Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold353
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: 851076
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.32
Warning! 45297 characters in sequence are not A, C, G, or T
File 1 of 3
Found at i:405 original size:40 final size:40
Alignment explanation
Indices: 309--420 Score: 95
Period size: 40 Copynumber: 2.8 Consensus size: 40
299 TTTTCAAAAT
* * *
309 GCGCCGCTAATGACT-GACCTTTAGTGGCGTTTGACATAAA
1 GCGCCGCTAATG-CTCGATCTTTAGCGGCGTTTCACATAAA
* * * * *
349 GCGTCACTATTTCTCGATCTTTAGCGGCGTTTCTC-TATAA
1 GCGCCGCTAATGCTCGATCTTTAGCGGCGTTTCACATA-AA
*
389 GCGCCGCTAATGCTCGATATATT-GCGGCGTTT
1 GCGCCGCTAATGCTCGATCT-TTAGCGGCGTTT
421 GTTAAAAAAC
Statistics
Matches: 56, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
39 4 0.07
40 50 0.89
41 2 0.04
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.33
Consensus pattern (40 bp):
GCGCCGCTAATGCTCGATCTTTAGCGGCGTTTCACATAAA
Found at i:3333 original size:20 final size:20
Alignment explanation
Indices: 3304--3344 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
3294 AAAAACCTAT
* * *
3304 AATTTGTAAAACATTATTAA
1 AATTTATAAAAAAATATTAA
3324 AATTTATAAAAAAATATTAA
1 AATTTATAAAAAAATATTAA
3344 A
1 A
3345 TAAAATTCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (20 bp):
AATTTATAAAAAAATATTAA
Found at i:24431 original size:10 final size:10
Alignment explanation
Indices: 24403--24432 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
24393 TTTTTATTAT
*
24403 AAATTATACA
1 AAATTATATA
24413 AAATTATATA
1 AAATTATATA
24423 AAATTATATA
1 AAATTATATA
24433 GAGACAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (10 bp):
AAATTATATA
Found at i:39646 original size:27 final size:26
Alignment explanation
Indices: 39605--39657 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
39595 AATGCGTTCA
*
39605 TGCTTATATGTAGGTGCTGAAAGATTC
1 TGCTTATATGAAGGTGCTGAAA-ATTC
*
39632 TGCTTATGTGAAGGTGCTGAAAATTC
1 TGCTTATATGAAGGTGCTGAAAATTC
39658 CAAGAAACAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 4 0.17
27 20 0.83
ACGTcount: A:0.26, C:0.11, G:0.26, T:0.36
Consensus pattern (26 bp):
TGCTTATATGAAGGTGCTGAAAATTC
Found at i:44168 original size:297 final size:297
Alignment explanation
Indices: 43634--44227 Score: 1170
Period size: 297 Copynumber: 2.0 Consensus size: 297
43624 TCTGAAAGGA
43634 ACGTTTCTAATTGGTTTTCTGTGAACACATTGGCGTGCCAAGTGGAGATAGCTGTTTGGTTCCGT
1 ACGTTTCTAATTGGTTTTCTGTGAACACATTGGCGTGCCAAGTGGAGATAGCTGTTTGGTTCCGT
43699 CAAGAGAAGTAGTAACCAGATTTAAATGTCCCACGCGGTTGAGGACATTGGTTCGAGCTAGGCTC
66 CAAGAGAAGTAGTAACCAGATTTAAATGTCCCACGCGGTTGAGGACATTGGTTCGAGCTAGGCTC
43764 TTCTAAAACGTAAAGCTGCCGGAGTTCTAAATCACGAACGTTTCGTGGTTGTTCGATCGGTAAGG
131 TTCTAAAACGTAAAGCTGCCGGAGTTCTAAATCACGAACGTTTCGTGGTTGTTCGATCGGTAAGG
43829 GTTAGTTATTGGACGTTCCATAACTAATTTACACGAGGAAGACTTGGTGTCCGAGGCGTCCTTGG
196 GTTAGTTATTGGACGTTCCATAACTAATTTACACGAGGAAGACTTGGTGTCCGAGGCGTCCTTGG
43894 TAGCTATAACTAGCTTATTGGAAAAGAGGAGTTCATC
261 TAGCTATAACTAGCTTATTGGAAAAGAGGAGTTCATC
43931 ACGTTTCTAATTGGTTTTCTGTGAACACATTGGCGTGCCAAGTGGAGATAGCTGTTTGGTTCCGT
1 ACGTTTCTAATTGGTTTTCTGTGAACACATTGGCGTGCCAAGTGGAGATAGCTGTTTGGTTCCGT
43996 CAAGAGAAGTAGTAACCAGATTTAAATGTCCCACGCGGTTGAGGACATTGGTTCGAGCTAGGCTC
66 CAAGAGAAGTAGTAACCAGATTTAAATGTCCCACGCGGTTGAGGACATTGGTTCGAGCTAGGCTC
44061 TTCTAAAACGTAAAGCTGCCGGAGTTCTAAATCACGAACGTTTCGTGGTTGTTCGATCGGTAAGG
131 TTCTAAAACGTAAAGCTGCCGGAGTTCTAAATCACGAACGTTTCGTGGTTGTTCGATCGGTAAGG
44126 GTTAGTTATTGGACGTTCCATAACTAATTTACACGAGGAAGACTTGGTGTCCGAGGCGTCCTTGG
196 GTTAGTTATTGGACGTTCCATAACTAATTTACACGAGGAAGACTTGGTGTCCGAGGCGTCCTTGG
* *
44191 TAGCTATAACTAGCTTATTGGATAGGAGGAGTTCATC
261 TAGCTATAACTAGCTTATTGGAAAAGAGGAGTTCATC
44228 TAATTTCGAG
Statistics
Matches: 295, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
297 295 1.00
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (297 bp):
ACGTTTCTAATTGGTTTTCTGTGAACACATTGGCGTGCCAAGTGGAGATAGCTGTTTGGTTCCGT
CAAGAGAAGTAGTAACCAGATTTAAATGTCCCACGCGGTTGAGGACATTGGTTCGAGCTAGGCTC
TTCTAAAACGTAAAGCTGCCGGAGTTCTAAATCACGAACGTTTCGTGGTTGTTCGATCGGTAAGG
GTTAGTTATTGGACGTTCCATAACTAATTTACACGAGGAAGACTTGGTGTCCGAGGCGTCCTTGG
TAGCTATAACTAGCTTATTGGAAAAGAGGAGTTCATC
Found at i:46341 original size:22 final size:22
Alignment explanation
Indices: 46313--46381 Score: 93
Period size: 22 Copynumber: 3.1 Consensus size: 22
46303 TCTCAGATTA
* *
46313 TTAGCACATTAGTGCTATCCGT
1 TTAGCACATTAGTGCTCTCTGT
*
46335 TTAGCACATTTGTGCTCTCTGT
1 TTAGCACATTAGTGCTCTCTGT
* *
46357 ATAGCACTTTAGTGCTCTCTGT
1 TTAGCACATTAGTGCTCTCTGT
46379 TTA
1 TTA
46382 ATAGTGCATA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.42
Consensus pattern (22 bp):
TTAGCACATTAGTGCTCTCTGT
Found at i:48135 original size:16 final size:16
Alignment explanation
Indices: 48115--48167 Score: 79
Period size: 16 Copynumber: 3.3 Consensus size: 16
48105 TTGGTTCGCT
*
48115 GTAATGGAATAGAGGT
1 GTAATGGAATAGAGGC
* *
48131 GTAATAGAATAGATGC
1 GTAATGGAATAGAGGC
48147 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
48163 GTAAT
1 GTAAT
48168 AGGTAATTCT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.40, C:0.04, G:0.32, T:0.25
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:48236 original size:44 final size:46
Alignment explanation
Indices: 48149--48237 Score: 146
Period size: 44 Copynumber: 2.0 Consensus size: 46
48139 ATAGATGCGT
*
48149 AATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTCGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTCGTTGAATGG
*
48195 AATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAATG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTCGTTGAATG
48238 TAATAGAGGT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 19 0.46
45 3 0.07
46 19 0.46
ACGTcount: A:0.27, C:0.06, G:0.30, T:0.37
Consensus pattern (46 bp):
AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTCGTTGAATGG
Found at i:48237 original size:39 final size:44
Alignment explanation
Indices: 48149--48254 Score: 123
Period size: 39 Copynumber: 2.5 Consensus size: 44
48139 ATAGATGCGT
*
48149 AATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTCGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTCG-TG-ATGG
*
48195 AATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTT-G-G-TTG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTCGTGATGG
* *
48234 AATGTAATAGAGGTGTAATAG
1 AATGGAATAGAGGCGTAATAG
48255 CATAAGGAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
39 19 0.35
40 1 0.02
41 1 0.02
43 1 0.02
44 11 0.20
45 3 0.05
46 19 0.35
ACGTcount: A:0.29, C:0.05, G:0.30, T:0.36
Consensus pattern (44 bp):
AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTCGTGATGG
Found at i:51065 original size:45 final size:45
Alignment explanation
Indices: 50999--51288 Score: 420
Period size: 45 Copynumber: 6.4 Consensus size: 45
50989 AGTATACAGT
* * * *
50999 AATCAGTAACGGTAGCAGTAACAGTATTCAACACACAAAGTGCTG
1 AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
* * *
51044 AATCTGTAACAGTAACGGTAACAGTATTCGACACACAAAGTGTCG
1 AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
*
51089 AATC-GATAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCG
1 AATCAG-TAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
* *
51134 AGTCAGTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCG
1 AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
*
51179 AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGTCG
1 AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
* * * * *
51224 AGTCGGTAATAGTAACAGTAACATTATTCGACACACCAAGTGCCG
1 AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
51269 AATCAGTAACAGTAACAGTA
1 AATCAGTAACAGTAACAGTA
51289 GTCGGCACAT
Statistics
Matches: 218, Mismatches: 25, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
44 1 0.00
45 216 0.99
46 1 0.00
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.20
Consensus pattern (45 bp):
AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
Found at i:55594 original size:23 final size:22
Alignment explanation
Indices: 55562--55606 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 22
55552 TTGAAAGTAA
55562 GAAATGAAACAGGAATAGAAAT
1 GAAATGAAACAGGAATAGAAAT
55584 GAAAGTGAAACAGGAATAGAAAT
1 GAAA-TGAAACAGGAATAGAAAT
55607 CGGGAGCTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.58, C:0.04, G:0.24, T:0.13
Consensus pattern (22 bp):
GAAATGAAACAGGAATAGAAAT
Found at i:59949 original size:16 final size:16
Alignment explanation
Indices: 59930--59968 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
59920 AACTGATGTG
59930 AAGAAAATATAGAGGA
1 AAGAAAATATAGAGGA
59946 AAGAAAATATAGAGGA
1 AAGAAAATATAGAGGA
59962 AAGAAAA
1 AAGAAAA
59969 AAACGTGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.67, C:0.00, G:0.23, T:0.10
Consensus pattern (16 bp):
AAGAAAATATAGAGGA
Found at i:60041 original size:17 final size:16
Alignment explanation
Indices: 60015--60046 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
60005 TTTTACTTCC
60015 AAAAATAAAATAAATT
1 AAAAATAAAATAAATT
60031 AAAAATCAAAATAAAT
1 AAAAAT-AAAATAAAT
60047 AACTAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (16 bp):
AAAAATAAAATAAATT
Found at i:66379 original size:42 final size:42
Alignment explanation
Indices: 66316--66461 Score: 141
Period size: 42 Copynumber: 3.5 Consensus size: 42
66306 ATATTTGCTT
* * *
66316 GTTTAGCTCTTTTGAGTTTCAGTTTAACCCTAATGGGTTTTA
1 GTTTAGCTCTTATGAGCTTCAGTTTAACCCTTATGGGTTTTA
* * * * *
66358 GTTTAGCTCTTCTGAGCTTCAGATTAACCTTTATGGATTTTC
1 GTTTAGCTCTTATGAGCTTCAGTTTAACCCTTATGGGTTTTA
* * * *
66400 GTTCAGCTCTTATGAGCTTCCGTTCAACCCTTATAGGTTTCT-
1 GTTTAGCTCTTATGAGCTTCAGTTTAACCCTTATGGGTTT-TA
* * *
66442 TTTTAGCACTTATGTGCTTC
1 GTTTAGCTCTTATGAGCTTC
66462 TGTGCAGCCT
Statistics
Matches: 84, Mismatches: 19, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
42 83 0.99
43 1 0.01
ACGTcount: A:0.18, C:0.20, G:0.17, T:0.45
Consensus pattern (42 bp):
GTTTAGCTCTTATGAGCTTCAGTTTAACCCTTATGGGTTTTA
Found at i:75300 original size:6 final size:6
Alignment explanation
Indices: 75291--75330 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
75281 AAAACGACCA
* *
75291 CCACGT CCACGT CCAGGT CCACGC CCACGT CCACGT CCAC
1 CCACGT CCACGT CCACGT CCACGT CCACGT CCACGT CCAC
75331 CTCGATGTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.17, C:0.53, G:0.17, T:0.12
Consensus pattern (6 bp):
CCACGT
Found at i:77483 original size:249 final size:249
Alignment explanation
Indices: 77045--77521 Score: 954
Period size: 249 Copynumber: 1.9 Consensus size: 249
77035 CATCACACAA
77045 GGCACAAAGGGTGTAAAGTTTGGTCAAAGCAAATGTGCTAATTTCTAAAAGATAACTAGCTTAAG
1 GGCACAAAGGGTGTAAAGTTTGGTCAAAGCAAATGTGCTAATTTCTAAAAGATAACTAGCTTAAG
77110 AATTTGTTTCGTAGCATTAGGCAATGTGTCCCCGACAATCAATGTTTATTTAATTTTGAGCTTTA
66 AATTTGTTTCGTAGCATTAGGCAATGTGTCCCCGACAATCAATGTTTATTTAATTTTGAGCTTTA
77175 TTTAAAATAGAAGCATCAAAGTACCTTTGGGGCAACATGTGAAGAAACAGGTAATGGCAATAATG
131 TTTAAAATAGAAGCATCAAAGTACCTTTGGGGCAACATGTGAAGAAACAGGTAATGGCAATAATG
77240 GAGGCTGAGCTTCTGAGACAACAGGTACTGATGTGAAGAAACTTTACACCCTTT
196 GAGGCTGAGCTTCTGAGACAACAGGTACTGATGTGAAGAAACTTTACACCCTTT
77294 GGCACAAAGGGTGTAAAGTTTGGTCAAAGCAAATGTGCTAATTTCTAAAAGATAACTAGCTTAAG
1 GGCACAAAGGGTGTAAAGTTTGGTCAAAGCAAATGTGCTAATTTCTAAAAGATAACTAGCTTAAG
77359 AATTTGTTTCGTAGCATTAGGCAATGTGTCCCCGACAATCAATGTTTATTTAATTTTGAGCTTTA
66 AATTTGTTTCGTAGCATTAGGCAATGTGTCCCCGACAATCAATGTTTATTTAATTTTGAGCTTTA
77424 TTTAAAATAGAAGCATCAAAGTACCTTTGGGGCAACATGTGAAGAAACAGGTAATGGCAATAATG
131 TTTAAAATAGAAGCATCAAAGTACCTTTGGGGCAACATGTGAAGAAACAGGTAATGGCAATAATG
77489 GAGGCTGAGCTTCTGAGACAACAGGTACTGATG
196 GAGGCTGAGCTTCTGAGACAACAGGTACTGATG
77522 GTTCAGGCGA
Statistics
Matches: 228, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
249 228 1.00
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.29
Consensus pattern (249 bp):
GGCACAAAGGGTGTAAAGTTTGGTCAAAGCAAATGTGCTAATTTCTAAAAGATAACTAGCTTAAG
AATTTGTTTCGTAGCATTAGGCAATGTGTCCCCGACAATCAATGTTTATTTAATTTTGAGCTTTA
TTTAAAATAGAAGCATCAAAGTACCTTTGGGGCAACATGTGAAGAAACAGGTAATGGCAATAATG
GAGGCTGAGCTTCTGAGACAACAGGTACTGATGTGAAGAAACTTTACACCCTTT
Found at i:79259 original size:18 final size:15
Alignment explanation
Indices: 79222--79258 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
79212 TCTTTCTTTC
79222 TCATCATAATAAATA
1 TCATCATAATAAATA
79237 TCATCATAATAAATA
1 TCATCATAATAAATA
79252 TCATCAT
1 TCATCAT
79259 CTTATTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (15 bp):
TCATCATAATAAATA
Found at i:79273 original size:8 final size:8
Alignment explanation
Indices: 79260--79315 Score: 96
Period size: 8 Copynumber: 7.1 Consensus size: 8
79250 TATCATCATC
79260 TTATTATT
1 TTATTATT
79268 TTATTATT
1 TTATTATT
79276 TTATTATT
1 TTATTATT
79284 TTATTATT
1 TTATTATT
79292 TTATTATT
1 TTATTATT
*
79300 TTTTTATT
1 TTATTATT
79308 TT-TTATT
1 TTATTATT
79315 T
1 T
79316 GAATTTGTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
7 6 0.13
8 41 0.87
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (8 bp):
TTATTATT
Found at i:80971 original size:44 final size:44
Alignment explanation
Indices: 80866--81077 Score: 219
Period size: 44 Copynumber: 4.5 Consensus size: 44
80856 TATGTATGAT
* *
80866 CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCT-AAGTTAC
1 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTAC
*
80909 CACTTATCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
1 CAC-T-T-A--T--CACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTAC
* *
80960 CACTTATCACTTTTCACTGATCAGATAAGTGCAGCTGAAGCTATCAC
1 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGC--T-AC
* *
81007 TTATCACTTGTCACTTGTCACTGATCAGATAACTGTAGCTGAAGCTAC
1 ----CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTAC
*
81055 TACTTATCACTTGTCACTGATCA
1 CACTTATCACTTGTCACTGATCA
81078 AAAATACTCA
Statistics
Matches: 143, Mismatches: 11, Indels: 29
0.78 0.06 0.16
Matches are distributed among these distances:
43 3 0.02
44 53 0.37
45 1 0.01
46 3 0.02
47 2 0.01
48 4 0.03
49 2 0.01
50 29 0.20
51 46 0.32
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (44 bp):
CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTAC
Found at i:81015 original size:51 final size:51
Alignment explanation
Indices: 80864--81072 Score: 265
Period size: 51 Copynumber: 4.3 Consensus size: 51
80854 CTTATGTATG
* * * *
80864 ATCACTTATCACTTGTCCCTGATCAGATAAGTGTAGCT-AAGTTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTT
* * *
80914 ATCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTT
*
80965 ATCAC---T---TT-TCACTGATCAGATAAGTGCAGCTGAAGCTATCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTT
*
81009 ATCACTTGTCACTTGTCACTGATCAGATAACTGTAGCTGAAGCTA-CTACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATC-ACTT
81060 ATCACTTGTCACT
1 ATCACTTGTCACT
81073 GATCAAAAAT
Statistics
Matches: 140, Mismatches: 10, Indels: 17
0.84 0.06 0.10
Matches are distributed among these distances:
44 38 0.27
45 2 0.01
47 1 0.01
50 38 0.27
51 61 0.44
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (51 bp):
ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTT
Found at i:81031 original size:95 final size:94
Alignment explanation
Indices: 80866--81077 Score: 334
Period size: 95 Copynumber: 2.2 Consensus size: 94
80856 TATGTATGAT
* * *
80866 CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAAGTTACCACTTATCACTTGCCACTTGTC
1 CACTTATCACTTGTCACTGATCAGATAAGTGCAGCTAAGCTACCACTTATCACTTGCCACTTGTC
*
80931 ACTGATCAGATAAGTGTAGCTAAAGCTAC
66 ACTGATCAGATAACTGTAGCTAAAGCTAC
* * *
80960 CACTTATCACTTTTCACTGATCAGATAAGTGCAGCTGAAGCTATCACTTATCACTTGTCACTTGT
1 CACTTATCACTTGTCACTGATCAGATAAGTGCAGCT-AAGCTACCACTTATCACTTGCCACTTGT
*
81025 CACTGATCAGATAACTGTAGCTGAAGCTAC
65 CACTGATCAGATAACTGTAGCTAAAGCTAC
*
81055 TACTTATCACTTGTCACTGATCA
1 CACTTATCACTTGTCACTGATCA
81078 AAAATACTCA
Statistics
Matches: 107, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
94 33 0.31
95 74 0.69
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (94 bp):
CACTTATCACTTGTCACTGATCAGATAAGTGCAGCTAAGCTACCACTTATCACTTGCCACTTGTC
ACTGATCAGATAACTGTAGCTAAAGCTAC
Found at i:84840 original size:9 final size:9
Alignment explanation
Indices: 84826--84862 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
84816 TATAGTTTGA
84826 TATTCGAAT
1 TATTCGAAT
84835 TATTCGAAT
1 TATTCGAAT
*
84844 TATTCGAGT
1 TATTCGAAT
84853 TATTCGAAT
1 TATTCGAAT
84862 T
1 T
84863 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:86540 original size:10 final size:11
Alignment explanation
Indices: 86525--86549 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
86515 ATTATTCTTT
86525 AAAAAAAACAA
1 AAAAAAAACAA
86536 AAAAAAAACAA
1 AAAAAAAACAA
86547 AAA
1 AAA
86550 GCGCAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAACAA
Found at i:86629 original size:15 final size:15
Alignment explanation
Indices: 86609--86642 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
86599 CTTCTTTTCC
86609 TATTATTGTTATTGT
1 TATTATTGTTATTGT
* *
86624 TATTATTTTTATTTT
1 TATTATTGTTATTGT
86639 TATT
1 TATT
86643 TTTCCCAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.74
Consensus pattern (15 bp):
TATTATTGTTATTGT
Found at i:86951 original size:18 final size:19
Alignment explanation
Indices: 86917--86954 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
86907 AGTTTGCACC
86917 TCCGTTATTTGATCTTGAT
1 TCCGTTATTTGATCTTGAT
86936 TCCGTTATTT-ATCTTGAT
1 TCCGTTATTTGATCTTGAT
86954 T
1 T
86955 AGTAACCCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.16, C:0.16, G:0.13, T:0.55
Consensus pattern (19 bp):
TCCGTTATTTGATCTTGAT
Found at i:100776 original size:45 final size:45
Alignment explanation
Indices: 100712--101276 Score: 1121
Period size: 45 Copynumber: 12.6 Consensus size: 45
100702 TGTCCTGAAG
100712 ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
1 ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
100757 ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
1 ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
100802 ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
1 ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
100847 ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
1 ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
100892 ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
1 ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
100937 ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
1 ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
100982 ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
1 ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
101027 ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
1 ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
101072 ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
1 ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
101117 ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
1 ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
101162 ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
1 ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
101207 ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
1 ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
*
101252 ACTAGGAAGGAACCTGAGGATGGTG
1 ACTAGGAAGGAGCCTGAGGATGGTG
101277 AGAACAGAAG
Statistics
Matches: 519, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 519 1.00
ACGTcount: A:0.25, C:0.09, G:0.48, T:0.18
Consensus pattern (45 bp):
ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
Found at i:107367 original size:122 final size:122
Alignment explanation
Indices: 107230--107474 Score: 490
Period size: 122 Copynumber: 2.0 Consensus size: 122
107220 AAATTTAATC
107230 CTATTACATTATATGAATTTAGTTATAATTTTAAAAAATTAATCCTCAAAATTTACAATTAATTT
1 CTATTACATTATATGAATTTAGTTATAATTTTAAAAAATTAATCCTCAAAATTTACAATTAATTT
107295 CAATTTATTCTAATTCTAAAAAGTTTAAAGAAATATATAAAAATACATAAATATTTT
66 CAATTTATTCTAATTCTAAAAAGTTTAAAGAAATATATAAAAATACATAAATATTTT
107352 CTATTACATTATATGAATTTAGTTATAATTTTAAAAAATTAATCCTCAAAATTTACAATTAATTT
1 CTATTACATTATATGAATTTAGTTATAATTTTAAAAAATTAATCCTCAAAATTTACAATTAATTT
107417 CAATTTATTCTAATTCTAAAAAGTTTAAAGAAATATATAAAAATACATAAATATTTT
66 CAATTTATTCTAATTCTAAAAAGTTTAAAGAAATATATAAAAATACATAAATATTTT
107474 C
1 C
107475 ATAAAAATAT
Statistics
Matches: 123, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
122 123 1.00
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.42
Consensus pattern (122 bp):
CTATTACATTATATGAATTTAGTTATAATTTTAAAAAATTAATCCTCAAAATTTACAATTAATTT
CAATTTATTCTAATTCTAAAAAGTTTAAAGAAATATATAAAAATACATAAATATTTT
Found at i:108110 original size:30 final size:30
Alignment explanation
Indices: 108074--108133 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
108064 TTTTGATTTT
108074 AACGGGAATGACTAAAATGATCAAATTATG
1 AACGGGAATGACTAAAATGATCAAATTATG
108104 AACGGGAATGACTAAAATGATCAAATTATG
1 AACGGGAATGACTAAAATGATCAAATTATG
108134 TAGCATGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.47, C:0.10, G:0.20, T:0.23
Consensus pattern (30 bp):
AACGGGAATGACTAAAATGATCAAATTATG
Found at i:117738 original size:24 final size:25
Alignment explanation
Indices: 117685--117738 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 25
117675 TTACTCTAAT
117685 TTTTTAGTATGCTTAAAATTTAATAA
1 TTTTTAGTATGC-TAAAATTTAATAA
117711 --TTTAGTAT-C-AAAATTTCAATAA
1 TTTTTAGTATGCTAAAATTT-AATAA
117733 TTTTTA
1 TTTTTA
117739 AAAACTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
21 7 0.28
22 5 0.20
23 1 0.04
24 12 0.48
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.50
Consensus pattern (25 bp):
TTTTTAGTATGCTAAAATTTAATAA
Found at i:123958 original size:73 final size:73
Alignment explanation
Indices: 123862--124015 Score: 236
Period size: 73 Copynumber: 2.1 Consensus size: 73
123852 CGTGTGGTCA
** *
123862 GGCCGTGTGTCTCACATGGTCAAGAGACACGCCTGTGTCTCAAGCCATGTGGACATTCGAAATAG
1 GGCCGTGTGTCTCACACAGTCAAGAGACACGCCTGTGTCTCAAGCCATGTGGACATTCAAAATAG
123927 GGGCACAC
66 GGGCACAC
* * * *
123935 GGCTGTGTGTCTCACACAGTCAAGAGACACGTCTGTGTCTCAGGCCGTGTGGACATTCAAAATAG
1 GGCCGTGTGTCTCACACAGTCAAGAGACACGCCTGTGTCTCAAGCCATGTGGACATTCAAAATAG
*
124000 GGGCACAT
66 GGGCACAC
124008 GGCCGTGT
1 GGCCGTGT
124016 CCCAGCCCGT
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.23, C:0.25, G:0.30, T:0.22
Consensus pattern (73 bp):
GGCCGTGTGTCTCACACAGTCAAGAGACACGCCTGTGTCTCAAGCCATGTGGACATTCAAAATAG
GGGCACAC
Found at i:124309 original size:54 final size:54
Alignment explanation
Indices: 124226--124341 Score: 187
Period size: 54 Copynumber: 2.1 Consensus size: 54
124216 ACGGCTTAGC
* * *
124226 ACATGAGCGTGTGACTTGGCCGTGTGACCCAAGTCAGTAAGCACCCTAATTTGG
1 ACATGGGCATGTGACTTGACCGTGTGACCCAAGTCAGTAAGCACCCTAATTTGG
*
124280 ACATGGGCATGTGGCTTGACCGTGTGACCCAAGTCAGTAAGCACCCTAATTTGG
1 ACATGGGCATGTGACTTGACCGTGTGACCCAAGTCAGTAAGCACCCTAATTTGG
*
124334 ACACGGGC
1 ACATGGGC
124342 TGGGACACAA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.22
Consensus pattern (54 bp):
ACATGGGCATGTGACTTGACCGTGTGACCCAAGTCAGTAAGCACCCTAATTTGG
Found at i:125444 original size:24 final size:24
Alignment explanation
Indices: 125417--125512 Score: 68
Period size: 24 Copynumber: 4.0 Consensus size: 24
125407 GTGAGTCGTG
*
125417 TAACGGAAAGCTCTGGAGAGCCAT
1 TAACGGAAAGCTCAGGAGAGCCAT
* * * * *
125441 TAACGGGAAGTTCAAGCGAGCCAA
1 TAACGGAAAGCTCAGGAGAGCCAT
* *
125465 TATC-GAGAAGCTCCGGAGAGCCAT
1 TAACGGA-AAGCTCAGGAGAGCCAT
* * *
125489 TAATCGGGAAGTTCATGAGAGCCA
1 TAA-CGGAAAGCTCAGGAGAGCCA
125513 GTTATCGGGA
Statistics
Matches: 51, Mismatches: 18, Indels: 5
0.69 0.24 0.07
Matches are distributed among these distances:
23 1 0.02
24 35 0.69
25 14 0.27
26 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.29, T:0.17
Consensus pattern (24 bp):
TAACGGAAAGCTCAGGAGAGCCAT
Found at i:125449 original size:25 final size:24
Alignment explanation
Indices: 125384--125522 Score: 89
Period size: 25 Copynumber: 5.6 Consensus size: 24
125374 AAGCTCTTTC
* * *
125384 GAGCCATATAATGGGAAGCTCAAGT
1 GAGCCAT-TAACGGGAAGCTCAGGA
* * * *
125409 GAGTCGTGTAACGGAAAGCTCTGGA
1 GAGCCAT-TAACGGGAAGCTCAGGA
* * *
125434 GAGCCATTAACGGGAAGTTCAAGC
1 GAGCCATTAACGGGAAGCTCAGGA
* * * *
125458 GAGCCAATATCGAGAAGCTCCGGA
1 GAGCCATTAACGGGAAGCTCAGGA
* *
125482 GAGCCATTAATCGGGAAGTTCATGA
1 GAGCCATTAA-CGGGAAGCTCAGGA
*
125507 GAGCCAGTTATCGGGA
1 GAGCCA-TTAACGGGA
125523 TGCTTTGAAG
Statistics
Matches: 83, Mismatches: 29, Indels: 4
0.72 0.25 0.03
Matches are distributed among these distances:
24 37 0.45
25 43 0.52
26 3 0.04
ACGTcount: A:0.32, C:0.19, G:0.31, T:0.19
Consensus pattern (24 bp):
GAGCCATTAACGGGAAGCTCAGGA
Found at i:127992 original size:27 final size:25
Alignment explanation
Indices: 127969--128043 Score: 75
Period size: 25 Copynumber: 2.9 Consensus size: 25
127959 ACTAGGGTAG
127969 GAAAAGAAAAAGAAAAAAAAAGGGAA
1 GAAAAGAAAAAGAAAAAAAAAGGG-A
127995 GAAAA-AAACAA-AAGAAGAAAAAGGGA
1 GAAAAGAAA-AAGAA-AA-AAAAAGGGA
*
128021 -AAATGAAAAAGAATAAAAAAAGG
1 GAAAAGAAAAAGAA-AAAAAAAGG
128044 TGCAAATAGG
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
25 17 0.40
26 17 0.40
27 8 0.19
ACGTcount: A:0.75, C:0.01, G:0.21, T:0.03
Consensus pattern (25 bp):
GAAAAGAAAAAGAAAAAAAAAGGGA
Found at i:128000 original size:16 final size:16
Alignment explanation
Indices: 127978--128016 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
127968 GGAAAAGAAA
**
127978 AAGAAAAAAA-AAGGG
1 AAGAAAAAAACAAAAG
127993 AAGAAAAAAACAAAAG
1 AAGAAAAAAACAAAAG
128009 AAGAAAAA
1 AAGAAAAA
128017 GGGAAAATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (16 bp):
AAGAAAAAAACAAAAG
Found at i:131037 original size:30 final size:30
Alignment explanation
Indices: 131003--131060 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
130993 ATGATTTTGC
131003 ATGCAATATTATTGTTGAGACAATGAGGAG
1 ATGCAATATTATTGTTGAGACAATGAGGAG
131033 ATGCAATATTATTGTTGAGACAATGAGG
1 ATGCAATATTATTGTTGAGACAATGAGG
131061 GGGATCTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (30 bp):
ATGCAATATTATTGTTGAGACAATGAGGAG
Found at i:140099 original size:43 final size:43
Alignment explanation
Indices: 140041--140204 Score: 217
Period size: 42 Copynumber: 3.9 Consensus size: 43
140031 GTGCTTACAA
* * * *
140041 AAAAAAACGCCGCTAAAGGTCATGTTTTTTAGCGGCGCTTAGG
1 AAAAAAACGCCGCTAAAAGTAATGTTCTATAGCGGCGCTTAGG
*
140084 AAAAAAACGCTGCTAAAAGTAATGTTCTATAGCGGCGCTTA--
1 AAAAAAACGCCGCTAAAAGTAATGTTCTATAGCGGCGCTTAGG
*
140125 ATAAAAAACGTCGCTAAAAGTAATGTTCTATAGCGGCGCTT-GG
1 A-AAAAAACGCCGCTAAAAGTAATGTTCTATAGCGGCGCTTAGG
* * *
140168 TAGAAAACGCCGCTAAAAGTAATGTTCTTTAGCGGCG
1 AAAAAAACGCCGCTAAAAGTAATGTTCTATAGCGGCG
140205 TTTCATCTAC
Statistics
Matches: 107, Mismatches: 11, Indels: 7
0.86 0.09 0.06
Matches are distributed among these distances:
41 1 0.01
42 70 0.65
43 36 0.34
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (43 bp):
AAAAAAACGCCGCTAAAAGTAATGTTCTATAGCGGCGCTTAGG
Found at i:140144 original size:42 final size:42
Alignment explanation
Indices: 140042--140238 Score: 216
Period size: 42 Copynumber: 4.6 Consensus size: 42
140032 TGCTTACAAA
* * * *
140042 AAAAAACGCCGCTAAAGGTCATGTTTTTTAGCGGCGCTTAGGA-
1 AAAAAACGCCGCTAAAAGTAATGTTCTATAGCGGCGCTTA--AT
*
140085 AAAAAACGCTGCTAAAAGTAATGTTCTATAGCGGCGCTTAAT
1 AAAAAACGCCGCTAAAAGTAATGTTCTATAGCGGCGCTTAAT
* **
140127 AAAAAACGTCGCTAAAAGTAATGTTCTATAGCGGCGCTTGGT
1 AAAAAACGCCGCTAAAAGTAATGTTCTATAGCGGCGCTTAAT
* * * *
140169 AGAAAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGTTTCAT
1 AAAAAACGCCGCTAAAAGTAATGTTCTATAGCGGCGCTTAAT
* * * *
140211 CTACAAACGCAGCTAAAAGTAGTGTTCT
1 -AAAAAACGCCGCTAAAAGTAATGTTCT
140239 TTCGCGACGC
Statistics
Matches: 132, Mismatches: 20, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
41 1 0.01
42 74 0.56
43 57 0.43
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (42 bp):
AAAAAACGCCGCTAAAAGTAATGTTCTATAGCGGCGCTTAAT
Found at i:140201 original size:84 final size:85
Alignment explanation
Indices: 140042--140238 Score: 243
Period size: 85 Copynumber: 2.3 Consensus size: 85
140032 TGCTTACAAA
* * * * *
140042 AAAAAACGCCGCTAAAGGTCATGTTTTTTAGCGGCGCTTAGGAAAAAAACGCTGCTAAAAGTAAT
1 AAAAAACGCCGCTAAAAGTAATGTTCTATAGCGGCGCTTAGGAAAAAAACGCCGCTAAAAGTAAT
140107 GTTCTATAGCGGCGCTTAAT
66 GTTCTATAGCGGCGCTTAAT
* * *
140127 AAAAAACGTCGCTAAAAGTAATGTTCTATAGCGGCGCTT-GGTAGAAAACGCCGCTAAAAGTAAT
1 AAAAAACGCCGCTAAAAGTAATGTTCTATAGCGGCGCTTAGGAAAAAAACGCCGCTAAAAGTAAT
* * *
140191 GTTCTTTAGCGGCGTTTCAT
66 GTTCTATAGCGGCGCTTAAT
* * * *
140211 CTACAAACGCAGCTAAAAGTAGTGTTCT
1 -AAAAAACGCCGCTAAAAGTAATGTTCT
140239 TTCGCGACGC
Statistics
Matches: 95, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
84 39 0.41
85 56 0.59
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (85 bp):
AAAAAACGCCGCTAAAAGTAATGTTCTATAGCGGCGCTTAGGAAAAAAACGCCGCTAAAAGTAAT
GTTCTATAGCGGCGCTTAAT
Found at i:140260 original size:43 final size:43
Alignment explanation
Indices: 140088--140263 Score: 144
Period size: 42 Copynumber: 4.1 Consensus size: 43
140078 CTTAGGAAAA
* * * * * *
140088 AAACGCTGCTAAAAGTAATGTTCTATAGCGGCGCTTAAT-AAA
1 AAACGCAGCTAAAAGTAATGTTCTTTAGCGACGCTTCATCTAC
* * ** **
140130 AAACGTC-GCTAAAAGTAATGTTCTATAGCGGCGCTTGGTAGA-
1 AAACG-CAGCTAAAAGTAATGTTCTTTAGCGACGCTTCATCTAC
* * *
140172 AAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGTTTCATCTAC
1 AAACGCAGCTAAAAGTAATGTTCTTTAGCGACGCTTCATCTAC
* * *
140215 AAACGCAGCTAAAAGTAGTGTTCTTTCGCGACGCTT-ATTTCAC
1 AAACGCAGCTAAAAGTAATGTTCTTTAGCGACGCTTCATCT-AC
140258 AAACGC
1 AAACGC
140264 CACTATATGA
Statistics
Matches: 114, Mismatches: 15, Indels: 9
0.83 0.11 0.07
Matches are distributed among these distances:
41 1 0.01
42 72 0.63
43 41 0.36
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.27
Consensus pattern (43 bp):
AAACGCAGCTAAAAGTAATGTTCTTTAGCGACGCTTCATCTAC
Found at i:144078 original size:60 final size:61
Alignment explanation
Indices: 143993--144113 Score: 208
Period size: 60 Copynumber: 2.0 Consensus size: 61
143983 CAAAGGCGCC
143993 ACTAAATTAACCGTCCAAACGATGTCGTTTTCCAAAAAACTAGGACAAGTTTCTGGCGTTT
1 ACTAAATTAACCGTCCAAACGATGTCGTTTTCCAAAAAACTAGGACAAGTTTCTGGCGTTT
* * *
144054 ACTAAATTAA-CGTCCAAATGATGTCGTTTTCCAAAAAAGTAGGACAAGTTTCTGGGGTTT
1 ACTAAATTAACCGTCCAAACGATGTCGTTTTCCAAAAAACTAGGACAAGTTTCTGGCGTTT
144114 TGGCACAAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
60 47 0.82
61 10 0.18
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (61 bp):
ACTAAATTAACCGTCCAAACGATGTCGTTTTCCAAAAAACTAGGACAAGTTTCTGGCGTTT
Found at i:145425 original size:114 final size:113
Alignment explanation
Indices: 145151--145598 Score: 519
Period size: 114 Copynumber: 3.9 Consensus size: 113
145141 TGATAATCTA
** * *
145151 GCGGCGCTTCCCACAACGCGCCGCTAATAATATGT-TTTAGCGGCGTTTTACC-ATAAGCGCCAC
1 GCGGCGCTTTTCACTACGCGCCGCTAATACTAT-TCTTTAGCGGCGTTTT-CCGATAAGCGCCAC
* * * *
145214 -AACTGCTAGTATACATCAAGACCAAAACGCTGCATTTTAGTTAA-TATTTT
64 TAA-TGCTAGTATACATCAAGACC-AAACGCTGCGTTTTGGTTAAGAATATT
* * * *
145264 GCGGCGCTTTACAATAAGCGCCGCTAATACTATGCTTTAGCGGCGTTTTCCGATAAGCGCCACTA
1 GCGGCGCTTTTCACTACGCGCCGCTAATACTATTCTTTAGCGGCGTTTTCCGATAAGCGCCACTA
* * * *
145329 ATCCTAATATACCTCAAGACCAAACTCTGCGTTTTGGTTAAGAACTATT
66 ATGCTAGTATACATCAAGACCAAACGCTGCGTTTTGGTTAAGAA-TATT
* *
145378 GCGGCGCTTTTCACTACTCGCCGCTAATACTATTCTTTAGCGGCGTTTT-TGTATAAGCGCCACT
1 GCGGCGCTTTTCACTACGCGCCGCTAATACTATTCTTTAGCGGCGTTTTCCG-ATAAGCGCCACT
* * *
145442 AATGCTAGTGTACCTCAAGACCAAACTCTGCGTTTTGGTTAAGAAATATT
65 AATGCTAGTATACATCAAGACCAAACGCTGCGTTTTGGTTAAG-AATATT
* * * * *** *
145492 GCGGCGCTTTTCAGTTCTCGCCGCTAATACTATACTTTAGCGGCGTTTTAATATAAGCGTCACTA
1 GCGGCGCTTTTCACTACGCGCCGCTAATACTATTCTTTAGCGGCGTTTTCCGATAAGCGCCACTA
*
145557 ATGCTACTATACATCAAGACCAAAGCGCTGCGTTTTGGTTAA
66 ATGCTAGTATACATCAAGACCAAA-CGCTGCGTTTTGGTTAA
145599 TCTTTTGCGG
Statistics
Matches: 292, Mismatches: 34, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
112 19 0.07
113 71 0.24
114 184 0.63
115 18 0.06
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.31
Consensus pattern (113 bp):
GCGGCGCTTTTCACTACGCGCCGCTAATACTATTCTTTAGCGGCGTTTTCCGATAAGCGCCACTA
ATGCTAGTATACATCAAGACCAAACGCTGCGTTTTGGTTAAGAATATT
Found at i:145576 original size:228 final size:228
Alignment explanation
Indices: 145151--145598 Score: 571
Period size: 228 Copynumber: 2.0 Consensus size: 228
145141 TGATAATCTA
145151 GCGGCGCTTCCCACAACGCGCCGCTAATAATATGTTTTAGCGGCGTTTTACCATAAGCGCCACAA
1 GCGGCGCTTCCCACAACGCGCCGCTAATAATATGTTTTAGCGGCGTTTTACCATAAGCGCCACAA
* *
145216 CTGCTAGTATACATCAAGACCAAAACGCTGCATTTTAGTTAATATTTTGCGGCGCTTTACAATAA
66 CTGCTAGTATACATCAAGACCAAAACGCTGCATTTTAGTTAAAATATTGCGGCGCTTTACAATAA
* ** *
145281 GCGCCGCTAATACTATGCTTTAGCGGCGTTTTCCGATAAGCGCCACTAATCCTAATATACCTCAA
131 GCGCCGCTAATACTATACTTTAGCGGCGTTTTAAGATAAGCGCCACTAATCCTAATATACATCAA
*
145346 GACCAAA-CTCTGCGTTTTGGTTAAGAACTATT
196 GACCAAAGCGCTGCGTTTTGGTTAAGAACTATT
** * * * ***
145378 GCGGCGCTTTTCACTACTCGCCGCTAATACTAT-TCTTTAGCGGCGTTTTTGTATAAGCGCCACT
1 GCGGCGCTTCCCACAACGCGCCGCTAATAATATGT-TTTAGCGGCGTTTTACCATAAGCGCCAC-
* * * * * *
145442 AA-TGCTAGTGTACCTCAAGACC-AAACTCTGCGTTTTGGTTAAGAAATATTGCGGCGCTTTTCA
64 AACTGCTAGTATACATCAAGACCAAAACGCTGCATTTTAGTT-A-AAATATTGCGGCGCTTTACA
* *** * * * *
145505 GTTCTCGCCGCTAATACTATACTTTAGCGGCGTTTTAATATAAGCGTCACTAATGCTACTATACA
127 ATAAGCGCCGCTAATACTATACTTTAGCGGCGTTTTAAGATAAGCGCCACTAATCCTAATATACA
145570 TCAAGACCAAAGCGCTGCGTTTTGGTTAA
192 TCAAGACCAAAGCGCTGCGTTTTGGTTAA
145599 TCTTTTGCGG
Statistics
Matches: 187, Mismatches: 29, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
226 16 0.09
227 72 0.39
228 83 0.44
229 16 0.09
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.31
Consensus pattern (228 bp):
GCGGCGCTTCCCACAACGCGCCGCTAATAATATGTTTTAGCGGCGTTTTACCATAAGCGCCACAA
CTGCTAGTATACATCAAGACCAAAACGCTGCATTTTAGTTAAAATATTGCGGCGCTTTACAATAA
GCGCCGCTAATACTATACTTTAGCGGCGTTTTAAGATAAGCGCCACTAATCCTAATATACATCAA
GACCAAAGCGCTGCGTTTTGGTTAAGAACTATT
Found at i:145652 original size:74 final size:73
Alignment explanation
Indices: 145526--145671 Score: 188
Period size: 74 Copynumber: 2.0 Consensus size: 73
145516 TAATACTATA
* * *
145526 CTTTAGCGGCGTTTTAATATAAGCGTCACTAATGCTACTATACATCAAGACCAAAGCGCTGCGTT
1 CTTTAGCGGCGTTTTAATATAAGCGCCACTAATGCTAATATACAGCAAGACCAAA-CGCTGCGTT
145591 TTGGTTAAT
65 TTGGTTAAT
* * * *
145600 CTTTTGCGGCGTTTTTCA-ATAAGCGCCACTAA-GCCTAATATACCGCAAGACCAAACTCTGCGT
1 CTTTAGCGGCG-TTTTAATATAAGCGCCACTAATG-CTAATATACAGCAAGACCAAACGCTGCGT
145663 TTTGGTTAA
64 TTTGGTTAA
145672 GAAATCTTGC
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
73 17 0.27
74 41 0.65
75 5 0.08
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (73 bp):
CTTTAGCGGCGTTTTAATATAAGCGCCACTAATGCTAATATACAGCAAGACCAAACGCTGCGTTT
TGGTTAAT
Found at i:145734 original size:188 final size:188
Alignment explanation
Indices: 145411--145820 Score: 642
Period size: 188 Copynumber: 2.2 Consensus size: 188
145401 CTAATACTAT
* ** * * *
145411 TCTTTAGCGGCGTTTTTGTATAAGCGCCACTAATGCTAGTGTACCTCAAGACCAAACTCTGCGTT
1 TCTTTTGCGGCGTTTTTCAATAAGCGCCACTAATGCTAATATACCGCAAGACCAAACTCTGCGTT
* * *
145476 TTGGTTAAGAAATATTGCGGCGCTTTTCAGTTCTCGCCGCTAATACTATACTTTAGCGGCGTTTT
66 TTGGTTAAGAAATATTGCGGCGCTTTTCACTACTCGCCGCTAATACTATAATTTAGCGGCGTTTT
*
145541 AATATAAGCGTCACTAATGCTACTATACATCAAGACCAAAGCGCTGCGTTTTGGTTAA
131 AATATAAGCGCCACTAATGCTACTATACATCAAGACCAAAGCGCTGCGTTTTGGTTAA
145599 TCTTTTGCGGCGTTTTTCAATAAGCGCCACTAA-GCCTAATATACCGCAAGACCAAACTCTGCGT
1 TCTTTTGCGGCGTTTTTCAATAAGCGCCACTAATG-CTAATATACCGCAAGACCAAACTCTGCGT
* *
145663 TTTGGTTAAGAAATCTTGCGGCGCTTTTCACTACTCGCCGCTAATACTATAATTTAGTGGCGTTT
65 TTTGGTTAAGAAATATTGCGGCGCTTTTCACTACTCGCCGCTAATACTATAATTTAGCGGCGTTT
* *
145728 TAATATAAGCGCCACTACTGCTAGTATACATCAAGACCAAAGCGCTGCGTTTTGGTTAA
130 TAATATAAGCGCCACTAATGCTACTATACATCAAGACCAAAGCGCTGCGTTTTGGTTAA
* * * *
145787 TATTTTGCGGCGCTTTACAATAAGCGCCGCTAAT
1 TCTTTTGCGGCGTTTTTCAATAAGCGCCACTAAT
145821 ACTATGCTTT
Statistics
Matches: 202, Mismatches: 18, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
187 1 0.00
188 201 1.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (188 bp):
TCTTTTGCGGCGTTTTTCAATAAGCGCCACTAATGCTAATATACCGCAAGACCAAACTCTGCGTT
TTGGTTAAGAAATATTGCGGCGCTTTTCACTACTCGCCGCTAATACTATAATTTAGCGGCGTTTT
AATATAAGCGCCACTAATGCTACTATACATCAAGACCAAAGCGCTGCGTTTTGGTTAA
Found at i:145947 original size:114 final size:113
Alignment explanation
Indices: 145599--146067 Score: 530
Period size: 114 Copynumber: 4.1 Consensus size: 113
145589 TTTTGGTTAA
* * * *
145599 TCTTTTGCGGCGTTTTTCAATAAGCGCCACTAAGCCTAATATACCGCAAGACCAAACTCTGCGTT
1 TCTTTAGCGGCG-TTTTCGATAAGCGCCACTAATCCTAATATACCTCAAGACCAAACTCTGCGTT
*
145664 TTGGTTAAGAAATCTTGCGGCGCTTTTCACTACTCGCCGCTAATACTAT
65 TTGGTTAAGAAATATTGCGGCGCTTTTCACTACTCGCCGCTAATACTAT
** * ** * * * * *
145713 AATTTAGTGGCGTTTTAATATAAGCGCCACTACTGCTAGTATACATCAAGACCAAAGCGCTGCGT
1 TCTTTAGCGGCGTTTT-CGATAAGCGCCACTAATCCTAATATACCTCAAGACCAAA-CTCTGCGT
* * * * **
145778 TTTGGTT-A-ATATTTTGCGGCGCTTTACAATAAGCGCCGCTAATACTAT
64 TTTGGTTAAGAAATATTGCGGCGCTTTTCACTACTCGCCGCTAATACTAT
* * *
145826 GCTTTAGCGGCATTTTCCGATAAGCGCCACTAATCCTAATATACCTTAAGACCAAACTCTGCGTT
1 TCTTTAGCGGCGTTTT-CGATAAGCGCCACTAATCCTAATATACCTCAAGACCAAACTCTGCGTT
* * *
145891 TTGGTTAAGAAATATTGCGACGCTTTTCACTACTCACCGCTAATATTAT
65 TTGGTTAAGAAATATTGCGGCGCTTTTCACTACTCGCCGCTAATACTAT
* * * *
145940 TCTTTAGCGGCGTTTTTGTATAAGCGCCACTAATGCTAGTGTACCTCAAGACCAAACTCTGCGTT
1 TCTTTAGCGGCGTTTTCG-ATAAGCGCCACTAATCCTAATATACCTCAAGACCAAACTCTGCGTT
** * * ** *
146005 TTGGTTAAGATGTATTGCGGCGCTTTTAAATAAGCGCCACTAATACT-T
65 TTGGTTAAGAAATATTGCGGCGCTTTTCACTACTCGCCGCTAATACTAT
146053 TCTTTAGCGGCGTTT
1 TCTTTAGCGGCGTTT
146068 CCACATAATC
Statistics
Matches: 292, Mismatches: 58, Indels: 11
0.81 0.16 0.03
Matches are distributed among these distances:
112 14 0.05
113 100 0.34
114 164 0.56
115 14 0.05
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (113 bp):
TCTTTAGCGGCGTTTTCGATAAGCGCCACTAATCCTAATATACCTCAAGACCAAACTCTGCGTTT
TGGTTAAGAAATATTGCGGCGCTTTTCACTACTCGCCGCTAATACTAT
Found at i:146060 original size:227 final size:227
Alignment explanation
Indices: 145599--146082 Score: 679
Period size: 227 Copynumber: 2.1 Consensus size: 227
145589 TTTTGGTTAA
* * *
145599 TCTTTTGCGGCGTTTTTCAATAAGCGCCACTAAGCCTAATATACCGCAAGACCAAACTCTGCGTT
1 TCTTTAGCGGCATTTTCCAATAAGCGCCACTAAGCCTAATATACCGCAAGACCAAACTCTGCGTT
* * * *
145664 TTGGTTAAGAAATCTTGCGGCGCTTTTCACTACTCGCCGCTAATACTATAATTTAGTGGCGTTTT
66 TTGGTTAAGAAATATTGCGACGCTTTTCACTACTCACCGCTAATACTATAATTTAGCGGCGTTTT
* *
145729 AATATAAGCGCCACTACTGCTAGTATACATCAAGACCAAAGCGCTGCGTTTTGGTTAATATTTTG
131 AATATAAGCGCCACTAATGCTAGTATACATCAAGACCAAAGCGCTGCGTTTTGGTTAAGATTTTG
*
145794 CGGCGCTTTACAATAAGCGCCGCTAATACTAT
196 CGGCGCTTTACAATAAGCGCCACTAATACTAT
* * * **
145826 GCTTTAGCGGCATTTTCCGATAAGCGCCACTAATCCTAATATACCTTAAGACCAAACTCTGCGTT
1 TCTTTAGCGGCATTTTCCAATAAGCGCCACTAAGCCTAATATACCGCAAGACCAAACTCTGCGTT
* **
145891 TTGGTTAAGAAATATTGCGACGCTTTTCACTACTCACCGCTAATATTATTCTTTAGCGGCGTTTT
66 TTGGTTAAGAAATATTGCGACGCTTTTCACTACTCACCGCTAATACTATAATTTAGCGGCGTTTT
** * * *
145956 TGTATAAGCGCCACTAATGCTAGTGTACCTCAAGACCAAA-CTCTGCGTTTTGGTTAAGATGTAT
131 AATATAAGCGCCACTAATGCTAGTATACATCAAGACCAAAGCGCTGCGTTTTGGTTAAGAT-T-T
146020 TGCGGCGCTTTTA-AATAAGCGCCACTAATACT-T
194 TGCGGCGC-TTTACAATAAGCGCCACTAATACTAT
* *
146053 TCTTTAGCGGC-GTTTCCACATAATCGCCAC
1 TCTTTAGCGGCATTTTCCA-ATAAGCGCCAC
146083 GAATTATATA
Statistics
Matches: 226, Mismatches: 27, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
226 23 0.10
227 172 0.76
228 27 0.12
229 4 0.02
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (227 bp):
TCTTTAGCGGCATTTTCCAATAAGCGCCACTAAGCCTAATATACCGCAAGACCAAACTCTGCGTT
TTGGTTAAGAAATATTGCGACGCTTTTCACTACTCACCGCTAATACTATAATTTAGCGGCGTTTT
AATATAAGCGCCACTAATGCTAGTATACATCAAGACCAAAGCGCTGCGTTTTGGTTAAGATTTTG
CGGCGCTTTACAATAAGCGCCACTAATACTAT
Found at i:146139 original size:116 final size:112
Alignment explanation
Indices: 145599--146163 Score: 376
Period size: 114 Copynumber: 4.9 Consensus size: 112
145589 TTTTGGTTAA
* * * * * *
145599 TCTTTTGCGGCGTTTTTCAATAAGCGCCACTAAGCCTA-ATA-TACCGCAAGACCAAACTCTGCG
1 TCTTTAGCGGCG-TTTCCCATAAGCGCCACTAA--TTATATAGTACCTCTAGACCAAACTCTGCG
* * * * * **
145662 TTTTGGTTAAGAAATCTTGCGGCGCTTTTCACTACTCGCCGCTAATACTAT
63 TTTTGGTTAAG-AGTATTGCGACGCTTTTAAATAAGCGCCGCTAATACTAT
** * *** * ** * * *
145713 AATTTAGTGGCGTTTTAATATAAGCGCCACTACTGCTAGTA-TACATCAAGACCAAAGCGCTGCG
1 TCTTTAGCGGCG-TTTCCCATAAGCGCCACTAATTATA-TAGTACCTCTAGACCAAA-CTCTGCG
* * *
145777 TTTTGGTTAATA-TTTTGCGGCGC-TTTACAATAAGCGCCGCTAATACTAT
63 TTTTGGTTAAGAGTATTGCGACGCTTTTA-AATAAGCGCCGCTAATACTAT
* * *
145826 GCTTTAGCGGCATTTTCCGATAAGCGCCACTAATCCTA-ATA-TACCT-TAAGACCAAACTCTGC
1 TCTTTAGCGGC-GTTTCCCATAAGCGCCACTAAT--TATATAGTACCTCT-AGACCAAACTCTGC
* * * ** * *
145888 GTTTTGGTTAAGAAATATTGCGACGCTTTTCACTACTCACCGCTAATATTAT
62 GTTTTGGTTAAG-AGTATTGCGACGCTTTTAAATAAGCGCCGCTAATACTAT
*** ** *
145940 TCTTTAGCGGCGTTTTTGTATAAGCGCCACTAATGCTAGT-GTACCTCAAGACCAAACTCTGCGT
1 TCTTTAGCGGCG-TTTCCCATAAGCGCCACTAATTATA-TAGTACCTCTAGACCAAACTCTGCGT
* *
146004 TTTGGTTAAGATGTATTGCGGCGCTTTTAAATAAGCGCCACTAATACT-T
64 TTTGGTTAAGA-GTATTGCGACGCTTTTAAATAAGCGCCGCTAATACTAT
* * * *
146053 TCTTTAGCGGCGTTTCCACATAATCGCCACGAATTATATAGTACACATCTAGTCCAAAATGCTGC
1 TCTTTAGCGGCGTTTCC-CATAAGCGCCACTAATTATATAGTAC-C-TCTAGACCAAACT-CTGC
* ** * *
146118 GTTTTGGTTAAGAGCTTTTGCGACGCTTGGAAGTAAACGCCGCTAA
62 GTTTTGGTTAAGAG-TATTGCGACGCTTTTAAATAAGCGCCGCTAA
146164 AGATGTTCTT
Statistics
Matches: 352, Mismatches: 76, Indels: 44
0.75 0.16 0.09
Matches are distributed among these distances:
112 23 0.07
113 103 0.29
114 155 0.44
115 30 0.09
116 41 0.12
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.32
Consensus pattern (112 bp):
TCTTTAGCGGCGTTTCCCATAAGCGCCACTAATTATATAGTACCTCTAGACCAAACTCTGCGTTT
TGGTTAAGAGTATTGCGACGCTTTTAAATAAGCGCCGCTAATACTAT
Found at i:162551 original size:13 final size:13
Alignment explanation
Indices: 162535--162567 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
162525 AAATGGAGTG
162535 GAAAAGTGCTTTT
1 GAAAAGTGCTTTT
162548 GAAAAGTGCTTTT
1 GAAAAGTGCTTTT
162561 GAAAAGT
1 GAAAAGT
162568 TTAGTTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.36, C:0.06, G:0.24, T:0.33
Consensus pattern (13 bp):
GAAAAGTGCTTTT
Found at i:163523 original size:58 final size:58
Alignment explanation
Indices: 163454--163569 Score: 214
Period size: 58 Copynumber: 2.0 Consensus size: 58
163444 AAGTGATAGA
*
163454 TGAAAAATCTTATATGCTAGGTCTATTGCAGAAATAGCTTAAGAATATAAAGCAATTC
1 TGAAAAATCTTATATGCTAGGTCTATTACAGAAATAGCTTAAGAATATAAAGCAATTC
*
163512 TGAAAAATCTTATATGCTAGGTCTATTACAGAAATAGCTTGAGAATATAAAGCAATTC
1 TGAAAAATCTTATATGCTAGGTCTATTACAGAAATAGCTTAAGAATATAAAGCAATTC
163570 AAGTGAGCTA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (58 bp):
TGAAAAATCTTATATGCTAGGTCTATTACAGAAATAGCTTAAGAATATAAAGCAATTC
Found at i:169413 original size:2 final size:2
Alignment explanation
Indices: 169406--169434 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
169396 GATTAGAGGA
169406 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
169435 TTTAGCTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:171681 original size:63 final size:63
Alignment explanation
Indices: 171599--171770 Score: 222
Period size: 63 Copynumber: 2.7 Consensus size: 63
171589 TGTGCCAGGC
* * * * * *
171599 CGTGTGT-CAGGTCGTGTAACTTATCATTTTAGAATTAGAGTCACACGGACTAGAGACATGGG
1 CGTGTGTCCAGGCCGTGTAACTTATCGTTTTGGAATTAGAGTCACACGGACCAGAGACACGAG
* *
171661 CGTGTGTCCAGGCCGTGTAACTTA-CTGTTTTGGAATTAGAGTCACACGGGCCAGAGGCACGAG
1 CGTGTGTCCAGGCCGTGTAACTTATC-GTTTTGGAATTAGAGTCACACGGACCAGAGACACGAG
** *
171724 CGTGTGTCCAGGCTATGTAACTTATTGTTTTGGAATTAGAGTCACAC
1 CGTGTGTCCAGGCCGTGTAACTTATCGTTTTGGAATTAGAGTCACAC
171771 AAGTCAGGGA
Statistics
Matches: 96, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
62 8 0.08
63 88 0.92
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (63 bp):
CGTGTGTCCAGGCCGTGTAACTTATCGTTTTGGAATTAGAGTCACACGGACCAGAGACACGAG
Found at i:171793 original size:63 final size:63
Alignment explanation
Indices: 171663--171795 Score: 178
Period size: 63 Copynumber: 2.1 Consensus size: 63
171653 GACATGGGCG
* ** *
171663 TGTGTCCAGGCCGTGTAACTTACTGTTTTGGAATTAGAGTCACACGGGCCAGAGGCACGAGCG
1 TGTGTCCAGGCCATGTAACTTACTGTTTTGGAATTAGAGTCACACAAGCCAGAGGCACGAGCA
* * * *
171726 TGTGTCCAGGCTATGTAACTTATTGTTTTGGAATTAGAGTCACACAAGTCAG-GGATACGAGCA
1 TGTGTCCAGGCCATGTAACTTACTGTTTTGGAATTAGAGTCACACAAGCCAGAGG-CACGAGCA
171789 TGTGTCC
1 TGTGTCC
171796 TCGCCGTGTG
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
62 2 0.03
63 59 0.97
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.28
Consensus pattern (63 bp):
TGTGTCCAGGCCATGTAACTTACTGTTTTGGAATTAGAGTCACACAAGCCAGAGGCACGAGCA
Found at i:173220 original size:23 final size:23
Alignment explanation
Indices: 173190--173265 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
173180 AGTGTTATTG
*
173190 ATCAGTGGTAGCTACAGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
*
173213 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* *
173236 TTCAGTGGTAGCTACGGCTACGT
1 ATCAGTGGTAGCTACGGCTACAT
173259 ATCAGTG
1 ATCAGTG
173266 TGGCACTCAT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (23 bp):
ATCAGTGGTAGCTACGGCTACAT
Found at i:174512 original size:49 final size:49
Alignment explanation
Indices: 174458--174586 Score: 204
Period size: 49 Copynumber: 2.6 Consensus size: 49
174448 TATGTAATTT
174458 CGTGTAAGACCATAGCTGGGCTATGGCATCGGTATATGTTATGAGATTA
1 CGTGTAAGACCATAGCTGGGCTATGGCATCGGTATATGTTATGAGATTA
* *
174507 CGTGTAAGACCATTGCTGGGCTATGGCATCGGTATATGTTATGTGATTA
1 CGTGTAAGACCATAGCTGGGCTATGGCATCGGTATATGTTATGAGATTA
* * * *
174556 CATGCAAGACCATAGTTGGACTATGGCATCG
1 CGTGTAAGACCATAGCTGGGCTATGGCATCG
174587 AGAAAATAAG
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 73 1.00
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (49 bp):
CGTGTAAGACCATAGCTGGGCTATGGCATCGGTATATGTTATGAGATTA
Found at i:178138 original size:51 final size:51
Alignment explanation
Indices: 178072--178168 Score: 176
Period size: 51 Copynumber: 1.9 Consensus size: 51
178062 TAACAGTAAT
*
178072 CAGTAACAATAACAGTGTTCGACACACAAAGTGCCGAATCGGTAACGGTGA
1 CAGTAACAATAACAGTATTCGACACACAAAGTGCCGAATCGGTAACGGTGA
*
178123 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGGTAAC
1 CAGTAACAATAACAGTATTCGACACACAAAGTGCCGAATCGGTAAC
178169 AGTAACAATA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.18
Consensus pattern (51 bp):
CAGTAACAATAACAGTATTCGACACACAAAGTGCCGAATCGGTAACGGTGA
Found at i:178606 original size:26 final size:25
Alignment explanation
Indices: 178577--178626 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
178567 CAATTCAATG
178577 ATTCAATTCAAAC-CATTTCAATTTCT
1 ATTCAA-T-AAACACATTTCAATTTCT
*
178603 ATTCAATAATCACATTTCAATTTC
1 ATTCAATAAACACATTTCAATTTC
178627 ACTTTCTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 3 0.14
25 13 0.59
26 6 0.27
ACGTcount: A:0.36, C:0.22, G:0.00, T:0.42
Consensus pattern (25 bp):
ATTCAATAAACACATTTCAATTTCT
Found at i:182141 original size:8 final size:8
Alignment explanation
Indices: 182128--182163 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
182118 GTTTATTTAA
182128 AATATAAT
1 AATATAAT
182136 AATATAAT
1 AATATAAT
182144 AATATAAT
1 AATATAAT
*
182152 AACATAAT
1 AATATAAT
182160 AATA
1 AATA
182164 ATATTTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (8 bp):
AATATAAT
Found at i:196649 original size:125 final size:126
Alignment explanation
Indices: 196418--196668 Score: 479
Period size: 125 Copynumber: 2.0 Consensus size: 126
196408 GAAAAGCTAG
196418 CTCTTCTCAAAGTTAAGCTCCACTTTATTTTGATTGATCCATGACTGTCAAAGAAAGTGGCTGAG
1 CTCTTCTCAAAGTTAAGCTCCACTTTATTTTGATTGATCCATGACTGTCAAAGAAAGTGGCTGAG
196483 CCAAGGGATTTGCAGAGGCATCCCTCTTTCTAAAATGAAATTTTTTTATTTATATATTTTA
66 CCAAGGGATTTGCAGAGGCATCCCTCTTTCTAAAATGAAATTTTTTTATTTATATATTTTA
196544 CTCTTCTC-AAGTTAAGCTCCACTTTATTTTGATTGATCCATGACTGTCAAAGAAAGTGGCTGAG
1 CTCTTCTCAAAGTTAAGCTCCACTTTATTTTGATTGATCCATGACTGTCAAAGAAAGTGGCTGAG
196608 CCAAGGGATTTGCAGAGGCATCCCTCCTTT-TAAAATGAAATTTTTTTATTTATATATTTTA
66 CCAAGGGATTTGCAGAGGCATCCCT-CTTTCTAAAATGAAATTTTTTTATTTATATATTTTA
196669 TAATTTATAA
Statistics
Matches: 124, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
125 112 0.90
126 12 0.10
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (126 bp):
CTCTTCTCAAAGTTAAGCTCCACTTTATTTTGATTGATCCATGACTGTCAAAGAAAGTGGCTGAG
CCAAGGGATTTGCAGAGGCATCCCTCTTTCTAAAATGAAATTTTTTTATTTATATATTTTA
Found at i:205253 original size:23 final size:22
Alignment explanation
Indices: 205217--205282 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 22
205207 AAATTATATA
205217 CAAT-TATATGAAATTAAAAAATT
1 CAATATATAT-AAATTAAAAAA-T
205240 CAATATATATAAATTTAAAAAAT
1 CAATATATATAAA-TTAAAAAAT
* * *
205263 AAAAATATTTAAATTAAAAA
1 CAATATATATAAATTAAAAA
205283 TTGATCAGGG
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
22 7 0.18
23 18 0.47
24 13 0.34
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (22 bp):
CAATATATATAAATTAAAAAAT
Found at i:205257 original size:24 final size:23
Alignment explanation
Indices: 205217--205262 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
205207 AAATTATATA
205217 CAATTATATGAAATTAAAAAATT
1 CAATTATATGAAATTAAAAAATT
205240 CAATATATAT-AAATTTAAAAAAT
1 CAAT-TATATGAAA-TTAAAAAAT
205263 AAAAATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (23 bp):
CAATTATATGAAATTAAAAAATT
Found at i:205551 original size:21 final size:21
Alignment explanation
Indices: 205527--205568 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
205517 ATCTTTTCTA
*
205527 AAGTTAAAAGTCAAAACTATT
1 AAGTTAAAAGGCAAAACTATT
205548 AAGTTAAAAGGCAAAACTATT
1 AAGTTAAAAGGCAAAACTATT
205569 TCGTTTTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.52, C:0.10, G:0.12, T:0.26
Consensus pattern (21 bp):
AAGTTAAAAGGCAAAACTATT
Found at i:218741 original size:23 final size:23
Alignment explanation
Indices: 218710--218761 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
218700 ACCTATTTTC
*
218710 TTACTGTAGTAATTTTCGAGATA
1 TTACAGTAGTAATTTTCGAGATA
*
218733 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGAGATA
218756 TTACAG
1 TTACAG
218762 CAGATAGGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGAGATA
Found at i:223570 original size:24 final size:22
Alignment explanation
Indices: 223543--223588 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 22
223533 ATTTTTTATC
223543 ATATTAATAATTTGACATTTAAAA
1 ATATTAATAATTT-A-ATTTAAAA
*
223567 ATATTTATAATTTAATTTAAAA
1 ATATTAATAATTTAATTTAAAA
223589 TTATGAGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 8 0.38
23 1 0.05
24 12 0.57
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (22 bp):
ATATTAATAATTTAATTTAAAA
Found at i:231914 original size:24 final size:22
Alignment explanation
Indices: 231869--231916 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
231859 TATCATCCTA
*
231869 TCATCTTTTTTTCTTTCCAATT
1 TCATCTTTTTTTCTTTCAAATT
*
231891 TCATCCTTTTTTTCTTCTTAAATT
1 TCAT-CTTTTTTTCTT-TCAAATT
231915 TC
1 TC
231917 CATGGATGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 4 0.18
23 11 0.50
24 7 0.32
ACGTcount: A:0.15, C:0.23, G:0.00, T:0.62
Consensus pattern (22 bp):
TCATCTTTTTTTCTTTCAAATT
Found at i:235367 original size:25 final size:25
Alignment explanation
Indices: 235339--235397 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
235329 AAACAAATGT
* * *
235339 AGAAACGAAACAGAGAAGGAAAGAA
1 AGAAAAGAAAAAGAGAAAGAAAGAA
235364 AGAAAAGAAAAAGAGAAAGAAAGAA
1 AGAAAAGAAAAAGAGAAAGAAAGAA
235389 GGAGAAAAG
1 --AGAAAAG
235398 TTAGGTTTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 22 0.76
27 7 0.24
ACGTcount: A:0.68, C:0.03, G:0.29, T:0.00
Consensus pattern (25 bp):
AGAAAAGAAAAAGAGAAAGAAAGAA
Found at i:240054 original size:24 final size:24
Alignment explanation
Indices: 240022--240072 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
240012 TATATATCGT
*
240022 TTTTAAGAATAACTAGTTATAATG
1 TTTTAAGAATAACTAGCTATAATG
* *
240046 TTTTCAGAATAATTAGCTATAATG
1 TTTTAAGAATAACTAGCTATAATG
240070 TTT
1 TTT
240073 CTAAAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.06, G:0.12, T:0.45
Consensus pattern (24 bp):
TTTTAAGAATAACTAGCTATAATG
Found at i:274229 original size:24 final size:25
Alignment explanation
Indices: 274183--274233 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
274173 AACACGTCAA
*
274183 TTTTTTCTTCAATATAGTTTACTTTT
1 TTTTTTCTTCAATATAG-CTACTTTT
*
274209 TTTTTTCTTCAATTTA-CTACTTTT
1 TTTTTTCTTCAATATAGCTACTTTT
274233 T
1 T
274234 CTATCTTGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 8 0.35
26 15 0.65
ACGTcount: A:0.18, C:0.14, G:0.02, T:0.67
Consensus pattern (25 bp):
TTTTTTCTTCAATATAGCTACTTTT
Found at i:276110 original size:14 final size:14
Alignment explanation
Indices: 276091--276121 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
276081 TTGGTTTCAC
276091 CCATCAATTAGATT
1 CCATCAATTAGATT
276105 CCATCAATTAGATT
1 CCATCAATTAGATT
276119 CCA
1 CCA
276122 ACTCAATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.35, C:0.26, G:0.06, T:0.32
Consensus pattern (14 bp):
CCATCAATTAGATT
Found at i:278511 original size:20 final size:19
Alignment explanation
Indices: 278483--278555 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 19
278473 CATTTAATTA
278483 ATTTCTTAATATTTTAAAAAT
1 ATTT-TTAA-ATTTTAAAAAT
*
278504 ATTTTTAAATAATT-AAAAT
1 ATTTTTAAAT-TTTAAAAAT
*
278523 GATTTTTAACTTTTAAAAAT
1 -ATTTTTAAATTTTAAAAAT
*
278543 AGTTTTATAATTT
1 ATTTTTA-AATTT
278556 ATTGAATTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
19 15 0.35
20 24 0.56
21 4 0.09
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (19 bp):
ATTTTTAAATTTTAAAAAT
Found at i:279346 original size:9 final size:9
Alignment explanation
Indices: 279324--279369 Score: 58
Period size: 9 Copynumber: 5.1 Consensus size: 9
279314 GGTTTCTGGG
*
279324 TTTTCTTCTG
1 TTTTCTT-TT
279334 TTTTCTTTT
1 TTTTCTTTT
*
279343 TTTTC-CTT
1 TTTTCTTTT
279351 TTTTCTTTT
1 TTTTCTTTT
279360 TTTTCTTTT
1 TTTTCTTTT
279369 T
1 T
279370 GGTTTTCTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
8 7 0.22
9 18 0.56
10 7 0.22
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:279354 original size:17 final size:16
Alignment explanation
Indices: 279324--279369 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 16
279314 GGTTTCTGGG
* *
279324 TTTTCTTCTGTTTTCT
1 TTTTTTTCTTTTTTCT
279340 TTTTTTTCCTTTTTTCT
1 TTTTTTT-CTTTTTTCT
279357 TTTTTTTCTTTTT
1 TTTTTTTCTTTTT
279370 GGTTTTCTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 12 0.44
17 15 0.56
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (16 bp):
TTTTTTTCTTTTTTCT
Found at i:279375 original size:16 final size:16
Alignment explanation
Indices: 279324--279381 Score: 55
Period size: 16 Copynumber: 3.5 Consensus size: 16
279314 GGTTTCTGGG
*
279324 TTTTCTTCTGTTTT-CT
1 TTTTTTTCT-TTTTGCT
*
279340 TTTTTTTCCTTTTTTCT
1 TTTTTTT-CTTTTTGCT
*
279357 TTTTTTTCTTTTTGGT
1 TTTTTTTCTTTTTGCT
279373 TTTCTTTTC
1 TTT-TTTTC
279382 GGCTTTGTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.00, C:0.16, G:0.05, T:0.79
Consensus pattern (16 bp):
TTTTTTTCTTTTTGCT
Found at i:285648 original size:20 final size:20
Alignment explanation
Indices: 285611--285650 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
285601 TGGATTTTTA
*
285611 AAAAAATGAAATGAAAAATG
1 AAAAAATGAAAAGAAAAATG
*
285631 AAAAAATGAAAAGTAAAATG
1 AAAAAATGAAAAGAAAAATG
285651 GAGAGGCTAA
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:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (20 bp):
AAAAAATGAAAAGAAAAATG
Found at i:287012 original size:86 final size:86
Alignment explanation
Indices: 286862--287394 Score: 796
Period size: 86 Copynumber: 6.2 Consensus size: 86
286852 CAGATCAGTG
* * *
286862 AAGATAGCAGATCTTGTCTTCCTGCGTTAACAGTGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
1 AAGA-AGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
*
286927 TCGGTTGTAGTGGAACTGGTTA
65 TCGGTTGTAGTGGAGCTGGTTA
* * **
286949 AAGAAGCAGATCTAGCCTTTCTGCATTAACAGCGAAGCAGATAAAAAACAAAGCCTTGCCTCCAT
1 AAGAAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCAT
*
287014 CGGTTATAGTGGAGCTGGTTA
66 CGGTTGTAGTGGAGCTGGTTA
* * *
287035 AAGAAGCAGATCTTGCCTCCCTGCATTAACAGCGAAACAGATCGAAAACAAAGCTTTGCCTCCAT
1 AAGAAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCAT
287100 CGGTTGTAGTGGAGCTGGTTA
66 CGGTTGTAGTGGAGCTGGTTA
* * * * *
287121 AAAAAGTAGATCTTGCCTTCCTACATTAACAGCGAAGTAGATCGAAAATAAAGCCTTGCCTCCAT
1 AAGAAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCAT
*
287186 CGGTTGCAGTGGAGCTGGTTA
66 CGGTTGTAGTGGAGCTGGTTA
* * *
287207 AAGAAGCAAATCTTGCCTTCCTACATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTCCAT
1 AAGAAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCAT
*
287272 CTGTTGTAGTGGAGCTGGTTA
66 CGGTTGTAGTGGAGCTGGTTA
* * *
287293 AAGATAGCAAATCTTGCCTTCCTGTATTAACAGTGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
1 AAGA-AGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
* *
287358 TCTGTTGTAGTGGAGCTGGTTG
65 TCGGTTGTAGTGGAGCTGGTTA
287380 AAGATAGCAGATCTT
1 AAGA-AGCAGATCTT
287395 CTCCTTCTGC
Statistics
Matches: 405, Mismatches: 40, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
86 310 0.77
87 95 0.23
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.25
Consensus pattern (86 bp):
AAGAAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCAT
CGGTTGTAGTGGAGCTGGTTA
Found at i:287569 original size:44 final size:44
Alignment explanation
Indices: 287519--287727 Score: 136
Period size: 44 Copynumber: 4.7 Consensus size: 44
287509 ATCGCATTAG
287519 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTG-AGAAAACAA
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG-AAACAA
* ** * * *
287563 GTCTTATCACCCTGAAGTCACAGTGGGGTAGACTGAAGAAGCAA
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAACAA
* * ** ** * **
287607 ATCTTATCTCCCTGAGGTTGTGGTAAAGCAGA-TTAA-ATTCGATA
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAC-A-A
* * * * * * * *
287651 ATCCTATCTCCTTGAAGTTGTAGTGGAGCGGATTGAAGTAATAA
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAACAA
* *
287695 GATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA
1 G-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
287728 TCGCATCAAG
Statistics
Matches: 120, Mismatches: 39, Indels: 11
0.71 0.23 0.06
Matches are distributed among these distances:
42 2 0.02
43 4 0.03
44 83 0.69
45 31 0.26
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (44 bp):
GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAACAA
Found at i:293804 original size:27 final size:27
Alignment explanation
Indices: 293766--293844 Score: 140
Period size: 27 Copynumber: 2.9 Consensus size: 27
293756 AATACTAGGT
*
293766 GTGCCGTCTATCAGATAGACACCACCA
1 GTGCCGCCTATCAGATAGACACCACCA
293793 GTGCCGCCTATCAGATAGACACCACCA
1 GTGCCGCCTATCAGATAGACACCACCA
*
293820 GTGCCACCTATCAGATAGACACCAC
1 GTGCCGCCTATCAGATAGACACCAC
293845 ACCTCTATAC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.30, C:0.35, G:0.18, T:0.16
Consensus pattern (27 bp):
GTGCCGCCTATCAGATAGACACCACCA
Found at i:294734 original size:8 final size:8
Alignment explanation
Indices: 294717--294747 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
294707 TAGAACTCAT
294717 AAAA-AAA
1 AAAAGAAA
294724 AAAAGAAA
1 AAAAGAAA
294732 AAAAGAAA
1 AAAAGAAA
294740 AAAAGAAA
1 AAAAGAAA
294748 GCCATCAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 4 0.17
8 19 0.83
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (8 bp):
AAAAGAAA
Found at i:306336 original size:3 final size:3
Alignment explanation
Indices: 306318--307113 Score: 1574
Period size: 3 Copynumber: 264.7 Consensus size: 3
306308 AAAAGGCATA
306318 AAT ATAT AAGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
306365 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
306413 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
306461 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
306509 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
306557 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
306605 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
306653 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
306701 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
306749 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
306797 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
306845 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
306893 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
306941 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
306989 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
307037 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
307085 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
307114 GTATGTGCAT
Statistics
Matches: 791, Mismatches: 0, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
3 785 0.99
4 6 0.01
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:308752 original size:20 final size:20
Alignment explanation
Indices: 308708--308771 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
308698 TCTTAGATTT
* *
308708 TTATGTTTTATATATATTATT
1 TTATGTTATA-ATATATTATA
*
308729 TTAT-TATATAATATAATATA
1 TTATGT-TATAATATATTATA
*
308749 TTATGTTATATTATATTATA
1 TTATGTTATAATATATTATA
308769 TTA
1 TTA
308772 AATAAACTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
20 28 0.78
21 8 0.22
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (20 bp):
TTATGTTATAATATATTATA
Found at i:308757 original size:5 final size:5
Alignment explanation
Indices: 308715--308771 Score: 57
Period size: 5 Copynumber: 11.6 Consensus size: 5
308705 TTTTTATGTT
* *
308715 TTATA -TATA TTAT- TT-TA TTATA TAATATA ATATA TTATG TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA T--TATA TTATA TTATA TTATA TTATA
308764 TTATA TTA
1 TTATA TTA
308772 AATAAACTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
3 1 0.02
4 8 0.19
5 30 0.70
7 4 0.09
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (5 bp):
TTATA
Found at i:318642 original size:29 final size:28
Alignment explanation
Indices: 318567--318680 Score: 99
Period size: 29 Copynumber: 3.9 Consensus size: 28
318557 AAAAACTTCA
318567 AATTTACATTTTGACCTCTCAACTTTT-TAT
1 AATTTACATTTTGACC-CT-AACTTTTCT-T
* *
318597 TATTTATATTTTAGACCCTAACTTTTCTT
1 AATTTACATTTT-GACCCTAACTTTTCTT
* *
318626 AAAATTACATTTTGACCCCCTAACTTTTCCT
1 -AATTTACATTTTGA--CCCTAACTTTTCTT
318657 -ATTTACATTTTGACACC-AACTTTT
1 AATTTACATTTTGAC-CCTAACTTTT
318681 TACTATTTAC
Statistics
Matches: 71, Mismatches: 7, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
27 8 0.11
28 2 0.03
29 22 0.31
30 22 0.31
31 17 0.24
ACGTcount: A:0.27, C:0.22, G:0.04, T:0.47
Consensus pattern (28 bp):
AATTTACATTTTGACCCTAACTTTTCTT
Found at i:319110 original size:35 final size:36
Alignment explanation
Indices: 319054--319132 Score: 101
Period size: 37 Copynumber: 2.2 Consensus size: 36
319044 TTTCTCTCTT
319054 TCGCA-CCCCACACCACCGACTCTC-G-ACTCTCCC
1 TCGCACCCCCACACCACCGACTCTCGGTACTCTCCC
* *
319087 TCGCACCCCCATCACCACTGACTCTCGGTCCTCTCCC
1 TCGCACCCCCA-CACCACCGACTCTCGGTACTCTCCC
*
319124 TTGCACCCC
1 TCGCACCCC
319133 TTGCCACTTG
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
33 5 0.13
34 5 0.13
35 13 0.33
36 1 0.03
37 15 0.38
ACGTcount: A:0.15, C:0.56, G:0.10, T:0.19
Consensus pattern (36 bp):
TCGCACCCCCACACCACCGACTCTCGGTACTCTCCC
Found at i:319572 original size:91 final size:91
Alignment explanation
Indices: 319417--319598 Score: 364
Period size: 91 Copynumber: 2.0 Consensus size: 91
319407 AAAAGAGAAA
319417 GAGAAATAAAAAAATATAAAAATAAAACGGATTAGCTGGATCCAATCTGACCCGACCCGCACCAA
1 GAGAAATAAAAAAATATAAAAATAAAACGGATTAGCTGGATCCAATCTGACCCGACCCGCACCAA
319482 TGACCTGACCCGACCCGTACCACCGT
66 TGACCTGACCCGACCCGTACCACCGT
319508 GAGAAATAAAAAAATATAAAAATAAAACGGATTAGCTGGATCCAATCTGACCCGACCCGCACCAA
1 GAGAAATAAAAAAATATAAAAATAAAACGGATTAGCTGGATCCAATCTGACCCGACCCGCACCAA
319573 TGACCTGACCCGACCCGTACCACCGT
66 TGACCTGACCCGACCCGTACCACCGT
319599 CTAACAGCAG
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 91 1.00
ACGTcount: A:0.40, C:0.29, G:0.16, T:0.15
Consensus pattern (91 bp):
GAGAAATAAAAAAATATAAAAATAAAACGGATTAGCTGGATCCAATCTGACCCGACCCGCACCAA
TGACCTGACCCGACCCGTACCACCGT
Found at i:319900 original size:15 final size:14
Alignment explanation
Indices: 319876--319909 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
319866 CAGTAGGAAG
319876 AGAAAAAAAAGAAA
1 AGAAAAAAAAGAAA
319890 AGAAGAAAAAAGAAA
1 AGAA-AAAAAAGAAA
319905 A-AAAA
1 AGAAAA
319910 GCCCGAATCG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 2 0.11
14 6 0.32
15 11 0.58
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (14 bp):
AGAAAAAAAAGAAA
Found at i:319900 original size:19 final size:19
Alignment explanation
Indices: 319872--319910 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
319862 ACAACAGTAG
*
319872 GAAGAGAAAAA-AAAGAAAA
1 GAAGA-AAAAAGAAAAAAAA
319891 GAAGAAAAAAGAAAAAAAA
1 GAAGAAAAAAGAAAAAAAA
319910 G
1 G
319911 CCCGAATCGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (19 bp):
GAAGAAAAAAGAAAAAAAA
Found at i:320562 original size:18 final size:17
Alignment explanation
Indices: 320520--320561 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
320510 GTAAATAAAT
320520 TTTAAAAATAATTTTTC
1 TTTAAAAATAATTTTTC
320537 TTTAAAAATAATTTTTC
1 TTTAAAAATAATTTTTC
320554 TTTAAAAA
1 TTTAAAAA
320562 AGAGAATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTAAAAATAATTTTTC
Found at i:323328 original size:23 final size:22
Alignment explanation
Indices: 323278--323336 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 22
323268 CAACTCGTAT
323278 GAGCTTACCGTTTCAGCTCTAC
1 GAGCTTACCGTTTCAGCTCTAC
*
323300 GAAGCTTACCGTTTCAGTTCAATA-
1 G-AGCTTACCGTTTCAGCTC--TAC
323324 GAGCTTACCGTTT
1 GAGCTTACCGTTT
323337 ATCAGCTCGG
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
22 1 0.03
23 29 0.88
24 1 0.03
25 2 0.06
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (22 bp):
GAGCTTACCGTTTCAGCTCTAC
Found at i:327374 original size:4 final size:4
Alignment explanation
Indices: 327365--327398 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
327355 TCTCCTCTCC
327365 TCTT TCTT TCTT TCTT TCTT TCTT TCTT T-TT TCT
1 TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCT
327399 CTGTTCTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.10
4 26 0.90
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TCTT
Found at i:329771 original size:15 final size:16
Alignment explanation
Indices: 329753--329786 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
329743 TTTTCTCCTT
329753 GTTCTTT-TTATTTTG
1 GTTCTTTCTTATTTTG
329768 GTTCTTTCTTATTTTG
1 GTTCTTTCTTATTTTG
329784 GTT
1 GTT
329787 AATCTACCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.06, C:0.09, G:0.15, T:0.71
Consensus pattern (16 bp):
GTTCTTTCTTATTTTG
Found at i:332051 original size:21 final size:21
Alignment explanation
Indices: 332017--332057 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
332007 CGGTTGAGTA
*
332017 GATGGTGTTGGTGGAGGTGGT
1 GATGGAGTTGGTGGAGGTGGT
*
332038 GATGGAGTTTGTGGAGGTGG
1 GATGGAGTTGGTGGAGGTGG
332058 AGGTGATGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.56, T:0.32
Consensus pattern (21 bp):
GATGGAGTTGGTGGAGGTGGT
Found at i:342369 original size:45 final size:44
Alignment explanation
Indices: 342318--342502 Score: 253
Period size: 45 Copynumber: 4.1 Consensus size: 44
342308 GTAACGATAG
** * *
342318 CAGTAACAGTATTAAACAAACAAAGTGCTGAATCTGTAACAGTAA
1 CAGTAACAGTATTCGACACACAAAGTGCCGAATC-GTAACAGTAA
* *
342363 CGGTAACAGTATTCGACACACAAAGTGCCGAATCGATAACAATAA
1 CAGTAACAGTATTCGACACACAAAGTGCCGAATCG-TAACAGTAA
*
342408 CAGTAACAGTATTCGACACACAAAGTGCCGAGTCGGTAACAGTAA
1 CAGTAACAGTATTCGACACACAAAGTGCCGAATC-GTAACAGTAA
* *
342453 CAGTAACAATATTCGACTCACAAAGTGCCGAATCAGTAACAGTAA
1 CAGTAACAGTATTCGACACACAAAGTGCCGAATC-GTAACAGTAA
342498 CAGTA
1 CAGTA
342503 GTCGGCACAT
Statistics
Matches: 125, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
44 1 0.01
45 123 0.98
46 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.19
Consensus pattern (44 bp):
CAGTAACAGTATTCGACACACAAAGTGCCGAATCGTAACAGTAA
Found at i:342448 original size:39 final size:39
Alignment explanation
Indices: 342357--342529 Score: 141
Period size: 45 Copynumber: 4.2 Consensus size: 39
342347 GAATCTGTAA
*
342357 CAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAATCGAT
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCG-A--G-T
*
342400 AACAATAACAGTAACAGTATTCGACACACAAAGTGCCGAGTCGGT
1 --CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGA----GT
* * *
342445 AACAGTAACAGTAACAATATTCGACTCACAAAGTGCCGAAT
1 --CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAGT
* * * * *
342486 CAGTAACAGTAACAGTAGTCGGCACA-TAAGTGCCTAAT
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAGT
342524 CAGTAA
1 CAGTAA
342530 GCCGGCAAAT
Statistics
Matches: 112, Mismatches: 14, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
38 16 0.14
39 22 0.20
41 1 0.01
44 1 0.01
45 71 0.63
46 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.19
Consensus pattern (39 bp):
CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAGT
Found at i:342526 original size:38 final size:38
Alignment explanation
Indices: 342447--342529 Score: 105
Period size: 39 Copynumber: 2.2 Consensus size: 38
342437 GAGTCGGTAA
* *
342447 CAGTAACAGTAACAATATTCGACTCACAAAGTGCCGAAT
1 CAGTAACAGTAACAATAGTCGA-GCACAAAGTGCCGAAT
* *
342486 CAGTAACAGTAACAGTAGTCG-GCACATAAGTGCCTAAT
1 CAGTAACAGTAACAATAGTCGAGCACA-AAGTGCCGAAT
342524 CAGTAA
1 CAGTAA
342530 GCCGGCAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
37 4 0.10
38 16 0.41
39 19 0.49
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.20
Consensus pattern (38 bp):
CAGTAACAGTAACAATAGTCGAGCACAAAGTGCCGAAT
Found at i:347318 original size:3 final size:3
Alignment explanation
Indices: 347310--347348 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
347300 CATTTTTCAC
*
347310 TAT TAT TA- TAT TAT TATT TAT TGT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
347349 ATTTACGCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.84
4 3 0.09
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:351660 original size:12 final size:13
Alignment explanation
Indices: 351640--351668 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
351630 GGGCCACATA
351640 TTGAGTGGTTTAT
1 TTGAGTGGTTTAT
351653 TTGA-TGGTTTAT
1 TTGAGTGGTTTAT
351665 TTGA
1 TTGA
351669 CACCTACCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.17, C:0.00, G:0.28, T:0.55
Consensus pattern (13 bp):
TTGAGTGGTTTAT
Found at i:354774 original size:23 final size:23
Alignment explanation
Indices: 354747--354794 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
354737 GTAGCTTGCA
354747 TTGACAAGCTTTGAATAAAGTAC
1 TTGACAAGCTTTGAATAAAGTAC
*
354770 TTGACAAGCTTTGAATAGAGTAC
1 TTGACAAGCTTTGAATAAAGTAC
354793 TT
1 TT
354795 AGGTACATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
TTGACAAGCTTTGAATAAAGTAC
Found at i:356898 original size:46 final size:46
Alignment explanation
Indices: 356828--357096 Score: 423
Period size: 46 Copynumber: 5.8 Consensus size: 46
356818 ACAATGCTAT
*
356828 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACTTTTCAC
* *
356874 AACTCAGTATGGTTTTCGTTACTGAAATACCATACCTACTTCTCAC
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACTTTTCAC
*
356920 AACTCAGTATGGTTTTCTTTACTGAAATATCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACTTTTCAC
* *
356966 AACTCAGTATGGTTTT-TGTTACTAAAATACCATACCTACTTCTCAC
1 AACTCAGTATGGTTTTCT-TTACTGAAATACCATACCTACTTTTCAC
* *
357012 AACTCAGTATGGTTTTTTTTACTGAAATATCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACTTTTCAC
* * *
357058 AACTCAATATGGTTTTCTTTACAGAAATGCCATACCTAC
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTAC
357097 GTTCCACACT
Statistics
Matches: 204, Mismatches: 17, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
45 1 0.00
46 202 0.99
47 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.38
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACTTTTCAC
Found at i:358064 original size:2 final size:2
Alignment explanation
Indices: 358057--358546 Score: 944
Period size: 2 Copynumber: 245.0 Consensus size: 2
358047 AATTTCATTC
* * * *
358057 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA TA TA TA TA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
358099 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
358141 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
358183 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
358225 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
358267 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
358309 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
358351 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
358393 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
358435 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
358477 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
358519 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
358547 AACAGCATAT
Statistics
Matches: 486, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 486 1.00
ACGTcount: A:0.50, C:0.49, G:0.00, T:0.01
Consensus pattern (2 bp):
CA
Found at i:358607 original size:23 final size:23
Alignment explanation
Indices: 358549--358719 Score: 112
Period size: 23 Copynumber: 7.3 Consensus size: 23
358539 CACACACAAA
* * *
358549 CAGCATATATACAGCAATTTGGG
1 CAGCATATATACAACAAATTGAG
* *
358572 CAGCATAAATACAACAAATTAAG
1 CAGCATATATACAACAAATTGAG
* * *
358595 CAGCATTTTTACACCAAAAATTG-G
1 CAGCATATATACA--ACAAATTGAG
*
358619 ACAGCATATATACAACAAATTGGG
1 -CAGCATATATACAACAAATTGAG
***
358643 CAGCATATATATTCCAAATTGAG
1 CAGCATATATACAACAAATTGAG
* * *
358666 CAGCATTTTTACACCAAAATTTG-G
1 CAGCATATATACAAC-AAA-TTGAG
* * *
358690 ACAGCATATATATAACAATTTGGG
1 -CAGCATATATACAACAAATTGAG
358714 CAGCAT
1 CAGCAT
358720 TTAAGCATCA
Statistics
Matches: 114, Mismatches: 26, Indels: 16
0.73 0.17 0.10
Matches are distributed among these distances:
23 74 0.65
24 9 0.08
25 31 0.27
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (23 bp):
CAGCATATATACAACAAATTGAG
Found at i:358660 original size:48 final size:46
Alignment explanation
Indices: 358549--358719 Score: 128
Period size: 48 Copynumber: 3.6 Consensus size: 46
358539 CACACACAAA
* * * * * **
358549 CAGCATATATACAGCAATTTGGGCAGCATAAATACAACAAATTAAG
1 CAGCATATATATACCAAATTGGACAGCATATATACAACAAATTGGG
* * *
358595 CAGCATTTTTACACCAAAAATTGGACAGCATATATACAACAAATTGGG
1 CAGCATATATATACC--AAATTGGACAGCATATATACAACAAATTGGG
* * * * *
358643 CAGCATATATATTCCAAATT-GAGCAGCATTTTTACACCAAAATTTGGA
1 CAGCATATATATACCAAATTGGA-CAGCATATATACAAC-AAA-TTGGG
* * *
358691 CAGCATATATATAACAATTTGGGCAGCAT
1 CAGCATATATATACCAAATTGGACAGCAT
358720 TTAAGCATCA
Statistics
Matches: 99, Mismatches: 20, Indels: 10
0.77 0.16 0.08
Matches are distributed among these distances:
45 2 0.02
46 29 0.29
47 3 0.03
48 64 0.65
49 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (46 bp):
CAGCATATATATACCAAATTGGACAGCATATATACAACAAATTGGG
Found at i:358668 original size:71 final size:71
Alignment explanation
Indices: 358548--358719 Score: 263
Period size: 71 Copynumber: 2.4 Consensus size: 71
358538 ACACACACAA
*
358548 ACAGCATATATACAGCAATTTGGGCAGCATAAATACAACAAATTAAGCAGCATTTTTACACCAAA
1 ACAGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTAAGCAGCATTTTTACACCAAA
358613 AATTGG
66 AATTGG
* * *** *
358619 ACAGCATATATACAACAAATTGGGCAGCATATATATTCCAAATTGAGCAGCATTTTTACACCAAA
1 ACAGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTAAGCAGCATTTTTACACCAAA
*
358684 ATTTGG
66 AATTGG
*
358690 ACAGCATATATATAACAATTTGGGCAGCAT
1 ACAGCATATATACAACAATTTGGGCAGCAT
358720 TTAAGCATCA
Statistics
Matches: 91, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (71 bp):
ACAGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTAAGCAGCATTTTTACACCAAA
AATTGG
Found at i:359461 original size:24 final size:24
Alignment explanation
Indices: 359434--359514 Score: 72
Period size: 28 Copynumber: 3.0 Consensus size: 24
359424 TCGAAAATAT
*
359434 TTAATAAGTTCGCACACTTAGTGC
1 TTAATAAATTCGCACACTTAGTGC
359458 TTAATAATCAATCTCGCACACTTAGTGC
1 TTAAT-A--AAT-TCGCACACTTAGTGC
*
359486 TTTACAATTAAACTCGCACACTTAGTGC
1 -TT--AA-TAAATTCGCACACTTAGTGC
359514 T
1 T
359515 AATCTCATTA
Statistics
Matches: 47, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
24 5 0.11
25 1 0.02
27 3 0.06
28 30 0.64
29 4 0.09
31 3 0.06
32 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.33
Consensus pattern (24 bp):
TTAATAAATTCGCACACTTAGTGC
Found at i:359475 original size:28 final size:28
Alignment explanation
Indices: 359443--359514 Score: 108
Period size: 28 Copynumber: 2.6 Consensus size: 28
359433 TTTAATAAGT
* *
359443 TCGCACACTTAGTGCTTAATAATCAATC
1 TCGCACACTTAGTGCTTAACAATCAAAC
* *
359471 TCGCACACTTAGTGCTTTACAATTAAAC
1 TCGCACACTTAGTGCTTAACAATCAAAC
359499 TCGCACACTTAGTGCT
1 TCGCACACTTAGTGCT
359515 AATCTCATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (28 bp):
TCGCACACTTAGTGCTTAACAATCAAAC
Found at i:361243 original size:32 final size:32
Alignment explanation
Indices: 361201--361261 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
361191 TTTTTTGAAA
361201 AATAATTATAACTATTTAAAT-AAT-ATTATTTG
1 AATAATTATAA-TA-TTAAATGAATAATTATTTG
*
361233 AATAGTTATAATATTAAATGAATAATTAT
1 AATAATTATAATATTAAATGAATAATTAT
361262 GTGTTTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 6 0.23
31 5 0.19
32 15 0.58
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (32 bp):
AATAATTATAATATTAAATGAATAATTATTTG
Found at i:361254 original size:20 final size:20
Alignment explanation
Indices: 361220--361261 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
361210 AACTATTTAA
** *
361220 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
361240 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
361260 AT
1 AT
361262 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:363473 original size:13 final size:11
Alignment explanation
Indices: 363446--363479 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 11
363436 TTTTTATAAT
363446 TAAAATATTAA
1 TAAAATATTAA
363457 TAAAATATCTAAA
1 TAAAATAT-T-AA
363470 TAAAATATTA
1 TAAAATATTA
363480 TCACAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 9 0.43
12 2 0.10
13 10 0.48
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (11 bp):
TAAAATATTAA
Found at i:368074 original size:7 final size:7
Alignment explanation
Indices: 368062--368108 Score: 94
Period size: 7 Copynumber: 6.7 Consensus size: 7
368052 TTGATCTAAC
368062 ATTTTAT
1 ATTTTAT
368069 ATTTTAT
1 ATTTTAT
368076 ATTTTAT
1 ATTTTAT
368083 ATTTTAT
1 ATTTTAT
368090 ATTTTAT
1 ATTTTAT
368097 ATTTTAT
1 ATTTTAT
368104 ATTTT
1 ATTTT
368109 TAATTAAAGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
ATTTTAT
Found at i:375768 original size:25 final size:25
Alignment explanation
Indices: 375723--375771 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
375713 ATATAGTTTT
*
375723 TATATTAATTATAAATGTTATAATA
1 TATATTAATTATAAATATTATAATA
375748 TATATTATATTAT-AATATTATAAT
1 TATATTA-ATTATAAATATTATAAT
375772 TAAACAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (25 bp):
TATATTAATTATAAATATTATAATA
Found at i:380591 original size:18 final size:19
Alignment explanation
Indices: 380562--380597 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
380552 AGTCCCTATA
*
380562 CTTTTATTTCTTTATTTTC
1 CTTTTATTTCTTCATTTTC
380581 CTTTT-TTTCTTCATTTT
1 CTTTTATTTCTTCATTTT
380598 TATTTTTCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (19 bp):
CTTTTATTTCTTCATTTTC
Found at i:388842 original size:31 final size:31
Alignment explanation
Indices: 388797--388871 Score: 114
Period size: 31 Copynumber: 2.4 Consensus size: 31
388787 TACACTAGTA
* *
388797 GTCACCCAACTATTAGTAAATTACTTTTTTG
1 GTCACTCAACTATTAATAAATTACTTTTTTG
* *
388828 GTCACTCAATTATTAATAAATTGCTTTTTTG
1 GTCACTCAACTATTAATAAATTACTTTTTTG
388859 GTCACTCAACTAT
1 GTCACTCAACTAT
388872 GAAAAGTTAC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.29, C:0.19, G:0.09, T:0.43
Consensus pattern (31 bp):
GTCACTCAACTATTAATAAATTACTTTTTTG
Found at i:393272 original size:19 final size:20
Alignment explanation
Indices: 393240--393281 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
393230 AGAAAAAAAT
393240 TATTGAATTATGTTTTGGTA
1 TATTGAATTATGTTTTGGTA
*
393260 TATTGAA-TATGTTTTTGTA
1 TATTGAATTATGTTTTGGTA
393279 TAT
1 TAT
393282 ATTTAAGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.26, C:0.00, G:0.17, T:0.57
Consensus pattern (20 bp):
TATTGAATTATGTTTTGGTA
Found at i:403165 original size:37 final size:37
Alignment explanation
Indices: 403121--403195 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
403111 CTATTGGAAT
403121 TTCATGAGTTAGAAAACTAATTGTAAAAGAAGAATAA
1 TTCATGAGTTAGAAAACTAATTGTAAAAGAAGAATAA
403158 TTCATGAGTTAGAAAACTAATTGTAAAAGAAGAATAA
1 TTCATGAGTTAGAAAACTAATTGTAAAAGAAGAATAA
403195 T
1 T
403196 AATATTAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.51, C:0.05, G:0.16, T:0.28
Consensus pattern (37 bp):
TTCATGAGTTAGAAAACTAATTGTAAAAGAAGAATAA
Found at i:403178 original size:20 final size:20
Alignment explanation
Indices: 403121--403179 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 20
403111 CTATTGGAAT
403121 TTCATGAGTTAGAAAACTAA
1 TTCATGAGTTAGAAAACTAA
* **
403141 TT-GT-A-AAAGAAGAA-TAA
1 TTCATGAGTTAGAA-AACTAA
403158 TTCATGAGTTAGAAAACTAA
1 TTCATGAGTTAGAAAACTAA
403178 TT
1 TT
403180 GTAAAAGAAG
Statistics
Matches: 28, Mismatches: 6, Indels: 10
0.64 0.14 0.23
Matches are distributed among these distances:
17 9 0.32
18 4 0.14
19 4 0.14
20 11 0.39
ACGTcount: A:0.47, C:0.07, G:0.15, T:0.31
Consensus pattern (20 bp):
TTCATGAGTTAGAAAACTAA
Found at i:403262 original size:25 final size:27
Alignment explanation
Indices: 403224--403279 Score: 71
Period size: 25 Copynumber: 2.1 Consensus size: 27
403214 TGTAATATGG
* *
403224 ATATCTTTAGATATGTAAAATATATAA
1 ATATCTTTAGATATATAAAATATAAAA
*
403251 ATAT-TTTA-ATATATAAAATCTAAAA
1 ATATCTTTAGATATATAAAATATAAAA
403276 ATAT
1 ATAT
403280 ATGTTAGAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 18 0.69
26 4 0.15
27 4 0.15
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.41
Consensus pattern (27 bp):
ATATCTTTAGATATATAAAATATAAAA
Found at i:403536 original size:25 final size:24
Alignment explanation
Indices: 403499--403561 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
403489 TAAAAAATGT
* * *
403499 AATATGTATATATTTAGATATGTAA
1 AATATATAAATATTTA-ATATATAA
403524 AATATATAAATATTTTAATATATAA
1 AATATATAAATA-TTTAATATATAA
* *
403549 AATCTAAAAATAT
1 AATATATAAATAT
403562 ATGTTAGAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
24 1 0.03
25 27 0.84
26 4 0.12
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.41
Consensus pattern (24 bp):
AATATATAAATATTTAATATATAA
Found at i:403662 original size:282 final size:282
Alignment explanation
Indices: 403158--403722 Score: 1112
Period size: 282 Copynumber: 2.0 Consensus size: 282
403148 AGAAGAATAA
403158 TTCATGAGTTAGAAAACTAATTGTAAAAGAAGAATAATAATATTAAATATAAAAAATGTAATATG
1 TTCATGAGTTAGAAAACTAATTGTAAAAGAAGAATAATAATATTAAATATAAAAAATGTAATATG
*
403223 GATATCTTTAGATATGTAAAATATATAAATATTTTAATATATAAAATCTAAAAATATATGTTAGA
66 GATATATTTAGATATGTAAAATATATAAATATTTTAATATATAAAATCTAAAAATATATGTTAGA
403288 ATTAAATAAAAATGATATTTTGAAGTTCAAGATTTTTATTTTATAGTGAGATCACATCTAATAAA
131 ATTAAATAAAAATGATATTTTGAAGTTCAAGATTTTTATTTTATAGTGAGATCACATCTAATAAA
403353 TGAAATAAGATTATGAGATATTTTAAAAAACCACCTATTTAGGTGGAATTTGAATAGCGGATTTG
196 TGAAATAAGATTATGAGATATTTTAAAAAACCACCTATTTAGGTGGAATTTGAATAGCGGATTTG
403418 AGCTCAAATCCCCTTTTGAAAT
261 AGCTCAAATCCCCTTTTGAAAT
403440 TTCATGAGTTAGAAAACTAATTGTAAAAGAAGAATAATAATATTAAATATAAAAAATGTAATATG
1 TTCATGAGTTAGAAAACTAATTGTAAAAGAAGAATAATAATATTAAATATAAAAAATGTAATATG
*
403505 TATATATTTAGATATGTAAAATATATAAATATTTTAATATATAAAATCTAAAAATATATGTTAGA
66 GATATATTTAGATATGTAAAATATATAAATATTTTAATATATAAAATCTAAAAATATATGTTAGA
403570 ATTAAATAAAAATGATATTTTGAAGTTCAAGATTTTTATTTTATAGTGAGATCACATCTAATAAA
131 ATTAAATAAAAATGATATTTTGAAGTTCAAGATTTTTATTTTATAGTGAGATCACATCTAATAAA
403635 TGAAATAAGATTATGAGATATTTTAAAAAACCACCTATTTAGGTGGAATTTGAATAGCGGATTTG
196 TGAAATAAGATTATGAGATATTTTAAAAAACCACCTATTTAGGTGGAATTTGAATAGCGGATTTG
403700 AGCTCAAATCCCCTTTTGAAAT
261 AGCTCAAATCCCCTTTTGAAAT
403722 T
1 T
403723 CCTTACAAAT
Statistics
Matches: 281, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
282 281 1.00
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (282 bp):
TTCATGAGTTAGAAAACTAATTGTAAAAGAAGAATAATAATATTAAATATAAAAAATGTAATATG
GATATATTTAGATATGTAAAATATATAAATATTTTAATATATAAAATCTAAAAATATATGTTAGA
ATTAAATAAAAATGATATTTTGAAGTTCAAGATTTTTATTTTATAGTGAGATCACATCTAATAAA
TGAAATAAGATTATGAGATATTTTAAAAAACCACCTATTTAGGTGGAATTTGAATAGCGGATTTG
AGCTCAAATCCCCTTTTGAAAT
Found at i:415647 original size:5 final size:5
Alignment explanation
Indices: 415634--415678 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
415624 CCGACCCTAT
* * *
415634 TCTCA TCTCG TCTCA TCTCG TCTCC TCTCG TCATCG TCTCG TCTC
1 TCTCG TCTCG TCTCG TCTCG TCTCG TCTCG TC-TCG TCTCG TCTC
415679 CCCTTGTCAC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
5 29 0.85
6 5 0.15
ACGTcount: A:0.07, C:0.42, G:0.11, T:0.40
Consensus pattern (5 bp):
TCTCG
Found at i:415649 original size:10 final size:10
Alignment explanation
Indices: 415634--415678 Score: 63
Period size: 10 Copynumber: 4.4 Consensus size: 10
415624 CCGACCCTAT
415634 TCTCATCTCG
1 TCTCATCTCG
415644 TCTCATCTCG
1 TCTCATCTCG
*
415654 TCTCCTCTCG
1 TCTCATCTCG
*
415664 TCATCGTCTCG
1 TC-TCATCTCG
415675 TCTC
1 TCTC
415679 CCCTTGTCAC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
10 23 0.72
11 9 0.28
ACGTcount: A:0.07, C:0.42, G:0.11, T:0.40
Consensus pattern (10 bp):
TCTCATCTCG
Found at i:415972 original size:14 final size:14
Alignment explanation
Indices: 415953--415979 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
415943 GCCTATTCAA
415953 TAATAATCCATAAC
1 TAATAATCCATAAC
415967 TAATAATCCATAA
1 TAATAATCCATAA
415980 GCCTAATCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.30
Consensus pattern (14 bp):
TAATAATCCATAAC
Done.