Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 ID=Chr12-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: 35429946
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 509281 characters in sequence are not A, C, G, or T
File 80 of 120
Found at i:24014245 original size:6 final size:6
Alignment explanation
Indices: 24014234--24014260 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
24014224 TAAATAAATA
24014234 TTTAAT TTTAAT TTTAAT TTTAAT TTT
1 TTTAAT TTTAAT TTTAAT TTTAAT TTT
24014261 TTTATGACTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTAAT
Found at i:24024848 original size:15 final size:16
Alignment explanation
Indices: 24024820--24024853 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
24024810 TTAAATTATT
24024820 TTAAAAAAATTTAAAA
1 TTAAAAAAATTTAAAA
*
24024836 TTAAAAACA-TTAAAA
1 TTAAAAAAATTTAAAA
24024851 TTA
1 TTA
24024854 GTAAAAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (16 bp):
TTAAAAAAATTTAAAA
Found at i:24024877 original size:17 final size:18
Alignment explanation
Indices: 24024837--24024877 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
24024827 AATTTAAAAT
24024837 TAAAAACATTAAAATTAG
1 TAAAAACATTAAAATTAG
24024855 TAAAAACA-TAGAAATTA-
1 TAAAAACATTA-AAATTAG
24024872 TAAAAA
1 TAAAAA
24024878 TATATTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24
Consensus pattern (18 bp):
TAAAAACATTAAAATTAG
Found at i:24025293 original size:27 final size:26
Alignment explanation
Indices: 24025257--24025323 Score: 84
Period size: 26 Copynumber: 2.6 Consensus size: 26
24025247 AAAATAAAAA
*
24025257 TTACCAAAATGT-TATACTATTTTTTAT
1 TTACCAAAATATATATA--ATTTTTTAT
*
24025284 TTACTAAAATATATATAATTTTTTAT
1 TTACCAAAATATATATAATTTTTTAT
24025310 TTACC-AAATATATA
1 TTACCAAAATATATA
24025324 CAAAAACCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
25 9 0.25
26 13 0.36
27 10 0.28
28 4 0.11
ACGTcount: A:0.40, C:0.09, G:0.01, T:0.49
Consensus pattern (26 bp):
TTACCAAAATATATATAATTTTTTAT
Found at i:24025351 original size:15 final size:16
Alignment explanation
Indices: 24025332--24025368 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
24025322 TACAAAAACC
24025332 AAAAACACAA-AAAAA
1 AAAAACACAAGAAAAA
24025347 TAAAAA-ACAAGAAAAA
1 -AAAAACACAAGAAAAA
24025363 AAAAAC
1 AAAAAC
24025369 TAGGAACTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.84, C:0.11, G:0.03, T:0.03
Consensus pattern (16 bp):
AAAAACACAAGAAAAA
Found at i:24025439 original size:27 final size:27
Alignment explanation
Indices: 24025399--24025458 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
24025389 TTCCCTGGGT
24025399 CAAGGGAACACTGTTGGCGGCACCAAA
1 CAAGGGAACACTGTTGGCGGCACCAAA
* *
24025426 GAAGGGAACCCTGTTGGCGGCACCAAA
1 CAAGGGAACACTGTTGGCGGCACCAAA
24025453 CAAGGG
1 CAAGGG
24025459 NNNNNNNNNN
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.32, C:0.25, G:0.33, T:0.10
Consensus pattern (27 bp):
CAAGGGAACACTGTTGGCGGCACCAAA
Found at i:24030779 original size:27 final size:27
Alignment explanation
Indices: 24030741--24030808 Score: 118
Period size: 27 Copynumber: 2.5 Consensus size: 27
24030731 ATATTTAAGG
24030741 TGGTGCCGCCAACAAGGAATCCTTGTT
1 TGGTGCCGCCAACAAGGAATCCTTGTT
**
24030768 TGGTGCCGCCAACAAGGTTTCCTTGTT
1 TGGTGCCGCCAACAAGGAATCCTTGTT
24030795 TGGTGCCGCCAACA
1 TGGTGCCGCCAACA
24030809 GTGTTCCCTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.19, C:0.28, G:0.26, T:0.26
Consensus pattern (27 bp):
TGGTGCCGCCAACAAGGAATCCTTGTT
Found at i:24030818 original size:27 final size:27
Alignment explanation
Indices: 24030741--24030819 Score: 108
Period size: 27 Copynumber: 2.9 Consensus size: 27
24030731 ATATTTAAGG
*
24030741 TGGTGCCGCCAACAAGGAAT-CCTTGTT
1 TGGTGCCGCCAACAAGG-TTCCCTTGTT
*
24030768 TGGTGCCGCCAACAAGGTTTCCTTGTT
1 TGGTGCCGCCAACAAGGTTCCCTTGTT
24030795 TGGTGCCGCCAAC-AGTGTTCCCTTG
1 TGGTGCCGCCAACAAG-GTTCCCTTG
24030820 ACCAAGGGAA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
26 3 0.06
27 45 0.94
ACGTcount: A:0.16, C:0.28, G:0.27, T:0.29
Consensus pattern (27 bp):
TGGTGCCGCCAACAAGGTTCCCTTGTT
Found at i:24030905 original size:27 final size:28
Alignment explanation
Indices: 24030875--24030943 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
24030865 TGGGTTTTTT
24030875 TATATATTTTGGTAAATAAAAAAAT-TA
1 TATATATTTTGGTAAATAAAAAAATGTA
*
24030902 TATATTTTTTGGTAAATAAAAAAATGTA
1 TATATATTTTGGTAAATAAAAAAATGTA
*
24030930 TA-ACATTTTGGTAA
1 TATATATTTTGGTAA
24030944 TTTTTTATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 34 0.89
28 4 0.11
ACGTcount: A:0.46, C:0.01, G:0.10, T:0.42
Consensus pattern (28 bp):
TATATATTTTGGTAAATAAAAAAATGTA
Found at i:24031336 original size:42 final size:42
Alignment explanation
Indices: 24031288--24031435 Score: 207
Period size: 41 Copynumber: 3.6 Consensus size: 42
24031278 AATATATTGA
* *
24031288 TTTTTTAAAATTTTAAAATATTTTTTACATACTTTTTTTAAT
1 TTTTTTAAAATTTTAAAATATTTTTAAAATACTTTTTTTAAT
* *
24031330 TTTTTTAAAATTTTAAAATATTTTTAATATAC-TTTTTTAAA
1 TTTTTTAAAATTTTAAAATATTTTTAAAATACTTTTTTTAAT
24031371 TTTTTTAAAA-TTTAAAATATTTTTAAAATA-TATTTTTTAAT
1 TTTTTTAAAATTTTAAAATATTTTTAAAATACT-TTTTTTAAT
24031412 TTTTTT--AATTTTAAAATACTTTTT
1 TTTTTTAAAATTTTAAAATA-TTTTT
24031436 TTAATTTTTT
Statistics
Matches: 97, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
39 2 0.02
40 28 0.29
41 37 0.38
42 30 0.31
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (42 bp):
TTTTTTAAAATTTTAAAATATTTTTAAAATACTTTTTTTAAT
Found at i:24031390 original size:31 final size:32
Alignment explanation
Indices: 24031330--24031390 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
24031320 TTTTTTTAAT
**
24031330 TTTTTTAAAATTTTAAAATATTTTTAATATAC
1 TTTTTTAAAATTTTAAAATATTTAAAATATAC
* *
24031362 TTTTTTAAATTTTTTAAA-ATTTAAAATAT
1 TTTTTTAAAATTTTAAAATATTTAAAATAT
24031391 TTTTAAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 9 0.36
32 16 0.64
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (32 bp):
TTTTTTAAAATTTTAAAATATTTAAAATATAC
Found at i:24031428 original size:29 final size:30
Alignment explanation
Indices: 24031391--24031460 Score: 99
Period size: 29 Copynumber: 2.3 Consensus size: 30
24031381 TTTAAAATAT
*
24031391 TTTTAAAATA-TATTTTTTAATTTTTT-TAA
1 TTTTAAAATACT-TTTTTTAATTTTTTAAAA
24031420 TTTTAAAATACTTTTTTTAATTTTTTAAAAA
1 TTTTAAAATACTTTTTTTAATTTTTT-AAAA
24031451 TTTTAAAATA
1 TTTTAAAATA
24031461 AAAATGGGCC
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
29 24 0.65
30 1 0.03
31 12 0.32
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (30 bp):
TTTTAAAATACTTTTTTTAATTTTTTAAAA
Found at i:24031436 original size:42 final size:39
Alignment explanation
Indices: 24031287--24031435 Score: 176
Period size: 40 Copynumber: 3.6 Consensus size: 39
24031277 AAATATATTG
*
24031287 ATTTTTTAAAATTTTAAAATATTTTTTACATACT-TTTTTTA
1 ATTTTTT-AAATTTTAAAATA-TTTTTAAATA-TATTTTTTA
24031328 ATTTTTTTAAAATTTTAAAATATTTTT-AATATACTTTTTTAA
1 A-TTTTTT-AAATTTTAAAATATTTTTAAATATA-TTTTTT-A
*
24031370 ATTTTTTAAAATTTAAAATATTTTTAAAATATATTTTTTA
1 ATTTTTTAAATTTTAAAATATTTTT-AAATATATTTTTTA
*
24031410 ATTTTTTTAATTTTAAAATACTTTTT
1 ATTTTTTAAATTTTAAAATA-TTTTT
24031436 TTAATTTTTT
Statistics
Matches: 97, Mismatches: 4, Indels: 14
0.84 0.03 0.12
Matches are distributed among these distances:
39 1 0.01
40 39 0.40
41 29 0.30
42 28 0.29
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (39 bp):
ATTTTTTAAATTTTAAAATATTTTTAAATATATTTTTTA
Found at i:24031454 original size:20 final size:18
Alignment explanation
Indices: 24031409--24031454 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 18
24031399 TATATTTTTT
24031409 AATTTTTTTAATTTTAAA
1 AATTTTTTTAATTTTAAA
24031427 ATACTTTTTTTAATTTTTTAAA
1 A-A-TTTTTTTAA--TTTTAAA
24031449 AATTTT
1 AATTTT
24031455 AAAATAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
18 1 0.04
19 1 0.04
20 13 0.54
21 1 0.04
22 8 0.33
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (18 bp):
AATTTTTTTAATTTTAAA
Found at i:24032976 original size:17 final size:16
Alignment explanation
Indices: 24032943--24032983 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
24032933 AAAATGACCC
*
24032943 AAAAATAAATAATTAT
1 AAAAATAAATAAGTAT
*
24032959 AAAAATAACTCAAGTAT
1 AAAAATAAAT-AAGTAT
24032976 AAAAATAA
1 AAAAATAA
24032984 TTATTTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.24
Consensus pattern (16 bp):
AAAAATAAATAAGTAT
Found at i:24033142 original size:90 final size:91
Alignment explanation
Indices: 24033042--24033211 Score: 216
Period size: 90 Copynumber: 1.9 Consensus size: 91
24033032 GGCAGGTATA
* * * * *** *
24033042 ACCTTAATTTTTGACCAAATTATTACCTTATAATTGTGTCAAGTTTAAAATTTTTAATTTTTTGG
1 ACCTTAATTTTTGACCAAATAATCACCTAATAATTGTGTCAAGCTTAAAAAAATTAAATTTTTGG
24033107 GTT-GGGGGACTTAACGGCCGACACC
66 GTTGGGGGGACTTAACGGCCGACACC
* * * * *
24033132 ACCTTGATTTTTGACCCAATAATCATCTAATGATTGTGTCAGGCTTAAAAAAATTAAATTTTTGG
1 ACCTTAATTTTTGACCAAATAATCACCTAATAATTGTGTCAAGCTTAAAAAAATTAAATTTTTGG
24033197 GTTGGGGGGACTTAA
66 GTTGGGGGGACTTAA
24033212 GGCTATTAGA
Statistics
Matches: 66, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
90 55 0.83
91 11 0.17
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.38
Consensus pattern (91 bp):
ACCTTAATTTTTGACCAAATAATCACCTAATAATTGTGTCAAGCTTAAAAAAATTAAATTTTTGG
GTTGGGGGGACTTAACGGCCGACACC
Found at i:24035508 original size:42 final size:42
Alignment explanation
Indices: 24035421--24035575 Score: 168
Period size: 42 Copynumber: 3.7 Consensus size: 42
24035411 TTGTGTTTAC
* * * * * * *
24035421 TTTCTGTTTAGCTCTCACGAACTTCTGTTTAACTCATATGAG
1 TTTCTGTTCAGCTCTTATGAGCTTCTGTTTAACCCTTATGGG
*
24035463 TTTCCGTTCAGCT-TTATTGAGCTTCTGTTTAACCCTTATGGG
1 TTTCTGTTCAGCTCTTA-TGAGCTTCTGTTTAACCCTTATGGG
* * * *
24035505 TTTCTGTTCAACTCTTACGAGCTTCCGTTCAACCCTTATGGG
1 TTTCTGTTCAGCTCTTATGAGCTTCTGTTTAACCCTTATGGG
* *
24035547 TTTCTGTTTAGCTCTCATGAGCTTCTGTT
1 TTTCTGTTCAGCTCTTATGAGCTTCTGTT
24035576 CAGCCTTTGA
Statistics
Matches: 93, Mismatches: 18, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
41 2 0.02
42 88 0.95
43 3 0.03
ACGTcount: A:0.16, C:0.23, G:0.17, T:0.44
Consensus pattern (42 bp):
TTTCTGTTCAGCTCTTATGAGCTTCTGTTTAACCCTTATGGG
Found at i:24035573 original size:63 final size:63
Alignment explanation
Indices: 24035421--24035577 Score: 163
Period size: 63 Copynumber: 2.5 Consensus size: 63
24035411 TTGTGTTTAC
* * * * * * *
24035421 TTTCTGTTTAGCTCTCACGAACTTCTGTTTAACTCATATGAGTTTCCGTTCAGCTTTATTGAG
1 TTTCTGTTTAGCTCTCATGAGCTTCTGTTCAACTCATACGAGCTTCCGTTCACCCTTATTGAG
* * * * * * * *
24035484 CTTCTGTTTAACCCTTATGGGTTTCTGTTCAACTCTTACGAGCTTCCGTTCAACCCTTA-TGGG
1 TTTCTGTTTAGCTCTCATGAGCTTCTGTTCAACTCATACGAGCTTCCGTTC-ACCCTTATTGAG
24035547 TTTCTGTTTAGCTCTCATGAGCTTCTGTTCA
1 TTTCTGTTTAGCTCTCATGAGCTTCTGTTCA
24035578 GCCTTTGAGC
Statistics
Matches: 72, Mismatches: 21, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
63 67 0.93
64 5 0.07
ACGTcount: A:0.17, C:0.24, G:0.17, T:0.43
Consensus pattern (63 bp):
TTTCTGTTTAGCTCTCATGAGCTTCTGTTCAACTCATACGAGCTTCCGTTCACCCTTATTGAG
Found at i:24035574 original size:21 final size:21
Alignment explanation
Indices: 24035442--24035592 Score: 110
Period size: 21 Copynumber: 7.3 Consensus size: 21
24035432 CTCTCACGAA
* *
24035442 CTTCTGTTTAACTCATATGAG
1 CTTCTGTTCAACTCTTATGAG
* * *
24035463 TTTCCGTTCAGCT-TTATTGAG
1 CTTCTGTTCAACTCTTA-TGAG
* * *
24035484 CTTCTGTTTAACCCTTATGGG
1 CTTCTGTTCAACTCTTATGAG
* *
24035505 TTTCTGTTCAACTCTTACGAG
1 CTTCTGTTCAACTCTTATGAG
* * *
24035526 CTTCCGTTCAACCCTTATGGG
1 CTTCTGTTCAACTCTTATGAG
* * * *
24035547 TTTCTGTTTAGCTCTCATGAG
1 CTTCTGTTCAACTCTTATGAG
*
24035568 CTTCTGTTCAGC-CTT-TGAG
1 CTTCTGTTCAACTCTTATGAG
24035587 CTTCTG
1 CTTCTG
24035593 ATAACGATAT
Statistics
Matches: 97, Mismatches: 31, Indels: 6
0.72 0.23 0.04
Matches are distributed among these distances:
19 10 0.10
20 4 0.04
21 80 0.82
22 3 0.03
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.43
Consensus pattern (21 bp):
CTTCTGTTCAACTCTTATGAG
Found at i:24042445 original size:42 final size:42
Alignment explanation
Indices: 24042339--24042495 Score: 145
Period size: 42 Copynumber: 3.7 Consensus size: 42
24042329 TCGTGTTTAC
* * * * * *
24042339 TTTCCATTTATCTCTCACGAGCTTCTGTTTAACTCATATGAA
1 TTTCCGTTTAGCTCTCACGAGCTTCTGTTCAACCCTTATGAG
* * * * * *
24042381 TTTCCGTTCAACTCT-ATTGAGCTTCTGTTTAACCTTTATGGG
1 TTTCCGTTTAGCTCTCA-CGAGCTTCTGTTCAACCCTTATGAG
* * *
24042423 TTTCCGTTTAGTTCTTACGAGCTTCCGTTCAACCCTTATGAG
1 TTTCCGTTTAGCTCTCACGAGCTTCTGTTCAACCCTTATGAG
* *
24042465 TTTCTGTTTAGCTCTCATGAGCTTCTGTTCA
1 TTTCCGTTTAGCTCTCACGAGCTTCTGTTCA
24042496 GCCTTCGGGC
Statistics
Matches: 91, Mismatches: 22, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
41 1 0.01
42 89 0.98
43 1 0.01
ACGTcount: A:0.18, C:0.24, G:0.15, T:0.44
Consensus pattern (42 bp):
TTTCCGTTTAGCTCTCACGAGCTTCTGTTCAACCCTTATGAG
Found at i:24045038 original size:94 final size:94
Alignment explanation
Indices: 24044868--24045039 Score: 276
Period size: 94 Copynumber: 1.8 Consensus size: 94
24044858 TCATGATTAT
**
24044868 TGTAAAATAAATGTTTTAAATAAATAAATTATTAAGTTATTATATAGTGTAAAGTAAAATAATTT
1 TGTAAAATAAATAATTTAAATAAATAAATTATTAAGTTATTATATAGTGTAAAGTAAAATAATTT
*
24044933 AATAATTAAATTATTAAGATATTATATAG
66 AATAATAAAATTATTAAGATATTATATAG
*
24044962 TGTAAAATAAAATAATTT-AATAAATAAATTGTTAAGTTATTATATAGTGTAAAGTAAAATAATT
1 TGTAAAAT-AAATAATTTAAATAAATAAATTATTAAGTTATTATATAGTGTAAAGTAAAATAATT
24045026 TAAATAA-AAAATTA
65 T-AATAATAAAATTA
24045040 ATACATTTAA
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
94 60 0.83
95 12 0.17
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (94 bp):
TGTAAAATAAATAATTTAAATAAATAAATTATTAAGTTATTATATAGTGTAAAGTAAAATAATTT
AATAATAAAATTATTAAGATATTATATAG
Found at i:24045047 original size:21 final size:21
Alignment explanation
Indices: 24045019--24045075 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 21
24045009 TGTAAAGTAA
24045019 AATAATTTAAATA-AAAAATT
1 AATAATTTAAATATAAAAATT
24045039 AATACATTTAAATATAAAAA--
1 AATA-ATTTAAATATAAAAATT
24045059 AATATTATTTAAATATA
1 AATA--ATTTAAATATA
24045076 CATTTAAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
20 8 0.24
21 20 0.61
22 5 0.15
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
AATAATTTAAATATAAAAATT
Found at i:24045054 original size:47 final size:47
Alignment explanation
Indices: 24044886--24045039 Score: 256
Period size: 47 Copynumber: 3.3 Consensus size: 47
24044876 AAATGTTTTA
24044886 AATAAATAAATTATTAAGTTATTATATAGTGTAAAGTAAAATAATTT
1 AATAAATAAATTATTAAGTTATTATATAGTGTAAAGTAAAATAATTT
* * *
24044933 AATAATTAAATTATTAAGATATTATATAGTGTAAAATAAAATAATTT
1 AATAAATAAATTATTAAGTTATTATATAGTGTAAAGTAAAATAATTT
*
24044980 AATAAATAAATTGTTAAGTTATTATATAGTGTAAAGTAAAATAATTT
1 AATAAATAAATTATTAAGTTATTATATAGTGTAAAGTAAAATAATTT
24045027 AAATAAA-AAATTA
1 -AATAAATAAATTA
24045040 ATACATTTAA
Statistics
Matches: 98, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
47 92 0.94
48 6 0.06
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (47 bp):
AATAAATAAATTATTAAGTTATTATATAGTGTAAAGTAAAATAATTT
Found at i:24045084 original size:94 final size:92
Alignment explanation
Indices: 24044886--24045070 Score: 245
Period size: 94 Copynumber: 2.0 Consensus size: 92
24044876 AAATGTTTTA
24044886 AATAAATAAATTATTAAGTTATTATATAGTGTAAAGTAAAATAATTTAATAATTAAATTATTAAG
1 AATAAATAAATTATTAAGTTATTATATAGTGTAAAGTAAAATAATTTAATAA-TAAA-TATTAAG
* * *
24044951 ATATTATATAGTGTAAAATAAAATAATTT
64 ACATTATATAATATAAAATAAAATAATTT
* *
24044980 AATAAATAAATTGTTAAGTTATTATATAGTGTAAAGTAAAATAATTTAAATAA-AAA-ATTAATA
1 AATAAATAAATTATTAAGTTATTATATAGTGTAAAGTAAAATAATTT-AATAATAAATATTAAGA
*
24045043 CATT-TA-AATATAAAA-AAATATTATTT
65 CATTATATAATATAAAATAAA-ATAATTT
24045069 AA
1 AA
24045071 ATATACATTT
Statistics
Matches: 83, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
88 3 0.04
89 15 0.18
90 2 0.02
91 9 0.11
93 3 0.04
94 46 0.55
95 5 0.06
ACGTcount: A:0.54, C:0.01, G:0.06, T:0.39
Consensus pattern (92 bp):
AATAAATAAATTATTAAGTTATTATATAGTGTAAAGTAAAATAATTTAATAATAAATATTAAGAC
ATTATATAATATAAAATAAAATAATTT
Found at i:24045189 original size:24 final size:23
Alignment explanation
Indices: 24045157--24045218 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 23
24045147 TTATATACAG
24045157 TAAAGTAAATAAATTATTCAATTA
1 TAAAGTAAATAAATTATTC-ATTA
*
24045181 TAAAGTAAATAAATTATTCATTT
1 TAAAGTAAATAAATTATTCATTA
24045204 TAAAGATTAAATAAA
1 TAAAG--TAAATAAA
24045219 AAACTAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
23 8 0.23
24 19 0.54
25 8 0.23
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (23 bp):
TAAAGTAAATAAATTATTCATTA
Found at i:24047256 original size:21 final size:22
Alignment explanation
Indices: 24047215--24047256 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
24047205 AAAACTAATT
*
24047215 TACGAAAATATTTATAATTTATA
1 TACGAAAATA-TTAAAATTTATA
24047238 TACGAAAATA-TAAAATTTA
1 TACGAAAATATTAAAATTTA
24047257 ACCAACAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
23 10 0.56
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (22 bp):
TACGAAAATATTAAAATTTATA
Found at i:24048237 original size:30 final size:30
Alignment explanation
Indices: 24048196--24048258 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
24048186 ACTTATTTTA
24048196 TTGTAAATTTTGTTATTATTTTAAAGACAT
1 TTGTAAATTTTGTTATTATTTTAAAGACAT
* * *
24048226 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTAAATTTTGTTATTATTTTAAAGACAT
24048256 TTG
1 TTG
24048259 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.03, G:0.14, T:0.56
Consensus pattern (30 bp):
TTGTAAATTTTGTTATTATTTTAAAGACAT
Found at i:24052427 original size:27 final size:27
Alignment explanation
Indices: 24052387--24052442 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
24052377 ATCACTAACT
* *
24052387 AATACTAATGTAATATTAATAGAATAG
1 AATACTAATCTAATACTAATAGAATAG
24052414 AATACTAATCTAATACTAATAGAATAG
1 AATACTAATCTAATACTAATAGAATAG
24052441 AA
1 AA
24052443 AAATAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.54, C:0.07, G:0.09, T:0.30
Consensus pattern (27 bp):
AATACTAATCTAATACTAATAGAATAG
Found at i:24052961 original size:5 final size:5
Alignment explanation
Indices: 24052953--24052978 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
24052943 GATGGAAGGG
24052953 AATAA AATAA AATAA AATAA AATAA A
1 AATAA AATAA AATAA AATAA AATAA A
24052979 GAGGGAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:24054907 original size:44 final size:44
Alignment explanation
Indices: 24054844--24054932 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
24054834 GAGGAAATAC
*
24054844 TATTGGGACTTGGGAGGAGTTTTAAAGAGAGTTAAATAAGTAGT
1 TATTGGGACTTGGGAGGAGTTTTAAAGAGAGTTAAATAACTAGT
24054888 TATTGGGACTTGGGAGGAGTTTTAAAGAGAGTTAAATAACTAGT
1 TATTGGGACTTGGGAGGAGTTTTAAAGAGAGTTAAATAACTAGT
24054932 T
1 T
24054933 TTATTAGCAG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.34, C:0.03, G:0.30, T:0.33
Consensus pattern (44 bp):
TATTGGGACTTGGGAGGAGTTTTAAAGAGAGTTAAATAACTAGT
Found at i:24062241 original size:24 final size:27
Alignment explanation
Indices: 24062196--24062302 Score: 75
Period size: 27 Copynumber: 4.0 Consensus size: 27
24062186 CAAAAAATAG
*
24062196 AAATAATATATATATAATAATATATAA
1 AAATAATATATATATAAGAATATATAA
24062223 AAATAATATAT-T-T-AGAATATATAAA
1 AAATAATATATATATAAGAATATAT-AA
* * *
24062248 TAAATAAAATAGATATAA-TATATA-AA
1 -AAATAATATATATATAAGAATATATAA
*
24062274 TAAATTGAATATA-ATATTA-AATATATAA
1 -AAA-T-AATATATATATAAGAATATATAA
24062302 A
1 A
24062303 TAAATTAAAC
Statistics
Matches: 65, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
24 8 0.12
25 3 0.05
26 16 0.25
27 24 0.37
28 13 0.20
29 1 0.02
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (27 bp):
AAATAATATATATATAAGAATATATAA
Found at i:24062287 original size:22 final size:22
Alignment explanation
Indices: 24062169--24062296 Score: 74
Period size: 22 Copynumber: 6.0 Consensus size: 22
24062159 ACTTTTTTGT
* *
24062169 ATTGAATATAATGTATACAAAAA
1 ATTGAATATAATATATA-AATAA
* *
24062192 ATAGAA-ATAATATATATAT-A
1 ATTGAATATAATATATAAATAA
* *
24062212 A-T-AATAT-ATAAAAATAATATA
1 ATTGAATATAATATATA-AATA-A
* *
24062233 TTTAGAATAT-ATAAATAAATAA
1 ATT-GAATATAATATATAAATAA
*
24062255 AAT-AGATATAATATATAAATAA
1 ATTGA-ATATAATATATAAATAA
24062277 ATTGAATATAATAT-TAAATA
1 ATTGAATATAATATATAAATA
24062297 TATAAATAAA
Statistics
Matches: 81, Mismatches: 14, Indels: 22
0.69 0.12 0.19
Matches are distributed among these distances:
18 7 0.09
19 4 0.05
20 3 0.04
21 12 0.15
22 34 0.42
23 10 0.12
24 11 0.14
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.34
Consensus pattern (22 bp):
ATTGAATATAATATATAAATAA
Found at i:24062299 original size:55 final size:53
Alignment explanation
Indices: 24062196--24062307 Score: 140
Period size: 53 Copynumber: 2.1 Consensus size: 53
24062186 CAAAAAATAG
* *
24062196 AAATAATATATATATAATAATATATAAAAATAATATATTTAGAATATATAAAT
1 AAATAAAATAGATATAATAATATATAAAAATAATATATTTAGAATATATAAAT
24062249 AAATAAAATAGATATAAT-ATATA-AATAAATTGAATATAATATTA-AATATATAAAT
1 AAATAAAATAGATATAATAATATATAA-AAA-T-AATAT-AT-TTAGAATATATAAAT
24062304 AAAT
1 AAAT
24062308 TAAACCAAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
51 2 0.04
52 8 0.15
53 17 0.33
54 5 0.10
55 17 0.33
56 3 0.06
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (53 bp):
AAATAAAATAGATATAATAATATATAAAAATAATATATTTAGAATATATAAAT
Found at i:24062309 original size:17 final size:17
Alignment explanation
Indices: 24062238--24062311 Score: 60
Period size: 17 Copynumber: 4.1 Consensus size: 17
24062228 ATATATTTAG
*
24062238 AATATATAAATAAATAA
1 AATATATAAATAAATTA
* *
24062255 AATAGATATAATATA-TA
1 AATATATA-AATAAATTA
*
24062272 AATAAATTGAATATAATATTA
1 AATATA-T-AA-ATAA-ATTA
24062293 AATATATAAATAAATTA
1 AATATATAAATAAATTA
24062310 AA
1 AA
24062312 CCAAAAGAGT
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
17 19 0.42
18 11 0.24
19 6 0.13
20 2 0.04
21 7 0.16
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
AATATATAAATAAATTA
Found at i:24066405 original size:13 final size:14
Alignment explanation
Indices: 24066389--24066417 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
24066379 CTTTTAGCTT
24066389 TTACTTTAA-TTCA
1 TTACTTTAATTTCA
24066402 TTACTTTAATTTCA
1 TTACTTTAATTTCA
24066416 TT
1 TT
24066418 TATCCTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.28, C:0.14, G:0.00, T:0.59
Consensus pattern (14 bp):
TTACTTTAATTTCA
Found at i:24072980 original size:18 final size:18
Alignment explanation
Indices: 24072941--24072982 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
24072931 ACCCTTTTCT
*
24072941 TTATTTTATTTTATTATT
1 TTATTTTATTTTATTATA
*
24072959 TTATTATTA-TTTGTTATA
1 TTATT-TTATTTTATTATA
24072977 TTATTT
1 TTATTT
24072983 ATATATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 1 0.05
18 17 0.81
19 3 0.14
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (18 bp):
TTATTTTATTTTATTATA
Found at i:24072982 original size:23 final size:23
Alignment explanation
Indices: 24072952--24073028 Score: 63
Period size: 23 Copynumber: 3.3 Consensus size: 23
24072942 TATTTTATTT
24072952 TATTATTTTATTATTATTTGTTA
1 TATTATTTTATTATTATTTGTTA
24072975 TATTATTTATATATATTTGATTTGTT-
1 TATTATTT-TAT-TA-TT-ATTTGTTA
*
24073001 TCTTTATTTTTATT-TTATTT-TTA
1 T-ATTA-TTTTATTATTATTTGTTA
24073024 T-TTAT
1 TATTAT
24073029 GCTTAAATTT
Statistics
Matches: 46, Mismatches: 1, Indels: 17
0.72 0.02 0.27
Matches are distributed among these distances:
20 1 0.02
21 3 0.07
22 2 0.04
23 13 0.28
24 5 0.11
25 2 0.04
26 4 0.09
27 13 0.28
28 3 0.07
ACGTcount: A:0.23, C:0.01, G:0.04, T:0.71
Consensus pattern (23 bp):
TATTATTTTATTATTATTTGTTA
Found at i:24073090 original size:12 final size:12
Alignment explanation
Indices: 24073055--24073095 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
24073045 TATTTTAATT
24073055 CTATTATTTTTA
1 CTATTATTTTTA
*
24073067 GTATT-TTTTTA
1 CTATTATTTTTA
*
24073078 CTATTATTCTTA
1 CTATTATTTTTA
24073090 CTATTA
1 CTATTA
24073096 CCTTTCATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 10 0.40
12 15 0.60
ACGTcount: A:0.24, C:0.10, G:0.02, T:0.63
Consensus pattern (12 bp):
CTATTATTTTTA
Found at i:24073163 original size:6 final size:6
Alignment explanation
Indices: 24073130--24073194 Score: 51
Period size: 6 Copynumber: 10.5 Consensus size: 6
24073120 AGTTTATTTC
* * * * *
24073130 TTTTCT TTTTCT TTTTA- TTTTAG CTTTAT TTTTAT TTTTGT TTTTAGT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA-T
24073178 TGCTTTAT TTTTAT TTT
1 T--TTTAT TTTTAT TTT
24073195 CTTAGACTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
5 5 0.10
6 36 0.73
7 2 0.04
8 2 0.04
9 4 0.08
ACGTcount: A:0.11, C:0.06, G:0.06, T:0.77
Consensus pattern (6 bp):
TTTTAT
Found at i:24074165 original size:21 final size:21
Alignment explanation
Indices: 24074141--24074184 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
24074131 TCCTGAATTA
24074141 TTTAAATTCATGTTTCTATAC
1 TTTAAATTCATGTTTCTATAC
24074162 TTTAAATTCATGTTTCTATAC
1 TTTAAATTCATGTTTCTATAC
24074183 TT
1 TT
24074185 AGGAGAGCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.14, G:0.05, T:0.55
Consensus pattern (21 bp):
TTTAAATTCATGTTTCTATAC
Found at i:24076624 original size:51 final size:51
Alignment explanation
Indices: 24076552--24076656 Score: 147
Period size: 51 Copynumber: 2.1 Consensus size: 51
24076542 TAATTAAAAT
* * * *
24076552 AAAATAATTAATTAAAGGATAAATTATATTTAAAGCAAAAAATTTAAATTA
1 AAAATAATCAACTAAAGGATAAATCATATTTAAAACAAAAAATTTAAATTA
* * *
24076603 AAAATAATCAACTAAATGATAAATCATATTTAAAACAATAAATTTCAATTA
1 AAAATAATCAACTAAAGGATAAATCATATTTAAAACAAAAAATTTAAATTA
24076654 AAA
1 AAA
24076657 TAAAATAATT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.59, C:0.06, G:0.04, T:0.31
Consensus pattern (51 bp):
AAAATAATCAACTAAAGGATAAATCATATTTAAAACAAAAAATTTAAATTA
Found at i:24076655 original size:70 final size:70
Alignment explanation
Indices: 24076581--24076726 Score: 195
Period size: 70 Copynumber: 2.1 Consensus size: 70
24076571 TAAATTATAT
* *
24076581 TTAAAGCAAAA-AATTTAAATTAAAAATAATCAACTAAATGATAAATCATATTTAAAACAATAAA
1 TTAAAACAAAATAATTTAAA-TAAAAATAATCAACTAAAGGATAAATCATATTTAAAACAATAAA
*
24076645 TTTCAA
65 TTTAAA
* * * * * *
24076651 TTAAAATAAAATAATTTAAATAAAAATAATTAAGTATAGGATAAATTATATTTAAAGCAATAAAT
1 TTAAAACAAAATAATTTAAATAAAAATAATCAACTAAAGGATAAATCATATTTAAAACAATAAAT
24076716 TTAAA
66 TTAAA
24076721 TTAAAA
1 TTAAAA
24076727 ATAATAAATT
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
70 58 0.88
71 8 0.12
ACGTcount: A:0.59, C:0.05, G:0.04, T:0.32
Consensus pattern (70 bp):
TTAAAACAAAATAATTTAAATAAAAATAATCAACTAAAGGATAAATCATATTTAAAACAATAAAT
TTAAA
Found at i:24076666 original size:14 final size:15
Alignment explanation
Indices: 24076649--24076683 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
24076639 AATAAATTTC
24076649 AATTAAAAT-AAAAT
1 AATTAAAATAAAAAT
*
24076663 AATTTAAATAAAAAT
1 AATTAAAATAAAAAT
24076678 AATTAA
1 AATTAA
24076684 GTATAGGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AATTAAAATAAAAAT
Found at i:24076713 original size:19 final size:19
Alignment explanation
Indices: 24076691--24076768 Score: 86
Period size: 19 Copynumber: 4.1 Consensus size: 19
24076681 TAAGTATAGG
**
24076691 ATAAATTATATTTAAAGCA
1 ATAAATTATATTTAAAATA
* *
24076710 ATAAATTTAAATTAAAAATA
1 ATAAA-TTATATTTAAAATA
24076730 ATAAATTATATTTAAAATA
1 ATAAATTATATTTAAAATA
*
24076749 ATAAATT-TCAATTAAAATA
1 ATAAATTAT-ATTTAAAATA
24076768 A
1 A
24076769 AATAATTTAA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
18 1 0.02
19 34 0.68
20 15 0.30
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (19 bp):
ATAAATTATATTTAAAATA
Found at i:24076734 original size:20 final size:20
Alignment explanation
Indices: 24076709--24076789 Score: 96
Period size: 19 Copynumber: 4.2 Consensus size: 20
24076699 TATTTAAAGC
24076709 AATAAATTTAAATTAAAAAT
1 AATAAATTTAAATTAAAAAT
* *
24076729 AATAAA-TTATATTTAAAAT
1 AATAAATTTAAATTAAAAAT
*
24076748 AATAAATTTCAATT-AAAAT
1 AATAAATTTAAATTAAAAAT
*
24076767 AAAATAATTTAAA-TAAAAAT
1 AATA-AATTTAAATTAAAAAT
24076787 AAT
1 AAT
24076790 TAAGTATAGG
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
19 26 0.51
20 25 0.49
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (20 bp):
AATAAATTTAAATTAAAAAT
Found at i:24076736 original size:39 final size:39
Alignment explanation
Indices: 24076691--24076845 Score: 132
Period size: 39 Copynumber: 4.2 Consensus size: 39
24076681 TAAGTATAGG
24076691 ATAAATTATATTTAAAGCAATAAATTTAAATTAAAAATA
1 ATAAATTATATTTAAAGCAATAAATTTAAATTAAAAATA
** *
24076730 ATAAATTATATTTAAAATAATAAATTTCAATT-AAAAT-
1 ATAAATTATATTTAAAGCAATAAATTTAAATTAAAAATA
* **
24076767 A-AAA-TA-ATTTAAA-TAA-AAA--T-AATTAAGTATA
1 ATAAATTATATTTAAAGCAATAAATTTAAATTAAAAATA
* * *
24076798 GGATAAATCATATTTAAAGCAATAAATTTAAACTAGAAATA
1 --ATAAATTATATTTAAAGCAATAAATTTAAATTAAAAATA
*
24076839 ATTAATT
1 ATAAATT
24076846 GAATGATAAA
Statistics
Matches: 91, Mismatches: 13, Indels: 24
0.71 0.10 0.19
Matches are distributed among these distances:
29 4 0.04
30 4 0.04
32 3 0.03
33 4 0.04
34 10 0.11
35 3 0.03
36 10 0.11
37 3 0.03
38 8 0.09
39 34 0.37
40 1 0.01
41 7 0.08
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.35
Consensus pattern (39 bp):
ATAAATTATATTTAAAGCAATAAATTTAAATTAAAAATA
Found at i:24076754 original size:109 final size:109
Alignment explanation
Indices: 24076616--24076845 Score: 397
Period size: 109 Copynumber: 2.1 Consensus size: 109
24076606 ATAATCAACT
* *
24076616 AAATGATAAATCATATTTAAAACAATAAATTTCAATTAAAATAAAATAATTTAAATAAAAATAAT
1 AAATAATAAATTATATTTAAAACAATAAATTTCAATTAAAATAAAATAATTTAAATAAAAATAAT
* *
24076681 TAAGTATAGGATAAATTATATTTAAAGCAATAAATTTAAATTAA
66 TAAGTATAGGATAAATCATATTTAAAGCAATAAATTTAAACTAA
*
24076725 AAATAATAAATTATATTTAAAATAATAAATTTCAATTAAAATAAAATAATTTAAATAAAAATAAT
1 AAATAATAAATTATATTTAAAACAATAAATTTCAATTAAAATAAAATAATTTAAATAAAAATAAT
*
24076790 TAAGTATAGGATAAATCATATTTAAAGCAATAAATTTAAACTAG
66 TAAGTATAGGATAAATCATATTTAAAGCAATAAATTTAAACTAA
*
24076834 AAATAATTAATT
1 AAATAATAAATT
24076846 GAATGATAAA
Statistics
Matches: 114, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
109 114 1.00
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.34
Consensus pattern (109 bp):
AAATAATAAATTATATTTAAAACAATAAATTTCAATTAAAATAAAATAATTTAAATAAAAATAAT
TAAGTATAGGATAAATCATATTTAAAGCAATAAATTTAAACTAA
Found at i:24076775 original size:14 final size:15
Alignment explanation
Indices: 24076758--24076792 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
24076748 AATAAATTTC
24076758 AATTAAAAT-AAAAT
1 AATTAAAATAAAAAT
*
24076772 AATTTAAATAAAAAT
1 AATTAAAATAAAAAT
24076787 AATTAA
1 AATTAA
24076793 GTATAGGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AATTAAAATAAAAAT
Found at i:24077415 original size:16 final size:16
Alignment explanation
Indices: 24077384--24077418 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
24077374 TTTTAGGTCA
24077384 TTTAGGTGATTGTTTT
1 TTTAGGTGATTGTTTT
24077400 TTTA-GTGATTGTTTT
1 TTTAGGTGATTGTTTT
24077415 TTTA
1 TTTA
24077419 ACATGGGTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.14, C:0.00, G:0.20, T:0.66
Consensus pattern (16 bp):
TTTAGGTGATTGTTTT
Found at i:24087833 original size:27 final size:27
Alignment explanation
Indices: 24087795--24087846 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
24087785 TATTAAAGTT
*
24087795 ATTGAAGGGAGGTCAACTCCATCAAAA
1 ATTGAAGGGAGGTCAACTACATCAAAA
24087822 ATTGAAGGGAGGTCAACTACATCAA
1 ATTGAAGGGAGGTCAACTACATCAA
24087847 GAGAAACCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.19
Consensus pattern (27 bp):
ATTGAAGGGAGGTCAACTACATCAAAA
Found at i:24088485 original size:18 final size:18
Alignment explanation
Indices: 24088464--24088513 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
24088454 ATTAATATTT
24088464 AAAAAATTAAAAATATAA
1 AAAAAATTAAAAATATAA
* ** *
24088482 AAAAAATTTAATTTTTAA
1 AAAAAATTAAAAATATAA
*
24088500 AAAAAAATAAAAAT
1 AAAAAATTAAAAAT
24088514 TATTAAAAAT
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (18 bp):
AAAAAATTAAAAATATAA
Found at i:24093825 original size:3 final size:3
Alignment explanation
Indices: 24093808--24093848 Score: 66
Period size: 3 Copynumber: 13.7 Consensus size: 3
24093798 GAGAATAACA
24093808 AAT ATAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
24093849 CATAAAATTG
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.06
3 31 0.86
4 3 0.08
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:24094552 original size:12 final size:12
Alignment explanation
Indices: 24094525--24094573 Score: 66
Period size: 11 Copynumber: 4.2 Consensus size: 12
24094515 TTTCTTAAGG
*
24094525 AAATAAAAT-CA
1 AAATAAAATAAA
24094536 AAATAAAATAAA
1 AAATAAAATAAA
24094548 AAATAAAATAAAA
1 AAATAAAAT-AAA
24094561 AAATAAAA-AAA
1 AAATAAAATAAA
24094572 AA
1 AA
24094574 CTTTGCGAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
11 14 0.40
12 10 0.29
13 11 0.31
ACGTcount: A:0.84, C:0.02, G:0.00, T:0.14
Consensus pattern (12 bp):
AAATAAAATAAA
Found at i:24099437 original size:16 final size:16
Alignment explanation
Indices: 24099418--24099449 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
24099408 AAAATAACCC
24099418 AAATTTAAAACGATTT
1 AAATTTAAAACGATTT
*
24099434 AAATTTAAAATGATTT
1 AAATTTAAAACGATTT
24099450 GGATAATTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.41
Consensus pattern (16 bp):
AAATTTAAAACGATTT
Found at i:24108400 original size:27 final size:31
Alignment explanation
Indices: 24108357--24108420 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 31
24108347 ATTTTTTATG
* *
24108357 AAAAA-TATTCTTTAAAAT-T-CAAAAAA-T
1 AAAAATTATTCTTAAAAATATAAAAAAAATT
24108384 AAAAATTATT-TTAAAAATATAAAAAAAATT
1 AAAAATTATTCTTAAAAATATAAAAAAAATT
24108414 AAAAATT
1 AAAAATT
24108421 CAATGTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 12 0.39
28 5 0.16
29 6 0.19
30 8 0.26
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (31 bp):
AAAAATTATTCTTAAAAATATAAAAAAAATT
Found at i:24115606 original size:3 final size:3
Alignment explanation
Indices: 24115598--24115623 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
24115588 ATGCTAGTAA
24115598 ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG AT
24115624 AGCCAATCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.31, T:0.35
Consensus pattern (3 bp):
ATG
Found at i:24121201 original size:47 final size:47
Alignment explanation
Indices: 24121146--24121243 Score: 187
Period size: 47 Copynumber: 2.1 Consensus size: 47
24121136 GCATACAAAA
24121146 ACATTGAATGATTTATAGGATGGGATGGTGAAATATGAGGAAAGGGT
1 ACATTGAATGATTTATAGGATGGGATGGTGAAATATGAGGAAAGGGT
*
24121193 ACATTGAATGATTTATGGGATGGGATGGTGAAATATGAGGAAAGGGT
1 ACATTGAATGATTTATAGGATGGGATGGTGAAATATGAGGAAAGGGT
24121240 ACAT
1 ACAT
24121244 CACATTTAGG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.36, C:0.03, G:0.34, T:0.28
Consensus pattern (47 bp):
ACATTGAATGATTTATAGGATGGGATGGTGAAATATGAGGAAAGGGT
Found at i:24132222 original size:16 final size:18
Alignment explanation
Indices: 24132195--24132229 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
24132185 CACTACCTCA
24132195 AAATTAACAAGATT-TGG
1 AAATTAACAAGATTATGG
24132212 AAATT-ACAAGATTATGG
1 AAATTAACAAGATTATGG
24132229 A
1 A
24132230 TATCACGGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.49, C:0.06, G:0.17, T:0.29
Consensus pattern (18 bp):
AAATTAACAAGATTATGG
Found at i:24135857 original size:7 final size:7
Alignment explanation
Indices: 24135845--24135869 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
24135835 ACACCACCAG
24135845 GAATTTT
1 GAATTTT
24135852 GAATTTT
1 GAATTTT
24135859 GAATTTT
1 GAATTTT
24135866 GAAT
1 GAAT
24135870 ACCTCAGCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (7 bp):
GAATTTT
Found at i:24144014 original size:12 final size:12
Alignment explanation
Indices: 24143997--24144030 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
24143987 TGGCCTACCC
24143997 ATATTAATTTTT
1 ATATTAATTTTT
*
24144009 ATATTATTTTTT
1 ATATTAATTTTT
24144021 ATA-TAATTTT
1 ATATTAATTTT
24144031 AAAAAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:24144053 original size:17 final size:17
Alignment explanation
Indices: 24144033--24144079 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
24144023 ATAATTTTAA
24144033 AAAATATATAATACATC
1 AAAATATATAATACATC
*
24144050 AAAA-ATACTAAAAACATC
1 AAAATATA-T-AATACATC
*
24144068 AAAATAAATAAT
1 AAAATATATAAT
24144080 TCCCAACAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 6
0.73 0.09 0.18
Matches are distributed among these distances:
16 3 0.12
17 7 0.29
18 12 0.50
19 2 0.08
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.23
Consensus pattern (17 bp):
AAAATATATAATACATC
Found at i:24144055 original size:18 final size:18
Alignment explanation
Indices: 24144032--24144071 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
24144022 TATAATTTTA
*
24144032 AAAAATA-TATAATACATC
1 AAAAATACTA-AAAACATC
24144050 AAAAATACTAAAAACATC
1 AAAAATACTAAAAACATC
24144068 AAAA
1 AAAA
24144072 TAAATAATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAATACTAAAAACATC
Found at i:24146187 original size:2 final size:2
Alignment explanation
Indices: 24146180--24146214 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
24146170 AAACTACATA
24146180 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24146215 AAACTCAACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:24146378 original size:18 final size:18
Alignment explanation
Indices: 24146355--24146391 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
24146345 GAATTATTGT
24146355 CGCGGCAATAGTCGTGCC
1 CGCGGCAATAGTCGTGCC
24146373 CGCGGCAATAGTCGTGCC
1 CGCGGCAATAGTCGTGCC
24146391 C
1 C
24146392 ACAACATGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.35, G:0.32, T:0.16
Consensus pattern (18 bp):
CGCGGCAATAGTCGTGCC
Found at i:24154049 original size:22 final size:22
Alignment explanation
Indices: 24154006--24154049 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
24153996 TGAACTTATA
**
24154006 ATTTTTATAATTTTCATTTTTT
1 ATTTTTATAATTTTCAAATTTT
* *
24154028 ATTTTTATACTTTTTAAATTTT
1 ATTTTTATAATTTTCAAATTTT
24154050 TTTCTTAACA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (22 bp):
ATTTTTATAATTTTCAAATTTT
Found at i:24157166 original size:37 final size:37
Alignment explanation
Indices: 24157115--24157227 Score: 110
Period size: 37 Copynumber: 3.1 Consensus size: 37
24157105 ATTCCAAAAA
*
24157115 TAATATTATTTTAATAGTTTAATATTAAATTAA-ATT
1 TAATATTATCTTAATAGTTTAATATTAAATTAATATT
* *
24157151 TAATACTTATCTTAATAGTATT-TTATTAATTTAATATT
1 TAATA-TTATCTTAATAGT-TTAATATTAAATTAATATT
*
24157189 AAAGTAATTATCTTAATA--TTAA-ATTAAATTTAATATT
1 TAA-T-ATTATCTTAATAGTTTAATATTAAA-TTAATATT
24157226 TA
1 TA
24157228 TAAACATTTT
Statistics
Matches: 63, Mismatches: 7, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
36 12 0.19
37 31 0.49
38 7 0.11
39 12 0.19
40 1 0.02
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (37 bp):
TAATATTATCTTAATAGTTTAATATTAAATTAATATT
Found at i:24158328 original size:2 final size:2
Alignment explanation
Indices: 24158321--24158358 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
24158311 ATAACCATGT
24158321 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24158359 CCACACACAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:24159167 original size:42 final size:42
Alignment explanation
Indices: 24159117--24159218 Score: 154
Period size: 40 Copynumber: 2.5 Consensus size: 42
24159107 TGATTCTGTA
*
24159117 CACCGGCATTAAGCCTGCTATAGATGTATAGTATGAAAATTT
1 CACCGGCATTAAGCCTGCTATAGACGTATAGTATGAAAATTT
* *
24159159 CACCGGCATTAAGCCTGC--TAGACGTATAGTCTGAATATTT
1 CACCGGCATTAAGCCTGCTATAGACGTATAGTATGAAAATTT
*
24159199 CACTGGCATTAAGCCTGCTA
1 CACCGGCATTAAGCCTGCTA
24159219 GGCACAAGCC
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
40 36 0.67
42 18 0.33
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (42 bp):
CACCGGCATTAAGCCTGCTATAGACGTATAGTATGAAAATTT
Found at i:24160699 original size:13 final size:13
Alignment explanation
Indices: 24160681--24160705 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24160671 TCAAACGATC
24160681 AAATTTTTATACG
1 AAATTTTTATACG
24160694 AAATTTTTATAC
1 AAATTTTTATAC
24160706 ATATTAATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.48
Consensus pattern (13 bp):
AAATTTTTATACG
Found at i:24162303 original size:21 final size:22
Alignment explanation
Indices: 24162279--24162325 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
24162269 AGTAGAGGAG
* *
24162279 ACACGGT-CGTGTGGTTGAGAT
1 ACACGGTCCGTGTGGCTAAGAT
24162300 ACAC-GTCCGTGTGGCTAAGAT
1 ACACGGTCCGTGTGGCTAAGAT
24162321 ACACG
1 ACACG
24162326 ACCGTGTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.23
Consensus pattern (22 bp):
ACACGGTCCGTGTGGCTAAGAT
Found at i:24162330 original size:21 final size:21
Alignment explanation
Indices: 24162286--24162332 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
24162276 GAGACACGGT
* * *
24162286 CGTGTGGTTGAGATACACGTC
1 CGTGTGGCTAAGATACACGAC
24162307 CGTGTGGCTAAGATACACGAC
1 CGTGTGGCTAAGATACACGAC
24162328 CGTGT
1 CGTGT
24162333 ATACAGGCCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.21, C:0.21, G:0.32, T:0.26
Consensus pattern (21 bp):
CGTGTGGCTAAGATACACGAC
Found at i:24166482 original size:50 final size:50
Alignment explanation
Indices: 24166367--24166559 Score: 269
Period size: 50 Copynumber: 3.8 Consensus size: 50
24166357 GATAATAACA
* * ** *
24166367 TGCCAAAGTCATGTCCTAGACATGGTCTTACATGGGATGTTCTCATATCGG
1 TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* **
24166418 TGCCCATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
24166468 TACCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
24166518 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCT
1 TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGACCTCT
24166560 TTACCCAAAT
Statistics
Matches: 125, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 93 0.74
51 32 0.26
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:24166931 original size:30 final size:30
Alignment explanation
Indices: 24166897--24166954 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
24166887 CATCGACTCT
24166897 AACTTTGGA-AAAATTATGATTTTGCCCCTA
1 AACTTT-GACAAAATTATGATTTTGCCCCTA
* * *
24166927 AACTTTTACATAATTATGCTTTTGCCCC
1 AACTTTGACAAAATTATGATTTTGCCCC
24166955 AAAGTTCAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (30 bp):
AACTTTGACAAAATTATGATTTTGCCCCTA
Found at i:24169730 original size:14 final size:13
Alignment explanation
Indices: 24169701--24169726 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24169691 CCTTTGTTTT
24169701 TTTTTTCAAACTG
1 TTTTTTCAAACTG
24169714 TTTTTTCAAACTG
1 TTTTTTCAAACTG
24169727 GTTTGATCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.08, T:0.54
Consensus pattern (13 bp):
TTTTTTCAAACTG
Found at i:24171026 original size:2 final size:2
Alignment explanation
Indices: 24171019--24171061 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
24171009 TATTTTGCCT
24171019 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24171060 TA
1 TA
24171062 GTCTTTGTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:24174990 original size:20 final size:20
Alignment explanation
Indices: 24174965--24175004 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
24174955 AATATTTTCT
*
24174965 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
24174985 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
24175005 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:24175007 original size:34 final size:35
Alignment explanation
Indices: 24174953--24175019 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
24174943 CAAACACCAA
* *
24174953 AAAATATTTTCTAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
24174988 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
24175020 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:24175011 original size:14 final size:14
Alignment explanation
Indices: 24174988--24175027 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
24174978 ACAGAAAAGT
*
24174988 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
24175002 AAATCATTTTACGG
1 AAAACATTTTACAG
24175016 AAAACATTTTAC
1 AAAACATTTTAC
24175028 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:24175399 original size:5 final size:5
Alignment explanation
Indices: 24175389--24175442 Score: 108
Period size: 5 Copynumber: 10.8 Consensus size: 5
24175379 ATGTTGGATG
24175389 TATAC TATAC TATAC TATAC TATAC TATAC TATAC TATAC TATAC TATAC
1 TATAC TATAC TATAC TATAC TATAC TATAC TATAC TATAC TATAC TATAC
24175439 TATA
1 TATA
24175443 ATAATTTGTA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 49 1.00
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAC
Found at i:24175817 original size:2 final size:2
Alignment explanation
Indices: 24175810--24175860 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
24175800 TTTTATAAGG
24175810 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24175852 TA TA TA TA T
1 TA TA TA TA T
24175861 CTTTAAGCAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:24180902 original size:13 final size:13
Alignment explanation
Indices: 24180884--24180908 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24180874 TGAATATAGA
24180884 AGATGGTTAATGC
1 AGATGGTTAATGC
24180897 AGATGGTTAATG
1 AGATGGTTAATG
24180909 TAGAAATGTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.32, T:0.32
Consensus pattern (13 bp):
AGATGGTTAATGC
Found at i:24182709 original size:11 final size:12
Alignment explanation
Indices: 24182646--24182711 Score: 52
Period size: 11 Copynumber: 5.8 Consensus size: 12
24182636 AACTAATCCT
*
24182646 CTCTCAAATTTC
1 CTCTCAAATTTG
*
24182658 CTTTC-AATTTG
1 CTCTCAAATTTG
*
24182669 CTCT-TAATTTG
1 CTCTCAAATTTG
*
24182680 CTCTCAAA-TTC
1 CTCTCAAATTTG
24182691 CT-TCCAAATTT-
1 CTCT-CAAATTTG
24182702 CTCTCAAATT
1 CTCTCAAATT
24182712 CATATTTAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
10 1 0.02
11 34 0.77
12 9 0.20
ACGTcount: A:0.24, C:0.27, G:0.03, T:0.45
Consensus pattern (12 bp):
CTCTCAAATTTG
Found at i:24182780 original size:51 final size:50
Alignment explanation
Indices: 24182673--24182781 Score: 121
Period size: 51 Copynumber: 2.1 Consensus size: 50
24182663 AATTTGCTCT
* * **
24182673 TAATTTGCTCTCAAATTCCTTCCAAATTTCTCTCAAATTCATATTTAATC
1 TAATTTTCTCTCAAATTCCTTCCAAATTTCTCTCAAATCCATATTTAAAA
* * *
24182723 TCAATTTTCTCTCAATTTCC-TCTTAAATTTCTCTTAAATCCATATTTTAAAA
1 T-AATTTTCTCTCAAATTCCTTC-CAAATTTCTCTCAAATCCATA-TTTAAAA
24182775 TAATTTT
1 TAATTTT
24182782 TAAAAAAATA
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
50 3 0.06
51 40 0.82
52 6 0.12
ACGTcount: A:0.30, C:0.21, G:0.01, T:0.48
Consensus pattern (50 bp):
TAATTTTCTCTCAAATTCCTTCCAAATTTCTCTCAAATCCATATTTAAAA
Found at i:24183928 original size:7 final size:7
Alignment explanation
Indices: 24183916--24183948 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
24183906 TAGTCGATTG
24183916 GTATTTA
1 GTATTTA
24183923 GTATTTA
1 GTATTTA
24183930 GTATTTA
1 GTATTTA
24183937 GTATTTA
1 GTATTTA
24183944 GTATT
1 GTATT
24183949 ATGTATATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:24185261 original size:22 final size:22
Alignment explanation
Indices: 24185193--24185360 Score: 161
Period size: 21 Copynumber: 7.6 Consensus size: 22
24185183 CCTAAACCCT
*
24185193 AAACCCT-AACCTTTAACTT-A
1 AAACCCTAAACCCTTAACTTAA
*
24185213 AAACCCTAAACCCTTGACTT-A
1 AAACCCTAAACCCTTAACTTAA
*
24185234 AAACCCTAAACCCTTGACTTAA
1 AAACCCTAAACCCTTAACTTAA
24185256 AAACCCTAAACCCATAACTTAACTTAA
1 AAACCCTAAA-CC----CTTAACTTAA
* * *
24185283 AAACTCTTTAACCCTAAACCTT--
1 AAAC-CCTAAACCCTTAA-CTTAA
24185305 AAACCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
24185326 AACCCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
24185348 AAACCCT-AACCCT
1 AAACCCTAAACCCT
24185361 AACCATAACC
Statistics
Matches: 126, Mismatches: 10, Indels: 23
0.79 0.06 0.14
Matches are distributed among these distances:
19 3 0.02
20 15 0.12
21 45 0.36
22 35 0.28
23 6 0.05
24 3 0.02
27 15 0.12
28 4 0.03
ACGTcount: A:0.41, C:0.33, G:0.01, T:0.24
Consensus pattern (22 bp):
AAACCCTAAACCCTTAACTTAA
Found at i:24185263 original size:43 final size:41
Alignment explanation
Indices: 24185193--24185360 Score: 151
Period size: 43 Copynumber: 3.8 Consensus size: 41
24185183 CCTAAACCCT
* *
24185193 AAACCCT-AACCTTTAACTTAAAACCCTAAACCCTTGACTTA
1 AAACCCTAAACCCTTAACTTAAAACCCT-AACCCTTAACTTA
*
24185234 AAACCCTAAACCCTTGACTTAAAAACCCTAAACCCATAACTTAACTTAA
1 AAACCCTAAACCCTTAACTT-AAAACCCT-AA-CC----CTTAACTT-A
* * *
24185283 AAACTCTTTAACCCTAAACCTT-AAACCCTAACCCTTAACTTA
1 AAAC-CCTAAACCCTTAA-CTTAAAACCCTAACCCTTAACTTA
24185325 AAACCCCTAAACCCTTAACTTAAAAACCCTAACCCT
1 AAA-CCCTAAACCCTTAACTT-AAAACCCTAACCCT
24185361 AACCATAACC
Statistics
Matches: 104, Mismatches: 10, Indels: 24
0.75 0.07 0.17
Matches are distributed among these distances:
41 10 0.10
42 24 0.23
43 33 0.32
44 2 0.02
47 2 0.02
48 9 0.09
49 12 0.12
50 9 0.09
51 3 0.03
ACGTcount: A:0.41, C:0.33, G:0.01, T:0.24
Consensus pattern (41 bp):
AAACCCTAAACCCTTAACTTAAAACCCTAACCCTTAACTTA
Found at i:24185266 original size:70 final size:69
Alignment explanation
Indices: 24185186--24185347 Score: 195
Period size: 70 Copynumber: 2.3 Consensus size: 69
24185176 GACAAATCCT
**
24185186 AAACCCTAAACCCTAACCTTTAACTT-AAAAC-CCTAAACCCTTGA-CTTAAAACCCTAAACCCT
1 AAACCCTAAACCCTAA-C-TTAACTTAAAAACTCCTAAACCCTAAACCTT-AAACCCT-AACCCT
*
24185248 TGACTTAA
62 TAACTTAA
* *
24185256 AAACCCTAAACCCATAACTTAACTTAAAAACTCTTTAACCCTAAACCTTAAACCCTAACCCTTAA
1 AAACCCTAAACCC-TAACTTAACTTAAAAACTCCTAAACCCTAAACCTTAAACCCTAACCCTTAA
24185321 CTTAA
65 CTTAA
*
24185326 AACCCCTAAACCCTTAACTTAA
1 AAACCCTAAACCC-TAACTTAA
24185348 AAACCCTAAC
Statistics
Matches: 81, Mismatches: 7, Indels: 8
0.84 0.07 0.08
Matches are distributed among these distances:
69 7 0.09
70 52 0.64
71 19 0.23
72 3 0.04
ACGTcount: A:0.41, C:0.33, G:0.01, T:0.25
Consensus pattern (69 bp):
AAACCCTAAACCCTAACTTAACTTAAAAACTCCTAAACCCTAAACCTTAAACCCTAACCCTTAAC
TTAA
Found at i:24188704 original size:125 final size:126
Alignment explanation
Indices: 24188461--24189027 Score: 805
Period size: 127 Copynumber: 4.5 Consensus size: 126
24188451 CCCAAACATG
* * *
24188461 CTACTGTAGCAAAAGCACGTCCACGTGGGCGCGATTTCACAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* * * *
24188526 TTGAAGC-GTTTTTATACTATTTGCTCAGAAATGTCAAGTCGAAATTATTTTTTTCAGGAC
66 TTGAAGCATTTTTTAAACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTTCCAGGAC
* * *
24188586 CTACTGTAACAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATACTGT
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* * * *
24188651 TTAAAGCATTTTTTAAAACTATTTGCTCAAAAACATCAAGTCGAAATTATTTTTTCTAGGAC
66 TTGAAGCATTTTTT-AAACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTTCCAGGAC
*
24188713 CTACTGTAGCAAAAGCGCATCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* * * *
24188778 TTGAAGCATTTTTTTAAATTATTTGCTTAGAAATGTCAAGTCGAAATTATTTCTTCCAGGAC
66 TTGAAGCA-TTTTTTAAACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTTCCAGGAC
* *
24188840 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGTGATTTCACAAATTCTTCTCATAAAACATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* * * * *
24188905 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTA-TTTTTGCAGGAC
66 TTGAAGCATTTTTTAAACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTTCCAGGAC
* * * * * * *
24188965 CTACTGTAGCAAAAGCGCGTACACGTGGGCGTGACTTCAGAAATTATTCTGATAAAGCATCCT
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCT
24189028 ACTTTGATTT
Statistics
Matches: 394, Mismatches: 45, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
125 131 0.33
126 39 0.10
127 218 0.55
128 6 0.02
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.31
Consensus pattern (126 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
TTGAAGCATTTTTTAAACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTTCCAGGAC
Found at i:24188976 original size:252 final size:252
Alignment explanation
Indices: 24188461--24189027 Score: 850
Period size: 252 Copynumber: 2.2 Consensus size: 252
24188451 CCCAAACATG
*
24188461 CTACTGTAGCAAAAGCACGTCCACGTGGGCGCGATTTCACAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTGATAAAGCATCCTGC
* * *
24188526 TTGAAGCGTTTTTATACTATTTGCTCAGAAATGTCAAGTCGAAATTATTTTTTTCAGGACCTACT
66 TTGAAGCGTTTTTAAACTATTTGCTCAGAAATGTCAAGTCGAAATTATTTCTTCCAGGACCTACT
* *
24188591 GTAACAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATACTGTTTAAA
131 GTAACAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAACATACTGCTTAAA
* * *
24188656 GCATTTTTTAAAACTATTTGCTCAAAAACATCAAGTCGAAATTATTTTTTCTAGGAC
196 GCATTTTTTAAAACTATTTGCTCAAAAACATCAACTCAAAATTATTTTTGCTAGGAC
* * *
24188713 CTACTGTAGCAAAAGCGCATCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTGATAAAGCATCCTGC
* * *
24188778 TTGAAGCATTTTTTTAAATTATTTGCTTAGAAATGTCAAGTCGAAATTATTTCTTCCAGGACCTA
66 TTGAAGC--GTTTTTAAACTATTTGCTCAGAAATGTCAAGTCGAAATTATTTCTTCCAGGACCTA
* * * *
24188843 CTGTAGCAAAAGCGCGTCCACGAGGGCGTGATTTCACAAATTCTTCTCATAAAACATCCTGCTTG
129 CTGTAACAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAACATACTGCTTA
* * * *
24188908 AAGCGTTTTTT-ATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTGC-AGGAC
194 AAGCATTTTTTAAAACTATTTGCTCAAAAACATCAACTCAAAATTATTTTTGCTAGGAC
* * * * *
24188965 CTACTGTAGCAAAAGCGCGTACACGTGGGCGTGACTTCAGAAATTATTCTGATAAAGCATCCT
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTGATAAAGCATCCT
24189028 ACTTTGATTT
Statistics
Matches: 282, Mismatches: 31, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
252 128 0.45
253 35 0.12
254 119 0.42
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.31
Consensus pattern (252 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTGATAAAGCATCCTGC
TTGAAGCGTTTTTAAACTATTTGCTCAGAAATGTCAAGTCGAAATTATTTCTTCCAGGACCTACT
GTAACAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAACATACTGCTTAAA
GCATTTTTTAAAACTATTTGCTCAAAAACATCAACTCAAAATTATTTTTGCTAGGAC
Found at i:24200544 original size:24 final size:27
Alignment explanation
Indices: 24200517--24200582 Score: 66
Period size: 30 Copynumber: 2.4 Consensus size: 27
24200507 CTCTTTAACA
24200517 GCCACCTCCTCCTCCT-C-CC-CCACC
1 GCCACCTCCTCCTCCTCCACCACCACC
* *
24200541 GCCACTATCACAACCTCCTCCACCACCACC
1 GCCAC-CTC-C-TCCTCCTCCACCACCACC
24200571 GCCACCTCCTCC
1 GCCACCTCCTCC
24200583 CCAACTGCTA
Statistics
Matches: 32, Mismatches: 4, Indels: 9
0.71 0.09 0.20
Matches are distributed among these distances:
24 5 0.16
25 2 0.06
26 1 0.03
27 8 0.25
28 2 0.06
29 4 0.12
30 10 0.31
ACGTcount: A:0.17, C:0.64, G:0.05, T:0.15
Consensus pattern (27 bp):
GCCACCTCCTCCTCCTCCACCACCACC
Found at i:24202508 original size:2 final size:2
Alignment explanation
Indices: 24202501--24202533 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
24202491 CGTAGACATC
*
24202501 AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24202534 AATTAGCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:24215964 original size:113 final size:111
Alignment explanation
Indices: 24215797--24216140 Score: 419
Period size: 113 Copynumber: 3.1 Consensus size: 111
24215787 AAAATAAGAA
* * * *
24215797 TTAGCGGCGTTTTAT-AGAAAGCGCCGCAAAAAACCTAAGCCGAACAACGTCGTTTACCGAGCTT
1 TTAGCGGCGTTTT-TGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTT-CTGAGCTT
24215861 TCGGGGATTTAGCGGCGTTTTTAATAAAGCGCCGCTAATGTTCAGGGCT
64 TCGGGGATTTAGCGGCGTTTTTAATAAAGCGCCGCTAATGTT-AGGGCT
*
24215910 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCCAACGACGCCGTTTTCTGAGCTTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCG-TTTCTGAGCTTT
** *
24215975 CGAGTCA-TTAGTGGCGTTTTTAATAACA-CGCCGCTAATGCTTAGGGCT
65 CG-GGGATTTAGCGGCGTTTTTAATAA-AGCGCCGCTAATG-TTAGGGCT
* * * * *
24216023 TTAGCGGCATTTTTGAAAAAGCGCCGCAAGAAAACCAAAGCACAACGACACCGTTTCTGAGCTTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAA-AAAACCTAAGCCCAACGACGCCGTTTCTGAGC-TT
* * *
24216088 TCGGGGATTTAGCGGAGTTTCTAA-AGAAGCGCCGCTAATG-TAGGGAT
64 TCGGGGATTTAGCGGCGTTTTTAATA-AAGCGCCGCTAATGTTAGGGCT
24216135 TTAGCG
1 TTAGCG
24216141 NNNNNNNNNN
Statistics
Matches: 201, Mismatches: 20, Indels: 21
0.83 0.08 0.09
Matches are distributed among these distances:
112 13 0.06
113 131 0.65
114 57 0.28
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (111 bp):
TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTCTGAGCTTTC
GGGGATTTAGCGGCGTTTTTAATAAAGCGCCGCTAATGTTAGGGCT
Found at i:24222986 original size:16 final size:16
Alignment explanation
Indices: 24222962--24222998 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
24222952 TAAGAAATCA
*
24222962 CAGCCATGTACTCCTG
1 CAGCTATGTACTCCTG
24222978 CAGCTATGTACTCCTG
1 CAGCTATGTACTCCTG
24222994 CAGCT
1 CAGCT
24222999 CCTGAGTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.19, C:0.35, G:0.19, T:0.27
Consensus pattern (16 bp):
CAGCTATGTACTCCTG
Found at i:24226544 original size:38 final size:38
Alignment explanation
Indices: 24226493--24226577 Score: 118
Period size: 38 Copynumber: 2.2 Consensus size: 38
24226483 ATAAAATTTT
* * *
24226493 TTAGGGGTTATGCTTTAGGGATTAGGGA-GATTTAGGGG
1 TTAGGGTTTATGCTTTAAGG-TTAAGGATGATTTAGGGG
24226531 TTAGGGTTTATGCTTTAAGGTTAAGGATGATTTAGGGG
1 TTAGGGTTTATGCTTTAAGGTTAAGGATGATTTAGGGG
24226569 TTATGGGTT
1 TTA-GGGTT
24226578 AGGGATTTGG
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
37 6 0.14
38 31 0.74
39 5 0.12
ACGTcount: A:0.21, C:0.02, G:0.38, T:0.39
Consensus pattern (38 bp):
TTAGGGTTTATGCTTTAAGGTTAAGGATGATTTAGGGG
Found at i:24228955 original size:44 final size:44
Alignment explanation
Indices: 24228905--24228988 Score: 132
Period size: 44 Copynumber: 1.9 Consensus size: 44
24228895 AGCAAAATAA
* *
24228905 AAGTTGTGATAATTATACATTTAAAAACAATTATATTTTAGTAG
1 AAGTTGTGATAATTACACATTTAAAAACAATTATAATTTAGTAG
* *
24228949 AAGTTGTGATAATTACATATTTAAAAATAATTATAATTTA
1 AAGTTGTGATAATTACACATTTAAAAACAATTATAATTTA
24228989 ATTTACAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.45, C:0.04, G:0.10, T:0.42
Consensus pattern (44 bp):
AAGTTGTGATAATTACACATTTAAAAACAATTATAATTTAGTAG
Found at i:24228965 original size:256 final size:254
Alignment explanation
Indices: 24228602--24229069 Score: 599
Period size: 256 Copynumber: 1.8 Consensus size: 254
24228592 TATTTTTTTT
*
24228602 ATATTACTAAATTCACATTTAAAAAATTTAAAGTAAAATAAAAGCTGCGATAATTATACATTTAA
1 ATATTACTAAATTCACATTTAAAAAATTTAAAGCAAAATAAAAGCTGCGATAATTATACATTTAA
*
24228667 AATAATCATAATTTATTAAAAGTTGAAATTGAGACCAATTACACATTTAAAAATAATTATAATTT
66 AATAATCA-AATTTATTAAAAGTAGAAATTGAGACCAATTACACATTTAAAAATAATTATAATTT
* * * *
24228732 AATTTACAATTATTAATTAAAAAATGTTGTGCTAA-TTCTAAAATAAATTTATTACTTAAATAAA
130 AATTTACAATTATTAACTAAAAAA-ATTCTGCTAACTT-TAAAATAAAGTTATTACTTAAATAAA
*
24228796 AATCTAAGCTTAAAATATAGGGAAAACGTTAAATATAATTATAATTATAATTATTTTCAATC
193 AATCTAAGCATAAAATATAGGGAAAACGTTAAATATAATTATAATTATAATTATTTTCAATC
* * *
24228858 ATATTACTAAATTCACATTTAAAAATTAAATAGTTGAAGCAAAATAAAAGTTGTGATAATTATAC
1 ATATTACTAAATTCACATTT--AAA--AAAT--TTAAAGCAAAATAAAAGCTGCGATAATTATAC
** * * * *
24228923 ATTT-AAA-AA-C-AATTATATT-TTAGTAGAAGTTGTGA-TAATTACATATTTAAAAATAATTA
60 ATTTAAAATAATCAAATT-TATTAAAAGTAGAAATTGAGACCAATTACACATTTAAAAATAATTA
* * *
24228982 TAATTTAATTTACAATTATTAGCTAAAAAAATTCTGCTAACTTTAAAATAGAGTTATTACTTGAA
124 TAATTTAATTTACAATTATTAACTAAAAAAATTCTGCTAACTTTAAAATAAAGTTATTACTTAAA
* * *
24229047 TAGAACTCTAAGCATAGAATATA
189 TAAAAATCTAAGCATAAAATATA
24229070 AGAAAAAGTT
Statistics
Matches: 182, Mismatches: 22, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
255 46 0.25
256 72 0.40
257 15 0.08
258 7 0.04
259 1 0.01
260 6 0.03
261 3 0.02
262 32 0.18
ACGTcount: A:0.48, C:0.08, G:0.07, T:0.37
Consensus pattern (254 bp):
ATATTACTAAATTCACATTTAAAAAATTTAAAGCAAAATAAAAGCTGCGATAATTATACATTTAA
AATAATCAAATTTATTAAAAGTAGAAATTGAGACCAATTACACATTTAAAAATAATTATAATTTA
ATTTACAATTATTAACTAAAAAAATTCTGCTAACTTTAAAATAAAGTTATTACTTAAATAAAAAT
CTAAGCATAAAATATAGGGAAAACGTTAAATATAATTATAATTATAATTATTTTCAATC
Found at i:24248193 original size:21 final size:21
Alignment explanation
Indices: 24248167--24248206 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
24248157 AATGGGACCA
24248167 CTGATGTGGCAAGTTAACTAG
1 CTGATGTGGCAAGTTAACTAG
*
24248188 CTGATGTGGCCAGTTAACT
1 CTGATGTGGCAAGTTAACT
24248207 TGCCACGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (21 bp):
CTGATGTGGCAAGTTAACTAG
Found at i:24249763 original size:58 final size:58
Alignment explanation
Indices: 24249699--24249816 Score: 227
Period size: 58 Copynumber: 2.0 Consensus size: 58
24249689 ATTACTAATT
24249699 TAAAACTTTATAAATTATAAATGGCCTAAATAAAACAATTTCATTTTAGGGAATACAA
1 TAAAACTTTATAAATTATAAATGGCCTAAATAAAACAATTTCATTTTAGGGAATACAA
*
24249757 TAAAACTTTATAAATTATAAATGGCCTAAATAAAACAATTTCATTTTAGGGAATATAA
1 TAAAACTTTATAAATTATAAATGGCCTAAATAAAACAATTTCATTTTAGGGAATACAA
24249815 TA
1 TA
24249817 TTATAATTGA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.48, C:0.09, G:0.08, T:0.34
Consensus pattern (58 bp):
TAAAACTTTATAAATTATAAATGGCCTAAATAAAACAATTTCATTTTAGGGAATACAA
Found at i:24250089 original size:19 final size:20
Alignment explanation
Indices: 24250067--24250117 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
24250057 TCACACAAAG
24250067 TAAAAAAAAATTTAAAAAA-
1 TAAAAAAAAATTTAAAAAAT
24250086 T--AAAAAAA--TAAAAAAT
1 TAAAAAAAAATTTAAAAAAT
24250102 TAATAAAAAAATTTAA
1 TAA-AAAAAAATTTAA
24250118 TAGAAAAACC
Statistics
Matches: 26, Mismatches: 0, Indels: 10
0.72 0.00 0.28
Matches are distributed among these distances:
15 7 0.27
16 1 0.04
17 7 0.27
19 8 0.31
21 3 0.12
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (20 bp):
TAAAAAAAAATTTAAAAAAT
Found at i:24250540 original size:144 final size:145
Alignment explanation
Indices: 24250280--24250566 Score: 461
Period size: 144 Copynumber: 2.0 Consensus size: 145
24250270 GTAAAAATAT
* * * *
24250280 AATTTCATCATTTTAATAGTCTCTATCTTTATACTTTTTAAAGGATTAAATTAAAATTTTATCAT
1 AATTTCACCATTTTAATAGCCTCTATCTTTATAATTTTTAAAGGATTAAATCAAAATTTTATCAT
* *
24250345 TTTTAGGGGGGCCAAAGTGCAATTGTACCTTTACTAATTTAAAATTTTAAAAATTTCAAAGGGCC
66 TTTTAGGGGGGCCAAAGTGCAATTGTACCTTTACTAATTTAAAAGTTTAAAAATTTCAAAGGGCA
24250410 TAAAT-GAAAATTAC
131 TAAATAGAAAATTAC
24250424 AATTTCACCATTTTAATAGCCTCTATCTTTATAATTTTTAAAGGATTAAATCAAAATTTTATCAT
1 AATTTCACCATTTTAATAGCCTCTATCTTTATAATTTTTAAAGGATTAAATCAAAATTTTATCAT
* * * *
24250489 TTTTAAGGGGGG-CAAAGTGTAATTTTATCTTTATTAATTTAAAAGTTTAAAAATTTCAAAGGGC
66 TTTT-AGGGGGGCCAAAGTGCAATTGTACCTTTACTAATTTAAAAGTTTAAAAATTTCAAAGGGC
24250553 ATAAATAGAAAATT
130 ATAAATAGAAAATT
24250567 TTCCATTTTA
Statistics
Matches: 131, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
144 117 0.89
145 14 0.11
ACGTcount: A:0.38, C:0.10, G:0.11, T:0.40
Consensus pattern (145 bp):
AATTTCACCATTTTAATAGCCTCTATCTTTATAATTTTTAAAGGATTAAATCAAAATTTTATCAT
TTTTAGGGGGGCCAAAGTGCAATTGTACCTTTACTAATTTAAAAGTTTAAAAATTTCAAAGGGCA
TAAATAGAAAATTAC
Found at i:24251206 original size:3 final size:3
Alignment explanation
Indices: 24251194--24251244 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
24251184 AACATAGTTG
24251194 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
24251241 TAT T
1 TAT T
24251245 TATCTCAATC
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:24255739 original size:13 final size:13
Alignment explanation
Indices: 24255721--24255750 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
24255711 GCACTAAAAG
*
24255721 ACAACAGAAGCAA
1 ACAACAGAAACAA
24255734 ACAACAGAAACAA
1 ACAACAGAAACAA
24255747 ACAA
1 ACAA
24255751 AAACAATAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.67, C:0.23, G:0.10, T:0.00
Consensus pattern (13 bp):
ACAACAGAAACAA
Found at i:24256705 original size:12 final size:12
Alignment explanation
Indices: 24256685--24256717 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
24256675 ATAAAAAAAC
24256685 ATTTTATTTAAT
1 ATTTTATTTAAT
*
24256697 ATTTCATTTAAT
1 ATTTTATTTAAT
24256709 -TTTTATTTA
1 ATTTTATTTA
24256718 TTTACTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (12 bp):
ATTTTATTTAAT
Found at i:24261484 original size:34 final size:34
Alignment explanation
Indices: 24261440--24261523 Score: 89
Period size: 34 Copynumber: 2.5 Consensus size: 34
24261430 TTTAGCTTTT
* * *
24261440 ATATATTTTATGTTTTATAGATATATACATATTC
1 ATATTTTTTATGTTTTAAAGATATATACATATAC
* * *
24261474 AT-TTCTTTTATGCTGTAAATATATATACATATAC
1 ATATT-TTTTATGTTTTAAAGATATATACATATAC
*
24261508 ATATTTTTTATATTTT
1 ATATTTTTTATGTTTT
24261524 CATTTTACTT
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
33 1 0.03
34 36 0.92
35 2 0.05
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (34 bp):
ATATTTTTTATGTTTTAAAGATATATACATATAC
Found at i:24268489 original size:42 final size:43
Alignment explanation
Indices: 24268441--24268563 Score: 160
Period size: 42 Copynumber: 2.9 Consensus size: 43
24268431 TAGGATTCCG
* *
24268441 ATATATGATTACGTGTAAGACCATGTCTGGGACATTGGCGT-T
1 ATATATGATTACGTGTAAGACCATGTCTGGGACATTGGCATCA
* * *
24268483 GTATATGATTTCGTGTAAGA-CACTGTCTGGGACAGTGGCATCA
1 ATATATGATTACGTGTAAGACCA-TGTCTGGGACATTGGCATCA
* *
24268526 ATATTTGATTACATGTAAGACCATGTCTGGGACATTGG
1 ATATATGATTACGTGTAAGACCATGTCTGGGACATTGG
24268564 AATTGTACGA
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
41 2 0.03
42 34 0.50
43 30 0.44
44 2 0.03
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.33
Consensus pattern (43 bp):
ATATATGATTACGTGTAAGACCATGTCTGGGACATTGGCATCA
Found at i:24273845 original size:17 final size:19
Alignment explanation
Indices: 24273806--24273857 Score: 81
Period size: 18 Copynumber: 2.8 Consensus size: 19
24273796 AGCAAGAAAC
24273806 TTGAGTTGAGCTCGCATCTT
1 TTGA-TTGAGCTCGCATCTT
24273826 TTGA-TGAGCTCGCA-CTT
1 TTGATTGAGCTCGCATCTT
24273843 TTGATTGAGCTCGCA
1 TTGATTGAGCTCGCA
24273858 AATGTAGAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.23
18 20 0.65
20 4 0.13
ACGTcount: A:0.17, C:0.21, G:0.25, T:0.37
Consensus pattern (19 bp):
TTGATTGAGCTCGCATCTT
Found at i:24276674 original size:42 final size:39
Alignment explanation
Indices: 24276621--24276775 Score: 139
Period size: 42 Copynumber: 3.7 Consensus size: 39
24276611 TAGAAGTGCT
*
24276621 GCTAAATGTCATGACCTTTAGCGGCGTTTTCAGAAAAGCGCC
1 GCTAAAGGTCATGACCTTTAGCGGCGTTTTC-G-AAA-CGCC
* ** * * * * *
24276663 ACTAAAGGTCATGGTCTATAGCAGCGTCTTTTGGGAGACGTC
1 GCTAAAGGTCATGACCTTTAGCGGCG--TTTT-CGAAACGCC
*
24276705 GCTAAAGGTCATGACCTTTAGCGGCGTTGTGGCGAAATCGCC
1 GCTAAAGGTCATGACCTTTAGCGGCGTT-T-TCGAAA-CGCC
24276747 GCTAAAGGTCATGACCTTTAGCGGCGTTT
1 GCTAAAGGTCATGACCTTTAGCGGCGTTT
24276776 ATTTTAAAAA
Statistics
Matches: 89, Mismatches: 18, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
40 2 0.02
41 5 0.06
42 75 0.84
43 2 0.02
44 5 0.06
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (39 bp):
GCTAAAGGTCATGACCTTTAGCGGCGTTTTCGAAACGCC
Found at i:24284056 original size:17 final size:17
Alignment explanation
Indices: 24284034--24284067 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
24284024 TCTGTTCTGA
24284034 TGAATTTAATAAACTGT
1 TGAATTTAATAAACTGT
24284051 TGAATTTAATAAACTGT
1 TGAATTTAATAAACTGT
24284068 GCAAGTCAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (17 bp):
TGAATTTAATAAACTGT
Found at i:24290570 original size:10 final size:10
Alignment explanation
Indices: 24290557--24290584 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
24290547 TACTATTATT
24290557 TTTTATTTGG
1 TTTTATTTGG
24290567 TTTTATTTGG
1 TTTTATTTGG
24290577 TTTTATTT
1 TTTTATTT
24290585 TTATTTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.11, C:0.00, G:0.14, T:0.75
Consensus pattern (10 bp):
TTTTATTTGG
Found at i:24298792 original size:23 final size:23
Alignment explanation
Indices: 24298762--24298825 Score: 110
Period size: 23 Copynumber: 2.8 Consensus size: 23
24298752 ATTTCTTCCA
*
24298762 GCATGGCCACCTTTGCATGTCGT
1 GCATGGCCACCTTTGCATATCGT
*
24298785 GCATGGCCACCTTTTCATATCGT
1 GCATGGCCACCTTTGCATATCGT
24298808 GCATGGCCACCTTTGCAT
1 GCATGGCCACCTTTGCAT
24298826 TGGAACTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.16, C:0.31, G:0.22, T:0.31
Consensus pattern (23 bp):
GCATGGCCACCTTTGCATATCGT
Found at i:24315112 original size:29 final size:29
Alignment explanation
Indices: 24315072--24315130 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
24315062 GAATAAAAAC
*
24315072 TATATTTTTTATTTTTAAAATATACTACA
1 TATATTTTTTATTTTTAAAATACACTACA
24315101 TATATTTTTTATTTTTAAAATACACTACA
1 TATATTTTTTATTTTTAAAATACACTACA
24315130 T
1 T
24315131 TTAAAACAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.54
Consensus pattern (29 bp):
TATATTTTTTATTTTTAAAATACACTACA
Found at i:24316717 original size:5 final size:5
Alignment explanation
Indices: 24316709--24316756 Score: 53
Period size: 5 Copynumber: 9.4 Consensus size: 5
24316699 CGAACAAATA
* *
24316709 ATTCG ATTCG ATTCG ATTCG ATCTCT ATCTC- ACTCG ATTCG ATTCG AT
1 ATTCG ATTCG ATTCG ATTCG AT-TCG AT-TCG ATTCG ATTCG ATTCG AT
24316757 AAAACTTCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
4 2 0.05
5 29 0.76
6 7 0.18
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.40
Consensus pattern (5 bp):
ATTCG
Found at i:24316829 original size:5 final size:5
Alignment explanation
Indices: 24316819--24316844 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
24316809 CTCGAAAATT
24316819 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
24316845 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:24321428 original size:36 final size:36
Alignment explanation
Indices: 24321381--24321470 Score: 137
Period size: 36 Copynumber: 2.5 Consensus size: 36
24321371 GGGTCAGAGG
24321381 TCAAAACGGCGTCTTTTTGGCCTCTAAACCTAAAAA
1 TCAAAACGGCGTCTTTTTGGCCTCTAAACCTAAAAA
* *
24321417 TCAAAGCGGCGT-TGTTTTGGCCTCTGAACCTAAAAA
1 TCAAAACGGCGTCT-TTTTGGCCTCTAAACCTAAAAA
*
24321453 TCAAAACGGCGTCATTTT
1 TCAAAACGGCGTCTTTTT
24321471 ATTTATGCTA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
35 1 0.02
36 47 0.98
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (36 bp):
TCAAAACGGCGTCTTTTTGGCCTCTAAACCTAAAAA
Found at i:24323900 original size:16 final size:16
Alignment explanation
Indices: 24323879--24323911 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
24323869 ACAAATTTAC
24323879 TGAGTTTTTGAGGTTA
1 TGAGTTTTTGAGGTTA
*
24323895 TGAGTTTTTGAGTTTA
1 TGAGTTTTTGAGGTTA
24323911 T
1 T
24323912 CAAAATCACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.00, G:0.27, T:0.55
Consensus pattern (16 bp):
TGAGTTTTTGAGGTTA
Found at i:24332042 original size:12 final size:11
Alignment explanation
Indices: 24332025--24332059 Score: 54
Period size: 10 Copynumber: 3.2 Consensus size: 11
24332015 AACAAATCCT
24332025 CTCTCATATTTC
1 CTCTCA-ATTTC
24332037 CTCTCAA-TTC
1 CTCTCAATTTC
24332047 CTCTCAATTTC
1 CTCTCAATTTC
24332058 CT
1 CT
24332060 TCCAAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.45
11 6 0.27
12 6 0.27
ACGTcount: A:0.17, C:0.37, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:24332073 original size:22 final size:22
Alignment explanation
Indices: 24332048--24332097 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
24332038 TCTCAATTCC
24332048 TCTCAATTTCCTTCCAAAATTA
1 TCTCAATTTCCTTCCAAAATTA
*
24332070 TCTCAATTTCCTTCCAAAATTC
1 TCTCAATTTCCTTCCAAAATTA
24332092 TCTCAA
1 TCTCAA
24332098 ATCCATATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.40
Consensus pattern (22 bp):
TCTCAATTTCCTTCCAAAATTA
Found at i:24332123 original size:29 final size:29
Alignment explanation
Indices: 24332091--24332177 Score: 73
Period size: 29 Copynumber: 3.2 Consensus size: 29
24332081 TTCCAAAATT
*
24332091 CTCTCAAATCCATATTTAATTTTAATTTC
1 CTCTCAAATCCATATTTAATTTAAATTTC
* *
24332120 CTCTCAATTTCC----TTAA---AAAATT-
1 CTCTCAA-ATCCATATTTAATTTAAATTTC
*
24332142 CTCTCAAATCCATATTTAATTTCAATTTC
1 CTCTCAAATCCATATTTAATTTAAATTTC
24332171 CTCTCAA
1 CTCTCAA
24332178 TTTCCTTTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 18
0.64 0.09 0.27
Matches are distributed among these distances:
21 3 0.07
22 7 0.16
23 4 0.09
25 4 0.09
26 4 0.09
28 4 0.09
29 14 0.33
30 3 0.07
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (29 bp):
CTCTCAAATCCATATTTAATTTAAATTTC
Found at i:24332127 original size:51 final size:51
Alignment explanation
Indices: 24332070--24332184 Score: 203
Period size: 51 Copynumber: 2.3 Consensus size: 51
24332060 TCCAAAATTA
** *
24332070 TCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATTTTAATTTCC
1 TCTCAATTTCCTTAAAAAATTCTCTCAAATCCATATTTAATTTCAATTTCC
24332121 TCTCAATTTCCTTAAAAAATTCTCTCAAATCCATATTTAATTTCAATTTCC
1 TCTCAATTTCCTTAAAAAATTCTCTCAAATCCATATTTAATTTCAATTTCC
24332172 TCTCAATTTCCTT
1 TCTCAATTTCCTT
24332185 TTTTAAAATA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.30, C:0.25, G:0.00, T:0.45
Consensus pattern (51 bp):
TCTCAATTTCCTTAAAAAATTCTCTCAAATCCATATTTAATTTCAATTTCC
Found at i:24333337 original size:7 final size:7
Alignment explanation
Indices: 24333327--24333351 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
24333317 ATTCGATTGA
24333327 TATTTAG
1 TATTTAG
24333334 TATTTAG
1 TATTTAG
24333341 TATTTAG
1 TATTTAG
24333348 TATT
1 TATT
24333352 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Done.