Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_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: 11160956
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 55
Found at i:566703 original size:25 final size:24
Alignment explanation
Indices: 566632--566704 Score: 69
Period size: 25 Copynumber: 3.0 Consensus size: 24
566622 TTCTGTTATT
* *
566632 ATTATTATTATTAAT-ATAAAT-T
1 ATTATTATTATTAATAAAAAATAC
* * *
566654 ATTATTATTATTATTATTAATATAC
1 ATTATTATTATTAATA-AAAAATAC
566679 ATTATTATTATTAAATAAAAAATAC
1 ATTATTATTATT-AATAAAAAATAC
566704 A
1 A
566705 AATCCCGGAG
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
22 14 0.36
24 3 0.08
25 19 0.49
26 3 0.08
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (24 bp):
ATTATTATTATTAATAAAAAATAC
Found at i:567982 original size:12 final size:11
Alignment explanation
Indices: 567942--568003 Score: 67
Period size: 11 Copynumber: 5.7 Consensus size: 11
567932 TTATTTGCAA
*
567942 TATTATTTTAT
1 TATTATTTAAT
*
567953 TATTACTT--T
1 TATTATTTAAT
567962 TA-TATTTTAAT
1 TATTA-TTTAAT
567973 TATTGATTTAAT
1 TATT-ATTTAAT
567985 TATTATTTAAT
1 TATTATTTAAT
567996 TATTATTT
1 TATTATTT
568004 TTATCATAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
8 2 0.05
9 5 0.11
11 25 0.57
12 11 0.25
13 1 0.02
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (11 bp):
TATTATTTAAT
Found at i:567987 original size:23 final size:22
Alignment explanation
Indices: 567942--568003 Score: 67
Period size: 23 Copynumber: 2.9 Consensus size: 22
567932 TTATTTGCAA
* *
567942 TATTATTTTATTATTACTT--T
1 TATTATTTAATTATTATTTAAT
567962 TA-TATTTTAATTATTGATTTAAT
1 TATTA-TTTAATTATT-ATTTAAT
567985 TATTATTTAATTATTATTT
1 TATTATTTAATTATTATTT
568004 TTATCATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
19 2 0.06
20 11 0.31
21 3 0.09
22 4 0.11
23 13 0.37
24 2 0.06
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (22 bp):
TATTATTTAATTATTATTTAAT
Found at i:573218 original size:12 final size:12
Alignment explanation
Indices: 573198--573250 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
573188 TTTATTCATC
573198 TATTCATTTATTT
1 TATT-ATTTATTT
*
573211 TATTATTTA--A
1 TATTATTTATTT
573221 TA-TA-TTATGTT
1 TATTATTTAT-TT
573232 TATTATTTATTT
1 TATTATTTATTT
573244 TATTATT
1 TATTATT
573251 ATTATGGTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 11
0.72 0.04 0.24
Matches are distributed among these distances:
8 3 0.09
9 2 0.06
10 2 0.06
11 2 0.06
12 16 0.48
13 8 0.24
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (12 bp):
TATTATTTATTT
Found at i:573233 original size:21 final size:20
Alignment explanation
Indices: 573205--573255 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
573195 ATCTATTCAT
573205 TTATTTTATTATTTAATATA
1 TTATTTTATTATTTAATATA
* *
573225 TTATGTTTATTATTTATTTTA
1 TTAT-TTTATTATTTAATATA
573246 TTATTATTAT
1 TTATT-TTAT
573256 GGTATATTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 5 0.19
21 22 0.81
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (20 bp):
TTATTTTATTATTTAATATA
Found at i:573342 original size:34 final size:38
Alignment explanation
Indices: 573281--573351 Score: 87
Period size: 37 Copynumber: 1.9 Consensus size: 38
573271 TATTCTATTC
* *
573281 TTATTATTATTGATTTTTTCCATTA-TTTATT-TATTTA
1 TTATTATTATTGACTTTTT-CAGTATTTTATTATATTTA
573318 TTATTATTATT-ACTTTTT-AGTATTTTATTATATT
1 TTATTATTATTGACTTTTTCAGTATTTTATTATATT
573352 ATACATACAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
34 3 0.10
35 6 0.20
36 10 0.33
37 11 0.37
ACGTcount: A:0.25, C:0.04, G:0.03, T:0.68
Consensus pattern (38 bp):
TTATTATTATTGACTTTTTCAGTATTTTATTATATTTA
Found at i:573393 original size:26 final size:26
Alignment explanation
Indices: 573338--573413 Score: 67
Period size: 26 Copynumber: 3.2 Consensus size: 26
573328 TACTTTTTAG
* *
573338 TATTTTATTATATTATACATAC-A--
1 TATTTTATTATTTTATATATACTATT
*
573361 TA-TTTA-TA-TTTGTATATA-TATT
1 TATTTTATTATTTTATATATACTATT
*
573383 TATTTTATTATTTTATTTATACTATT
1 TATTTTATTATTTTATATATACTATT
573409 TATTT
1 TATTT
573414 ATTTTCATTG
Statistics
Matches: 41, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
20 8 0.20
21 2 0.05
22 6 0.15
23 6 0.15
24 2 0.05
25 8 0.20
26 9 0.22
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (26 bp):
TATTTTATTATTTTATATATACTATT
Found at i:573413 original size:30 final size:30
Alignment explanation
Indices: 573361--573418 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
573351 TATACATACA
*
573361 TATTTATATTTGTATATATATTTATTTTAT
1 TATTTATATTTATATATATATTTATTTTAT
*
573391 TATTT-TATTTATACTATTTATTTATTTT
1 TATTTATATTTATA-TATATATTTATTTT
573419 CATTGTGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (30 bp):
TATTTATATTTATATATATATTTATTTTAT
Found at i:573414 original size:13 final size:12
Alignment explanation
Indices: 573365--573415 Score: 50
Period size: 13 Copynumber: 4.1 Consensus size: 12
573355 CATACATATT
* *
573365 TATATTTGTATA
1 TATATTTATTTA
573377 TATATTTATTT-
1 TATATTTATTTA
573388 TATTATTTTATTTA
1 TA-TA-TTTATTTA
573402 TACTATTTATTTA
1 TA-TATTTATTTA
573415 T
1 T
573416 TTTCATTGTG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
11 2 0.06
12 11 0.33
13 16 0.48
14 4 0.12
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (12 bp):
TATATTTATTTA
Found at i:583984 original size:55 final size:54
Alignment explanation
Indices: 583891--583996 Score: 124
Period size: 55 Copynumber: 1.9 Consensus size: 54
583881 AATACTTTGC
* * * *
583891 TTAGGATGAAAACCCGAGAGGGCGTCTTAAGTAAAAAAACGAAAA-AGAAAAACGT
1 TTAGGATGAAAACCCGAAAGGGCGCCCTAAATAAAAAAA--AAAAGAGAAAAACGT
* **
583946 TTAGGGTGAAAACCCGAAAGGGCGCCCTAAATTGAAAAAAAAAGAGAAAAA
1 TTAGGATGAAAACCCGAAAGGGCGCCCTAAATAAAAAAAAAAAGAGAAAAA
583997 AGAACAAAAG
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
53 4 0.09
54 7 0.16
55 32 0.74
ACGTcount: A:0.50, C:0.13, G:0.24, T:0.13
Consensus pattern (54 bp):
TTAGGATGAAAACCCGAAAGGGCGCCCTAAATAAAAAAAAAAAGAGAAAAACGT
Found at i:583997 original size:9 final size:8
Alignment explanation
Indices: 583982--584026 Score: 54
Period size: 8 Copynumber: 5.5 Consensus size: 8
583972 CTAAATTGAA
583982 AAAAAAAG
1 AAAAAAAG
583990 AGAAAAAAG
1 A-AAAAAAG
*
583999 AACAAAAG
1 AAAAAAAG
*
584007 AACAAAAG
1 AAAAAAAG
*
584015 AAAAAGAG
1 AAAAAAAG
584023 AAAA
1 AAAA
584027 GAAAAATAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
8 25 0.76
9 8 0.24
ACGTcount: A:0.80, C:0.04, G:0.16, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:584024 original size:8 final size:7
Alignment explanation
Indices: 583980--584032 Score: 56
Period size: 7 Copynumber: 7.6 Consensus size: 7
583970 CCCTAAATTG
583980 AAAAA-A
1 AAAAAGA
*
583986 AAAGAGA
1 AAAAAGA
583993 AAAAAGA
1 AAAAAGA
584000 ACAAAAGA
1 A-AAAAGA
584008 ACAAAAG-
1 A-AAAAGA
584015 AAAAAGA
1 AAAAAGA
*
584022 GAAAAGA
1 AAAAAGA
584029 AAAA
1 AAAA
584033 TAAGGTGGGT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
6 9 0.22
7 18 0.45
8 13 0.32
ACGTcount: A:0.81, C:0.04, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:584024 original size:16 final size:15
Alignment explanation
Indices: 583980--584026 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
583970 CCCTAAATTG
583980 AAAA-AAAAAGAGAA
1 AAAAGAAAAAGAGAA
583994 AAAAGAACAAA-AGAA
1 AAAAGAA-AAAGAGAA
584009 CAAAAGAAAAAGAGAA
1 -AAAAGAAAAAGAGAA
584025 AA
1 AA
584027 GAAAAATAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
14 4 0.14
15 11 0.38
16 14 0.48
ACGTcount: A:0.81, C:0.04, G:0.15, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAAGAGAA
Found at i:585341 original size:110 final size:110
Alignment explanation
Indices: 585141--585397 Score: 335
Period size: 110 Copynumber: 2.4 Consensus size: 110
585131 GCTTCCCAGT
* *
585141 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCT
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAACTCAACTTCA
* *
585206 CAATGAAGGGGCGACTGATTGTCAACAAACAACTTTTCAGTTTCA
66 CAATGAAGGGGCGACTGACTATCAACAAACAACTTTTCAGTTTCA
* *
585251 TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAACTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAACTCAACTTCA
* * * * *
585316 CAGTGAAGGGGCGGCTGGCTATCAACAAACAA-TTTCCCAGTTCCA
66 CAATGAAGGGGCGACTGACTATCAACAAACAACTTT-TCAGTTTCA
* * * *
585361 -T-A-A-CCAATTTTAACTTCACGGTGGAGGATATTGGACT
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACT
585398 TGGAGCAATG
Statistics
Matches: 130, Mismatches: 16, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
106 29 0.22
107 1 0.01
108 1 0.01
109 4 0.03
110 95 0.73
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (110 bp):
TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAACTCAACTTCA
CAATGAAGGGGCGACTGACTATCAACAAACAACTTTTCAGTTTCA
Found at i:587451 original size:22 final size:22
Alignment explanation
Indices: 587426--587481 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
587416 ATACATACAT
*
587426 TTTTA-TATTTGTATATATTTTA
1 TTTTATTATTT-TATATATATTA
*
587448 TTTTATTATTTTATTTATATTA
1 TTTTATTATTTTATATATATTA
587470 -TTTATTTATTTT
1 TTTTA-TTATTTT
587482 CATTGTGTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 4 0.13
22 21 0.70
23 5 0.17
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (22 bp):
TTTTATTATTTTATATATATTA
Found at i:587459 original size:13 final size:14
Alignment explanation
Indices: 587431--587478 Score: 64
Period size: 13 Copynumber: 3.5 Consensus size: 14
587421 TACATTTTTA
*
587431 TATTTGTATATATTT
1 TATTTATAT-TATTT
587446 TATTT-TATTATTT
1 TATTTATATTATTT
587459 TATTTATATTA-TT
1 TATTTATATTATTT
587472 TATTTAT
1 TATTTAT
587479 TTTCATTGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
13 19 0.59
14 8 0.25
15 5 0.16
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (14 bp):
TATTTATATTATTT
Found at i:589998 original size:20 final size:20
Alignment explanation
Indices: 589973--590011 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
589963 AACAGTCAAA
*
589973 GGCCAAATGGCCGACTAAAT
1 GGCCAAACGGCCGACTAAAT
*
589993 GGCCAAACGGCCGGCTAAA
1 GGCCAAACGGCCGACTAAA
590012 CAATTGATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.28, G:0.28, T:0.10
Consensus pattern (20 bp):
GGCCAAACGGCCGACTAAAT
Found at i:600154 original size:25 final size:26
Alignment explanation
Indices: 600120--600173 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
600110 TCAAGTAATG
600120 CAGTTTCCG-CATGCAATTTATTGAC
1 CAGTTTCCGCCATGCAATTTATTGAC
600145 CAGTTTCCGCCATGCAATTTATTGAC
1 CAGTTTCCGCCATGCAATTTATTGAC
600171 CAG
1 CAG
600174 CTAACTCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 9 0.32
26 19 0.68
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (26 bp):
CAGTTTCCGCCATGCAATTTATTGAC
Found at i:605284 original size:44 final size:45
Alignment explanation
Indices: 605162--605287 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 45
605152 GATAAAATCT
*
605162 CTTACCCTTTATCCCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAAAATA
*
605207 CTTACCATTTAATCCCATAAGCTCGTAAGCTTATTTTACCAATATA
1 CTTACCATTT-ATCCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* *
605253 CTTGCCA-TTATTCCATAAGCTCGTAAGCTTATTTT
1 CTTACCATTTATCCCATAAGCTCGTAAGCTTATTTT
605288 TCCAGTTTAT
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
44 25 0.33
45 11 0.14
46 40 0.53
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.38
Consensus pattern (45 bp):
CTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAAAATA
Found at i:607259 original size:14 final size:14
Alignment explanation
Indices: 607240--607272 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
607230 AAATTCCAAT
607240 TCGATCTGAATTTA
1 TCGATCTGAATTTA
607254 TCGATCTGAATTTA
1 TCGATCTGAATTTA
607268 TCGAT
1 TCGAT
607273 TCTTTACCGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.42
Consensus pattern (14 bp):
TCGATCTGAATTTA
Found at i:618124 original size:124 final size:126
Alignment explanation
Indices: 617856--618142 Score: 420
Period size: 124 Copynumber: 2.3 Consensus size: 126
617846 ACATATTAAA
* * *
617856 ATAATAATAAAATATTTTAAGTTGATAT-ATTTAAAAAAATAGATTTTTATTAAAAATATTTTAA
1 ATAATAATAAAATATTTTAAGTTAATATAATTTAAAAAAAAAGATTTGTATTAAAAATATTTTAA
* *
617920 ATAATTTTTATTTTTAAGTTAAGTTAATATATTTTAAAAATATATATTCGTATTATATTCAT
66 ATAATTTCTATTTTTAAGTTAAG-TAATATATTTAAAAAATATATATTCGTATTATATTCAT
*
617982 ATAATAATAAAATATTTTAAGTTAATATAATTTAAAAAAAAATATTTGTATTAAAAATATATTTA
1 ATAATAATAAAATATTTTAAGTTAATATAATTTAAAAAAAAAGATTTGTATTAAAAATAT-TTTA
* * * **
618047 TATAATTTCTATTTTTAAGTTAA-T-ATAT-TTTAAAAAATATATATTTGTATTATCTTGGT
65 AATAATTTCTATTTTTAAGTTAAGTAATATATTTAAAAAATATATATTCGTATTATATTCAT
*
618106 ATAATAATAAAATATTTTAAGTTAATATATTTTAAAA
1 ATAATAATAAAATATTTTAAGTTAATATAATTTAAAA
618143 TATATATATT
Statistics
Matches: 147, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
124 62 0.42
125 4 0.03
126 28 0.19
127 28 0.19
128 25 0.17
ACGTcount: A:0.47, C:0.01, G:0.05, T:0.47
Consensus pattern (126 bp):
ATAATAATAAAATATTTTAAGTTAATATAATTTAAAAAAAAAGATTTGTATTAAAAATATTTTAA
ATAATTTCTATTTTTAAGTTAAGTAATATATTTAAAAAATATATATTCGTATTATATTCAT
Found at i:618128 original size:61 final size:60
Alignment explanation
Indices: 617938--618152 Score: 247
Period size: 61 Copynumber: 3.5 Consensus size: 60
617928 TATTTTTAAG
*
617938 TTAAGTTAATATATTTT-AAAAATATATATTCGTATTATATTCATATAATAATAAAATATT
1 TTAAGTTAATATATTTTAAAAAATATATATTTGTATTATATT-ATATAATAATAAAATATT
* * * * ***
617998 TTAAGTTAATATAATTTAAAAAA-AAATATTTGTATTAAAAATATATTTATATAAT-TTCTATTT
1 TTAAGTTAATATATTTTAAAAAATATATATTTGTATT--ATAT-TATATA-ATAATAAAATA-TT
* *
618061 TTAAGTTAATATATTTTAAAAAATATATATTTGTATTATCTTGGTATAATAATAAAATATT
1 TTAAGTTAATATATTTTAAAAAATATATATTTGTATTATATT-ATATAATAATAAAATATT
*
618122 TTAAGTTAATATATTTTAAAATATATATATT
1 TTAAGTTAATATATTTTAAAAAATATATATT
618153 CATATTATTT
Statistics
Matches: 128, Mismatches: 18, Indels: 17
0.79 0.11 0.10
Matches are distributed among these distances:
60 27 0.21
61 43 0.34
62 16 0.12
63 30 0.23
64 12 0.09
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (60 bp):
TTAAGTTAATATATTTTAAAAAATATATATTTGTATTATATTATATAATAATAAAATATT
Found at i:622675 original size:20 final size:21
Alignment explanation
Indices: 622632--622677 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
622622 CAAGACGAGG
* * *
622632 GTATCGATACTAGACCCTTTA
1 GTATCAATACTAGACCCCTGA
622653 GTATCAATACT-GACCCCTGA
1 GTATCAATACTAGACCCCTGA
622673 GTATC
1 GTATC
622678 GGTACCAACA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.30
Consensus pattern (21 bp):
GTATCAATACTAGACCCCTGA
Found at i:625770 original size:38 final size:38
Alignment explanation
Indices: 625719--625803 Score: 170
Period size: 38 Copynumber: 2.2 Consensus size: 38
625709 TTATGCTTTT
625719 GAGTTTGAGCCTTAACTATCAAAGAAATCACTTCTAAG
1 GAGTTTGAGCCTTAACTATCAAAGAAATCACTTCTAAG
625757 GAGTTTGAGCCTTAACTATCAAAGAAATCACTTCTAAG
1 GAGTTTGAGCCTTAACTATCAAAGAAATCACTTCTAAG
625795 GAGTTTGAG
1 GAGTTTGAG
625804 TCTCTGCATC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 47 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (38 bp):
GAGTTTGAGCCTTAACTATCAAAGAAATCACTTCTAAG
Found at i:627388 original size:13 final size:13
Alignment explanation
Indices: 627370--627400 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
627360 TAAAAGGAAG
627370 AAAAAAAGGTTTT
1 AAAAAAAGGTTTT
*
627383 AAAAAAGGGTTTT
1 AAAAAAAGGTTTT
627396 AAAAA
1 AAAAA
627401 TAATAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.16, T:0.26
Consensus pattern (13 bp):
AAAAAAAGGTTTT
Found at i:627459 original size:17 final size:16
Alignment explanation
Indices: 627437--627484 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 16
627427 AAGGATGATA
627437 AAATAATAATAAAAAT
1 AAATAATAATAAAAAT
627453 GAAATAATAA-AAAAAT
1 -AAATAATAATAAAAAT
*
627469 AAAAAATAAATAAAAA
1 AAATAAT-AATAAAAA
627485 CATACAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 6 0.21
16 8 0.29
17 14 0.50
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (16 bp):
AAATAATAATAAAAAT
Found at i:627479 original size:11 final size:11
Alignment explanation
Indices: 627434--627484 Score: 54
Period size: 11 Copynumber: 4.6 Consensus size: 11
627424 TAAAAGGATG
627434 ATAAAATAAT-A
1 ATAAAA-AATAA
627445 AT-AAAAATGAA
1 ATAAAAAAT-AA
627456 ATAATAAAA-AA
1 ATAA-AAAATAA
627467 ATAAAAAATAA
1 ATAAAAAATAA
627478 ATAAAAA
1 ATAAAAA
627485 CATACAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
9 3 0.09
10 7 0.20
11 20 0.57
12 1 0.03
13 4 0.11
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (11 bp):
ATAAAAAATAA
Found at i:627482 original size:19 final size:19
Alignment explanation
Indices: 627454--627495 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
627444 AATAAAAATG
627454 AAATAATAAAAAAATA-AA
1 AAATAATAAAAAAATACAA
*
627472 AAATAAATAAAAACATACAA
1 AAAT-AATAAAAAAATACAA
627492 AAAT
1 AAAT
627496 TAAAAGGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 4 0.19
19 11 0.52
20 6 0.29
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.17
Consensus pattern (19 bp):
AAATAATAAAAAAATACAA
Found at i:629006 original size:77 final size:78
Alignment explanation
Indices: 628911--629232 Score: 331
Period size: 77 Copynumber: 4.2 Consensus size: 78
628901 ATTTTTAAAA
* * * * * * *
628911 ATATATTAGATAT-GTTTTTGAAAATTGTTTTCAAAACCATATAGTA-ATATATTTTCAAAA-AT
1 ATATATTATATATATTTTTTAAAAAATATTTTCAAAACTATATATTACATATATTTTCAAAATAT
*
628973 TATTTTCAAAACT
66 TGTTTTCAAAACT
* *
628986 ATATATTATATACAATTTTTTAAAAAATATTTTCAAAACTATATATTACATATATTTTCAAAATG
1 ATATATTATATA-TATTTTTTAAAAAATATTTTCAAAACTATATATTACATATATTTTCAAAATA
* *
629051 TTTTTTTAAAAACT
65 TTGTTTTCAAAACT
* *
629065 ATATATTATATATA-TTTTCAAAAAATATTTTCAAAAACTATATATTATATATATTTTCAAAA-A
1 ATATATTATATATATTTTTTAAAAAATATTTTC-AAAACTATATATTACATATATTTTCAAAATA
629128 -TGTTTTCAAAAACT
65 TTGTTTTC-AAAACT
* * * * * * *
629142 ATATACTATATATATGTTTT--CAAATTTTTTTAAAACTATATA--ATATATATTTTAAAAATAT
1 ATATATTATATATATTTTTTAAAAAATATTTTCAAAACTATATATTACATATATTTTCAAAATAT
*
629203 TGTTTTCAAGACT
66 TGTTTTCAAAACT
629216 ATAATATATATATATAT
1 AT-ATAT-TATATATAT
629233 ATTCAAAAAT
Statistics
Matches: 210, Mismatches: 26, Indels: 21
0.82 0.10 0.08
Matches are distributed among these distances:
73 15 0.07
74 8 0.04
75 32 0.15
76 22 0.10
77 63 0.30
78 46 0.22
79 24 0.11
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (78 bp):
ATATATTATATATATTTTTTAAAAAATATTTTCAAAACTATATATTACATATATTTTCAAAATAT
TGTTTTCAAAACT
Found at i:629063 original size:39 final size:38
Alignment explanation
Indices: 628911--629242 Score: 320
Period size: 39 Copynumber: 8.7 Consensus size: 38
628901 ATTTTTAAAA
* * ** * *
628911 ATATATTAGATATGTTTTTGAAAATTGTTTTCAAAACC
1 ATATATTATATATATTTTCAAAAATTTTTTTCAAAACT
* *
628949 ATATAGTA-ATATATTTTCAAAAATTATTTTCAAAACT
1 ATATATTATATATATTTTCAAAAATTTTTTTCAAAACT
* * * *
628986 ATATATTATATACAATTTTTTAAAAAATATTTTCAAAACT
1 ATATATTATATA-TA-TTTTCAAAAATTTTTTTCAAAACT
* * *
629026 ATATATTACATATATTTTCAAAATGTTTTTTTAAAAACT
1 ATATATTATATATATTTTCAAAA-ATTTTTTTCAAAACT
* *
629065 ATATATTATATATATTTTCAAAAAATATTTTCAAAAACT
1 ATATATTATATATATTTTCAAAAATTTTTTTC-AAAACT
*
629104 ATATATTATATATATTTTCAAAAA-TGTTTTCAAAAACT
1 ATATATTATATATATTTTCAAAAATTTTTTTC-AAAACT
*
629142 ATATACTATATATATGTTTTC--AAATTTTTTT-AAAACT
1 ATATA-T-TATATATATTTTCAAAAATTTTTTTCAAAACT
*
629179 ATATA--ATATATATTTT-AAAAATATTGTTTTCAAGACT
1 ATATATTATATATATTTTCAAAAAT-TT-TTTTCAAAACT
*
629216 ATAATATATATATATATATTCAAAAAT
1 AT-ATAT-TATATATATTTTCAAAAAT
629243 CGATTTTAAA
Statistics
Matches: 248, Mismatches: 28, Indels: 32
0.81 0.09 0.10
Matches are distributed among these distances:
33 10 0.04
34 4 0.02
35 2 0.01
36 4 0.02
37 49 0.20
38 47 0.19
39 71 0.29
40 45 0.18
41 10 0.04
42 6 0.02
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.45
Consensus pattern (38 bp):
ATATATTATATATATTTTCAAAAATTTTTTTCAAAACT
Found at i:629094 original size:13 final size:13
Alignment explanation
Indices: 629076--629139 Score: 53
Period size: 13 Copynumber: 5.0 Consensus size: 13
629066 TATATTATAT
629076 ATATTTTCAAAAA
1 ATATTTTCAAAAA
629089 ATATTTTCAAAAA
1 ATATTTTCAAAAA
* * *
629102 CTATATATT--ATAT
1 --ATATTTTCAAAAA
629115 ATATTTTC-AAAA
1 ATATTTTCAAAAA
*
629127 ATGTTTTCAAAAA
1 ATATTTTCAAAAA
629140 CTATATACTA
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
11 6 0.15
12 9 0.22
13 19 0.47
15 6 0.15
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.42
Consensus pattern (13 bp):
ATATTTTCAAAAA
Found at i:635138 original size:26 final size:25
Alignment explanation
Indices: 635104--635187 Score: 86
Period size: 25 Copynumber: 3.4 Consensus size: 25
635094 TAAATTAAGA
635104 TTAACATTAATTATATTCAATATATTC
1 TTAA-ATTAATTATATT-AATATATTC
*
635131 TTAAATT-A--ATATTAAAATATT-
1 TTAAATTAATTATATTAATATATTC
* *
635152 TTAAACTAAATTACATTAATATATTC
1 TTAAA-TTAATTATATTAATATATTC
635178 TTAAATTAAT
1 TTAAATTAAT
635188 ATTGCTATTA
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
21 5 0.11
22 8 0.17
23 6 0.13
25 16 0.34
26 8 0.17
27 4 0.09
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (25 bp):
TTAAATTAATTATATTAATATATTC
Found at i:636125 original size:2 final size:2
Alignment explanation
Indices: 636118--636144 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
636108 CAAATATGAT
636118 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 T
636145 CTTCATATAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:637702 original size:49 final size:49
Alignment explanation
Indices: 637645--637742 Score: 169
Period size: 49 Copynumber: 2.0 Consensus size: 49
637635 ATATATGTTG
* *
637645 GTCAAACTTGCAGGTGCAATAAAAGGCAATAGGAGAAATTGGTTGCCAA
1 GTCAAACTTGCAGATGCAATAAAAGACAATAGGAGAAATTGGTTGCCAA
*
637694 GTCAAACTTGCAGATGCAATAAATGACAATAGGAGAAATTGGTTGCCAA
1 GTCAAACTTGCAGATGCAATAAAAGACAATAGGAGAAATTGGTTGCCAA
637743 ACCAACAACC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.21
Consensus pattern (49 bp):
GTCAAACTTGCAGATGCAATAAAAGACAATAGGAGAAATTGGTTGCCAA
Found at i:642302 original size:49 final size:49
Alignment explanation
Indices: 642223--642321 Score: 171
Period size: 49 Copynumber: 2.0 Consensus size: 49
642213 GAGATTGTTG
*
642223 GTCAAACTTGCAGGTGCAATAAAGGGCAATAAGAGAAATTGGTTGCCAA
1 GTCAAACTTGCAGGTGCAATAAAGGACAATAAGAGAAATTGGTTGCCAA
* *
642272 GTCAAACTTGCAGGTGCAATAAATGACAATAGGAGAAATTGGTTGCCAA
1 GTCAAACTTGCAGGTGCAATAAAGGACAATAAGAGAAATTGGTTGCCAA
642321 G
1 G
642322 CCAACAACCC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.21
Consensus pattern (49 bp):
GTCAAACTTGCAGGTGCAATAAAGGACAATAAGAGAAATTGGTTGCCAA
Found at i:643076 original size:51 final size:51
Alignment explanation
Indices: 643008--643117 Score: 132
Period size: 51 Copynumber: 2.2 Consensus size: 51
642998 AATATCACAT
* * * * *
643008 ACTTACACCATTGAAATTAACATTTAGCTCCAACAGTGAAACTTAATATAA
1 ACTTACACCATTAAAATTAACACTTAACTCCAACAATAAAACTTAATATAA
* * *
643059 ACTTACACCGA-TAAAATTAACACTTAATTCCAGCAATAAAACTTAATATAG
1 ACTTACACC-ATTAAAATTAACACTTAACTCCAACAATAAAACTTAATATAA
643110 ACTTACAC
1 ACTTACAC
643118 TGGTGTAAGT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
51 49 0.98
52 1 0.02
ACGTcount: A:0.45, C:0.21, G:0.06, T:0.28
Consensus pattern (51 bp):
ACTTACACCATTAAAATTAACACTTAACTCCAACAATAAAACTTAATATAA
Found at i:644498 original size:22 final size:20
Alignment explanation
Indices: 644449--644500 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
644439 TTATCCTTGA
644449 TATAGATACCCCAAGAATAG
1 TATAGATACCCCAAGAATAG
* *
644469 TATCGATACCCCATGAATAGGG
1 TATAGATACCCCAAGAATA--G
644491 TATAGATACC
1 TATAGATACC
644501 ATTGACCAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 17 0.63
22 10 0.37
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.23
Consensus pattern (20 bp):
TATAGATACCCCAAGAATAG
Found at i:646463 original size:23 final size:23
Alignment explanation
Indices: 646437--646481 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
646427 CACCACAGCT
*
646437 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* *
646460 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
646482 ATATAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:646699 original size:149 final size:149
Alignment explanation
Indices: 646449--646763 Score: 580
Period size: 149 Copynumber: 2.1 Consensus size: 149
646439 TATAAATGCA
646449 CCGAAGTG-CCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTA
1 CCGAAG-GACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTA
*
646513 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGT-TACTTACAAGACTTCACACATGT
65 TTCCTTAAGAATCATATACATATACTAAGGATCAAGTATGTGT-CTTACAAGACTTCACACATGT
646577 TCCACAGAATATATATATATC
129 TCCACAGAATATATATATATC
*
646598 CCGAAGGACCGCGTAGAATTGCACCGTAGTGTCATATAATAATGTCCATAAGGACCACATATTAT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
646663 TCCTTAAGAATCATATACATATACTAAGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTC
66 TCCTTAAGAATCATATACATATACTAAGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTC
646728 CACAGAATATATATATATC
131 CACAGAATATATATATATC
646747 CCGAAGGACCGCGTAGA
1 CCGAAGGACCGCGTAGA
646764 CCCTCTACCC
Statistics
Matches: 162, Mismatches: 2, Indels: 4
0.96 0.01 0.02
Matches are distributed among these distances:
148 1 0.01
149 160 0.99
150 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.28
Consensus pattern (149 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
TCCTTAAGAATCATATACATATACTAAGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTC
CACAGAATATATATATATC
Found at i:647352 original size:64 final size:63
Alignment explanation
Indices: 647219--647375 Score: 158
Period size: 64 Copynumber: 2.4 Consensus size: 63
647209 TAATGAAGGT
* * * ** *
647219 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAATGCATTCGATGTTGTATTATTACTGGG
1 ATGCATCGATGCA-TACTAATGCATCGATGCATAAAATGCATTCGATGTTCTATTATTAAAGAG
* *
647283 ATGCATCGATGCATGACTTATGCATCGATGCACT-AATTGCATTCGATGTTTCTATT-TTAAA-A
1 ATGCATCGATGCAT-ACTAATGCATCGATGCA-TAAAATGCATTCGATG-TTCTATTATTAAAGA
647345 G
63 G
*
647346 AGTGCATCGATGCATTACCAATGCATCGAT
1 A-TGCATCGATGCA-TACTAATGCATCGAT
647376 ACACCTTCAA
Statistics
Matches: 79, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
63 3 0.04
64 68 0.86
65 8 0.10
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.33
Consensus pattern (63 bp):
ATGCATCGATGCATACTAATGCATCGATGCATAAAATGCATTCGATGTTCTATTATTAAAGAG
Found at i:653509 original size:23 final size:23
Alignment explanation
Indices: 653483--653527 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
653473 CACCACAGCT
*
653483 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* *
653506 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
653528 ATATAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:653769 original size:151 final size:149
Alignment explanation
Indices: 653495--653811 Score: 582
Period size: 151 Copynumber: 2.1 Consensus size: 149
653485 TATAAATGCA
*
653495 CCGAAGTG-CCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTA
1 CCGAAG-GACCGCGTAGAATTGCACCGTAGTGCCATATAATAATATCCATAAGGACCACATATTA
*
653559 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTT
65 TTCCTTAAGAATCATATACATATACTAAGGATCAAGTATGTGTCTTACAAGACTTCACACATGTT
653624 CCACAGAATATATATATATATC
130 CCACAG-A-ATATATATATATC
653646 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATATCCATAAGGACCACATATTAT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATATCCATAAGGACCACATATTAT
653711 TCCTTAAGAATCATATACATATACTAAGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTC
66 TCCTTAAGAATCATATACATATACTAAGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTC
653776 CACAGAATATATATATATC
131 CACAGAATATATATATATC
653795 CCGAAGGACCGCGTAGA
1 CCGAAGGACCGCGTAGA
653812 CCCTCTACCC
Statistics
Matches: 163, Mismatches: 2, Indels: 4
0.96 0.01 0.02
Matches are distributed among these distances:
149 30 0.18
150 2 0.01
151 131 0.80
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (149 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATATCCATAAGGACCACATATTAT
TCCTTAAGAATCATATACATATACTAAGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTC
CACAGAATATATATATATC
Found at i:654400 original size:64 final size:63
Alignment explanation
Indices: 654267--654423 Score: 158
Period size: 64 Copynumber: 2.4 Consensus size: 63
654257 TAATGAAGGT
* * * ** *
654267 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAATGCATTCGATGTTGTATTATTACTGGG
1 ATGCATCGATGCA-TACTAATGCATCGATGCATAAAATGCATTCGATGTTCTATTATTAAAGAG
* *
654331 ATGCATCGATGCATGACTTATGCATCGATGCACT-AATTGCATTCGATGTTTCTATT-TTAAA-A
1 ATGCATCGATGCAT-ACTAATGCATCGATGCA-TAAAATGCATTCGATG-TTCTATTATTAAAGA
654393 G
63 G
*
654394 AGTGCATCGATGCATTACCAATGCATCGAT
1 A-TGCATCGATGCA-TACTAATGCATCGAT
654424 ACACCTTCAA
Statistics
Matches: 79, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
63 3 0.04
64 68 0.86
65 8 0.10
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.33
Consensus pattern (63 bp):
ATGCATCGATGCATACTAATGCATCGATGCATAAAATGCATTCGATGTTCTATTATTAAAGAG
Found at i:664519 original size:32 final size:32
Alignment explanation
Indices: 664474--664553 Score: 97
Period size: 32 Copynumber: 2.5 Consensus size: 32
664464 AACATATTTA
* * * *
664474 CATTGTCTAAATGCAACATTGACACTATTTTG
1 CATTATCTGAATGCAACACTGACACTATTGTG
* *
664506 CATTATCTGAATGCAACACTGGCTCTATTGTG
1 CATTATCTGAATGCAACACTGACACTATTGTG
*
664538 CTTTATCTGAATGCAA
1 CATTATCTGAATGCAA
664554 TATTATTATA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.36
Consensus pattern (32 bp):
CATTATCTGAATGCAACACTGACACTATTGTG
Found at i:671017 original size:32 final size:32
Alignment explanation
Indices: 670975--671102 Score: 130
Period size: 32 Copynumber: 3.9 Consensus size: 32
670965 ATACTAGCAG
* *
670975 AGTGTTACATTCACATAATGCACAATAGTGTC
1 AGTGTCACATTCAGATAATGCACAATAGTGTC
* * *
671007 AGTGTCACATTCAGATAATGCAGAAAAATGTC
1 AGTGTCACATTCAGATAATGCACAATAGTGTC
* * *
671039 AGTGTCACATTCAAATAATGTACAACAGTGTGTC
1 AGTGTCACATTCAGATAATGCACAATA--GTGTC
* * *
671073 ATATGTCACATTTAGAGAATGCACAATAGT
1 A-GTGTCACATTCAGATAATGCACAATAGT
671103 TACATTCATT
Statistics
Matches: 77, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
32 50 0.65
33 2 0.03
34 5 0.06
35 20 0.26
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (32 bp):
AGTGTCACATTCAGATAATGCACAATAGTGTC
Found at i:673160 original size:21 final size:21
Alignment explanation
Indices: 673136--673293 Score: 101
Period size: 21 Copynumber: 7.6 Consensus size: 21
673126 TATCGCAAAT
673136 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
*
673157 TCGCGTTGCGATAGATGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* ** **
673178 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
* *
673198 TCGCGTTGCGATAGTCT-ACAG
1 TCGCGTTGCGATAGT-TGAAAA
* * **
673219 TTGTCGTTGCGAT-TTTCCAAA
1 TCG-CGTTGCGATAGTTGAAAA
* * *
673240 T-TCGTTGCGATAGTCT-ACAG
1 TCGCGTTGCGATAGT-TGAAAA
*
673260 TTGTCGTTGCGATAGTTGAAAA
1 TCG-CGTTGCGATAGTTGAAAA
673282 TCGCGTTGCGAT
1 TCGCGTTGCGAT
673294 TTTCCATTTC
Statistics
Matches: 102, Mismatches: 26, Indels: 18
0.70 0.18 0.12
Matches are distributed among these distances:
19 9 0.09
20 18 0.18
21 49 0.48
22 26 0.25
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:673246 original size:41 final size:41
Alignment explanation
Indices: 673181--673420 Score: 206
Period size: 41 Copynumber: 5.8 Consensus size: 41
673171 ATGAAAATCG
*
673181 CGTTGCGATTTTCC-ATTTCGCGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATTTTCCAAATT--CGTTGCGATAGTCTACAGTTGT
673223 CGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTGT
* ** * * * *
673264 CGTTGCGATAGTTGAAAATCGCGTTGCGAT--TTTCCATTTCG-
1 CGTTGCGAT-TTTCCAAAT-TCGTTGCGATAGTCTACAGTT-GT
* * ** * * **
673305 CGTTGCGATAATCTACAGTTGTCGTTGCGAT--TTTCCAAAT-T
1 CGTTGCGAT--TTTCCAAAT-TCGTTGCGATAGTCTACAGTTGT
*
673346 CGTTGCGATTTTCCAAATTCGTTGCGATAGTCTATAGTTGT
1 CGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTGT
673387 CGTTGCGATTTTCCAAATTCGTTGCGATAGTCTA
1 CGTTGCGATTTTCCAAATTCGTTGCGATAGTCTA
673421 TAAAATTTTA
Statistics
Matches: 162, Mismatches: 27, Indels: 19
0.78 0.13 0.09
Matches are distributed among these distances:
38 10 0.06
39 5 0.03
40 4 0.02
41 90 0.56
42 41 0.25
43 12 0.07
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (41 bp):
CGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTGT
Found at i:673280 original size:104 final size:104
Alignment explanation
Indices: 673160--673354 Score: 372
Period size: 104 Copynumber: 1.9 Consensus size: 104
673150 TTGAAAATCG
*
673160 CGTTGCGATAGATGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTTGTCG
1 CGTTGCGATAGATGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAATCTACAGTTGTCG
673225 TTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTGT
66 TTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTGT
*
673264 CGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAATCTACAGTTGTCG
1 CGTTGCGATAGATGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAATCTACAGTTGTCG
673329 TTGCGATTTTCCAAATTCGTTGCGAT
66 TTGCGATTTTCCAAATTCGTTGCGAT
673355 TTTCCAAATT
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
104 89 1.00
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (104 bp):
CGTTGCGATAGATGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAATCTACAGTTGTCG
TTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTGT
Found at i:673350 original size:19 final size:19
Alignment explanation
Indices: 673326--673414 Score: 115
Period size: 19 Copynumber: 4.5 Consensus size: 19
673316 TCTACAGTTG
673326 TCGTTGCGATTTTCCAAAT
1 TCGTTGCGATTTTCCAAAT
673345 TCGTTGCGATTTTCCAAAT
1 TCGTTGCGATTTTCCAAAT
** * *
673364 TCGTTGCGATAGTCTATAGTT
1 TCGTTGCGATTTTCCA-A-AT
673385 GTCGTTGCGATTTTCCAAAT
1 -TCGTTGCGATTTTCCAAAT
673405 TCGTTGCGAT
1 TCGTTGCGAT
673415 AGTCTATAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
19 42 0.71
20 2 0.03
21 2 0.03
22 13 0.22
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.42
Consensus pattern (19 bp):
TCGTTGCGATTTTCCAAAT
Found at i:673390 original size:60 final size:60
Alignment explanation
Indices: 673222--673414 Score: 280
Period size: 60 Copynumber: 3.2 Consensus size: 60
673212 TCTACAGTTG
* **
673222 TCGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTGTCGTTGCGATAGTTGAAAAT
1 TCGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTGTCGTTGCGAT-TTTCCAAAT
* * *
673283 CGCGTTGCGATTTTCC-ATTTCGCGTTGCGATAATCTACAGTTGTCGTTGCGATTTTCCAAAT
1 -TCGTTGCGATTTTCCAAATT--CGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAAT
*
673345 TCGTTGCGATTTTCCAAATTCGTTGCGATAGTCTATAGTTGTCGTTGCGATTTTCCAAAT
1 TCGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAAT
673405 TCGTTGCGAT
1 TCGTTGCGAT
673415 AGTCTATAAA
Statistics
Matches: 118, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
60 48 0.41
61 17 0.14
62 23 0.19
63 30 0.25
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.39
Consensus pattern (60 bp):
TCGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAAT
Found at i:673467 original size:27 final size:26
Alignment explanation
Indices: 673421--673476 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 26
673411 CGATAGTCTA
673421 TAAAATTTTACGATATTTT-ATAATTTT
1 TAAAATTTTAC-ATATTTTAAT-ATTTT
673448 TAAAATTTTA-ATTATATTTAATATTTT
1 TAAAATTTTACA-TAT-TTTAATATTTT
673475 TA
1 TA
673477 TTTTCCAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
25 1 0.04
26 3 0.12
27 20 0.77
28 2 0.08
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (26 bp):
TAAAATTTTACATATTTTAATATTTT
Found at i:673524 original size:10 final size:10
Alignment explanation
Indices: 673509--673553 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
673499 TAAAATAATC
673509 TATTTTTAAA
1 TATTTTTAAA
673519 TATTTTTAATTA
1 TATTTTTAA--A
673531 TATTTTT-AA
1 TATTTTTAAA
673540 TA-TTTTAAA
1 TATTTTTAAA
673549 -ATTTT
1 TATTTT
673554 AGTATGAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
8 5 0.16
9 8 0.26
10 9 0.29
11 1 0.03
12 8 0.26
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
TATTTTTAAA
Found at i:673535 original size:12 final size:11
Alignment explanation
Indices: 673504--673542 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
673494 TTTTTTAAAA
*
673504 TAATCTATTTT
1 TAATATATTTT
673515 TAA-ATATTTT
1 TAATATATTTT
673525 TAATTATATTTT
1 TAA-TATATTTT
673537 TAATAT
1 TAATAT
673543 TTTAAAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
10 9 0.36
11 6 0.24
12 10 0.40
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (11 bp):
TAATATATTTT
Found at i:673536 original size:21 final size:21
Alignment explanation
Indices: 673504--673545 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
673494 TTTTTTAAAA
673504 TAATCTATTTTTAAATATTTT
1 TAATCTATTTTTAAATATTTT
*
673525 TAAT-TATATTTTTAATATTTT
1 TAATCTAT-TTTTAAATATTTT
673546 AAAATTTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (21 bp):
TAATCTATTTTTAAATATTTT
Found at i:674067 original size:3 final size:3
Alignment explanation
Indices: 674059--674088 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
674049 TTTAATTTAT
674059 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
674089 ATTTCACTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:674511 original size:28 final size:28
Alignment explanation
Indices: 674479--674564 Score: 100
Period size: 28 Copynumber: 3.0 Consensus size: 28
674469 TATAATTTGT
* *
674479 AAAAATATGGGGATTCATTGTAATTTAC
1 AAAAATATGGGGATTTATTGTAATTTAA
* *
674507 AAAAATATAGGGATTTATGGTAATTTGTAA
1 AAAAATATGGGGATTTATTGTAA-TT-TAA
*
674537 AAAAACTATGGGGTTTTATTGTAATTTA
1 AAAAA-TATGGGGATTTATTGTAATTTA
674565 TGAGAAGTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
28 20 0.42
29 4 0.08
30 9 0.19
31 15 0.31
ACGTcount: A:0.40, C:0.03, G:0.19, T:0.38
Consensus pattern (28 bp):
AAAAATATGGGGATTTATTGTAATTTAA
Found at i:676360 original size:13 final size:13
Alignment explanation
Indices: 676344--676446 Score: 53
Period size: 13 Copynumber: 8.3 Consensus size: 13
676334 AAAGAAATAT
676344 ATATAATAATAAA
1 ATATAATAATAAA
*
676357 ATATAGTAA-AAA
1 ATATAATAATAAA
*
676369 A-AT-A-AATGAA
1 ATATAATAATAAA
* *
676379 A-ATAAT-TTAAT
1 ATATAATAATAAA
*
676390 ATAT-ATATATATAC
1 ATATAATA-ATA-AA
*
676404 ATATAATAATAAC
1 ATATAATAATAAA
676417 ATA-AATAATAAA
1 ATATAATAATAAA
676429 A-ATAAATAAATAAA
1 ATAT-AAT-AATAAA
676443 ATAT
1 ATAT
676447 CCATATAATA
Statistics
Matches: 69, Mismatches: 9, Indels: 22
0.69 0.09 0.22
Matches are distributed among these distances:
9 2 0.03
10 5 0.07
11 9 0.13
12 15 0.22
13 18 0.26
14 15 0.22
15 5 0.07
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (13 bp):
ATATAATAATAAA
Found at i:676852 original size:37 final size:37
Alignment explanation
Indices: 676802--676906 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
676792 GTGCTTGTGG
* * * *
676802 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
* * * *
676839 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
676876 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
676907 GACGAAAATG
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:677754 original size:105 final size:105
Alignment explanation
Indices: 677449--678079 Score: 889
Period size: 105 Copynumber: 6.0 Consensus size: 105
677439 GCATTGTTCC
* * * * ** *
677449 GAGTCCAATATCCTCCGTCGTTAAGTTGAAATTGGCTTTG-GAACCGAGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAG-ATTGAGAAGTTG-TTGTTGACA
* * * * *
677513 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
64 AGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
677555 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGA-A-TGA-AA-TT-TTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGAGAAGTTGTTGTTGACAAG
*
677615 CAGCGGTCCCTTCGTCGTGGAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
677655 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTTACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGAGAAGTTGTTGTTGACAAG
* *
677720 CAGCGATCCATTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
** *
677760 GAGTCCAATATCCTTCGTTGTGAAGTCAAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGAGAAGTTGTTGTTGACAAG
677825 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
677865 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGAGAAGTTGTTGTTGACAAG
677930 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
677970 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTATTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGAGAAGTT-GTTGTTGACAA
* * ** *
678035 CCAGAC-GTCCCTTCGTTGTGAAGTTGAACTTATGTTGTCTC
65 GCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
678076 GAGT
1 GAGT
678080 GTCACGATAT
Statistics
Matches: 479, Mismatches: 38, Indels: 16
0.90 0.07 0.03
Matches are distributed among these distances:
100 84 0.18
101 1 0.00
102 4 0.01
103 4 0.01
104 4 0.01
105 299 0.62
106 82 0.17
107 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.34
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGAGAAGTTGTTGTTGACAAG
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:678339 original size:36 final size:36
Alignment explanation
Indices: 678283--678353 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
678273 TGGAGAGAAA
* *
678283 CTGTCTAAAGGGAGACAAAATTCGTTTCAAGGGAAG
1 CTGTCTAAAGCGAGACAAAATTCATTTCAAGGGAAG
* *
678319 CTGTCTCAAGCGAGATAAAATTCATTTCAAGGGAA
1 CTGTCTAAAGCGAGACAAAATTCATTTCAAGGGAA
678354 ATGTTTTCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (36 bp):
CTGTCTAAAGCGAGACAAAATTCATTTCAAGGGAAG
Found at i:678475 original size:103 final size:104
Alignment explanation
Indices: 678254--678570 Score: 473
Period size: 103 Copynumber: 3.1 Consensus size: 104
678244 TTCGTTAAAT
* ** *
678254 TGTTTTCAAAGTTTATGTTTGGAGAGAAACTGTCTAAAGGGAGACAAAA--TTC-GTTTC-AAGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAA-G
* * * *
678315 GAAGCTGTCTCAAGCGAGATAAAATTCATTTCAAGGGAAA
65 GAAACTATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAA
678355 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAAGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAAGG
*
678420 AAACTATCTCAAGAGA-AAAAAAATCATTTCAAGGGAAA
66 AAACTATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAA
* *
678458 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGAAGACAAAATTTTCTGTTTCGAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAAGG
* *
678523 AAACTATCTCAGGAGAGAAAAAATTAATTTCAAGGGAAA
66 AAACTATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAA
678562 TGTTTTCAA
1 TGTTTTCAA
678571 GAGAAACTGT
Statistics
Matches: 197, Mismatches: 14, Indels: 7
0.90 0.06 0.03
Matches are distributed among these distances:
101 45 0.23
103 101 0.51
104 49 0.25
105 2 0.01
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.31
Consensus pattern (104 bp):
TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAAGG
AAACTATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAA
Found at i:678527 original size:39 final size:39
Alignment explanation
Indices: 678473--678547 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
678463 TCAATGTTTA
* *
678473 TGTTTCAAGAGAAACTGTCTCAAGGA-AGACAAAATTTTC
1 TGTTTCAAGAGAAACTATCTC-AGGAGAGAAAAAATTTTC
* *
678512 TGTTTCGAGGGAAACTATCTCAGGAGAGAAAAAATT
1 TGTTTCAAGAGAAACTATCTCAGGAGAGAAAAAATT
678548 AATTTCAAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 4 0.13
39 27 0.87
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (39 bp):
TGTTTCAAGAGAAACTATCTCAGGAGAGAAAAAATTTTC
Found at i:678727 original size:36 final size:36
Alignment explanation
Indices: 678687--678798 Score: 100
Period size: 36 Copynumber: 3.1 Consensus size: 36
678677 CTTTCGAGTG
* *
678687 AAAACGGTCTCAAGCGAGACAAATCTTGTTTTAAGA
1 AAAACAGTCTCAAGTGAGACAAATCTTGTTTTAAGA
* ** * * * **
678723 AAAACAATCTTGAGTGAAATAAATCTTCTTTCGAGA
1 AAAACAGTCTCAAGTGAGACAAATCTTGTTTTAAGA
* *
678759 AAAATAGTCTCAAGTGAGACAAAGT-ATGTTTTAAGA
1 AAAACAGTCTCAAGTGAGACAAA-TCTTGTTTTAAGA
678795 AAAA
1 AAAA
678799 TAAATTTGAG
Statistics
Matches: 55, Mismatches: 20, Indels: 2
0.71 0.26 0.03
Matches are distributed among these distances:
36 54 0.98
37 1 0.02
ACGTcount: A:0.44, C:0.12, G:0.17, T:0.27
Consensus pattern (36 bp):
AAAACAGTCTCAAGTGAGACAAATCTTGTTTTAAGA
Found at i:678789 original size:72 final size:74
Alignment explanation
Indices: 678641--678816 Score: 198
Period size: 72 Copynumber: 2.4 Consensus size: 74
678631 TAAAATTTTC
* ** * *
678641 TTAAAAAAAACAGCCTTGAGTGAAATGAAATGCCTTCTTTCGAGTGAAAACGGTCTCAAGCGAGA
1 TTAAGAAAAACAATCTTGAGTGAAAT-AAAT-CCTTCTTTCGAGTAAAAACAGTCTCAAGCGAGA
*
678706 CAAATCTTGTT
64 CAAATCATGTT
* *
678717 TTAAGAAAAACAATCTTGAGTGAAATAAAT-CTTCTTTCGAG-AAAAATAGTCTCAAGTGAGACA
1 TTAAGAAAAACAATCTTGAGTGAAATAAATCCTTCTTTCGAGTAAAAACAGTCTCAAGCGAGACA
678780 AAGT-ATGTT
66 AA-TCATGTT
* *
678789 TTAAGAAAAATAAAT-TTGAGTGAGATAA
1 TTAAGAAAAA-CAATCTTGAGTGAAATAA
678817 TCATCTGCAT
Statistics
Matches: 88, Mismatches: 10, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
72 46 0.52
73 15 0.17
75 4 0.05
76 23 0.26
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.28
Consensus pattern (74 bp):
TTAAGAAAAACAATCTTGAGTGAAATAAATCCTTCTTTCGAGTAAAAACAGTCTCAAGCGAGACA
AATCATGTT
Found at i:680271 original size:183 final size:183
Alignment explanation
Indices: 679957--680493 Score: 986
Period size: 183 Copynumber: 2.9 Consensus size: 183
679947 ATCAGGTTTA
*
679957 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGACCTGACAAAAACAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAACAGTGGAGCAAACACCGAATT
* ** *
680022 GCCAAGTGTCCGAGCAATGTCAT-GATTTGAATGTAATCTATTCATAAAGCTAGGGCTTTCGAGT
66 GCCAAGTGTCCGAGCAGTGTCATAG-TTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGT
680086 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
130 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
*
680140 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAATCAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAACAGTGGAGCAAACACCGAATT
*
680205 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTTGAGTT
66 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
680270 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
131 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
*
680323 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAACAGTGGAGCAAACACCGAATT
680388 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
66 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
680453 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
131 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
680494 CGGATTTAAT
Statistics
Matches: 344, Mismatches: 9, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
183 343 1.00
184 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.27
Consensus pattern (183 bp):
ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAACAGTGGAGCAAACACCGAATT
GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
Found at i:684583 original size:2 final size:2
Alignment explanation
Indices: 684572--684607 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
684562 AAGGAAAAAA
*
684572 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
684608 CAAATTATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:684668 original size:23 final size:22
Alignment explanation
Indices: 684616--684669 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 22
684606 ATCAAATTAT
* *
684616 TAAAAAA-AAATAATATAATAA
1 TAAAAAATAAAAAATAAAATAA
**
684637 TAATGAATAAAAAATGAAAATAA
1 TAAAAAATAAAAAAT-AAAATAA
684660 TAAAAAATAA
1 TAAAAAATAA
684670 TATAAATATA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 5 0.20
22 6 0.24
23 14 0.56
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (22 bp):
TAAAAAATAAAAAATAAAATAA
Found at i:684677 original size:16 final size:15
Alignment explanation
Indices: 684616--684674 Score: 52
Period size: 15 Copynumber: 4.0 Consensus size: 15
684606 ATCAAATTAT
684616 TAAAAAA-AA-ATAA
1 TAAAAAATAATATAA
* *
684629 TATAATAATAAT-GAA
1 TA-AAAAATAATATAA
*
684644 TAAAAAATGAAAATAA
1 TAAAAAAT-AATATAA
684660 TAAAAAATAATATAA
1 TAAAAAATAATATAA
684675 ATATAAAGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
13 2 0.06
14 9 0.26
15 14 0.40
16 10 0.29
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (15 bp):
TAAAAAATAATATAA
Found at i:684946 original size:18 final size:17
Alignment explanation
Indices: 684855--684967 Score: 55
Period size: 18 Copynumber: 6.9 Consensus size: 17
684845 AATATTAAAG
*
684855 AAATATATAATAATAAT
1 AAATAAATAATAATAAT
*
684872 AAAT--ATAGTAA-AA-
1 AAATAAATAATAATAAT
684885 AAATAAATGAA-AATAATT
1 AAATAAAT-AATAATAA-T
* *
684903 TAATATAT-AT-AT-AT
1 AAATAAATAATAATAAT
*
684917 ATATACATATAATAATAAT
1 AAATA-A-ATAATAATAAT
*
684936 AACATAAATAATAAAAAT
1 AA-ATAAATAATAATAAT
*
684954 AAATGAATAA-AATA
1 AAATAAATAATAATA
684968 TCCATATAAT
Statistics
Matches: 72, Mismatches: 11, Indels: 27
0.65 0.10 0.25
Matches are distributed among these distances:
13 4 0.06
14 6 0.08
15 11 0.15
16 11 0.15
17 13 0.18
18 20 0.28
19 4 0.06
20 3 0.04
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.31
Consensus pattern (17 bp):
AAATAAATAATAATAAT
Found at i:684964 original size:14 final size:13
Alignment explanation
Indices: 684927--684965 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
684917 ATATACATAT
684927 AATAATAATAACATA
1 AATAATAA-AA-ATA
684942 AATAATAAAAATA
1 AATAATAAAAATA
684955 AATGAATAAAA
1 AAT-AATAAAA
684966 TATCCATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 6 0.26
14 9 0.39
15 8 0.35
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (13 bp):
AATAATAAAAATA
Found at i:684966 original size:13 final size:12
Alignment explanation
Indices: 684855--684967 Score: 50
Period size: 13 Copynumber: 8.4 Consensus size: 12
684845 AATATTAAAG
*
684855 AAATATATAATA
1 AAATAAATAATA
684867 ATAATAAATATAGTA
1 A-AATAAATA-A-TA
684882 AAA-AAATAAATGA
1 AAATAAAT-AAT-A
*
684895 AAATAATTTAATA
1 AAATAA-ATAATA
684908 TATATATATATATACATA
1 -A-A-ATA-A-ATA-ATA
*
684926 TAAT-AATAATA
1 AAATAAATAATA
*
684937 ACATAAATAATAA
1 AAATAAATAAT-A
684950 AAATAAATGAATA
1 AAATAAAT-AATA
684963 AAATA
1 AAATA
684968 TCCATATAAT
Statistics
Matches: 79, Mismatches: 7, Indels: 29
0.69 0.06 0.25
Matches are distributed among these distances:
11 5 0.06
12 11 0.14
13 32 0.41
14 13 0.16
15 7 0.09
16 4 0.05
17 4 0.05
18 3 0.04
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.31
Consensus pattern (12 bp):
AAATAAATAATA
Found at i:685369 original size:37 final size:37
Alignment explanation
Indices: 685319--685422 Score: 120
Period size: 37 Copynumber: 2.8 Consensus size: 37
685309 GTGCTTGTGG
* * * *
685319 ATCCTATCTTTAGGAATTTAAATCTTAGTATAACTCT
1 ATCCTATTTTTAGGAGTTTAAATCCTAGTAAAACTCT
* * *
685356 ATCCTATTTTTAGGAGTTTGAAA-CCTAGCAAAATTTT
1 ATCCTATTTTTAGGAGTTT-AAATCCTAGTAAAACTCT
*
685393 ATCCTATTTTTAGGAGTTTGAATCCTAGTA
1 ATCCTATTTTTAGGAGTTTAAATCCTAGTA
685423 GGACGAAAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
36 2 0.04
37 51 0.91
38 3 0.05
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTAAATCCTAGTAAAACTCT
Found at i:690293 original size:17 final size:17
Alignment explanation
Indices: 690271--690303 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
690261 AGAGATCACA
690271 ATATTAT-TTTTCATATT
1 ATATTATATTTT-ATATT
690288 ATATTATATTTTATAT
1 ATATTATATTTTATAT
690304 AAATAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (17 bp):
ATATTATATTTTATATT
Found at i:692219 original size:17 final size:17
Alignment explanation
Indices: 692197--692232 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
692187 CTTCTGGCTC
692197 TGATGTAGCAGTAAGGG
1 TGATGTAGCAGTAAGGG
692214 TGATGTAGCAGTAAGGG
1 TGATGTAGCAGTAAGGG
692231 TG
1 TG
692233 GGCTGAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.06, G:0.42, T:0.25
Consensus pattern (17 bp):
TGATGTAGCAGTAAGGG
Found at i:711145 original size:13 final size:13
Alignment explanation
Indices: 711127--711152 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
711117 AATACTCCTT
711127 TGTATTATTTTGA
1 TGTATTATTTTGA
711140 TGTATTATTTTGA
1 TGTATTATTTTGA
711153 GAGCTCCCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (13 bp):
TGTATTATTTTGA
Found at i:719302 original size:90 final size:88
Alignment explanation
Indices: 719189--719352 Score: 283
Period size: 90 Copynumber: 1.8 Consensus size: 88
719179 TCTCGAATAT
* *
719189 TTAATTTCAATTAATTAATTATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATAATTAG
1 TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAA-CCCTAATATAATTAG
719254 GGTAACTTGGATGTAAGAGGATTA
65 GGTAACTTGGATGTAAGAGGATTA
*
719278 TTAAATTCTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATTAG
1 TTAAATTC-AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATAATTAG
719343 GGTAACTTGG
65 GGTAACTTGG
719353 CTATAAAAGA
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
89 31 0.44
90 40 0.56
ACGTcount: A:0.43, C:0.06, G:0.12, T:0.39
Consensus pattern (88 bp):
TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATAATTAGG
GTAACTTGGATGTAAGAGGATTA
Found at i:719994 original size:32 final size:32
Alignment explanation
Indices: 719958--720059 Score: 80
Period size: 32 Copynumber: 3.2 Consensus size: 32
719948 GGCCAACCTG
719958 ATCCGACCTGAAAATTTTACATCTTTCATCCA
1 ATCCGACCTGAAAATTTTACATCTTTCATCCA
* ** *** * * *** * *
719990 ATCCGA-CTCAACCTGAAAAATATAAAACCCG
1 ATCCGACCTGAAAATTTTACATCTTTCATCCA
720021 ATCCGACCTGAAAATTTTACATCTTTCATCCA
1 ATCCGACCTGAAAATTTTACATCTTTCATCCA
720053 ATCCGAC
1 ATCCGAC
720060 TCAACCTGAA
Statistics
Matches: 43, Mismatches: 26, Indels: 2
0.61 0.37 0.03
Matches are distributed among these distances:
31 18 0.42
32 25 0.58
ACGTcount: A:0.35, C:0.29, G:0.08, T:0.27
Consensus pattern (32 bp):
ATCCGACCTGAAAATTTTACATCTTTCATCCA
Found at i:720056 original size:63 final size:63
Alignment explanation
Indices: 719952--720076 Score: 241
Period size: 63 Copynumber: 2.0 Consensus size: 63
719942 GGTTTTGGCC
*
719952 AACCTGATCCGACCTGAAAATTTTACATCTTTCATCCAATCCGACTCAACCTGAAAAATATAA
1 AACCCGATCCGACCTGAAAATTTTACATCTTTCATCCAATCCGACTCAACCTGAAAAATATAA
720015 AACCCGATCCGACCTGAAAATTTTACATCTTTCATCCAATCCGACTCAACCTGAAAAATATA
1 AACCCGATCCGACCTGAAAATTTTACATCTTTCATCCAATCCGACTCAACCTGAAAAATATA
720077 TATTCTTCAC
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.38, C:0.28, G:0.08, T:0.26
Consensus pattern (63 bp):
AACCCGATCCGACCTGAAAATTTTACATCTTTCATCCAATCCGACTCAACCTGAAAAATATAA
Found at i:720459 original size:2 final size:2
Alignment explanation
Indices: 720452--720525 Score: 148
Period size: 2 Copynumber: 37.0 Consensus size: 2
720442 TGTCATGTTA
720452 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
720494 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
720526 TATTAATAAT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 72 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:720548 original size:16 final size:16
Alignment explanation
Indices: 720458--720544 Score: 59
Period size: 20 Copynumber: 4.8 Consensus size: 16
720448 GTTAATATAT
720458 ATATATATATATATATATA
1 ATATATAT-TAT-TA-ATA
720477 TATATATATATATATATATA
1 -ATATATAT-TAT-TA-ATA
720497 TATATATATATATATATATA
1 -ATATATAT-TAT-TA-ATA
720517 TATATATATTATTAATA
1 -ATATATATTATTAATA
720534 ATAT-TATTATT
1 ATATATATTATT
720545 TAATTATTAC
Statistics
Matches: 67, Mismatches: 0, Indels: 5
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.10
16 4 0.06
17 3 0.04
18 2 0.03
19 3 0.04
20 48 0.72
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATATATATTATTAATA
Found at i:723092 original size:2 final size:2
Alignment explanation
Indices: 723085--723116 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
723075 AGAAAATTTC
723085 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
723117 CATTAATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:730171 original size:19 final size:19
Alignment explanation
Indices: 730147--730188 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
730137 TGGTTGGGGG
*
730147 AATGTGAGATTCTCATGGA
1 AATGTGAGATTCCCATGGA
*
730166 AATGTGAGATTCCCATGGG
1 AATGTGAGATTCCCATGGA
730185 AATG
1 AATG
730189 GAATCCACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.31, C:0.12, G:0.29, T:0.29
Consensus pattern (19 bp):
AATGTGAGATTCCCATGGA
Found at i:731066 original size:50 final size:50
Alignment explanation
Indices: 730969--731066 Score: 151
Period size: 50 Copynumber: 2.0 Consensus size: 50
730959 AAACCGCGCT
* * *
730969 ATACGCTGATTTGGCACCACGTGGGTATAGTGCGCCCCCTGCCCCGCGAA
1 ATACGCTGATCTGGCACCACGTGGGTATAGCGCGCCCCCTGACCCGCGAA
* *
731019 ATACGGTGATCTGGCACCACGTGGGTATAGCGCGCCCCCTGATCCGCG
1 ATACGCTGATCTGGCACCACGTGGGTATAGCGCGCCCCCTGACCCGCG
731067 CTATATGCCA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.17, C:0.34, G:0.30, T:0.19
Consensus pattern (50 bp):
ATACGCTGATCTGGCACCACGTGGGTATAGCGCGCCCCCTGACCCGCGAA
Found at i:731232 original size:12 final size:12
Alignment explanation
Indices: 731212--731249 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
731202 TTTATAAATA
731212 CCTCGCATCTCT
1 CCTCGCATCTCT
*
731224 CCTCACA--TCT
1 CCTCGCATCTCT
731234 CCTCGCATCTCT
1 CCTCGCATCTCT
731246 CCTC
1 CCTC
731250 TCTTATAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
10 9 0.41
12 13 0.59
ACGTcount: A:0.11, C:0.53, G:0.05, T:0.32
Consensus pattern (12 bp):
CCTCGCATCTCT
Found at i:735318 original size:18 final size:18
Alignment explanation
Indices: 735295--735332 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
735285 AAAGGCGATG
735295 GCGGCATCATATATGGCT
1 GCGGCATCATATATGGCT
735313 GCGGCATCATATATGGCT
1 GCGGCATCATATATGGCT
735331 GC
1 GC
735333 AGTGGCTGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.24, G:0.29, T:0.26
Consensus pattern (18 bp):
GCGGCATCATATATGGCT
Found at i:737036 original size:111 final size:111
Alignment explanation
Indices: 736842--737174 Score: 621
Period size: 111 Copynumber: 3.0 Consensus size: 111
736832 ATTACAAAAA
*
736842 TTAATTCTTACTCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
*
736907 AATTAAAACGTTAAAATGTTATCGTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
736953 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
737018 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
* *
737064 TTAATTCTTAATCTAATAATCATGCATTAAATAAATAAACTAAATATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
*
737129 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
737175 ATGATTTCCA
Statistics
Matches: 217, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
111 217 1.00
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.36
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
Found at i:737507 original size:50 final size:50
Alignment explanation
Indices: 737453--737562 Score: 157
Period size: 50 Copynumber: 2.2 Consensus size: 50
737443 AGATACCTAG
* * * *
737453 GTATAGCGCGGATCAGGGGGCGCGCTATACCTACGTGGCGCTAGATCACC
1 GTATAGCGCGGAGCAGGGGGCGCGCTATACCTACGTGACGCCAAATCACC
* * *
737503 GTATATCGCGGGGCAGGGGGCGCGCTATACCTACGTGACGCCAAATCAGC
1 GTATAGCGCGGAGCAGGGGGCGCGCTATACCTACGTGACGCCAAATCACC
737553 GTATAGCGCG
1 GTATAGCGCG
737563 ATTCAAGGGG
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.21, C:0.27, G:0.35, T:0.17
Consensus pattern (50 bp):
GTATAGCGCGGAGCAGGGGGCGCGCTATACCTACGTGACGCCAAATCACC
Found at i:737760 original size:3 final size:3
Alignment explanation
Indices: 737752--737830 Score: 151
Period size: 3 Copynumber: 26.7 Consensus size: 3
737742 CTGCTACCAA
737752 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
737800 AAT AAT AAT -AT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
737831 ATGCTAGCAT
Statistics
Matches: 75, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 73 0.97
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:739372 original size:27 final size:28
Alignment explanation
Indices: 739342--739400 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 28
739332 TATTATTAAA
**
739342 TTTAAT-ATT-TAAATTAAATTTATATTT
1 TTTAATCATTATAAATTAAA-AGATATTT
739369 TTT-ATCATTATAAATTAAAAGATATTT
1 TTTAATCATTATAAATTAAAAGATATTT
739396 TTTAA
1 TTTAA
739401 ACATCAGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
26 2 0.07
27 15 0.56
28 10 0.37
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (28 bp):
TTTAATCATTATAAATTAAAAGATATTT
Found at i:743379 original size:18 final size:19
Alignment explanation
Indices: 743352--743395 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
743342 ATAAACAATT
* *
743352 ATTAAA-ATATTCAAT-AC
1 ATTAAATATATACAATAAA
743369 ATTAAATATATACAATAAA
1 ATTAAATATATACAATAAA
743388 ATTAAATA
1 ATTAAATA
743396 GAATTACTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 6 0.26
18 8 0.35
19 9 0.39
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (19 bp):
ATTAAATATATACAATAAA
Found at i:744157 original size:2 final size:2
Alignment explanation
Indices: 744150--744219 Score: 97
Period size: 2 Copynumber: 34.0 Consensus size: 2
744140 TGAAAAACGA
744150 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
744192 AT AT AT -T CAA ACT AT AT ACT AT AT AT AT
1 AT AT AT AT -AT A-T AT AT A-T AT AT AT AT
744220 GTATGTATAA
Statistics
Matches: 62, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
1 1 0.02
2 58 0.94
3 3 0.05
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:746400 original size:2 final size:2
Alignment explanation
Indices: 746393--746444 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
746383 GTGTAAAAGA
746393 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
746435 AT AT AT AT AT
1 AT AT AT AT AT
746445 TGCAATATTC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:760248 original size:250 final size:250
Alignment explanation
Indices: 759807--760309 Score: 945
Period size: 250 Copynumber: 2.0 Consensus size: 250
759797 TATCCTACTA
759807 AGTAGGATTTATCTTAGTAAAACATCAACCAATGTATATCCCTAAGTTTTGAGATATGAAGAATG
1 AGTAGGATTTATCTTAGTAAAACATCAACCAATGTATATCCCTAAGTTTTGAGATATGAAGAATG
*
759872 GGGACGGCAAAGGAACCCCGTTTCTAGTACCCGATACATCTTCGGCACGGAGACAACATGGGGAC
66 GGGACGGCAAAGGAACCCCGTTTCTAGTACCCGATACATCTTCGGCACAGAGACAACATGGGGAC
759937 AGCTGAGGTACGTATCGAGGATGTGTCACAGTGATGGGTTACGGCTGAATGAACTCGAGGACCTT
131 AGCTGAGGTACGTATCGAGGATGTGTCACAGTGATGGGTTACGGCTGAATGAACTCGAGGACCTT
*
760002 CGATGCTTATC-TAGGGACATTTAGGGGGACATCTCCAAGGATAATTTTGGTTTTG
196 CGATGCTTA-CATAGGGACATTTAGGGGGACATCTCCAAGGATAATTTTGGCTTTG
760057 AGTAGGATTTATCTTAGTAAAACATCAACCAATGTATATCCCTAAGTTTTGAGATATGAAGAATG
1 AGTAGGATTTATCTTAGTAAAACATCAACCAATGTATATCCCTAAGTTTTGAGATATGAAGAATG
*
760122 GGGACGGCAAAGGAACCCCGTTTCTAGTACCCGATACATCTTTGGCACAGAGACAACATGGGGAC
66 GGGACGGCAAAGGAACCCCGTTTCTAGTACCCGATACATCTTCGGCACAGAGACAACATGGGGAC
760187 AGCTGAGGTACGTATCGAGGATGTGTCACAGTGATGGGTTACGGCTGAATGAACTCGAGGACCTT
131 AGCTGAGGTACGTATCGAGGATGTGTCACAGTGATGGGTTACGGCTGAATGAACTCGAGGACCTT
* *
760252 CGATGCTTACATGGGGACATTTAGGGGGACATCTCCAAGGATTATTTTGGCTTTG
196 CGATGCTTACATAGGGACATTTAGGGGGACATCTCCAAGGATAATTTTGGCTTTG
760307 AGT
1 AGT
760310 GTACTGATGT
Statistics
Matches: 247, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
249 1 0.00
250 246 1.00
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (250 bp):
AGTAGGATTTATCTTAGTAAAACATCAACCAATGTATATCCCTAAGTTTTGAGATATGAAGAATG
GGGACGGCAAAGGAACCCCGTTTCTAGTACCCGATACATCTTCGGCACAGAGACAACATGGGGAC
AGCTGAGGTACGTATCGAGGATGTGTCACAGTGATGGGTTACGGCTGAATGAACTCGAGGACCTT
CGATGCTTACATAGGGACATTTAGGGGGACATCTCCAAGGATAATTTTGGCTTTG
Found at i:763482 original size:3 final size:3
Alignment explanation
Indices: 763474--763529 Score: 78
Period size: 3 Copynumber: 19.0 Consensus size: 3
763464 ATTTGTAAAT
* **
763474 TAA TAA TAA TAA TAG TAA TAA TAA TAA T-A TAA CGA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
763521 TAA TAA TAA
1 TAA TAA TAA
763530 CGATAAAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
2 2 0.04
3 44 0.96
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:763744 original size:43 final size:42
Alignment explanation
Indices: 763683--764106 Score: 306
Period size: 43 Copynumber: 9.8 Consensus size: 42
763673 TGTTGGGGAC
* * * *
763683 GACACTGCTCATACGTGATGAAGAGTTTGGGTCGTCTAAAGGT
1 GACACGGCTCCTACGTGATGAAGAGTCT-GGTCATCTAAAGGT
*
763726 GACACGGCTCCTACGTGATGAAGAGTTCTTGGCCATCTAAAGGT
1 GACACGGCTCCTACGTGATGAAGAG-TC-TGGTCATCTAAAGGT
* * * * * *
763770 GATAACACAGTTCCTACGTGATGAGGACGGCTGGTTATCTAAGGGT
1 G---ACACGGCTCCTACGTGATGAAGA-GTCTGGTCATCTAAAGGT
* * * *
763816 GACACGACTCCTACGTGATGAGGAGATCTGGTCAGCT---GAT
1 GACACGGCTCCTACGTGATGAAGAG-TCTGGTCATCTAAAGGT
* *
763856 GACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGT
1 GACACGGCTCCTACGTGATGAAGAG-TCTGGTCATCTAAAGGT
* * * * *
763899 GATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCT-ATGGTT
1 G---ACACGGCTCCTACGTGATGAAGA-GTCTGGTCATCTAAAGG-T
* * *
763945 GACACGGCTCCTACGTGATGAGGAGATCTGGTCAGCT---GAT
1 GACACGGCTCCTACGTGATGAAGAG-TCTGGTCATCTAAAGGT
* *
763985 GACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGT
1 GACACGGCTCCTACGTGATGAAGAG-TCTGGTCATCTAAAGGT
* * * * *
764028 GATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCT-ATGGTT
1 G---ACACGGCTCCTACGTGATGAAGA-GTCTGGTCATCTAAAGG-T
764074 GACACGGCTCCTACGTGATGAAGAGATCTGGTC
1 GACACGGCTCCTACGTGATGAAGAG-TCTGGTC
764107 TGGGGATGAC
Statistics
Matches: 301, Mismatches: 55, Indels: 50
0.74 0.14 0.12
Matches are distributed among these distances:
40 66 0.22
41 1 0.00
42 3 0.01
43 113 0.38
44 14 0.05
45 7 0.02
46 73 0.24
47 23 0.08
48 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (42 bp):
GACACGGCTCCTACGTGATGAAGAGTCTGGTCATCTAAAGGT
Found at i:763871 original size:40 final size:40
Alignment explanation
Indices: 763815--764137 Score: 209
Period size: 40 Copynumber: 7.6 Consensus size: 40
763805 TATCTAAGGG
*
763815 TGACACGACTCCTACGTGATGAGGAGATCTGGTCAGCTGA
1 TGACACGGCTCCTACGTGATGAGGAGATCTGGTCAGCTGA
* * * *
763855 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGA
1 TGACACGGCTCCTACGTGATGAGGAGATCTGG---TC---AGCTGA
* * * * * *
763901 TAACACGGTTCCTACGTGATGAGGACG-GCTGGTTATCTATGGT
1 TGACACGGCTCCTACGTGATGAGGA-GATCTGGTCAGC--T-GA
763944 TGACACGGCTCCTACGTGATGAGGAGATCTGGTCAGCTGA
1 TGACACGGCTCCTACGTGATGAGGAGATCTGGTCAGCTGA
* * * *
763984 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGA
1 TGACACGGCTCCTACGTGATGAGGAGATCTGG---TC---AGCTGA
* * * * * *
764030 TAACACGGTTCCTACGTGATGAGGACG-GCTGGTTATCTATGGT
1 TGACACGGCTCCTACGTGATGAGGA-GATCTGGTCAGC--T-GA
* * **
764073 TGACACGGCTCCTACGTGATGAAGAGATCTGGTCTGGGGA
1 TGACACGGCTCCTACGTGATGAGGAGATCTGGTCAGCTGA
* *
764113 TGACACGGTTCCTACATGATGAGGA
1 TGACACGGCTCCTACGTGATGAGGA
764138 CGGCTGGCCA
Statistics
Matches: 215, Mismatches: 46, Indels: 44
0.70 0.15 0.14
Matches are distributed among these distances:
40 83 0.39
41 1 0.00
42 4 0.02
43 65 0.30
46 60 0.28
47 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.25
Consensus pattern (40 bp):
TGACACGGCTCCTACGTGATGAGGAGATCTGGTCAGCTGA
Found at i:764150 original size:129 final size:129
Alignment explanation
Indices: 763725--764134 Score: 703
Period size: 129 Copynumber: 3.2 Consensus size: 129
763715 CGTCTAAAGG
* *
763725 TGACACGGCTCCTACGTGATGAAGAGTTCTTGGCCATCTAAAGGTGATAACACAGTTCCTACGTG
1 TGACACGGCTCATACGTGATGAAGAGTTC-TGGCCATCTAAAGGTGATAACACGGTTCCTACGTG
* * *
763790 ATGAGGACGGCTGGTTATCTAAGGGTGACACGACTCCTACGTGATGAGGAGATCTGGTCAGCTGA
65 ATGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAGGAGATCTGGTCAGCTGA
763855 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGA
1 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGA
763920 TGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAGGAGATCTGGTCAGCTGA
66 TGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAGGAGATCTGGTCAGCTGA
763984 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGA
1 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGA
* * **
764049 TGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAGAGATCTGGTCTGGGGA
66 TGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAGGAGATCTGGTCAGCTGA
* * *
764113 TGACACGGTTCCTACATGATGA
1 TGACACGGCTCATACGTGATGA
764135 GGACGGCTGG
Statistics
Matches: 268, Mismatches: 12, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
129 240 0.90
130 28 0.10
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (129 bp):
TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGA
TGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAGGAGATCTGGTCAGCTGA
Found at i:764213 original size:28 final size:28
Alignment explanation
Indices: 764163--764216 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
764153 AGGAGTTATG
* *
764163 GTTTCAAGAGAAACCAAATCAAAGATTT
1 GTTTCAAAAGAAACCAAACCAAAGATTT
764191 GTTTCAAAAGAAA-CAAACCCAAAGAT
1 GTTTCAAAAGAAACCAAA-CCAAAGAT
764217 GATATTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.50, C:0.17, G:0.13, T:0.20
Consensus pattern (28 bp):
GTTTCAAAAGAAACCAAACCAAAGATTT
Found at i:764574 original size:15 final size:15
Alignment explanation
Indices: 764550--764593 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
764540 AAGATGATCT
*
764550 TGTTTTAAGAGAAAA
1 TGTTTCAAGAGAAAA
764565 TGTTTCAAGAGAAAA
1 TGTTTCAAGAGAAAA
*
764580 TGTTTCAAGTGAAA
1 TGTTTCAAGAGAAA
764594 CGACTCAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.43, C:0.05, G:0.20, T:0.32
Consensus pattern (15 bp):
TGTTTCAAGAGAAAA
Found at i:764862 original size:64 final size:64
Alignment explanation
Indices: 764750--764956 Score: 272
Period size: 64 Copynumber: 3.2 Consensus size: 64
764740 AAGGTTGGTA
* ** *
764750 TTTTCAAAAGAAGTTGTC-TCGAGAGACAAAATTTTGTTTCAAAGGAAACAAACTCAAAGATTT
1 TTTTCAAAAGAAATTGTCTTAAAGAGACAAAATTTTGTTTCAAAAGAAACAAACTCAAAGATTT
* * * *
764813 TTTTCAAAAGAAATTGTCTTTAATAGATAAAATTTTGTTTCAAAAGAAACATACTCAAAGATTTT
1 TTTTCAAAAGAAATTGTCTTAAAGAGACAAAATTTTGTTTCAAAAGAAACAAACTCAAAGA-TTT
* * * *
764878 TGTTTTAAAAGAAACTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATT
1 T-TTTCAAAAGAAATTGTCTTAA-AGAGACAAAATTTTGTTTCAAAAGAAACAAACTCAAAGATT
764943 T
64 T
764944 TTTTCAAAAGAAA
1 TTTTCAAAAGAAA
764957 CAATCTCAAA
Statistics
Matches: 124, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
63 17 0.14
64 36 0.29
65 15 0.12
66 21 0.17
67 35 0.28
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (64 bp):
TTTTCAAAAGAAATTGTCTTAAAGAGACAAAATTTTGTTTCAAAAGAAACAAACTCAAAGATTT
Found at i:764927 original size:67 final size:65
Alignment explanation
Indices: 764770--764962 Score: 264
Period size: 67 Copynumber: 3.0 Consensus size: 65
764760 AAGTTGTCTC
* * *
764770 GAGAGACAAAATTTTGTTT-CAAAGGAAACAAACTCAAAGATTTTTTTCAAAAGAAATTGTCTTT
1 GAGAGACAAAATTTTGTTTCCAAA-GAAACAAACTCAAAGATTTTTTTCAAAAGAAACTATCTTA
764834 A
65 A
* * * * *
764835 -ATAGATAAAATTTTGTTTCAAAAGAAACATACTCAAAGATTTTTGTTTTAAAAGAAACTATCTT
1 GAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGA-TTTT-TTTCAAAAGAAACTATCTT
764899 AA
64 AA
*
764901 GAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTTTCAAAAGAAACAATCT
1 GAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTTTCAAAAGAAACTATCT
764963 CAAAGATTTT
Statistics
Matches: 110, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
64 31 0.28
65 23 0.21
66 21 0.19
67 35 0.32
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.32
Consensus pattern (65 bp):
GAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTTTCAAAAGAAACTATCTTAA
Found at i:764972 original size:27 final size:28
Alignment explanation
Indices: 764907--764975 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
764897 TTAAGAGAGA
*
764907 CAAA-ATTTTGTTTCCAAAGAAACAAACT
1 CAAAGATTTT-TTTCAAAAGAAACAAACT
*
764935 CAAAGATTTTTTTCAAAAGAAACAATCT
1 CAAAGATTTTTTTCAAAAGAAACAAACT
764963 CAAAGATTTTTTT
1 CAAAGATTTTTTT
764976 TTTCACAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 33 0.87
29 5 0.13
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.35
Consensus pattern (28 bp):
CAAAGATTTTTTTCAAAAGAAACAAACT
Found at i:765092 original size:26 final size:25
Alignment explanation
Indices: 765063--765270 Score: 101
Period size: 29 Copynumber: 7.5 Consensus size: 25
765053 CAAAACTTTG
* *
765063 TTTCAAAATAAATAGACTCAAAGATT
1 TTTCAAAAGAAACA-ACTCAAAGATT
765089 TTTCAAAAGAAACAACTCAAAGATATT
1 TTTCAAAAGAAACAACTCAAAG--ATT
* *
765116 TATTCAAAAGGAACAAACTCCAAGATTTT
1 T-TTCAAAAGAAAC-AACTCAAAGA--TT
* *
765145 TATTTAAAAGGAACAAACTCAAAGATTTT
1 T-TTCAAAAGAAAC-AACTCAAAGA--TT
* *
765174 TATTTAAAAGGAACAAACTCAAAGATTTT
1 T-TTCAAAAGAAAC-AACTCAAAGA--TT
* *
765203 TATTTAAAAGGAACAAACTCAAAGATTTT
1 T-TTCAAAAGAAAC-AACTCAAAGA--TT
* *
765232 TATTTAAAAGGAACAAACTCAAAGATT
1 T-TTCAAAAGAAAC-AACTCAAAGATT
* *
765259 TTTTAAGAGAAA
1 TTTCAAAAGAAA
765271 TTATCTCAAG
Statistics
Matches: 168, Mismatches: 8, Indels: 12
0.89 0.04 0.06
Matches are distributed among these distances:
25 8 0.05
26 21 0.12
27 8 0.05
28 11 0.07
29 120 0.71
ACGTcount: A:0.49, C:0.12, G:0.10, T:0.29
Consensus pattern (25 bp):
TTTCAAAAGAAACAACTCAAAGATT
Found at i:765146 original size:29 final size:29
Alignment explanation
Indices: 765078--765261 Score: 295
Period size: 29 Copynumber: 6.5 Consensus size: 29
765068 AAATAAATAG
* *
765078 ACTCAAAGA--TTT-TTCAAAAGAAAC-A
1 ACTCAAAGATTTTTATTTAAAAGGAACAA
* *
765103 ACTCAAAGATATTTATTCAAAAGGAACAA
1 ACTCAAAGATTTTTATTTAAAAGGAACAA
*
765132 ACTCCAAGATTTTTATTTAAAAGGAACAA
1 ACTCAAAGATTTTTATTTAAAAGGAACAA
765161 ACTCAAAGATTTTTATTTAAAAGGAACAA
1 ACTCAAAGATTTTTATTTAAAAGGAACAA
765190 ACTCAAAGATTTTTATTTAAAAGGAACAA
1 ACTCAAAGATTTTTATTTAAAAGGAACAA
765219 ACTCAAAGATTTTTATTTAAAAGGAACAA
1 ACTCAAAGATTTTTATTTAAAAGGAACAA
765248 ACTCAAAGATTTTT
1 ACTCAAAGATTTTT
765262 TAAGAGAAAT
Statistics
Matches: 150, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
25 9 0.06
27 3 0.02
28 11 0.07
29 127 0.85
ACGTcount: A:0.48, C:0.12, G:0.10, T:0.30
Consensus pattern (29 bp):
ACTCAAAGATTTTTATTTAAAAGGAACAA
Found at i:765927 original size:4 final size:4
Alignment explanation
Indices: 765911--765954 Score: 63
Period size: 4 Copynumber: 11.2 Consensus size: 4
765901 ATACAAATTT
* *
765911 TATG TAT- TATG TATG TATG TGTA TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG T
765955 TTTCTCGATC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 3 0.09
4 32 0.91
ACGTcount: A:0.25, C:0.00, G:0.23, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:773664 original size:3 final size:3
Alignment explanation
Indices: 773656--773691 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
773646 ATTTGTAAAT
*
773656 TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
773692 CGATAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:776484 original size:64 final size:64
Alignment explanation
Indices: 776416--776544 Score: 152
Period size: 64 Copynumber: 2.0 Consensus size: 64
776406 AGGTCGGATA
*
776416 AAATCAGATACAGGTCA-AGTCAGGTAAATTTGACATCAGATCCAGATCGGGTTCAGGTCAGGTC
1 AAATCAG-TACAGGTCATAGTCAGGTAAATTTGACACCAGATCCAGATCGGGTTCAGGTCAGGTC
* * * ** ** * *
776480 AAATCAGTTCGGGTTATTTTCAGGTTGATTTGACACCATATCCAGATTGGGTTCAGGTCAGGTC
1 AAATCAGTACAGGTCATAGTCAGGTAAATTTGACACCAGATCCAGATCGGGTTCAGGTCAGGTC
776544 A
1 A
776545 TTTTCAGTTC
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
63 6 0.11
64 48 0.89
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.29
Consensus pattern (64 bp):
AAATCAGTACAGGTCATAGTCAGGTAAATTTGACACCAGATCCAGATCGGGTTCAGGTCAGGTC
Found at i:776630 original size:16 final size:16
Alignment explanation
Indices: 776609--776643 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
776599 AAAAAGACCA
776609 GGTTAATTCAGGTTTG
1 GGTTAATTCAGGTTTG
776625 GGTTAATTCAGGTTTG
1 GGTTAATTCAGGTTTG
776641 GGT
1 GGT
776644 GGACTTCAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.17, C:0.06, G:0.34, T:0.43
Consensus pattern (16 bp):
GGTTAATTCAGGTTTG
Found at i:780081 original size:20 final size:20
Alignment explanation
Indices: 780044--780082 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
780034 AGATTGAGTG
* * *
780044 GATTTTGATGTTGTTTGCAC
1 GATTTTAATGATGATTGCAC
780064 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
780083 AGTTTAGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAC
Found at i:780285 original size:20 final size:20
Alignment explanation
Indices: 780238--780299 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
780228 CCAGAACCCC
*
780238 AGGGGGTATCGATTCCCCTTCAA
1 AGGGGGAATCGATT-CCC-TC-A
*
780261 AGGGGGAATCGGTTCCCTCA
1 AGGGGGAATCGATTCCCTCA
*
780281 AGGGGGGATCGATTCCCTC
1 AGGGGGAATCGATTCCCTC
780300 TGCACCAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 18 0.51
21 2 0.06
22 3 0.09
23 12 0.34
ACGTcount: A:0.19, C:0.26, G:0.32, T:0.23
Consensus pattern (20 bp):
AGGGGGAATCGATTCCCTCA
Found at i:784558 original size:6 final size:6
Alignment explanation
Indices: 784547--784577 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
784537 TGCCATTTCC
784547 TCGTCA TCGTCA TCGTCA TCGTCA TCGTCA T
1 TCGTCA TCGTCA TCGTCA TCGTCA TCGTCA T
784578 TTGAATCACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.32, G:0.16, T:0.35
Consensus pattern (6 bp):
TCGTCA
Found at i:786918 original size:17 final size:17
Alignment explanation
Indices: 786896--787008 Score: 57
Period size: 17 Copynumber: 6.8 Consensus size: 17
786886 ATTGAAAAAG
786896 TAATATATATATATATA
1 TAATATATATATATATA
*
786913 TAATATA-AGTTTATATA
1 TAATATATA-TATATATA
*
786930 TAA-ACTATATTTATATTA
1 TAATA-TATATATATA-TA
786948 TAA-ACTATATA-AGTAT-
1 TAATA-TATATATA-TATA
786964 T-ATA-AGT-TATATATA
1 TAATATA-TATATATATA
*
786979 TAA-AT-TATATTTATA
1 TAATATATATATATATA
786994 TGAACTATATATATA
1 T-AA-TATATATATA
787009 AACTATATAT
Statistics
Matches: 76, Mismatches: 4, Indels: 30
0.69 0.04 0.27
Matches are distributed among these distances:
14 7 0.09
15 13 0.17
16 7 0.09
17 27 0.36
18 17 0.22
19 5 0.07
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.46
Consensus pattern (17 bp):
TAATATATATATATATA
Found at i:786944 original size:15 final size:15
Alignment explanation
Indices: 786926--787043 Score: 68
Period size: 15 Copynumber: 7.9 Consensus size: 15
786916 TATAAGTTTA
786926 TATATAAACTATATTT
1 TATATAAACTATA-TT
786942 ATATTATAAACTATA-T
1 -TA-TATAAACTATATT
* * *
786958 AAGTATTATAAGT-TATA
1 TA-TA-TA-AACTATATT
*
786975 TATATAAATTATATT
1 TATATAAACTATATT
*
786990 TATATGAACTATA--
1 TATATAAACTATATT
787003 TATATAAACTATA--
1 TATATAAACTATATT
* *
787016 TATGTAAACTATATA
1 TATATAAACTATATT
*
787031 TGTATAAACTATA
1 TATATAAACTATA
787044 AAAAGTATAT
Statistics
Matches: 81, Mismatches: 13, Indels: 16
0.74 0.12 0.15
Matches are distributed among these distances:
13 24 0.30
14 3 0.04
15 30 0.37
16 7 0.09
17 6 0.07
18 11 0.14
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.43
Consensus pattern (15 bp):
TATATAAACTATATT
Found at i:786951 original size:18 final size:17
Alignment explanation
Indices: 786899--786957 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 17
786889 GAAAAAGTAA
*
786899 TATATATATATATATAA-
1 TATATTTATATATA-AAC
786916 TATAAGTTTATATATAAAC
1 TAT-A-TTTATATATAAAC
786935 TATATTTATATTATAAAC
1 TATATTTATA-TATAAAC
786953 TATAT
1 TATAT
786958 AAGTATTATA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
17 9 0.24
18 16 0.43
19 12 0.32
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.47
Consensus pattern (17 bp):
TATATTTATATATAAAC
Found at i:786964 original size:18 final size:18
Alignment explanation
Indices: 786928--786968 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
786918 TAAGTTTATA
*
786928 TATAAACTATATTTATAT
1 TATAAACTATATTAATAT
786946 TATAAACTATA-TAAGTAT
1 TATAAACTATATTAA-TAT
786964 TATAA
1 TATAA
786969 GTTATATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (18 bp):
TATAAACTATATTAATAT
Found at i:786986 original size:13 final size:13
Alignment explanation
Indices: 786971--787043 Score: 83
Period size: 13 Copynumber: 5.3 Consensus size: 13
786961 TATTATAAGT
*
786971 TATATATATAAAT
1 TATATATATAAAC
*
786984 TATATTTATATGAAC
1 TATA--TATATAAAC
786999 TATATATATAAAC
1 TATATATATAAAC
*
787012 TATATATGTAAAC
1 TATATATATAAAC
787025 TATATATGTATAAAC
1 TATATA--TATAAAC
787040 TATA
1 TATA
787044 AAAAGTATAT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
13 30 0.59
15 21 0.41
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.42
Consensus pattern (13 bp):
TATATATATAAAC
Found at i:787015 original size:28 final size:26
Alignment explanation
Indices: 786971--787043 Score: 83
Period size: 28 Copynumber: 2.7 Consensus size: 26
786961 TATTATAAGT
* *
786971 TATATATATAAATTATATTTATATGAAC
1 TATATATATAAACTATA--TATATAAAC
*
786999 TATATATATAAACTATATATGTAAAC
1 TATATATATAAACTATATATATAAAC
787025 TATATATGTATAAACTATA
1 TATATA--TATAAACTATA
787044 AAAAGTATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
26 13 0.32
28 27 0.68
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.42
Consensus pattern (26 bp):
TATATATATAAACTATATATATAAAC
Found at i:787212 original size:20 final size:20
Alignment explanation
Indices: 787168--787243 Score: 84
Period size: 19 Copynumber: 3.9 Consensus size: 20
787158 TTTATTTGGG
* *
787168 AATTTAGAGGGAAGTTG-AG
1 AATTTAGAGGGAAATTGAAA
*
787187 AATTTAGAGAGAAATTGAAA
1 AATTTAGAGGGAAATTGAAA
* *
787207 AATTTAGAGCG-AATAGAAA
1 AATTTAGAGGGAAATTGAAA
*
787226 AATTTGGAGGGAAATTGA
1 AATTTAGAGGGAAATTGA
787244 GAATTGAGAT
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
19 31 0.66
20 16 0.34
ACGTcount: A:0.46, C:0.01, G:0.28, T:0.25
Consensus pattern (20 bp):
AATTTAGAGGGAAATTGAAA
Found at i:787457 original size:12 final size:12
Alignment explanation
Indices: 787436--787477 Score: 75
Period size: 12 Copynumber: 3.5 Consensus size: 12
787426 TAATTTTCTA
787436 TATATATGTATG
1 TATATATGTATG
*
787448 TATATCTGTATG
1 TATATATGTATG
787460 TATATATGTATG
1 TATATATGTATG
787472 TATATA
1 TATATA
787478 AACTTTATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.33, C:0.02, G:0.14, T:0.50
Consensus pattern (12 bp):
TATATATGTATG
Found at i:787808 original size:7 final size:7
Alignment explanation
Indices: 787778--787861 Score: 78
Period size: 7 Copynumber: 12.0 Consensus size: 7
787768 AATTTTATAA
787778 AAACCCT
1 AAACCCT
**
787785 AAACTTT
1 AAACCCT
* *
787792 AAATCAT
1 AAACCCT
787799 AAACCCT
1 AAACCCT
787806 AAACCCT
1 AAACCCT
**
787813 AAACTTT
1 AAACCCT
*
787820 AAACCAT
1 AAACCCT
*
787827 AAACACT
1 AAACCCT
787834 AAACCCT
1 AAACCCT
*
787841 AAACCTT
1 AAACCCT
*
787848 AAACCTT
1 AAACCCT
787855 AAACCCT
1 AAACCCT
787862 TATATAAATA
Statistics
Matches: 61, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 61 1.00
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (7 bp):
AAACCCT
Done.