCGATTTTCAT
503655 TT---GTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* * *
503671 TTCGCATTGC-A----AAA
1 TTCGCGTTGCGATTTTCAT
*
503685 TTAGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
503704 TTCGCATTGCGA--TT-A-
1 TTCGCGTTGCGATTTTCAT
*
503719 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* * ** *
503737 TTCACATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
503756 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
503770 AGACATTAAG
Statistics
Matches: 92, Mismatches: 24, Indels: 31
0.63 0.16 0.21
Matches are distributed among these distances:
14 24 0.26
15 1 0.01
16 8 0.09
17 8 0.09
18 1 0.01
19 41 0.45
20 9 0.10
ACGTcount: A:0.17, C:0.21, G:0.19, T:0.42
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:503666 original size:33 final size:32
Alignment explanation
Indices: 503624--503749 Score: 164
Period size: 33 Copynumber: 3.8 Consensus size: 32
503614 TTAAATTCGC
*
503624 GTTGCGATTTTCATTTCGCATTGCGATTCCCTT
1 GTTGCGATTTTCATTTCGCATTGCGATTACC-T
* *
503657 GTTGCGATTTTCATTTCGCATTGCAAAATTAGC-
1 GTTGCGATTTTCATTTCGCATTGC--GATTACCT
*
503690 GTTGCGATTTTCATTTCGCATTGCGATTATCT
1 GTTGCGATTTTCATTTCGCATTGCGATTACCT
*
503722 CGTTGCGATTTTCATTTCACATTGCGAT
1 -GTTGCGATTTTCATTTCGCATTGCGAT
503750 AGTAATTTCC
Statistics
Matches: 83, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
31 5 0.06
33 74 0.89
35 4 0.05
ACGTcount: A:0.17, C:0.21, G:0.18, T:0.44
Consensus pattern (32 bp):
GTTGCGATTTTCATTTCGCATTGCGATTACCT
Found at i:503698 original size:66 final size:66
Alignment explanation
Indices: 503616--503746 Score: 217
Period size: 66 Copynumber: 2.0 Consensus size: 66
503606 ACGCGAAATT
* * * *
503616 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTTGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTACCTCGTTGCGATTTTCATTTCACATTGC
503681 A
66 A
*
503682 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCACATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTACCTCGTTGCGATTTTCATTTCACATTGC
503747 GATAGTAATT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 60 1.00
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.43
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTACCTCGTTGCGATTTTCATTTCACATTGC
A
Found at i:506265 original size:24 final size:24
Alignment explanation
Indices: 506231--506284 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
506221 CTGAAACATC
*
506231 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
506255 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
506279 ATCAAA
1 ATCAAA
506285 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:507048 original size:20 final size:20
Alignment explanation
Indices: 507023--507073 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
507013 TGTATTATCT
507023 CGTTGCGAAAGTCAGAATCG
1 CGTTGCGAAAGTCAGAATCG
507043 CGTTGCGAAAGTCAGAATCG
1 CGTTGCGAAAGTCAGAATCG
507063 CGTTGCGAAAG
1 CGTTGCGAAAG
507074 GCAATCATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.29, C:0.20, G:0.31, T:0.20
Consensus pattern (20 bp):
CGTTGCGAAAGTCAGAATCG
Found at i:507324 original size:19 final size:20
Alignment explanation
Indices: 507286--507335 Score: 75
Period size: 19 Copynumber: 2.5 Consensus size: 20
507276 ATTCATTTGA
*
507286 CTATCGCAATGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
507306 CTATCGCAACGCG-AAATGG
1 CTATCGCAACGCGAAAATGG
*
507325 ATATCGCAACG
1 CTATCGCAACG
507336 ACAAAATCGC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.18
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:507385 original size:14 final size:14
Alignment explanation
Indices: 507366--507419 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
507356 GAAAATCGCA
507366 TTGCGATTTTCTCG
1 TTGCGATTTTCTCG
507380 TTGCGATTTTCATTTCG
1 TTGCGATTTTC---TCG
*
507397 CATTGCGATTCTCTCG
1 --TTGCGATTTTCTCG
507413 TTGCGAT
1 TTGCGAT
507420 AGTCAGTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.11, C:0.22, G:0.20, T:0.46
Consensus pattern (14 bp):
TTGCGATTTTCTCG
Found at i:507437 original size:20 final size:20
Alignment explanation
Indices: 507412--507450 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
507402 CGATTCTCTC
507412 GTTGCGATAGTCAGTTTTGT
1 GTTGCGATAGTCAGTTTTGT
*
507432 GTTGCGATAGTCTGTTTTG
1 GTTGCGATAGTCAGTTTTG
507451 CCTTCAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.10, G:0.31, T:0.46
Consensus pattern (20 bp):
GTTGCGATAGTCAGTTTTGT
Found at i:507552 original size:14 final size:14
Alignment explanation
Indices: 507533--507569 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
507523 CATCAATTAA
507533 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
507547 ACAAATCATCTTTT
1 ACAAATCAACATTT
507561 ACAAATCAA
1 ACAAATCAA
507570 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:509459 original size:20 final size:20
Alignment explanation
Indices: 509436--509503 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 20
509426 GAAACTTAAA
509436 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
509456 ATCGCAACGC-AGAAATGGCT
1 ATCGCAACGCGA-AAATGACT
* * **
509476 ATCACAATGCG-AAATGAAA
1 ATCGCAACGCGAAAATGACT
509495 ATCGCAACG
1 ATCGCAACG
509504 ACAAAATCGC
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
19 13 0.34
20 25 0.66
ACGTcount: A:0.41, C:0.24, G:0.21, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:509511 original size:14 final size:14
Alignment explanation
Indices: 509492--509549 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
509482 ATGCGAAATG
509492 AAAATCGCAACGAC
1 AAAATCGCAACGAC
509506 AAAATCGCAATGCGGA-
1 AAAATCGCAA--C-GAC
509522 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
509538 AAAATCGCAACG
1 AAAATCGCAACG
509550 CGAAACACAA
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
14 21 0.55
15 2 0.05
16 4 0.11
17 2 0.05
18 9 0.24
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:509534 original size:32 final size:33
Alignment explanation
Indices: 509480--509554 Score: 125
Period size: 32 Copynumber: 2.3 Consensus size: 33
509470 ATGGCTATCA
509480 CAATGCGAAATGAAAATCGCAACGACAAAATCG
1 CAATGCGAAATGAAAATCGCAACGACAAAATCG
*
509513 CAATGCGGAATG-AAATCGCAACGACAAAATCG
1 CAATGCGAAATGAAAATCGCAACGACAAAATCG
*
509545 CAACGCGAAA
1 CAATGCGAAA
509555 CACAAATCGC
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
32 28 0.72
33 11 0.28
ACGTcount: A:0.47, C:0.23, G:0.20, T:0.11
Consensus pattern (33 bp):
CAATGCGAAATGAAAATCGCAACGACAAAATCG
Found at i:509585 original size:14 final size:14
Alignment explanation
Indices: 509566--509621 Score: 58
Period size: 14 Copynumber: 3.7 Consensus size: 14
509556 ACAAATCGCA
509566 TTGCGATTTTATCG
1 TTGCGATTTTATCG
*
509580 TTGCGATTTCATTCCG
1 TTGCGATTTTA-T-CG
*
509596 CATTGCGATTTTGTCG
1 --TTGCGATTTTATCG
509612 TTGCGATTTT
1 TTGCGATTTT
509622 CATTTCGCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
14 20 0.57
15 1 0.03
16 4 0.11
17 1 0.03
18 9 0.26
ACGTcount: A:0.12, C:0.18, G:0.21, T:0.48
Consensus pattern (14 bp):
TTGCGATTTTATCG
Found at i:509603 original size:32 final size:33
Alignment explanation
Indices: 509562--509637 Score: 127
Period size: 32 Copynumber: 2.3 Consensus size: 33
509552 AAACACAAAT
509562 CGCATTGCGATTTTATCGTTGCGA-TTTCATTC
1 CGCATTGCGATTTTATCGTTGCGATTTTCATTC
* *
509594 CGCATTGCGATTTTGTCGTTGCGATTTTCATTT
1 CGCATTGCGATTTTATCGTTGCGATTTTCATTC
509627 CGCATTGCGAT
1 CGCATTGCGAT
509638 AGCCATTTCC
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 23 0.56
33 18 0.44
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.43
Consensus pattern (33 bp):
CGCATTGCGATTTTATCGTTGCGATTTTCATTC
Found at i:509644 original size:19 final size:20
Alignment explanation
Indices: 509622--509665 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
509612 TTGCGATTTT
*
509622 CATTT-CGCATTGCGATAGC
1 CATTTCCGCATTACGATAGC
* *
509641 CATTTCCGCGTTACGATAGT
1 CATTTCCGCATTACGATAGC
509661 CATTT
1 CATTT
509666 TCGTGTTGTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.36
Consensus pattern (20 bp):
CATTTCCGCATTACGATAGC
Found at i:510184 original size:18 final size:18
Alignment explanation
Indices: 510158--510202 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
510148 GTCGATCAGA
*
510158 TGATGGCTCTAGGTGAGG
1 TGATGGCTCTAGGCGAGG
* *
510176 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTAGGCGAGG
510194 TGATGGCTC
1 TGATGGCTC
510203 CCGAAGTGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.16, G:0.42, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTAGGCGAGG
Found at i:511568 original size:20 final size:20
Alignment explanation
Indices: 511520--511578 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
511510 AATAGTTTCT
** *
511520 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACGC
511540 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACGC
**
511560 GAATTTGACTATCGCAACG
1 GAAAATGACTATCGCAACG
511579 AGAGAATCGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (20 bp):
GAAAATGACTATCGCAACGC
Found at i:511868 original size:22 final size:22
Alignment explanation
Indices: 511841--511884 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
511831 GATGGAGATA
511841 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
511863 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
511885 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:511939 original size:17 final size:17
Alignment explanation
Indices: 511917--511953 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
511907 GGGACTAAGT
511917 TGTGATTTTAGGTTTTA
1 TGTGATTTTAGGTTTTA
511934 TGTGATTTTAGGTTTTA
1 TGTGATTTTAGGTTTTA
511951 TGT
1 TGT
511954 TTGGAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.16, C:0.00, G:0.24, T:0.59
Consensus pattern (17 bp):
TGTGATTTTAGGTTTTA
Found at i:512097 original size:61 final size:61
Alignment explanation
Indices: 512015--512129 Score: 167
Period size: 61 Copynumber: 1.9 Consensus size: 61
512005 ATCGCATTGC
* * *
512015 GATTATGTATTATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGT
1 GATTATGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCTCGTTGT
* * * *
512076 GATTTTGTATTATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATC
1 GATTATGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATC
512130 GCATTGCGAT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 47 1.00
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (61 bp):
GATTATGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCTCGTTGT
Found at i:512111 original size:20 final size:20
Alignment explanation
Indices: 512005--512159 Score: 152
Period size: 20 Copynumber: 7.7 Consensus size: 20
511995 CGCTTTGAAA
*
512005 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* * *
512026 ATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATAGTCAGT
* *
512046 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * * * *
512066 ATCTCGTTGTGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTCAGT
*
512087 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGTCAGT
512107 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
512127 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
512147 ATCGCATTGCGAT
1 ATCGCATTGCGAT
512160 TTTCCCAATT
Statistics
Matches: 114, Mismatches: 16, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
19 5 0.04
20 85 0.75
21 22 0.19
22 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.34
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:512161 original size:81 final size:82
Alignment explanation
Indices: 512005--512162 Score: 212
Period size: 81 Copynumber: 1.9 Consensus size: 82
511995 CGCTTTGAAA
* * * *
512005 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCT
1 ATCGCATTGCGATTATGTAGTATCGCATTGCGAAAGTCAGAATCGCATTGCGAAAGTCAGTATCG
* *
512070 CGTTGTGATTTTGTATT
66 CATTGCGATTTTGTATT
* * *
512087 ATCGCATTGCGA-TA-GTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATAGTCAGTATC
1 ATCGCATTGCGATTATGT-AGTATCGCATTGCGAAAGTCAGAATCGCATTGCGAAAGTCAGTATC
512150 GCATTGCGATTTT
65 GCATTGCGATTTT
512163 CCCAATTCGC
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
80 2 0.03
81 52 0.79
82 12 0.18
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (82 bp):
ATCGCATTGCGATTATGTAGTATCGCATTGCGAAAGTCAGAATCGCATTGCGAAAGTCAGTATCG
CATTGCGATTTTGTATT
Found at i:512178 original size:81 final size:81
Alignment explanation
Indices: 512005--512180 Score: 194
Period size: 81 Copynumber: 2.2 Consensus size: 81
511995 CGCTTTGAAA
* * *
512005 ATCGCATTGCGATTATGT-ATTATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATC
1 ATCGCATTGCGA-TA-GTAAGTATCGCATTGCGAAAGTCAGAATCGCATTGCGAAAGTCAGTATC
* * * ** *
512069 TCGTTGTGATTTTGTATT
64 GCATTGCGATTTTCCAAT
* * *
512087 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATAGTCAGTATCGC
1 ATCGCATTGCGATAGTAAGTATCGCATTGCGAAAGTCAGAATCGCATTGCGAAAGTCAGTATCGC
512152 ATTGCGATTTTCCCAAT
66 ATTGCGATTTT-CCAAT
*
512169 -TCGCGTTGCGAT
1 ATCGCATTGCGAT
512181 TTACTTATTC
Statistics
Matches: 79, Mismatches: 13, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
80 2 0.03
81 63 0.80
82 14 0.18
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (81 bp):
ATCGCATTGCGATAGTAAGTATCGCATTGCGAAAGTCAGAATCGCATTGCGAAAGTCAGTATCGC
ATTGCGATTTTCCAAT
Found at i:512270 original size:21 final size:21
Alignment explanation
Indices: 512230--512270 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
512220 ACTGTAGACC
**
512230 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
512251 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
512271 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:513020 original size:22 final size:23
Alignment explanation
Indices: 512974--513019 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
512964 ATATGTTTTA
512974 TAAAAATCAATATTTAAATATTT
1 TAAAAATCAATATTTAAATATTT
*
512997 TAAAAATTAA-ATTTAAAATATTT
1 TAAAAATCAATATTT-AAATATTT
513020 ATTTATGATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
TAAAAATCAATATTTAAATATTT
Found at i:513093 original size:50 final size:49
Alignment explanation
Indices: 512978--513096 Score: 115
Period size: 50 Copynumber: 2.4 Consensus size: 49
512968 GTTTTATAAA
512978 AATC-AAT-ATTTAAATATTTTAAAAATTAAATTTAAAATATTTATTTAT
1 AATCAAATAATTTAAA-ATTTTAAAAATTAAATTTAAAATATTTATTTAT
* * * *
513026 GATCATATAATAT-AAATTTATAATAAA-TAAATATTAAAA-ATTATTTTTAT
1 AATCAAATAATTTAAAATTT-TAA-AAATTAAAT-TTAAAATATT-TATTTAT
513076 AAT-AAATAATTTAAAATTTTA
1 AATCAAATAATTTAAAATTTTA
513097 TATTTATTTA
Statistics
Matches: 57, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
48 7 0.12
49 24 0.42
50 26 0.46
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (49 bp):
AATCAAATAATTTAAAATTTTAAAAATTAAATTTAAAATATTTATTTAT
Found at i:513117 original size:28 final size:28
Alignment explanation
Indices: 513041--513118 Score: 88
Period size: 28 Copynumber: 2.8 Consensus size: 28
513031 TATAATATAA
513041 ATTTATAATAAATAAATATTAAAAATTAT
1 ATTTATAATAAAT-AATATTAAAAATTAT
* *
513070 TTTTATAATAAATAAT-TTAAAATTTTAT
1 ATTTATAATAAATAATATTAAAA-ATTAT
* *
513098 ATTTAT-TTAATTAATATTAAA
1 ATTTATAATAAATAATATTAAA
513119 TTAATAGAGG
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
27 13 0.31
28 17 0.40
29 12 0.29
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (28 bp):
ATTTATAATAAATAATATTAAAAATTAT
Found at i:513654 original size:30 final size:30
Alignment explanation
Indices: 513614--513671 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
513604 ATGATTTTGT
* *
513614 AAAAATTGAAAGTTTAGGTACTAAATGTAC
1 AAAAAGTGAAACTTTAGGTACTAAATGTAC
513644 AAAAAGTGAAACTTTAGGTACTAAATGT
1 AAAAAGTGAAACTTTAGGTACTAAATGT
513672 GTAGTTTACC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.47, C:0.07, G:0.17, T:0.29
Consensus pattern (30 bp):
AAAAAGTGAAACTTTAGGTACTAAATGTAC
Found at i:514662 original size:11 final size:11
Alignment explanation
Indices: 514630--514662 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
514620 ATTATAAAAC
514630 TAAAATATTAA
1 TAAAATATTAA
*
514641 TAAAA-AATAA
1 TAAAATATTAA
514651 TAAAATATTAA
1 TAAAATATTAA
514662 T
1 T
514663 TATAACATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
TAAAATATTAA
Found at i:518690 original size:2 final size:2
Alignment explanation
Indices: 518683--518713 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
518673 TTGATTACTT
518683 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
518714 ACATCAGCGT
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:530664 original size:23 final size:21
Alignment explanation
Indices: 530612--530673 Score: 81
Period size: 23 Copynumber: 2.9 Consensus size: 21
530602 TTTTGGTGCA
*
530612 GAGGGAATCGA-TCCCCCCTT
1 GAGGGAACCGATTCCCCCCTT
*
530632 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCCCTT
530653 GAAGGGGAACCGATTCCCCCC
1 G-A-GGGAACCGATTCCCCCC
530674 ACAGGGGAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.28
21 9 0.25
22 1 0.03
23 16 0.44
ACGTcount: A:0.21, C:0.35, G:0.26, T:0.18
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCTT
Found at i:535809 original size:35 final size:37
Alignment explanation
Indices: 535744--535815 Score: 130
Period size: 35 Copynumber: 2.0 Consensus size: 37
535734 TATGTGCAGG
535744 GGGAACAGATTCCCCCCTGGGGGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCCTGGGGGGGTATCGATTCCCC
535781 GGGAACAGATT-CCCCCT-GGGGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCCTGGGGGGGTATCGATTCCCC
535816 CCTAAATGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
35 18 0.51
36 6 0.17
37 11 0.31
ACGTcount: A:0.17, C:0.32, G:0.32, T:0.19
Consensus pattern (37 bp):
GGGAACAGATTCCCCCCTGGGGGGGTATCGATTCCCC
Found at i:536418 original size:31 final size:31
Alignment explanation
Indices: 536380--536566 Score: 295
Period size: 31 Copynumber: 6.0 Consensus size: 31
536370 AGGGTCGAGG
536380 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
536411 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
536442 GTTTACCTATGTTCTTCGGGACATATAGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
536473 GTTTACCTATGTTCTTCGGGACATATGGACC
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
536504 GTTTACCTATGTTCTTTGGGATATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
536535 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
536566 G
1 G
536567 GTCCTTTGGG
Statistics
Matches: 144, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
31 144 1.00
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.39
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:537194 original size:14 final size:14
Alignment explanation
Indices: 537175--537208 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
537165 TTAACATTTG
537175 GGTATTGTTCATAC
1 GGTATTGTTCATAC
537189 GGTATTGTTCATAC
1 GGTATTGTTCATAC
*
537203 CGTATT
1 GGTATT
537209 TTACTGTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.44
Consensus pattern (14 bp):
GGTATTGTTCATAC
Found at i:538686 original size:10 final size:10
Alignment explanation
Indices: 538643--538720 Score: 57
Period size: 10 Copynumber: 7.1 Consensus size: 10
538633 GTGTTTGTGT
*
538643 TGTTTGTTTA
1 TGTTCGTTTA
*
538653 TGTTCATTTA
1 TGTTCGTTTA
*
538663 TGTTTGTTTATTA
1 TGTTCG--T-TTA
538676 TGTTCGTTTA
1 TGTTCGTTTA
*
538686 TGTTCGTTCGTTTG
1 ---T-GTTCGTTTA
538700 TGTTCGTTTA
1 TGTTCGTTTA
538710 TGTTCGTTTA
1 TGTTCGTTTA
538720 T
1 T
538721 CATTTAAATG
Statistics
Matches: 54, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
10 34 0.63
11 2 0.04
12 1 0.02
13 9 0.17
14 8 0.15
ACGTcount: A:0.10, C:0.08, G:0.19, T:0.63
Consensus pattern (10 bp):
TGTTCGTTTA
Found at i:538696 original size:14 final size:14
Alignment explanation
Indices: 538677--538717 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
538667 TGTTTATTAT
538677 GTTCGTTTATGTTC
1 GTTCGTTTATGTTC
538691 GTTCG-TT-TG-T-
1 GTTCGTTTATGTTC
538701 GTTCGTTTATGTTC
1 GTTCGTTTATGTTC
538715 GTT
1 GTT
538718 TATCATTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
10 5 0.22
11 3 0.13
12 4 0.17
13 3 0.13
14 8 0.35
ACGTcount: A:0.05, C:0.12, G:0.24, T:0.59
Consensus pattern (14 bp):
GTTCGTTTATGTTC
Found at i:542208 original size:45 final size:45
Alignment explanation
Indices: 542144--542248 Score: 169
Period size: 45 Copynumber: 2.3 Consensus size: 45
542134 GGTGCACTAA
542144 GAGTGCATCGATGCATAAAATGCATTCGATG-TTTCA-AACAAGCCT
1 GAGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAA-AA-CCT
*
542189 GAGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAACTT
1 GAGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAACCT
542234 GAGTGCATCGATGCA
1 GAGTGCATCGATGCA
542249 ATGCATTCGA
Statistics
Matches: 57, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
45 48 0.84
46 7 0.12
47 2 0.04
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (45 bp):
GAGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAACCT
Found at i:547140 original size:21 final size:21
Alignment explanation
Indices: 547079--547141 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
547069 AGTTGAGGGT
*
547079 TATATGAGGTCATTCGGGACA
1 TATATGAGGTCCTTCGGGACA
* *
547100 TATACGAGGTCCTTCAGGACA
1 TATATGAGGTCCTTCGGGACA
* *
547121 TATATGATGTCCTTTGGGACA
1 TATATGAGGTCCTTCGGGACA
547142 AGTTTTATAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (21 bp):
TATATGAGGTCCTTCGGGACA
Found at i:549383 original size:16 final size:16
Alignment explanation
Indices: 549359--549406 Score: 69
Period size: 16 Copynumber: 3.0 Consensus size: 16
549349 TTTCTAAAAA
* *
549359 GGCACCCTCTTCTGGT
1 GGCATCCTCTTCTGAT
549375 GGCATCCTCTTCTGAT
1 GGCATCCTCTTCTGAT
*
549391 GACATCCTCTTCTGAT
1 GGCATCCTCTTCTGAT
549407 ATTGTTGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.12, C:0.33, G:0.19, T:0.35
Consensus pattern (16 bp):
GGCATCCTCTTCTGAT
Found at i:561532 original size:45 final size:47
Alignment explanation
Indices: 561450--561537 Score: 108
Period size: 46 Copynumber: 1.9 Consensus size: 47
561440 GTAATTAATA
* ** * *
561450 TTTTGTATAATCTATAATTGTAGTTAGTACATAAAA-TTAAAACTAT
1 TTTTGCATAATCTATAATTAAAATTAGTACACAAAATTTAAAACTAT
*
561496 TTTTGCATAATCTAT-ATTAAAATTAGTTCACAAAATTTAAAA
1 TTTTGCATAATCTATAATTAAAATTAGTACACAAAATTTAAAA
561538 ATTAATAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
45 15 0.43
46 20 0.57
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.42
Consensus pattern (47 bp):
TTTTGCATAATCTATAATTAAAATTAGTACACAAAATTTAAAACTAT
Found at i:561557 original size:2 final size:2
Alignment explanation
Indices: 561550--561586 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
561540 TAATAAATAA
*
561550 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
561587 CATCGTTACC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:562548 original size:19 final size:19
Alignment explanation
Indices: 562515--562553 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
562505 AGTTTATGAC
*
562515 TATAATTATAAATATTTAT
1 TATAATTATAAATATATAT
* *
562534 TATAATTTTAGATATATAT
1 TATAATTATAAATATATAT
562553 T
1 T
562554 TTTAATAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (19 bp):
TATAATTATAAATATATAT
Found at i:563222 original size:26 final size:29
Alignment explanation
Indices: 563183--563256 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 29
563173 TCTTTCAACT
*
563183 ATAAAAATATAAAATAATCA-T-TATTTA
1 ATAAAAATAAAAAATAATCATTATATTTA
563210 A-AAAAATAAAAAAATAA-CATTATATTTA
1 ATAAAAAT-AAAAAATAATCATTATATTTA
*
563238 ATAAAATTAACAAAATAAT
1 ATAAAAATAA-AAAATAAT
563257 AAATTTAACT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
26 8 0.21
27 10 0.26
28 9 0.23
29 12 0.31
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (29 bp):
ATAAAAATAAAAAATAATCATTATATTTA
Found at i:564317 original size:30 final size:30
Alignment explanation
Indices: 564283--564348 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 30
564273 AGAACTGGTA
*
564283 GAACCGGTTGAGAACC-GACAAAACCGATGT
1 GAACCGGTTGAAAACCAG-CAAAACCGATGT
564313 GAACCGGTTGAAAACCAGCAAAACCGATGT
1 GAACCGGTTGAAAACCAGCAAAACCGATGT
564343 GAACCG
1 GAACCG
564349 ACGGTTCTGT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
30 33 0.97
31 1 0.03
ACGTcount: A:0.38, C:0.24, G:0.26, T:0.12
Consensus pattern (30 bp):
GAACCGGTTGAAAACCAGCAAAACCGATGT
Found at i:568132 original size:15 final size:15
Alignment explanation
Indices: 568102--568142 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
568092 GGAGTAGGTG
*
568102 TAGGTGTTGACTCATC
1 TAGGT-TTGACCCATC
568118 TAGGTTTGACCCATC
1 TAGGTTTGACCCATC
568133 TAGGTTTGAC
1 TAGGTTTGAC
568143 ATTTTCAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 19 0.79
16 5 0.21
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.37
Consensus pattern (15 bp):
TAGGTTTGACCCATC
Found at i:568289 original size:15 final size:15
Alignment explanation
Indices: 568269--568401 Score: 113
Period size: 15 Copynumber: 8.7 Consensus size: 15
568259 CTTATTAATT
* *
568269 AGCAGAATTATTACA
1 AGCAGAATTAATACG
568284 AGCAGAATTAATACG
1 AGCAGAATTAATACG
* *
568299 TGCAGAATTAATATG
1 AGCAGAATTAATACG
* *
568314 AGCAAAATTAATATG
1 AGCAGAATTAATACG
* *
568329 AGCATAATTATTATTACA
1 AGCAGAATTA--A-TACG
* * *
568347 AGCATAATTATTACA
1 AGCAGAATTAATACG
568362 AGCAGAATTAATACG
1 AGCAGAATTAATACG
* * *
568377 AGTATAATTAATATG
1 AGCAGAATTAATACG
568392 AGCAGAATTA
1 AGCAGAATTA
568402 TTAATATGCA
Statistics
Matches: 97, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
15 84 0.87
17 1 0.01
18 12 0.12
ACGTcount: A:0.47, C:0.10, G:0.14, T:0.29
Consensus pattern (15 bp):
AGCAGAATTAATACG
Found at i:568356 original size:63 final size:63
Alignment explanation
Indices: 568275--568404 Score: 188
Period size: 63 Copynumber: 2.1 Consensus size: 63
568265 AATTAGCAGA
** * *
568275 ATTATTACAAGCAGAATTAATACGTGCAGAATTAATATGAGCAAAATTAATATGAGCATAATT
1 ATTATTACAAGCAGAATTAATACAAGCAGAATTAATACGAGCAAAATTAATATGAGCAGAATT
* * * *
568338 ATTATTACAAGCATAATTATTACAAGCAGAATTAATACGAGTATAATTAATATGAGCAGAATT
1 ATTATTACAAGCAGAATTAATACAAGCAGAATTAATACGAGCAAAATTAATATGAGCAGAATT
568401 ATTA
1 ATTA
568405 ATATGCAGAC
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
63 59 1.00
ACGTcount: A:0.46, C:0.09, G:0.13, T:0.32
Consensus pattern (63 bp):
ATTATTACAAGCAGAATTAATACAAGCAGAATTAATACGAGCAAAATTAATATGAGCAGAATT
Found at i:573310 original size:30 final size:30
Alignment explanation
Indices: 573248--573312 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
573238 AGTTTAACCA
* *
573248 AATACTAATCTAAGGTTAATGACTCAAGTG
1 AATACTAAACTAAGGTTAATGACTAAAGTG
* * *
573278 AATACTAAACTAAGGTTAGTGGCTAAATTG
1 AATACTAAACTAAGGTTAATGACTAAAGTG
573308 AATAC
1 AATAC
573313 AAAGTAGGAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (30 bp):
AATACTAAACTAAGGTTAATGACTAAAGTG
Found at i:574587 original size:15 final size:15
Alignment explanation
Indices: 574564--574593 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
574554 TTGGGAAGGT
574564 GGTACCGATACCATA
1 GGTACCGATACCATA
*
574579 GGTATCGATACCATA
1 GGTACCGATACCATA
574594 AGGGAGGTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.23
Consensus pattern (15 bp):
GGTACCGATACCATA
Found at i:575173 original size:21 final size:22
Alignment explanation
Indices: 575148--575190 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
575138 TGTCTATGAA
575148 GAGTCATAAGAGAAC-AAATAT
1 GAGTCATAAGAGAACGAAATAT
* *
575169 GAGTCATATGATAACGAAATAT
1 GAGTCATAAGAGAACGAAATAT
575191 AAGACTATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.49, C:0.09, G:0.19, T:0.23
Consensus pattern (22 bp):
GAGTCATAAGAGAACGAAATAT
Found at i:575885 original size:30 final size:31
Alignment explanation
Indices: 575818--575886 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
575808 ATCATTTCGG
**
575818 ACATATGGACAGTATTACCTATGTCCTTGGG
1 ACATATGGACAGTATTACCTATGTCCTTGAA
* *
575849 ACATATGGACAGT-TT-CCTATGTTCTTCTAA
1 ACATATGGACAGTATTACCTATGTCCTT-GAA
575879 ACATATGG
1 ACATATGG
575887 TTAGGTCTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 10 0.30
30 10 0.30
31 13 0.39
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (31 bp):
ACATATGGACAGTATTACCTATGTCCTTGAA
Found at i:581031 original size:32 final size:29
Alignment explanation
Indices: 580990--581078 Score: 115
Period size: 32 Copynumber: 2.9 Consensus size: 29
580980 GAGTTGAGGG
580990 TTACCTATGTCCTTTGGGACATATGGACAGTA
1 TTACCTATGT-CTTTGGGACATATGGACA--A
581022 TTACCTATGTCTTTCGGGACATATGGACAA
1 TTACCTATGTCTTT-GGGACATATGGACAA
* *
581052 TTACCTATGTTCTTCGGAACATATGGA
1 TTACCTATG-TCTTTGGGACATATGGA
581079 TAGGTCCTTC
Statistics
Matches: 53, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
30 21 0.40
31 8 0.15
32 24 0.45
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (29 bp):
TTACCTATGTCTTTGGGACATATGGACAA
Found at i:581057 original size:30 final size:31
Alignment explanation
Indices: 580990--581078 Score: 121
Period size: 30 Copynumber: 2.9 Consensus size: 31
580980 GAGTTGAGGG
580990 TTACCTATGTCCTTT-GGGACATATGGACAGTA
1 TTACCTATGT-CTTTCGGGACATATGGACAG-A
581022 TTACCTATGTCTTTCGGGACATATGGACA-A
1 TTACCTATGTCTTTCGGGACATATGGACAGA
*
581052 TTACCTATGT-TCTTCGGAACATATGGA
1 TTACCTATGTCT-TTCGGGACATATGGA
581079 TAGGTCCTTC
Statistics
Matches: 54, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
29 1 0.02
30 25 0.46
31 4 0.07
32 24 0.44
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (31 bp):
TTACCTATGTCTTTCGGGACATATGGACAGA
Found at i:584589 original size:22 final size:22
Alignment explanation
Indices: 584558--584616 Score: 109
Period size: 22 Copynumber: 2.7 Consensus size: 22
584548 AGGGTTTCGT
*
584558 AGGTCATTCGGGACATATACAG
1 AGGTCCTTCGGGACATATACAG
584580 AGGTCCTTCGGGACATATACAG
1 AGGTCCTTCGGGACATATACAG
584602 AGGTCCTTCGGGACA
1 AGGTCCTTCGGGACA
584617 AATTTTACAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (22 bp):
AGGTCCTTCGGGACATATACAG
Found at i:594759 original size:23 final size:22
Alignment explanation
Indices: 594692--594767 Score: 86
Period size: 21 Copynumber: 3.5 Consensus size: 22
594682 CGATACCTAG
*
594692 GTATCGATACATCCTTG-CTAT
1 GTATCGATACATCCTTGAATAT
*
594713 GTATCGATACA--CTATGAATGT
1 GTATCGATACATCCT-TGAATAT
*
594734 GTACCGATACATTCCTTGAATAT
1 GTATCGATACA-TCCTTGAATAT
594757 GTATCGATACA
1 GTATCGATACA
594768 CTCCAAGGTG
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
19 2 0.04
20 2 0.04
21 23 0.51
23 16 0.36
24 2 0.04
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (22 bp):
GTATCGATACATCCTTGAATAT
Found at i:594779 original size:43 final size:42
Alignment explanation
Indices: 594696--594787 Score: 114
Period size: 43 Copynumber: 2.2 Consensus size: 42
594686 ACCTAGGTAT
* ** *
594696 CGATACATCCTTGCTATGTATCGATACACTATGAATGTGTAC
1 CGATACATCCTTGATATGTATCGATACACTACCAAGGTGTAC
594738 CGATACATTCCTTGAATATGTATCGATACACT-CCAAGGTGTAC
1 CGATACA-TCCTTG-ATATGTATCGATACACTACCAAGGTGTAC
*
594781 AGATACA
1 CGATACA
594788 CCCGTCGGGT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
42 7 0.16
43 20 0.47
44 16 0.37
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (42 bp):
CGATACATCCTTGATATGTATCGATACACTACCAAGGTGTAC
Done.