Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007957.1 Hibiscus syriacus cultivar Beakdansim tig00110384_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: 8646418
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 43
Found at i:454956 original size:4 final size:4
Alignment explanation
Indices: 454947--455077 Score: 111
Period size: 4 Copynumber: 30.8 Consensus size: 4
454937 ATATCCCTTC
* * *
454947 AAAT AAAT AAAT AAAT AAAT AAAT AATTT GAACT AAAT AAAT AAAT CAA-
1 AAAT AAAT AAAT AAAT AAAT AAAT AA-AT -AAAT AAAT AAAT AAAT AAAT
* *
454996 AAAT AAAT AAAT GAAT AAATTT GAAAT AAAT GAAT AAAT AAATTT GAAAT
1 AAAT AAAT AAAT AAAT AAA--T -AAAT AAAT AAAT AAAT AAA--T -AAAT
* *
455046 AAAT AAAT CAAAA AAAT AAAG AAAT AAAT AAA
1 AAAT AAAT -AAAT AAAT AAAT AAAT AAAT AAA
455078 GTATTCAAAA
Statistics
Matches: 104, Mismatches: 13, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
3 2 0.02
4 85 0.82
5 7 0.07
6 4 0.04
7 6 0.06
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:455012 original size:23 final size:23
Alignment explanation
Indices: 454955--455077 Score: 130
Period size: 23 Copynumber: 5.5 Consensus size: 23
454945 TCAAATAAAT
454955 AAATAAATAAATAAAT-AATTTG
1 AAATAAATAAATAAATAAATTTG
* *
454977 AACTAAATAAATAAATCAA----
1 AAATAAATAAATAAATAAATTTG
*
454996 AAATAAATAAATGAATAAATTTG
1 AAATAAATAAATAAATAAATTTG
*
455019 AAATAAATGAATAAATAAATTTG
1 AAATAAATAAATAAATAAATTTG
* **
455042 AAATAAATAAATCAAAAAAATAAAG
1 AAATAAATAAAT-AAATAAAT-TTG
455067 AAATAAATAAA
1 AAATAAATAAA
455078 GTATTCAAAA
Statistics
Matches: 84, Mismatches: 10, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
19 16 0.19
22 15 0.18
23 34 0.40
24 7 0.08
25 12 0.14
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.25
Consensus pattern (23 bp):
AAATAAATAAATAAATAAATTTG
Found at i:467089 original size:29 final size:29
Alignment explanation
Indices: 467056--467119 Score: 110
Period size: 29 Copynumber: 2.2 Consensus size: 29
467046 AACAAACACG
467056 TTGAATGTTGAACAGCTCAACATTCAGCA
1 TTGAATGTTGAACAGCTCAACATTCAGCA
* *
467085 TTGAATGTTGAACGGTTCAACATTCAGCA
1 TTGAATGTTGAACAGCTCAACATTCAGCA
467114 TTGAAT
1 TTGAAT
467120 AGTTCCATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (29 bp):
TTGAATGTTGAACAGCTCAACATTCAGCA
Found at i:467579 original size:23 final size:23
Alignment explanation
Indices: 467535--467580 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
467525 TTAAAAATTT
* *
467535 ATTACAAATAATATTAATTATTA
1 ATTACAAATAAAAATAATTATTA
467558 ATTA-AAATAAAAATAATATATTA
1 ATTACAAATAAAAATAAT-TATTA
467581 TCAATTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (23 bp):
ATTACAAATAAAAATAATTATTA
Found at i:468672 original size:32 final size:31
Alignment explanation
Indices: 468601--468677 Score: 93
Period size: 32 Copynumber: 2.5 Consensus size: 31
468591 ATATTCTACT
* *
468601 AATATAATTGAATATTATTATAATATTAAGA
1 AATATAATTTAATATTATTATAATATCAAGA
* *
468632 AATATAATTTTATATTATTA-AATTTATCAATA
1 AATATAATTTAATATTATTATAA--TATCAAGA
468664 AATATAATTTAATA
1 AATATAATTTAATA
468678 ATAATATGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
30 2 0.05
31 18 0.46
32 19 0.49
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (31 bp):
AATATAATTTAATATTATTATAATATCAAGA
Found at i:470498 original size:19 final size:19
Alignment explanation
Indices: 470472--470513 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
470462 TTAAAAAATG
470472 TATTATTAATTATTTTTATTTT
1 TATTATTAATTA---TTATTTT
470494 TATTATTAATTATTATTTT
1 TATTATTAATTATTATTTT
470513 T
1 T
470514 TACATATGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 8 0.40
22 12 0.60
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (19 bp):
TATTATTAATTATTATTTT
Found at i:474474 original size:12 final size:13
Alignment explanation
Indices: 474446--474474 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
474436 ATTTTCTTTA
474446 TTTTTTTAGTTTT
1 TTTTTTTAGTTTT
474459 TTTTTTTA-TTTT
1 TTTTTTTAGTTTT
474471 TTTT
1 TTTT
474475 ATGATTATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.07, C:0.00, G:0.03, T:0.90
Consensus pattern (13 bp):
TTTTTTTAGTTTT
Found at i:480267 original size:134 final size:133
Alignment explanation
Indices: 480086--480550 Score: 581
Period size: 134 Copynumber: 3.5 Consensus size: 133
480076 CCTTAAAGTG
* * * * *
480086 AGTGAAATGAATCAACGTTCCCAGATCTGATTTTCCCTAAAGGAGAAGCGGAACATATCTCTATC
1 AGTGGAATGAATCAACG-TCCCAGATCTGATTTTCCCTCAAGAAGAAGCGGAACATATCCCTCTC
* * *
480151 TTCCAAGATTTGATATTCCCTAAGTAATAGTGGAACAAGTTTGCCTCGATTCAATCTTCCCTGAG
65 TTCCAAGATTTGATATTCCCTAAGTAACAGTGGAACAAGTCTGCCTCGATTAAATCTTCCCTGAG
480216 TGAC
130 TGAC
* * * * *
480220 ACTGGAATGAATCAACGTCATCAGATCTGATTTTCCCTCAACAAGAAGCGAAACAGATCCCTCTC
1 AGTGGAATGAATCAACGTC-CCAGATCTGATTTTCCCTCAAGAAGAAGCGGAACATATCCCTCTC
* * * * * *
480285 TTCTAGGATTTGATATTTCCTAAGTAAGAGTGGAACAAGTCTGCTTCGATTAAATCTTCTCTGAG
65 TTCCAAGATTTGATATTCCCTAAGTAACAGTGGAACAAGTCTGCCTCGATTAAATCTTCCCTGAG
*
480350 TGAA
130 TGAC
* *
480354 AGTGGAATGAATCAACGTCCCCAGATCTCATTTTCCCTCAAGAAGAAGTGGAACATATCCCTCTC
1 AGTGGAATGAATCAACGT-CCCAGATCTGATTTTCCCTCAAGAAGAAGCGGAACATATCCCTCTC
* * *
480419 TTCCAAGATTTGATA-TCCCCAGAGTAACAGTGGAACAAGTCTGCCTCTATTTAATCTTCCCTGA
65 TTCCAAGATTTGATATTCCCTA-AGTAACAGTGGAACAAGTCTGCCTCGATTAAATCTTCCCTGA
480483 GTGAC
129 GTGAC
* * * * * * * *
480488 AGTGGAATGAATCAACATCCCAAGATATGATTTTCGCTAAAAAAAAAGCGAAACAGATCCCTC
1 AGTGGAATGAATCAACGTCCC-AGATCTGATTTTCCCTCAAGAAGAAGCGGAACATATCCCTC
480551 ATCCTATTTT
Statistics
Matches: 281, Mismatches: 46, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
133 9 0.03
134 271 0.96
135 1 0.00
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (133 bp):
AGTGGAATGAATCAACGTCCCAGATCTGATTTTCCCTCAAGAAGAAGCGGAACATATCCCTCTCT
TCCAAGATTTGATATTCCCTAAGTAACAGTGGAACAAGTCTGCCTCGATTAAATCTTCCCTGAGT
GAC
Found at i:480686 original size:3 final size:3
Alignment explanation
Indices: 480680--480754 Score: 66
Period size: 3 Copynumber: 25.7 Consensus size: 3
480670 CGTTAAATAA
*
480680 TAT TAT TA- TAT TAT TAT TA- TGT TAT TAAT T-T TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT
* * * * *
480723 TAT TAA TAT CAT CAT TTT TAT TAG TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
480755 CATTTTTAAT
Statistics
Matches: 58, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
2 5 0.09
3 50 0.86
4 3 0.05
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:483499 original size:23 final size:22
Alignment explanation
Indices: 483451--483518 Score: 64
Period size: 23 Copynumber: 2.9 Consensus size: 22
483441 TATATTTTTA
*
483451 ATTATATTTTTTATTTATTTACTAT
1 ATTAT-TTTTTTATTTA--TATTAT
*
483476 ATTCCTTTTTTTATTTATATTAT
1 ATT-ATTTTTTTATTTATATTAT
*
483499 ATTATTTTTATTATATATAT
1 ATTATTTTT-TTATTTATAT
483519 ATCTTATATC
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
22 5 0.14
23 17 0.46
25 14 0.38
26 1 0.03
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (22 bp):
ATTATTTTTTTATTTATATTAT
Found at i:483508 original size:20 final size:20
Alignment explanation
Indices: 483483--483520 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
483473 TATATTCCTT
483483 TTTTTATT-TATATTATATTA
1 TTTTTATTATATA-TATATTA
483503 TTTTTATTATATATATAT
1 TTTTTATTATATATATAT
483521 CTTATATCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTTATTATATATATATTA
Found at i:483517 original size:2 final size:2
Alignment explanation
Indices: 483510--483550 Score: 50
Period size: 2 Copynumber: 21.0 Consensus size: 2
483500 TTATTTTTAT
*
483510 TA TA TA TA TA TC T- TA TA TCA T- TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA
483551 GATGTATTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
1 2 0.06
2 31 0.89
3 2 0.06
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:483700 original size:18 final size:18
Alignment explanation
Indices: 483655--483711 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
483645 CTATTTTTGT
* *
483655 TTTTATTTATTTA-TATA
1 TTTTATTTTTTTACTTTA
* *
483672 TATTATATTTTTACTTTA
1 TTTTATTTTTTTACTTTA
483690 TTTTATTTTTTT-CTATTA
1 TTTTATTTTTTTACT-TTA
483708 TTTT
1 TTTT
483712 TTTCTTAATA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
17 12 0.38
18 20 0.62
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTATTTTTTTACTTTA
Found at i:483708 original size:13 final size:13
Alignment explanation
Indices: 483692--483716 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
483682 TTACTTTATT
483692 TTATTTTTTTCTA
1 TTATTTTTTTCTA
483705 TTATTTTTTTCT
1 TTATTTTTTTCT
483717 TAATATCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.08, G:0.00, T:0.80
Consensus pattern (13 bp):
TTATTTTTTTCTA
Found at i:483937 original size:10 final size:10
Alignment explanation
Indices: 483924--483949 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
483914 ATTTTGTTTA
483924 TTTTTATTAT
1 TTTTTATTAT
483934 TTTTTATTAT
1 TTTTTATTAT
483944 TTTTTA
1 TTTTTA
483950 CGTGTTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTATTAT
Found at i:485582 original size:3 final size:3
Alignment explanation
Indices: 485574--485648 Score: 129
Period size: 3 Copynumber: 26.0 Consensus size: 3
485564 AAATTTGAAT
485574 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
485622 TAA T-A TAA T-A TAA TAA TAA T-A TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
485649 GAAAAAAGGG
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
2 6 0.09
3 63 0.91
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:485993 original size:55 final size:55
Alignment explanation
Indices: 485909--486035 Score: 182
Period size: 55 Copynumber: 2.3 Consensus size: 55
485899 ACGAATCTGT
* * **
485909 TCCACTCTTCTTTCAGGGAGATAAGACTCGAGAGATCTTTGGAAAATGGATTTGC
1 TCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTAGAAAATGGAACTGC
* *
485964 TCCACTCTTCTTTCAGGGAGATAAGACTCGATAAATCTTTATAAAATGGAACTGC
1 TCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTAGAAAATGGAACTGC
* *
486019 TCCATTCTTATTTCAGG
1 TCCACTCTTCTTTCAGG
486036 AAATAGAATC
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 64 1.00
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (55 bp):
TCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTAGAAAATGGAACTGC
Found at i:486218 original size:36 final size:35
Alignment explanation
Indices: 486171--486541 Score: 325
Period size: 36 Copynumber: 10.2 Consensus size: 35
486161 ATGGATCTTA
* *
486171 AGATTTATTTGCTTCACTACACTTTCGTGAAGGCTT
1 AGATTGATTTGCTTCACTAC-CGTTCGTGAAGGCTT
*
486207 AGATTGATTTGCTTCACTACTCG-TCTGTAAAGGCTT
1 AGATTGATTTGCTTCACTAC-CGTTC-GTGAAGGCTT
* * * *
486243 AAAATTGATTTGCTTCACTACTTGTCCGAGAAGGCTT
1 -AGATTGATTTGCTTCACTAC-CGTTCGTGAAGGCTT
* * ** *
486280 AGATT-ACTTTGCTTCAATTCCAGACCATGAAGGCTT
1 AGATTGA-TTTGCTTCACTACC-GTTCGTGAAGGCTT
* * * * *
486316 AGATTGCTTTGCTTCGCTACCCGTCCTTGCAGGCTT
1 AGATTGATTTGCTTCACTA-CCGTTCGTGAAGGCTT
* *
486352 AGATTGATTTGCTTCACTACCCGTTCATGAAGGATT
1 AGATTGATTTGCTTCACTA-CCGTTCGTGAAGGCTT
*
486388 AGATTGATTTGCTTCACTACCAGTTCGTGAAGGATT
1 AGATTGATTTGCTTCACTACC-GTTCGTGAAGGCTT
* *
486424 AATATTGATTTGCTTCACTACCAGTCCGTGAAGGCTT
1 -AGATTGATTTGCTTCACTACC-GTTCGTGAAGGCTT
*
486461 AAGATTAATTTGCTTCACTACCCG-TCTGTGAAGGCTT
1 -AGATTGATTTGCTTCACTA-CCGTTC-GTGAAGGCTT
* * * *
486498 AAATTGATTTGCTTCACTACCCATCCGTGAATGCTT
1 AGATTGATTTGCTTCACTA-CCGTTCGTGAAGGCTT
486534 AAGATTGA
1 -AGATTGA
486542 AGTTGATTTA
Statistics
Matches: 280, Mismatches: 42, Indels: 25
0.81 0.12 0.07
Matches are distributed among these distances:
35 5 0.02
36 172 0.61
37 100 0.36
38 3 0.01
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (35 bp):
AGATTGATTTGCTTCACTACCGTTCGTGAAGGCTT
Found at i:486291 original size:73 final size:73
Alignment explanation
Indices: 486167--486541 Score: 409
Period size: 73 Copynumber: 5.2 Consensus size: 73
486157 TTCAATGGAT
* * * *
486167 CTTAAGATTTATTTGCTTCACTACACTTTCGTGAAGGCTTAGATTGATTTGCTTCACTACTC-GT
1 CTTAAGATTGATTTGCTTCACTACCCGTCCGTGAAGGCTTAGATTGATTTGCTTCACTAC-CAGT
* *
486231 CTGTAAAGG
65 CCGTGAAGG
* ** * * * *
486240 CTTAAAATTGATTTGCTTCACTACTTGTCCGAGAAGGCTTAGATT-ACTTTGCTTCAATTCCAGA
1 CTTAAGATTGATTTGCTTCACTACCCGTCCGTGAAGGCTTAGATTGA-TTTGCTTCACTACCAGT
*
486304 CCATGAAGG
65 CCGTGAAGG
* * * * * *
486313 CTT-AGATTGCTTTGCTTCGCTACCCGTCCTTGCAGGCTTAGATTGATTTGCTTCACTACCCGTT
1 CTTAAGATTGATTTGCTTCACTACCCGTCCGTGAAGGCTTAGATTGATTTGCTTCACTACCAGTC
*
486377 CATGAAGG
66 CGTGAAGG
* * * * *
486385 ATT-AGATTGATTTGCTTCACTACCAGTTCGTGAAGGATTAATATTGATTTGCTTCACTACCAGT
1 CTTAAGATTGATTTGCTTCACTACCCGTCCGTGAAGGCTT-AGATTGATTTGCTTCACTACCAGT
486449 CCGTGAAGG
65 CCGTGAAGG
* * *
486458 CTTAAGATTAATTTGCTTCACTACCCGTCTGTGAAGGCTTAAATTGATTTGCTTCACTACCCA-T
1 CTTAAGATTGATTTGCTTCACTACCCGTCCGTGAAGGCTTAGATTGATTTGCTTCACTA-CCAGT
*
486522 CCGTGAATG
65 CCGTGAAGG
486531 CTTAAGATTGA
1 CTTAAGATTGA
486542 AGTTGATTTA
Statistics
Matches: 249, Mismatches: 47, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
72 87 0.35
73 128 0.51
74 34 0.14
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (73 bp):
CTTAAGATTGATTTGCTTCACTACCCGTCCGTGAAGGCTTAGATTGATTTGCTTCACTACCAGTC
CGTGAAGG
Found at i:486966 original size:38 final size:38
Alignment explanation
Indices: 486859--487014 Score: 168
Period size: 39 Copynumber: 4.1 Consensus size: 38
486849 GGAGTCAGAA
* *
486859 ATAACAAAGGTTGACTTCTCTTGACGAGGAAGTCAAGT
1 ATAACAAAGGTTGACTTCTCTTTACGAGGAAGTCAAGG
* * *
486897 ATTGACAAACGTTGACTTCTTTTTACGAGGAAGTCAAGG
1 A-TAACAAAGGTTGACTTCTCTTTACGAGGAAGTCAAGG
**
486936 ATAACAAAGGTTGACTTCTCTTTATTAGGAAGTCAAGG
1 ATAACAAAGGTTGACTTCTCTTTACGAGGAAGTCAAGG
* ** * * * *
486974 ATAAAAAAACATTAATTTCTCTTTACAAGGAAGTAAAGG
1 AT-AACAAAGGTTGACTTCTCTTTACGAGGAAGTCAAGG
487013 AT
1 AT
487015 TGAATCTAAG
Statistics
Matches: 98, Mismatches: 18, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
38 35 0.36
39 63 0.64
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.29
Consensus pattern (38 bp):
ATAACAAAGGTTGACTTCTCTTTACGAGGAAGTCAAGG
Found at i:486999 original size:77 final size:77
Alignment explanation
Indices: 486859--487014 Score: 195
Period size: 77 Copynumber: 2.0 Consensus size: 77
486849 GGAGTCAGAA
* ** * * * * *
486859 ATAACAAAGGTTGACTTCTCTTGACGAGGAAGTCAAGTATTGACAAACGTTGACTTCTTTTTACG
1 ATAACAAAGGTTGACTTCTCTTGACGAGGAAGTCAAGGATAAAAAAACATTAACTTCTCTTTACA
*
486924 AGGAAGTCAAGG
66 AGGAAGTAAAGG
* ** *
486936 ATAACAAAGGTTGACTTCTCTTTATTAGGAAGTCAAGGATAAAAAAACATTAATTTCTCTTTACA
1 ATAACAAAGGTTGACTTCTCTTGACGAGGAAGTCAAGGATAAAAAAACATTAACTTCTCTTTACA
487001 AGGAAGTAAAGG
66 AGGAAGTAAAGG
487013 AT
1 AT
487015 TGAATCTAAG
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
77 66 1.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.29
Consensus pattern (77 bp):
ATAACAAAGGTTGACTTCTCTTGACGAGGAAGTCAAGGATAAAAAAACATTAACTTCTCTTTACA
AGGAAGTAAAGG
Found at i:487384 original size:16 final size:16
Alignment explanation
Indices: 487359--487390 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
487349 TAAATAAACC
*
487359 ATTAATAATATTAAAA
1 ATTAAAAATATTAAAA
487375 ATTAAAAATATTAAAA
1 ATTAAAAATATTAAAA
487391 TTCAAGGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
ATTAAAAATATTAAAA
Found at i:488076 original size:22 final size:22
Alignment explanation
Indices: 488035--488076 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
488025 TCTGGTTCGA
*
488035 ATTGTTGTCGTCCTTTTTTTCT
1 ATTGTTGTCGTCCTTCTTTTCT
488057 ATTGTTGTC-TCTCTTCTTTT
1 ATTGTTGTCGTC-CTTCTTTT
488077 TACATGTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.05, C:0.19, G:0.12, T:0.64
Consensus pattern (22 bp):
ATTGTTGTCGTCCTTCTTTTCT
Found at i:488472 original size:3 final size:3
Alignment explanation
Indices: 488464--488533 Score: 117
Period size: 3 Copynumber: 24.0 Consensus size: 3
488454 AAATTTGAAT
488464 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
488512 TAA T-A TAA T-A TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
488534 GAAAAAAGGG
Statistics
Matches: 63, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
2 4 0.06
3 59 0.94
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:488878 original size:55 final size:55
Alignment explanation
Indices: 488788--488926 Score: 206
Period size: 55 Copynumber: 2.5 Consensus size: 55
488778 GGGAAGACGA
* * *
488788 ATCTGTTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAGATCTTTGGAAAATGG
1 ATCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTAGAAAATGG
* * *
488843 ATTTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGATAAATCTTTATAAAATGG
1 ATCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTAGAAAATGG
* *
488898 ATCTGCTCCATTCTTATTTCAGGGAGATA
1 ATCTGCTCCACTCTTCTTTCAGGGAGATA
488927 GAATCCAAGG
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 75 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (55 bp):
ATCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTAGAAAATGG
Found at i:489105 original size:36 final size:35
Alignment explanation
Indices: 489058--489428 Score: 327
Period size: 36 Copynumber: 10.2 Consensus size: 35
489048 ATGGATCTTA
*
489058 AGATTGATTTGCTTCACTACACTTTCGTGAAGGCTT
1 AGATTGATTTGCTTCACTAC-CGTTCGTGAAGGCTT
*
489094 AGATTGATTTGCTTCACTACTCG-TCTGTAAAGGCTT
1 AGATTGATTTGCTTCACTAC-CGTTC-GTGAAGGCTT
* * * *
489130 AAAATTGATTTGCTTCACTACTTGTCCGAGAAGGCTT
1 -AGATTGATTTGCTTCACTAC-CGTTCGTGAAGGCTT
* ** *
489167 AGATT-ACTTTGCTTCAATACCAGACCATGAAGGCTT
1 AGATTGA-TTTGCTTCACTACC-GTTCGTGAAGGCTT
* * * * *
489203 AGATT-ACTTTTCTTCGCTACCCGTCCTTGCAGGCTT
1 AGATTGA-TTTGCTTCACTA-CCGTTCGTGAAGGCTT
* *
489239 AGATTGATTTGCTTCACTACCCATTCGTGAAGGATT
1 AGATTGATTTGCTTCACTA-CCGTTCGTGAAGGCTT
*
489275 AGATTGATTTGCTTCACTACCAGTTCGTGAAGGATT
1 AGATTGATTTGCTTCACTACC-GTTCGTGAAGGCTT
* *
489311 AATATTGATTTGCTTCACTACCAGTCCGTGAAGGCTT
1 -AGATTGATTTGCTTCACTACC-GTTCGTGAAGGCTT
*
489348 AAGATTAATTTGCTTCACTACCCG-TCTGTGAAGGCTT
1 -AGATTGATTTGCTTCACTA-CCGTTC-GTGAAGGCTT
* * * *
489385 AAATTGATTTGCTTCACTACCCATCCGTGAATGCTT
1 AGATTGATTTGCTTCACTA-CCGTTCGTGAAGGCTT
489421 AAGATTGA
1 -AGATTGA
489429 AGTTGATTTA
Statistics
Matches: 282, Mismatches: 40, Indels: 25
0.81 0.12 0.07
Matches are distributed among these distances:
35 5 0.02
36 173 0.61
37 101 0.36
38 3 0.01
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.36
Consensus pattern (35 bp):
AGATTGATTTGCTTCACTACCGTTCGTGAAGGCTT
Found at i:489178 original size:73 final size:73
Alignment explanation
Indices: 489054--489428 Score: 413
Period size: 73 Copynumber: 5.2 Consensus size: 73
489044 TTCAATGGAT
* * *
489054 CTTAAGATTGATTTGCTTCACTACACTTTCGTGAAGGCTTAGATTGATTTGCTTCACTACTC-GT
1 CTTAAGATTGATTTGCTTCACTACCCGTCCGTGAAGGCTTAGATTGATTTGCTTCACTAC-CAGT
* *
489118 CTGTAAAGG
65 CCGTGAAGG
* ** * * *
489127 CTTAAAATTGATTTGCTTCACTACTTGTCCGAGAAGGCTTAGATT-ACTTTGCTTCAATACCAGA
1 CTTAAGATTGATTTGCTTCACTACCCGTCCGTGAAGGCTTAGATTGA-TTTGCTTCACTACCAGT
*
489191 CCATGAAGG
65 CCGTGAAGG
* * * *
489200 CTT-AGATT-ACTTTTCTTCGCTACCCGTCCTTGCAGGCTTAGATTGATTTGCTTCACTACCCA-
1 CTTAAGATTGA-TTTGCTTCACTACCCGTCCGTGAAGGCTTAGATTGATTTGCTTCACTA-CCAG
*
489262 TTCGTGAAGG
64 TCCGTGAAGG
* * * * *
489272 ATT-AGATTGATTTGCTTCACTACCAGTTCGTGAAGGATTAATATTGATTTGCTTCACTACCAGT
1 CTTAAGATTGATTTGCTTCACTACCCGTCCGTGAAGGCTT-AGATTGATTTGCTTCACTACCAGT
489336 CCGTGAAGG
65 CCGTGAAGG
* * *
489345 CTTAAGATTAATTTGCTTCACTACCCGTCTGTGAAGGCTTAAATTGATTTGCTTCACTACCCA-T
1 CTTAAGATTGATTTGCTTCACTACCCGTCCGTGAAGGCTTAGATTGATTTGCTTCACTA-CCAGT
*
489409 CCGTGAATG
65 CCGTGAAGG
489418 CTTAAGATTGA
1 CTTAAGATTGA
489429 AGTTGATTTA
Statistics
Matches: 250, Mismatches: 42, Indels: 20
0.80 0.13 0.06
Matches are distributed among these distances:
71 1 0.00
72 83 0.33
73 132 0.53
74 34 0.14
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (73 bp):
CTTAAGATTGATTTGCTTCACTACCCGTCCGTGAAGGCTTAGATTGATTTGCTTCACTACCAGTC
CGTGAAGG
Found at i:489852 original size:77 final size:76
Alignment explanation
Indices: 489709--489900 Score: 226
Period size: 77 Copynumber: 2.5 Consensus size: 76
489699 TATGAGGAAG
* * *
489709 TAAAAAAAATTGACTCCTCTTTACGATGG-AGTC-AGAAATAACAAAGGTTGACTTCTCTTGACG
1 TAAAAAACATTGACTTCTCTTTACGA-GGAAGTCAAG-GATAACAAAGGTTGACTTCTCTTGACG
*
489772 AGGAAGTCAAGTA
64 AGGAAGTCAAGGA
* * * * *
489785 TTGACAAACGTTGACTTCTCTTTACGAGGAAGTCAAGGATAACAAAGGTTGACTTCTCTTTATGA
1 -TAAAAAACATTGACTTCTCTTTACGAGGAAGTCAAGGATAACAAAGGTTGACTTCTCTTGACGA
*
489850 GGAAGTCTAGGA
65 GGAAGTCAAGGA
* * *
489862 TAAAAAACATTAATTTCTCTTTACAAGGAAGTCAAGGAT
1 TAAAAAACATTGACTTCTCTTTACGAGGAAGTCAAGGAT
489901 TGAATCTAGG
Statistics
Matches: 97, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
76 35 0.36
77 60 0.62
78 2 0.02
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (76 bp):
TAAAAAACATTGACTTCTCTTTACGAGGAAGTCAAGGATAACAAAGGTTGACTTCTCTTGACGAG
GAAGTCAAGGA
Found at i:489862 original size:38 final size:38
Alignment explanation
Indices: 489718--489900 Score: 199
Period size: 38 Copynumber: 4.8 Consensus size: 38
489708 GTAAAAAAAA
* * *
489718 TTGACTCCTCTTTACGATGG-AGTC-AGAAATAACAAAGG
1 TTGACTTCTCTTTACGA-GGAAGTCAAG-GATAACAAACG
* * *
489756 TTGACTTCTCTTGACGAGGAAGTCAAGTATTGACAAACG
1 TTGACTTCTCTTTACGAGGAAGTCAAGGA-TAACAAACG
*
489795 TTGACTTCTCTTTACGAGGAAGTCAAGGATAACAAAGG
1 TTGACTTCTCTTTACGAGGAAGTCAAGGATAACAAACG
* * * *
489833 TTGACTTCTCTTTATGAGGAAGTCTAGGATAAAAAACA
1 TTGACTTCTCTTTACGAGGAAGTCAAGGATAACAAACG
* * *
489871 TTAATTTCTCTTTACAAGGAAGTCAAGGAT
1 TTGACTTCTCTTTACGAGGAAGTCAAGGAT
489901 TGAATCTAGG
Statistics
Matches: 123, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
37 2 0.02
38 85 0.69
39 36 0.29
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.30
Consensus pattern (38 bp):
TTGACTTCTCTTTACGAGGAAGTCAAGGATAACAAACG
Found at i:490277 original size:16 final size:16
Alignment explanation
Indices: 490252--490283 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
490242 TAAATAAACC
*
490252 ATTAATAATATTAAAA
1 ATTAAAAATATTAAAA
490268 ATTAAAAATATTAAAA
1 ATTAAAAATATTAAAA
490284 TTCAAGGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
ATTAAAAATATTAAAA
Found at i:491397 original size:3 final size:3
Alignment explanation
Indices: 491389--491433 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
491379 AAATTTGAAT
*
491389 TAA TAA TAA TAA TAA TAA TAA T-A TAA T-A TAG TAA TAA T-A TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
491434 GAAAAAAGGG
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
2 6 0.16
3 31 0.84
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:491425 original size:16 final size:14
Alignment explanation
Indices: 491389--491433 Score: 63
Period size: 16 Copynumber: 3.0 Consensus size: 14
491379 AAATTTGAAT
491389 TAATAATAATAATAA
1 TAATAAT-ATAATAA
491404 TAATAATATAATATA
1 TAATAATATAATA-A
491419 GTAATAATATAATAA
1 -TAATAATATAATAA
491434 GAAAAAAGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.21
15 9 0.32
16 13 0.46
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (14 bp):
TAATAATATAATAA
Found at i:491778 original size:55 final size:55
Alignment explanation
Indices: 491688--491826 Score: 206
Period size: 55 Copynumber: 2.5 Consensus size: 55
491678 GGGAAGACGA
* * *
491688 ATCTGTTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAGATCTTTGGAAAATGG
1 ATCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTAGAAAATGG
* * *
491743 ATTTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGATAAATCTTTATAAAATGG
1 ATCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTAGAAAATGG
* *
491798 ATCTGCTCCATTCTTATTTCAGGGAGATA
1 ATCTGCTCCACTCTTCTTTCAGGGAGATA
491827 GAATCCAAGG
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 75 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (55 bp):
ATCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTAGAAAATGG
Found at i:492005 original size:36 final size:35
Alignment explanation
Indices: 491958--492328 Score: 352
Period size: 36 Copynumber: 10.2 Consensus size: 35
491948 ATGGATCTTA
*
491958 AGATTGATTTGCTTCACTACACTTTCGTGAAGGCTT
1 AGATTGATTTGCTTCACTAC-CGTTCGTGAAGGCTT
*
491994 AGATTGATTTGCTTCACTACTCG-TCTGTAAAGGCTT
1 AGATTGATTTGCTTCACTAC-CGTTC-GTGAAGGCTT
* * * *
492030 AAAATTGATTTGCTTCACTACTTGTCCGAGAAGGCTT
1 -AGATTGATTTGCTTCACTAC-CGTTCGTGAAGGCTT
* ** *
492067 AGATT-ACTTTGCTTCAATACCAGACCATGAAGGCTT
1 AGATTGA-TTTGCTTCACTACC-GTTCGTGAAGGCTT
* * * * *
492103 AGATTGCTTTGCTTCGCTACCCGTCCTTGCAGGCTT
1 AGATTGATTTGCTTCACTA-CCGTTCGTGAAGGCTT
*
492139 AGATTGATTTGCTTCACTACCCGTTCGTGAAGGATT
1 AGATTGATTTGCTTCACTA-CCGTTCGTGAAGGCTT
*
492175 AGATTGATTTGCTTCACTACCAGTTCGTGAAGGATT
1 AGATTGATTTGCTTCACTACC-GTTCGTGAAGGCTT
* *
492211 AATATTGATTTGCTTCACTACCAGTCCGTGAAGGCTT
1 -AGATTGATTTGCTTCACTACC-GTTCGTGAAGGCTT
*
492248 AAGATTAATTTGCTTCACTACCCG-TCTGTGAAGGCTT
1 -AGATTGATTTGCTTCACTA-CCGTTC-GTGAAGGCTT
* * * *
492285 AAATTGATTTGCTTCACTACCCATCCGTGAATGCTT
1 AGATTGATTTGCTTCACTA-CCGTTCGTGAAGGCTT
492321 AAGATTGA
1 -AGATTGA
492329 AGTTGATTTA
Statistics
Matches: 284, Mismatches: 38, Indels: 25
0.82 0.11 0.07
Matches are distributed among these distances:
35 5 0.02
36 176 0.62
37 100 0.35
38 3 0.01
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (35 bp):
AGATTGATTTGCTTCACTACCGTTCGTGAAGGCTT
Found at i:492078 original size:73 final size:73
Alignment explanation
Indices: 491954--492328 Score: 436
Period size: 73 Copynumber: 5.2 Consensus size: 73
491944 TTCAATGGAT
* * *
491954 CTTAAGATTGATTTGCTTCACTACACTTTCGTGAAGGCTTAGATTGATTTGCTTCACTACTC-GT
1 CTTAAGATTGATTTGCTTCACTACCCGTCCGTGAAGGCTTAGATTGATTTGCTTCACTAC-CAGT
* *
492018 CTGTAAAGG
65 CCGTGAAGG
* ** * * *
492027 CTTAAAATTGATTTGCTTCACTACTTGTCCGAGAAGGCTTAGATT-ACTTTGCTTCAATACCAGA
1 CTTAAGATTGATTTGCTTCACTACCCGTCCGTGAAGGCTTAGATTGA-TTTGCTTCACTACCAGT
*
492091 CCATGAAGG
65 CCGTGAAGG
* * * * * *
492100 CTT-AGATTGCTTTGCTTCGCTACCCGTCCTTGCAGGCTTAGATTGATTTGCTTCACTACCCGTT
1 CTTAAGATTGATTTGCTTCACTACCCGTCCGTGAAGGCTTAGATTGATTTGCTTCACTACCAGTC
492164 CGTGAAGG
66 CGTGAAGG
* * * * *
492172 ATT-AGATTGATTTGCTTCACTACCAGTTCGTGAAGGATTAATATTGATTTGCTTCACTACCAGT
1 CTTAAGATTGATTTGCTTCACTACCCGTCCGTGAAGGCTT-AGATTGATTTGCTTCACTACCAGT
492236 CCGTGAAGG
65 CCGTGAAGG
* * *
492245 CTTAAGATTAATTTGCTTCACTACCCGTCTGTGAAGGCTTAAATTGATTTGCTTCACTACCCA-T
1 CTTAAGATTGATTTGCTTCACTACCCGTCCGTGAAGGCTTAGATTGATTTGCTTCACTA-CCAGT
*
492309 CCGTGAATG
65 CCGTGAAGG
492318 CTTAAGATTGA
1 CTTAAGATTGA
492329 AGTTGATTTA
Statistics
Matches: 252, Mismatches: 44, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
72 87 0.35
73 131 0.52
74 34 0.13
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (73 bp):
CTTAAGATTGATTTGCTTCACTACCCGTCCGTGAAGGCTTAGATTGATTTGCTTCACTACCAGTC
CGTGAAGG
Found at i:492699 original size:39 final size:39
Alignment explanation
Indices: 492647--492802 Score: 188
Period size: 39 Copynumber: 4.0 Consensus size: 39
492637 GAGTTAGAAA
* * *
492647 TAACAAAGGTTGACTTCTCTTGACGAGGAAGTCAAGTAT
1 TAACAAACGTTGACTTCTCTTTACGAGGAAGTCAAGGAT
*
492686 TGACAAACGTTGACTTCTCTTTACGAGGAAGTCAAGGA-
1 TAACAAACGTTGACTTCTCTTTACGAGGAAGTCAAGGAT
* **
492724 TAACAAAGGTTGACTTCTCTTTATTAGGAAGTCAAGGAT
1 TAACAAACGTTGACTTCTCTTTACGAGGAAGTCAAGGAT
* * * * * *
492763 AAAAAAACATTAATTTCTCTTTACAAGGAAGTCAAGGAT
1 TAACAAACGTTGACTTCTCTTTACGAGGAAGTCAAGGAT
492802 T
1 T
492803 GAATCTAGGA
Statistics
Matches: 99, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
38 34 0.34
39 65 0.66
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (39 bp):
TAACAAACGTTGACTTCTCTTTACGAGGAAGTCAAGGAT
Found at i:492753 original size:77 final size:77
Alignment explanation
Indices: 492646--492801 Score: 213
Period size: 77 Copynumber: 2.0 Consensus size: 77
492636 GGAGTTAGAA
* ** * * * *
492646 ATAACAAAGGTTGACTTCTCTTGACGAGGAAGTCAAGTATTGACAAACGTTGACTTCTCTTTACG
1 ATAACAAAGGTTGACTTCTCTTGACGAGGAAGTCAAGGATAAAAAAACATTAACTTCTCTTTACA
492711 AGGAAGTCAAGG
66 AGGAAGTCAAGG
* ** *
492723 ATAACAAAGGTTGACTTCTCTTTATTAGGAAGTCAAGGATAAAAAAACATTAATTTCTCTTTACA
1 ATAACAAAGGTTGACTTCTCTTGACGAGGAAGTCAAGGATAAAAAAACATTAACTTCTCTTTACA
492788 AGGAAGTCAAGG
66 AGGAAGTCAAGG
492800 AT
1 AT
492802 TGAATCTAGG
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
77 68 1.00
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.29
Consensus pattern (77 bp):
ATAACAAAGGTTGACTTCTCTTGACGAGGAAGTCAAGGATAAAAAAACATTAACTTCTCTTTACA
AGGAAGTCAAGG
Found at i:497109 original size:14 final size:14
Alignment explanation
Indices: 497076--497128 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
497066 TAGATGTGAA
**
497076 AAAATGTAAATGCG
1 AAAATGTAAATATG
* *
497090 ATAATGCAAATATG
1 AAAATGTAAATATG
497104 AAAATGTAGAA-ATG
1 AAAATGTA-AATATG
497118 AAAATGTAAAT
1 AAAATGTAAAT
497129 CATGCGATAC
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
13 2 0.06
14 27 0.87
15 2 0.06
ACGTcount: A:0.55, C:0.04, G:0.17, T:0.25
Consensus pattern (14 bp):
AAAATGTAAATATG
Found at i:499544 original size:20 final size:20
Alignment explanation
Indices: 499519--499600 Score: 67
Period size: 20 Copynumber: 3.9 Consensus size: 20
499509 TATTTGGCAG
499519 AGGGAATCGATACCCCCATA
1 AGGGAATCGATACCCCCATA
* *
499539 AGGGAATCGATTCCCCCTTTGA
1 AGGGAATCGATACCCCC-AT-A
* * *
499561 ATGGGAA-CTGATTCCCTCCTTG
1 A-GGGAATC-GATACCC-CCATA
499583 AGGGAATCGATACCCCCA
1 AGGGAATCGATACCCCCA
499601 CGGGTTCTGG
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
20 18 0.35
21 12 0.24
22 5 0.10
23 14 0.27
24 2 0.04
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (20 bp):
AGGGAATCGATACCCCCATA
Found at i:500009 original size:17 final size:18
Alignment explanation
Indices: 499974--500012 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
499964 AAAGCGAAAA
* *
499974 TTTTTGTTTTAATTGATG
1 TTTTTGATTCAATTGATG
499992 TTTTTGATTCAATT-ATG
1 TTTTTGATTCAATTGATG
500009 TTTT
1 TTTT
500013 CATAAAAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.18, C:0.03, G:0.13, T:0.67
Consensus pattern (18 bp):
TTTTTGATTCAATTGATG
Found at i:511042 original size:13 final size:13
Alignment explanation
Indices: 510982--511047 Score: 69
Period size: 14 Copynumber: 4.8 Consensus size: 13
510972 AGTCAATCCG
*
510982 TTGACTTTTACCCA
1 TTGACTTTGA-CCA
* *
510996 TTGACTTTAACTCG
1 TTGACTTTGAC-CA
*
511010 TTTACTTTGACCA
1 TTGACTTTGACCA
511023 GTTGACTTTGACCA
1 -TTGACTTTGACCA
511037 TTGACTTTGAC
1 TTGACTTTGAC
511048 TAAAAAGTCA
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
13 13 0.30
14 31 0.70
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (13 bp):
TTGACTTTGACCA
Found at i:513268 original size:32 final size:32
Alignment explanation
Indices: 513198--513272 Score: 96
Period size: 32 Copynumber: 2.3 Consensus size: 32
513188 TCTAAGGTGA
*
513198 CCCTTGGGTAGGCTCCGAGGCCCTAAGAAACT
1 CCCTTGGGTAAGCTCCGAGGCCCTAAGAAACT
** * **
513230 ATCTTGGGTAAGCTCTGAGGCCCTAAGGCACT
1 CCCTTGGGTAAGCTCCGAGGCCCTAAGAAACT
513262 CCCTTGGGTAA
1 CCCTTGGGTAA
513273 ATCATGGGAT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.21, C:0.28, G:0.28, T:0.23
Consensus pattern (32 bp):
CCCTTGGGTAAGCTCCGAGGCCCTAAGAAACT
Found at i:528430 original size:105 final size:107
Alignment explanation
Indices: 528301--528513 Score: 288
Period size: 107 Copynumber: 2.0 Consensus size: 107
528291 ATGCAGATAA
* * *
528301 AATACTTCAGTAAAAATTAGTTTATCAAACATATTTT-AAAAATATCAACACTA-CCCTATTCAA
1 AATACTTCAGTAAAAATTAATTTATCAAACATATTTTAAAAAATATAAACACTACCCCCA-TCAA
* * * *
528364 ATCACTATAATGTGTAGGTTCCCTAGAACCATA-ACCCACATG
65 ATCACAAGAATGTGTACGTTCCCCAGAACCATACACCCACATG
* **
528406 AATACTTCAGTAAAAATTAATTTATCAAACATGTTTTAAAAAAATATAAACACTACCCCCATCCG
1 AATACTTCAGTAAAAATTAATTTATCAAACATATTTT-AAAAAATATAAACACTACCCCCATCAA
*
528471 ATCACAAGAATGTGTACGTTCCCCAGAACCATACACCTACATG
65 ATCACAAGAATGTGTACGTTCCCCAGAACCATACACCCACATG
528514 TACACTCGGT
Statistics
Matches: 93, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
105 35 0.38
107 46 0.49
108 12 0.13
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.28
Consensus pattern (107 bp):
AATACTTCAGTAAAAATTAATTTATCAAACATATTTTAAAAAATATAAACACTACCCCCATCAAA
TCACAAGAATGTGTACGTTCCCCAGAACCATACACCCACATG
Found at i:528645 original size:39 final size:39
Alignment explanation
Indices: 528595--528685 Score: 119
Period size: 39 Copynumber: 2.3 Consensus size: 39
528585 ATGAGCATAT
* *
528595 GATAAGAACTTACCCTAAACACAAAGTCGAGGAACTTGC
1 GATAAGGACTTACCCTAAACACAAAGTCGAGGAACCTGC
* * * * *
528634 GGTAAGGACTTACCCTAAGCACAGAGTCGATGAGCCTGC
1 GATAAGGACTTACCCTAAACACAAAGTCGAGGAACCTGC
528673 GATAAGGACTTAC
1 GATAAGGACTTAC
528686 AAGTCATAGA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (39 bp):
GATAAGGACTTACCCTAAACACAAAGTCGAGGAACCTGC
Found at i:532093 original size:2 final size:2
Alignment explanation
Indices: 532079--532111 Score: 50
Period size: 2 Copynumber: 16.5 Consensus size: 2
532069 GATAAACATC
532079 TA TA TA TCA -A TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA T
532112 TAGAAAAATC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 1 0.03
2 27 0.93
3 1 0.03
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:532493 original size:106 final size:106
Alignment explanation
Indices: 532371--532582 Score: 316
Period size: 106 Copynumber: 2.0 Consensus size: 106
532361 ATACAGATAA
** * ** *
532371 AATACTTCAATAAAAATCAGTTTATCAAACATGTTTTAAAAATATGAACATTACCCCTGTCTGAT
1 AATACTTCAATAAAAATCAAATTATCAAACATGTTTTAAAAATATGAACACTACCCCCATCCGAT
*
532436 CACCAAAATGTGTAGGTTCCCCATAACCATACACCCACATG
66 CACCAAAATGTGTAGGTTCCCCAGAACCATACACCCACATG
* *
532477 AATACTTCAGTAAAAATCAAATTATCAAACATGTTTTAAATATATGAACACTACCCCCATCCGAT
1 AATACTTCAATAAAAATCAAATTATCAAACATGTTTTAAAAATATGAACACTACCCCCATCCGAT
* **
532542 CACCAGAATGTGTAGGTTCCTTAGAACCATACACCCACATG
66 CACCAAAATGTGTAGGTTCCCCAGAACCATACACCCACATG
532583 TACACTCCGT
Statistics
Matches: 94, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
106 94 1.00
ACGTcount: A:0.39, C:0.24, G:0.10, T:0.27
Consensus pattern (106 bp):
AATACTTCAATAAAAATCAAATTATCAAACATGTTTTAAAAATATGAACACTACCCCCATCCGAT
CACCAAAATGTGTAGGTTCCCCAGAACCATACACCCACATG
Found at i:532748 original size:39 final size:39
Alignment explanation
Indices: 532625--532740 Score: 180
Period size: 39 Copynumber: 3.0 Consensus size: 39
532615 AAGGACATGT
* * *
532625 GGTAAGAACTTACCCTGTGCACAAAGCAGAGGAGCCTGC
1 GGTAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCTGC
*
532664 GGTAAGGACTTACTCTGAGCACAAAGCC-AGGGAGCCTGC
1 GGTAAGGACTTACCCTGAGCACAAAGCCGA-GGAGCCTGC
532703 GGTAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCTG
1 GGTAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCTG
532741 TAGTAAGGGC
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
38 1 0.01
39 68 0.97
40 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.30, T:0.15
Consensus pattern (39 bp):
GGTAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCTGC
Found at i:544473 original size:2 final size:2
Alignment explanation
Indices: 544459--544491 Score: 50
Period size: 2 Copynumber: 16.5 Consensus size: 2
544449 GATAAACATC
544459 TA TA TA TCA -A TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA T
544492 TAGAAAAATC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 1 0.03
2 27 0.93
3 1 0.03
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:545093 original size:39 final size:39
Alignment explanation
Indices: 544970--545085 Score: 180
Period size: 39 Copynumber: 3.0 Consensus size: 39
544960 AAGGACATGT
* * *
544970 GGTAAGAACTTACCCTGTGCACAAAGCAGAGGAGCCTGC
1 GGTAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCTGC
*
545009 GGTAAGGACTTACTCTGAGCACAAAGCC-AGGGAGCCTGC
1 GGTAAGGACTTACCCTGAGCACAAAGCCGA-GGAGCCTGC
545048 GGTAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCTG
1 GGTAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCTG
545086 TAGTAAGGGC
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
38 1 0.01
39 68 0.97
40 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.30, T:0.15
Consensus pattern (39 bp):
GGTAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCTGC
Found at i:556992 original size:102 final size:105
Alignment explanation
Indices: 556882--557089 Score: 287
Period size: 106 Copynumber: 2.0 Consensus size: 105
556872 CATACAGATA
** ** *
556882 AATACTTCAATAAAAATCAGTTTATCAAACATGTTTTAAAAATATG-AC-C-CCCCTGTCTGATC
1 AATACTTCAATAAAAATCAAATTATCAAACATGTTTTAAAAATATGAACACACCCCCATCCGATC
*
556944 ACCAAAATGTGTAGGTTCCCCATAACCATACACCCACATG
66 ACCAAAATGTGTAGGTTCCCCAGAACCATACACCCACATG
* *
556984 AATACTTCAGTAAAAATCAAATTATCAAACATGTTTTAAATATATGAACACTACCCCCATCCGAT
1 AATACTTCAATAAAAATCAAATTATCAAACATGTTTTAAAAATATGAACAC-ACCCCCATCCGAT
* **
557049 CACCAGAATGTGTAGGTTCCTTAGAACCATACACCCACATG
65 CACCAAAATGTGTAGGTTCCCCAGAACCATACACCCACATG
557090 TACACTCCGT
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
102 42 0.46
103 2 0.02
104 1 0.01
106 46 0.51
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.27
Consensus pattern (105 bp):
AATACTTCAATAAAAATCAAATTATCAAACATGTTTTAAAAATATGAACACACCCCCATCCGATC
ACCAAAATGTGTAGGTTCCCCAGAACCATACACCCACATG
Found at i:557294 original size:39 final size:39
Alignment explanation
Indices: 557132--557286 Score: 251
Period size: 39 Copynumber: 4.0 Consensus size: 39
557122 AAGGACATGT
* *
557132 GGTAAGAACTTACCCTGTGCACAAAG-CAGAGGAGCCTGC
1 GGTAAGGACTTACCCTGAGCACAAAGCCAG-GGAGCCTGC
*
557171 GGTAAGGACTTACTCTGAGCACAAAGCCAGGGAGCCTGC
1 GGTAAGGACTTACCCTGAGCACAAAGCCAGGGAGCCTGC
557210 GGTAAGGACTTACCCTGAGCACAAAGCCAGGGAGCCTGC
1 GGTAAGGACTTACCCTGAGCACAAAGCCAGGGAGCCTGC
557249 GGTAAGGACTTACCCTGAGCACAAAGCC-GAGGAGCCTG
1 GGTAAGGACTTACCCTGAGCACAAAGCCAG-GGAGCCTG
557287 TAGTAAGGGC
Statistics
Matches: 110, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
38 1 0.01
39 106 0.96
40 3 0.03
ACGTcount: A:0.29, C:0.26, G:0.30, T:0.14
Consensus pattern (39 bp):
GGTAAGGACTTACCCTGAGCACAAAGCCAGGGAGCCTGC
Found at i:563949 original size:153 final size:154
Alignment explanation
Indices: 563671--563977 Score: 598
Period size: 153 Copynumber: 2.0 Consensus size: 154
563661 CTAGCGCATA
563671 TGCATGGATTATAGGAAGCTCAACAAACCCAAAGAATGATCATTTTCCCTTCCCTTTCATCGATC
1 TGCATGGATTATAGGAAGCTCAACAAACCCAAAGAATGATCATTTTCCCTTCCCTTTCATCGATC
563736 AAATGTTGGATAGATTAGCGGGAAAGGAATTTTATTGCTTTCTCGATGGATACTCGGGTATAACC
66 AAATGTTGGATAGATTAGCGGGAAAGGAATTTTATTGCTTTCTCGATGGATACTCGGGTATAACC
563801 AAATTGACATAGCACCC-AAGACC
131 AAATTGACATAGCACCCAAAGACC
*
563824 TGCATGGATTATAGGAAGCTCAACAAAGCCAAAGAATGATCATTTTCCCTTCCCTTTCATCGATC
1 TGCATGGATTATAGGAAGCTCAACAAACCCAAAGAATGATCATTTTCCCTTCCCTTTCATCGATC
563889 AAATGTTGGATAGATTAGCGGGAAAGGAATTTTATTGCTTTCTCGATGGATACTCGGGTATAACC
66 AAATGTTGGATAGATTAGCGGGAAAGGAATTTTATTGCTTTCTCGATGGATACTCGGGTATAACC
563954 AAATTGACATAGCACCCAAAGACC
131 AAATTGACATAGCACCCAAAGACC
563978 AAGAGAAAAC
Statistics
Matches: 152, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
153 146 0.96
154 6 0.04
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (154 bp):
TGCATGGATTATAGGAAGCTCAACAAACCCAAAGAATGATCATTTTCCCTTCCCTTTCATCGATC
AAATGTTGGATAGATTAGCGGGAAAGGAATTTTATTGCTTTCTCGATGGATACTCGGGTATAACC
AAATTGACATAGCACCCAAAGACC
Found at i:576239 original size:30 final size:28
Alignment explanation
Indices: 576175--576240 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 28
576165 CAAAATTTTG
* **
576175 GTTAGTGGCCAAAATGTAAATTTTGAAA
1 GTTAGTGGCCAAAATGAAAATTAGGAAA
*
576203 GTTTAGTGGCCAAAGTAGAAAATTAGGAAAA
1 G-TTAGTGGCCAAAAT-GAAAATTAGG-AAA
576234 GTTAGTG
1 GTTAGTG
576241 ACCTAAGTGG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
28 1 0.03
29 13 0.42
30 13 0.42
31 4 0.13
ACGTcount: A:0.39, C:0.06, G:0.26, T:0.29
Consensus pattern (28 bp):
GTTAGTGGCCAAAATGAAAATTAGGAAA
Found at i:586221 original size:22 final size:20
Alignment explanation
Indices: 586195--586252 Score: 73
Period size: 19 Copynumber: 2.9 Consensus size: 20
586185 ATAGGGCAGA
586195 GGGAATCGATACCCCCTTGAAG
1 GGGAATCGATACCCCCTT--AG
* *
586217 GGGAACCGATTCCCCC-TAG
1 GGGAATCGATACCCCCTTAG
586236 GGGAATCGATACCCCCT
1 GGGAATCGATACCCCCT
586253 GGGGTTCTGG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
19 16 0.52
21 1 0.03
22 14 0.45
ACGTcount: A:0.24, C:0.33, G:0.26, T:0.17
Consensus pattern (20 bp):
GGGAATCGATACCCCCTTAG
Found at i:588491 original size:18 final size:18
Alignment explanation
Indices: 588462--588510 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
588452 TAACAAAAAG
588462 GGGGAGAAGTGTTTTAAA
1 GGGGAGAAGTGTTTTAAA
* *
588480 GTGGATAAGTGTTTTAAA
1 GGGGAGAAGTGTTTTAAA
588498 GGGGAGAAGTGTT
1 GGGGAGAAGTGTT
588511 AAAGTAAGGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.39, T:0.31
Consensus pattern (18 bp):
GGGGAGAAGTGTTTTAAA
Found at i:594837 original size:23 final size:23
Alignment explanation
Indices: 594788--594848 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
594778 AATTAAGTTG
* * *
594788 CTATAA-AGCTCTAATTAAGCAA
1 CTATAATAGCTGTAACTAAACAA
594810 CTATAATAGCTGTAACTAAACAA
1 CTATAATAGCTGTAACTAAACAA
*
594833 TTATAATAGCTAGTAA
1 CTATAATAGCT-GTAA
594849 AGTTTGAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 6 0.18
23 23 0.70
24 4 0.12
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.30
Consensus pattern (23 bp):
CTATAATAGCTGTAACTAAACAA
Found at i:597919 original size:6 final size:7
Alignment explanation
Indices: 597898--597922 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
597888 TTTCTCTATT
597898 AATTAAA
1 AATTAAA
597905 AATTAAA
1 AATTAAA
597912 AATTAAA
1 AATTAAA
597919 AATT
1 AATT
597923 CATATATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (7 bp):
AATTAAA
Found at i:597978 original size:18 final size:20
Alignment explanation
Indices: 597955--598002 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 20
597945 TTCTTTTCAA
597955 ATTTTTTATA-TACTTAT-T
1 ATTTTTTATAGTACTTATAT
* *
597973 ATTTTTCATAGTATTTATAT
1 ATTTTTTATAGTACTTATAT
597993 ATTTTCTTAT
1 ATTTT-TTAT
598003 TTATATTTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 9 0.38
19 6 0.25
20 6 0.25
21 3 0.12
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (20 bp):
ATTTTTTATAGTACTTATAT
Found at i:602787 original size:26 final size:27
Alignment explanation
Indices: 602758--602811 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
602748 TATTATACTC
602758 ATCCAGCAAAG-AAAGAAAAAAGAAAA
1 ATCCAGCAAAGAAAAGAAAAAAGAAAA
602784 ATCCAGCAAAGAAAAGAAAAAAGAAAA
1 ATCCAGCAAAGAAAAGAAAAAAGAAAA
602811 A
1 A
602812 AGAGGAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 11 0.41
27 16 0.59
ACGTcount: A:0.70, C:0.11, G:0.15, T:0.04
Consensus pattern (27 bp):
ATCCAGCAAAGAAAAGAAAAAAGAAAA
Found at i:602827 original size:24 final size:24
Alignment explanation
Indices: 602765--602853 Score: 94
Period size: 23 Copynumber: 3.6 Consensus size: 24
602755 CTCATCCAGC
*
602765 AAAG-AAAGAAAAAAGAAAAATCCAGC
1 AAAGAAAAGAAAAAAGAAAAA---AGG
602791 AAAGAAAAGAAAAAAGAAAAAAGAG
1 AAAGAAAAGAAAAAAGAAAAAAG-G
*
602816 GAA-AAAAG-AAAAAGAAAAAAGG
1 AAAGAAAAGAAAAAAGAAAAAAGG
602838 AAAGAAATAGAAAAAA
1 AAAGAAA-AGAAAAAA
602854 ATAGATTGAA
Statistics
Matches: 55, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
22 3 0.05
23 16 0.29
24 9 0.16
25 7 0.13
26 4 0.07
27 16 0.29
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.02
Consensus pattern (24 bp):
AAAGAAAAGAAAAAAGAAAAAAGG
Found at i:604864 original size:93 final size:93
Alignment explanation
Indices: 604705--604986 Score: 467
Period size: 93 Copynumber: 3.0 Consensus size: 93
604695 ACAAGTGTCG
604705 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAA
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAA
*
604770 AAACCAATCATTGAATTTGGAAGATAAA
66 AAACCAATCATTGAATTTGGAAGATGAA
*
604798 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGGTATGAACCCCAA
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAA
* *
604863 AAACCAATCATTAAATTTAGAAGATGAA
66 AAACCAATCATTGAATTTGGAAGATGAA
* *
604891 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCCGGTTTGGTATGAA-ACCAC
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCA-
* * *
604955 AGAACCAATCATTGGATTTGAAAGATGAA
65 AAAACCAATCATTGAATTTGGAAGATGAA
604984 TGT
1 TGT
604987 TTTCATAGTA
Statistics
Matches: 176, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
92 3 0.02
93 173 0.98
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (93 bp):
TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAA
AAACCAATCATTGAATTTGGAAGATGAA
Found at i:607688 original size:22 final size:22
Alignment explanation
Indices: 607662--607741 Score: 115
Period size: 22 Copynumber: 3.6 Consensus size: 22
607652 TACATCTACA
607662 CTCTTCAAAGATGATAGATTCT
1 CTCTTCAAAGATGATAGATTCT
*
607684 CTCTTCAAAGATGATAAATTCT
1 CTCTTCAAAGATGATAGATTCT
* *
607706 CTTTTTAAAGATGATAGATTCT
1 CTCTTCAAAGATGATAGATTCT
* *
607728 CTTTTCAAATATGA
1 CTCTTCAAAGATGA
607742 AAGCTTTATG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.40
Consensus pattern (22 bp):
CTCTTCAAAGATGATAGATTCT
Found at i:608342 original size:113 final size:113
Alignment explanation
Indices: 608141--610724 Score: 3571
Period size: 113 Copynumber: 23.0 Consensus size: 113
608131 TTAGCAAATA
* ** * * * *
608141 TTTAAATCCATCATTCAATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTA
1 TTTAAATTCATCATTTGATGGATCAGCATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
* *
608206 AAGAATGAAGAAGAAATTCATAATGAGAAGATTTTGTTCAACCTTTTG
66 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
* * * * *
608254 CTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCTTAATGAGAAGAACTCATCTG
1 TTTAAATTCATCATTTGATGGATCAGCATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
608319 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
66 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
* * *
608367 TTTGAATTCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTTATCTG
1 TTTAAATTCATCATTTGATGGATCAGCATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
*
608432 AAGAAGGAAGAAGAAATTCATAATGAGAAGATTTTGTTCAACCTTTTG
66 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
* * * *
608480 CTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
1 TTTAAATTCATCATTTGATGGATCAGCATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
*
608545 AAGAAGGAAGAAAAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
66 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
* * *
608593 TTTGAATTCATCATTTGATGGATCAGCTTTTCCAAAAAAAGTTCATAATGAGAAGAACTCATCTG
1 TTTAAATTCATCATTTGATGGATCAGCATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
608658 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
66 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
* * *
608706 TTTGAATTCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTTATCTG
1 TTTAAATTCATCATTTGATGGATCAGCATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
*
608771 AAGAAGGAAGAAGAAATTCATAATGAGAAGATTTTGTTCAACCTTTTG
66 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
* * * *
608819 CTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
1 TTTAAATTCATCATTTGATGGATCAGCATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
*
608884 AAGAAGGAATAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
66 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
* * *
608932 TTTGAATTCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTTATCTG
1 TTTAAATTCATCATTTGATGGATCAGCATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
* *
608997 AAGAAGGAAGAAGAAATTCATAATGAGAAGATTTTGATCAACCTTTTG
66 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
* * * *
609045 CTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
1 TTTAAATTCATCATTTGATGGATCAGCATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
609110 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
66 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
* * * *
609158 TTTGAATTCATCATTTGATGGATCAGCTTTTCCAGAAAAATTTCATAATGAGAAGAACTCACCTG
1 TTTAAATTCATCATTTGATGGATCAGCATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
* *
609223 AAGAAGGAAGAAGAAACTCATAAAGAGAAGAATTTGTTCAACCTTTTG
66 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
* * *
609271 TTTGAATTCATCACTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
1 TTTAAATTCATCATTTGATGGATCAGCATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
* *
609336 AAGAAGGAAGAAGAAGTTCATAATGAAAAGAATTTGTTCAACCTTTTG
66 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
* * * * * * * ** * * *
609384 CTCAAATCCATCATTTAATGGATCAACAGTACCAGTTAGAGTTCATAATAAGAATAACTCATCTG
1 TTTAAATTCATCATTTGATGGATCAGCATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
* *
609449 AAGAAGGAAGAAGAAGTTCATAATGAAAAGAATTTGTTCAACCTTTTG
66 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
* * * * * * * ** *
609497 CTCAAATCCATCATTTAATGGATCAACAGTACCAGTTAGAGTTCATAATGAGAAGAACTCATCTG
1 TTTAAATTCATCATTTGATGGATCAGCATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
* *
609562 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-C--TT-
66 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
* * * * ****
609606 TTTAAATTCATCATTCGGTGAATCAACATTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTG
1 TTTAAATTCATCATTTGATGGATCAGCATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
* *
609671 AAGAAGGAAGACGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTG
66 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
* ****
609719 TTTAAATTCATCATTTGATGGATCAGCATTACCAGTTCGAGTTCATAATGAGAAGAACTCATCTG
1 TTTAAATTCATCATTTGATGGATCAGCATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
* *
609784 AAGAAGGAAGAAGAAGTTCATAATGAAAAGAATTTGTTCAACCTTTTG
66 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
* * * * * * * ** *
609832 CTCAAATCCATCATTTAATGGATCAACAGTACCAGTTAGAGTTCATAATGAGAAGAACTCATCTG
1 TTTAAATTCATCATTTGATGGATCAGCATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
* *
609897 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-C--TT-
66 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
* * * ****
609941 TTTAAATTCATCATTCGGT-GATCAACATTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTG
1 TTTAAATTCATCATTTGATGGATCAGCATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
* *
610005 AAGAAGGAAGACGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTG
66 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
* ****
610053 TTTAAATTCATCATTTGATGGATCAGCATTACCAGTTCGAGTTCATAATGAGAAGAACTCATCTG
1 TTTAAATTCATCATTTGATGGATCAGCATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
* *
610118 AAGAAGGAAGAAGAAGTTCATAATGAAAAGAATTTGTTCAACCTTTTG
66 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
* ** * ****
610166 TTTAAATTCATGATTCAATGGATCAGCATTACCAGTTCGAGTTCATAATGAGAAGAACTCATCTG
1 TTTAAATTCATCATTTGATGGATCAGCATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
*
610231 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTG
66 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
* ****
610279 TTTAAATTCATCATTTGATGGATCAGCATTGCCAGTTCGAGTTCATAATGAGAAGAACTCATCTG
1 TTTAAATTCATCATTTGATGGATCAGCATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
*
610344 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTG
66 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
* *
610392 TTTAAATTCATCATTTGATGGATCAGCATTACCA-ATAAAAGTTCATAATAAGAAGAACTCATCT
1 TTTAAATTCATCATTTGATGGATCAGCATTTCCAGA-AAAAGTTCATAATGAGAAGAACTCATCT
610456 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
65 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
* * ** * * * *
610505 TTTAAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATGATGATAAGAACTCGTCAT
1 TTTAAATTCATCATTTGATGGATCAGCATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATC-T
**
610570 -TTGAA-GAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
65 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
* * * * * * * *
610617 CTCAAATCCATCACTTGATGGATCAGCTTTTTCAGAGAAAGTTCATAATGAGAAGAACTCATTTG
1 TTTAAATTCATCATTTGATGGATCAGCATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
**
610682 AAGAA-GAAGAAG---TTCATAATGAGAAGAGCTTGTTCAACCTTTT
66 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTT
610725 TCATGAATCT
Statistics
Matches: 2277, Mismatches: 181, Indels: 30
0.92 0.07 0.01
Matches are distributed among these distances:
108 81 0.04
109 137 0.06
110 5 0.00
111 3 0.00
112 121 0.05
113 1929 0.85
114 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (113 bp):
TTTAAATTCATCATTTGATGGATCAGCATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
Found at i:610918 original size:124 final size:123
Alignment explanation
Indices: 610643--610966 Score: 401
Period size: 124 Copynumber: 2.7 Consensus size: 123
610633 GATGGATCAG
* *
610643 CTTTTTCAGAGAAAGTTCATAATGAGAAGAACTCATTTG-A-A-GAAGAAGAAGTTCATAATGAG
1 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAG
* * * * *
610705 AAGAGCTTGTTCAACCTTTTTCATGAATCTATCACAGAAGGAGATAGATCAACACCAA
66 AAGAACTTGTTCAACATTTTGCATGAATCCATCACAGAAGGAGATAGAGCAACACCAA
* *
610763 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAGGAAGTTCATAATGAG
1 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAG
* * * * *
610828 AAGAACTTGTTCAACATTTTGCTTGACTCCACTTC-CAAGAA-GAGATAGAGCAGCA-GAG
66 AAGAACTTGTTCAACATTTTGCATGAATCCA--TCAC-AGAAGGAGATAGAGCAACACCAA
* *
610886 CTATTTCCA-AGTGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATAATG
1 CT-TTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATG
*
610950 AGAAGAACTTATTCAAC
64 AGAAGAACTTGTTCAAC
610967 CTTGCATTGA
Statistics
Matches: 177, Mismatches: 19, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
120 36 0.20
121 1 0.01
122 1 0.01
123 50 0.28
124 83 0.47
125 6 0.03
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (123 bp):
CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAG
AAGAACTTGTTCAACATTTTGCATGAATCCATCACAGAAGGAGATAGAGCAACACCAA
Found at i:611214 original size:138 final size:139
Alignment explanation
Indices: 610899--611243 Score: 446
Period size: 139 Copynumber: 2.5 Consensus size: 139
610889 TTTCCAAGTG
* * *
610899 AAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATAATGAGAAGAACTTATTC
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * * * * * *
610964 AACCTTGCATTGATTCATCTCCTATGGAATTGAATGAAAGAAGAACCTCATTTGAGGATCAATAT
66 AACATTACATTAATTCATCACATATGGAATTGAATCAAAGAAGAACCTCATTTGAAGATCAATAT
*
611029 TTTCAGAGA
131 TTCCAGAGA
*
611038 AAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTC
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * ** *
611103 AACATTACCTTAATTCATCACATATGGAGTTGAATCAACA-AA-TCCCTCTTTTGAAGATC-ATC
66 AACATTACATTAATTCATCACATATGGAATTGAATCAA-AGAAGAACCTCATTTGAAGATCAAT-
611165 ATTTCCAGA-A
129 ATTTCCAGAGA
* * * *
611175 GGAGTTCATAATGAGAAAAACTCATCTGAAAAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
1 -AAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
611240 CAAC
65 CAAC
611244 TTTTTGCTAG
Statistics
Matches: 181, Mismatches: 22, Indels: 7
0.86 0.10 0.03
Matches are distributed among these distances:
137 3 0.02
138 84 0.46
139 93 0.51
140 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (139 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
AACATTACATTAATTCATCACATATGGAATTGAATCAAAGAAGAACCTCATTTGAAGATCAATAT
TTCCAGAGA
Found at i:613141 original size:136 final size:138
Alignment explanation
Indices: 612801--613162 Score: 593
Period size: 138 Copynumber: 2.6 Consensus size: 138
612791 ACATTTTTAA
* *
612801 TATTTATTTTATTTATTAATATCAAAGAAAATAGTTGTCTTAAAGCACTTAGAAGTTCTTTTTTG
1 TATTTA-TTTATTTATTAATATCAAAGAAAAGAGTTGTCTTAAAGCACCTAGAAGTTCTTTTTTG
*
612866 ATATTCATAAATAAATAAATATCATGTTTTTATAAATTATATATTAATTATTTTTAGAAAAAATG
65 ATATTTATAAATAAATAAATATCATGTTTTTATAAATTATATATTAATTATTTTTAGAAAAAATG
612931 TTTTTTAGT
130 TTTTTTAGT
*
612940 TATTTATTTATTAATTAATATCAAAGAAAAGAGTTGTCTTAAAGCACCTAGAAGTTCTTTTTTGA
1 TATTTATTTATTTATTAATATCAAAGAAAAGAGTTGTCTTAAAGCACCTAGAAGTTCTTTTTTGA
*
613005 TATTTATAAATAAATAAATATCCTGTTTTTATAAATTATATATTAATTATTTTTA-AAAAAATG-
66 TATTTATAAATAAATAAATATCATGTTTTTATAAATTATATATTAATTATTTTTAGAAAAAATGT
613068 TTTTTAGT
131 TTTTTAGT
* * * * **
613076 TATTTATTTATTTTTTAATATCGAAGAAAGGAGCTGTCTTAAAGCACCTAGAAGCCCTTTTTTGA
1 TATTTATTTATTTATTAATATCAAAGAAAAGAGTTGTCTTAAAGCACCTAGAAGTTCTTTTTTGA
*
613141 TATTTTTAAATAAATAAATATC
66 TATTTATAAATAAATAAATATC
613163 TTATTTATAC
Statistics
Matches: 210, Mismatches: 13, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
136 87 0.41
137 8 0.04
138 109 0.52
139 6 0.03
ACGTcount: A:0.38, C:0.07, G:0.09, T:0.46
Consensus pattern (138 bp):
TATTTATTTATTTATTAATATCAAAGAAAAGAGTTGTCTTAAAGCACCTAGAAGTTCTTTTTTGA
TATTTATAAATAAATAAATATCATGTTTTTATAAATTATATATTAATTATTTTTAGAAAAAATGT
TTTTTAGT
Found at i:617526 original size:28 final size:28
Alignment explanation
Indices: 617475--617531 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
617465 GTCCTCATTT
617475 ATATTATGTCGCCAAGCATGTGCTTGAA
1 ATATTATGTCGCCAAGCATGTGCTTGAA
*
617503 ATATTATGTCGTCGAAGCAT-TGCTTGAA
1 ATATTATGTCG-CCAAGCATGTGCTTGAA
617531 A
1 A
617532 GCAATGATGG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 20 0.74
29 7 0.26
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (28 bp):
ATATTATGTCGCCAAGCATGTGCTTGAA
Found at i:619441 original size:71 final size:71
Alignment explanation
Indices: 619311--619442 Score: 203
Period size: 71 Copynumber: 1.9 Consensus size: 71
619301 AATCCAAATA
* *
619311 AAATAAGTATGGGCTAATTTCATATAAAAATATAATTTTAAGGAAAAATTGAAGTAAATTACAAA
1 AAATAAGTATGGGCCAATTTCATATAAAAATATAATTTTAAGGAAAAATTGAAGCAAATTACAAA
619376 ATATAT
66 ATATAT
* * *
619382 AAATAAGTATGGGCCAGTTTCATATACAAATATAATTTTAAGGATTAAATTGAA-CAAATTA
1 AAATAAGTATGGGCCAATTTCATATAAAAATATAATTTTAAGGA-AAAATTGAAGCAAATTA
619443 ATATTTAAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
71 47 0.85
72 8 0.15
ACGTcount: A:0.49, C:0.06, G:0.12, T:0.33
Consensus pattern (71 bp):
AAATAAGTATGGGCCAATTTCATATAAAAATATAATTTTAAGGAAAAATTGAAGCAAATTACAAA
ATATAT
Found at i:619632 original size:13 final size:13
Alignment explanation
Indices: 619591--619632 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
619581 ATACACATAC
*
619591 TATAAGTAAAC-T
1 TATAAGTATACAT
* *
619603 TATAAGTATATAG
1 TATAAGTATACAT
619616 TATAAGTATACAT
1 TATAAGTATACAT
619629 TATA
1 TATA
619633 CTTATATATA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
12 9 0.38
13 15 0.62
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.38
Consensus pattern (13 bp):
TATAAGTATACAT
Found at i:619638 original size:19 final size:17
Alignment explanation
Indices: 619616--619710 Score: 69
Period size: 20 Copynumber: 5.5 Consensus size: 17
619606 AAGTATATAG
619616 TATAAGTATACATTATACT
1 TATAA-TATA-ATTATACT
619635 TAT-ATATAATTATA--
1 TATAATATAATTATACT
619649 TAT-AT-T-A-TATACT
1 TATAATATAATTATACT
619662 TATAAGTATATATTATACT
1 TATAA-TATA-ATTATACT
619681 TATAATATATACATTATACT
1 TAT-A-ATATA-ATTATACT
619701 TATAAATATA
1 TAT-AATATA
619711 TATAAGTACA
Statistics
Matches: 65, Mismatches: 1, Indels: 20
0.76 0.01 0.23
Matches are distributed among these distances:
11 4 0.06
12 1 0.02
13 4 0.06
14 6 0.09
15 1 0.02
16 7 0.11
17 4 0.06
18 2 0.03
19 17 0.26
20 18 0.28
21 1 0.02
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.46
Consensus pattern (17 bp):
TATAATATAATTATACT
Found at i:619696 original size:20 final size:19
Alignment explanation
Indices: 619646--619712 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 19
619636 ATATATAATT
*
619646 ATATATATTATATACTTATA
1 ATATATAAT-TATACTTATA
619666 AGTATAT-ATTATACTTATA
1 A-TATATAATTATACTTATA
619685 ATATATACATTATACTTATAA
1 ATATATA-ATTATACTTAT-A
619706 ATATATA
1 ATATATA
619713 TAAGTACATA
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
18 5 0.12
19 11 0.26
20 13 0.31
21 13 0.31
ACGTcount: A:0.46, C:0.06, G:0.01, T:0.46
Consensus pattern (19 bp):
ATATATAATTATACTTATA
Found at i:619724 original size:20 final size:19
Alignment explanation
Indices: 619635--619713 Score: 92
Period size: 19 Copynumber: 4.3 Consensus size: 19
619625 ACATTATACT
* *
619635 TATA-TATAATTATATATA
1 TATATTATACTTATAAATA
*
619653 T-TA-TATACTTATAAGTA
1 TATATTATACTTATAAATA
619670 TATATTATACTTATAATATA
1 TATATTATACTTATAA-ATA
*
619690 TACATTATACTTATAAATA
1 TATATTATACTTATAAATA
619709 TATAT
1 TATAT
619714 AAGTACATAT
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
17 14 0.27
18 3 0.06
19 18 0.35
20 17 0.33
ACGTcount: A:0.46, C:0.05, G:0.01, T:0.48
Consensus pattern (19 bp):
TATATTATACTTATAAATA
Found at i:620607 original size:14 final size:14
Alignment explanation
Indices: 620588--620627 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
620578 TCAACCAAAA
*
620588 CTGAGTTAACTCAT
1 CTGAGTCAACTCAT
620602 CTGAGTCAACTCAT
1 CTGAGTCAACTCAT
*
620616 CTAAGTCAACTC
1 CTGAGTCAACTC
620628 GTCCGAATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.30
Consensus pattern (14 bp):
CTGAGTCAACTCAT
Found at i:623827 original size:21 final size:21
Alignment explanation
Indices: 623803--623847 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
623793 TACTTATAAC
623803 TATAAGTGTATATATATACA-T
1 TATAA-TGTATATATATACACT
*
623824 TAT-ATTTATATATATACACT
1 TATAATGTATATATATACACT
623844 TATA
1 TATA
623848 GTTATAACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 13 0.62
20 5 0.24
21 3 0.14
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (21 bp):
TATAATGTATATATATACACT
Found at i:623835 original size:19 final size:20
Alignment explanation
Indices: 623811--623853 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
623801 ACTATAAGTG
*
623811 TATATATATACA-TTATATT
1 TATATATATACACTTATAGT
623830 TATATATATACACTTATAGT
1 TATATATATACACTTATAGT
623850 TATA
1 TATA
623854 ACTTAACTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (20 bp):
TATATATATACACTTATAGT
Found at i:624630 original size:19 final size:19
Alignment explanation
Indices: 624608--624648 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
624598 CATGTATATA
* *
624608 TATAACTATATATTATACT
1 TATAACTATACATTATAAT
*
624627 TATAAGTATACATTATAAT
1 TATAACTATACATTATAAT
624646 TAT
1 TAT
624649 GCATATTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.46
Consensus pattern (19 bp):
TATAACTATACATTATAAT
Found at i:624767 original size:16 final size:13
Alignment explanation
Indices: 624729--624757 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
624719 AAAAAATGTT
624729 TATAAGTATAATA
1 TATAAGTATAATA
624742 TATAAGTAT-ATA
1 TATAAGTATAATA
624754 TATA
1 TATA
624758 CATAAGTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (13 bp):
TATAAGTATAATA
Found at i:625278 original size:20 final size:20
Alignment explanation
Indices: 625231--625281 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
625221 CTCTTCTAAA
625231 TTCTTAAAAAAATCAATTTT
1 TTCTTAAAAAAATCAATTTT
625251 TTCCTTAAAAAAA-CAATATTT
1 TT-CTTAAAAAAATCAAT-TTT
625272 CTT-TTAAAAA
1 -TTCTTAAAAA
625282 TTCTCCCACC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
20 13 0.46
21 13 0.46
22 2 0.07
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (20 bp):
TTCTTAAAAAAATCAATTTT
Found at i:625643 original size:13 final size:13
Alignment explanation
Indices: 625627--625671 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
625617 TGAAATTAAT
625627 TTAATGATTATAA
1 TTAATGATTATAA
625640 TTAA-GATTTATAA
1 TTAATGA-TTATAA
*
625653 TATAAGGATTATAA
1 T-TAATGATTATAA
625667 TTAAT
1 TTAAT
625672 AGAAAAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
12 2 0.07
13 14 0.50
14 10 0.36
15 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (13 bp):
TTAATGATTATAA
Found at i:626526 original size:26 final size:26
Alignment explanation
Indices: 626497--626548 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
626487 TTATACGTTA
626497 ATTTGAA-ATTTTAGTACTTAATTTTT
1 ATTTGAATATTTTA-TACTTAATTTTT
* *
626523 ATTTTAATATTTTATATTTAATTTTT
1 ATTTGAATATTTTATACTTAATTTTT
626549 TAAATATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (26 bp):
ATTTGAATATTTTATACTTAATTTTT
Found at i:631999 original size:58 final size:58
Alignment explanation
Indices: 631929--632042 Score: 151
Period size: 58 Copynumber: 2.0 Consensus size: 58
631919 CCAAAAGAAA
*
631929 CCCATAAAATTAAATAGAGTAGGCTATTTGGACT-ATAT-TAATGGCCTTATGAATTTAC
1 CCCATAAAATTAAATAAAGTAGGCTATTTGG-CTCAT-TGTAATGGCCTTATGAATTTAC
* * * *
631987 CCCATAAAATTAAATAAATTAGGTTATTTGGTTCATTGTTATGGCCTTATGAATTT
1 CCCATAAAATTAAATAAAGTAGGCTATTTGGCTCATTGTAATGGCCTTATGAATTT
632043 TTTAAAATAA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
57 2 0.04
58 47 0.96
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.39
Consensus pattern (58 bp):
CCCATAAAATTAAATAAAGTAGGCTATTTGGCTCATTGTAATGGCCTTATGAATTTAC
Found at i:637571 original size:22 final size:22
Alignment explanation
Indices: 637546--637594 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
637536 TTCCCCTGTG
637546 GGGGGAATC-GTTCCCCTTAAAA
1 GGGGGAATCGGTTCCCCTT-AAA
* *
637568 GGGGTAATCGGTTCCCCTTCAA
1 GGGGGAATCGGTTCCCCTTAAA
637590 GGGGG
1 GGGGG
637595 TATTGATTCC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.20, C:0.22, G:0.35, T:0.22
Consensus pattern (22 bp):
GGGGGAATCGGTTCCCCTTAAA
Found at i:637581 original size:23 final size:22
Alignment explanation
Indices: 637546--637596 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
637536 TTCCCCTGTG
*
637546 GGGGGAATCGTTCCCCTTAAAA
1 GGGGTAATCGTTCCCCTTAAAA
* *
637568 GGGGTAATCGGTTCCCCTTCAAG
1 GGGGTAATC-GTTCCCCTTAAAA
637591 GGGGTA
1 GGGGTA
637597 TTGATTCCCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 8 0.32
23 17 0.68
ACGTcount: A:0.22, C:0.22, G:0.33, T:0.24
Consensus pattern (22 bp):
GGGGTAATCGTTCCCCTTAAAA
Found at i:637604 original size:22 final size:23
Alignment explanation
Indices: 637546--637605 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
637536 TTCCCCTGTG
*
637546 GGGGGAATCG-TTCCCCTTAAAA
1 GGGGTAATCGATTCCCCTTAAAA
* * *
637568 GGGGTAATCGGTTCCCCTTCAAG
1 GGGGTAATCGATTCCCCTTAAAA
*
637591 GGGGT-ATTGATTCCC
1 GGGGTAATCGATTCCC
637606 TCTGCACTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 17 0.53
23 15 0.47
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.27
Consensus pattern (23 bp):
GGGGTAATCGATTCCCCTTAAAA
Found at i:641453 original size:22 final size:21
Alignment explanation
Indices: 641411--641450 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
641401 GAGCTTATTT
*
641411 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
641432 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
641451 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:646964 original size:167 final size:170
Alignment explanation
Indices: 646703--647089 Score: 629
Period size: 167 Copynumber: 2.3 Consensus size: 170
646693 CTAGAATATG
* *
646703 AAGCTCCTTTCTTAGCCACACTTACTACCTCTAGGATTTAGTTACTCAAGCCCCACAAAACCCCC
1 AAGCTCCTTTCTTAACCACACTTACTA-CTCTAAGATTTAGTTACTCAAGCCCCACAAAACCCCC
* *
646768 CAAATATTGTCATCACCCAAATCCCCAACAAAACATCATGATTATGAAAGCCTTAATACCATAAA
65 CAAATATTCTCATCACCCAAATCCCCAACAAAACAACATGATTATGAAAGCCTTAATACCATAAA
646833 AGATTAGAAATATACTACCTTGATGCTACAATCTCGAAATA
130 AGATTAGAAATATACTACCTTGATGCTACAATCTCGAAATA
*
646874 AAGCTCCTTTCTTAACCACACTT-C-A-TCTAAGATTTAGTTAGTCAA-CCACCACAAAACCCCC
1 AAGCTCCTTTCTTAACCACACTTACTACTCTAAGATTTAGTTACTCAAGCC-CCACAAAACCCCC
*
646935 CAAATATTCTCATCACCCAAATTCCCAACAAAACAACATGATTATGAAAGCCTTAATACCATAAA
65 CAAATATTCTCATCACCCAAATCCCCAACAAAACAACATGATTATGAAAGCCTTAATACCATAAA
*
647000 AGATTAGAAATATACTACCTTGATGCTACAATCTCGAAATG
130 AGATTAGAAATATACTACCTTGATGCTACAATCTCGAAATA
* * *
647041 AAGCTCCTTTCTTAACCACACTTACTTAATCTAGGATTTGGTTACTCAA
1 AAGCTCCTTTCTTAACCACACTTAC-TACTCTAAGATTTAGTTACTCAA
647090 CCCTCACTTT
Statistics
Matches: 201, Mismatches: 10, Indels: 10
0.91 0.05 0.05
Matches are distributed among these distances:
166 2 0.01
167 156 0.78
168 1 0.00
169 1 0.00
170 2 0.01
171 39 0.19
ACGTcount: A:0.37, C:0.27, G:0.09, T:0.27
Consensus pattern (170 bp):
AAGCTCCTTTCTTAACCACACTTACTACTCTAAGATTTAGTTACTCAAGCCCCACAAAACCCCCC
AAATATTCTCATCACCCAAATCCCCAACAAAACAACATGATTATGAAAGCCTTAATACCATAAAA
GATTAGAAATATACTACCTTGATGCTACAATCTCGAAATA
Found at i:653983 original size:21 final size:21
Alignment explanation
Indices: 653957--654009 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
653947 TTGGGGAAGG
653957 GAGTATCGATACTCATTTAGA
1 GAGTATCGATACTCATTTAGA
653978 GAGTATCGATACTCATTTAGA
1 GAGTATCGATACTCATTTAGA
653999 GAGTATCGATA
1 GAGTATCGATA
654010 TTGTAGGTCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (21 bp):
GAGTATCGATACTCATTTAGA
Found at i:657088 original size:16 final size:17
Alignment explanation
Indices: 657055--657088 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
657045 CCTTTCTATT
*
657055 TTATTTTATATTTTAAA
1 TTATTTTATATATTAAA
657072 TTATTTT-TATATTAAA
1 TTATTTTATATATTAAA
657088 T
1 T
657089 AATAATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATTTTATATATTAAA
Found at i:660659 original size:35 final size:35
Alignment explanation
Indices: 660613--660687 Score: 123
Period size: 35 Copynumber: 2.1 Consensus size: 35
660603 TTCATGTTCA
660613 AAATTCCAAAATACTTCAATTACATTCTAAACCCC
1 AAATTCCAAAATACTTCAATTACATTCTAAACCCC
* * *
660648 AAATTCCAAAATATTTTAATTACATTCTAAACCCT
1 AAATTCCAAAATACTTCAATTACATTCTAAACCCC
660683 AAATT
1 AAATT
660688 AAAGTATTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.44, C:0.23, G:0.00, T:0.33
Consensus pattern (35 bp):
AAATTCCAAAATACTTCAATTACATTCTAAACCCC
Found at i:660738 original size:35 final size:35
Alignment explanation
Indices: 660683--660758 Score: 107
Period size: 35 Copynumber: 2.2 Consensus size: 35
660673 TCTAAACCCT
* *
660683 AAATTAAAGTATTTTAGAATTTAGGGTTTAAAATA
1 AAATTGAATTATTTTAGAATTTAGGGTTTAAAATA
* * *
660718 TAATTGAATTATTTTGGAATTTAGGGTTTATAATA
1 AAATTGAATTATTTTAGAATTTAGGGTTTAAAATA
660753 AAATTG
1 AAATTG
660759 GGGTATGTGT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.43
Consensus pattern (35 bp):
AAATTGAATTATTTTAGAATTTAGGGTTTAAAATA
Found at i:667978 original size:2 final size:2
Alignment explanation
Indices: 667971--668008 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
667961 TGATTCCATA
667971 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
668009 ATATTCTTAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:678799 original size:16 final size:16
Alignment explanation
Indices: 678778--678820 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
678768 AACTGATATT
*
678778 ACCCGACTTGTTTTCA
1 ACCCGACCTGTTTTCA
678794 ACCCGACCTGTTTTCA
1 ACCCGACCTGTTTTCA
*
678810 ACCTGACCTGT
1 ACCCGACCTGT
678821 AAATGATCCG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.19, C:0.35, G:0.14, T:0.33
Consensus pattern (16 bp):
ACCCGACCTGTTTTCA
Found at i:679106 original size:23 final size:23
Alignment explanation
Indices: 679079--679150 Score: 128
Period size: 23 Copynumber: 3.1 Consensus size: 23
679069 ATGCAAAGGA
679079 AAATTAATATA-TTTAATTTATAT
1 AAATT-ATATAGTTTAATTTATAT
679102 AAATTATATAGTTTAATTTATAT
1 AAATTATATAGTTTAATTTATAT
679125 AAATTATATAGTTTAATTTATAT
1 AAATTATATAGTTTAATTTATAT
679148 AAA
1 AAA
679151 GAAAAAATAA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
22 5 0.10
23 43 0.90
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (23 bp):
AAATTATATAGTTTAATTTATAT
Found at i:679124 original size:14 final size:14
Alignment explanation
Indices: 679105--679148 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
679095 TTTATATAAA
679105 TTATATAGTTTAAT
1 TTATATAGTTTAAT
679119 TTATATA----AA-
1 TTATATAGTTTAAT
679128 TTATATAGTTTAAT
1 TTATATAGTTTAAT
679142 TTATATA
1 TTATATA
679149 AAGAAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 10
0.71 0.00 0.29
Matches are distributed among these distances:
9 7 0.28
10 2 0.08
13 2 0.08
14 14 0.56
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (14 bp):
TTATATAGTTTAAT
Found at i:681501 original size:13 final size:12
Alignment explanation
Indices: 681483--681545 Score: 51
Period size: 15 Copynumber: 5.1 Consensus size: 12
681473 AAAAAAGTAT
681483 TTATAATTATATA
1 TTATAATTA-ATA
681496 TTATAATTAATA
1 TTATAATTAATA
681508 TTAATTTAATTAATA
1 TT-A--TAATTAATA
*
681523 TTA-ATATTAA-C
1 TTATA-ATTAATA
681534 TTAT-ATTAATA
1 TTATAATTAATA
681545 T
1 T
681546 AATATAGTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 14
0.72 0.03 0.24
Matches are distributed among these distances:
10 5 0.12
11 5 0.12
12 10 0.24
13 10 0.24
14 1 0.02
15 11 0.26
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (12 bp):
TTATAATTAATA
Found at i:681510 original size:6 final size:6
Alignment explanation
Indices: 681488--681550 Score: 50
Period size: 6 Copynumber: 11.3 Consensus size: 6
681478 AGTATTTATA
681488 ATTATAT ATT-AT AATTAAT ATTAAT -TT-A- ATTAAT ATTAAT ATTAA-
1 ATTA-AT ATTAAT -ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT
*
681533 CTT-AT ATTAAT A-TAAT AT
1 ATTAAT ATTAAT ATTAAT AT
681551 AGTTTATAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 17
0.71 0.03 0.26
Matches are distributed among these distances:
4 4 0.09
5 14 0.30
6 23 0.50
7 5 0.11
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (6 bp):
ATTAAT
Found at i:681525 original size:21 final size:22
Alignment explanation
Indices: 681492--681550 Score: 79
Period size: 21 Copynumber: 2.8 Consensus size: 22
681482 TTTATAATTA
*
681492 TATATT-ATAATTAATATTAATT
1 TATATTAAT-ATTAATATTAACT
681514 TA-ATTAATATTAATATTAACT
1 TATATTAATATTAATATTAACT
681535 TATATTAATA-TAATAT
1 TATATTAATATTAATAT
681551 AGTTTATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
21 23 0.68
22 11 0.32
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
TATATTAATATTAATATTAACT
Found at i:681539 original size:16 final size:16
Alignment explanation
Indices: 681499--681579 Score: 78
Period size: 15 Copynumber: 5.0 Consensus size: 16
681489 TTATATATTA
681499 TAATTAATATTAAT-T
1 TAATTAATATTAATAT
681514 TAATTAATATTAATAT
1 TAATTAATATTAATAT
681530 TAACTT-ATATTAATA-
1 TAA-TTAATATTAATAT
* * *
681545 TAATATAGTTTATAATTT
1 TAAT-TAATAT-TAATAT
681563 GTAATTAATATTAATAT
1 -TAATTAATATTAATAT
681580 AAAATATAGT
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
14 1 0.02
15 18 0.34
16 15 0.28
17 11 0.21
18 4 0.08
19 4 0.08
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (16 bp):
TAATTAATATTAATAT
Found at i:681603 original size:31 final size:30
Alignment explanation
Indices: 681565--681758 Score: 153
Period size: 31 Copynumber: 6.0 Consensus size: 30
681555 TATAATTTGT
*
681565 AATTAATATTAATATAAAATATAGTCTATAA
1 AATTAATATTAATATAAACTATAGT-TATAA
681596 AATTAATATTAATATAAACTATATGTTAT-A
1 AATTAATATTAATATAAACTATA-GTTATAA
* *
681626 AATTATATAGTATAGTTTATAAACTATAGTTAATAT
1 AATTA-ATA-T-TA--ATATAAACTATAGTT-ATAA
*
681662 AATTAATATTAATAT--AGTATAGTTTATAA
1 AATTAATATTAATATAAACTATAG-TTATAA
*
681691 ACTATATATTATATTAATATAAATTATAGTTA-AGA
1 A--AT-TA--ATATTAATATAAACTATAGTTATA-A
*
681726 TAATTAACATTAATATAAACTATAGTTTATAA
1 -AATTAATATTAATATAAACTATAG-TTATAA
681758 A
1 A
681759 TTATATACTT
Statistics
Matches: 134, Mismatches: 9, Indels: 40
0.73 0.05 0.22
Matches are distributed among these distances:
29 10 0.07
30 8 0.06
31 51 0.38
32 9 0.07
33 7 0.05
34 17 0.13
35 20 0.15
36 12 0.09
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.42
Consensus pattern (30 bp):
AATTAATATTAATATAAACTATAGTTATAA
Found at i:681617 original size:24 final size:25
Alignment explanation
Indices: 681572--681618 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
681562 TGTAATTAAT
**
681572 ATTAATATAAAATATAGTCTATAAA
1 ATTAATATAAAATATAAACTATAAA
*
681597 ATTAATAT-TAATATAAACTATA
1 ATTAATATAAAATATAAACTATA
681619 TGTTATAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.38
Consensus pattern (25 bp):
ATTAATATAAAATATAAACTATAAA
Found at i:681645 original size:14 final size:14
Alignment explanation
Indices: 681628--681689 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
681618 ATGTTATAAA
681628 TTATATAGTATAGT
1 TTATATAGTATAGT
* *
681642 TTATAAACTATAGT
1 TTATATAGTATAGT
* *
681656 TAATATAATTAATA-T
1 TTATAT-AGT-ATAGT
*
681671 TAATATAGTATAGT
1 TTATATAGTATAGT
681685 TTATA
1 TTATA
681690 AACTATATAT
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
13 3 0.08
14 23 0.61
15 9 0.24
16 3 0.08
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.47
Consensus pattern (14 bp):
TTATATAGTATAGT
Found at i:681675 original size:15 final size:15
Alignment explanation
Indices: 681655--681743 Score: 56
Period size: 15 Copynumber: 5.6 Consensus size: 15
681645 TAAACTATAG
681655 TTAATATAATTAATA
1 TTAATATAATTAATA
* *
681670 TTAATATAGTATAGTTTA
1 TTAATATAAT-TA--ATA
*
681688 TAAACTATATATT-ATA
1 TTAA-TATA-ATTAATA
681704 TTAATATAAATT-ATA
1 TTAATAT-AATTAATA
* *
681719 GTTAAGATAATTAACA
1 -TTAATATAATTAATA
681735 TTAATATAA
1 TTAATATAA
681744 ACTATAGTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 16
0.70 0.11 0.20
Matches are distributed among these distances:
15 30 0.53
16 16 0.28
18 5 0.09
19 5 0.09
20 1 0.02
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.44
Consensus pattern (15 bp):
TTAATATAATTAATA
Found at i:681683 original size:29 final size:29
Alignment explanation
Indices: 681650--681742 Score: 80
Period size: 34 Copynumber: 3.0 Consensus size: 29
681640 GTTTATAAAC
681650 TATAGTTAATATAATTAATATTAATATAG
1 TATAGTTAATATAATTAATATTAATATAG
*
681679 TATAGTTTATAAACTATATATT-ATATTAATATAAAT
1 TATAG--T-T-AA-TATA-ATTAATATTAATAT--AG
* *
681715 TATAGTTAAGATAATTAACATTAATATA
1 TATAGTTAATATAATTAATATTAATATA
681743 AACTATAGTT
Statistics
Matches: 52, Mismatches: 3, Indels: 18
0.71 0.04 0.25
Matches are distributed among these distances:
29 6 0.12
30 3 0.06
31 13 0.25
32 3 0.06
33 3 0.06
34 15 0.29
35 3 0.06
36 6 0.12
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.44
Consensus pattern (29 bp):
TATAGTTAATATAATTAATATTAATATAG
Found at i:681686 original size:131 final size:131
Alignment explanation
Indices: 681523--681783 Score: 345
Period size: 131 Copynumber: 2.0 Consensus size: 131
681513 TTAATTAATA
** *
681523 TTAATATTAACTTATATTAATATAATATAGTTTATAATTTGTA-ATTAATATTAATATAAAATAT
1 TTAATATTAACTTATATTAATATAATATAGTTTATAAACTATATATT-ATATTAATATAAAATAT
* * *
681587 AGTCTATA-A-AATTAATATTAATATAAACTATA-TGTTATAAATTATATAGTATAGTTTATAAA
65 AGT-TA-AGATAATTAACATTAATATAAACTATAGT-TTATAAATTATATACT-TAGGTTATAAA
681649 CTATAG
126 CTATAG
* *
681655 TTAATA-TAA-TTAATATTAATATAGTATAGTTTATAAACTATATATTATATTAATATAAATTAT
1 TTAATATTAACTT-ATATTAATATAATATAGTTTATAAACTATATATTATATTAATATAAAATAT
*
681718 AGTTAAGATAATTAACATTAATATAAACTATAGTTTATAAATTATATACTTAGGTTATAAAGTAT
65 AGTTAAGATAATTAACATTAATATAAACTATAGTTTATAAATTATATACTTAGGTTATAAACTAT
681783 A
130 A
681784 AACTATATAG
Statistics
Matches: 115, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
129 1 0.01
130 19 0.17
131 85 0.74
132 10 0.09
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (131 bp):
TTAATATTAACTTATATTAATATAATATAGTTTATAAACTATATATTATATTAATATAAAATATA
GTTAAGATAATTAACATTAATATAAACTATAGTTTATAAATTATATACTTAGGTTATAAACTATA
G
Found at i:681777 original size:65 final size:64
Alignment explanation
Indices: 681596--681783 Score: 220
Period size: 65 Copynumber: 2.9 Consensus size: 64
681586 TAGTCTATAA
*
681596 AATTAATATTAATATAAACTATA-TGTTATAAATTATATAGTATAGTTTATAAACTATAGTTAAT
1 AATTAATATTAATATAAACTATAGT-TTATAAATTATATA-T-TAGTTTATAAACTATAGTTAAG
681660 AT
63 AT
* * * *
681662 AATTAATATTAATAT--AGTATAGTTTATAAACTATATATTATATTAATATAAATTATAGTTAAG
1 AATTAATATTAATATAAACTATAGTTTATAAATTATATATTA-GTT--TATAAACTATAGTTAAG
681725 AT
63 AT
* * *
681727 AATTAACATTAATATAAACTATAGTTTATAAATTATATACTTAGGTTATAAAGTATA
1 AATTAATATTAATATAAACTATAGTTTATAAATTATATA-TTAGTTTATAAACTATA
681784 AACTATATAG
Statistics
Matches: 104, Mismatches: 11, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
62 2 0.02
63 3 0.03
64 18 0.17
65 42 0.40
66 15 0.14
67 21 0.20
68 3 0.03
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.43
Consensus pattern (64 bp):
AATTAATATTAATATAAACTATAGTTTATAAATTATATATTAGTTTATAAACTATAGTTAAGAT
Found at i:681898 original size:15 final size:15
Alignment explanation
Indices: 681874--681911 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
681864 GTATATATAC
681874 ATATACTATAT-GTTAT
1 ATATA-TATATAGTT-T
681890 ATATATATATAGTTT
1 ATATATATATAGTTT
681905 ATATATA
1 ATATATA
681912 GTGTACATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (15 bp):
ATATATATATAGTTT
Found at i:681906 original size:17 final size:16
Alignment explanation
Indices: 681874--681911 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
681864 GTATATATAC
681874 ATATACTATATGTTAT
1 ATATACTATATGTTAT
681890 ATATA-TATATAGTTTAT
1 ATATACTATAT-G-TTAT
681907 ATATA
1 ATATA
681912 GTGTACATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 5 0.25
16 6 0.30
17 9 0.45
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (16 bp):
ATATACTATATGTTAT
Found at i:681953 original size:61 final size:61
Alignment explanation
Indices: 681833--681955 Score: 153
Period size: 59 Copynumber: 2.0 Consensus size: 61
681823 TATAAATTAC
* *
681833 ATATATAGTTTATATAACATATAAATAGATTGTATATATACATATACTATATGTTATATAT
1 ATATATAGTTTATATAACATATAAATAGATTGTATACATACATATACTATAAGTTATATAT
* * * * *
681894 ATATATAGTTTATATATA-GTGTACATAG-TT-TATACATACATGTACTATAAGTTACATAT
1 ATATATAGTTTATATA-ACATATAAATAGATTGTATACATACATATACTATAAGTTATATAT
681953 ATA
1 ATA
681956 GTTTACATGT
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
59 28 0.52
60 2 0.04
61 23 0.43
62 1 0.02
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.43
Consensus pattern (61 bp):
ATATATAGTTTATATAACATATAAATAGATTGTATACATACATATACTATAAGTTATATAT
Found at i:682191 original size:20 final size:20
Alignment explanation
Indices: 682168--682207 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
682158 TACTTTACTT
* *
682168 TATATATAGTTTATATATAC
1 TATAGATAGTTTATACATAC
682188 TATAGATAGTTTATACATAC
1 TATAGATAGTTTATACATAC
682208 ATGTACTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.45
Consensus pattern (20 bp):
TATAGATAGTTTATACATAC
Found at i:682459 original size:2 final size:2
Alignment explanation
Indices: 682452--682572 Score: 53
Period size: 2 Copynumber: 62.0 Consensus size: 2
682442 GCATAGTATT
* *
682452 TA TA TA TA TA TA TA TA T- TA CT- TA TA T- TA GT- TCA CA TA CA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA T-A TA TA TA
* * *
682491 TA TA TA TA TA CTA TA T- TA -A TA TA AA T- TA TA -A TT TA TA AA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
682530 CTA TA TA T- TT TA TA CA TA TA TA GTT TA TA TA TA TA TA TA TA TA
1 -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
682573 GAAAATTAAA
Statistics
Matches: 89, Mismatches: 15, Indels: 30
0.66 0.11 0.22
Matches are distributed among these distances:
1 9 0.10
2 74 0.83
3 6 0.07
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:682529 original size:14 final size:15
Alignment explanation
Indices: 682510--682566 Score: 62
Period size: 15 Copynumber: 3.8 Consensus size: 15
682500 ACTATATTAA
682510 TATAAAT-TATAATT
1 TATAAATATATAATT
*
682524 TATAAACTATATATTT
1 TATAAA-TATATAATT
* *
682540 TATACATATATAGTT
1 TATAAATATATAATT
*
682555 TATATATATATA
1 TATAAATATATA
682567 TATATAGAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
14 6 0.16
15 20 0.54
16 11 0.30
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.49
Consensus pattern (15 bp):
TATAAATATATAATT
Found at i:682550 original size:13 final size:14
Alignment explanation
Indices: 682517--682572 Score: 51
Period size: 15 Copynumber: 3.9 Consensus size: 14
682507 TAATATAAAT
*
682517 TATA-ATTTATAAA
1 TATATATTTATACA
682530 CTATATATTTTATACA
1 -TATATA-TTTATACA
*
682546 TATATAGTTTATATA
1 TATATA-TTTATACA
*
682561 TATATATATATA
1 TATATATTTATA
682573 GAAAATTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
14 9 0.25
15 20 0.56
16 7 0.19
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.50
Consensus pattern (14 bp):
TATATATTTATACA
Found at i:682560 original size:17 final size:16
Alignment explanation
Indices: 682491--682569 Score: 65
Period size: 17 Copynumber: 4.9 Consensus size: 16
682481 TTCACATACA
*
682491 TATATATATACTATATT
1 TATATACATA-TATATT
* *
682508 AATATAAAT-TATAATT
1 TATATACATATAT-ATT
*
682524 TATAAAC-TATATATT
1 TATATACATATATATT
682539 T-TATACATATATAGTT
1 TATATACATATATA-TT
*
682555 TATATATATATATAT
1 TATATACATATATAT
682570 ATAGAAAATT
Statistics
Matches: 50, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
14 4 0.08
15 14 0.28
16 14 0.28
17 18 0.36
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (16 bp):
TATATACATATATATT
Found at i:682866 original size:20 final size:22
Alignment explanation
Indices: 682836--682879 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
682826 AATCAAATAT
682836 TTTTCACAC-AAAAAATATTTC
1 TTTTCACACAAAAAAATATTTC
682857 TTTT-ACACAAAAAAATATTTC
1 TTTTCACACAAAAAAATATTTC
682878 TT
1 TT
682880 CCACCACTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.43, C:0.16, G:0.00, T:0.41
Consensus pattern (22 bp):
TTTTCACACAAAAAAATATTTC
Found at i:682974 original size:15 final size:15
Alignment explanation
Indices: 682954--682985 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
682944 ATACACTTTT
682954 TATAGTTTATACATA
1 TATAGTTTATACATA
*
682969 TATAGTTTATATATA
1 TATAGTTTATACATA
682984 TA
1 TA
682986 ATTCACATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (15 bp):
TATAGTTTATACATA
Found at i:683060 original size:2 final size:2
Alignment explanation
Indices: 683026--683094 Score: 81
Period size: 2 Copynumber: 35.5 Consensus size: 2
683016 TTACAATAAT
* * *
683026 TA TA TA -A TT TA TA -A TA TA AA TA TA GTT TA TA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
683066 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
683095 TATTTTTTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
1 3 0.05
2 53 0.93
3 1 0.02
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (2 bp):
TA
Found at i:684204 original size:2 final size:2
Alignment explanation
Indices: 684197--684233 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
684187 AACTAACGGA
684197 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
684234 GAGAGAGAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:684238 original size:2 final size:2
Alignment explanation
Indices: 684233--684259 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
684223 ATATATATAT
684233 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 A
684260 CTAGTTAACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:686330 original size:31 final size:31
Alignment explanation
Indices: 686295--686363 Score: 129
Period size: 31 Copynumber: 2.2 Consensus size: 31
686285 AGAAAATTAC
*
686295 AGCATGCGCATGAGGAAGTGCAATGGTTAAA
1 AGCATGCGCATGAGGAAGTGCAATAGTTAAA
686326 AGCATGCGCATGAGGAAGTGCAATAGTTAAA
1 AGCATGCGCATGAGGAAGTGCAATAGTTAAA
686357 AGCATGC
1 AGCATGC
686364 ACGACTAGTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.36, C:0.14, G:0.30, T:0.19
Consensus pattern (31 bp):
AGCATGCGCATGAGGAAGTGCAATAGTTAAA
Found at i:690634 original size:24 final size:25
Alignment explanation
Indices: 690601--690650 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
690591 ATGTTAATTT
690601 TAAAAATATA-TTTAAAATAAA-AAA
1 TAAAAATATATTTTAAAA-AAACAAA
*
690625 TAAAATTATATTTTAAAAAAACAAA
1 TAAAAATATATTTTAAAAAAACAAA
690650 T
1 T
690651 TTTTTTGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 12 0.52
25 11 0.48
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (25 bp):
TAAAAATATATTTTAAAAAAACAAA
Done.