Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008436.1 Hibiscus syriacus cultivar Beakdansim tig00111234_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: 1066897
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 2 of 4
Found at i:294566 original size:33 final size:33
Alignment explanation
Indices: 294485--294607 Score: 165
Period size: 33 Copynumber: 3.5 Consensus size: 33
294475 TCTTTTGGTT
*
294485 GAAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGAG-A--A---TCGCAAC--GC
294526 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
294559 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
294592 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
294608 TGCGATTTTG
Statistics
Matches: 81, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
33 50 0.62
35 7 0.09
38 1 0.01
40 1 0.01
41 22 0.27
ACGTcount: A:0.46, C:0.19, G:0.24, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:294643 original size:14 final size:14
Alignment explanation
Indices: 294624--294680 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
294614 TTTGGTTTCG
294624 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
294638 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
294657 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
294671 CATTGCGATT
1 CGTTGCGATT
294681 TTCATTTTTC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.11, C:0.25, G:0.21, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:294656 original size:33 final size:33
Alignment explanation
Indices: 294608--294687 Score: 133
Period size: 33 Copynumber: 2.4 Consensus size: 33
294598 AAAATCGCAA
** *
294608 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCAT
294641 TGCGATTTTCATTTCGCGTTGCGATTCTCTCAT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCAT
294674 TGCGATTTTCATTT
1 TGCGATTTTCATTT
294688 TTCTCGTTGC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.10, C:0.21, G:0.21, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCAT
Found at i:294692 original size:21 final size:21
Alignment explanation
Indices: 294668--294741 Score: 87
Period size: 21 Copynumber: 3.5 Consensus size: 21
294658 GTTGCGATTC
*
294668 TCTCATTGCGATTTTCATTTT
1 TCTCGTTGCGATTTTCATTTT
**
294689 TCTCGTTGCAGATAGTCA-TTT
1 TCTCGTTGC-GATTTTCATTTT
* *
294710 TCACGTTGCGATTTTCATTTA
1 TCTCGTTGCGATTTTCATTTT
294731 TCTCGTTGCGA
1 TCTCGTTGCGA
294742 CTCTTCTGCA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
20 6 0.14
21 31 0.72
22 6 0.14
ACGTcount: A:0.16, C:0.20, G:0.16, T:0.47
Consensus pattern (21 bp):
TCTCGTTGCGATTTTCATTTT
Found at i:294857 original size:32 final size:33
Alignment explanation
Indices: 294821--294890 Score: 106
Period size: 32 Copynumber: 2.2 Consensus size: 33
294811 AATACTAACT
*
294821 TGAAAATCGCAACGAGAGAATAGCAACGCG-AA
1 TGAAAATCGCAACAAGAGAATAGCAACGCGAAA
* *
294853 TGAAAATCGCAACAAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACAAGAGAATAGCAACGCGAAA
294886 TGAAA
1 TGAAA
294891 TCTAAGTGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 27 0.79
33 7 0.21
ACGTcount: A:0.49, C:0.17, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACAAGAGAATAGCAACGCGAAA
Found at i:295294 original size:20 final size:20
Alignment explanation
Indices: 295269--295442 Score: 244
Period size: 20 Copynumber: 8.7 Consensus size: 20
295259 CTTTAAAAAT
295269 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
295289 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
295309 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
*
295330 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
295350 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
295370 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
295390 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
295410 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
295430 CGCGTTGCGATTT
1 CGCGTTGCGATTT
295443 TTATATTCGC
Statistics
Matches: 138, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
20 120 0.87
21 18 0.13
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.34
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:295451 original size:20 final size:20
Alignment explanation
Indices: 295410--295461 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
295400 TTTACGGATA
* *
295410 CGCGTTGCGATTTATGTGTT
1 CGCGTTGCGATTTATATATT
*
295430 CGCGTTGCGATTTTTATATT
1 CGCGTTGCGATTTATATATT
295450 CGCGTTGCGATT
1 CGCGTTGCGATT
295462 CTGTAAAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.12, C:0.17, G:0.27, T:0.44
Consensus pattern (20 bp):
CGCGTTGCGATTTATATATT
Found at i:295479 original size:21 final size:20
Alignment explanation
Indices: 295455--295504 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
295445 ATATTCGCGT
295455 TGCGATTCTGTAAAATCGCAA
1 TGCGATT-TGTAAAATCGCAA
** *
295476 TGCGAATTTGTACTATCGCAT
1 TGCG-ATTTGTAAAATCGCAA
295497 TGCGATTT
1 TGCGATTT
295505 TCAAGAATCG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 4 0.16
21 18 0.72
22 3 0.12
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (20 bp):
TGCGATTTGTAAAATCGCAA
Found at i:295522 original size:42 final size:42
Alignment explanation
Indices: 295429--295527 Score: 98
Period size: 42 Copynumber: 2.4 Consensus size: 42
295419 ATTTATGTGT
* *
295429 TCGCGTTGCG-ATTTTTATATTCGCGTTGCGATTCTGTAAAA
1 TCGCGTTGCGAATTTGTATATTCGCATTGCGATTCTGTAAAA
**
295470 TCGCAATGCGAATTTGTACTA-TCGCATTGCGATT-T-TCAAGAA
1 TCGCGTTGCGAATTTGTA-TATTCGCATTGCGATTCTGT-AA-AA
*
295512 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
295528 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
40 1 0.02
41 11 0.23
42 33 0.70
43 2 0.04
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.38
Consensus pattern (42 bp):
TCGCGTTGCGAATTTGTATATTCGCATTGCGATTCTGTAAAA
Found at i:296939 original size:29 final size:29
Alignment explanation
Indices: 296906--296990 Score: 118
Period size: 29 Copynumber: 2.9 Consensus size: 29
296896 TCCCAACACA
296906 TAGGTCGCCATGTC-CTCCGGGCGACCTTG
1 TAGGTCGCCATG-CACTCCGGGCGACCTTG
* *
296935 TAGGTCGCCATGCTCTCCAGGCGACCTTG
1 TAGGTCGCCATGCACTCCGGGCGACCTTG
* *
296964 TAGGTTGCCATGCACTCCGGGTGACCT
1 TAGGTCGCCATGCACTCCGGGCGACCT
296991 ACCCTTGCTC
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
28 1 0.02
29 49 0.98
ACGTcount: A:0.13, C:0.33, G:0.29, T:0.25
Consensus pattern (29 bp):
TAGGTCGCCATGCACTCCGGGCGACCTTG
Found at i:297028 original size:23 final size:23
Alignment explanation
Indices: 297002--297065 Score: 110
Period size: 23 Copynumber: 2.8 Consensus size: 23
296992 CCCTTGCTCA
297002 CTCGCTCGGATGCCCTCGCATAG
1 CTCGCTCGGATGCCCTCGCATAG
*
297025 CTCGCTCGGCTGCCCTCGCATAG
1 CTCGCTCGGATGCCCTCGCATAG
*
297048 CTCGCTCGGATGGCCTCG
1 CTCGCTCGGATGCCCTCG
297066 GATGCTCTCG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.09, C:0.41, G:0.28, T:0.22
Consensus pattern (23 bp):
CTCGCTCGGATGCCCTCGCATAG
Found at i:297066 original size:33 final size:33
Alignment explanation
Indices: 297029--297105 Score: 127
Period size: 33 Copynumber: 2.3 Consensus size: 33
297019 GCATAGCTCG
*
297029 CTCGGCTGCCCTCGCATAGCTCGCTCGGATGGC
1 CTCGGATGCCCTCGCATAGCTCGCTCGGATGGC
* *
297062 CTCGGATGCTCTCGCATAGCTCGGTCGGATGGC
1 CTCGGATGCCCTCGCATAGCTCGCTCGGATGGC
297095 CTCGGATGCCC
1 CTCGGATGCCC
297106 AACGTGTTGG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.10, C:0.36, G:0.31, T:0.22
Consensus pattern (33 bp):
CTCGGATGCCCTCGCATAGCTCGCTCGGATGGC
Found at i:298058 original size:29 final size:30
Alignment explanation
Indices: 298025--298083 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
298015 CCGTTTTTTT
* *
298025 AGTTTAGTGCCTAATATTT-ATTTTGTTAC
1 AGTTTAGTGCCTAACATTTCATTCTGTTAC
* *
298054 AGTTTTGTGTCTAACATTTCATTCTGTTAC
1 AGTTTAGTGCCTAACATTTCATTCTGTTAC
298084 TCAAAATGGG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 16 0.64
30 9 0.36
ACGTcount: A:0.22, C:0.14, G:0.14, T:0.51
Consensus pattern (30 bp):
AGTTTAGTGCCTAACATTTCATTCTGTTAC
Found at i:304544 original size:123 final size:120
Alignment explanation
Indices: 304324--304567 Score: 373
Period size: 123 Copynumber: 2.0 Consensus size: 120
304314 TTTCGCCCTC
*
304324 AGAAACTGGTGTCTCTATCTGATCTTCCTCCTTGGTATCCTCAGATGGATTCTCTTCTTCAACTG
1 AGAAAATGGTGTCTCTATCTGATCTTCCTCCTTGGTATCCTCAGATGGATTCTCTTCTTCAACTG
* * *
304389 CTTCACTTCCAGAAGACTTAATCTGATTATCAGTCGATTCTTGAGAGGGATCAGG
66 CTTCACTTCCAGAAGACTTAATCTGATCATCAGGCGATTCTTGAGACGGATCAGG
* * *
304444 AGAAAATGGTGTCTCTATCTGCA-CTTCTTCCTTGGTATCCTCAGATTGATTTTCTTTTTCTTCA
1 AGAAAATGGTGTCTCTATCTG-ATCTTCCTCCTTGGTATCCTCAGATGGA--TTC-TCTTCTTCA
*
304508 ACTGCTTCACTTCCCGAAGACTTAATCTGATCATCAGGCGATTCTTGAGACGGATCAGG
62 ACTGCTTCACTTCCAGAAGACTTAATCTGATCATCAGGCGATTCTTGAGACGGATCAGG
304567 A
1 A
304568 CTTGCATTGT
Statistics
Matches: 112, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
120 44 0.39
121 1 0.01
122 3 0.03
123 64 0.57
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (120 bp):
AGAAAATGGTGTCTCTATCTGATCTTCCTCCTTGGTATCCTCAGATGGATTCTCTTCTTCAACTG
CTTCACTTCCAGAAGACTTAATCTGATCATCAGGCGATTCTTGAGACGGATCAGG
Found at i:307486 original size:9 final size:8
Alignment explanation
Indices: 307433--307475 Score: 77
Period size: 8 Copynumber: 5.2 Consensus size: 8
307423 TCATGGATAT
307433 AAAATAAAA
1 AAAAT-AAA
307442 AAAATAAA
1 AAAATAAA
307450 AAAATAAA
1 AAAATAAA
307458 AAAATAAA
1 AAAATAAA
307466 AAAATAAA
1 AAAATAAA
307474 AA
1 AA
307476 TAAAATAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 29 0.85
9 5 0.15
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAATAAA
Found at i:311379 original size:36 final size:35
Alignment explanation
Indices: 311283--311380 Score: 126
Period size: 35 Copynumber: 2.8 Consensus size: 35
311273 AGATGAACAA
* *
311283 TTGAATCGAAAGTGCTGACGCTTCCTTCCGTTCAC
1 TTGAATCGAAAGTGCTGATGCTTCCTTCCGTCCAC
*
311318 TTGAATCAAAAGTG-TCGATGCTTCCTTCCGTCCAC
1 TTGAATCGAAAGTGCT-GATGCTTCCTTCCGTCCAC
* *
311353 TTTGAATCGAAAGTGCTTATGTTTCCTT
1 -TTGAATCGAAAGTGCTGATGCTTCCTT
311381 TCGTTCTTCT
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
34 1 0.02
35 30 0.56
36 22 0.41
37 1 0.02
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.36
Consensus pattern (35 bp):
TTGAATCGAAAGTGCTGATGCTTCCTTCCGTCCAC
Found at i:317942 original size:38 final size:39
Alignment explanation
Indices: 317856--317953 Score: 135
Period size: 38 Copynumber: 2.5 Consensus size: 39
317846 TCCATTTGTT
* * *
317856 TGAAGACGTCATGCAGTCGTGGGGTATTATTCATTTACC
1 TGAAGACGTCATACAGTCGTGAGGTATTATTCATTTACA
* *
317895 TGAATACGTCATACAGTCGTGAGGTATT-TTCATTTGCA
1 TGAAGACGTCATACAGTCGTGAGGTATTATTCATTTACA
*
317933 TGAAGACGTCATACAATCGTG
1 TGAAGACGTCATACAGTCGTG
317954 GAGTCTTCAT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
38 27 0.52
39 25 0.48
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (39 bp):
TGAAGACGTCATACAGTCGTGAGGTATTATTCATTTACA
Found at i:318700 original size:19 final size:19
Alignment explanation
Indices: 318676--318714 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
318666 TAATTTAAAA
318676 TAATTT-AAAATTTTATTAT
1 TAATTTGAAAA-TTTATTAT
*
318695 TAATTTGATAATTTATTAT
1 TAATTTGAAAATTTATTAT
318714 T
1 T
318715 TTTATATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (19 bp):
TAATTTGAAAATTTATTAT
Found at i:318715 original size:27 final size:29
Alignment explanation
Indices: 318675--318730 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
318665 TTAATTTAAA
318675 ATAATTTAAAA-TTT-TATTATTAATTTG
1 ATAATTTAAAATTTTATATTATTAATTTG
* *
318702 ATAATTTATTATTTTTATATTATTAATTT
1 ATAATTTA-AAATTTTATATTATTAATTT
318731 AATATCAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 8 0.33
28 1 0.04
29 3 0.12
30 12 0.50
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (29 bp):
ATAATTTAAAATTTTATATTATTAATTTG
Found at i:326782 original size:2 final size:2
Alignment explanation
Indices: 326777--326816 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
326767 CTTCAAAAGA
326777 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
326817 GCATTTAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:331805 original size:10 final size:10
Alignment explanation
Indices: 331790--331842 Score: 60
Period size: 10 Copynumber: 5.7 Consensus size: 10
331780 TCCATTTGTA
331790 ATAATAATAT
1 ATAATAATAT
331800 ATAATAATA-
1 ATAATAATAT
*
331809 ATTAT-ATAT
1 ATAATAATAT
*
331818 -TAAT-ATGT
1 ATAATAATAT
331826 ATAATAATAT
1 ATAATAATAT
331836 ATAATAA
1 ATAATAA
331843 CATAAGACGA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
8 9 0.25
9 8 0.22
10 19 0.53
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (10 bp):
ATAATAATAT
Found at i:337047 original size:27 final size:28
Alignment explanation
Indices: 337006--337058 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
336996 GATAGGATCA
*
337006 GATTTTTTAAAAAATTAAGTTCGGGTCG
1 GATTTTTTAAAAAATGAAGTTCGGGTCG
*
337034 GATTTTTT-AAAAATGATGTTCGGGT
1 GATTTTTTAAAAAATGAAGTTCGGGT
337059 GAATTCGCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 15 0.65
28 8 0.35
ACGTcount: A:0.30, C:0.06, G:0.23, T:0.42
Consensus pattern (28 bp):
GATTTTTTAAAAAATGAAGTTCGGGTCG
Found at i:349101 original size:18 final size:18
Alignment explanation
Indices: 349070--349116 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
349060 GGTTCAGGTT
349070 AGACTGGGTCGGGTCGGAC
1 AGAC-GGGTCGGGTCGGAC
* *
349089 AGACGGGTTGGGTCGGGC
1 AGACGGGTCGGGTCGGAC
*
349107 AGACGAGTCG
1 AGACGGGTCG
349117 ACTTGGGTCG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.17, C:0.19, G:0.49, T:0.15
Consensus pattern (18 bp):
AGACGGGTCGGGTCGGAC
Found at i:349932 original size:3 final size:3
Alignment explanation
Indices: 349920--349953 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
349910 TAAAATATTT
*
349920 ATA A-A ATA ATA ATA ATA ATA ATA ATA AAA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
349954 TGAAATAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:355087 original size:2 final size:2
Alignment explanation
Indices: 355080--355130 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
355070 CATAATTTTC
355080 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
355122 AT AT AT AT A
1 AT AT AT AT A
355131 AGAGGCAAGT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:360907 original size:23 final size:24
Alignment explanation
Indices: 360863--360912 Score: 57
Period size: 23 Copynumber: 2.0 Consensus size: 24
360853 ATTTTAAAAA
*
360863 TTATTTATTATACCTATTTTAACTAT
1 TTATTTATTAT--CTATATTAACTAT
*
360889 TTATTTATTAT-TATATTAATTAT
1 TTATTTATTATCTATATTAACTAT
360912 T
1 T
360913 AGCGGTGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 11 0.50
26 11 0.50
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (24 bp):
TTATTTATTATCTATATTAACTAT
Found at i:364237 original size:59 final size:58
Alignment explanation
Indices: 364145--364255 Score: 159
Period size: 59 Copynumber: 1.9 Consensus size: 58
364135 GCTAATTATA
* *
364145 CAAATTAGTACCCAAATTTCTCAGTTTTCTCAAATTGGTCTTAGAACTTTTTTTTGTCT
1 CAAATTAGTACCCAAATTTCGCAGTTTTCTCAAATTGGTCTT-GAACTGTTTTTTGTCT
* * * *
364204 CAAATTAGTACCTAAATTTGGCATTTTTCTCAAATTGTTCTTGAACTGTTTT
1 CAAATTAGTACCCAAATTTCGCAGTTTTCTCAAATTGGTCTTGAACTGTTTT
364256 GTATCAGATT
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
58 9 0.20
59 37 0.80
ACGTcount: A:0.26, C:0.17, G:0.11, T:0.46
Consensus pattern (58 bp):
CAAATTAGTACCCAAATTTCGCAGTTTTCTCAAATTGGTCTTGAACTGTTTTTTGTCT
Found at i:368767 original size:26 final size:27
Alignment explanation
Indices: 368737--368787 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
368727 TAATCACCAA
* *
368737 TAAACTCATACATA-AAATAAAAATAT
1 TAAACCCAAACATACAAATAAAAATAT
*
368763 TAAACCCAAATATACAAATAAAAAT
1 TAAACCCAAACATACAAATAAAAAT
368788 GAAATATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 11 0.52
27 10 0.48
ACGTcount: A:0.63, C:0.14, G:0.00, T:0.24
Consensus pattern (27 bp):
TAAACCCAAACATACAAATAAAAATAT
Found at i:381763 original size:13 final size:13
Alignment explanation
Indices: 381745--381769 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
381735 TTTTGCAAAA
381745 TGATAACTGTCAC
1 TGATAACTGTCAC
381758 TGATAACTGTCA
1 TGATAACTGTCA
381770 GCATGATTCT
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGATAACTGTCAC
Found at i:385296 original size:6 final size:6
Alignment explanation
Indices: 385285--385318 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
385275 CTAGTAGTAT
385285 AATTAA AATTAA AATTAA AATTAA AATTAA AATT
1 AATTAA AATTAA AATTAA AATTAA AATTAA AATT
385319 TAATACTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
AATTAA
Found at i:385625 original size:89 final size:89
Alignment explanation
Indices: 385474--385651 Score: 356
Period size: 89 Copynumber: 2.0 Consensus size: 89
385464 TTTCCTCCTG
385474 ACATATATATTTGCGAGCTTGACCCTCTAATCATAACCCTACCAGAATTCCCCTTTCTACAGCCG
1 ACATATATATTTGCGAGCTTGACCCTCTAATCATAACCCTACCAGAATTCCCCTTTCTACAGCCG
385539 ACTATCGATAAAGCTAGCTGCTGC
66 ACTATCGATAAAGCTAGCTGCTGC
385563 ACATATATATTTGCGAGCTTGACCCTCTAATCATAACCCTACCAGAATTCCCCTTTCTACAGCCG
1 ACATATATATTTGCGAGCTTGACCCTCTAATCATAACCCTACCAGAATTCCCCTTTCTACAGCCG
385628 ACTATCGATAAAGCTAGCTGCTGC
66 ACTATCGATAAAGCTAGCTGCTGC
385652 TCGGCTCGAT
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 89 1.00
ACGTcount: A:0.28, C:0.30, G:0.13, T:0.28
Consensus pattern (89 bp):
ACATATATATTTGCGAGCTTGACCCTCTAATCATAACCCTACCAGAATTCCCCTTTCTACAGCCG
ACTATCGATAAAGCTAGCTGCTGC
Found at i:391853 original size:19 final size:19
Alignment explanation
Indices: 391826--391865 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
391816 CGACTTAAAT
* *
391826 TAATTTATTTTTATTTTTA
1 TAATATATTATTATTTTTA
*
391845 TAATATATTATTGTTTTTA
1 TAATATATTATTATTTTTA
391864 TA
1 TA
391866 TATTTCATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (19 bp):
TAATATATTATTATTTTTA
Found at i:397540 original size:29 final size:29
Alignment explanation
Indices: 397483--397540 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
397473 GTGTTGGCCG
* *
397483 TAGGTCGCCATGCCTTCCGGGCGACCTAC
1 TAGGTCGCCATGCCTTCCCGACGACCTAC
* * *
397512 TAGGTCGTCATGTCTTCCCGACGAGCTAC
1 TAGGTCGCCATGCCTTCCCGACGACCTAC
397541 AAGAGATTGC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.16, C:0.34, G:0.26, T:0.24
Consensus pattern (29 bp):
TAGGTCGCCATGCCTTCCCGACGACCTAC
Found at i:397640 original size:23 final size:24
Alignment explanation
Indices: 397580--397643 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
397570 ATACGCTGGG
* *
397580 CATCCGAGACCATCCGACCGAGGC
1 CATCCGAGGCCATCCGAACGAGGC
397604 CATCCGAGGCCATCCGAACGA-GC
1 CATCCGAGGCCATCCGAACGAGGC
* * *
397627 TATGCGAGGGCATCCGA
1 CATCCGAGGCCATCCGA
397644 GGGCAACCGA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
23 16 0.46
24 19 0.54
ACGTcount: A:0.25, C:0.36, G:0.28, T:0.11
Consensus pattern (24 bp):
CATCCGAGGCCATCCGAACGAGGC
Found at i:397707 original size:14 final size:14
Alignment explanation
Indices: 397688--397715 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
397678 CGCTGGGCAT
397688 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
397702 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
397716 GAGCATCCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.43, G:0.29, T:0.07
Consensus pattern (14 bp):
CCGAGGCCATCCGA
Found at i:397727 original size:20 final size:20
Alignment explanation
Indices: 397702--397745 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
397692 GGCCATCCGA
397702 CCGAGGCCATCCGAGAGCAT
1 CCGAGGCCATCCGAGAGCAT
397722 CCGAGGCCATCCGAGAGCAT
1 CCGAGGCCATCCGAGAGCAT
397742 CCGA
1 CCGA
397746 CCGAGCTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.25, C:0.36, G:0.30, T:0.09
Consensus pattern (20 bp):
CCGAGGCCATCCGAGAGCAT
Found at i:397771 original size:10 final size:10
Alignment explanation
Indices: 397682--397804 Score: 75
Period size: 10 Copynumber: 11.3 Consensus size: 10
397672 CCAACACGCT
397682 GGGCATCCGA
1 GGGCATCCGA
*
397692 GGCCATCCGA
1 GGGCATCCGA
397702 CCGAGGCCATCCGA
1 --G-GG-CATCCGA
*
397716 GAGCATCCGA
1 GGGCATCCGA
*
397726 GGCCATCCGA
1 GGGCATCCGA
*
397736 GAGCATCCGA
1 GGGCATCCGA
* *
397746 CCGAGCTATGCGA
1 --GGGC-ATCCGA
397759 GGGCATCCGA
1 GGGCATCCGA
*
397769 GGGCAACCGA
1 GGGCATCCGA
*
397779 GCGAGCTATGCGA
1 G-G-GC-ATCCGA
*
397792 GGGAATCCGA
1 GGGCATCCGA
397802 GGG
1 GGG
397805 AAGCCGAGCG
Statistics
Matches: 88, Mismatches: 15, Indels: 20
0.72 0.12 0.16
Matches are distributed among these distances:
10 55 0.62
11 6 0.07
12 9 0.10
13 11 0.12
14 7 0.08
ACGTcount: A:0.24, C:0.31, G:0.36, T:0.10
Consensus pattern (10 bp):
GGGCATCCGA
Found at i:397803 original size:33 final size:33
Alignment explanation
Indices: 397730--397816 Score: 122
Period size: 33 Copynumber: 2.6 Consensus size: 33
397720 ATCCGAGGCC
* * * *
397730 ATCCGAGAGCATCCGACCGAGCTATGCGAGGGC
1 ATCCGAGGGCAACCGAGCGAGCTATGCGAGGGA
397763 ATCCGAGGGCAACCGAGCGAGCTATGCGAGGGA
1 ATCCGAGGGCAACCGAGCGAGCTATGCGAGGGA
397796 ATCCGAGGG-AAGCCGAGCGAG
1 ATCCGAGGGCAA-CCGAGCGAG
397817 TGTAGGTCGC
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
32 2 0.04
33 47 0.96
ACGTcount: A:0.26, C:0.26, G:0.38, T:0.09
Consensus pattern (33 bp):
ATCCGAGGGCAACCGAGCGAGCTATGCGAGGGA
Found at i:397853 original size:29 final size:29
Alignment explanation
Indices: 397820--397875 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
397810 GAGCGAGTGT
* * *
397820 AGGTCGCCCGGAGTGCATGGCGACCTACA
1 AGGTCACCAGGAGAGCATGGCGACCTACA
397849 AGGTCACCAGGAGAGCATGGCGACCTA
1 AGGTCACCAGGAGAGCATGGCGACCTA
397876 TGTGTTGGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.25, C:0.29, G:0.34, T:0.12
Consensus pattern (29 bp):
AGGTCACCAGGAGAGCATGGCGACCTACA
Found at i:397966 original size:17 final size:17
Alignment explanation
Indices: 397944--397976 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
397934 AGGTCGCCCG
397944 GAGTGCATGGCGACCTT
1 GAGTGCATGGCGACCTT
397961 GAGTGCATGGCGACCT
1 GAGTGCATGGCGACCT
397977 ACGGCCAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.24, G:0.36, T:0.21
Consensus pattern (17 bp):
GAGTGCATGGCGACCTT
Found at i:402253 original size:2 final size:2
Alignment explanation
Indices: 402246--402282 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
402236 GTTAATATGG
402246 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
402283 AATTTATAGT
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:410867 original size:38 final size:38
Alignment explanation
Indices: 410816--410923 Score: 152
Period size: 34 Copynumber: 2.9 Consensus size: 38
410806 AAAGTCAAGC
*
410816 CTTCACGGAAGAGTAGTGAAGCAAATCCATTTGTAAAA
1 CTTCACGGAAGAGTAGTGAAGCAAATCCATCTGTAAAA
* **
410854 CTTCACCGAAGAGTAGTGAAGC--A-CCATCT-TAAGC
1 CTTCACGGAAGAGTAGTGAAGCAAATCCATCTGTAAAA
410888 CTTCACGGAAGAGTAGTGAAGCAAATCCATCTGTAA
1 CTTCACGGAAGAGTAGTGAAGCAAATCCATCTGTAA
410924 GCCTTTAGAG
Statistics
Matches: 61, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
34 24 0.39
35 5 0.08
36 2 0.03
37 6 0.10
38 24 0.39
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.22
Consensus pattern (38 bp):
CTTCACGGAAGAGTAGTGAAGCAAATCCATCTGTAAAA
Found at i:410899 original size:34 final size:37
Alignment explanation
Indices: 410812--410928 Score: 159
Period size: 38 Copynumber: 3.2 Consensus size: 37
410802 GGGCAAAGTC
*
410812 AAGCCTTCACGGAAGAGTAGTGAAGCAAATCCATTTGT
1 AAGCCTTCACGGAAGAGTAGTGAAGC-AATCCATCTGT
** *
410850 AAAACTTCACCGAAGAGTAGTGAAGC-A-CCATCT-T
1 AAGCCTTCACGGAAGAGTAGTGAAGCAATCCATCTGT
410884 AAGCCTTCACGGAAGAGTAGTGAAGCAAATCCATCTGT
1 AAGCCTTCACGGAAGAGTAGTGAAGC-AATCCATCTGT
410922 AAGCCTT
1 AAGCCTT
410929 TAGAGCAAGA
Statistics
Matches: 68, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
34 24 0.35
35 5 0.07
36 2 0.03
37 6 0.09
38 31 0.46
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.22
Consensus pattern (37 bp):
AAGCCTTCACGGAAGAGTAGTGAAGCAATCCATCTGT
Found at i:411173 original size:41 final size:42
Alignment explanation
Indices: 411070--411177 Score: 119
Period size: 42 Copynumber: 2.6 Consensus size: 42
411060 TTTCATAATT
* * * * * **
411070 TATAAGTCCGTCGGGCTATCAGTAAGTCTTTCGAGCTTGATG
1 TATAAGTCCTTCGGGCCATCTGTAAGCCTTTAGAGCAAGATG
* * *
411112 TTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATG
1 TATAAGTCCTTCGGGCCATCTGTAAGCCTTTAGAGCAAGATG
411154 -ATAAGTCCTTCGGGCCATCTGTAA
1 TATAAGTCCTTCGGGCCATCTGTAA
411178 AACCTTCGGG
Statistics
Matches: 53, Mismatches: 13, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
41 21 0.40
42 32 0.60
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.32
Consensus pattern (42 bp):
TATAAGTCCTTCGGGCCATCTGTAAGCCTTTAGAGCAAGATG
Found at i:411354 original size:215 final size:213
Alignment explanation
Indices: 410918--411356 Score: 700
Period size: 215 Copynumber: 2.1 Consensus size: 213
410908 GCAAATCCAT
410918 CTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGGATGT
1 CTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGGATGT
* ** * * *
410983 TTTTACATGAATTTGAAAATGAAAATTATGCTTTAAGAAGATGAAATTTTTGAAAACGAAGAATG
66 TTTCACATGAATTTGAAAATGAAAACGATGCTTTAAGAAGATGAAACTTTTGAAAACAAAAAATG
* * * *
411048 CGATTTTCAAAATTTCATAATTTATAAGTCCGTCGGGCTATCAGTAAGTCTTTCGAGCTTGATGT
131 CGATTTTCAAAATTTCACAATTTATAAGTCCGTCGGGCCATCAGTAAGTCTTTCGAGCATGATGA
*
411113 TTAAATCCTTCGGGTCAT
196 TTAAATCCTTCGGGTCAA
**
411131 CTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCTGTAAAACCTTCGGGTAGGATGT
1 CTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGGATGT
* *
411196 TTTCACATGAATTTGAAAATGAAAAAACGATGTTTTGAGAAGATGAAACTTTTGAAAACAAAAAA
66 TTTCACATGAATTTGAAAATG--AAAACGATGCTTTAAGAAGATGAAACTTTTGAAAACAAAAAA
*
411261 TGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGAT
129 TGCGATTTTCAAAATTTCACAATTTATAAGTCCGTCGGGCCATCAGTAAGTCTTTCGAGCATGAT
411326 GATTAAATCCTTCGGGT-AA
194 GATTAAATCCTTCGGGTCAA
411345 CTGGTAAGCCTT
1 CT-GTAAGCCTT
411357 CACGGAAGAG
Statistics
Matches: 207, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
213 83 0.40
214 3 0.01
215 121 0.58
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.32
Consensus pattern (213 bp):
CTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGGATGT
TTTCACATGAATTTGAAAATGAAAACGATGCTTTAAGAAGATGAAACTTTTGAAAACAAAAAATG
CGATTTTCAAAATTTCACAATTTATAAGTCCGTCGGGCCATCAGTAAGTCTTTCGAGCATGATGA
TTAAATCCTTCGGGTCAA
Found at i:411434 original size:80 final size:80
Alignment explanation
Indices: 411300--411582 Score: 458
Period size: 80 Copynumber: 3.5 Consensus size: 80
411290 GTCCTTCGGG
* * **
411300 CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAACTGGTAAGCCTTCACGGAAG
1 CCATCAGTAAGTCTTTCGAGCATGATAATTAAATCCTTCGGGTAATTTTTAAGCCTTCACGGAAG
411365 AGTAGTGAAGCAAAT
66 AGTAGTGAAGCAAAT
* * *
411380 TCATCAGTAAGTCTTTCGAGCATGATAATTAAATCCTTTGGGTAATTTTTAAGCCTTCACCGAAG
1 CCATCAGTAAGTCTTTCGAGCATGATAATTAAATCCTTCGGGTAATTTTTAAGCCTTCACGGAAG
*
411445 AGTAGTGAAGCAAAC
66 AGTAGTGAAGCAAAT
411460 CCATCAGTAAGTCTTTCGAGCATGATAATTAAATCCTTCGGGTAATTTTTAAGCCTTCACGGAAG
1 CCATCAGTAAGTCTTTCGAGCATGATAATTAAATCCTTCGGGTAATTTTTAAGCCTTCACGGAAG
*
411525 AGCAGTGAAGCAAAT
66 AGTAGTGAAGCAAAT
* * *
411540 CCGTCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGT
1 CCATCAGTAAGTCTTTCGAGCATGATAATTAAATCCTTCGGGT
411583 CATCCATAAG
Statistics
Matches: 187, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
80 187 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (80 bp):
CCATCAGTAAGTCTTTCGAGCATGATAATTAAATCCTTCGGGTAATTTTTAAGCCTTCACGGAAG
AGTAGTGAAGCAAAT
Found at i:412132 original size:53 final size:53
Alignment explanation
Indices: 412017--412141 Score: 169
Period size: 53 Copynumber: 2.4 Consensus size: 53
412007 AGAATTACAC
* **
412017 CAGAAAATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCTGTAGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCATAGG
* * ***
412070 CAGACGATTGTTCGAGTTGTACTCCCTGAAGCAAGAGGGAGCGAACCCATTTT
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCATAGG
*
412123 TAGAAGATTGTTCGAGTTC
1 CAGAAGATTGTTCGAGTTC
412142 CTTAATCCCT
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
53 61 1.00
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (53 bp):
CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCATAGG
Found at i:413909 original size:2 final size:2
Alignment explanation
Indices: 413902--413949 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
413892 GTTAATATGG
413902 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
413944 AT AT AT
1 AT AT AT
413950 TAAATTTATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:420699 original size:2 final size:2
Alignment explanation
Indices: 420688--420717 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
420678 TTTTGTTTCC
420688 CT CT -T CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
420718 GATCCTCGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:428693 original size:72 final size:72
Alignment explanation
Indices: 428608--428741 Score: 207
Period size: 72 Copynumber: 1.9 Consensus size: 72
428598 AAGCCTATTG
** * * *
428608 AATTATCATATTTTCTAGTTTTTTAAATAAAAAA-TAATGTTTTAAAATATTTTTTAATTATTGG
1 AATTATCATATTTTAAAGTATTTAAAATAAAAAAGT-ATGTTTAAAAATATTTTTTAATTATTGG
428672 GTTCACTA
65 GTTCACTA
428680 AATTATCATATTTTAAAGTATTTAAAATAAAAAAGTATGTTTAAAAATATTTTTTAATTATT
1 AATTATCATATTTTAAAGTATTTAAAATAAAAAAGTATGTTTAAAAATATTTTTTAATTATT
428742 AAACTTAAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
72 55 0.98
73 1 0.02
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.49
Consensus pattern (72 bp):
AATTATCATATTTTAAAGTATTTAAAATAAAAAAGTATGTTTAAAAATATTTTTTAATTATTGGG
TTCACTA
Found at i:428833 original size:2 final size:2
Alignment explanation
Indices: 428826--428855 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
428816 GGGCCGGCCC
428826 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
428856 AACTCATTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:429632 original size:12 final size:12
Alignment explanation
Indices: 429608--429647 Score: 73
Period size: 12 Copynumber: 3.4 Consensus size: 12
429598 TGTATATTAC
429608 ATATGAA-AAAT
1 ATATGAATAAAT
429619 ATATGAATAAAT
1 ATATGAATAAAT
429631 ATATGAATAAAT
1 ATATGAATAAAT
429643 ATATG
1 ATATG
429648 CGTATTGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
11 7 0.25
12 21 0.75
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (12 bp):
ATATGAATAAAT
Found at i:430521 original size:11 final size:11
Alignment explanation
Indices: 430502--430531 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
430492 AATAAAATAA
430502 TAATGTTTTTAT
1 TAAT-TTTTTAT
430514 TAATTTTTTAT
1 TAATTTTTTAT
430525 TAATTTT
1 TAATTTT
430532 ATTAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.78
12 4 0.22
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (11 bp):
TAATTTTTTAT
Found at i:432913 original size:31 final size:33
Alignment explanation
Indices: 432871--432945 Score: 84
Period size: 31 Copynumber: 2.4 Consensus size: 33
432861 ATAATTCTAA
* * *
432871 ATAAATAATAATTATATAAAT-ATTATTTTAAT
1 ATAAAAAATAATTATATAAATAAATATATTAAT
* *
432903 A-AAAAAATAA-TATTTACATAAATATATTAAT
1 ATAAAAAATAATTATATAAATAAATATATTAAT
432934 ATAAAAAATAAT
1 ATAAAAAATAAT
432946 AACTATTTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
30 7 0.20
31 18 0.51
32 10 0.29
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (33 bp):
ATAAAAAATAATTATATAAATAAATATATTAAT
Found at i:432924 original size:34 final size:31
Alignment explanation
Indices: 432868--432947 Score: 97
Period size: 34 Copynumber: 2.5 Consensus size: 31
432858 TTAATAATTC
* *
432868 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAAAAAATAATAATTACATAAATA-TA--TTAA
*
432902 TAAAAAAATAATATTTACATAAATATATTAA
1 TAAAAAAATAATAATTACATAAATATATTAA
432933 TATAAAAAATAATAA
1 TA-AAAAAATAATAA
432948 CTATTTAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
31 6 0.15
32 11 0.27
33 2 0.05
34 22 0.54
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (31 bp):
TAAAAAAATAATAATTACATAAATATATTAA
Found at i:434508 original size:41 final size:41
Alignment explanation
Indices: 434451--434529 Score: 149
Period size: 41 Copynumber: 1.9 Consensus size: 41
434441 CTTACCATAA
434451 ACCATTATTCTTTCTTTTACTAAGAATATGTCTAATAATAG
1 ACCATTATTCTTTCTTTTACTAAGAATATGTCTAATAATAG
*
434492 ACCATTGTTCTTTCTTTTACTAAGAATATGTCTAATAA
1 ACCATTATTCTTTCTTTTACTAAGAATATGTCTAATAA
434530 AAACAAGGCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (41 bp):
ACCATTATTCTTTCTTTTACTAAGAATATGTCTAATAATAG
Found at i:437059 original size:13 final size:13
Alignment explanation
Indices: 437041--437067 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
437031 TTACAGACGC
437041 GCATATGAAGATT
1 GCATATGAAGATT
437054 GCATATGAAGATT
1 GCATATGAAGATT
437067 G
1 G
437068 TTCAACTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.30
Consensus pattern (13 bp):
GCATATGAAGATT
Found at i:443869 original size:2 final size:2
Alignment explanation
Indices: 443862--443939 Score: 156
Period size: 2 Copynumber: 39.0 Consensus size: 2
443852 CTAGACTACC
443862 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
443904 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
443940 CTCAGAGATG
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 76 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:450294 original size:153 final size:153
Alignment explanation
Indices: 450015--450320 Score: 452
Period size: 153 Copynumber: 2.0 Consensus size: 153
450005 TCCCAAAGTT
* * * *
450015 TGGGGATAAGAAGGATAGTTCTTTATTAGATTCGGGTAAAAGAGTAAAGCTTCTCCAGGAATCTA
1 TGGGGATAAAAAAGATAGTTCTTTATTAGACTCCGGTAAAAGAGTAAAGCTTCTCCAGGAATCTA
* * ** * *
450080 TTTTCGTGAACAAGAATCATAGGAATGATACTGATGTTGGTAGAAAATTTGGTTGGTTTGATCCT
66 TGTCCGTGAACAAGAATCATAGGAATGATACTGATGTTACTAGAAAATTTGGATGGCTTGATCCT
*
450145 TCTTGCATCAAGGATGCTAATGG
131 TCTTGCATCAAAGATGCTAATGG
450168 TGGGGATAAAAAAGATAGTTCTTTATTAGACTCCGGTAAAAGAGTAAAGCTTCTCCAGGAATCTA
1 TGGGGATAAAAAAGATAGTTCTTTATTAGACTCCGGTAAAAGAGTAAAGCTTCTCCAGGAATCTA
* * * * *
450233 CTGTCCG-GAACAATAATCATTGGAATGTTATTGATGTTACTAGCAAATTTGGATGGCTTGATCC
66 -TGTCCGTGAACAAGAATCATAGGAATGATACTGATGTTACTAGAAAATTTGGATGGCTTGATCC
450297 TTCTTGCATCAAAGATGCTAATGG
130 TTCTTGCATCAAAGATGCTAATGG
450321 AAGAAGGCCT
Statistics
Matches: 136, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
153 132 0.97
154 4 0.03
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (153 bp):
TGGGGATAAAAAAGATAGTTCTTTATTAGACTCCGGTAAAAGAGTAAAGCTTCTCCAGGAATCTA
TGTCCGTGAACAAGAATCATAGGAATGATACTGATGTTACTAGAAAATTTGGATGGCTTGATCCT
TCTTGCATCAAAGATGCTAATGG
Found at i:462964 original size:16 final size:17
Alignment explanation
Indices: 462943--462985 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
462933 ATGTACAAAT
462943 AAATATTTAAATTTA-A
1 AAATATTTAAATTTATA
** *
462959 AAATATAAAAATTTATT
1 AAATATTTAAATTTATA
462976 AAATATTTAA
1 AAATATTTAA
462986 TCTAGTAAGG
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AAATATTTAAATTTATA
Found at i:464197 original size:21 final size:21
Alignment explanation
Indices: 464173--464213 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
464163 TTTTATAATT
*
464173 TAAATTTATTTTATTTTAAAA
1 TAAATTTAGTTTATTTTAAAA
*
464194 TAAATTTCGTTTATTTTAAA
1 TAAATTTAGTTTATTTTAAA
464214 GCAAACCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (21 bp):
TAAATTTAGTTTATTTTAAAA
Found at i:464321 original size:28 final size:28
Alignment explanation
Indices: 464277--464333 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
464267 TAAAAGTATA
*
464277 AAACTAATAATAATATTTTTATGAATTT
1 AAACTAATAATAATATTTATATGAATTT
* * *
464305 AAACTAATATTATTATTTATATGATTTT
1 AAACTAATAATAATATTTATATGAATTT
464333 A
1 A
464334 CATTTACTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.49
Consensus pattern (28 bp):
AAACTAATAATAATATTTATATGAATTT
Found at i:466126 original size:5 final size:6
Alignment explanation
Indices: 466109--466133 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
466099 CCTGTATACT
466109 CTCCCC CTCCCC CTCCCC CTCCCC C
1 CTCCCC CTCCCC CTCCCC CTCCCC C
466134 ATCACCACCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.84, G:0.00, T:0.16
Consensus pattern (6 bp):
CTCCCC
Found at i:466215 original size:111 final size:102
Alignment explanation
Indices: 466087--466307 Score: 334
Period size: 105 Copynumber: 2.1 Consensus size: 102
466077 TTACTCACCT
466087 CCACCACCACCACCTGTATACTCTCCCCCTCCCCCTCCCCCTCCCCCATCACCACCGCCACCGAT
1 CCACCACCACCACCTGTATACTCTCCCCCT----CT--CCCTCCCCCATCACCACCGCCACCGAT
*
466152 ATATTTATCTTCCCCACCACCGCCCTCACCTCCACCTCCTTCATCC
60 ATATTTACCTTCCCCACCACCGCCCTCACCT---CCTCCTTCATCC
466198 CCACCACCACCACCTGTATACTCTCCCCCTCTCCCTCCCCCATCACCACCGCCACCGATATATTT
1 CCACCACCACCACCTGTATACTCTCCCCCTCTCCCTCCCCCATCACCACCGCCACCGATATATTT
* *
466263 ACCTTCCCCGCCACCGCCCTCACCTCCTCTTTCATCC
66 ACCTTCCCCACCACCGCCCTCACCTCCTCCTTCATCC
466300 CCACCACC
1 CCACCACC
466308 TCCTCCACCA
Statistics
Matches: 107, Mismatches: 3, Indels: 9
0.90 0.03 0.08
Matches are distributed among these distances:
102 19 0.18
105 56 0.52
107 2 0.02
111 30 0.28
ACGTcount: A:0.17, C:0.58, G:0.04, T:0.21
Consensus pattern (102 bp):
CCACCACCACCACCTGTATACTCTCCCCCTCTCCCTCCCCCATCACCACCGCCACCGATATATTT
ACCTTCCCCACCACCGCCCTCACCTCCTCCTTCATCC
Found at i:480338 original size:60 final size:60
Alignment explanation
Indices: 480248--480376 Score: 161
Period size: 60 Copynumber: 2.1 Consensus size: 60
480238 AGTCTTTAAT
* * **
480248 TTTTTGAATATTTTAATTTCATTCTTAAATTATGATTTTCATTCTAAATTAGTCATCAAA
1 TTTTTGAATATTTTAATTTCATTCTCAAATTATGACTCCCATTCTAAATTAGTCATCAAA
* * * *
480308 TTTTTGAATATTTTAATTTCA-TCATCAAATTATTACTCCCATTCTAAATTTGTCTTTAAA
1 TTTTTGAATATTTTAATTTCATTC-TCAAATTATGACTCCCATTCTAAATTAGTCATCAAA
*
480368 CTTTTGAAT
1 TTTTTGAAT
480377 TTCCAATTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
59 2 0.03
60 57 0.97
ACGTcount: A:0.32, C:0.12, G:0.05, T:0.51
Consensus pattern (60 bp):
TTTTTGAATATTTTAATTTCATTCTCAAATTATGACTCCCATTCTAAATTAGTCATCAAA
Found at i:480690 original size:19 final size:19
Alignment explanation
Indices: 480606--480693 Score: 65
Period size: 19 Copynumber: 4.5 Consensus size: 19
480596 AATTGATGAC
*
480606 TAATTTAGAATGAAAATCA
1 TAATTTAAAATGAAAATCA
* * *
480625 TAGTTTAAGATG-AAATTA
1 TAATTTAAAATGAAAATCA
*
480643 TAATATTTAAAAATTTAAGAATCA
1 T-A-ATTT-AAAA-TGAA-AATCA
480667 T--TTTAAAATGAAAATCA
1 TAATTTAAAATGAAAATCA
480684 TAATTTAAAA
1 TAATTTAAAA
480694 ATATTTTAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 16
0.68 0.12 0.21
Matches are distributed among these distances:
17 6 0.12
18 9 0.17
19 21 0.40
20 6 0.12
21 3 0.06
22 1 0.02
23 1 0.02
24 5 0.10
ACGTcount: A:0.52, C:0.03, G:0.08, T:0.36
Consensus pattern (19 bp):
TAATTTAAAATGAAAATCA
Found at i:480815 original size:27 final size:27
Alignment explanation
Indices: 480782--480916 Score: 261
Period size: 27 Copynumber: 5.0 Consensus size: 27
480772 TTTAAATTAA
*
480782 AACAATATTTATTAATTGATCCAATTG
1 AACAATATTTACTAATTGATCCAATTG
480809 AACAATATTTACTAATTGATCCAATTG
1 AACAATATTTACTAATTGATCCAATTG
480836 AACAATATTTACTAATTGATCCAATTG
1 AACAATATTTACTAATTGATCCAATTG
480863 AACAATATTTACTAATTGATCCAATTG
1 AACAATATTTACTAATTGATCCAATTG
480890 AACAATATTTACTAATTGATCCAATTG
1 AACAATATTTACTAATTGATCCAATTG
480917 GTTGTGGCTC
Statistics
Matches: 107, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
27 107 1.00
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.38
Consensus pattern (27 bp):
AACAATATTTACTAATTGATCCAATTG
Found at i:481067 original size:2 final size:2
Alignment explanation
Indices: 481062--481104 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
481052 TTCTAAAAAG
* * * *
481062 AT AT AT AT AT TT AT AT AT AT AT AT AT AT AC AC AC 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
481104 A
1 A
481105 CATAACCGGC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:483771 original size:31 final size:31
Alignment explanation
Indices: 483692--483776 Score: 91
Period size: 31 Copynumber: 2.7 Consensus size: 31
483682 GCGGCTACAG
* *
483692 AATGATTATTAAAATTTATCAAACTATCACAA
1 AATGATTCTT-AAACTTATCAAACTATCACAA
** *
483724 AATGA-TCGTTCCACTTATCAAACTGTCACAA
1 AATGATTC-TTAAACTTATCAAACTATCACAA
*
483755 CATGATTCTTAAACTTATCAAA
1 AATGATTCTTAAACTTATCAAA
483777 ATTTGTCACT
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
31 34 0.79
32 9 0.21
ACGTcount: A:0.42, C:0.19, G:0.06, T:0.33
Consensus pattern (31 bp):
AATGATTCTTAAACTTATCAAACTATCACAA
Found at i:497565 original size:12 final size:12
Alignment explanation
Indices: 497533--497566 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
497523 ATTTAACACG
**
497533 TCCTTTATAATA
1 TCCTTTATTCTA
497545 TCCTTTATTCTA
1 TCCTTTATTCTA
497557 TCCTTTATTC
1 TCCTTTATTC
497567 ATTGATTCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.21, C:0.24, G:0.00, T:0.56
Consensus pattern (12 bp):
TCCTTTATTCTA
Found at i:498841 original size:2 final size:2
Alignment explanation
Indices: 498834--498879 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
498824 GACCTAATAC
498834 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
498876 AT AT
1 AT AT
498880 GTAATTATAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:519168 original size:98 final size:98
Alignment explanation
Indices: 518999--519185 Score: 322
Period size: 98 Copynumber: 1.9 Consensus size: 98
518989 GAAAATCTGA
*
518999 TTCGCCAGGTGAATCATATTTTTAATTGTGCGATAGTATATTATCTTGATATATTTACTCTGCGC
1 TTCGCCAGGTGAATCATATTTTTAATTGTGCAATAGTATATTATCTTGATATATTTACTCTGCGC
519064 TTTCACATGCAAAAAAGATGGCAGATTTTCAGC
66 TTTCACATGCAAAAAAGATGGCAGATTTTCAGC
* *
519097 TTCGCCAGGAT-AATCATATTTTTAATTGTGTAATAGTATATTATCTTGATATCTTTACTCTGCG
1 TTCGCCAGG-TGAATCATATTTTTAATTGTGCAATAGTATATTATCTTGATATATTTACTCTGCG
*
519161 CTTTCACATGCAAAAAGGATGGCAG
65 CTTTCACATGCAAAAAAGATGGCAG
519186 GGTAGTAGGG
Statistics
Matches: 84, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
98 83 0.99
99 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (98 bp):
TTCGCCAGGTGAATCATATTTTTAATTGTGCAATAGTATATTATCTTGATATATTTACTCTGCGC
TTTCACATGCAAAAAAGATGGCAGATTTTCAGC
Found at i:521976 original size:45 final size:45
Alignment explanation
Indices: 521912--522001 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
521902 TTTTTCTGTA
521912 GTTTCATTTCAATTACCTTGATATTGCTTAAAGTCTTACCTTCTT
1 GTTTCATTTCAATTACCTTGATATTGCTTAAAGTCTTACCTTCTT
*
521957 GTTTCATTTCAATTTCCTTGATATTGCTTAAAGTCTTACCTTCTT
1 GTTTCATTTCAATTACCTTGATATTGCTTAAAGTCTTACCTTCTT
522002 CTTTGTCATA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.21, C:0.20, G:0.09, T:0.50
Consensus pattern (45 bp):
GTTTCATTTCAATTACCTTGATATTGCTTAAAGTCTTACCTTCTT
Found at i:522646 original size:102 final size:102
Alignment explanation
Indices: 522470--522667 Score: 360
Period size: 102 Copynumber: 1.9 Consensus size: 102
522460 TCACTACAGG
* *
522470 TAATTCATTTTCTTGTGTCTACCATGTATAAAGAATCTAGTACATCTGGTTTCTAACTCTTCTCT
1 TAATTCATTTTCTTGTGTCTACCATGTATAAAGAATCTAGTACATCTGGGTTCTAACACTTCTCT
522535 TTTGCAGAACTTGCTAACAGCATATCCTAATATGGAT
66 TTTGCAGAACTTGCTAACAGCATATCCTAATATGGAT
* *
522572 TAATTCTTTTTCTTGTGTCTACTATGTATAAAGAATCTAGTACATCTGGGTTCTAACACTTCTCT
1 TAATTCATTTTCTTGTGTCTACCATGTATAAAGAATCTAGTACATCTGGGTTCTAACACTTCTCT
522637 TTTGCAGAACTTGCTAACAGCATATCCTAAT
66 TTTGCAGAACTTGCTAACAGCATATCCTAAT
522668 TTGGCATCCA
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
102 92 1.00
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (102 bp):
TAATTCATTTTCTTGTGTCTACCATGTATAAAGAATCTAGTACATCTGGGTTCTAACACTTCTCT
TTTGCAGAACTTGCTAACAGCATATCCTAATATGGAT
Found at i:525977 original size:17 final size:17
Alignment explanation
Indices: 525957--525996 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
525947 GAGTTGGGTG
525957 AAATTTCTTTAAAATTA
1 AAATTTCTTTAAAATTA
525974 AAATTTCTTTAAAATTA
1 AAATTTCTTTAAAATTA
*
525991 GAATTT
1 AAATTT
525997 AGATGATAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (17 bp):
AAATTTCTTTAAAATTA
Found at i:529970 original size:9 final size:10
Alignment explanation
Indices: 529936--529971 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
529926 TAGATAACTA
529936 TTTAATAA--
1 TTTAATAATT
529944 TTTAATAATT
1 TTTAATAATT
529954 TTTAATAATT
1 TTTAATAATT
529964 TTT-ATAAT
1 TTTAATAAT
529972 GCAATACTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.31
9 5 0.19
10 13 0.50
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
TTTAATAATT
Found at i:535565 original size:16 final size:15
Alignment explanation
Indices: 535544--535580 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
535534 TCACCTAGTC
*
535544 AAAAAATTAGATTTTA
1 AAAAAATCAGA-TTTA
535560 AAAAAATCAGATTTA
1 AAAAAATCAGATTTA
535575 AAAAAA
1 AAAAAA
535581 ACCGGTTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (15 bp):
AAAAAATCAGATTTA
Found at i:535581 original size:16 final size:16
Alignment explanation
Indices: 535544--535581 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
535534 TCACCTAGTC
* *
535544 AAAAAATTAGATTTTA
1 AAAAAATCAGATTTAA
535560 AAAAAATCAGATTTAA
1 AAAAAATCAGATTTAA
535576 AAAAAA
1 AAAAAA
535582 CCGGTTCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (16 bp):
AAAAAATCAGATTTAA
Found at i:536100 original size:21 final size:21
Alignment explanation
Indices: 536074--536115 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
536064 CTTACAAGTT
536074 CGATAATTAAAACAAAGTTTA
1 CGATAATTAAAACAAAGTTTA
*
536095 CGATAATTGAAACAAAGTTTA
1 CGATAATTAAAACAAAGTTTA
536116 AAAATAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.29
Consensus pattern (21 bp):
CGATAATTAAAACAAAGTTTA
Found at i:537108 original size:3 final size:3
Alignment explanation
Indices: 537100--537162 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
537090 TGCCTTGATA
537100 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
537148 TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT
537163 ATGTAGGTGT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:537295 original size:2 final size:2
Alignment explanation
Indices: 537279--537312 Score: 52
Period size: 2 Copynumber: 17.0 Consensus size: 2
537269 TGATGCCTTA
537279 AT AT -T AT AT AGT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT
537313 TATTGAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 1 0.03
2 27 0.90
3 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:544304 original size:2 final size:2
Alignment explanation
Indices: 544297--544325 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
544287 GTCCTGCTGT
544297 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
544326 TATGGTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:576598 original size:26 final size:27
Alignment explanation
Indices: 576547--576598 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
576537 GTTTGACCAA
* *
576547 ATAGTCATTTTGGTCCATATTCTTTTT
1 ATAGTCATTTTGGTCCACAATCTTTTT
*
576574 ATAG-CATTTTGGTCCACAATGTTTT
1 ATAGTCATTTTGGTCCACAATCTTTT
576599 ATTTTAGGGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.21, C:0.15, G:0.13, T:0.50
Consensus pattern (27 bp):
ATAGTCATTTTGGTCCACAATCTTTTT
Found at i:587178 original size:23 final size:23
Alignment explanation
Indices: 587152--587214 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
587142 ATATAACAAC
587152 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
587175 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
587198 TACCTATTACATCATAT
1 TACCTATTACATTATAT
587215 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:587607 original size:23 final size:23
Alignment explanation
Indices: 587572--587644 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
587562 ATACTTTACA
*
587572 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
587595 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
587618 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
587641 ATAT
1 ATAT
587645 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:588084 original size:491 final size:489
Alignment explanation
Indices: 587406--588481 Score: 2037
Period size: 491 Copynumber: 2.2 Consensus size: 489
587396 ATATTTAGAA
*
587406 TTTTTAATTTAATAATAATATATATCGTAACGTGAAAAATAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
*
587471 AAATTAATATCTTAAAACTCACTCAACAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
* *
587536 TATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAA
131 TATGGACACTTTTATAAAAAGGATAGATACTTCACAATATAAACACTACCTATTACATTATATAA
587601 ACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
196 ACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
*
587666 TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
261 TGTCCATACTTTTTACAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
*
587731 TTTTTAATATTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGA-ACAAAAA
326 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTT-ACACAAAAA
*
587795 ATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAACAATATTAACC
390 ATTA-TTGATTGTTTTGATATTTTATAAAATAATATTTAGAA-TTTAAATTTAACAATATTAACC
587860 AAAGATAATAATAAATATGTAATATATATGTTTATTG
453 AAAGATAATAATAAATATGTAATATATATGTTTATTG
587897 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
587962 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
588027 TATGGACACTTTTATAAAAAGGATAGATACTTCACAATATAAACACTACCTATTACATTATATAA
131 TATGGACACTTTTATAAAAAGGATAGATACTTCACAATATAAACACTACCTATTACATTATATAA
588092 ACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
196 ACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
588157 TGTCCATACTTTTTACAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
261 TGTCCATACTTTTTACAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
588222 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
326 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
588287 TTATTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAA
391 TTATTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAA
588352 GATAATAATAAATATGTAATATATATGTTTATTG
456 GATAATAATAAATATGTAATATATATGTTTATTG
* *
588386 TTTTTAATTTAATAATAATATATACCGTAACATAAAAAATAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
588451 AAATTAATATCTTAAAACTCACTCAAAAGAT
66 AAATTAATATCTTAAAACTCACTCAAAAGAT
588482 GTATATACCT
Statistics
Matches: 575, Mismatches: 9, Indels: 4
0.98 0.02 0.01
Matches are distributed among these distances:
489 152 0.26
490 38 0.07
491 385 0.67
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.40
Consensus pattern (489 bp):
TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
TATGGACACTTTTATAAAAAGGATAGATACTTCACAATATAAACACTACCTATTACATTATATAA
ACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
TGTCCATACTTTTTACAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
TTATTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAA
GATAATAATAAATATGTAATATATATGTTTATTG
Found at i:588091 original size:23 final size:23
Alignment explanation
Indices: 588063--588135 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
588053 ATACTTCACA
*
588063 ATATAAACACTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
588086 ATATAAACGCTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
* *
588109 ATATAAGCGCTACCTATTACATC
1 ATATAAACGCTACCTATTACATT
588132 ATAT
1 ATAT
588136 TTTTACCTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.40, C:0.22, G:0.04, T:0.34
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:591538 original size:23 final size:23
Alignment explanation
Indices: 591502--591563 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
591492 ATATAACCAC
591502 TACCTA-TACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
591524 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
591547 TACCTATTACATCATAT
1 TACCTATTACATTATAT
591564 TTTTACCTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
22 6 0.17
23 30 0.83
ACGTcount: A:0.39, C:0.21, G:0.05, T:0.35
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:591946 original size:16 final size:16
Alignment explanation
Indices: 591921--591954 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
591911 ATCTATTACA
*
591921 TTTTTCAATCGACACT
1 TTTTTAAATCGACACT
591937 TTTTTAAATCGACACT
1 TTTTTAAATCGACACT
591953 TT
1 TT
591955 GTTGTGGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.21, G:0.06, T:0.47
Consensus pattern (16 bp):
TTTTTAAATCGACACT
Found at i:593156 original size:3 final size:3
Alignment explanation
Indices: 593148--593227 Score: 61
Period size: 3 Copynumber: 26.7 Consensus size: 3
593138 ACTTGTTTGG
* * * * * * *
593148 ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GTT AGC TTC ATC GTC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * *
593196 ATC ATC ATC GTC ATC TTC ATC GTC ATC TTC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
593228 TGACCGCTTG
Statistics
Matches: 55, Mismatches: 22, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.23, C:0.31, G:0.07, T:0.39
Consensus pattern (3 bp):
ATC
Found at i:593165 original size:12 final size:12
Alignment explanation
Indices: 593149--593227 Score: 86
Period size: 12 Copynumber: 6.3 Consensus size: 12
593139 CTTGTTTGGA
* *
593149 TCATCATCATCA
1 TCATCGTCATCT
593161 TCATCGTCATCATCT
1 TCATCGTC---ATCT
* *
593176 TCATCGTTAGCT
1 TCATCGTCATCT
*
593188 TCATCGTCATCA
1 TCATCGTCATCT
593200 TCATCGTCATCT
1 TCATCGTCATCT
593212 TCATCGTCATCT
1 TCATCGTCATCT
593224 TCAT
1 TCAT
593228 TGACCGCTTG
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
12 46 0.82
15 10 0.18
ACGTcount: A:0.22, C:0.32, G:0.08, T:0.39
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:593172 original size:18 final size:18
Alignment explanation
Indices: 593149--593227 Score: 68
Period size: 18 Copynumber: 4.2 Consensus size: 18
593139 CTTGTTTGGA
593149 TCATCATCATCATCATCG
1 TCATCATCATCATCATCG
* * *
593167 TCATCATCTTCATCGTTAGCT
1 TCATCATCATCATC---ATCG
*
593188 TCATCGTCATCATCATCG
1 TCATCATCATCATCATCG
* * *
593206 TCATCTTCATCGTCATCT
1 TCATCATCATCATCATCG
593224 TCAT
1 TCAT
593228 TGACCGCTTG
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
18 34 0.71
21 14 0.29
ACGTcount: A:0.22, C:0.32, G:0.08, T:0.39
Consensus pattern (18 bp):
TCATCATCATCATCATCG
Found at i:595053 original size:199 final size:199
Alignment explanation
Indices: 594710--595463 Score: 1312
Period size: 199 Copynumber: 3.8 Consensus size: 199
594700 AAACTAAAAA
* *
594710 GTGTCGACACATTATTTAGACATATTATCTCATAAAATCGGTATACTTGTACCGGTTAGATTGAA
1 GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAA
594775 AAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATCGACACTTTTTATATATGGA
66 AAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATCGACACTTTTTATATATGGA
* * *
594840 TCGACACCTTATGGTTGCACACTGTTTTCCATTCATTCTGGACCAAAAATATCGACACTGTTTTA
131 TCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACTATTTTA
594905 AATG
196 AATG
*
594909 GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCAGTATACTTGTACCGGTTAGATTGAA
1 GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAA
*
594974 AAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTAGGATCGACACTTTTTATATATGGA
66 AAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATCGACACTTTTTATATATGGA
* *
595039 TCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCCGGACCAAAAATATCGACACTTTTTTA
131 TCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACTATTTTA
595104 AATG
196 AATG
*
595108 GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTAAA
1 GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAA
595173 AAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATCGACACTTTTTATATATGGA
66 AAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATCGACACTTTTTATATATGGA
* * ***
595238 TCGACACTTTATTGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCAACAC-AAACTA
131 TCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACTATTTTA
**
595302 AACAA
196 AA-TG
595307 GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAA
1 GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAA
595372 AAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGGGATCGACACTTTTTATATATGG
66 AAATTACATATTACATTATACTTTTGGG-TTCGATGTTTTTGGGATCGACACTTTTTATATATGG
* *
595437 TTTGACACTTTATGGTTGCACCCTGTT
130 ATCGACACTTTATGGTTGCACCCTGTT
595464 GGCCATATTG
Statistics
Matches: 529, Mismatches: 24, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
198 4 0.01
199 465 0.88
200 60 0.11
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.38
Consensus pattern (199 bp):
GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAA
AAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATCGACACTTTTTATATATGGA
TCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACTATTTTA
AATG
Found at i:595628 original size:19 final size:19
Alignment explanation
Indices: 595582--595630 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
595572 TTATATTCAC
*
595582 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
595601 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
595620 ATACAAAATTA
1 ATACAAAATTA
595631 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:597456 original size:33 final size:33
Alignment explanation
Indices: 597419--597482 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
597409 TCTTAATATC
*
597419 ACCCCTTAACACCCCAACTTCTTTCACCACTTT
1 ACCCCTCAACACCCCAACTTCTTTCACCACTTT
* *
597452 ACCCCTCAACACCTCTACTTCTTTCACCACT
1 ACCCCTCAACACCCCAACTTCTTTCACCACT
597483 CCATCTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.23, C:0.47, G:0.00, T:0.30
Consensus pattern (33 bp):
ACCCCTCAACACCCCAACTTCTTTCACCACTTT
Found at i:597541 original size:21 final size:21
Alignment explanation
Indices: 597516--597559 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
597506 CCCCTTATGC
597516 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
* *
597537 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
597558 CT
1 CT
597560 TGATTGTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.32, G:0.11, T:0.41
Consensus pattern (21 bp):
CTCTCAAGTGTATCTTCGACT
Found at i:599789 original size:17 final size:18
Alignment explanation
Indices: 599767--599809 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
599757 ATATATCCGG
599767 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
599784 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
599804 TATCAT
1 TATCAT
599810 ATTTTTTACC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:599828 original size:21 final size:20
Alignment explanation
Indices: 599772--599819 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
599762 TCCGGTATCA
599772 TTTTACCGGTTTTATCATTT
1 TTTTACCGGTTTTATCATTT
**
599792 TGATACCGGTTTTATCATATT
1 TTTTACCGGTTTTATCAT-TT
599813 TTTTACC
1 TTTTACC
599820 TGTTATATCG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.19, C:0.17, G:0.10, T:0.54
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATTT
Found at i:600046 original size:182 final size:182
Alignment explanation
Indices: 599739--600213 Score: 697
Period size: 182 Copynumber: 2.6 Consensus size: 182
599729 CGTACTTACG
* * *
599739 AAAGTATCGACACTTTCAATATATCCGGTATCATTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACCTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
599804 TATCATATTTTTTACCTGTTATATCGTTGTGGATCGATATATATTTTTAAAGTATCGACACATTA
66 TATCATATTTTTTACCTGTTATATCGTTTTGGATCGATACAT-TTTTTAAAGTATCGACACATTA
* *
599869 TAGGCGCTAAAACTGTTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
130 TAGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * *
599921 AAAGTATCGACACTTTTAATATATCCGGTAACCTTTTACCGGTTTTATCGTTTTGATACCGATTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACCTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
599986 TATCATATTTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTA
66 TATCATATTTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTT-AAAGTATCGACACATTA
** *
600051 TAGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
130 TAGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * *
600104 AAAGTACCGACACTTTAAATGTATCCGGTAGCGC-TTTACCGGTTTTATCATTTCT-ATACCGGT
1 AAAGTATCGACACTTTAAATATATCCGGTAAC-CTTTTACCGGTTTTATCATTT-TGATACCGGT
* * *
600167 TTTGTCATA-GTTTTACCTGTTATATCGTTTTGGATCGACACATTTTT
64 TTTATCATATTTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
600214 AATTTGGATC
Statistics
Matches: 265, Mismatches: 24, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
181 5 0.02
182 196 0.74
183 62 0.23
184 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.43
Consensus pattern (182 bp):
AAAGTATCGACACTTTAAATATATCCGGTAACCTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAGTATCGACACATTAT
AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
Found at i:603882 original size:24 final size:23
Alignment explanation
Indices: 603847--603891 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
603837 TGAACAAGCT
603847 CTTCTCATTATGAACTTCTTCTTC
1 CTTCTCATTATG-ACTTCTTCTTC
*
603871 CTTCTTCA-TATGAGTTCTTCT
1 CTTC-TCATTATGACTTCTTCT
603892 CATTATGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 8 0.42
25 3 0.16
ACGTcount: A:0.16, C:0.27, G:0.07, T:0.51
Consensus pattern (23 bp):
CTTCTCATTATGACTTCTTCTTC
Found at i:604619 original size:448 final size:440
Alignment explanation
Indices: 603831--605021 Score: 1490
Period size: 448 Copynumber: 2.7 Consensus size: 440
603821 AGCATCAAAC
* *
603831 AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCATATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * * * *
603896 ATGAACTTTCTCTGGAAAAGTTAATCCATCAAGTGATGAATTCAGGCAAAAGGTTGAACAAATTC
66 ATGAACTTTATCTGGAAAAGCTGATCCATCAAGTGATGGATTTACGCAAAAGGTTGAACAAATTC
* *
603961 TTCTCATTATGAACTTT-TTCTTCCTTCTTCATATGAGTTCTTCTCATTATGAACTTTCTCTGGA
131 TTCTCATTATGAA-TTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTATCTGGA
* * * *
604025 AAAGTTAATCCATCAAGTGATGAATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTT
195 AAAGCTGATCCATCAAGTGATG-ATTTAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAA-TT
* * *
604090 T-TTCTTCCTTCTTCATATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTAATCCATCGA
258 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTAATCCATCAA
* * *
604154 GTGATAAATTCGAGCAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCTTTCTTCAG
323 GAGATAAATTCGAGCAAAAAGTTGAACAAATTCTTCTCATTATGAA-----T-TTC-TTCTTCAG
* **
604219 ATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTG-ATCCATCAAATGATG-A-AA-
381 AT---GAGTTCTTCTCATTATGAACTCTACCTGGAAATACTGAAT-CATCAAATGATGAATAAG
* * *
604279 AAAGGTTGAATAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
604344 ATGAACTTTTTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGA-GCAAAAGGTTGAACAAATT
66 ATGAACTTTATCTGGAAAAGCTGATCCATCAAGTGATGGATTT-ACGCAAAAGGTTGAACAAATT
*
604408 CTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGA
130 CTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTATCTGGA
*
604473 AAAGCTGATCCATCAAGTGATGTATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTT
195 AAAGCTGATCCATCAAGTGATG-ATTTAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTT
* *
604538 CTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAG
259 CTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTAATCCATCAAG
** * *
604603 AGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCAGATGAGTTC
324 AGATAAATTCGAGCAAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCAGATGAGTTC
* ** *
604668 TTCTCATTATGAACTTTTTCTGGAAATACTGAATCATCGAATGATGAATTCAAGCG
389 TTCTCATTATGAACTCTACCTGGAAATACTGAATCATCAAATGATGAA-T-AA--G
* **
604724 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTTTTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
** * * * * *
604789 ATGAACTCGAACTGGTAATGCTGAAT-CATCGAA-TGATGAATTTACGCGAAAA-GTTGAACAAG
66 ATGAACTTTATCTGGAAAAGCTG-ATCCATC-AAGTGATGGATTTACGC-AAAAGGTTGAACAAA
* ** ** *
604851 TTCTTCTCATTATGAACTTCTTCTTTTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
128 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTATCTG
* * * *
604916 GTAATGCTGAAT-CATCGAA-TGATGAATTCAAGCGAAAA-GTTGAACAAGTTCTTCTCATTATG
193 GAAAAGCTG-ATCCATC-AAGTGATG-ATTTAAGC-AAAAGGTTGAACAAATTCTTCTCATTATG
* **
604978 AACTTCTTCTTTTTTCTTCAGATGAGTTCTTCTCATTATGAACT
254 AATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
605022 CGAACTGGTA
Statistics
Matches: 658, Mismatches: 67, Indels: 39
0.86 0.09 0.05
Matches are distributed among these distances:
438 42 0.06
439 3 0.00
441 10 0.02
442 5 0.01
443 1 0.00
444 1 0.00
445 244 0.37
446 16 0.02
447 6 0.01
448 329 0.50
449 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.39
Consensus pattern (440 bp):
AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTTTATCTGGAAAAGCTGATCCATCAAGTGATGGATTTACGCAAAAGGTTGAACAAATTC
TTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTATCTGGAA
AAGCTGATCCATCAAGTGATGATTTAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCT
TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTAATCCATCAAGAG
ATAAATTCGAGCAAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCAGATGAGTTCTT
CTCATTATGAACTCTACCTGGAAATACTGAATCATCAAATGATGAATAAG
Found at i:604654 original size:17 final size:17
Alignment explanation
Indices: 604632--604680 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
604622 GTTGAACAAA
*
604632 TTCTTCTCATTATGAAT
1 TTCTTCTCATTATGAAG
*
604649 TTCTTCTTCA-GATG-AG
1 TTCTTC-TCATTATGAAG
604665 TTCTTCTCATTATGAA
1 TTCTTCTCATTATGAA
604681 CTTTTTCTGG
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
15 3 0.12
16 10 0.38
17 10 0.38
18 3 0.12
ACGTcount: A:0.22, C:0.18, G:0.10, T:0.49
Consensus pattern (17 bp):
TTCTTCTCATTATGAAG
Found at i:605022 original size:113 final size:113
Alignment explanation
Indices: 603831--605058 Score: 1459
Period size: 113 Copynumber: 11.0 Consensus size: 113
603821 AGCATCAAAC
** *
603831 AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCATATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * *
603896 ATGAACTTTCTCTGGAAAAG-TTAATCCATCAAGTGATGAATTCAGGCA
66 ATGAACTTTATCTGGAAAAGCTGAATCCATCAA-TGATGAATTCAAGCA
* *
603944 AAAGGTTGAACAAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCATATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * *
604009 ATGAACTTTCTCTGGAAAAG-TTAATCCATCAAGTGATGAATTCAGGCA
66 ATGAACTTTATCTGGAAAAGCTGAATCCATCAA-TGATGAATTCAAGCA
* *
604057 AAAGGTTGAACAAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCATATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * * *
604122 ATGAACTTTCTCTGGAAAAG-TTAATCCATCGAGTGATAAATTCGAGCA
66 ATGAACTTTATCTGGAAAAGCTGAATCCATC-AATGATGAATTCAAGCA
* * * *
604170 AAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCTTTCTTCAGATGACGAGTTCTTCTC
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTC
* * * * * *
604235 ATTATGAACTCTACCTGGCAATGTTG-ATCCATCAA--ATG-A-TGAA--A
63 ATTATGAACTTTATCTGGAAAAGCTGAATCCATCAATGATGAATTCAAGCA
* *
604279 AAAGGTTGAATAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * **
604344 ATGAACTTTTTCTGGAAAAGCTG-ATCCATCAAGTGATGGATTTGAGCA
66 ATGAACTTTATCTGGAAAAGCTGAATCCATCAA-TGATGAATTCAAGCA
*
604392 AAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * **
604457 ATGAACTTTTTCTGGAAAAGCTG-ATCCATCAAGTGATGTATTTGAGCA
66 ATGAACTTTATCTGGAAAAGCTGAATCCATCAA-TGATGAATTCAAGCA
*
604505 AAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * **
604570 ATGAACTTTTTCTGGAAAAGCTG-ATCCATCAAGAGATGGATTTGAGCA
66 ATGAACTTTATCTGGAAAAGCTGAATCCATCAA-TGATGAATTCAAGCA
604618 AAAGGTTGAACAAATTCTTCTCATTATGAA-----T-TT-CTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
604676 ATGAACTTTTTCTGGAAATA-CTGAAT-CATCGAATGATGAATTCAAGCGA
66 ATGAACTTTATCTGGAAA-AGCTGAATCCATC-AATGATGAATTCAAGC-A
* **
604725 AAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTTTTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
** * * * * *
604789 ATGAACTCGAACTGGTAATGCTGAAT-CATCGAATGATGAATTTACGCGA
66 ATGAACTTTATCTGGAAAAGCTGAATCCATC-AATGATGAATTCAAGC-A
* **
604838 AAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTTTTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
** * * *
604902 ATGAACTCGAACTGGTAATGCTGAAT-CATCGAATGATGAATTCAAGCGA
66 ATGAACTTTATCTGGAAAAGCTGAATCCATC-AATGATGAATTCAAGC-A
* **
604951 AAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTTTTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
** * * *
605015 ATGAACTCGAACTGGTAATGCTGAAT-CATCGAATGATGAATTCA
66 ATGAACTTTATCTGGAAAAGCTGAATCCATC-AATGATGAATTCA
605059 TATCTTTGCT
Statistics
Matches: 1034, Mismatches: 57, Indels: 48
0.91 0.05 0.04
Matches are distributed among these distances:
106 125 0.12
107 11 0.01
108 1 0.00
109 49 0.05
110 1 0.00
111 5 0.00
112 3 0.00
113 800 0.77
114 1 0.00
115 1 0.00
116 36 0.03
117 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (113 bp):
AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTTTATCTGGAAAAGCTGAATCCATCAATGATGAATTCAAGCA
Found at i:605485 original size:22 final size:22
Alignment explanation
Indices: 605460--605514 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
605450 CATAAAGTTT
*
605460 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
*
605482 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
605504 TCATCTTTGAA
1 TCATCTTTGAA
605515 GAGTGTAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:605960 original size:40 final size:40
Alignment explanation
Indices: 605905--605980 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
605895 AGCTTAGATG
*
605905 TAAAACACTTGACAACACATTCATCCTTTTCTGTGGGACA
1 TAAAACACTTGACAACACATTCATCCTTTGCTGTGGGACA
* *
605945 TAAAACATTTGACAACGCATTCATCCTTTGCTGTGG
1 TAAAACACTTGACAACACATTCATCCTTTGCTGTGG
605981 ACTCTGCTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (40 bp):
TAAAACACTTGACAACACATTCATCCTTTGCTGTGGGACA
Found at i:608238 original size:114 final size:113
Alignment explanation
Indices: 608039--608262 Score: 376
Period size: 114 Copynumber: 2.0 Consensus size: 113
608029 ACGATCATGC
* * *
608039 AATTCATCCTTTAATTCCAATGATGGTTCTGGGGTTCCTACCGAATCAGATCAGATAACTCAAAA
1 AATTCATCCTTTAAATCCAATGATGGTTCTGGGGTTCATACCAAATCAGATCAGATAACTCAAAA
608104 AACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAGCA
66 AACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAGCA
* *
608152 AATTCATCTTTTAAATCCAATGATTGGTTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAA
1 AATTCATCCTTTAAATCCAATGA-TGGTTCTGGGGTTCATACCAAATCAGATCAGATAACTCAAA
* *
608217 GAACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGA
65 AAACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGA
608263 TCACCTGGCA
Statistics
Matches: 103, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
113 21 0.20
114 82 0.80
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (113 bp):
AATTCATCCTTTAAATCCAATGATGGTTCTGGGGTTCATACCAAATCAGATCAGATAACTCAAAA
AACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAGCA
Found at i:610471 original size:5 final size:6
Alignment explanation
Indices: 610450--610497 Score: 51
Period size: 6 Copynumber: 7.5 Consensus size: 6
610440 CTTGATTCAA
* *
610450 TTTTCC TTTTTC TTTTTC TTTTTC TCCTTTTT TTTTTC TTCTTTC TTT
1 TTTTTC TTTTTC TTTTTC TTTTTC T--TTTTC TTTTTC TT-TTTC TTT
610498 GCTGGATGAG
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
6 25 0.69
7 6 0.17
8 5 0.14
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTC
Found at i:610477 original size:21 final size:21
Alignment explanation
Indices: 610453--610495 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
610443 GATTCAATTT
610453 TCCTTTTTCTTTTTCTT-TTTC
1 TCCTTTTT-TTTTTCTTCTTTC
610474 TCCTTTTTTTTTTCTTCTTTC
1 TCCTTTTTTTTTTCTTCTTTC
610495 T
1 T
610496 TTGCTGGATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (21 bp):
TCCTTTTTTTTTTCTTCTTTC
Found at i:610485 original size:14 final size:15
Alignment explanation
Indices: 610461--610493 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
610451 TTTCCTTTTT
610461 CTTTTTCTTTTTCTC
1 CTTTTTCTTTTTCTC
*
610476 CTTTTT-TTTTTCTT
1 CTTTTTCTTTTTCTC
610490 CTTT
1 CTTT
610494 CTTTGCTGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (15 bp):
CTTTTTCTTTTTCTC
Found at i:613782 original size:14 final size:14
Alignment explanation
Indices: 613748--613801 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
613738 TTGTGCAATA
* *
613748 CAAATGCAAAGATG
1 CAAATGTAAATATG
613762 CCAAATGTAAATATG
1 -CAAATGTAAATATG
*
613777 CAAATGTAAAAATG
1 CAAATGTAAATATG
*
613791 TAAATGTAAAT
1 CAAATGTAAAT
613802 TATTTAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
14 22 0.65
15 12 0.35
ACGTcount: A:0.52, C:0.09, G:0.15, T:0.24
Consensus pattern (14 bp):
CAAATGTAAATATG
Found at i:615452 original size:19 final size:19
Alignment explanation
Indices: 615385--615453 Score: 52
Period size: 19 Copynumber: 3.5 Consensus size: 19
615375 ATATTTGCAA
615385 ATAAAAAAA-AATAAAATATT
1 ATAAAAAAATAAT-AAATA-T
* *
615405 AATAAGAAAATATATACATAT
1 -ATAAAAAAATA-ATAAATAT
**
615426 -TATGAAAATAATAAATAT
1 ATAAAAAAATAATAAATAT
615444 ATAAAAAAAT
1 ATAAAAAAAT
615454 TTGAAAAGAA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
18 7 0.18
19 16 0.41
21 9 0.23
22 5 0.13
23 2 0.05
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.28
Consensus pattern (19 bp):
ATAAAAAAATAATAAATAT
Found at i:620302 original size:2 final size:2
Alignment explanation
Indices: 620295--620319 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
620285 TTTTGATTTC
620295 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
620320 CGATTTTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:623585 original size:37 final size:37
Alignment explanation
Indices: 623540--623617 Score: 90
Period size: 37 Copynumber: 2.2 Consensus size: 37
623530 TATAGGATAA
*
623540 ATAT-AAAAAGAAAATAG-ATAAATAAATGAGTAAAAT
1 ATATAAAAAAGAAAA-AGCATAAATAAATAAGTAAAAT
* * *
623576 ATATAAAAAAGTAAAAGCATATATATATAAGTAAAAT
1 ATATAAAAAAGAAAAAGCATAAATAAATAAGTAAAAT
623613 A-ATAA
1 ATATAA
623618 TAATAAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
36 10 0.28
37 26 0.72
ACGTcount: A:0.65, C:0.01, G:0.09, T:0.24
Consensus pattern (37 bp):
ATATAAAAAAGAAAAAGCATAAATAAATAAGTAAAAT
Found at i:623599 original size:20 final size:20
Alignment explanation
Indices: 623574--623611 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
623564 AATGAGTAAA
623574 ATATATAAAAAAGTAAAAGC
1 ATATATAAAAAAGTAAAAGC
* *
623594 ATATATATATAAGTAAAA
1 ATATATAAAAAAGTAAAA
623612 TAATAATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.63, C:0.03, G:0.08, T:0.26
Consensus pattern (20 bp):
ATATATAAAAAAGTAAAAGC
Found at i:623738 original size:34 final size:33
Alignment explanation
Indices: 623674--623772 Score: 94
Period size: 34 Copynumber: 3.0 Consensus size: 33
623664 AGAAATATAT
* *
623674 AAAAATATATATATATATAATAACACTAATAAA
1 AAAAATATATACATATATAATAAAACTAATAAA
* *
623707 AAAACATATATACATATATAATAAAATTAATAGA
1 AAAA-ATATATACATATATAATAAAACTAATAAA
** * *
623741 AAGTA-ATATGCATATATAACAAGAA-TAATAAA
1 AAAAATATATACATATATAATAA-AACTAATAAA
623773 GTAGGAAAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
32 21 0.38
33 7 0.13
34 27 0.49
ACGTcount: A:0.62, C:0.06, G:0.04, T:0.28
Consensus pattern (33 bp):
AAAAATATATACATATATAATAAAACTAATAAA
Found at i:624153 original size:37 final size:37
Alignment explanation
Indices: 624103--624195 Score: 105
Period size: 37 Copynumber: 2.5 Consensus size: 37
624093 GTGCTTGTGG
* * *
624103 ATCCTATCTTTAGGAGTTTAAATAATAATAGAACTCT
1 ATCCTATTTTTAGGAGTTTAAATAATAACAAAACTCT
* ** * *
624140 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTAAATAATAACAAAACTCT
*
624177 ATCATATTTTTAGGAGTTT
1 ATCCTATTTTTAGGAGTTT
624196 GAATCCTAGT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTAAATAATAACAAAACTCT
Found at i:625232 original size:106 final size:106
Alignment explanation
Indices: 624923--625973 Score: 1636
Period size: 106 Copynumber: 10.0 Consensus size: 106
624913 GCATTGTTCC
* * * **
624923 GAGTCCAACATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTATTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACA
* * *
624987 ACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
625029 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCT-AAA-T--GAAA-T-TTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* * * ** *
625088 TCAGCCGCCCCTTCGTCGTGAAGTTGGGCTTGTGTTGTCTTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TG
* * *
625130 G-GTCCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
*
625194 CCAGCGGTCCCTTCGTCGTGAAGTTAAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
625235 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
*
625300 CCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
625341 GAGTCCAATATCCTTCGCTGTGAAGTTGAAACTGGCTCTGAAATTGGGAAATTG-TTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* * * *
625405 CCAGCTGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
625446 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTATTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
*
625511 CTAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
625552 GAGTCCAATATCATTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
625617 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
625658 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
625723 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
625764 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* *
625829 CCAGCGGTCCCTTCATCGTGAAGTTGAACTTGTGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
625870 GAGTCCAATATCCTAT-GCTGTGAAATTGAAATTGGCTCTAAAATTGGGAAATTATTTATTGACA
1 GAGTCCAATATCCT-TCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACA
* *
625934 ACCAGCGGTCCATTCGTCGTGAAGTTGAACTTGCGATGTC
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
625974 ACATGTAGCA
Statistics
Matches: 872, Mismatches: 62, Indels: 22
0.91 0.06 0.02
Matches are distributed among these distances:
100 77 0.09
101 6 0.01
102 5 0.01
104 3 0.00
105 104 0.12
106 675 0.77
107 2 0.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:625758 original size:423 final size:422
Alignment explanation
Indices: 624923--625973 Score: 1706
Period size: 423 Copynumber: 2.5 Consensus size: 422
624913 GCATTGTTCC
* * * **
624923 GAGTCCAACATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTATTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACA
624987 ACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGA
65 ACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGA
* * *
625052 AGTTGAAATTGACTCTAAA-TGA-AA-T-TTTGTTGACAA-TCAGCCGCCCCTTCGTCGTGAAGT
130 AGTTGAAATTGGCTCTAAATTGAGAATTATTTGTTGACAACT-AGCGGTCCCTTCGTCGTGAAGT
** * *
625112 TGGGCTTGTGTTGTCTTGGGTCCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGG
194 TGAACTTGCGTTGTCTTGGGTCCAAGATCATTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGG
625177 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTAAACTTGCGTTGTCTGGAGTCCA
259 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTAAACTTGCGTTGTCTGGAGTCCA
625242 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGG
324 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGG
*
625307 TCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTG
389 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
625341 GAGTCCAATATCCTTCGCTGTGAAGTTGAAACTGGCTCTGAAATTGGGAAATTG-TTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* *
625405 CCAGCTGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATATCCTTCGCTGTGAA
66 CCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAA
625470 GTTGAAATTGGCTCTGAAATTGAGAAGTTATTTGTTGACAACTAGCGGTCCCTTCGTCGTGAAGT
131 GTTGAAATTGGCTCT-AAATTGAGAA-TTATTTGTTGACAACTAGCGGTCCCTTCGTCGTGAAGT
* *
625535 TGAACTTGCGTTGTC-TGGAGTCCAATATCATTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGG
194 TGAACTTGCGTTGTCTTGG-GTCCAAGATCATTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGG
*
625599 GAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
258 GAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTAAACTTGCGTTGTCTGGAGTCC
625664 AATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCG
323 AATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCG
625729 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
388 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
625764 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* * *
625829 CCAGCGGTCCCTTCATCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTAT-GCTGTGA
66 CCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCT-TCGCTGTGA
* * * * *
625893 AATTGAAATTGGCTCTAAAATTGGGAAATTATTTATTGACAACCAGCGGTCCATTCGTCGTGAAG
130 AGTTGAAATTGGCTCT-AAATTGAG-AATTATTTGTTGACAACTAGCGGTCCCTTCGTCGTGAAG
*
625958 TTGAACTTGCGATGTC
193 TTGAACTTGCGTTGTC
625974 ACATGTAGCA
Statistics
Matches: 589, Mismatches: 32, Indels: 18
0.92 0.05 0.03
Matches are distributed among these distances:
417 87 0.15
418 49 0.08
419 4 0.01
420 2 0.00
422 4 0.01
423 300 0.51
424 140 0.24
425 3 0.01
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (422 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
CCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAA
GTTGAAATTGGCTCTAAATTGAGAATTATTTGTTGACAACTAGCGGTCCCTTCGTCGTGAAGTTG
AACTTGCGTTGTCTTGGGTCCAAGATCATTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAA
GTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTAAACTTGCGTTGTCTGGAGTCCAAT
ATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTC
CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:627399 original size:27 final size:28
Alignment explanation
Indices: 627375--627427 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
627365 TTTCTTTTTG
627375 ATTTTTGC-TATTTTCTTTTGTTTTTCT
1 ATTTTTGCTTATTTTCTTTTGTTTTTCT
* *
627402 TTTTTTGCTTCTTTTCTTTTGTTTTT
1 ATTTTTGCTTATTTTCTTTTGTTTTT
627428 GTTCTGATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 7 0.30
28 16 0.70
ACGTcount: A:0.04, C:0.11, G:0.08, T:0.77
Consensus pattern (28 bp):
ATTTTTGCTTATTTTCTTTTGTTTTTCT
Found at i:628592 original size:8 final size:8
Alignment explanation
Indices: 628576--628614 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
628566 AATGCAGATG
628576 AAAATGCA
1 AAAATGCA
*
628584 AAAAGGCA
1 AAAATGCA
628592 AAAATGC-
1 AAAATGCA
628599 AAAATGCA
1 AAAATGCA
*
628607 AGAATGCA
1 AAAATGCA
628615 TGAAATGTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
7 7 0.26
8 20 0.74
ACGTcount: A:0.59, C:0.13, G:0.18, T:0.10
Consensus pattern (8 bp):
AAAATGCA
Done.