Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011063.1 Kokia drynarioides strain JFW-HI SEQ_126034, 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: 552818
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Warning! 607 characters in sequence are not A, C, G, or T
File 3 of 3
Found at i:438490 original size:33 final size:30
Alignment explanation
Indices: 438451--438510 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 30
438441 ATTGAAGAAT
438451 ATTTATATTAATATTGTAATAATAAATATTACA
1 ATTTATA--AATATT-TAATAATAAATATTACA
*
438484 ATTTATAAGTATTTAATAATAAATATT
1 ATTTATAAATATTTAATAATAAATATT
438511 TTATAGTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 14 0.54
31 5 0.19
33 7 0.27
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (30 bp):
ATTTATAAATATTTAATAATAAATATTACA
Found at i:438535 original size:23 final size:23
Alignment explanation
Indices: 438455--438554 Score: 75
Period size: 23 Copynumber: 4.4 Consensus size: 23
438445 AAGAATATTT
* *
438455 ATATTAATATTGTAA-TA-ATAA
1 ATATAAATATTTTAAGTATATAA
* *
438476 ATATTACAAT-TTATAAGTAT-TTA
1 ATA-TA-AATATTTTAAGTATATAA
438499 ATAATAAATATTTTATAGTATA-AA
1 AT-ATAAATATTTTA-AGTATATAA
* *
438523 ATATGAATATTTTAATTATATAA
1 ATATAAATATTTTAAGTATATAA
438546 ATATAAATA
1 ATATAAATA
438555 ATTGTTGAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
21 3 0.05
22 14 0.23
23 36 0.58
24 9 0.15
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.44
Consensus pattern (23 bp):
ATATAAATATTTTAAGTATATAA
Found at i:441187 original size:3 final size:3
Alignment explanation
Indices: 441179--441210 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
441169 TCTGTTCCAT
*
441179 ATA ATA ATA ATA ATA ATA ATA TTA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
441211 CTTTTTATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:445507 original size:158 final size:158
Alignment explanation
Indices: 445219--445520 Score: 417
Period size: 158 Copynumber: 1.9 Consensus size: 158
445209 AACCATATAT
* *
445219 GCTCACACGAGCTGTGGGTCGAGATGTGAGGCTACACAATGCTACTCACACGAGTTGTGAAGAAT
1 GCTCACACGAGCTGTGGGTCAAGATGTGAGGCTACACAATGCTACTCACACGAGCTGTGAAGAAT
* *
445284 CCACAATAAATGTCGAACCTCAGCCATCAGTAAGACATCTAGGACCAACACCCATATAACCTGTA
66 CCACAACAAATGTCGAACCTCAGCCATCAGTAAGACATCTAAGACCAACACCCATATAACCTGTA
445349 ATGCTCACACGAGCTGTGAAATGGGTCG
131 ATGCTCACACGAGCTGTGAAATGGGTCG
* * * * * *
445377 GCTCACACGAGCTGTGGGTTAAGATGTTAGGCTACGCGATGCTTCTCACACGAGCTGTGGAGAAT
1 GCTCACACGAGCTGTGGGTCAAGATGTGAGGCTACACAATGCTACTCACACGAGCTGTGAAGAAT
** * * * * * *
445442 CTGCAACCAATG-CAGGACCTCAGCCATTAGTAGGACATCTAAGATCAGCACCCATATAACCTGT
66 CCACAACAAATGTC-GAACCTCAGCCATCAGTAAGACATCTAAGACCAACACCCATATAACCTGT
*
445506 AATGCTCACATGAGC
130 AATGCTCACACGAGC
445521 AGTAACTATA
Statistics
Matches: 124, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
157 1 0.01
158 123 0.99
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.21
Consensus pattern (158 bp):
GCTCACACGAGCTGTGGGTCAAGATGTGAGGCTACACAATGCTACTCACACGAGCTGTGAAGAAT
CCACAACAAATGTCGAACCTCAGCCATCAGTAAGACATCTAAGACCAACACCCATATAACCTGTA
ATGCTCACACGAGCTGTGAAATGGGTCG
Found at i:453224 original size:21 final size:20
Alignment explanation
Indices: 453200--453240 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
453190 AATAAAAAAT
453200 AATTAAGATAAAAATATTAAA
1 AATTAA-ATAAAAATATTAAA
* *
453221 AATTAATTTAAAATATTAAA
1 AATTAAATAAAAATATTAAA
453241 TATCACACCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (20 bp):
AATTAAATAAAAATATTAAA
Found at i:455114 original size:98 final size:98
Alignment explanation
Indices: 454945--455412 Score: 642
Period size: 98 Copynumber: 4.8 Consensus size: 98
454935 TTTCAAGTTC
** ** * **
454945 GGAATGATGTTCCATATACCAATATGGAGGTGCTACTCAAAATTTCAGTTGAAGCTAGCAAACTA
1 GGAATGATACTCCATATGTCAATATGGAGCTGCTACTGTAAATTTCAGTTGAAGCTAGCAAACTA
455010 TTTTAACTTCAAGTATTTCAAGTTCAAAACCGA
66 TTTTAACTTCAAGTATTTCAAGTTCAAAACCGA
* *
455043 GGAATGATACTCCATATGTCAATATGGAGCTACTACTGCAAATTTCAGTTGAAGCTAGCAAACTA
1 GGAATGATACTCCATATGTCAATATGGAGCTGCTACTGTAAATTTCAGTTGAAGCTAGCAAACTA
*
455108 TTTTAACTTCAAGTGTTTCAAGTTCAAAACCGA
66 TTTTAACTTCAAGTATTTCAAGTTCAAAACCGA
* *
455141 GGAATGATACTCCATACGTCAATATGGAGCTGCTACTGTAAATTTCAGTTGAAGCTAGTAAACTA
1 GGAATGATACTCCATATGTCAATATGGAGCTGCTACTGTAAATTTCAGTTGAAGCTAGCAAACTA
*
455206 TTTTTAACTTCAAGTATTTCAAGTTCAAAACCTA
66 -TTTTAACTTCAAGTATTTCAAGTTCAAAACCGA
* * *
455240 TGAATGATATTCCATATGTCAATATGGAGCTGCTACTGTAAATTTCA----AAGCTCA-TAAACT
1 GGAATGATACTCCATATGTCAATATGGAGCTGCTACTGTAAATTTCAGTTGAAGCT-AGCAAACT
455300 ATTTTAACTTCAAGTATTTTTCAAGTTCAAAACCGA
65 ATTTTAACTTCAAGTA--TTTCAAGTTCAAAACCGA
* * * * *
455336 -GAAAGAATGCTCCATATGTCAATATGGAACTGCTACTGTAAATTTCAGTTGAAGCTAGAAAAGT
1 GGAATG-ATACTCCATATGTCAATATGGAGCTGCTACTGTAAATTTCAGTTGAAGCTAGCAAACT
* *
455400 ATTTCAAGTTCAA
65 ATTTTAACTTCAA
455413 AACCGAGGAC
Statistics
Matches: 333, Mismatches: 27, Indels: 18
0.88 0.07 0.05
Matches are distributed among these distances:
94 15 0.05
95 16 0.05
96 56 0.17
98 150 0.45
99 76 0.23
100 20 0.06
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (98 bp):
GGAATGATACTCCATATGTCAATATGGAGCTGCTACTGTAAATTTCAGTTGAAGCTAGCAAACTA
TTTTAACTTCAAGTATTTCAAGTTCAAAACCGA
Found at i:455438 original size:29 final size:29
Alignment explanation
Indices: 455405--455469 Score: 96
Period size: 29 Copynumber: 2.3 Consensus size: 29
455395 AAAGTATTTC
* *
455405 AAGTTCAAAACCGAGGACTGATGTTCCAT
1 AAGTTCAAAACCAAGGACTGATATTCCAT
*
455434 AAGTTCAAAACCAAGGAGTGATATTCCAT
1 AAGTTCAAAACCAAGGACTGATATTCCAT
455463 AA-TTCAA
1 AAGTTCAA
455470 TATGGAGCTG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 5 0.15
29 28 0.85
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.25
Consensus pattern (29 bp):
AAGTTCAAAACCAAGGACTGATATTCCAT
Found at i:465430 original size:9 final size:9
Alignment explanation
Indices: 465416--465508 Score: 55
Period size: 9 Copynumber: 9.9 Consensus size: 9
465406 AAGTTTATAT
465416 TAATTTTAA
1 TAATTTTAA
465425 TAA-TTTAA
1 TAATTTTAA
*
465433 TATTTTTAA
1 TAATTTTAA
* *
465442 TGATTTTTA
1 TAATTTTAA
465451 TAAGTTTTTAA
1 TAA--TTTTAA
* *
465462 GAATTTTTA
1 TAATTTTAA
465471 TATATTTTATA
1 TA-ATTTTA-A
*
465482 AAATTTTAA
1 TAATTTTAA
*
465491 -ATATTTGTAT
1 TA-ATTT-TAA
465501 TAATTTTA
1 TAATTTTA
465509 TAAAGTTTTT
Statistics
Matches: 64, Mismatches: 12, Indels: 16
0.70 0.13 0.17
Matches are distributed among these distances:
8 8 0.12
9 29 0.45
10 17 0.27
11 10 0.16
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (9 bp):
TAATTTTAA
Found at i:465449 original size:10 final size:9
Alignment explanation
Indices: 465419--465496 Score: 52
Period size: 10 Copynumber: 8.2 Consensus size: 9
465409 TTTATATTAA
465419 TTTTAATA-
1 TTTTAATAT
*
465427 ATTTAATAT
1 TTTTAATAT
465436 TTTTAATGAT
1 TTTTAAT-AT
465446 TTTT-ATAAGT
1 TTTTAAT-A-T
*
465456 TTTTAAGAAT
1 TTTTAA-TAT
465466 TTTTATATAT
1 TTTTA-ATAT
*
465476 TTTATAAAAT
1 TTT-TAATAT
*
465486 TTTAAATAT
1 TTTTAATAT
465495 TT
1 TT
465497 GTATTAATTT
Statistics
Matches: 55, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
8 7 0.13
9 15 0.27
10 28 0.51
11 5 0.09
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (9 bp):
TTTTAATAT
Found at i:465478 original size:20 final size:20
Alignment explanation
Indices: 465428--465488 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
465418 ATTTTAATAA
465428 TTTA-ATATTTTTAATG-ATT
1 TTTATATATTTTTAA-GAATT
465447 TTTATA-AGTTTTTAAGAATT
1 TTTATATA-TTTTTAAGAATT
465467 TTTATATATTTTATAA-AATT
1 TTTATATATTTT-TAAGAATT
465487 TT
1 TT
465489 AAATATTTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
19 6 0.16
20 27 0.73
21 4 0.11
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (20 bp):
TTTATATATTTTTAAGAATT
Found at i:466231 original size:25 final size:25
Alignment explanation
Indices: 466186--466240 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
466176 ATTATTTTGG
* * *
466186 TTTTTTATATTTTAATGATTTTATA
1 TTTTTGATATTTTAATAATTTAATA
*
466211 TTTTTGATATTTTTAA-AATTTAATT
1 TTTTTGATA-TTTTAATAATTTAATA
466236 TTTTT
1 TTTTT
466241 ATTGTTATTG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 19 0.76
26 6 0.24
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (25 bp):
TTTTTGATATTTTAATAATTTAATA
Found at i:480321 original size:27 final size:27
Alignment explanation
Indices: 480290--480352 Score: 117
Period size: 27 Copynumber: 2.3 Consensus size: 27
480280 ATCTTTCTTT
*
480290 CTAGGTCCTTATTTACAAGCATGTCTC
1 CTAGGCCCTTATTTACAAGCATGTCTC
480317 CTAGGCCCTTATTTACAAGCATGTCTC
1 CTAGGCCCTTATTTACAAGCATGTCTC
480344 CTAGGCCCT
1 CTAGGCCCT
480353 ATAATGAGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.21, C:0.30, G:0.16, T:0.33
Consensus pattern (27 bp):
CTAGGCCCTTATTTACAAGCATGTCTC
Found at i:494190 original size:38 final size:38
Alignment explanation
Indices: 494099--494209 Score: 111
Period size: 38 Copynumber: 2.9 Consensus size: 38
494089 AGTTAAAATC
* * * *
494099 AGCGAACTGTGAAAATGACAGGC-ACGATCTTAA-ATCA
1 AGCGAACTGTAAAAATGACA-GCTGCGATATGAATATCA
* * *
494136 AGCAAATTGTAAAAATGACAGCTGCGATATGAATATCG
1 AGCGAACTGTAAAAATGACAGCTGCGATATGAATATCA
*
494174 AGCGAACTGTAAAAATGATAG-TCGCGATATGAATAT
1 AGCGAACTGTAAAAATGACAGCT-GCGATATGAATAT
494210 AAAACCAACT
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
36 2 0.03
37 25 0.41
38 34 0.56
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.23
Consensus pattern (38 bp):
AGCGAACTGTAAAAATGACAGCTGCGATATGAATATCA
Found at i:494220 original size:38 final size:38
Alignment explanation
Indices: 494143--494226 Score: 98
Period size: 38 Copynumber: 2.2 Consensus size: 38
494133 TCAAGCAAAT
** * *
494143 TGTAAAAATGACAGCTGCGATATGAATATCGAGCGAAC
1 TGTAAAAATGACAGCTGCGATATGAATATAAAACCAAC
*
494181 TGTAAAAATGATAG-TCGCGATATGAATATAAAACCAAC
1 TGTAAAAATGACAGCT-GCGATATGAATATAAAACCAAC
*
494219 TGTTAAAA
1 TGTAAAAA
494227 CATCGAAGGT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
37 1 0.03
38 38 0.97
ACGTcount: A:0.44, C:0.13, G:0.19, T:0.24
Consensus pattern (38 bp):
TGTAAAAATGACAGCTGCGATATGAATATAAAACCAAC
Found at i:494247 original size:41 final size:41
Alignment explanation
Indices: 494162--494371 Score: 175
Period size: 41 Copynumber: 5.3 Consensus size: 41
494152 GACAGCTGCG
* * *
494162 ATATGAATATCGAGCGAACTG-TAAAA-AT-GATA-GTCGCG
1 ATATGAATATCAAGCGAACTGTTAAAACATCGA-AGGTCACA
* * *
494200 ATATGAATATAAAACCAACTGTTAAAACATCGAAGGTCACA
1 ATATGAATATCAAGCGAACTGTTAAAACATCGAAGGTCACA
** * **
494241 ATATGAATATTGAGTGAA-TCATAAAA-AT-GACA-GTCACA
1 ATATGAATATCAAGCGAACTGTTAAAACATCGA-AGGTCACA
* * * *
494279 ATATGAATATCGAGCAAATTGTTAGAACATCGAAGGTCACA
1 ATATGAATATCAAGCGAACTGTTAAAACATCGAAGGTCACA
* * * *
494320 ATATGAATATCAAGCGAACTATTAAAATATCGAAGGTCGCG
1 ATATGAATATCAAGCGAACTGTTAAAACATCGAAGGTCACA
494361 ATATGAATATC
1 ATATGAATATC
494372 GAGTGAACCG
Statistics
Matches: 136, Mismatches: 27, Indels: 15
0.76 0.15 0.08
Matches are distributed among these distances:
38 40 0.29
39 13 0.10
40 12 0.09
41 71 0.52
ACGTcount: A:0.44, C:0.14, G:0.18, T:0.25
Consensus pattern (41 bp):
ATATGAATATCAAGCGAACTGTTAAAACATCGAAGGTCACA
Found at i:494347 original size:79 final size:79
Alignment explanation
Indices: 494162--494347 Score: 230
Period size: 79 Copynumber: 2.4 Consensus size: 79
494152 GACAGCTGCG
* * * * *
494162 ATATGAATATCGAGCGAACTGTAAAAATGATAGTCGCGATATGAATATAAAACCAACTGTTAAAA
1 ATATGAATATCGAGCGAACTATAAAAATGACAGTCACAATATGAATATAAAACAAACTGTTAAAA
494227 CATCGAAGGTCACA
66 CATCGAAGGTCACA
* * ** * * *
494241 ATATGAATATTGAGTGAA-TCATAAAAATGACAGTCACAATATGAATATCGAGCAAATTGTTAGA
1 ATATGAATATCGAGCGAACT-ATAAAAATGACAGTCACAATATGAATATAAAACAAACTGTTAAA
494305 ACATCGAAGGTCACA
65 ACATCGAAGGTCACA
* *
494320 ATATGAATATCAAGCGAACTATTAAAAT
1 ATATGAATATCGAGCGAACTATAAAAAT
494348 ATCGAAGGTC
Statistics
Matches: 89, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
78 1 0.01
79 87 0.98
80 1 0.01
ACGTcount: A:0.45, C:0.13, G:0.17, T:0.25
Consensus pattern (79 bp):
ATATGAATATCGAGCGAACTATAAAAATGACAGTCACAATATGAATATAAAACAAACTGTTAAAA
CATCGAAGGTCACA
Found at i:494365 original size:120 final size:120
Alignment explanation
Indices: 494200--494421 Score: 311
Period size: 120 Copynumber: 1.9 Consensus size: 120
494190 GATAGTCGCG
* * *
494200 ATATGAATATAAAACCAACTGTTAAAACATCGAAGGTCACAATATGAATATTGAGTGAATC-ATA
1 ATATGAATATAAAACCAACTATTAAAACATCGAAGGTCACAATATGAATATCGAGTGAACCGA-A
*
494264 AAAATGACAGTCACAATATGAATATCGAGCAAATTGTTAGAACATCGAAGGTCACA
65 AAAATGAAAGTCACAATATGAATATCGAGCAAATTGTTAGAACATCGAAGGTCACA
* * * * * * *
494320 ATATGAATATCAAGCGAACTATTAAAATATCGAAGGTCGCGATATGAATATCGAGTGAACCGAAG
1 ATATGAATATAAAACCAACTATTAAAACATCGAAGGTCACAATATGAATATCGAGTGAACCGAAA
**
494385 AAATGAAAGTCATGATATGAATATCGAGCAAATTGTT
66 AAATGAAAGTCACAATATGAATATCGAGCAAATTGTT
494422 GAAAACAAAA
Statistics
Matches: 88, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
120 87 0.99
121 1 0.01
ACGTcount: A:0.44, C:0.13, G:0.18, T:0.25
Consensus pattern (120 bp):
ATATGAATATAAAACCAACTATTAAAACATCGAAGGTCACAATATGAATATCGAGTGAACCGAAA
AAATGAAAGTCACAATATGAATATCGAGCAAATTGTTAGAACATCGAAGGTCACA
Found at i:495438 original size:21 final size:21
Alignment explanation
Indices: 495393--495450 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
495383 TAGTGCAGAT
* *
495393 TTCTACTGGTACAAGTGATAG
1 TTCTACTGATACAAGTGATAC
495414 TTCTACTGATACAAGTGACT-C
1 TTCTACTGATACAAGTGA-TAC
*
495435 TTCTACCGATACAAGT
1 TTCTACTGATACAAGT
495451 TTTACCTCTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 32 0.97
22 1 0.03
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (21 bp):
TTCTACTGATACAAGTGATAC
Found at i:506882 original size:28 final size:31
Alignment explanation
Indices: 506838--506895 Score: 86
Period size: 28 Copynumber: 2.0 Consensus size: 31
506828 ATTTTCAAAT
506838 TTAAATGTTAACATTATTA-AA-ATTATTTG
1 TTAAATGTTAACATTATTACAACATTATTTG
*
506867 TTAAAT-TTAACTTTATTACAACATTATTT
1 TTAAATGTTAACATTATTACAACATTATTT
506896 TTTGTTGTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 11 0.42
29 8 0.31
30 7 0.27
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (31 bp):
TTAAATGTTAACATTATTACAACATTATTTG
Found at i:507840 original size:24 final size:24
Alignment explanation
Indices: 507789--507840 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
507779 TTCATAAGTC
* *
507789 AAATAAATTATGCTAATAAATGCA
1 AAATAAATTATACTAATAAATACA
* *
507813 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACA
507837 AAAT
1 AAAT
507841 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACA
Found at i:509791 original size:24 final size:24
Alignment explanation
Indices: 509758--509811 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
509748 TTCGTAAGTC
* *
509758 AAATAAATTATGTTAATAAATACA
1 AAATATATTATATTAATAAATACA
*
509782 AAATATATTATATTAATAAATACT
1 AAATATATTATATTAATAAATACA
509806 AAATAT
1 AAATAT
509812 TTTAGAAAAA
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:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (24 bp):
AAATATATTATATTAATAAATACA
Found at i:510683 original size:28 final size:28
Alignment explanation
Indices: 510643--510699 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
510633 AGTTGGCGTG
*
510643 TAAGTGAATACCAAAACTGTGGTAGTAT
1 TAAGTGAATACCAAAACTGTAGTAGTAT
510671 TAAGTGAATACCAAAACTGTAGTAGTAT
1 TAAGTGAATACCAAAACTGTAGTAGTAT
510699 T
1 T
510700 CGCTCGAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (28 bp):
TAAGTGAATACCAAAACTGTAGTAGTAT
Found at i:513604 original size:16 final size:17
Alignment explanation
Indices: 513580--513627 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 17
513570 AATTTTATCA
* *
513580 TTATTAATT-TAAAATT
1 TTATAAATTATAAAAGT
513596 TTATAAATTATAAAAG-
1 TTATAAATTATAAAAGT
513612 TT-TAAATTA-AAAAGT
1 TTATAAATTATAAAAGT
513627 T
1 T
513628 ATCATTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
14 5 0.18
15 8 0.29
16 10 0.36
17 5 0.18
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (17 bp):
TTATAAATTATAAAAGT
Found at i:513626 original size:14 final size:15
Alignment explanation
Indices: 513599--513627 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
513589 TAAAATTTTA
513599 TAAATTATAAAAGTT
1 TAAATTATAAAAGTT
513614 TAAATTA-AAAAGTT
1 TAAATTATAAAAGTT
513628 ATCATTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (15 bp):
TAAATTATAAAAGTT
Found at i:514911 original size:18 final size:17
Alignment explanation
Indices: 514883--514917 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
514873 TGCTCTTTTA
514883 TTTCTATTCAATTACTT
1 TTTCTATTCAATTACTT
514900 TTTCTGATTCAATTACTT
1 TTTCT-ATTCAATTACTT
514918 GGATTGACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.23, C:0.17, G:0.03, T:0.57
Consensus pattern (17 bp):
TTTCTATTCAATTACTT
Found at i:517601 original size:46 final size:46
Alignment explanation
Indices: 517531--517623 Score: 141
Period size: 46 Copynumber: 2.0 Consensus size: 46
517521 CTCCAGCAAG
* * *
517531 TAGAGTTTTAGTTTTATTTGTTTTCTTTATTATATCAAGTTTTTAT
1 TAGAGTTTTAGTTTTACTTATTTTCTCTATTATATCAAGTTTTTAT
* *
517577 TAGAGTTTTAGTTTTACTTATTTTCTCTATTATATTAGGTTTTTAT
1 TAGAGTTTTAGTTTTACTTATTTTCTCTATTATATCAAGTTTTTAT
517623 T
1 T
517624 TCCTTCCTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.22, C:0.05, G:0.11, T:0.62
Consensus pattern (46 bp):
TAGAGTTTTAGTTTTACTTATTTTCTCTATTATATCAAGTTTTTAT
Found at i:528741 original size:23 final size:23
Alignment explanation
Indices: 528713--528758 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
528703 TCAGGCAACT
528713 AAAATATATTAGATAATTATTTA
1 AAAATATATTAGATAATTATTTA
528736 AAAATATATTAGATAATTATTTA
1 AAAATATATTAGATAATTATTTA
528759 TATTTAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.43
Consensus pattern (23 bp):
AAAATATATTAGATAATTATTTA
Found at i:533454 original size:24 final size:25
Alignment explanation
Indices: 533404--533455 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
533394 TTCTACACAC
* *
533404 TTCTTTTTACATTTCTTCATTTTTT
1 TTCTTTTTACATTTCTTCATCTATT
533429 TTCTTTTT-C-TTTCTTCCATCTATT
1 TTCTTTTTACATTTCTT-CATCTATT
533453 TTC
1 TTC
533456 CTTAGCAAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.25
24 10 0.42
25 8 0.33
ACGTcount: A:0.10, C:0.21, G:0.00, T:0.69
Consensus pattern (25 bp):
TTCTTTTTACATTTCTTCATCTATT
Found at i:533454 original size:25 final size:25
Alignment explanation
Indices: 533404--533454 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 25
533394 TTCTACACAC
*
533404 TTCTTTTTACATTTCTTCATTTTTT
1 TTCTTTTTACATTTCTTCATTATTT
533429 TTCTTTTT-C-TTTCTTCCATCTATTT
1 TTCTTTTTACATTTCTT-CAT-TATTT
533454 T
1 T
533455 CCTTAGCAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 6 0.26
24 4 0.17
25 13 0.57
ACGTcount: A:0.10, C:0.20, G:0.00, T:0.71
Consensus pattern (25 bp):
TTCTTTTTACATTTCTTCATTATTT
Found at i:538694 original size:30 final size:30
Alignment explanation
Indices: 538670--538873 Score: 193
Period size: 30 Copynumber: 6.9 Consensus size: 30
538660 CCTTATTTTA
*
538670 TTCCAAAATTACATTTTGACCCTTAAACTT
1 TTCCAAAATCACATTTTGACCCTTAAACTT
* *
538700 TTCCAAAATCACATTTTAAACC-TAAAC-T
1 TTCCAAAATCACATTTTGACCCTTAAACTT
* * *
538728 TTCCTAAAATTACATTTTAACCGTTAAACTT
1 TTCC-AAAATCACATTTTGACCCTTAAACTT
* * * *
538759 TCCCAAAATTACATTTTAACCCCTAAAC-T
1 TTCCAAAATCACATTTTGACCCTTAAACTT
* * *
538788 ATCCTAAAATCACATTTTGACCCCTAAACCT
1 TTCC-AAAATCACATTTTGACCCTTAAACTT
* *
538819 TTCAAAAATCATATTTTGA-CCTTAAAC-T
1 TTCCAAAATCACATTTTGACCCTTAAACTT
* *
538847 TTCCTAAAATTACATTTTAACCCTTAA
1 TTCC-AAAATCACATTTTGACCCTTAA
538874 TTTTTACATT
Statistics
Matches: 146, Mismatches: 21, Indels: 14
0.81 0.12 0.08
Matches are distributed among these distances:
28 9 0.06
29 42 0.29
30 88 0.60
31 7 0.05
ACGTcount: A:0.37, C:0.25, G:0.02, T:0.36
Consensus pattern (30 bp):
TTCCAAAATCACATTTTGACCCTTAAACTT
Found at i:538766 original size:59 final size:58
Alignment explanation
Indices: 538670--538873 Score: 250
Period size: 59 Copynumber: 3.5 Consensus size: 58
538660 CCTTATTTTA
*
538670 TTCC-AAAATTACATTTTGACCCTTAAACTTTTCCAAAATCACATTTTAAACCTAAACT
1 TTCCTAAAATTACATTTTAACCCTTAAAC-TTTCCAAAATCACATTTTAAACCTAAACT
* * *
538728 TTCCTAAAATTACATTTTAACCGTTAAACTTTCCCAAAATTACATTTTAACCCCTAAACT
1 TTCCTAAAATTACATTTTAACCCTTAAACTTT-CCAAAATCACATTTTAA-ACCTAAACT
* * * * * * *
538788 ATCCTAAAATCACATTTTGACCCCTAAACCTTTCAAAAATCATATTTT-GACCTTAAACT
1 TTCCTAAAATTACATTTTAACCCTTAAA-CTTTCCAAAATCACATTTTAAACC-TAAACT
538847 TTCCTAAAATTACATTTTAACCCTTAA
1 TTCCTAAAATTACATTTTAACCCTTAA
538874 TTTTTACATT
Statistics
Matches: 123, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
58 9 0.07
59 67 0.54
60 43 0.35
61 4 0.03
ACGTcount: A:0.37, C:0.25, G:0.02, T:0.36
Consensus pattern (58 bp):
TTCCTAAAATTACATTTTAACCCTTAAACTTTCCAAAATCACATTTTAAACCTAAACT
Found at i:538799 original size:89 final size:89
Alignment explanation
Indices: 538672--538869 Score: 258
Period size: 89 Copynumber: 2.2 Consensus size: 89
538662 TTATTTTATT
* * * *
538672 CCAAAATTACATTTTGACCCTTAAACTTTTCCAAAATCACATTTT-AAACCTAAA-CTTTCCTAA
1 CCAAAATTACATTTTAACCCCTAAACTTATCCAAAATCACATTTTGAAACCTAAACCTTT-CAAA
*
538735 AATTACATTTTAACCGTTAAACTTTC
65 AATCACATTTTAACC-TTAAACTTTC
**
538761 CCAAAATTACATTTTAACCCCTAAAC-TATCCTAAAATCACATTTTGACCCCTAAACCTTTCAAA
1 CCAAAATTACATTTTAACCCCTAAACTTATCC-AAAATCACATTTTGAAACCTAAACCTTTCAAA
* *
538825 AATCATATTTTGACCTTAAACTTTC
65 AATCACATTTTAACCTTAAACTTTC
*
538850 CTAAAATTACATTTTAACCC
1 CCAAAATTACATTTTAACCC
538870 TTAATTTTTA
Statistics
Matches: 96, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
88 4 0.04
89 66 0.69
90 22 0.23
91 4 0.04
ACGTcount: A:0.37, C:0.25, G:0.02, T:0.35
Consensus pattern (89 bp):
CCAAAATTACATTTTAACCCCTAAACTTATCCAAAATCACATTTTGAAACCTAAACCTTTCAAAA
ATCACATTTTAACCTTAAACTTTC
Found at i:542757 original size:24 final size:23
Alignment explanation
Indices: 542730--542777 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 23
542720 AGAGATGCAA
542730 GAACAAATG-CAAGAATAGTTATAG
1 GAACAAATGACAAGAAT-G-TATAG
542754 GAACAAATGACAAGAATGTATAG
1 GAACAAATGACAAGAATGTATAG
542777 G
1 G
542778 GAGATGAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 6 0.26
24 10 0.43
25 7 0.30
ACGTcount: A:0.50, C:0.08, G:0.23, T:0.19
Consensus pattern (23 bp):
GAACAAATGACAAGAATGTATAG
Found at i:550893 original size:85 final size:85
Alignment explanation
Indices: 550791--550950 Score: 221
Period size: 85 Copynumber: 1.9 Consensus size: 85
550781 TATCTTATTG
* * *
550791 ATGAGATACAAAGAAATGGGTCAAAGAAATAAAGTGGTCATCTTCCTGATGAGATACAGAGAAGT
1 ATGAGATACAAAGAAATGGATCAAAGAAATAAAGCGATCATCTTCCTGATGAGATACAGAGAAGT
*
550856 GGACAAAATCTACCTTCCTA
66 AGACAAAATCTACCTTCCTA
* * ** * *
550876 ATGAGATACAGAGAAATGGATTAAATCAATGAAGCGATCATCTTCCTGATGAGATATAGAGAAGT
1 ATGAGATACAAAGAAATGGATCAAAGAAATAAAGCGATCATCTTCCTGATGAGATACAGAGAAGT
*
550941 AGACCAAATC
66 AGACAAAATC
550951 AATGAAGCAA
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
85 64 1.00
ACGTcount: A:0.42, C:0.14, G:0.21, T:0.23
Consensus pattern (85 bp):
ATGAGATACAAAGAAATGGATCAAAGAAATAAAGCGATCATCTTCCTGATGAGATACAGAGAAGT
AGACAAAATCTACCTTCCTA
Found at i:551369 original size:209 final size:210
Alignment explanation
Indices: 550767--552058 Score: 1569
Period size: 209 Copynumber: 6.2 Consensus size: 210
550757 AAAAGAGAGA
* * * * * *
550767 AAACTTTAAATCCCTATCTTATTGATGAGATACA-AAGAAATGGGTCAAAGAAATAAAGTGGTCA
1 AAACTTCAAACCCCTATCTTCTTGATGAGATACAGAAGAAGTGGGTCAAAGCAATAAAGCGGTCA
* *
550831 TCTTCCTGATGAGATACAGAGAAGTGGACAAAATCTACCTTCCTAATGAGATACAGAGAAA-TGG
66 TCTTCCTGATGAGATACAGAGAAGTGGACCAAATCTGCCTTCCTAATGAGATACAGA-AAAGTGG
*
550895 ATTAAATCAATGAAGCGATCATCTTCCTGATGAGATATAGAGAAGTAGACCAAATCAATGAAGCA
130 ATTAAATCAATGAAGCGATCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCA
550960 AAGCTCAATGTGAGTG
195 AAGCTCAATGTGAGTG
* * * **
550976 AAACTTCAAACCCCCATCTTCTTGATGAGATATAG-AGAAGTGGGTCAAAGCAAAAAAAATGGTC
1 AAACTTCAAACCCCTATCTTCTTGATGAGATACAGAAGAAGTGGGTCAAAGC-AATAAAGCGGTC
* * * *
551040 ATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCCGCCTTCTTAATGAGATACA-AAGAAGTA
65 ATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCTGCCTTCCTAATGAGATACAGAA-AAGTG
*
551104 GATTAAATCAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGC
129 GATTAAATCAATGAAGCGATCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGC
551169 AAAGCTCAATGTGAGTG
194 AAAGCTCAATGTGAGTG
* * * * * *
551186 AAACTTCAAACCCCTATCTTCTTGATGAGATATAGAAG-AGTGAGTTAAAACAATGAAGCGGTCT
1 AAACTTCAAACCCCTATCTTCTTGATGAGATACAGAAGAAGTGGGTCAAAGCAATAAAGCGGTCA
* * * * * *
551250 TCTTCCTGATGAGATAAAAAAAAGTGGAACAAATCTGCCTTTCTAATGAGATGCAGAAAAGTGGA
66 TCTTCCTGATGAGATACAGAGAAGTGGACCAAATCTGCCTTCCTAATGAGATACAGAAAAGTGGA
* * * *
551315 TTAAATTAATGAAGCGTTCATCTTCTTGATGAGATACAAAGAAGTAGACCAAATCAATGAAGCAA
131 TTAAATCAATGAAGCGATCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCAA
551380 AGCTCAATGTGAGTG
196 AGCTCAATGTGAGTG
* * *
551395 AAACTTCAAA-CCCTCATCTTCTTGATGAGATACATAA-ATGTGGGTCAAAGCAATAAAGCGATC
1 AAACTTCAAACCCCT-ATCTTCTTGATGAGATACAGAAGAAGTGGGTCAAAGCAATAAAGCGGTC
* * *
551458 ATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCGCCTTCCTAATTAGATACAGAGAAGTGG
65 ATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCTGCCTTCCTAATGAGATACAGAAAAGTGG
* * *
551523 ATTAAATCAATAAAACGATCATCTTCCTGACGAGATACAGAGAAGTAGACCAAATCAATGAAGCA
130 ATTAAATCAATGAAGCGATCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCA
*
551588 AAGCTCAATGTGAGGG
195 AAGCTCAATGTGAGTG
* * * * *
551604 AAACTTCAAACCCCCATCCTCTTTATGAGATACAG-AGGAGTGGGTCAAAGCAATAAAGTGGTCA
1 AAACTTCAAACCCCTATCTTCTTGATGAGATACAGAAGAAGTGGGTCAAAGCAATAAAGCGGTCA
* * *** * * * *
551668 TCTTCTTGATGAGATACAGAGAAGTGGATCAAATCCATCTTCTTGATGAGATATAGAGAAGTGGA
66 TCTTCCTGATGAGATACAGAGAAGTGGACCAAATCTGCCTTCCTAATGAGATACAGAAAAGTGGA
* * * * * * * * *
551733 TCAAAACAATGAAGTGGTCATCTTCTTGATGAGATACAGAGAAGCAGACTAAGTCAATGAAGCGA
131 TTAAATCAATGAAGCGATCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCAA
551798 AGCTCAATGTGAGTG
196 AGCTCAATGTGAGTG
* ** * * *
551813 AAACTTTAAA-TTCTCATCTTCTTAATGGGATACA-AAGAAGTGGGTCAAAGTAATAAAGCGGTC
1 AAACTTCAAACCCCT-ATCTTCTTGATGAGATACAGAAGAAGTGGGTCAAAGCAATAAAGCGGTC
* * * * * *
551876 ATCTTCTTGATGAGATACAAAGAAGTGGACCAAAT-TCGTCTTCCTGATGAGATATAGAGAAGTG
65 ATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCT-GCCTTCCTAATGAGATACAGAAAAGTG
* * * * * *
551940 GATTAAATCAATGAAG-TAGTCGTCTTCTTAATGAGATACAGAAAAGTAGA-C---T-AATAAAG
129 GATTAAATCAATGAAGCGA-TCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAG
*
551999 CATAGCTCAATGTGAGTG
193 CAAAGCTCAATGTGAGTG
* * * *
552017 AAACTTTAAACCTC-ATCTTCCTGATGAGATACA-AAAAAGTGG
1 AAACTTCAAACCCCTATCTTCTTGATGAGATACAGAAGAAGTGG
552059 AGAAGAAGAT
Statistics
Matches: 941, Mismatches: 127, Indels: 36
0.85 0.12 0.03
Matches are distributed among these distances:
203 24 0.03
204 32 0.03
205 3 0.00
208 7 0.01
209 682 0.72
210 191 0.20
211 2 0.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.25
Consensus pattern (210 bp):
AAACTTCAAACCCCTATCTTCTTGATGAGATACAGAAGAAGTGGGTCAAAGCAATAAAGCGGTCA
TCTTCCTGATGAGATACAGAGAAGTGGACCAAATCTGCCTTCCTAATGAGATACAGAAAAGTGGA
TTAAATCAATGAAGCGATCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCAA
AGCTCAATGTGAGTG
Found at i:551700 original size:48 final size:47
Alignment explanation
Indices: 551618--551776 Score: 167
Period size: 48 Copynumber: 3.6 Consensus size: 47
551608 TTCAAACCCC
* * * *
551618 CATCCTCTTTATGAGATACAGAGGAGTGGGTCAAAGCAATAAAGTGGT
1 CATCTTCTTGATGAGATACAGAGAAGTGGATCAAA-CAATAAAGTGGT
*
551666 CATCTTCTTGATGAGATACAGAGAAGTGGAT----C---AAA-T--C
1 CATCTTCTTGATGAGATACAGAGAAGTGGATCAAACAATAAAGTGGT
* *
551703 CATCTTCTTGATGAGATATAGAGAAGTGGATCAAAACAATGAAGTGGT
1 CATCTTCTTGATGAGATACAGAGAAGTGGATC-AAACAATAAAGTGGT
551751 CATCTTCTTGATGAGATACAGAGAAG
1 CATCTTCTTGATGAGATACAGAGAAG
551777 CAGACTAAGT
Statistics
Matches: 91, Mismatches: 9, Indels: 22
0.75 0.07 0.18
Matches are distributed among these distances:
37 30 0.33
39 1 0.01
40 3 0.03
42 1 0.01
43 1 0.01
45 2 0.02
46 1 0.01
48 52 0.57
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (47 bp):
CATCTTCTTGATGAGATACAGAGAAGTGGATCAAACAATAAAGTGGT
Found at i:551716 original size:37 final size:37
Alignment explanation
Indices: 551666--551737 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
551656 ATAAAGTGGT
551666 CATCTTCTTGATGAGATACAGAGAAGTGGATCAAATC
1 CATCTTCTTGATGAGATACAGAGAAGTGGATCAAATC
*
551703 CATCTTCTTGATGAGATATAGAGAAGTGGATCAAA
1 CATCTTCTTGATGAGATACAGAGAAGTGGATCAAA
551738 ACAATGAAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (37 bp):
CATCTTCTTGATGAGATACAGAGAAGTGGATCAAATC
Found at i:551760 original size:85 final size:85
Alignment explanation
Indices: 551617--551776 Score: 257
Period size: 85 Copynumber: 1.9 Consensus size: 85
551607 CTTCAAACCC
* * * *
551617 CCATCCTCTTTATGAGATACAGAGGAGTGGGTCAAAGCAATAAAGTGGTCATCTTCTTGATGAGA
1 CCATCCTCTTGATGAGATACAGAGAAGTGGATCAAAACAATAAAGTGGTCATCTTCTTGATGAGA
551682 TACAGAGAAGTGGATCAAAT
66 TACAGAGAAGTGGATCAAAT
* * *
551702 CCATCTTCTTGATGAGATATAGAGAAGTGGATCAAAACAATGAAGTGGTCATCTTCTTGATGAGA
1 CCATCCTCTTGATGAGATACAGAGAAGTGGATCAAAACAATAAAGTGGTCATCTTCTTGATGAGA
551767 TACAGAGAAG
66 TACAGAGAAG
551777 CAGACTAAGT
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
85 68 1.00
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.26
Consensus pattern (85 bp):
CCATCCTCTTGATGAGATACAGAGAAGTGGATCAAAACAATAAAGTGGTCATCTTCTTGATGAGA
TACAGAGAAGTGGATCAAAT
Found at i:552641 original size:20 final size:17
Alignment explanation
Indices: 552617--552667 Score: 50
Period size: 20 Copynumber: 2.8 Consensus size: 17
552607 TAAGTTATTA
552617 TTAATTAATATTATAAT
1 TTAATTAATATTATAAT
*
552634 ATAATAATATAA-ATTATCAT
1 -T--TAAT-TAATATTATAAT
552654 TTAATTAATATTAT
1 TTAATTAATATTAT
552668 CTTATTATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 9
0.74 0.03 0.24
Matches are distributed among these distances:
16 3 0.11
17 9 0.32
18 1 0.04
19 1 0.04
20 11 0.39
21 3 0.11
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (17 bp):
TTAATTAATATTATAAT
Found at i:552666 original size:17 final size:18
Alignment explanation
Indices: 552615--552681 Score: 66
Period size: 17 Copynumber: 3.6 Consensus size: 18
552605 TTTAAGTTAT
*
552615 TATTAATTAATATTATAA
1 TATTAATTAATATTATCA
552633 TATAATAATATAA-ATTATCA
1 TAT--TAAT-TAATATTATCA
*
552653 T-TTAATTAATATTATCT
1 TATTAATTAATATTATCA
552670 TATTATATTAAT
1 TATTA-ATTAAT
552682 GAAATATATA
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
16 3 0.07
17 11 0.27
18 6 0.15
19 7 0.17
20 11 0.27
21 3 0.07
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (18 bp):
TATTAATTAATATTATCA
Done.