Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-JGI_221_v2.0
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: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 92 of 150
Found at i:28879417 original size:56 final size:56
Alignment explanation
Indices: 28879322--28879442 Score: 188
Period size: 56 Copynumber: 2.2 Consensus size: 56
28879312 ATATGAGAGT
* * *
28879322 CTTTATGGGGAAGTATGATATATGTGAGCCCTTGTGGCTGATTTTGTCAAATGCGC
1 CTTTATGGTGAAGTATGATATATGTGAGCCCTTGTGGCTGATTCTGTCAAATGCAC
* * *
28879378 CTTTGTGGTGAAGTATGTTATATGTGAGCCCTTGTGGCTGATTCTGTTAAATGCAC
1 CTTTATGGTGAAGTATGATATATGTGAGCCCTTGTGGCTGATTCTGTCAAATGCAC
28879434 CTTTATGGT
1 CTTTATGGT
28879443 TATCTATCTA
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.20, C:0.14, G:0.27, T:0.39
Consensus pattern (56 bp):
CTTTATGGTGAAGTATGATATATGTGAGCCCTTGTGGCTGATTCTGTCAAATGCAC
Found at i:28879425 original size:29 final size:29
Alignment explanation
Indices: 28879335--28879426 Score: 82
Period size: 29 Copynumber: 3.2 Consensus size: 29
28879325 TATGGGGAAG
*
28879335 TATGATATATGTGAGCCCTTGTGGCTGAT
1 TATGTTATATGTGAGCCCTTGTGGCTGAT
* * * * * *
28879364 TTTGTCA-A-ATGCGCCTTTGTGG-TGAAG
1 TATGTTATATGTGAGCCCTTGTGGCTG-AT
28879391 TATGTTATATGTGAGCCCTTGTGGCTGAT
1 TATGTTATATGTGAGCCCTTGTGGCTGAT
*
28879420 TCTGTTA
1 TATGTTA
28879427 AATGCACCTT
Statistics
Matches: 45, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
26 2 0.04
27 17 0.38
28 2 0.04
29 22 0.49
30 2 0.04
ACGTcount: A:0.18, C:0.14, G:0.27, T:0.40
Consensus pattern (29 bp):
TATGTTATATGTGAGCCCTTGTGGCTGAT
Found at i:28880571 original size:15 final size:15
Alignment explanation
Indices: 28880551--28880581 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
28880541 TATGGGTCTT
28880551 ATAATAAGTTAAATA
1 ATAATAAGTTAAATA
28880566 ATAATAAGTTAAATA
1 ATAATAAGTTAAATA
28880581 A
1 A
28880582 CATTAAACAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.32
Consensus pattern (15 bp):
ATAATAAGTTAAATA
Found at i:28882610 original size:17 final size:17
Alignment explanation
Indices: 28882588--28882620 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
28882578 TTATGGCAAT
*
28882588 TAAGTTACATGGCCCAA
1 TAAGTTACACGGCCCAA
28882605 TAAGTTACACGGCCCA
1 TAAGTTACACGGCCCA
28882621 GCCACATGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.21
Consensus pattern (17 bp):
TAAGTTACACGGCCCAA
Found at i:28887244 original size:27 final size:27
Alignment explanation
Indices: 28887168--28887237 Score: 140
Period size: 27 Copynumber: 2.6 Consensus size: 27
28887158 TCAATTTGGT
28887168 TAATTCGGTTAATTCGGGTAATTCGGG
1 TAATTCGGTTAATTCGGGTAATTCGGG
28887195 TAATTCGGTTAATTCGGGTAATTCGGG
1 TAATTCGGTTAATTCGGGTAATTCGGG
28887222 TAATTCGGTTAATTCG
1 TAATTCGGTTAATTCG
28887238 ATTAATTTGG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.23, C:0.11, G:0.27, T:0.39
Consensus pattern (27 bp):
TAATTCGGTTAATTCGGGTAATTCGGG
Found at i:28887254 original size:9 final size:9
Alignment explanation
Indices: 28887160--28887253 Score: 125
Period size: 9 Copynumber: 10.4 Consensus size: 9
28887150 GTAGTGATTC
*
28887160 AATTTGGTT
1 AATTCGGTT
28887169 AATTCGGTT
1 AATTCGGTT
*
28887178 AATTCGGGT
1 AATTCGGTT
*
28887187 AATTCGGGT
1 AATTCGGTT
28887196 AATTCGGTT
1 AATTCGGTT
*
28887205 AATTCGGGT
1 AATTCGGTT
*
28887214 AATTCGGGT
1 AATTCGGTT
28887223 AATTCGGTT
1 AATTCGGTT
*
28887232 AATTCGATT
1 AATTCGGTT
*
28887241 AATTTGGTT
1 AATTCGGTT
28887250 AATT
1 AATT
28887254 TTTAACCAAA
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 77 1.00
ACGTcount: A:0.24, C:0.09, G:0.24, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:28887433 original size:12 final size:12
Alignment explanation
Indices: 28887416--28887440 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
28887406 TGTTATTTCG
28887416 GGTCGGTTAACC
1 GGTCGGTTAACC
28887428 GGTCGGTTAACC
1 GGTCGGTTAACC
28887440 G
1 G
28887441 AATGATCACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:28888845 original size:11 final size:11
Alignment explanation
Indices: 28888831--28888959 Score: 105
Period size: 11 Copynumber: 12.4 Consensus size: 11
28888821 AATTTTTTAA
28888831 TTTTAAAATAT
1 TTTTAAAATAT
28888842 TTTTAAAATAT
1 TTTTAAAATAT
** *
28888853 TTTTTTATTAT
1 TTTTAAAATAT
*
28888864 TTTT----TAA
1 TTTTAAAATAT
28888871 TTTTAAAATAT
1 TTTTAAAATAT
28888882 TTTTAAAATAT
1 TTTTAAAATAT
28888893 TTTTAAAATACT
1 TTTTAAAATA-T
*
28888905 TTTT-TAAT-T
1 TTTTAAAATAT
* *
28888914 TTTT---TTAA
1 TTTTAAAATAT
*
28888922 TTTTAAAACAT
1 TTTTAAAATAT
28888933 TTTTAAAATAT
1 TTTTAAAATAT
28888944 TTTTAAAATACT
1 TTTTAAAATA-T
28888956 TTTT
1 TTTT
28888960 TTAATTTTTA
Statistics
Matches: 96, Mismatches: 12, Indels: 19
0.76 0.09 0.15
Matches are distributed among these distances:
7 7 0.07
8 4 0.04
9 5 0.05
11 70 0.73
12 10 0.10
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:28888858 original size:40 final size:40
Alignment explanation
Indices: 28888812--28888915 Score: 158
Period size: 40 Copynumber: 2.6 Consensus size: 40
28888802 TAAATATATT
28888812 TATTTTTTTA--ATTTTTTAATTTTAAAATATTTTTAAAA
1 TATTTTTTTATTATTTTTTAATTTTAAAATATTTTTAAAA
28888850 TATTTTTTTATTATTTTTTAATTTTAAAATATTTTTAAAA
1 TATTTTTTTATTATTTTTTAATTTTAAAATATTTTTAAAA
** *
28888890 TATTTTTAAAATACTTTTTTAATTTT
1 TATTTTTTTATTA-TTTTTTAATTTT
28888916 TTTTAATTTT
Statistics
Matches: 60, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
38 10 0.17
40 38 0.63
41 12 0.20
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (40 bp):
TATTTTTTTATTATTTTTTAATTTTAAAATATTTTTAAAA
Found at i:28888893 original size:51 final size:51
Alignment explanation
Indices: 28888831--28888968 Score: 233
Period size: 51 Copynumber: 2.7 Consensus size: 51
28888821 AATTTTTTAA
*
28888831 TTTTAAAATATTTTTAAAATA-TTTTTTTATTATTTTTTAATTTTAAAATAT
1 TTTTAAAATATTTTTAAAATACTTTTTTTATT-TTTTTTAATTTTAAAACAT
*
28888882 TTTTAAAATATTTTTAAAATACTTTTTTAATTTTTTTTAATTTTAAAACAT
1 TTTTAAAATATTTTTAAAATACTTTTTTTATTTTTTTTAATTTTAAAACAT
*
28888933 TTTTAAAATATTTTTAAAATACTTTTTTTAATTTTT
1 TTTTAAAATATTTTTAAAATACTTTTTTTATTTTTT
28888969 AAAATTAATT
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
51 73 0.89
52 9 0.11
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (51 bp):
TTTTAAAATATTTTTAAAATACTTTTTTTATTTTTTTTAATTTTAAAACAT
Found at i:28888980 original size:21 final size:21
Alignment explanation
Indices: 28888942--28888981 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
28888932 TTTTTAAAAT
*
28888942 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATACATTTTTTA
28888963 ATTTTTAAAATTA-ATTTTT
1 ATTTTTAAAA-TACATTTTT
28888982 GGTATTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTTTAAAATACATTTTTTA
Found at i:28888988 original size:22 final size:20
Alignment explanation
Indices: 28888941--28888995 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 20
28888931 ATTTTTAAAA
* *
28888941 TATTTTTAAAATACTTTTTT
1 TATTTTTAAAATAATTTTTG
28888961 TAATTTTTAAAATTAATTTTTGG
1 T-ATTTTTAAAA-TAATTTTT-G
28888984 TATTTATTAAAA
1 TATTT-TTAAAA
28888996 AAATGGGCCA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 1 0.03
21 10 0.34
22 11 0.38
23 7 0.24
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (20 bp):
TATTTTTAAAATAATTTTTG
Found at i:28889524 original size:2 final size:2
Alignment explanation
Indices: 28889517--28889541 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
28889507 TTTCAATAAT
28889517 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 T
28889542 TAAAATTAAA
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:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:28890834 original size:32 final size:31
Alignment explanation
Indices: 28890789--28890884 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
28890779 CTTAGATAAT
28890789 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
28890820 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
28890852 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
28890883 TT
1 TT
28890885 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:28891465 original size:10 final size:10
Alignment explanation
Indices: 28891452--28891511 Score: 59
Period size: 10 Copynumber: 5.8 Consensus size: 10
28891442 AACAAAAAAA
28891452 GCAAAAAAGC
1 GCAAAAAAGC
*
28891462 GCAAAAAAAGA
1 GC-AAAAAAGC
28891473 G-AGTAAAAAGC
1 GCA--AAAAAGC
**
28891484 GCAAAAAAAA
1 GCAAAAAAGC
28891494 GCAAAAAAGC
1 GCAAAAAAGC
28891504 GCAAAAAA
1 GCAAAAAA
28891512 AAGTTGCCTA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
9 1 0.03
10 23 0.57
11 15 0.38
12 1 0.03
ACGTcount: A:0.67, C:0.13, G:0.18, T:0.02
Consensus pattern (10 bp):
GCAAAAAAGC
Found at i:28891480 original size:22 final size:20
Alignment explanation
Indices: 28891445--28891514 Score: 106
Period size: 20 Copynumber: 3.4 Consensus size: 20
28891435 TTAACAAAAC
28891445 AAAAAAAGCAAAAAAGCGCA
1 AAAAAAAGCAAAAAAGCGCA
28891465 AAAAAAGAG-AGTAAAAAGCGCA
1 AAAAAA-AGCA--AAAAAGCGCA
28891487 AAAAAAAGCAAAAAAGCGCA
1 AAAAAAAGCAAAAAAGCGCA
28891507 AAAAAAAG
1 AAAAAAAG
28891515 TTGCCTACCT
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
20 25 0.54
21 4 0.09
22 17 0.37
ACGTcount: A:0.70, C:0.11, G:0.17, T:0.01
Consensus pattern (20 bp):
AAAAAAAGCAAAAAAGCGCA
Found at i:28900330 original size:18 final size:18
Alignment explanation
Indices: 28900307--28900349 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
28900297 ACCCAATCTA
**
28900307 AACCCAAGTATTCAACCC
1 AACCCAAGTACCCAACCC
*
28900325 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
28900343 AACCCAA
1 AACCCAA
28900350 TCATAAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.44, G:0.02, T:0.12
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:28900471 original size:9 final size:9
Alignment explanation
Indices: 28900457--28900523 Score: 82
Period size: 9 Copynumber: 7.4 Consensus size: 9
28900447 GTAGTGATTC
*
28900457 AATTTGGTT
1 AATTCGGTT
*
28900466 AATTTGGTT
1 AATTCGGTT
28900475 AATTCGAG-T
1 AATTCG-GTT
28900484 AATTCGGTT
1 AATTCGGTT
*
28900493 AATTCGGGT
1 AATTCGGTT
*
28900502 AATTCGGGT
1 AATTCGGTT
28900511 AATTCGGTT
1 AATTCGGTT
28900520 AATT
1 AATT
28900524 TTTAACCAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
8 1 0.02
9 51 0.96
10 1 0.02
ACGTcount: A:0.25, C:0.07, G:0.24, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:28900492 original size:27 final size:27
Alignment explanation
Indices: 28900457--28900524 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
28900447 GTAGTGATTC
* *
28900457 AATTTGGTTAATTTGGTTAATTCGAGT
1 AATTCGGTTAATTTGGGTAATTCGAGT
* *
28900484 AATTCGGTTAATTCGGGTAATTCGGGT
1 AATTCGGTTAATTTGGGTAATTCGAGT
28900511 AATTCGGTTAATTT
1 AATTCGGTTAATTT
28900525 TTAACCAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.25, C:0.07, G:0.24, T:0.44
Consensus pattern (27 bp):
AATTCGGTTAATTTGGGTAATTCGAGT
Found at i:28902732 original size:41 final size:40
Alignment explanation
Indices: 28902670--28902801 Score: 140
Period size: 41 Copynumber: 3.2 Consensus size: 40
28902660 ATTGAATTAT
*
28902670 CCCCTGTTTGTACTTCAGTACCCTTAAATAGCACATACGTG
1 CCCCTGTTTGTACTTCGGTACCCTTAAATA-CACATACGTG
* *
28902711 CCCCTATTTGTACTTTGGTA-CCTCTAAATTACACATACGTG
1 CCCCTGTTTGTACTTCGGTACCCT-TAAA-TACACATACGTG
* * * *
28902752 CCACTGTTTGTACTTCGATACCCCTAAATAACATATACGTG
1 CCCCTGTTTGTACTTCGGTACCCTTAAAT-ACACATACGTG
* *
28902793 ACCTTGTTT
1 CCCCTGTTT
28902802 ACACTTTGGT
Statistics
Matches: 75, Mismatches: 12, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
40 4 0.05
41 67 0.89
42 4 0.05
ACGTcount: A:0.25, C:0.27, G:0.13, T:0.35
Consensus pattern (40 bp):
CCCCTGTTTGTACTTCGGTACCCTTAAATACACATACGTG
Found at i:28911881 original size:12 final size:13
Alignment explanation
Indices: 28911864--28911892 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
28911854 GTTATTATTT
28911864 ATAAGT-ATTTTG
1 ATAAGTAATTTTG
28911876 ATAAGTAATTTTG
1 ATAAGTAATTTTG
28911889 ATAA
1 ATAA
28911893 ATTTACCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (13 bp):
ATAAGTAATTTTG
Found at i:28912589 original size:26 final size:26
Alignment explanation
Indices: 28912553--28912648 Score: 113
Period size: 26 Copynumber: 3.7 Consensus size: 26
28912543 CATTTCGACC
28912553 CACAACTCGTGTGAGCAAGCCCATTT
1 CACAACTCGTGTGAGCAAGCCCATTT
* *
28912579 CACAGCTCGTGTGAGTAAGCCCATTT
1 CACAACTCGTGTGAGCAAGCCCATTT
** *
28912605 CACCGCTCATGTGAGC-AGACCCATTT
1 CACAACTCGTGTGAGCAAG-CCCATTT
* *
28912631 CACAACTCCTATGAGCAA
1 CACAACTCGTGTGAGCAA
28912649 CGATGTAAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
25 2 0.03
26 56 0.95
27 1 0.02
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (26 bp):
CACAACTCGTGTGAGCAAGCCCATTT
Found at i:28916187 original size:27 final size:27
Alignment explanation
Indices: 28916119--28916297 Score: 78
Period size: 27 Copynumber: 6.6 Consensus size: 27
28916109 AAGTTAGAGC
*
28916119 TCGCCAGTTGAACTTGGTGAGCTAGTGT
1 TCGCCAG-TAAACTTGGTGAGCTAGTGT
* *
28916147 TCGCCAGTAAACTTGATGAGCTGGTGT
1 TCGCCAGTAAACTTGGTGAGCTAGTGT
* * ** *
28916174 TTGCTAGTGGACTTGGTGAG-TAGGGGT
1 TCGCCAGTAAACTTGGTGAGCTA-GTGT
* * * * * *
28916201 TTGCCAATGGAA-TTGGCGAGCAAGGGT
1 TCGCCAGT-AAACTTGGTGAGCTAGTGT
* **
28916228 TCACCAGTAGGCTTGGTGAG-TCAGTGT
1 TCGCCAGTAAACTTGGTGAGCT-AGTGT
* ** *
28916255 TCACCAGTAGGCTTGGCGAGC-AGGTGT
1 TCGCCAGTAAACTTGGTGAGCTA-GTGT
* *
28916282 TCGCAAGTAAGCTTGG
1 TCGCCAGTAAACTTGG
28916298 CGAGTTGGTC
Statistics
Matches: 116, Mismatches: 28, Indels: 15
0.73 0.18 0.09
Matches are distributed among these distances:
26 2 0.02
27 104 0.90
28 10 0.09
ACGTcount: A:0.20, C:0.17, G:0.35, T:0.28
Consensus pattern (27 bp):
TCGCCAGTAAACTTGGTGAGCTAGTGT
Found at i:28916298 original size:27 final size:27
Alignment explanation
Indices: 28916213--28916301 Score: 110
Period size: 27 Copynumber: 3.3 Consensus size: 27
28916203 GCCAATGGAA
28916213 TTGGCGAGCAAGG-GTTCACCAGTAGGC
1 TTGGCGAGC-AGGTGTTCACCAGTAGGC
*
28916240 TTGGTGAGTCA-GTGTTCACCAGTAGGC
1 TTGGCGAG-CAGGTGTTCACCAGTAGGC
* * *
28916267 TTGGCGAGCAGGTGTTCGCAAGTAAGC
1 TTGGCGAGCAGGTGTTCACCAGTAGGC
28916294 TTGGCGAG
1 TTGGCGAG
28916302 TTGGTCTTCA
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
26 3 0.06
27 50 0.93
28 1 0.02
ACGTcount: A:0.20, C:0.19, G:0.37, T:0.24
Consensus pattern (27 bp):
TTGGCGAGCAGGTGTTCACCAGTAGGC
Found at i:28928144 original size:20 final size:21
Alignment explanation
Indices: 28928116--28928154 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
28928106 TAAATTCCAA
28928116 TTTAACCAAAAA-TATTTATT
1 TTTAACCAAAAATTATTTATT
*
28928136 TTTACCCAAAAATTATTTA
1 TTTAACCAAAAATTATTTA
28928155 AAACCATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.44
Consensus pattern (21 bp):
TTTAACCAAAAATTATTTATT
Found at i:28934444 original size:84 final size:83
Alignment explanation
Indices: 28934296--28934465 Score: 241
Period size: 84 Copynumber: 2.0 Consensus size: 83
28934286 TGTAATGATT
* * * * *
28934296 TGTAACCCTATTCTGGTTATGGATACGGGTTAGGGGTGTTACACATGGCCTCTCTAGTTCGGGGC
1 TGTAACCCTATTCTAGTGATGGATACGAGTTAGGGATGTTACACATGGCCTCTCTACTTCGGGGC
*
28934361 TCCCTAACTGTGTAAACTC
66 TCCCTAA-TGCGTAAACTC
* * *
28934380 TGTAACCCTATTCTAGTGATGGATACGAGTTAGGGATGTTATACGTGGCCTCTCTACTTTGGGGC
1 TGTAACCCTATTCTAGTGATGGATACGAGTTAGGGATGTTACACATGGCCTCTCTACTTCGGGGC
*
28934445 TCTCTAATGCGTAAACTC
66 TCCCTAATGCGTAAACTC
28934463 TGT
1 TGT
28934466 CTGGACCTCC
Statistics
Matches: 76, Mismatches: 10, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
83 13 0.17
84 63 0.83
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.34
Consensus pattern (83 bp):
TGTAACCCTATTCTAGTGATGGATACGAGTTAGGGATGTTACACATGGCCTCTCTACTTCGGGGC
TCCCTAATGCGTAAACTC
Found at i:28937556 original size:13 final size:13
Alignment explanation
Indices: 28937538--28937563 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
28937528 AAGGCAAATA
28937538 CTACAGCTAACAT
1 CTACAGCTAACAT
28937551 CTACAGCTAACAT
1 CTACAGCTAACAT
28937564 ATAATTTATT
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:0.38, C:0.31, G:0.08, T:0.23
Consensus pattern (13 bp):
CTACAGCTAACAT
Found at i:28940154 original size:12 final size:12
Alignment explanation
Indices: 28940139--28940169 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
28940129 TTAGGTTTTT
28940139 ACACGGCCTAAC
1 ACACGGCCTAAC
*
28940151 ACACGGCCTCAC
1 ACACGGCCTAAC
28940163 ACACGGC
1 ACACGGC
28940170 TGTGTGAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.45, G:0.19, T:0.06
Consensus pattern (12 bp):
ACACGGCCTAAC
Found at i:28940251 original size:42 final size:43
Alignment explanation
Indices: 28940151--28940238 Score: 137
Period size: 42 Copynumber: 2.1 Consensus size: 43
28940141 ACGGCCTAAC
*
28940151 ACACGGCCTCA-CACAC-GGCTGTGTGAGGTTATTTTGAAGGGT
1 ACACGGCCT-AGCACACGGGCTGTGTGAGGTTATTTCGAAGGGT
28940193 ACACGGCCTAGCACACGGGC-GTGTGAGGTTATTTCGAAGGGT
1 ACACGGCCTAGCACACGGGCTGTGTGAGGTTATTTCGAAGGGT
28940235 ACAC
1 ACAC
28940239 TGCTTGGCAC
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
41 1 0.02
42 39 0.91
43 3 0.07
ACGTcount: A:0.23, C:0.23, G:0.32, T:0.23
Consensus pattern (43 bp):
ACACGGCCTAGCACACGGGCTGTGTGAGGTTATTTCGAAGGGT
Found at i:28940259 original size:42 final size:41
Alignment explanation
Indices: 28940151--28940259 Score: 130
Period size: 42 Copynumber: 2.6 Consensus size: 41
28940141 ACGGCCTAAC
*
28940151 ACACGGCCTCA-CACACGGCTGTGTGAGGTTATTTTGAAGGGT
1 ACACGGCCT-AGCACACGG-TGTGTGAGGTTATTTCGAAGGGT
*
28940193 ACACGGCCTAGCACACGGGCGTGTGAGGTTATTTCGAAGGGT
1 ACACGGCCTAGCACAC-GGTGTGTGAGGTTATTTCGAAGGGT
* * *
28940235 ACACTGCTTGGCACACGAGTGTGTG
1 ACACGGCCTAGCACACG-GTGTGTG
28940260 GCTTGGCCAT
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
41 2 0.03
42 54 0.93
43 2 0.03
ACGTcount: A:0.21, C:0.22, G:0.33, T:0.24
Consensus pattern (41 bp):
ACACGGCCTAGCACACGGTGTGTGAGGTTATTTCGAAGGGT
Found at i:28969975 original size:25 final size:24
Alignment explanation
Indices: 28969943--28969989 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
28969933 GAGGACCCTA
*
28969943 ATATAAAAGAAAA-AGGGGAGAGGT
1 ATATAAAA-AAAAGAGAGGAGAGGT
28969967 ATATCAAAAAAAAGAGAGGAGAG
1 ATAT-AAAAAAAAGAGAGGAGAG
28969990 CAAAAAGGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.57, C:0.02, G:0.30, T:0.11
Consensus pattern (24 bp):
ATATAAAAAAAAGAGAGGAGAGGT
Found at i:28973018 original size:48 final size:49
Alignment explanation
Indices: 28972966--28973111 Score: 178
Period size: 48 Copynumber: 3.0 Consensus size: 49
28972956 TAGATTCTCA
* *
28972966 GTGGCCTGCACATAGTCCGTGCCACCCTTGTATCTTAACAGGTCA-AT-G
1 GTGGCCTGCACACAGTCCGTGCCACCCTTGTATCTTAACAGG-AATATCG
28973014 GTGGCCTGCACACAGTCCGTGCCACCCTT-TAAT-TGTAACA-GAATATCG
1 GTGGCCTGCACACAGTCCGTGCCACCCTTGT-ATCT-TAACAGGAATATCG
* * *
28973062 GTGGCCTGTACACAGTCTGTGCCACCCTTGTATCATAACA-GAATATCG
1 GTGGCCTGCACACAGTCCGTGCCACCCTTGTATCTTAACAGGAATATCG
28973110 GT
1 GT
28973112 ACGCAAAGTA
Statistics
Matches: 87, Mismatches: 5, Indels: 12
0.84 0.05 0.12
Matches are distributed among these distances:
46 1 0.01
47 5 0.06
48 80 0.92
49 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (49 bp):
GTGGCCTGCACACAGTCCGTGCCACCCTTGTATCTTAACAGGAATATCG
Found at i:28979884 original size:96 final size:96
Alignment explanation
Indices: 28979724--28979901 Score: 257
Period size: 96 Copynumber: 1.9 Consensus size: 96
28979714 GCGGTGGTCT
* * * * * * *
28979724 GCACACAGTCCGTACCACCTTTGTGTAATAACAGATTCTCGGTGGCTTGCACATAGTCCGTGCCA
1 GCACACAGTCCGTACCACCCTTGTATAATAACAGAATATCGGTGGCCTGCACACAGTCCATGCCA
*
28979789 CCCTTGTATCTTAACAGGTCAATGGTGGCCA
66 CCCTTGTATCATAACAGGTCAATGGTGGCCA
* **
28979820 GCACACAGTCCGTGCCACCCTTGTATCGTAACAGAATATCGGTGGCCTGCACACAGTCCATGCCA
1 GCACACAGTCCGTACCACCCTTGTATAATAACAGAATATCGGTGGCCTGCACACAGTCCATGCCA
28979885 CCCTTGTATCATAACAG
66 CCCTTGTATCATAACAG
28979902 AATATCAGTA
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
96 71 1.00
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (96 bp):
GCACACAGTCCGTACCACCCTTGTATAATAACAGAATATCGGTGGCCTGCACACAGTCCATGCCA
CCCTTGTATCATAACAGGTCAATGGTGGCCA
Found at i:28979903 original size:48 final size:48
Alignment explanation
Indices: 28979715--28979907 Score: 228
Period size: 48 Copynumber: 4.0 Consensus size: 48
28979705 ACAGATTTCG
* * * * * * *
28979715 CGGTGGTCTGCACACAGTCCGTACCACCTTTGTGTAATAACAGATTCT
1 CGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGAATAT
* * * *
28979763 CGGTGGCTTGCACATAGTCCGTGCCACCCTTGTATCTTAACAG-GTCAAT
1 CGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGAAT--AT
* *
28979812 -GGTGGCCAGCACACAGTCCGTGCCACCCTTGTATCGTAACAGAATAT
1 CGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGAATAT
*
28979859 CGGTGGCCTGCACACAGTCCATGCCACCCTTGTATCATAACAGAATAT
1 CGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGAATAT
28979907 C
1 C
28979908 AGTATGCATA
Statistics
Matches: 123, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
47 3 0.02
48 118 0.96
49 2 0.02
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (48 bp):
CGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGAATAT
Found at i:28986610 original size:21 final size:22
Alignment explanation
Indices: 28986559--28986613 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
28986549 AATTGAACTC
28986559 GTTGGAAAAAAATTGTTTCTAG
1 GTTGGAAAAAAATTGTTTCTAG
28986581 GTTGGAAAAAAATTGTTTCTAG
1 GTTGGAAAAAAATTGTTTCTAG
*
28986603 GTT-TAAAAAAA
1 GTTGGAAAAAAA
28986614 CCCCTTTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 7 0.22
22 25 0.78
ACGTcount: A:0.42, C:0.04, G:0.20, T:0.35
Consensus pattern (22 bp):
GTTGGAAAAAAATTGTTTCTAG
Found at i:28993690 original size:17 final size:18
Alignment explanation
Indices: 28993661--28993695 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
28993651 TTCTCCTAAA
*
28993661 TTTCAATTTTATTTAATT
1 TTTCAATTTTATTGAATT
28993679 TTTCAA-TTTATTGAATT
1 TTTCAATTTTATTGAATT
28993696 ATTAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.63
Consensus pattern (18 bp):
TTTCAATTTTATTGAATT
Found at i:29004468 original size:18 final size:18
Alignment explanation
Indices: 29004441--29004491 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
29004431 AATGAGTGTG
*
29004441 AAATTATAAAAATATTA-A
1 AAATTCTAAAAAT-TTATA
*
29004459 TAATTCTAAAAATTTATA
1 AAATTCTAAAAATTTATA
29004477 AAATTCATAAAAATT
1 AAATTC-TAAAAATT
29004492 ATGAACTCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 3 0.11
18 17 0.61
19 8 0.29
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (18 bp):
AAATTCTAAAAATTTATA
Found at i:29004617 original size:18 final size:16
Alignment explanation
Indices: 29004590--29004631 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
29004580 TAAAAATATA
*
29004590 TTTTTTATATTTTTAT
1 TTTTTTATATTTTAAT
29004606 CTTTTTTCATATTTTAAT
1 -TTTTTT-ATATTTTAAT
29004624 TTTTTTAT
1 TTTTTTAT
29004632 GTCAATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 2 0.09
17 12 0.52
18 9 0.39
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTTATATTTTAAT
Found at i:29009330 original size:22 final size:21
Alignment explanation
Indices: 29009301--29009342 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
29009291 TTCAAATTTG
* *
29009301 ACCCCTTTTTTTTTAAAACAA
1 ACCCCTTTCTTTATAAAACAA
29009322 ACCCACTTTCTTTATAAAACA
1 ACCC-CTTTCTTTATAAAACA
29009343 TTTTACATGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.36, C:0.26, G:0.00, T:0.38
Consensus pattern (21 bp):
ACCCCTTTCTTTATAAAACAA
Found at i:29010308 original size:15 final size:16
Alignment explanation
Indices: 29010283--29010312 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
29010273 TGTATTATTA
29010283 AATTATTATTTTAAAT
1 AATTATTATTTTAAAT
29010299 AATT-TTATTTTAAA
1 AATTATTATTTTAAA
29010313 AAGTTTCAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
AATTATTATTTTAAAT
Found at i:29010528 original size:27 final size:26
Alignment explanation
Indices: 29010481--29010532 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
29010471 TTTTAAATAA
*
29010481 ATAATAATATAGTTATGAAATTCAAAC
1 ATAATAATATAGTAATGAAA-TCAAAC
*
29010508 ATAATAATATA-TAACTTAAATCAAA
1 ATAATAATATAGTAA-TGAAATCAAA
29010533 TAATTATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.33
Consensus pattern (26 bp):
ATAATAATATAGTAATGAAATCAAAC
Found at i:29013280 original size:16 final size:16
Alignment explanation
Indices: 29013259--29013308 Score: 82
Period size: 16 Copynumber: 3.1 Consensus size: 16
29013249 TGGTTCGCTA
29013259 TATTGGATTAGAGGTG
1 TATTGGATTAGAGGTG
29013275 TATTGGATTAGAGGTG
1 TATTGGATTAGAGGTG
* *
29013291 TAATGGAATAGAGGTG
1 TATTGGATTAGAGGTG
29013307 TA
1 TA
29013309 ATAGCAAATC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.30, C:0.00, G:0.36, T:0.34
Consensus pattern (16 bp):
TATTGGATTAGAGGTG
Found at i:29013394 original size:39 final size:43
Alignment explanation
Indices: 29013289--29013398 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 43
29013279 GGATTAGAGG
29013289 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--A
* * *
29013334 TGTAATGGAATAGAGGCGTAATAG-TAATCTTA-TGTTTGG-T-
1 TGTAATGGAATAGAGGTGTAATAGCAAATC-AACTGTTTGGTTA
29013374 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
29013399 TAATGGAAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
39 20 0.34
40 2 0.03
43 1 0.02
44 11 0.19
45 24 0.41
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (43 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
Found at i:29013572 original size:14 final size:15
Alignment explanation
Indices: 29013533--29013574 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
29013523 TTTAAACATC
*
29013533 ATTATTATTAAATAT
1 ATTATAATTAAATAT
29013548 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
29013562 A-TATAATTTAATA
1 ATTATAATTAAATA
29013575 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:29013643 original size:89 final size:88
Alignment explanation
Indices: 29013553--29013768 Score: 260
Period size: 89 Copynumber: 2.4 Consensus size: 88
29013543 AATATATTAT
*
29013553 AATTAAAATATATAATTTAATAAAAT-TCTTAATAATT-AATATTCTTATATGAATTTACTCAAA
1 AATTAAAATA-ATAA-TT-ATAAAATATATT-ATAATTAAATATTCTTATATGAATTTACTCAAA
*
29013616 TCATAATATATGATACTGTAAAATATA
62 TCATAATATATGATACTATAAAATATA
* * *
29013643 AATTAACATAATTATTATTAAATATATTATAATTAAAATATTCTTATATGAATTTACTCAAATCA
1 AATTAAAATAATAATTATAAAATATATTATAATT-AAATATTCTTATATGAATTTACTCAAATCA
*
29013708 TAATATATGATACTATAAAAGA-A
65 TAATATATGATACTATAAAATATA
* * *
29013731 AATTTGAAATAATTAA-TATTAAATATATTTTAATTAAA
1 AA-TTAAAATAA-TAATTATAAAATATATTATAATTAAA
29013769 ATATATGATT
Statistics
Matches: 111, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
87 12 0.11
88 11 0.10
89 77 0.69
90 11 0.10
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (88 bp):
AATTAAAATAATAATTATAAAATATATTATAATTAAATATTCTTATATGAATTTACTCAAATCAT
AATATATGATACTATAAAATATA
Found at i:29013671 original size:15 final size:15
Alignment explanation
Indices: 29013644--29013689 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
29013634 TAAAATATAA
29013644 ATTAACATA-ATTATT
1 ATTAA-ATATATTATT
*
29013659 ATTAAATATATTATA
1 ATTAAATATATTATT
*
29013674 ATTAAA-ATATTCTT
1 ATTAAATATATTATT
29013688 AT
1 AT
29013690 ATGAATTTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 11 0.41
15 16 0.59
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTAAATATATTATT
Found at i:29013769 original size:89 final size:89
Alignment explanation
Indices: 29013590--29013772 Score: 298
Period size: 89 Copynumber: 2.1 Consensus size: 89
29013580 CTTAATAATT
* *
29013590 AATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAAT
1 AATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTAACATAAT
*
29013655 TATTATTAAATATATTATAATTAA
66 TAATATTAAATATATTATAATTAA
29013679 AATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AAATTTGAA-ATA
1 AATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAA-TT-AACATA
*
29013742 ATTAATATTAAATATATTTTAATTAA
64 ATTAATATTAAATATATTATAATTAA
29013768 AATAT
1 AATAT
29013773 ATGATTAATA
Statistics
Matches: 88, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
88 3 0.03
89 83 0.94
90 2 0.02
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.41
Consensus pattern (89 bp):
AATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTAACATAAT
TAATATTAAATATATTATAATTAA
Found at i:29026149 original size:102 final size:102
Alignment explanation
Indices: 29026017--29026483 Score: 700
Period size: 102 Copynumber: 4.6 Consensus size: 102
29026007 GCATATAAAA
* *
29026017 GGGTTGCTGTGTGCTGATTCCCCAATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCGTCTGA
1 GGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATCTGA
29026082 AATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCAAG
66 AATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCAAG
* * * *
29026119 GGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGTTTGCTAAGTGCTGATTCCACCGTATTTTA
1 GGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATCTGA
* * *
29026184 AATGTGAAATGGGCTTGCTAAGTGCTGATTCCCCCGAG
66 AATGTG-AAGGGGGTTGCTAAGTGCTGATTCCCCCAAG
** * *
29026222 GGGTTGCTAAGTGCTGATTCCCCTATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATATGA
1 GGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATCTGA
* *
29026287 AATGTGAAGGGGGTTGCTAAGTGCTGATTCCACCGAG
66 AATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCAAG
** * *
29026324 GGGTTGCTAAGTGCTAATTCCCCTATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATCTGA
1 GGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATCTGA
* **
29026389 AATGGGAAGGGGGTTGCTAAGTTTTGATTCCCCCAAG
66 AATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCAAG
* * *
29026426 GGGTTACTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCGGAATCCACCG
1 GGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCG
29026484 ATAACGGTTA
Statistics
Matches: 331, Mismatches: 33, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
102 239 0.72
103 92 0.28
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.32
Consensus pattern (102 bp):
GGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATCTGA
AATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCAAG
Found at i:29026369 original size:205 final size:204
Alignment explanation
Indices: 29026017--29026483 Score: 700
Period size: 205 Copynumber: 2.3 Consensus size: 204
29026007 GCATATAAAA
* *
29026017 GGGTTGCTGTGTGCTGATTCCCCAATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCGTCTGA
1 GGGTTGCTGTGTGCTGATTCCCCAATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATATGA
* ** *
29026082 AATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTGTGTGCTGATTCCCCGATTC
66 AATGTGAAGGGGGTTGCTAAGTGCTGATTCCACCAAGGGGTTGCTAAGTGCTAATTCCCCGATTC
* * * * *
29026147 ATTGGTGTTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAATGGGCTTGCTAAGTGCTGA
131 ATTGGTGGTTGCTAAGTGCTGATTCCACCGCATCTGAAATG-GAAAGGGGCTTGCTAAGTGCTGA
*
29026212 TTCCCCCGAG
195 TTCCCCCAAG
** *
29026222 GGGTTGCTAAGTGCTGATTCCCCTATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATATGA
1 GGGTTGCTGTGTGCTGATTCCCCAATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATATGA
* *
29026287 AATGTGAAGGGGGTTGCTAAGTGCTGATTCCACCGAGGGGTTGCTAAGTGCTAATTCCCCTATTC
66 AATGTGAAGGGGGTTGCTAAGTGCTGATTCCACCAAGGGGTTGCTAAGTGCTAATTCCCCGATTC
* * **
29026352 ATTGGTGGTTGCTAAGTGCTGATTCCACCGCATCTGAAATGGGAAGGGGGTTGCTAAGTTTTGAT
131 ATTGGTGGTTGCTAAGTGCTGATTCCACCGCATCTGAAATGGAAAGGGGCTTGCTAAGTGCTGAT
29026417 TCCCCCAAG
196 TCCCCCAAG
* * * *
29026426 GGGTTACTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCGGAATCCACCG
1 GGGTTGCTGTGTGCTGATTCCCCAATTCATTGGTGGTTGCTAAGTGCTGATTCCACCG
29026484 ATAACGGTTA
Statistics
Matches: 235, Mismatches: 27, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
204 79 0.34
205 156 0.66
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.32
Consensus pattern (204 bp):
GGGTTGCTGTGTGCTGATTCCCCAATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATATGA
AATGTGAAGGGGGTTGCTAAGTGCTGATTCCACCAAGGGGTTGCTAAGTGCTAATTCCCCGATTC
ATTGGTGGTTGCTAAGTGCTGATTCCACCGCATCTGAAATGGAAAGGGGCTTGCTAAGTGCTGAT
TCCCCCAAG
Found at i:29033815 original size:75 final size:75
Alignment explanation
Indices: 29033722--29033899 Score: 277
Period size: 75 Copynumber: 2.4 Consensus size: 75
29033712 TATTGCATAT
**
29033722 AAAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCAT
1 AAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCAT
29033787 CTGAAATGTG
66 CTGAAATGTG
*
29033797 -AAGGGAGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTA
1 AAAGGG-GTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCA
* *
29033861 TTTTAAATGTG
65 TCTGAAATGTG
*
29033872 AAAGGGGGTTACTAAGTGCTGATTCCCC
1 AAA-GGGGTTGCTAAGTGCTGATTCCCC
29033900 CGAGGGGTTG
Statistics
Matches: 94, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
74 5 0.05
75 64 0.68
76 22 0.23
77 3 0.03
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (75 bp):
AAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCAT
CTGAAATGTG
Found at i:29034063 original size:102 final size:103
Alignment explanation
Indices: 29033797--29034050 Score: 420
Period size: 102 Copynumber: 2.5 Consensus size: 103
29033787 CTGAAATGTG
*
29033797 AAGGGAGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
1 AAGGG-GTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCAT
* *
29033862 TTTAAATGTGAAAGGGGGTTACTAAGTGCTGATTCCCCC
65 CTGAAATGTGAAAGGGGGTTACTAAGTGCTGATTCCCCC
* *
29033901 GAGGGGTTGCTAAGTGCTGATTCCCCTATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATC
*
29033966 TGAAATGTG-AAGGGGGTTGCTAAGTGCTGATTCCCCC
66 TGAAATGTGAAAGGGGGTTACTAAGTGCTGATTCCCCC
**
29034003 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGT
29034051 ACGGAATCCA
Statistics
Matches: 140, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
102 71 0.51
103 65 0.46
104 4 0.03
ACGTcount: A:0.19, C:0.20, G:0.29, T:0.32
Consensus pattern (103 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATC
TGAAATGTGAAAGGGGGTTACTAAGTGCTGATTCCCCC
Found at i:29045311 original size:28 final size:28
Alignment explanation
Indices: 29045257--29045312 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
29045247 TCGGCTTGAC
* *
29045257 TTAGACATCATTAAAGCATGTAATAAAA
1 TTAGACATCATTAAAACATATAATAAAA
*
29045285 TTAGACA-CATTAATAACATATAGTAAAA
1 TTAGACATCATTAA-AACATATAATAAAA
29045313 ACACATTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 6 0.25
28 18 0.75
ACGTcount: A:0.52, C:0.11, G:0.09, T:0.29
Consensus pattern (28 bp):
TTAGACATCATTAAAACATATAATAAAA
Found at i:29056707 original size:28 final size:29
Alignment explanation
Indices: 29056676--29056744 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
29056666 TCAATCATAC
*
29056676 CTTGTCTACAAAA-TCAAATCAGTGGTGG
1 CTTGTCTACAAAAGTCAAATCAGTGGTAG
***
29056704 CTTGT-TCACAAAAGTGTTATCAGTGGTAG
1 CTTGTCT-ACAAAAGTCAAATCAGTGGTAG
*
29056733 CTTATCTACAAA
1 CTTGTCTACAAA
29056745 CTAGTGGCAG
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
27 1 0.03
28 11 0.33
29 20 0.61
30 1 0.03
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (29 bp):
CTTGTCTACAAAAGTCAAATCAGTGGTAG
Found at i:29056761 original size:22 final size:22
Alignment explanation
Indices: 29056736--29056795 Score: 93
Period size: 22 Copynumber: 2.7 Consensus size: 22
29056726 GTGGTAGCTT
* *
29056736 ATCTACAAACTAGTGGCAGTTC
1 ATCTGCAAATTAGTGGCAGTTC
29056758 ATCTGCAAATTAGTGGCAGTTC
1 ATCTGCAAATTAGTGGCAGTTC
*
29056780 ATATGCAAATTAGTGG
1 ATCTGCAAATTAGTGG
29056796 TGGCTTGTTC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.30
Consensus pattern (22 bp):
ATCTGCAAATTAGTGGCAGTTC
Found at i:29077820 original size:15 final size:15
Alignment explanation
Indices: 29077800--29077830 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
29077790 TTTTACTTAG
*
29077800 TAGTTTTATTTAATT
1 TAGTTTAATTTAATT
29077815 TAGTTTAATTTAATT
1 TAGTTTAATTTAATT
29077830 T
1 T
29077831 TTACAGGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (15 bp):
TAGTTTAATTTAATT
Found at i:29079886 original size:26 final size:26
Alignment explanation
Indices: 29079857--29079943 Score: 111
Period size: 26 Copynumber: 3.3 Consensus size: 26
29079847 CCTGTTGCTT
** * *
29079857 GTGTGAGCAGGCCCATTTCACAACTC
1 GTGTGAGCATACCTATTTCACAGCTC
*
29079883 GTGTAAGCATACCTATTTCACAGCTC
1 GTGTGAGCATACCTATTTCACAGCTC
*
29079909 GTGTGAACATACCTATTTCACAGCTC
1 GTGTGAGCATACCTATTTCACAGCTC
*
29079935 ATGTGAGCA
1 GTGTGAGCA
29079944 ACTATGTATA
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (26 bp):
GTGTGAGCATACCTATTTCACAGCTC
Found at i:29085710 original size:20 final size:20
Alignment explanation
Indices: 29085685--29085742 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
29085675 TACAAGATTT
*
29085685 CACTTTGGTGCCTCTGTTTG
1 CACTTTGGTGCCTCTGTTTA
* *
29085705 CACTTTGGTGTCTCTGCTTA
1 CACTTTGGTGCCTCTGTTTA
* *
29085725 CACTTCGGTGCCTTTGTT
1 CACTTTGGTGCCTCTGTT
29085743 AGCATTTCAG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.07, C:0.26, G:0.22, T:0.45
Consensus pattern (20 bp):
CACTTTGGTGCCTCTGTTTA
Found at i:29086712 original size:22 final size:20
Alignment explanation
Indices: 29086687--29086738 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
29086677 ATAGGTAAGT
29086687 TTATGTACTATAAATATATGGC
1 TTATG-ACT-TAAATATATGGC
**
29086709 TTATGACTTATTTATATGGC
1 TTATGACTTAAATATATGGC
*
29086729 TTGTGACTTA
1 TTATGACTTA
29086739 TTTATATGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 19 0.70
21 3 0.11
22 5 0.19
ACGTcount: A:0.29, C:0.10, G:0.15, T:0.46
Consensus pattern (20 bp):
TTATGACTTAAATATATGGC
Found at i:29086726 original size:20 final size:20
Alignment explanation
Indices: 29086701--29086751 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
29086691 GTACTATAAA
29086701 TATATGGCTTATGACTTATT
1 TATATGGCTTATGACTTATT
*
29086721 TATATGGCTTGTGACTTATT
1 TATATGGCTTATGACTTATT
29086741 TATATGTGCTT
1 TATATG-GCTT
29086752 GAAGTGGTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 25 0.86
21 4 0.14
ACGTcount: A:0.22, C:0.10, G:0.18, T:0.51
Consensus pattern (20 bp):
TATATGGCTTATGACTTATT
Found at i:29090872 original size:20 final size:20
Alignment explanation
Indices: 29090843--29090884 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
29090833 TTGAAATGCT
29090843 AATAGAGGCACCGAAGTGCA
1 AATAGAGGCACCGAAGTGCA
* *
29090863 AATAGTGGCATCGAAGTGCA
1 AATAGAGGCACCGAAGTGCA
29090883 AA
1 AA
29090885 CCCATACAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.17, G:0.29, T:0.14
Consensus pattern (20 bp):
AATAGAGGCACCGAAGTGCA
Found at i:29091926 original size:29 final size:30
Alignment explanation
Indices: 29091867--29091924 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
29091857 TCCGAGCCTT
*
29091867 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
29091897 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
29091925 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:29092154 original size:13 final size:13
Alignment explanation
Indices: 29092136--29092167 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
29092126 TTTCCAGCAA
29092136 TTATGAATTTATT
1 TTATGAATTTATT
29092149 TTATGAATTTATT
1 TTATGAATTTATT
*
29092162 TGATGA
1 TTATGA
29092168 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:29092382 original size:50 final size:50
Alignment explanation
Indices: 29092262--29092503 Score: 286
Period size: 50 Copynumber: 4.7 Consensus size: 50
29092252 ATTTGGGTAA
* * *
29092262 AGAGATCCCATATAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--AAGA-C--G
* *
29092318 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
* * * *
29092368 AGTGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
* * * *
29092418 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCAACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
**
29092468 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
29092504 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
50 93 0.56
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 38 0.23
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
Found at i:29092446 original size:100 final size:104
Alignment explanation
Indices: 29092266--29092511 Score: 347
Period size: 100 Copynumber: 2.4 Consensus size: 104
29092256 GGGTAAAGAG
* *
29092266 ATCCCATATAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCCCTGT
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCCCTAT
* * **
29092331 AAGACCATGTCTGGGACATGGCATGGGCACCGAGACGAG-TG
63 AAGACCATGTCTGGGACATGGCATGGGCACCAACACGAGAAC
* *
29092372 GTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC-GA-GATGAGAGGTCCCCTATAAG
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTATAAG
*
29092434 ACCATGTCTGGGACATGGCATGGGCACCAACATGAGAAC
66 ACCATGTCTGGGACATGGCATGGGCACCAACACGAGAAC
*
29092473 ATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
29092512 GTTATTATCA
Statistics
Matches: 127, Mismatches: 11, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
100 51 0.40
101 38 0.30
105 2 0.02
106 36 0.28
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (104 bp):
ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTATAAG
ACCATGTCTGGGACATGGCATGGGCACCAACACGAGAAC
Found at i:29099576 original size:29 final size:30
Alignment explanation
Indices: 29099517--29099574 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
29099507 TCCGAGCCTT
*
29099517 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
29099547 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
29099575 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:29100026 original size:50 final size:50
Alignment explanation
Indices: 29099912--29100153 Score: 286
Period size: 50 Copynumber: 4.7 Consensus size: 50
29099902 ATTTGGGTAA
* * *
29099912 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--AAGA-C--G
* *
29099968 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
* * * *
29100018 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
* * * *
29100068 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCAACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
**
29100118 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
29100154 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
50 92 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
Found at i:29100104 original size:100 final size:103
Alignment explanation
Indices: 29099912--29100161 Score: 353
Period size: 100 Copynumber: 2.4 Consensus size: 103
29099902 ATTTGGGTAA
29099912 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATAAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATAAGAGGTCCC
* * *
29099977 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACCAACACG
* * * *
29100018 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATAAGAGGTCCCCTA
*
29100080 TAAGACCATGTCTGGGACATGGCATGGGCACCAACATG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCAACACG
* *
29100118 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
29100162 GTTATTATCA
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
100 50 0.38
101 39 0.30
105 2 0.02
106 40 0.31
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATAAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCAACACG
Found at i:29102550 original size:25 final size:24
Alignment explanation
Indices: 29102522--29102641 Score: 141
Period size: 25 Copynumber: 4.8 Consensus size: 24
29102512 TTATTGTATT
29102522 TGAAATGAGTCCTTTGTGGCATATC
1 TGAAATGAG-CCTTTGTGGCATATC
* * *
29102547 TGAAATGAAGCATTTGTGGCGTATT
1 TGAAATG-AGCCTTTGTGGCATATC
*
29102572 TGAAATAAAGCCTTTGTGGCATATC
1 TGAAAT-GAGCCTTTGTGGCATATC
*
29102597 TGAAATGAAGCCTCTGTGGCATATC
1 TGAAATG-AGCCTTTGTGGCATATC
*
29102622 TGAAATGAAGCCTTTATGGC
1 TGAAATG-AGCCTTTGTGGC
29102642 GTATTGATAA
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
25 79 0.98
26 2 0.02
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (24 bp):
TGAAATGAGCCTTTGTGGCATATC
Found at i:29102574 original size:50 final size:49
Alignment explanation
Indices: 29102517--29102641 Score: 169
Period size: 50 Copynumber: 2.5 Consensus size: 49
29102507 CCTTTTTATT
*
29102517 GTATTTGAAATGAGTCCTTTGTGGCATATCTGAAATGAAGCATTTGTGGC
1 GTATTTGAAATGAG-CCTTTGTGGCATATCTGAAATGAAGCATCTGTGGC
* *
29102567 GTATTTGAAATAAAGCCTTTGTGGCATATCTGAAATGAAGCCTCTGTGGC
1 GTATTTGAAAT-GAGCCTTTGTGGCATATCTGAAATGAAGCATCTGTGGC
* * *
29102617 ATATCTGAAATGAAGCCTTTATGGC
1 GTATTTGAAATG-AGCCTTTGTGGC
29102642 GTATTGATAA
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
50 64 0.97
51 2 0.03
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (49 bp):
GTATTTGAAATGAGCCTTTGTGGCATATCTGAAATGAAGCATCTGTGGC
Found at i:29103778 original size:12 final size:12
Alignment explanation
Indices: 29103761--29103790 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
29103751 GGTCACACGC
29103761 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
29103773 CCGTGTGCTAGG
1 CCGTGTGCCAGG
29103785 CCGTGT
1 CCGTGT
29103791 AACTCACTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.30, G:0.40, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:29104668 original size:41 final size:40
Alignment explanation
Indices: 29104617--29104771 Score: 193
Period size: 41 Copynumber: 3.8 Consensus size: 40
29104607 TTCAGGTTAC
* *
29104617 CGAAGCACAAACAGGGGCACGTAAGTTCAATTTAGGGGTA
1 CGAAGTACAAACAGGGGCACGTAAGTGCAATTTAGGGGTA
* * * * *
29104657 TCGAAGTACAAATAGGGACATGTAAGTGTAATTAAGGGGTA
1 -CGAAGTACAAACAGGGGCACGTAAGTGCAATTTAGGGGTA
* *
29104698 CCGAAGTACAAACGGGGGCATGTAAGTGCAATTTAGGGGTA
1 -CGAAGTACAAACAGGGGCACGTAAGTGCAATTTAGGGGTA
*
29104739 CTGAAGTACAAACGGGGGCACGTAAGTGCAATT
1 C-GAAGTACAAACAGGGGCACGTAAGTGCAATT
29104772 CAGAGAATAG
Statistics
Matches: 99, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
40 1 0.01
41 98 0.99
ACGTcount: A:0.35, C:0.14, G:0.31, T:0.20
Consensus pattern (40 bp):
CGAAGTACAAACAGGGGCACGTAAGTGCAATTTAGGGGTA
Found at i:29104724 original size:20 final size:20
Alignment explanation
Indices: 29104701--29104765 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
29104691 AGGGGTACCG
29104701 AAGTACAAACGGGGGCATGT
1 AAGTACAAACGGGGGCATGT
* *** *
29104721 AAGTGCAATTTAGGGGTACTG-
1 AAGTACAA-ACGGGGGCA-TGT
*
29104742 AAGTACAAACGGGGGCACGT
1 AAGTACAAACGGGGGCATGT
29104762 AAGT
1 AAGT
29104766 GCAATTCAGA
Statistics
Matches: 31, Mismatches: 11, Indels: 6
0.65 0.23 0.12
Matches are distributed among these distances:
19 1 0.03
20 16 0.52
21 12 0.39
22 2 0.06
ACGTcount: A:0.34, C:0.14, G:0.34, T:0.18
Consensus pattern (20 bp):
AAGTACAAACGGGGGCATGT
Found at i:29104764 original size:82 final size:81
Alignment explanation
Indices: 29104592--29104771 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
29104582 ACTGTAAATA
* * * *
29104592 GGGCACGAAAGTGT-ATTCAGGTTACCGAAGCACAAACAGGGGCACGTAAGTTCAATTTAGGGGT
1 GGGCACGTAAGTGTAATTAAGGGTACCGAAGCACAAACAGGGGCACGTAAGTGCAATTTAGGGGT
*
29104656 ATCGAAGTACAAATAG
66 ATCGAAGTACAAACAG
* * * * *
29104672 GGACATGTAAGTGTAATTAAGGGGTACCGAAGTACAAACGGGGGCATGTAAGTGCAATTTAGGGG
1 GGGCACGTAAGTGTAATTAA-GGGTACCGAAGCACAAACAGGGGCACGTAAGTGCAATTTAGGGG
*
29104737 TA-CTGAAGTACAAACGG
65 TATC-GAAGTACAAACAG
*
29104754 GGGCACGTAAGTGCAATT
1 GGGCACGTAAGTGTAATT
29104772 CAGAGAATAG
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
80 11 0.13
81 5 0.06
82 67 0.81
ACGTcount: A:0.34, C:0.14, G:0.31, T:0.21
Consensus pattern (81 bp):
GGGCACGTAAGTGTAATTAAGGGTACCGAAGCACAAACAGGGGCACGTAAGTGCAATTTAGGGGT
ATCGAAGTACAAACAG
Found at i:29111674 original size:27 final size:27
Alignment explanation
Indices: 29111644--29112018 Score: 261
Period size: 27 Copynumber: 14.0 Consensus size: 27
29111634 GGAAATAACT
*
29111644 GAAATACCCCTGACGGGTAAAATGACC
1 GAAATACCCCTGAAGGGTAAAATGACC
29111671 GAAATA-CCCTCGAAGGGTAAAATGACC
1 GAAATACCCCT-GAAGGGTAAAATGACC
* * *
29111698 -AAACTA-CCCTCGAAAGGTAAATTGGCC
1 GAAA-TACCCCT-GAAGGGTAAAATGACC
* *
29111725 GAAATACCCC-CATAGGATAAAATG-CC
1 GAAATACCCCTGA-AGGGTAAAATGACC
* * * *
29111751 AAAAATA-TCCTCGATGGATAAAATGACC
1 -GAAATACCCCT-GAAGGGTAAAATGACC
* *
29111779 GAAATA-CCCTGAAGAGTAAAATGATC
1 GAAATACCCCTGAAGGGTAAAATGACC
* * *
29111805 GAAATACACCC-GAAAGGTAAACTTACC
1 GAAATAC-CCCTGAAGGGTAAAATGACC
* * *
29111832 GAAATA-CCTTCGAAGGGT-AAATCACT
1 GAAATACCCCT-GAAGGGTAAAATGACC
* * *
29111858 GAAATACCTCTGAACGGTAAAATGACT
1 GAAATACCCCTGAAGGGTAAAATGACC
* * *
29111885 GAAATACCCC-AAAGGGTAAAATAACT
1 GAAATACCCCTGAAGGGTAAAATGACC
*
29111911 AAAATA-CCCTCGAAGGGTAAAATGACC
1 GAAATACCCCT-GAAGGGTAAAATGACC
* * *
29111938 AAAATACCCCCGCAGGGTAAAATGACC
1 GAAATACCCCTGAAGGGTAAAATGACC
* * **
29111965 AAAATACCCCGCGAAGGGTAAAATGATT
1 GAAATACCCC-TGAAGGGTAAAATGACC
* * *
29111993 GAAATACCCCCGAAAGATAAAATGAC
1 GAAATACCCCTGAAGGGTAAAATGAC
29112019 TGTTATACCC
Statistics
Matches: 280, Mismatches: 49, Indels: 38
0.76 0.13 0.10
Matches are distributed among these distances:
25 5 0.02
26 65 0.23
27 172 0.61
28 38 0.14
ACGTcount: A:0.43, C:0.22, G:0.18, T:0.17
Consensus pattern (27 bp):
GAAATACCCCTGAAGGGTAAAATGACC
Found at i:29111730 original size:54 final size:54
Alignment explanation
Indices: 29111659--29112018 Score: 322
Period size: 53 Copynumber: 6.7 Consensus size: 54
29111649 ACCCCTGACG
*
29111659 GGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCAAACTACCCTCGAAA
1 GGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCAAAATACCCTCGAAA
* * * * * *
29111713 GGTAAATTGGCCGAAATACCC-CCATAGGATAAAATG-CCAAAAATATCCTCG-AT
1 GGTAAAATGACCGAAATACCCTCGA-AGGGTAAAATGACC-AAAATACCCTCGAAA
* * *
29111766 GGATAAAATGACCGAAATACCCT-GAAGAGTAAAATGATCGAAATACACC-CGAAA
1 GG-TAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCAAAATAC-CCTCGAAA
* * * * ** *
29111820 GGTAAACTTACCGAAATACCTTCGAAGGGT-AAATCACTGAAATA-CCTCTGAAC
1 GGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCAAAATACCCTC-GAAA
* * * * *
29111873 GGTAAAATGACTGAAATACCC-CAAAGGGTAAAATAACTAAAATACCCTCGAAG
1 GGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCAAAATACCCTCGAAA
* * * * *
29111926 GGTAAAATGACCAAAATACCCCCGCAGGGTAAAATGACCAAAATACCCCGCGAAG
1 GGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCAAAATA-CCCTCGAAA
** * * *
29111981 GGTAAAATGATTGAAATACCCCCGAAAGATAAAATGAC
1 GGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGAC
29112019 TGTTATACCC
Statistics
Matches: 247, Mismatches: 45, Indels: 27
0.77 0.14 0.08
Matches are distributed among these distances:
51 2 0.01
52 8 0.03
53 105 0.43
54 92 0.37
55 40 0.16
ACGTcount: A:0.43, C:0.22, G:0.18, T:0.17
Consensus pattern (54 bp):
GGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCAAAATACCCTCGAAA
Found at i:29130038 original size:27 final size:27
Alignment explanation
Indices: 29129987--29130421 Score: 393
Period size: 27 Copynumber: 16.1 Consensus size: 27
29129977 CGTGGGCAAG
* *
29129987 TGACCGAAATAGCC-CGAAGGGTAAAT
1 TGACCGAAATACCCTCGAAGGGTAAAA
*
29130013 TGACCGAAATACCCTCGAAGGGTAAAG
1 TGACCGAAATACCCTCGAAGGGTAAAA
* *
29130040 TGACCAAAATACCCCCGAAGGGTAAAA
1 TGACCGAAATACCCTCGAAGGGTAAAA
* * *
29130067 TGA-CTAACATACCCCCGAAAGGTAAAA
1 TGACCGAA-ATACCCTCGAAGGGTAAAA
* * *
29130094 TGACCAAAATACCCTTGAGGGGTAAAA
1 TGACCGAAATACCCTCGAAGGGTAAAA
* * *
29130121 TGATCAAAATA-CCTCTGAAGAGTAAAA
1 TGACCGAAATACCCTC-GAAGGGTAAAA
* * *
29130148 TGATCGAAATACCCTTGAGGGGTAAAA
1 TGACCGAAATACCCTCGAAGGGTAAAA
* *
29130175 TGATCAAAATA-CCTCCGAAGGGTAAAA
1 TGACCGAAATACCCT-CGAAGGGTAAAA
** * *
29130202 TGAAAGAAATACCCTCGAAAGATAAAA
1 TGACCGAAATACCCTCGAAGGGTAAAA
29130229 TGACCGAAATACCCTCGAAGGGTAAAA
1 TGACCGAAATACCCTCGAAGGGTAAAA
* * *
29130256 TGATCGAAATACCC-CTATAGGTTAAAA
1 TGACCGAAATACCCTCGA-AGGGTAAAA
*
29130283 TGACCGAAATAGCCC-CTAAGGGTAAAA
1 TGACCGAAATA-CCCTCGAAGGGTAAAA
* * * *
29130310 TGAGCAAAATACCCCCGAGGGGTAAAA
1 TGACCGAAATACCCTCGAAGGGTAAAA
*
29130337 TGATCGAAATACCC-CTGAAGGGTAAAA
1 TGACCGAAATACCCTC-GAAGGGTAAAA
* ** * *
29130364 TGGCTTAAATACCC-CCAATAGGTAAAA
1 TGACCGAAATACCCTCGAA-GGGTAAAA
*
29130391 TGACCGAAATACCC-CCATAGGGTAAAA
1 TGACCGAAATACCCTCGA-AGGGTAAAA
29130418 TGAC
1 TGAC
29130422 TGTTATACCC
Statistics
Matches: 342, Mismatches: 54, Indels: 25
0.81 0.13 0.06
Matches are distributed among these distances:
26 30 0.09
27 296 0.87
28 16 0.05
ACGTcount: A:0.42, C:0.20, G:0.20, T:0.17
Consensus pattern (27 bp):
TGACCGAAATACCCTCGAAGGGTAAAA
Found at i:29135152 original size:23 final size:22
Alignment explanation
Indices: 29135126--29135168 Score: 52
Period size: 23 Copynumber: 1.9 Consensus size: 22
29135116 AAATGGTTTA
29135126 TTTA-CCATTTAAGTCCATTTACC
1 TTTATCCA-TTAAG-CCATTTACC
*
29135149 TTTATTCATTAAGCCATTTA
1 TTTATCCATTAAGCCATTTA
29135169 ATCACTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 7 0.39
23 9 0.50
24 2 0.11
ACGTcount: A:0.28, C:0.21, G:0.05, T:0.47
Consensus pattern (22 bp):
TTTATCCATTAAGCCATTTACC
Found at i:29140232 original size:15 final size:15
Alignment explanation
Indices: 29140212--29140241 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
29140202 CACCCTTTTG
29140212 GATATGATCTCTAAT
1 GATATGATCTCTAAT
*
29140227 GATATGATGTCTAAT
1 GATATGATCTCTAAT
29140242 TTCAATGTGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (15 bp):
GATATGATCTCTAAT
Found at i:29147897 original size:21 final size:18
Alignment explanation
Indices: 29147880--29147918 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
29147870 TAAAAAATTG
29147880 AAAAAAAAAAGAAGAAAA
1 AAAAAAAAAAGAAGAAAA
*
29147898 AATAAAAAAAGAAGAAAA
1 AAAAAAAAAAGAAGAAAA
29147916 AAA
1 AAA
29147919 TATTGATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.87, C:0.00, G:0.10, T:0.03
Consensus pattern (18 bp):
AAAAAAAAAAGAAGAAAA
Found at i:29147920 original size:19 final size:18
Alignment explanation
Indices: 29147883--29147917 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
29147873 AAAATTGAAA
29147883 AAAAAAAGAAGAAAAAAT
1 AAAAAAAGAAGAAAAAAT
29147901 AAAAAAAGAAGAAAAAA
1 AAAAAAAGAAGAAAAAA
29147918 ATATTGATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (18 bp):
AAAAAAAGAAGAAAAAAT
Found at i:29150575 original size:29 final size:29
Alignment explanation
Indices: 29150534--29150631 Score: 92
Period size: 29 Copynumber: 3.4 Consensus size: 29
29150524 GGTCATCACC
29150534 ATCCC-TTTCATAATCGATCA-CCAAAACT
1 ATCCCTTTTCATAATCGAT-AGCCAAAACT
* * *
29150562 ATCCCTTTTCATAATCGGTAGCCATAGCT
1 ATCCCTTTTCATAATCGATAGCCAAAACT
* * * * **
29150591 ATCCCTTTTCATATTGGATAGTCGAAGTT
1 ATCCCTTTTCATAATCGATAGCCAAAACT
29150620 ATCCCTTTTCAT
1 ATCCCTTTTCAT
29150632 TAGTCAATGA
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
28 6 0.10
29 52 0.90
ACGTcount: A:0.27, C:0.27, G:0.10, T:0.37
Consensus pattern (29 bp):
ATCCCTTTTCATAATCGATAGCCAAAACT
Found at i:29159535 original size:51 final size:51
Alignment explanation
Indices: 29159445--29159682 Score: 253
Period size: 51 Copynumber: 4.7 Consensus size: 51
29159435 AAAGCTATCC
* * * * * * *
29159445 GGTACACATAGTGGCCTACACTTAGTGCTACACATGTGACCATTACCATTT
1 GGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCATAACCATCT
* * * * *
29159496 GGTACACTTACTAGCCTGCACATAGTATTACACACGTGACCAAAACTATCT
1 GGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCATAACCATCT
* * *
29159547 GGTACACATAGTAGCCTGCACTTAGTACTACACATC-TGACCATTACCATCC
1 GGTACACATAGTAGCCTGCACATAGTACTACACA-CGTGACCATAACCATCT
* * * * *
29159598 AGTGCACGTAGTAGCCTGCACATAGTACTACACACGTGACCATAACTATTT
1 GGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCATAACCATCT
** *
29159649 TATACTCATAGTAGCCTGCACATAGTACTACACA
1 GGTACACATAGTAGCCTGCACATAGTACTACACA
29159683 TGAGTTTCTC
Statistics
Matches: 152, Mismatches: 33, Indels: 4
0.80 0.17 0.02
Matches are distributed among these distances:
50 1 0.01
51 150 0.99
52 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.26
Consensus pattern (51 bp):
GGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCATAACCATCT
Found at i:29159569 original size:102 final size:102
Alignment explanation
Indices: 29159434--29159684 Score: 331
Period size: 102 Copynumber: 2.5 Consensus size: 102
29159424 CCCTTATGAT
* * * * * ***
29159434 CAAAGCTATCCGGTACACATAGTGGCCTACACTTAGTGCTACACATGTGACCATTACCATTTGGT
1 CAAAACTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCATTACCATCCAGT
* *
29159499 ACACTTACTAGCCTGCACATAGTATTACACACGTGAC
66 ACACGTACTAGCCTGCACATAGTACTACACACGTGAC
*
29159536 CAAAACTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATCTGACCATTACCATCCAGT
1 CAAAACTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCATTACCATCCAGT
* *
29159601 GCACGTAGTAGCCTGCACATAGTACTACACACGTGAC
66 ACACGTACTAGCCTGCACATAGTACTACACACGTGAC
* * ** * *
29159638 CATAACTATTTTATACTCATAGTAGCCTGCACATAGTACTACACATG
1 CAAAACTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATG
29159685 AGTTTCTCAT
Statistics
Matches: 129, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
102 129 1.00
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.26
Consensus pattern (102 bp):
CAAAACTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCATTACCATCCAGT
ACACGTACTAGCCTGCACATAGTACTACACACGTGAC
Found at i:29169820 original size:26 final size:26
Alignment explanation
Indices: 29169789--29169883 Score: 145
Period size: 26 Copynumber: 3.7 Consensus size: 26
29169779 CGTTCTAACC
*
29169789 CACAACTCGTGTGAGCAGACCCATTT
1 CACAACTCGTGTGAGCAGGCCCATTT
* *
29169815 CACAACTCGTGTGAGAAGGCCCATGT
1 CACAACTCGTGTGAGCAGGCCCATTT
*
29169841 CACAGCTCGTGTGAGCAGGCCCATTT
1 CACAACTCGTGTGAGCAGGCCCATTT
*
29169867 CACAGCTCGTGTGAGCA
1 CACAACTCGTGTGAGCA
29169884 ATGATGTAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 63 1.00
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.21
Consensus pattern (26 bp):
CACAACTCGTGTGAGCAGGCCCATTT
Found at i:29172504 original size:18 final size:18
Alignment explanation
Indices: 29172477--29172518 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
29172467 TACTGGAATA
*
29172477 AATTAATTAAGTT-AGTTT
1 AATTAATTAA-TTCAGCTT
*
29172495 AATTAGTTAATTCAGCTT
1 AATTAATTAATTCAGCTT
29172513 AATTAA
1 AATTAA
29172519 ATGTTGAGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (18 bp):
AATTAATTAATTCAGCTT
Found at i:29177306 original size:18 final size:18
Alignment explanation
Indices: 29177279--29177320 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
29177269 TGCTGGAATA
*
29177279 AATTAATTAAGTT-AGTTT
1 AATTAATTAA-TTCAGCTT
*
29177297 AATTAGTTAATTCAGCTT
1 AATTAATTAATTCAGCTT
29177315 AATTAA
1 AATTAA
29177321 ATGTTGAGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (18 bp):
AATTAATTAATTCAGCTT
Found at i:29180884 original size:81 final size:81
Alignment explanation
Indices: 29180749--29180910 Score: 288
Period size: 81 Copynumber: 2.0 Consensus size: 81
29180739 TAAAGTTTTG
**
29180749 TATGGTCAAAAGTGTCGAACTCCGTTGTACTAGACTGAGCTTAGTGGAAAAAATTATTCGGTGTT
1 TATGGTCAAAAGTGTCGAACTCCGTTGTACTAGACTGAGCTTAGTGGAAAAAATTATTCAATGTT
29180814 GATTTGATACGACAAA
66 GATTTGATACGACAAA
* *
29180830 TATGGTCAAAAGTGTTGAACTCCTTTGTACTAGACTGAGCTTAGTGGAAAAAATTATTCAATGTT
1 TATGGTCAAAAGTGTCGAACTCCGTTGTACTAGACTGAGCTTAGTGGAAAAAATTATTCAATGTT
29180895 GATTTGATACGACAAA
66 GATTTGATACGACAAA
29180911 CTGAAGAAAA
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
81 77 1.00
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.32
Consensus pattern (81 bp):
TATGGTCAAAAGTGTCGAACTCCGTTGTACTAGACTGAGCTTAGTGGAAAAAATTATTCAATGTT
GATTTGATACGACAAA
Found at i:29187821 original size:2 final size:2
Alignment explanation
Indices: 29187814--29187844 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
29187804 TTTCTTAAGT
*
29187814 TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
29187845 GTACATGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:29188554 original size:15 final size:16
Alignment explanation
Indices: 29188511--29188555 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
29188501 ACGAATTCAA
29188511 ATAATTTTAAAT-TTT
1 ATAATTTTAAATATTT
*
29188526 ATAAGTTATAAATATTT
1 ATAA-TTTTAAATATTT
29188543 -TAATTTTAAATAT
1 ATAATTTTAAATAT
29188556 AACAACTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 13 0.50
16 10 0.38
17 3 0.12
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
ATAATTTTAAATATTT
Found at i:29190359 original size:23 final size:23
Alignment explanation
Indices: 29190333--29190391 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 23
29190323 GGCATTACGA
* *
29190333 AATACGCCACAAAGGCTCCACAT
1 AATACGCCACAAAGACTCCACAG
* * * *
29190356 AATATGCCACAAATACTTCATAG
1 AATACGCCACAAAGACTCCACAG
29190379 AATACGCCACAAA
1 AATACGCCACAAA
29190392 AGCATCATAG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.44, C:0.29, G:0.10, T:0.17
Consensus pattern (23 bp):
AATACGCCACAAAGACTCCACAG
Found at i:29190399 original size:23 final size:22
Alignment explanation
Indices: 29190333--29190403 Score: 63
Period size: 23 Copynumber: 3.1 Consensus size: 22
29190323 GGCATTACGA
* * *
29190333 AATACGCCACAAAGGCTCCACAT
1 AATACGCCACAAAAGCT-CATAG
*
29190356 AATATGCCACAAATA-CTTCATAG
1 AATACGCCACAAA-AGC-TCATAG
29190379 AATACGCCACAAAAGCATCATAG
1 AATACGCCACAAAAGC-TCATAG
29190402 AA
1 AA
29190404 AATGCCATAC
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
22 1 0.03
23 37 0.95
24 1 0.03
ACGTcount: A:0.45, C:0.27, G:0.11, T:0.17
Consensus pattern (22 bp):
AATACGCCACAAAAGCTCATAG
Found at i:29190410 original size:23 final size:23
Alignment explanation
Indices: 29190359--29190410 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
29190349 TCCACATAAT
* *
29190359 ATGCCACAAATACTTCATAGAAT
1 ATGCCACAAATACATCATAGAAA
*
29190382 ACGCCACAAA-AGCATCATAGAAA
1 ATGCCACAAATA-CATCATAGAAA
29190405 ATGCCA
1 ATGCCA
29190411 TACATGCTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 1 0.04
23 23 0.96
ACGTcount: A:0.46, C:0.25, G:0.12, T:0.17
Consensus pattern (23 bp):
ATGCCACAAATACATCATAGAAA
Found at i:29195025 original size:12 final size:12
Alignment explanation
Indices: 29195008--29195036 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
29194998 ATGAGTTATT
29195008 TAAGTAAACAAG
1 TAAGTAAACAAG
29195020 TAAGTAAACAAG
1 TAAGTAAACAAG
29195032 TAAGT
1 TAAGT
29195037 GAGTAAGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.55, C:0.07, G:0.17, T:0.21
Consensus pattern (12 bp):
TAAGTAAACAAG
Found at i:29195389 original size:53 final size:53
Alignment explanation
Indices: 29195319--29195426 Score: 189
Period size: 53 Copynumber: 2.0 Consensus size: 53
29195309 TGTTTATATG
* *
29195319 ATATGGCTAATGGTTAGCTATTGAAATGACTAATTAATAACATGTTTGGTGTT
1 ATATGGCTAATGATTAGCTATTGAAATGACTAATTAAGAACATGTTTGGTGTT
*
29195372 ATATGGCTAATGATTAGCTATTGAAATGGCTAATTAAGAACATGTTTGGTGTT
1 ATATGGCTAATGATTAGCTATTGAAATGACTAATTAAGAACATGTTTGGTGTT
29195425 AT
1 AT
29195427 GGATGCCTAA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.32, C:0.07, G:0.21, T:0.39
Consensus pattern (53 bp):
ATATGGCTAATGATTAGCTATTGAAATGACTAATTAAGAACATGTTTGGTGTT
Found at i:29197868 original size:139 final size:138
Alignment explanation
Indices: 29197608--29198160 Score: 804
Period size: 139 Copynumber: 4.1 Consensus size: 138
29197598 TAGAAAAATG
* *
29197608 AATTATATTCTTTCCAAAAGAATATTAATTTCTATGTCTTTTATATTTTGACCGAAAGTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
*
29197673 TATAACTGTTTATATTAATAAATTTGATAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAACTGTTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAATCAAA-T
*
29197738 TATATATATT
130 T-CATATATT
* *
29197748 AATTATATT-TTTCCAAAAGAATATTAATTTCCA-GTTTTTTTATATTTTGACCAAAATTAATTA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATG-TCTTTTATATTTTGACCGAAATTAATTA
* * *
29197811 ATATAACTGTTTATATCAATAAATTCAATAAAATATATAAAATTAATATTTTGTATGAATCAAAT
65 ATATAACTGTTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAATCAAAT
*
29197876 TAATATATT
130 TCATATATT
* * * * *
29197885 AATTATATTATTTCC-AAATAATGTTAATTTTCATATCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
*
29197949 TATAAATGTTTATATTAATAAATTCGATAAAATATATACAATTAATA---T-T-T---TCAAATT
66 TATAACTGTTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAATCAAATT
29198006 CATATATT
131 CATATATT
*
29198014 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGATCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
* * * *
29198079 TATAATTTTTTATATTAATAATTTCGATAAAATATATACAATTAATATTTTTTATGAATCAAATT
66 TATAACTGTTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAATCAAATT
*
29198144 CGTATATT
131 CATATATT
29198152 AATTATATT
1 AATTATATT
29198161 TATGTTCTCT
Statistics
Matches: 371, Mismatches: 30, Indels: 26
0.87 0.07 0.06
Matches are distributed among these distances:
129 28 0.08
130 88 0.24
132 1 0.00
133 2 0.01
134 2 0.01
135 1 0.00
137 101 0.27
138 31 0.08
139 108 0.29
140 9 0.02
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.46
Consensus pattern (138 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
TATAACTGTTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAATCAAATT
CATATATT
Found at i:29198129 original size:267 final size:273
Alignment explanation
Indices: 29197608--29198160 Score: 800
Period size: 267 Copynumber: 2.0 Consensus size: 273
29197598 TAGAAAAATG
* *
29197608 AATTATATTCTTTCCAAAAGAATATTAATTTCTATGTCTTTTATATTTTGACCGAAAGTAATTAA
1 AATTATATTATTTCCAAAAGAATATTAATTTCTATATCTTTTATATTTTGACCGAAAGTAATTAA
* *
29197673 TATAACTGTTTATATTAATAAATTTGATAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAAATGTTTATATTAATAAATTCGATAAAATATATACAATTAATA--TTGTAT--ATCAAATT
* *
29197738 TATATATATTAATTATATTTTTCCAAAAGAATATTAATTTCCAGTTTTTTTATATTTTGACCAAA
127 TACATATATTAATTATATTTTTCCAAAAGAATATTAATTTCCAGTTCTTTTATATTTTGACCAAA
29197803 ATTAATTAATATAACTGTTTATATCAATAAATTCAATAAAATATATAAAATTAATATTTTGTATG
192 ATTAATTAATATAACTGTTTATATCAATAAATTCAATAAAATATATAAAATTAATATTTTGTATG
29197868 AATCAAATTAATATATT
257 AATCAAATTAATATATT
* * *
29197885 AATTATATTATTTCC-AAATAATGTTAATTT-TCATATCTTTTATATTTTGACCGAAATTAATTA
1 AATTATATTATTTCCAAAAGAATATTAATTTCT-ATATCTTTTATATTTTGACCGAAAGTAATTA
29197948 ATATAAATGTTTATATTAATAAATTCGATAAAATATATACAATTAATA-T-T-T-TCAAA-TT-C
65 ATATAAATGTTTATATTAATAAATTCGATAAAATATATACAATTAATATTGTATATCAAATTTAC
* *
29198007 ATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCA-TGTCTTTTATATTTTGATCGAAA
130 ATATATTAATTATATT-TTTCCAAAAGAATATTAATTTCCAGT-TCTTTTATATTTTGACCAAAA
* * * * * * *
29198071 TTAATTAATATAATTTTTTATATTAATAATTTCGATAAAATATATACAATTAATATTTTTTATGA
193 TTAATTAATATAACTGTTTATATCAATAAATTCAATAAAATATATAAAATTAATATTTTGTATGA
**
29198136 ATCAAATTCGTATATT
258 ATCAAATTAATATATT
29198152 AATTATATT
1 AATTATATT
29198161 TATGTTCTCT
Statistics
Matches: 253, Mismatches: 20, Indels: 16
0.88 0.07 0.06
Matches are distributed among these distances:
266 17 0.07
267 125 0.49
268 5 0.02
271 1 0.00
272 1 0.00
273 1 0.00
275 1 0.00
276 88 0.35
277 14 0.06
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.46
Consensus pattern (273 bp):
AATTATATTATTTCCAAAAGAATATTAATTTCTATATCTTTTATATTTTGACCGAAAGTAATTAA
TATAAATGTTTATATTAATAAATTCGATAAAATATATACAATTAATATTGTATATCAAATTTACA
TATATTAATTATATTTTTCCAAAAGAATATTAATTTCCAGTTCTTTTATATTTTGACCAAAATTA
ATTAATATAACTGTTTATATCAATAAATTCAATAAAATATATAAAATTAATATTTTGTATGAATC
AAATTAATATATT
Found at i:29215099 original size:27 final size:27
Alignment explanation
Indices: 29215068--29215186 Score: 141
Period size: 27 Copynumber: 4.4 Consensus size: 27
29215058 CGAATGGGCT
* * *
29215068 TAAAATGATTGAAATACACTCGAAGGG
1 TAAAATGACTGAAATACCCCCGAAGGG
*
29215095 TAAAATGACCGAAATACCCCCGAAGGG
1 TAAAATGACTGAAATACCCCCGAAGGG
*** *
29215122 TAAAATGACTGAAATACCCTTAAAGTG
1 TAAAATGACTGAAATACCCCCGAAGGG
*
29215149 TAAAATGACTAAAATACCCCC-ATAGGG
1 TAAAATGACTGAAATACCCCCGA-AGGG
29215176 TAAAATGACTG
1 TAAAATGACTG
29215187 TTATGTATGA
Statistics
Matches: 77, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
26 1 0.01
27 76 0.99
ACGTcount: A:0.44, C:0.18, G:0.18, T:0.20
Consensus pattern (27 bp):
TAAAATGACTGAAATACCCCCGAAGGG
Found at i:29215152 original size:54 final size:54
Alignment explanation
Indices: 29215068--29215186 Score: 159
Period size: 54 Copynumber: 2.2 Consensus size: 54
29215058 CGAATGGGCT
* * *
29215068 TAAAATGATTGAAATACACTCGAAGGGTAAAATGACCGAAATACCCCCGA-AGGG
1 TAAAATGACTGAAATACACTCAAAGGGTAAAATGACCAAAATACCCCC-ATAGGG
* * * *
29215122 TAAAATGACTGAAATACCCTTAAAGTGTAAAATGACTAAAATACCCCCATAGGG
1 TAAAATGACTGAAATACACTCAAAGGGTAAAATGACCAAAATACCCCCATAGGG
29215176 TAAAATGACTG
1 TAAAATGACTG
29215187 TTATGTATGA
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
53 1 0.02
54 56 0.98
ACGTcount: A:0.44, C:0.18, G:0.18, T:0.20
Consensus pattern (54 bp):
TAAAATGACTGAAATACACTCAAAGGGTAAAATGACCAAAATACCCCCATAGGG
Found at i:29215366 original size:26 final size:26
Alignment explanation
Indices: 29215337--29215410 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
29215327 ATGCCACATA
*
29215337 TACTGTTACTGGCAGCTTTGTTCCGT
1 TACTGTTACTGGCAGCTTTGCTCCGT
* * *
29215363 TACTGATACTGGCAGCCTTGCTGCGT
1 TACTGTTACTGGCAGCTTTGCTCCGT
* * *
29215389 TATTATTACTTGCAGCTTTGCT
1 TACTGTTACTGGCAGCTTTGCT
29215411 GTGATATTGG
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.15, C:0.23, G:0.22, T:0.41
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTTTGCTCCGT
Found at i:29215418 original size:26 final size:26
Alignment explanation
Indices: 29215369--29215418 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
29215359 CCGTTACTGA
*
29215369 TACTGGCAGCCTTGCTGCGTTATTAT
1 TACTGGCAGCCTTGCTGCGATATTAT
* * *
29215395 TACTTGCAGCTTTGCTGTGATATT
1 TACTGGCAGCCTTGCTGCGATATT
29215419 GGTGTGTTGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.16, C:0.20, G:0.22, T:0.42
Consensus pattern (26 bp):
TACTGGCAGCCTTGCTGCGATATTAT
Found at i:29217022 original size:22 final size:22
Alignment explanation
Indices: 29216909--29217015 Score: 142
Period size: 22 Copynumber: 4.9 Consensus size: 22
29216899 TTTATTGTTC
*
29216909 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTT
29216931 AAACATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
**
29216953 AGCCATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
** * * *
29216975 AGCCATGAGGGTTTAGTTCGTT
1 AAACATGAGAGCTTAGTACGTT
29216997 AAACATGAGAGCTTAGTAC
1 AAACATGAGAGCTTAGTAC
29217016 CGTAAACTTA
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 74 1.00
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (22 bp):
AAACATGAGAGCTTAGTACGTT
Found at i:29226029 original size:24 final size:24
Alignment explanation
Indices: 29225997--29226042 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
29225987 TGGCATCACA
* * *
29225997 GATAGTCCGCTGGGACATTAATAG
1 GATAATCCGCTGAGACACTAATAG
29226021 GATAATCCGCTGAGACACTAAT
1 GATAATCCGCTGAGACACTAAT
29226043 CACAGATAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.24
Consensus pattern (24 bp):
GATAATCCGCTGAGACACTAATAG
Found at i:29228898 original size:27 final size:27
Alignment explanation
Indices: 29228867--29229256 Score: 398
Period size: 27 Copynumber: 14.4 Consensus size: 27
29228857 CCCCAAAATA
* *
29228867 GGTAAAATGACCAAAATACCCCTAAAG
1 GGTAAAATGACCGAAATACCCCTATAG
* **
29228894 GGTAAAATGA-CTATTTTACCCCTAATA-
1 GGTAAAATGACCGA-AATACCCCT-ATAG
* **
29228921 GATGAAAATGATTGAAATA-CCCTCATAG
1 GGT-AAAATGACCGAAATACCCCT-ATAG
* *
29228949 GGTAAAATGACTGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCTATAG
*
29228976 GGTAAAATGATCGAAATACCTCC-ATAG
1 GGTAAAATGACCGAAATACC-CCTATAG
* *
29229003 GGTAAAATGACTGAAATAGCCCC-ATAT
1 GGTAAAATGACCGAAATA-CCCCTATAG
* *
29229030 GGTAAAATCACCGAAATACCCTTATAG
1 GGTAAAATGACCGAAATACCCCTATAG
*
29229057 GGTAAAATGACCAAAATACTCCC-ATAG
1 GGTAAAATGACCGAAATAC-CCCTATAG
*
29229084 GGTAAAATGACTGAAATA-CCCTCATAG
1 GGTAAAATGACCGAAATACCCCT-ATAG
* *
29229111 GGTAAAATAACCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCTATAG
* *
29229138 GGTAAAATGACTGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCTATAG
* *
29229165 GGTAAAATGATCGAAATACCTCTATAG
1 GGTAAAATGACCGAAATACCCCTATAG
* *
29229192 GGTAAAATAACTGAAATACCCCTATAG
1 GGTAAAATGACCGAAATACCCCTATAG
* * * *
29229219 GGTGAAATGACCAAAATACCCCCACAG
1 GGTAAAATGACCGAAATACCCCTATAG
29229246 GGTAAAATGAC
1 GGTAAAATGAC
29229257 TGTTATGGCC
Statistics
Matches: 303, Mismatches: 47, Indels: 26
0.81 0.12 0.07
Matches are distributed among these distances:
25 3 0.01
26 5 0.02
27 269 0.89
28 25 0.08
29 1 0.00
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.21
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACCCCTATAG
Found at i:29229002 original size:54 final size:54
Alignment explanation
Indices: 29228925--29229258 Score: 449
Period size: 54 Copynumber: 6.2 Consensus size: 54
29228915 CTAATAGATG
* *
29228925 AAAATGATTGAAATACCCTCATAGGGTAAAATGACTGAAATACCCCCATAGGGT
1 AAAATGACTGAAATACCCTCATAGGGTAAAATGACCGAAATACCCCCATAGGGT
* * *
29228979 AAAATGA-TCGAAATA-CCTCCATAGGGTAAAATGACTGAAATAGCCCCATATGGT
1 AAAATGACT-GAAATACCCT-CATAGGGTAAAATGACCGAAATACCCCCATAGGGT
* * * * *
29229033 AAAATCACCGAAATACCCTTATAGGGTAAAATGACCAAAATACTCCCATAGGGT
1 AAAATGACTGAAATACCCTCATAGGGTAAAATGACCGAAATACCCCCATAGGGT
*
29229087 AAAATGACTGAAATACCCTCATAGGGTAAAATAACCGAAATACCCCCATAGGGT
1 AAAATGACTGAAATACCCTCATAGGGTAAAATGACCGAAATACCCCCATAGGGT
* * * *
29229141 AAAATGACTGAAATACCCCCATAGGGTAAAATGATCGAAATACCTCTATAGGGT
1 AAAATGACTGAAATACCCTCATAGGGTAAAATGACCGAAATACCCCCATAGGGT
* * * *
29229195 AAAATAACTGAAATACCC-CTATAGGGTGAAATGACCAAAATACCCCCACAGGGT
1 AAAATGACTGAAATACCCTC-ATAGGGTAAAATGACCGAAATACCCCCATAGGGT
29229249 AAAATGACTG
1 AAAATGACTG
29229259 TTATGGCCTT
Statistics
Matches: 246, Mismatches: 29, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
53 5 0.02
54 238 0.97
55 3 0.01
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.20
Consensus pattern (54 bp):
AAAATGACTGAAATACCCTCATAGGGTAAAATGACCGAAATACCCCCATAGGGT
Found at i:29229046 original size:81 final size:81
Alignment explanation
Indices: 29228867--29229258 Score: 468
Period size: 81 Copynumber: 4.8 Consensus size: 81
29228857 CCCCAAAATA
* * * * * *** * *
29228867 GGTAAAATGACCAAAATACCCCTAAAGGGTAAAATGACTATTTTACCCCTAATA-GATGAAAATG
1 GGTAAAATAACCGAAATACCCCCATAGGGTAAAATGACCAAAATACCCC-CATAGGGT-AAAATG
*
29228931 ATTGAAATACCCTCATAG
64 ACTGAAATACCCTCATAG
* * * * *
29228949 GGTAAAATGACTGAAATACCCCCATAGGGTAAAATGATCGAAATACCTCCATAGGGTAAAATGAC
1 GGTAAAATAACCGAAATACCCCCATAGGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGAC
*
29229014 TGAAATAGCCC-CATAT
66 TGAAATA-CCCTCATAG
* ** *
29229030 GGTAAAATCACCGAAATACCCTTATAGGGTAAAATGACCAAAATACTCCCATAGGGTAAAATGAC
1 GGTAAAATAACCGAAATACCCCCATAGGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGAC
29229095 TGAAATACCCTCATAG
66 TGAAATACCCTCATAG
**
29229111 GGTAAAATAACCGAAATACCCCCATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATGA-
1 GGTAAAATAACCGAAATACCCCCATAGGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGAC
29229175 TCGAAATA-CCTCTATAG
66 T-GAAATACCCTC-ATAG
* * * *
29229192 GGTAAAATAACTGAAATACCCCTATAGGGTGAAATGACCAAAATACCCCCACAGGGTAAAATGAC
1 GGTAAAATAACCGAAATACCCCCATAGGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGAC
29229257 TG
66 TG
29229259 TTATGGCCTT
Statistics
Matches: 268, Mismatches: 36, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
80 8 0.03
81 216 0.81
82 44 0.16
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.21
Consensus pattern (81 bp):
GGTAAAATAACCGAAATACCCCCATAGGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGAC
TGAAATACCCTCATAG
Found at i:29229494 original size:26 final size:26
Alignment explanation
Indices: 29229461--29229515 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
29229451 TTTGCCACAT
29229461 ATACTGTTACTGGCAGCTTTACTGCG
1 ATACTGTTACTGGCAGCTTTACTGCG
29229487 ATACTGTTACTGGCAGCTTTACTGCG
1 ATACTGTTACTGGCAGCTTTACTGCG
29229513 ATA
1 ATA
29229516 TTGGTGTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.35
Consensus pattern (26 bp):
ATACTGTTACTGGCAGCTTTACTGCG
Found at i:29229666 original size:28 final size:29
Alignment explanation
Indices: 29229622--29229733 Score: 97
Period size: 28 Copynumber: 4.0 Consensus size: 29
29229612 CACTGCATTG
*
29229622 TTACTGTATTGGGCTAAGACCCACACTGA
1 TTACTATATTGGGCTAAGACCCACACTGA
* *
29229651 TT-CTATTTTGGGCTAAGGCCCACACTG-
1 TTACTATATTGGGCTAAGACCCACACTGA
* *
29229678 TTATTATATTGGGCTAA-AGCCCACATTGA
1 TTACTATATTGGGCTAAGA-CCCACACTGA
* * * * *
29229707 -TACTGTATTAGGATAAGGCCTACACTG
1 TTACTATATTGGGCTAAGACCCACACTG
29229734 TACTGTCACT
Statistics
Matches: 65, Mismatches: 14, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
27 2 0.03
28 61 0.94
29 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (29 bp):
TTACTATATTGGGCTAAGACCCACACTGA
Found at i:29229724 original size:56 final size:56
Alignment explanation
Indices: 29229628--29229734 Score: 135
Period size: 56 Copynumber: 1.9 Consensus size: 56
29229618 ATTGTTACTG
* * * *
29229628 TATTGGGCTAAGACCCACACTGATTCTATTTTGGGCTAAGGCCCACACTGTTATTA
1 TATTGGGCTAAGACCCACACTGATACTATATTAGGATAAGGCCCACACTGTTATTA
* * *
29229684 TATTGGGCTAA-AGCCCACATTGATACTGTATTAGGATAAGGCCTACACTGT
1 TATTGGGCTAAGA-CCCACACTGATACTATATTAGGATAAGGCCCACACTGT
29229735 ACTGTCACTG
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
55 1 0.02
56 42 0.98
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (56 bp):
TATTGGGCTAAGACCCACACTGATACTATATTAGGATAAGGCCCACACTGTTATTA
Found at i:29231043 original size:16 final size:15
Alignment explanation
Indices: 29231018--29231047 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
29231008 ATTAAATTAA
29231018 TTAACTAAATGCAAG
1 TTAACTAAATGCAAG
29231033 TTAATCTAAATGCAA
1 TTAA-CTAAATGCAA
29231048 ATGAAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.47, C:0.13, G:0.10, T:0.30
Consensus pattern (15 bp):
TTAACTAAATGCAAG
Found at i:29233581 original size:50 final size:49
Alignment explanation
Indices: 29233510--29233605 Score: 124
Period size: 50 Copynumber: 1.9 Consensus size: 49
29233500 AGCTGTCAAA
* **
29233510 ACAGAATATTGTGGATGAGCCA-CTAGATAATTGTAGATATACTACCAAGT
1 ACAGAATATTGTGGATAAGCCATC-AGA-AATTACAGATATACTACCAAGT
29233560 ACAGAATATTGTGG-TCAAGCCATCAGAAATTACAGATATACTACCA
1 ACAGAATATTGTGGAT-AAGCCATCAGAAATTACAGATATACTACCA
29233606 GATACTTCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
49 18 0.44
50 22 0.54
51 1 0.02
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.26
Consensus pattern (49 bp):
ACAGAATATTGTGGATAAGCCATCAGAAATTACAGATATACTACCAAGT
Found at i:29233752 original size:46 final size:46
Alignment explanation
Indices: 29233685--29233782 Score: 160
Period size: 46 Copynumber: 2.1 Consensus size: 46
29233675 CTTTATATGT
*
29233685 GAATCATATTTATTTTTGGTTTAACACAGTGCCATACTTAACATGC
1 GAATCATATTTATTTTTGGTTTAACAAAGTGCCATACTTAACATGC
* * *
29233731 GAATCATCTTTATTTTTGGTTTAACAAAGTGGCATACTTAATATGC
1 GAATCATATTTATTTTTGGTTTAACAAAGTGCCATACTTAACATGC
29233777 GAATCA
1 GAATCA
29233783 GAATCAGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (46 bp):
GAATCATATTTATTTTTGGTTTAACAAAGTGCCATACTTAACATGC
Found at i:29237873 original size:22 final size:21
Alignment explanation
Indices: 29237844--29237896 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 21
29237834 CATAATACAT
29237844 TATT-TTTTAAAATTATTATCAA
1 TATTGTTTTAAAA-T-TTATCAA
29237866 TA-TGTTTT-AAATTTATCAA
1 TATTGTTTTAAAATTTATCAA
29237885 TATTGTTTTAAA
1 TATTGTTTTAAA
29237897 TATATATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
19 9 0.32
20 7 0.25
21 6 0.21
22 6 0.21
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.55
Consensus pattern (21 bp):
TATTGTTTTAAAATTTATCAA
Found at i:29237883 original size:19 final size:20
Alignment explanation
Indices: 29237859--29237897 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
29237849 TTTAAAATTA
29237859 TTATCAATA-TGTTTTAAAT
1 TTATCAATATTGTTTTAAAT
29237878 TTATCAATATTGTTTTAAAT
1 TTATCAATATTGTTTTAAAT
29237898 ATATATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.54
Consensus pattern (20 bp):
TTATCAATATTGTTTTAAAT
Found at i:29248971 original size:3 final size:3
Alignment explanation
Indices: 29248963--29249009 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
29248953 TTGATTCCTA
29248963 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
29249010 AGAAAAGACC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:29250474 original size:23 final size:23
Alignment explanation
Indices: 29250443--29250486 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
29250433 TTTAGGTATG
29250443 GAACTATAGGCATGTGATGTATTC
1 GAACTATAGGCATGT-ATGTATTC
*
29250467 GAAC-ATAGGTATGTATGTAT
1 GAACTATAGGCATGTATGTAT
29250487 GTCAATAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 9 0.47
24 4 0.21
ACGTcount: A:0.32, C:0.09, G:0.25, T:0.34
Consensus pattern (23 bp):
GAACTATAGGCATGTATGTATTC
Found at i:29251211 original size:41 final size:41
Alignment explanation
Indices: 29251154--29251254 Score: 184
Period size: 41 Copynumber: 2.5 Consensus size: 41
29251144 GACTATACGT
*
29251154 CTAGCAGGCTAAGTGCCGGTGATTTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
29251195 CTAGCAGGCTAAGTGCCGATGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
29251236 CTAGCAGGCTAAGTGCCGG
1 CTAGCAGGCTAAGTGCCGG
29251255 AATCAGGCCA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 57 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:29251273 original size:34 final size:34
Alignment explanation
Indices: 29251220--29251288 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
29251210 CCGATGATCT
**
29251220 GAATCAGGTTATAAACCTAGCAGGCTAAGTGCCG
1 GAATCAGGCCATAAACCTAGCAGGCTAAGTGCCG
*
29251254 GAATCAGGCCATAAGCCTAGCAGGCTAAGTGCCG
1 GAATCAGGCCATAAACCTAGCAGGCTAAGTGCCG
29251288 G
1 G
29251289 TGAATCTGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.30, C:0.23, G:0.29, T:0.17
Consensus pattern (34 bp):
GAATCAGGCCATAAACCTAGCAGGCTAAGTGCCG
Found at i:29253454 original size:44 final size:44
Alignment explanation
Indices: 29253406--29254005 Score: 298
Period size: 44 Copynumber: 13.8 Consensus size: 44
29253396 AAAGAAGCAA
* **
29253406 ATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGATGGCAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTACAG
* * * * *
29253450 ATCTTATCTCCCTAAGTAGTAGTGGATG--GAT-TAAAATAAAAG
1 ATCTTATCTCCCTAAGCAGTAGTGGA-GCAGATCGAAGATTACAG
* *** * * * *
29253492 ATCTTATCTCTCTGAATTTGCAGTAGAGTAGATCG--CA-T-CAG
1 ATCTTATCTCCCT-AAGCAGTAGTGGAGCAGATCGAAGATTACAG
* * * ** * * *
29253533 GTCTTATCTCCTTGAGGTTGCAGCGGAGCAGACCGAAGA--AGCAG
1 ATCTTATCTCCCT-AAGCAGTAGTGGAGCAGATCGAAGATTA-CAG
* * * *
29253577 ATCTTATCTCCCTAAGCAGTAGTTGTGCAGATCAAAG-TCTCCAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAT-TACAG
* * * * * * *
29253621 -CCTTGTCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATTACAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTACAG
* * **
29253664 ATATTATCTCCCTAAGCAGTAGTGGAGCGGATCGAAGATGGCA-
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTACAG
* * * * * * **
29253707 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAG
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTACAG
* * * * * *
29253752 ACCTTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATTACAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTACAG
**
29253796 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG-TCCCCAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAT-TACAG
* * * * * * * *
29253840 -CCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTACAG
* * **
29253883 ATCTTATCTCCCTAAGAAGTAGTGGAGCATATCGAAG-TCCCCAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAT-TACAG
* * ** * * * * * * *
29253927 -CCATGCCTCTCTGAGCAGCAGTGGAGTA-AGTTGAAAATTACAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-TCGAAGATTACAG
29253970 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAA
29254006 CACCCAAGTC
Statistics
Matches: 405, Mismatches: 127, Indels: 48
0.70 0.22 0.08
Matches are distributed among these distances:
41 28 0.07
42 20 0.05
43 118 0.29
44 236 0.58
45 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTACAG
Found at i:29253520 original size:171 final size:172
Alignment explanation
Indices: 29253234--29253609 Score: 585
Period size: 171 Copynumber: 2.2 Consensus size: 172
29253224 GAAATTACAG
* * * * * *
29253234 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGCCAGTAATCCTATCTCTCTGAAGTTGCA
1 ATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACAGCAATCCTATCTCCCTGAAGTAGCA
29253299 GTGGAGTGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGT
66 GTGGAGTGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGT
29253364 CTTATCTCCCTGAGGTTGCAGCGGAGCAGACCAAAGAAGCAA
131 CTTATCTCCCTGAGGTTGCAGCGGAGCAGACCAAAGAAGCAA
** * *
29253406 ATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGATGGCAGATCTTATCTCCCT-AAGTAGT
1 ATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACAGCA-ATCCTATCTCCCTGAAGTAGC
*
29253470 AGTGGA-TGGATTAAAATAAAAGATCTTATCTCTCTGAATTTGCAGTAGAGTAGATCGCATCAGG
65 AGTGGAGTGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGG
* * *
29253534 TCTTATCTCCTTGAGGTTGCAGCGGAGCAGACCGAAGAAGCAG
130 TCTTATCTCCCTGAGGTTGCAGCGGAGCAGACCAAAGAAGCAA
* *
29253577 ATCTTATCTCCCTAAGCAGTAGTTGTGCAGATC
1 ATCTTATCTCCCTAAGCAGTAGTAGAGCAGATC
29253610 AAAGTCTCCA
Statistics
Matches: 187, Mismatches: 16, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
171 128 0.68
172 48 0.26
173 11 0.06
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (172 bp):
ATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACAGCAATCCTATCTCCCTGAAGTAGCA
GTGGAGTGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGT
CTTATCTCCCTGAGGTTGCAGCGGAGCAGACCAAAGAAGCAA
Found at i:29253776 original size:132 final size:131
Alignment explanation
Indices: 29253621--29253909 Score: 452
Period size: 132 Copynumber: 2.2 Consensus size: 131
29253611 AAGTCTCCAG
*
29253621 CCTTGTCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATTACAGATATTATCTCCCTAAGCAGTAG
1 CCTTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATTACAGATATTATCTCCCTAAGCAGTAG
* ** * **
29253686 TGGAGCGGATCGAAGATGGCAAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTA
66 TGGAGCAGATCGAAG-TCCCAAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACA
29253751 GA
130 GA
*
29253753 CCTTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAG
1 CCTTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATTACAGATATTATCTCCCTAAGCAGTAG
* *
29253818 TGGAGCAGATCGAAGTCCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAG
66 TGGAGCAGATCGAAGTCCCAAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAG
29253883 A
131 A
* * *
29253884 TCTTATCTCCCTAAGAAGTAGTGGAG
1 CCTTATCTCCCTGAGCAGTAGTGGAG
29253910 CATATCGAAG
Statistics
Matches: 144, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
131 67 0.47
132 77 0.53
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (131 bp):
CCTTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATTACAGATATTATCTCCCTAAGCAGTAG
TGGAGCAGATCGAAGTCCCAAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAG
A
Done.