Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 105 of 199
Found at i:29708407 original size:82 final size:81
Alignment explanation
Indices: 29708294--29708449 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
29708284 AAATTGTACA
* *
29708294 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
29708358 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
29708375 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
29708440 TGCGAGTTGA
65 TGCGAATTGA
29708450 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:29708461 original size:82 final size:81
Alignment explanation
Indices: 29708290--29708470 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
29708280 GATTAAATTG
* *
29708290 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
29708355 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
29708371 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
29708435 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
29708453 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
29708471 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:29716399 original size:27 final size:27
Alignment explanation
Indices: 29716368--29716544 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
29716358 TAAATTGTAC
*
29716368 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
29716395 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
29716421 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
29716449 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* *
29716477 AGCACTAAGTGTGCG-ATTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
29716503 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
29716530 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
29716545 GACTCAATAT
Statistics
Matches: 126, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
26 23 0.18
27 81 0.64
28 22 0.17
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:29716514 original size:81 final size:81
Alignment explanation
Indices: 29716369--29716523 Score: 233
Period size: 81 Copynumber: 1.9 Consensus size: 81
29716359 AAATTGTACA
* *
29716369 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
29716434 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* *
29716450 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCG-ATTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGT
*
29716513 GTGCGAGTTGA
64 GTGCGAATTGA
29716524 TTATATAGCA
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
80 1 0.01
81 41 0.61
82 25 0.37
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:29716535 original size:81 final size:81
Alignment explanation
Indices: 29716365--29716544 Score: 229
Period size: 81 Copynumber: 2.2 Consensus size: 81
29716355 GATTAAATTG
* *
29716365 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
29716430 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * *
29716446 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCG-ATTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
29716509 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
29716527 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
29716545 GACTCAATAT
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
80 1 0.01
81 58 0.69
82 25 0.30
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:29732379 original size:16 final size:16
Alignment explanation
Indices: 29732328--29732372 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 16
29732318 AGGTGAGAAG
29732328 TAAAAGTTTTGGGGAAAAA
1 TAAAAGTTTTGGGG---AA
29732347 TAAAAAGTTTTGGGGAA
1 T-AAAAGTTTTGGGGAA
29732364 TAAAAGTTT
1 TAAAAGTTT
29732373 GAGGGAAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 8 0.32
17 3 0.12
19 1 0.04
20 13 0.52
ACGTcount: A:0.44, C:0.00, G:0.24, T:0.31
Consensus pattern (16 bp):
TAAAAGTTTTGGGGAA
Found at i:29737566 original size:18 final size:18
Alignment explanation
Indices: 29737543--29737578 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
29737533 ATCGTCATAA
29737543 TATCATGCTCACATTCAT
1 TATCATGCTCACATTCAT
29737561 TATCATGCTCACATTCAT
1 TATCATGCTCACATTCAT
29737579 AAACTAAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.06, T:0.39
Consensus pattern (18 bp):
TATCATGCTCACATTCAT
Found at i:29738968 original size:9 final size:9
Alignment explanation
Indices: 29738954--29738984 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
29738944 GATTAAGTAA
29738954 AATTAAATT
1 AATTAAATT
29738963 AATTAAATT
1 AATTAAATT
29738972 AATTAAAATT
1 AATT-AAATT
29738982 AAT
1 AAT
29738985 ATGATATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 13 0.62
10 8 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
AATTAAATT
Found at i:29739493 original size:68 final size:68
Alignment explanation
Indices: 29739415--29739548 Score: 173
Period size: 68 Copynumber: 2.0 Consensus size: 68
29739405 TTTTAATAAT
* * ** *
29739415 TTAATATTAAATTTAATTTAA-ATCTTATCTTAAT-AGTATTTTATTAATTTAATATTAAAGTGA
1 TTAATATTAAA-TTAATCTAATAT-TTATCTTAATAAATATTAGATGAATTTAATATTAAAGTGA
29739478 TTATC
64 TTATC
* *
29739483 TTAATGTTAAATTAATCTAATATTTATCTTGATAAATATTAGATGAATTTAATATTAAAGTGATT
1 TTAATATTAAATTAATCTAATATTTATCTTAATAAATATTAGATGAATTTAATATTAAAGTGATT
29739548 A
66 A
29739549 AGTTTAATTA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
67 17 0.30
68 40 0.70
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.49
Consensus pattern (68 bp):
TTAATATTAAATTAATCTAATATTTATCTTAATAAATATTAGATGAATTTAATATTAAAGTGATT
ATC
Found at i:29739744 original size:38 final size:38
Alignment explanation
Indices: 29739701--29739777 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
29739691 TTCTGATTTA
29739701 CAACTTGACCCAAAAGTTTAGAGAAGTTGTGAAATTAT
1 CAACTTGACCCAAAAGTTTAGAGAAGTTGTGAAATTAT
*
29739739 CAACTTGACCCAAAAGTTTAGAGAAGTTGTGCAATTAT
1 CAACTTGACCCAAAAGTTTAGAGAAGTTGTGAAATTAT
29739777 C
1 C
29739778 CCACTGGTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (38 bp):
CAACTTGACCCAAAAGTTTAGAGAAGTTGTGAAATTAT
Found at i:29744864 original size:20 final size:18
Alignment explanation
Indices: 29744817--29744865 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
29744807 CAAGATAAAC
29744817 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
29744834 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
29744854 ATTAAATTAATA
1 ATTAAATTAATA
29744866 AAATATTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:29749219 original size:17 final size:17
Alignment explanation
Indices: 29749190--29749222 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
29749180 AGATTTTGAA
29749190 TTTTTGAATTAGATTTC
1 TTTTTGAATTAGATTTC
29749207 TTTTT-AATCTAGATTT
1 TTTTTGAAT-TAGATTT
29749223 GAGTTAGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.24, C:0.06, G:0.09, T:0.61
Consensus pattern (17 bp):
TTTTTGAATTAGATTTC
Found at i:29751298 original size:39 final size:40
Alignment explanation
Indices: 29751255--29751422 Score: 148
Period size: 40 Copynumber: 4.2 Consensus size: 40
29751245 CTCGTTCAAG
* * * *
29751255 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
29751294 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
29751334 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * *
29751374 GGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
29751414 TGCCTTCGG
1 TGCCTTCGG
29751423 ATCTTAGTCC
Statistics
Matches: 111, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
39 26 0.23
40 81 0.73
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:29751406 original size:80 final size:80
Alignment explanation
Indices: 29751290--29751475 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
29751280 AGTAACTCAT
* * *
29751290 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTC-GGATCTTAACCCG
*
29751354 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
29751369 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
29751433 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
29751450 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
29751476 CAGCATTCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
79 11 0.12
80 72 0.77
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:29751435 original size:40 final size:40
Alignment explanation
Indices: 29751292--29751475 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
29751282 TAACTCATAC
* *
29751292 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
29751332 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
29751372 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
29751412 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
29751453 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
29751476 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 8 0.06
40 105 0.85
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:29756999 original size:20 final size:21
Alignment explanation
Indices: 29756974--29757013 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
29756964 TAAAATAAGT
29756974 AAAAAAT-TAATTTTAAATTC
1 AAAAAATATAATTTTAAATTC
*
29756994 AAAAAATATATTTTTAAATT
1 AAAAAATATAATTTTAAATT
29757014 TAGAATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (21 bp):
AAAAAATATAATTTTAAATTC
Found at i:29758407 original size:27 final size:27
Alignment explanation
Indices: 29758380--29758434 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
29758370 TTGTTCCATA
29758380 TCTTTTACTTTATACAGTAAAGAGATATT
1 TCTTTTA-TTTATACAGTAAAGAGATA-T
* * *
29758409 TTTTTTATTTATATATTAAAGAGATA
1 TCTTTTATTTATACAGTAAAGAGATA
29758435 ATTTCTGAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 17 0.74
29 6 0.26
ACGTcount: A:0.36, C:0.05, G:0.09, T:0.49
Consensus pattern (27 bp):
TCTTTTATTTATACAGTAAAGAGATAT
Found at i:29758649 original size:21 final size:21
Alignment explanation
Indices: 29758600--29758649 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
29758590 CACGTATCTC
29758600 TTTAAAAATTTAATTAATAAAT
1 TTTAAAAATTTAATTAAT-AAT
*
29758622 TTT-AAAATTTACTTAAT-AT
1 TTTAAAAATTTAATTAATAAT
29758641 TTCTAAAAA
1 TT-TAAAAA
29758650 ATATTTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 4 0.16
20 1 0.04
21 17 0.68
22 3 0.12
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (21 bp):
TTTAAAAATTTAATTAATAAT
Found at i:29763457 original size:20 final size:20
Alignment explanation
Indices: 29763432--29763472 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
29763422 AGGAGCGATT
29763432 TGTAAGCTGAACTCAACTTC
1 TGTAAGCTGAACTCAACTTC
29763452 TGTAAGCTGAACTCAACTTC
1 TGTAAGCTGAACTCAACTTC
29763472 T
1 T
29763473 CAATTTAGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (20 bp):
TGTAAGCTGAACTCAACTTC
Found at i:29767958 original size:16 final size:17
Alignment explanation
Indices: 29767934--29767966 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
29767924 TGTTACAAAT
29767934 TATAATATA-TATAAAC
1 TATAATATATTATAAAC
*
29767950 TATATTATATTATAAAC
1 TATAATATATTATAAAC
29767967 ATAGAAATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (17 bp):
TATAATATATTATAAAC
Found at i:29768449 original size:69 final size:68
Alignment explanation
Indices: 29768339--29768493 Score: 204
Period size: 69 Copynumber: 2.3 Consensus size: 68
29768329 TTTTGGAATG
* * * * * *
29768339 TTTAATGAAAATAGTGAAGAAGTGAGTTATAGGAGTCTTCTCTAGACAATGTGGAATTAAATTTA
1 TTTAATGAAAATAGTGAAGAACTAAGCTATAGAAGTATTCTCTAGACAATGTGGAATTAAA-ATA
29768404 AATT
65 AATT
* *
29768408 TTTAATGAAAATAGTGAAGAACTAAGCTAT-GAAAGTATTCTCTAGTCAATGTGGGATTAAAATA
1 TTTAATGAAAATAGTGAAGAACTAAGCTATAG-AAGTATTCTCTAGACAATGTGGAATTAAAATA
29768472 AATT
65 AATT
*
29768476 TTTAATAAAAATAGTGAA
1 TTTAATGAAAATAGTGAA
29768494 AAATTGTCAC
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
68 24 0.32
69 52 0.68
ACGTcount: A:0.43, C:0.06, G:0.18, T:0.34
Consensus pattern (68 bp):
TTTAATGAAAATAGTGAAGAACTAAGCTATAGAAGTATTCTCTAGACAATGTGGAATTAAAATAA
ATT
Found at i:29768579 original size:160 final size:164
Alignment explanation
Indices: 29768371--29768739 Score: 439
Period size: 165 Copynumber: 2.3 Consensus size: 164
29768361 TGAGTTATAG
* * * *
29768371 GAGTCTTCTCTAGACAATGTGGAATTAAATTTAAATTTTTAATGAAAA-TAGTGAAGAACTAAGC
1 GAGTGTTCTCTAGTCAATGTGG-ATTAAAGTTAACTTTTTAATGAAAATTA-TGAAGAACTAAGC
29768435 TATGA-AAGTATTCTCTAGTC-A-A-TGTGGGATTAAAATAA-ATTTTTAATAAAAATAGTGAA-
64 TATGAGAA-TATTCTCTAGTCAATATTGTGGGATTAAAATAATA-TTTTAATAAAAATAGTGAAG
* *
29768494 AAATTGTCACTTATTTATAAGAAAAATGTGAGATATTA
127 AAATTGTCACTTATTTATAAGAAAAATGTGAAATATGA
* * * **
29768532 GAGTGTTCTCTAGTCAATATGGATTAGAA-TTAACTTTTTAATGAAAATTATGAAGAAGTGATTT
1 GAGTGTTCTCTAGTCAATGTGGATTA-AAGTTAACTTTTTAATGAAAATTATGAAGAACTAAGCT
* * *
29768596 ATGAGAATATTCTCTAGTCAATATTGTGGGATTAAAATCATCATTTTCATGAAAATAGTGAAGAA
65 ATGAGAATATTCTCTAGTCAATATTGTGGGATTAAAATAAT-ATTTTAATAAAAATAGTGAAGAA
** *
29768661 ATTGTCACTTATTTATAAGTTAAATGTTAAATATGA
129 ATTGTCACTTATTTATAAGAAAAATGTGAAATATGA
* * *
29768697 GAGTGTTCTGTAATCAATGTGTAATTAAAGTTAACTTTTTAAT
1 GAGTGTTCTCTAGTCAATGTG-GATTAAAGTTAACTTTTTAAT
29768740 TTCTTAAATT
Statistics
Matches: 177, Mismatches: 20, Indels: 17
0.83 0.09 0.08
Matches are distributed among these distances:
160 47 0.27
161 26 0.15
162 1 0.01
163 15 0.08
164 17 0.10
165 54 0.31
166 17 0.10
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.37
Consensus pattern (164 bp):
GAGTGTTCTCTAGTCAATGTGGATTAAAGTTAACTTTTTAATGAAAATTATGAAGAACTAAGCTA
TGAGAATATTCTCTAGTCAATATTGTGGGATTAAAATAATATTTTAATAAAAATAGTGAAGAAAT
TGTCACTTATTTATAAGAAAAATGTGAAATATGA
Found at i:29770383 original size:24 final size:24
Alignment explanation
Indices: 29770317--29770391 Score: 89
Period size: 24 Copynumber: 3.1 Consensus size: 24
29770307 CTTGGGTGGC
* *
29770317 GGCGGTGGTGCTGGTGGTGGAGTT
1 GGCGGTGGAGCTGGTGGTGGTGTT
* * *
29770341 GGAGGTGGAG-TCGGAGGTGCTGTT
1 GGCGGTGGAGCT-GGTGGTGGTGTT
29770365 GGCGGTGGAGCTGGTGGTGGTGTT
1 GGCGGTGGAGCTGGTGGTGGTGTT
29770389 GGC
1 GGC
29770392 ACTGGTGTCC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
23 1 0.02
24 39 0.95
25 1 0.02
ACGTcount: A:0.07, C:0.09, G:0.57, T:0.27
Consensus pattern (24 bp):
GGCGGTGGAGCTGGTGGTGGTGTT
Found at i:29771080 original size:3 final size:3
Alignment explanation
Indices: 29771072--29771119 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
29771062 AGCAAATAAC
*
29771072 TAT TAT TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
29771120 ATACGTGCAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:29789968 original size:27 final size:27
Alignment explanation
Indices: 29789938--29789989 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
29789928 ATAAGAGCAT
*
29789938 ATTGAACTTCAACAGTAAGTGTAGTGG
1 ATTGAACGTCAACAGTAAGTGTAGTGG
* * *
29789965 ATTGGACGTCAGCAGTAGGTGTAGT
1 ATTGAACGTCAACAGTAAGTGTAGT
29789990 AGACGATGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.29, C:0.12, G:0.31, T:0.29
Consensus pattern (27 bp):
ATTGAACGTCAACAGTAAGTGTAGTGG
Found at i:29791841 original size:27 final size:27
Alignment explanation
Indices: 29791811--29791871 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
29791801 ATGAATAGGC
29791811 CCAAAATCATGTGGCCCACTATTGTAG
1 CCAAAATCATGTGGCCCACTATTGTAG
* * *
29791838 CCAAAACCATGTGGCCCATTATTGTGG
1 CCAAAATCATGTGGCCCACTATTGTAG
29791865 CCAAAAT
1 CCAAAAT
29791872 TAAGCGGCCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (27 bp):
CCAAAATCATGTGGCCCACTATTGTAG
Found at i:29791880 original size:27 final size:27
Alignment explanation
Indices: 29791823--29791887 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
29791813 AAAATCATGT
* * *
29791823 GGCCCACTATTGTAGCCAAAACCATGT
1 GGCCCATTATTGTAGCCAAAACCAAGC
* **
29791850 GGCCCATTATTGTGGCCAAAATTAAGC
1 GGCCCATTATTGTAGCCAAAACCAAGC
*
29791877 GGCCAATTATT
1 GGCCCATTATT
29791888 TTGAGGCTTA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (27 bp):
GGCCCATTATTGTAGCCAAAACCAAGC
Found at i:29797872 original size:29 final size:29
Alignment explanation
Indices: 29797840--29797896 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
29797830 TCCAAACATT
29797840 ATTTTCATTTCGTAATTTAAATTCTCAAC
1 ATTTTCATTTCGTAATTTAAATTCTCAAC
*
29797869 ATTTTCATTTTGTAATTTAAATTCTCAA
1 ATTTTCATTTCGTAATTTAAATTCTCAA
29797897 ACCAAATCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.32, C:0.14, G:0.04, T:0.51
Consensus pattern (29 bp):
ATTTTCATTTCGTAATTTAAATTCTCAAC
Found at i:29810305 original size:12 final size:12
Alignment explanation
Indices: 29810288--29810312 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
29810278 ACGAAATAGT
29810288 AAAAATAAAATA
1 AAAAATAAAATA
29810300 AAAAATAAAATA
1 AAAAATAAAATA
29810312 A
1 A
29810313 TAATAATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAAATAAAATA
Found at i:29812623 original size:44 final size:44
Alignment explanation
Indices: 29812270--29812626 Score: 315
Period size: 44 Copynumber: 8.1 Consensus size: 44
29812260 GTGTTATTTC
** * * *
29812270 AATCTACTCCACCACAACTTCAGAGAGATAAGACTTGTAGCTTC
1 AATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTT
* *
29812314 AATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGT-GACTTGT
1 AATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAG-CTT-T
* * * * * * *
29812359 AGT-T-TTACCACTGTAACTTCAGGGAAATAAGATTCGCTATCTTC
1 AATCTACT-CCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTT
* * * *
29812403 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGTTATCTTC
1 AATCTACTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTT
* * *
29812448 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGGATTT
1 AATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTT
* * * ** *
29812492 AATTTACTCTACTGAAACTTCAATGAGATGAGATTTGTAGCTTT
1 AATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTT
* * * * * *
29812536 AATTTGCTCCACTGCAACTTTAGTGAGATGAGATTTATAGCTTT
1 AATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTT
* * * *
29812580 AATCTACTCTACTGCAACTTTAGAGAGATAAGATTTATAGCTTT
1 AATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTT
29812624 AAT
1 AAT
29812627 TTGTGGCTTT
Statistics
Matches: 263, Mismatches: 43, Indels: 14
0.82 0.13 0.04
Matches are distributed among these distances:
43 2 0.01
44 183 0.70
45 77 0.29
46 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (44 bp):
AATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTT
Found at i:29821839 original size:40 final size:40
Alignment explanation
Indices: 29821795--29821887 Score: 168
Period size: 40 Copynumber: 2.3 Consensus size: 40
29821785 GGACTAAGAT
*
29821795 CCGAAGGCATTTGTGCGAGATACAAATTTCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
29821835 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
*
29821875 CCGAAGGCCTTTG
1 CCGAAGGCATTTG
29821888 ATTTCGTGCG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
Found at i:29829872 original size:39 final size:39
Alignment explanation
Indices: 29829629--29829888 Score: 233
Period size: 40 Copynumber: 6.6 Consensus size: 39
29829619 TTGAATGCTG
* * * * *
29829629 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
29829669 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
*
29829708 TTCCGGTTTAAG-CCCGAAGGCATTTGTGCGAGATAC-AAA
1 -TCCGGGTTAAGTCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
29829747 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* **
29829788 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
29829828 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
29829867 ACCGGGCTATGTCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCA
29829889 ATTGAACGAG
Statistics
Matches: 191, Mismatches: 20, Indels: 19
0.83 0.09 0.08
Matches are distributed among these distances:
39 74 0.39
40 103 0.54
41 13 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:29829910 original size:79 final size:80
Alignment explanation
Indices: 29829748--29829925 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
29829738 AGATACAAAT
* * * *
29829748 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** ** *
29829813 GTGCGAGTTGTTAAA
66 GAACGAGGAGCTAAA
* * * *
29829828 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCAATT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGC-ATT
*
29829892 -GAACGAGGAGCTATA
65 CGAACGAGGAGCTAAA
*
29829907 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
29829926 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 14 0.17
79 46 0.57
80 21 0.26
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGGAGCTAAA
Found at i:29845940 original size:27 final size:27
Alignment explanation
Indices: 29845910--29846087 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
29845900 ATATCGAGTC
* * * *
29845910 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
29845937 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
29845964 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
29845992 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
29846019 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
29846046 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
29846073 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
29846088 GTACAATTTA
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 108 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:29846049 original size:82 final size:81
Alignment explanation
Indices: 29845931--29846086 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
29845921 TGCTATATAA
*
29845931 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
29845996 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
29846013 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
29846077 CACTTAGTGC
65 CACTTAGTGC
29846087 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.24
82 52 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:29850766 original size:29 final size:29
Alignment explanation
Indices: 29850717--29850784 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
29850707 CAAGGAAGTT
* * *
29850717 AATTTCGACTGTGGCTACGAAATCTTAGC
1 AATTTCGACTATGGCTACGAAATCTCAAC
* * *
29850746 AATTTCGACTATGGTTGCGAACTCTCAAC
1 AATTTCGACTATGGCTACGAAATCTCAAC
*
29850775 AATTTTGACT
1 AATTTCGACT
29850785 GGCAACAGAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.34
Consensus pattern (29 bp):
AATTTCGACTATGGCTACGAAATCTCAAC
Found at i:29862837 original size:37 final size:37
Alignment explanation
Indices: 29862787--29862865 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
29862777 TTATTACGAA
* *
29862787 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
29862824 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
29862861 GTCTT
1 GTCTT
29862866 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:29863134 original size:47 final size:47
Alignment explanation
Indices: 29862984--29863738 Score: 1224
Period size: 47 Copynumber: 16.1 Consensus size: 47
29862974 CCCTTCGGGA
* * * * * * * * *
29862984 CTTATCACATTTATGCACTTTCGCATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* * *
29863031 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
29863077 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
29863124 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
29863171 CTTATCACATATATACATTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
29863218 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
29863265 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
29863312 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
29863359 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* * *
29863406 CTTATTACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
29863453 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
29863500 CTTATCACATATATACATTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
29863547 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
29863594 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
29863641 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
29863688 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
29863735 CTTA
1 CTTA
29863739 CTATCATTTC
Statistics
Matches: 673, Mismatches: 34, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
46 40 0.06
47 633 0.94
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:29866344 original size:3 final size:3
Alignment explanation
Indices: 29866336--29866423 Score: 54
Period size: 3 Copynumber: 29.7 Consensus size: 3
29866326 ATATTGCATG
* * * * * * *
29866336 TAA TAA TAA TAA TAA TAA TTA TTA TTA TTA TAA T-A TAT TGCA T-G
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA
* * * *
29866380 TAA TAA TAA TAA TAA TAA TAA TTA TTA TAA TAG TAA TTA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
29866424 TATTGCATGC
Statistics
Matches: 69, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
2 3 0.04
3 65 0.94
4 1 0.01
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.43
Consensus pattern (3 bp):
TAA
Found at i:29866386 original size:44 final size:44
Alignment explanation
Indices: 29866323--29866407 Score: 161
Period size: 44 Copynumber: 1.9 Consensus size: 44
29866313 TCATGGGTAG
*
29866323 AATATATTGCATGTAATAATAATAATAATAATTATTATTATTAT
1 AATATATTGCATGTAATAATAATAATAATAATAATTATTATTAT
29866367 AATATATTGCATGTAATAATAATAATAATAATAATTATTAT
1 AATATATTGCATGTAATAATAATAATAATAATAATTATTAT
29866408 AATAGTAATT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (44 bp):
AATATATTGCATGTAATAATAATAATAATAATAATTATTATTAT
Found at i:29875464 original size:33 final size:31
Alignment explanation
Indices: 29875427--29875492 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
29875417 TTAGTGTAAT
*
29875427 TATACACAGGAAATTCTAATTGTGATTCAAATA
1 TATACACA-AAAATT-TAATTGTGATTCAAATA
* * *
29875460 TATACATAAAAATTTGATTGTGATTCAACTA
1 TATACACAAAAATTTAATTGTGATTCAAATA
29875491 TA
1 TA
29875493 CACATTTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 17 0.59
32 5 0.17
33 7 0.24
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (31 bp):
TATACACAAAAATTTAATTGTGATTCAAATA
Found at i:29877291 original size:187 final size:187
Alignment explanation
Indices: 29876997--29877371 Score: 723
Period size: 187 Copynumber: 2.0 Consensus size: 187
29876987 GTGAGTTTGG
*
29876997 ATGACGGTGTATTCACCTGCGATTAGTGTAAAAACAGCGATGGCGGTGAGAATAGATATTGTAAC
1 ATGACGGTGTATTCACCTGCGATTAGTGTAAAAACAGCAATGGCGGTGAGAATAGATATTGTAAC
29877062 GATACTGTAGTTATGTATCTAATCGCCCATCCAAACCTACACTAAGTTTCTAAAAGACATGATGG
66 GATACTGTAGTTATGTATCTAATCGCCCATCCAAACCTACACTAAGTTTCTAAAAGACATGATGG
29877127 TTTTAATGCGGGCGGTGGGAATGATATCGATTAGCATTAAATTCATTTAAAGCCAAC
131 TTTTAATGCGGGCGGTGGGAATGATATCGATTAGCATTAAATTCATTTAAAGCCAAC
*
29877184 ATGACGGTGTATTCACCTGCGATTAGTGTAAAAACAGCAATGGCGGTGAGATTAGATATTGTAAC
1 ATGACGGTGTATTCACCTGCGATTAGTGTAAAAACAGCAATGGCGGTGAGAATAGATATTGTAAC
*
29877249 GATACTGTAGTTATGTATCTAATCGCCTATCCAAACCTACACTAAGTTTCTAAAAGACATGATGG
66 GATACTGTAGTTATGTATCTAATCGCCCATCCAAACCTACACTAAGTTTCTAAAAGACATGATGG
29877314 TTTTAATGCGGGCGGTGGGAATGATATCGATTAGCATTAAATTCATTTAAAGCCAAC
131 TTTTAATGCGGGCGGTGGGAATGATATCGATTAGCATTAAATTCATTTAAAGCCAAC
29877371 A
1 A
29877372 ACTGCCATGC
Statistics
Matches: 185, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
187 185 1.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (187 bp):
ATGACGGTGTATTCACCTGCGATTAGTGTAAAAACAGCAATGGCGGTGAGAATAGATATTGTAAC
GATACTGTAGTTATGTATCTAATCGCCCATCCAAACCTACACTAAGTTTCTAAAAGACATGATGG
TTTTAATGCGGGCGGTGGGAATGATATCGATTAGCATTAAATTCATTTAAAGCCAAC
Found at i:29883292 original size:20 final size:20
Alignment explanation
Indices: 29883263--29883322 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
29883253 ATTTTAAAAT
*
29883263 CAAGTGAAAATCATTTTAAC
1 CAAGTCAAAATCATTTTAAC
* *
29883283 CAAGTCAAAATGATTTTAAT
1 CAAGTCAAAATCATTTTAAC
*
29883303 CAAGTTAAAATCATTTTAAC
1 CAAGTCAAAATCATTTTAAC
29883323 ACATTAAACA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.45, C:0.13, G:0.08, T:0.33
Consensus pattern (20 bp):
CAAGTCAAAATCATTTTAAC
Found at i:29883382 original size:21 final size:19
Alignment explanation
Indices: 29883356--29883412 Score: 62
Period size: 18 Copynumber: 2.9 Consensus size: 19
29883346 CCAAGCCAAA
29883356 AAGTATCAATACCATTTGG
1 AAGTATCAATACCATTTGG
**
29883375 CCAAGTATCAATA-TTTTTGG
1 --AAGTATCAATACCATTTGG
*
29883395 AAGTATCAATACCCTTTG
1 AAGTATCAATACCATTTG
29883413 AAAAATCGAG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
18 11 0.35
19 4 0.13
20 5 0.16
21 11 0.35
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (19 bp):
AAGTATCAATACCATTTGG
Found at i:29886297 original size:21 final size:22
Alignment explanation
Indices: 29886256--29886299 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
29886246 ATATTAGTTG
29886256 AGAAAAAAATAAATATGTACATA
1 AGAAAAAAATAAATA-GTACATA
*
29886279 AGAAAACAATAAATA-TACATA
1 AGAAAAAAATAAATAGTACATA
29886300 TATATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
23 14 0.70
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.20
Consensus pattern (22 bp):
AGAAAAAAATAAATAGTACATA
Found at i:29894283 original size:20 final size:20
Alignment explanation
Indices: 29894254--29894345 Score: 73
Period size: 20 Copynumber: 4.6 Consensus size: 20
29894244 ATTTTAAAAT
*
29894254 CAAGTGAAAATTATTTTAAC
1 CAAGTCAAAATTATTTTAAC
* *
29894274 CAAGTCAAAATGATTTCAAC
1 CAAGTCAAAATTATTTTAAC
* * *
29894294 AAAGTTC-GAATCATTTTAA-
1 CAAG-TCAAAATTATTTTAAC
*
29894313 CACA-TCAAAATTATTTTCAAA
1 CA-AGTCAAAATTATTTT-AAC
29894334 CAAGTCAAAATT
1 CAAGTCAAAATT
29894346 GCTCGAGGCC
Statistics
Matches: 56, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
18 2 0.04
19 9 0.16
20 33 0.59
21 12 0.21
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.32
Consensus pattern (20 bp):
CAAGTCAAAATTATTTTAAC
Found at i:29894395 original size:19 final size:18
Alignment explanation
Indices: 29894359--29894407 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 18
29894349 CGAGGCCAAA
*
29894359 AAGTATTGATACTATTTGG
1 AAGTATCGATACTATTT-G
* *
29894378 AAGTATCGATATTTTTTG
1 AAGTATCGATACTATTTG
*
29894396 AATTATCGATAC
1 AAGTATCGATAC
29894408 CCTTTAAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.33, C:0.08, G:0.16, T:0.43
Consensus pattern (18 bp):
AAGTATCGATACTATTTG
Found at i:29900990 original size:68 final size:68
Alignment explanation
Indices: 29900878--29901013 Score: 227
Period size: 68 Copynumber: 2.0 Consensus size: 68
29900868 TTAAGAAACT
* * * *
29900878 TGTTACTCGTACAATTCTGCCTGAAACCCAAAAAACACAGATACTCGATGTCCCTATTCTCACGT
1 TGTTACTCGTACAATTCAGCCAGAAACCCAAAAAACACAAATACTCGATGTCCCTATTCTCACAT
29900943 CCA
66 CCA
*
29900946 TGTTACTCGTACAATTCAGCCAGAAACCCAATAAACACAAATACTCGATGTCCCTATTCTCACAT
1 TGTTACTCGTACAATTCAGCCAGAAACCCAAAAAACACAAATACTCGATGTCCCTATTCTCACAT
29901011 CCA
66 CCA
29901014 CGGAAAGCTA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 63 1.00
ACGTcount: A:0.33, C:0.31, G:0.10, T:0.26
Consensus pattern (68 bp):
TGTTACTCGTACAATTCAGCCAGAAACCCAAAAAACACAAATACTCGATGTCCCTATTCTCACAT
CCA
Found at i:29902214 original size:544 final size:546
Alignment explanation
Indices: 29901183--29902276 Score: 2129
Period size: 544 Copynumber: 2.0 Consensus size: 546
29901173 TCAATATTTT
29901183 TATCATTTTTGGGGGCCAAAGTGTAATTTTACCGTTACTAATTTAGAATTTAATAAATTATAAAG
1 TATCATTTTTGGGGGCCAAAGTGTAATTTTACCGTTACTAATTTAGAATTTAATAAATTATAAAG
29901248 GATCTAAATTAAAATGTTATCATTTTCAGGGGGCCATGCCCCCCCTAGGTCTCCACTACGCTCCG
66 GATCTAAATTAAAATGTTATCATTTTCAGGGGGCCATG-CCCCCCTAGGTCTCCACTACGCTCCG
*
29901313 CCACTGCTTACACCACTGAGTGATTACACCTAGGGGTGTAGCTAAGGGCTAGCAGGGGCCCTGAC
130 CCACTGCTTACACCACCGAGTGATTACACCTAGGGGTGTAGCTAAGGGCTAGCAGGGGCCCTGAC
29901378 CCCCCTCAAAAGTGGGAAAATTTCTATTTAGGCCCTTTAAAGATTTTAAATTTTAAATTAGTAAA
195 CCCCCTCAAAAGTGGGAAAATTTCTATTTAGGCCCTTTAAAGATTTTAAATTTTAAATTAGTAAA
*
29901443 AGTAAAATTGAACTTTGGGTCCTCTAAAAATACTTAAAAGAATTGATTTAATCCTTTAAAAATTA
260 AGTAAAATTGAACTTTGGGTCCTCTAAAAATAATTAAAAGAATTGATTTAATCCTTTAAAAATTA
*
29901508 TAAAGATATAGGCTCTTAAAATGGTATTTTTGTATTTTTAATATCGTAAAAGGGTTTTAAAATTT
325 TAAAGATATAGGCTATTAAAATGGTATTTTTGTATTTTTAATATCGTAAAAGGGTTTTAAAATTT
*
29901573 AATTCAGCTCCCTCCTAAAAAATTTTTTGGTTTCGCCCCTGATTACACCCCATTCATGGCTACCA
390 AATTCAGCTCCCTCCTAAAAAAATTTTTGGTTTCGCCCCTGATTACACCCCATTCATGGCTACCA
29901638 CTTGATATACTTATTTATACATGAATGTCTATGTGAGCCTGATAAAAGGAACCCACAAAGGGTTC
455 CTTGATATACTTATTTATACATGAATGTCTATGTGAGCCTGATAAAAGGAACCCACAAAGGGTTC
29901703 TCACAGGTGGCTATATGCCCTTACATA
520 TCACAGGTGGCTATATGCCCTTACATA
29901730 TATCATTTTTGGGGGCCAAAGTGTAATTTTACCGTTACTAATTTAGAATTTAATAAATTATAAAG
1 TATCATTTTTGGGGGCCAAAGTGTAATTTTACCGTTACTAATTTAGAATTTAATAAATTATAAAG
29901795 GATCTAAATTAAAATGTTATCATTTTCAGGGGGCCATG-CCCCCTAGGTCTCCACTACGCTCCGC
66 GATCTAAATTAAAATGTTATCATTTTCAGGGGGCCATGCCCCCCTAGGTCTCCACTACGCTCCGC
29901859 CACTGCTTACACCACCGAGTGATTACACCTAGGGGTGTAGCTAAGGGCTAGCAGGGGCCCTGA-C
131 CACTGCTTACACCACCGAGTGATTACACCTAGGGGTGTAGCTAAGGGCTAGCAGGGGCCCTGACC
29901923 CCCCTCAAAAGTGGGAAAATTTCTATTTAGGCCCTTTAAAGATTTTAAATTTTAAATTAGTAAAA
196 CCCCTCAAAAGTGGGAAAATTTCTATTTAGGCCCTTTAAAGATTTTAAATTTTAAATTAGTAAAA
29901988 GTAAAATTGAACTTTGGGTCCTCTAAAAATAATTAAAAGAATTGATTTAATCCTTTAAAAATTAT
261 GTAAAATTGAACTTTGGGTCCTCTAAAAATAATTAAAAGAATTGATTTAATCCTTTAAAAATTAT
29902053 AAAGATATAGGCTATTAAAATGGTATTTTTGTATTTTTAATATCGTAAAAGGGTTTTAAAATTTA
326 AAAGATATAGGCTATTAAAATGGTATTTTTGTATTTTTAATATCGTAAAAGGGTTTTAAAATTTA
29902118 ATTCAGCTCCCTCCTAAAAAAATTTTTGGTTTCGCCCCTGATTACACCCCATTCATGGCTACCAC
391 ATTCAGCTCCCTCCTAAAAAAATTTTTGGTTTCGCCCCTGATTACACCCCATTCATGGCTACCAC
29902183 TTGATATACTTATTTATACATGAATGTCTATGTGAGCCTGATAAAAGGAACCCACAAAGGGTTCT
456 TTGATATACTTATTTATACATGAATGTCTATGTGAGCCTGATAAAAGGAACCCACAAAGGGTTCT
29902248 CACAGGTGGCTATATGCCCTTACATA
521 CACAGGTGGCTATATGCCCTTACATA
29902274 TAT
1 TAT
29902277 GTATATTCAT
Statistics
Matches: 543, Mismatches: 4, Indels: 3
0.99 0.01 0.01
Matches are distributed among these distances:
544 352 0.65
545 88 0.16
547 103 0.19
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.33
Consensus pattern (546 bp):
TATCATTTTTGGGGGCCAAAGTGTAATTTTACCGTTACTAATTTAGAATTTAATAAATTATAAAG
GATCTAAATTAAAATGTTATCATTTTCAGGGGGCCATGCCCCCCTAGGTCTCCACTACGCTCCGC
CACTGCTTACACCACCGAGTGATTACACCTAGGGGTGTAGCTAAGGGCTAGCAGGGGCCCTGACC
CCCCTCAAAAGTGGGAAAATTTCTATTTAGGCCCTTTAAAGATTTTAAATTTTAAATTAGTAAAA
GTAAAATTGAACTTTGGGTCCTCTAAAAATAATTAAAAGAATTGATTTAATCCTTTAAAAATTAT
AAAGATATAGGCTATTAAAATGGTATTTTTGTATTTTTAATATCGTAAAAGGGTTTTAAAATTTA
ATTCAGCTCCCTCCTAAAAAAATTTTTGGTTTCGCCCCTGATTACACCCCATTCATGGCTACCAC
TTGATATACTTATTTATACATGAATGTCTATGTGAGCCTGATAAAAGGAACCCACAAAGGGTTCT
CACAGGTGGCTATATGCCCTTACATA
Found at i:29903771 original size:12 final size:12
Alignment explanation
Indices: 29903754--29903790 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
29903744 CGTAGGTTCC
29903754 GTAATGTGTTAT
1 GTAATGTGTTAT
*
29903766 GTAA--TGATAT
1 GTAATGTGTTAT
29903776 GTAATGTGTTAT
1 GTAATGTGTTAT
29903788 GTA
1 GTA
29903791 GTTTCTGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
10 9 0.43
12 12 0.57
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.46
Consensus pattern (12 bp):
GTAATGTGTTAT
Found at i:29904221 original size:6 final size:6
Alignment explanation
Indices: 29904144--29904225 Score: 62
Period size: 6 Copynumber: 13.7 Consensus size: 6
29904134 TGGGGGTAGG
* * * * * *
29904144 ATCTAT ATCTGT AT-TAGT ATTTGT ATATGT ATCTGT GTCTGT AACTGC
1 ATCTGT ATCTGT ATCT-GT ATCTGT ATCTGT ATCTGT ATCTGT ATCTGT
29904192 ATCTGT AT-TCGT ATCTGT -TACTGT ATCTGT ATCT
1 ATCTGT ATCT-GT ATCTGT AT-CTGT ATCTGT ATCT
29904226 ATGCTGTTTG
Statistics
Matches: 61, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
5 3 0.05
6 55 0.90
7 3 0.05
ACGTcount: A:0.21, C:0.15, G:0.16, T:0.49
Consensus pattern (6 bp):
ATCTGT
Found at i:29906487 original size:20 final size:19
Alignment explanation
Indices: 29906450--29906486 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
29906440 TAATAATAAT
29906450 ATTTAATATTAAAATTTTG
1 ATTTAATATTAAAATTTTG
29906469 ATTT-ATATATAAAATTTT
1 ATTTAATAT-TAAAATTTT
29906487 TATTATTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (19 bp):
ATTTAATATTAAAATTTTG
Found at i:29910861 original size:63 final size:63
Alignment explanation
Indices: 29910783--29910907 Score: 151
Period size: 63 Copynumber: 2.0 Consensus size: 63
29910773 ATGTGTCTTA
* * * * *
29910783 AATATAAACTAAGTGAGTCACACGACCTGGACACATGCCTGTATGTCTTACTCGTGTGACTCT
1 AATACAAACTAAGTGAGTCACACGACCTAGACACACGCCTGTATGTCTCACCCGTGTGACTCT
* * * * * *
29910846 AATACAAACTTAGTGAGTTACATGGCCTAGACACACGCTTGTGTGTCTCACCCGTGTGACTC
1 AATACAAACTAAGTGAGTCACACGACCTAGACACACGCCTGTATGTCTCACCCGTGTGACTC
29910908 CTACATCTCA
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
63 51 1.00
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (63 bp):
AATACAAACTAAGTGAGTCACACGACCTAGACACACGCCTGTATGTCTCACCCGTGTGACTCT
Found at i:29911582 original size:19 final size:19
Alignment explanation
Indices: 29911558--29911594 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
29911548 AAAATTTGAG
* *
29911558 AAAAAAATAAAATGAAAGT
1 AAAAAAAGAAAAGGAAAGT
29911577 AAAAAAAGAAAAGGAAAG
1 AAAAAAAGAAAAGGAAAG
29911595 AAGAGGAGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (19 bp):
AAAAAAAGAAAAGGAAAGT
Found at i:29912582 original size:25 final size:25
Alignment explanation
Indices: 29912546--29912595 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
29912536 GACACCAACT
* *
29912546 CAAGACCCAAAACCTATCGATCACC
1 CAAGACCAAAAACCCATCGATCACC
*
29912571 CAAGACCAAAAACCCGTCGATCACC
1 CAAGACCAAAAACCCATCGATCACC
29912596 GAACTCGGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.40, C:0.40, G:0.10, T:0.10
Consensus pattern (25 bp):
CAAGACCAAAAACCCATCGATCACC
Found at i:29915449 original size:7 final size:7
Alignment explanation
Indices: 29915437--29915467 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
29915427 GACGTTACTA
29915437 AAAAAAT
1 AAAAAAT
29915444 AAAAAAT
1 AAAAAAT
29915451 AAAAAAT
1 AAAAAAT
29915458 AAAAAAT
1 AAAAAAT
29915465 AAA
1 AAA
29915468 GAAGATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (7 bp):
AAAAAAT
Found at i:29917099 original size:11 final size:11
Alignment explanation
Indices: 29917083--29917132 Score: 57
Period size: 10 Copynumber: 4.5 Consensus size: 11
29917073 TTTAAAATTT
29917083 AAAAATTATTA
1 AAAAATTATTA
*
29917094 AAAAATCA-TA
1 AAAAATTATTA
*
29917104 AAAAATTATAA
1 AAAAATTATTA
29917115 ACAAAATTTATTA
1 A-AAAA-TTATTA
29917128 AAAAA
1 AAAAA
29917133 ATTTATATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
10 9 0.28
11 9 0.28
12 8 0.25
13 6 0.19
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (11 bp):
AAAAATTATTA
Found at i:29917125 original size:13 final size:12
Alignment explanation
Indices: 29917083--29917139 Score: 50
Period size: 13 Copynumber: 4.9 Consensus size: 12
29917073 TTTAAAATTT
*
29917083 AAAAA-TTATTA
1 AAAAATTTATAA
*
29917094 AAAAA-TCAT-A
1 AAAAATTTATAA
29917104 AAAAA-TTATAA
1 AAAAATTTATAA
29917115 ACAAAATTTATTAA
1 A-AAAATTTA-TAA
29917129 AAAAATTTATA
1 AAAAATTTATA
29917140 TATTTTTTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
10 9 0.22
11 10 0.25
12 6 0.15
13 11 0.28
14 4 0.10
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAAATTTATAA
Found at i:29917155 original size:17 final size:17
Alignment explanation
Indices: 29917130--29917164 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
29917120 ATTTATTAAA
29917130 AAAATTTATATATTTTTT
1 AAAATTTATA-ATTTTTT
29917148 AAAA-TTATAATTTTTT
1 AAAATTTATAATTTTTT
29917164 A
1 A
29917165 TTAAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 5 0.29
18 4 0.24
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
AAAATTTATAATTTTTT
Found at i:29921897 original size:12 final size:12
Alignment explanation
Indices: 29921882--29921918 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
29921872 ATTGTTATAA
29921882 TTATTTTATTTT
1 TTATTTTATTTT
*
29921894 TTATTATATTTT
1 TTATTTTATTTT
29921906 TTATTTTAGTTTT
1 TTATTTTA-TTTT
29921919 ACTATTTCGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 18 0.82
13 4 0.18
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (12 bp):
TTATTTTATTTT
Found at i:29937669 original size:88 final size:88
Alignment explanation
Indices: 29937577--29937781 Score: 270
Period size: 88 Copynumber: 2.3 Consensus size: 88
29937567 AGAATTTGCA
* * * * * *
29937577 ATCTTCAACCTACTCCACCACTCCTTAGGGTGGTAGGACTAATTGCTTAAATCTGCTTCTGCACT
1 ATCTTCGACCTGCTCCACTACTCCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACT
* *
29937642 CTCTTT-TGAAGATAAGATTCACC
66 AT-TTTGGGAAGATAAGATTCACC
* *
29937665 ATCTTCGACCTGTTCCACTACTTCC-TAGGGTGATTGGACTAATGGCTTAAATCTGCTTCTCCAC
1 ATCTTCGACCTGCTCCACTAC-TCCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCAC
29937729 TATTTTGGGAAGATAAGATTCACC
65 TATTTTGGGAAGATAAGATTCACC
* *
29937753 ATCTTCGATCTGCTCCACTACTGCTTAGG
1 ATCTTCGACCTGCTCCACTACTCCTTAGG
29937782 CTGACAGAAT
Statistics
Matches: 101, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
87 5 0.05
88 93 0.92
89 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (88 bp):
ATCTTCGACCTGCTCCACTACTCCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACT
ATTTTGGGAAGATAAGATTCACC
Found at i:29937697 original size:132 final size:132
Alignment explanation
Indices: 29937389--29937697 Score: 411
Period size: 132 Copynumber: 2.3 Consensus size: 132
29937379 TTGTATTGGA
* * *
29937389 ATAAGATTCTCCATCTTCGATCAGCTCCACTACTACTTAGGTTGACAGAATCTGCAATCTTCAAC
1 ATAAGATTCACCATCTTCGATCTGCTCCACTACTACTTAGGGTGACAGAATCTGCAATCTTCAAC
* * * *
29937454 CTACTCCACTACTGCTTTGGGTGATAGGACTAATGGCTTAAATCTACTTCTCCACTGTATTAGGA
66 CTACTCCACCACTCCTTAGGGTGATAGGACTAATGGCTTAAATCTACTTCTCCACTCTATTAGGA
29937519 AG
131 AG
* * * * *
29937521 ATAAGATTCGCTATCTTCGATCTGCTCCACTACTGCTTAAGGTGACAGAATTTGCAATCTTCAAC
1 ATAAGATTCACCATCTTCGATCTGCTCCACTACTACTTAGGGTGACAGAATCTGCAATCTTCAAC
* * * * * **
29937586 CTACTCCACCACTCCTTAGGGTGGTAGGACTAATTGCTTAAATCTGCTTCTGCACTCTCTTTTGA
66 CTACTCCACCACTCCTTAGGGTGATAGGACTAATGGCTTAAATCTACTTCTCCACTCTATTAGGA
29937651 AG
131 AG
* * * *
29937653 ATAAGATTCACCATCTTCGACCTGTTCCACTACTTCCTAGGGTGA
1 ATAAGATTCACCATCTTCGATCTGCTCCACTACTACTTAGGGTGA
29937698 TTGGACTAAT
Statistics
Matches: 152, Mismatches: 25, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
132 152 1.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (132 bp):
ATAAGATTCACCATCTTCGATCTGCTCCACTACTACTTAGGGTGACAGAATCTGCAATCTTCAAC
CTACTCCACCACTCCTTAGGGTGATAGGACTAATGGCTTAAATCTACTTCTCCACTCTATTAGGA
AG
Found at i:29937847 original size:220 final size:220
Alignment explanation
Indices: 29937445--29937913 Score: 679
Period size: 220 Copynumber: 2.1 Consensus size: 220
29937435 AGAATCTGCA
* * * *
29937445 ATCTTCAACCTACTCCACTACTGCTTTGGGTGATAGGACTAATGGCTTAAATCTACTTCTCCACT
1 ATCTTCGACCTGCTCCACTACTTCTTAGGGTGATAGGACTAATGGCTTAAATCTACTTCTCCACT
* * * *
29937510 GTATTAGGAAGATAAGATTCGCTATCTTCGATCTGCTCCACTACTGCTTAAGGTGACAGAATTTG
66 ATATTAGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAAGGTGACAGAATCTG
* * * * *
29937575 CAATCTTCAACCTACTCCACCACTCCTTAGGGTGGTAGGACTAATTGCTTAAATCTGCTTCTGCA
131 CAATCTTCAACCTACTCCACCACACCTTAGGGTGATAGGACTAATGGCTTAAATCTACTTCTCCA
* **
29937640 CTCTCTTTTGAAGATAAGATTCACC
196 CTCTATTAGGAAGATAAGATTCACC
* * * *
29937665 ATCTTCGACCTGTTCCACTACTTCCTAGGGTGATTGGACTAATGGCTTAAATCTGCTTCTCCACT
1 ATCTTCGACCTGCTCCACTACTTCTTAGGGTGATAGGACTAATGGCTTAAATCTACTTCTCCACT
* *
29937730 ATTTTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTT-AGGCTGACAGAATCT
66 ATATTAGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAAGG-TGACAGAATCT
* * *
29937794 GCAATCTTCAACCTACTGCACTACAGCTTAGGGTGATAGGACTAATGGCTTAAATCTACTTCTCC
130 GCAATCTTCAACCTACTCCACCACACCTTAGGGTGATAGGACTAATGGCTTAAATCTACTTCTCC
*
29937859 ACTGTATTAGGAAGATAAGATTCACC
195 ACTCTATTAGGAAGATAAGATTCACC
*
29937885 ATCTTCGATCTGCTCCACTACTTCTTAGG
1 ATCTTCGACCTGCTCCACTACTTCTTAGG
29937914 TAACAGAATC
Statistics
Matches: 219, Mismatches: 29, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
219 3 0.01
220 216 0.99
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (220 bp):
ATCTTCGACCTGCTCCACTACTTCTTAGGGTGATAGGACTAATGGCTTAAATCTACTTCTCCACT
ATATTAGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAAGGTGACAGAATCTG
CAATCTTCAACCTACTCCACCACACCTTAGGGTGATAGGACTAATGGCTTAAATCTACTTCTCCA
CTCTATTAGGAAGATAAGATTCACC
Found at i:29937902 original size:132 final size:132
Alignment explanation
Indices: 29937678--29942129 Score: 5805
Period size: 132 Copynumber: 33.8 Consensus size: 132
29937668 TTCGACCTGT
* * * * *
29937678 TCCACTACTTCCTAGGGTGATTGGACTAATGGCTTAAATCTGCTTCTCCACTATTTTGGGAAGAT
1 TCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGAT
*
29937743 AAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGCTGACAGAATCTGCAATCTTCAACCT
66 AAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCT
29937808 AC
131 AC
* * * *
29937810 TGCACTACAGCTTAGGGTGATAGGACTAATGGCTTAAATCTACTTCTCCACTGTATTAGGAAGAT
1 TCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGAT
* *
29937875 AAGATTCACCATCTTCGATCTGCTCCACTACTTCTTA-GGTAACAGAATCTGCAATCTTCAACCT
66 AAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCT
29937939 AC
131 AC
* * * *
29937941 TCCACTACTGCTTAGGGTCATAGGACTAATGGCTTAAATCTGCTTCTCAACCGTGTTGGGAAGAT
1 TCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGAT
* * * * * * *
29938006 AAGATTCACCAACTTCTATCTGATCCACTACTACCTAGGGTGACAGAATCGGCAATCTTCAACCA
66 AAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCT
29938071 AC
131 AC
* * * *
29938073 TCTACTACAGCTTAGGGTGATAGGACTAATGCCTTAAATCTACTTCTCCACTGTA-TGGGAAGAT
1 TCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGAT
* * ** * * *
29938137 AAGATTCACCATCTTCGATCTGCTCCACCACTGCTTAGCGTGGTAGGA-CT--AATGGCTTAAAT
66 AAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAAT--CTTCAAC
*
29938199 CTGC
129 CTAC
* * * * ** * ** * * * * *
29938203 TTCTCCACTG-TATTGGGAACATAGGATTCACCAT--CTTTGATTTGCTCCACTACTGCT-TAGG
1 TCCACTACTGCT-TAGGG-TGATAGGACT-A--ATGGCTTAAATCTGCTTCTCCACTG-TATTGG
* ** * * * * **
29938264 G-TGA-AAG-TATCATAAATCTTCAACCTACTCCCCTACTGCTTAGGGTGACAGAATCTAAAATC
60 GAAGATAAGAT-TCA-CCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATC
29938326 TTCAACCTAC
123 TTCAACCTAC
* **
29938336 TCCACCACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCT-CACTGTGCTGGGAAGAT
1 TCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGAT
* *
29938400 AAGATTCACCATCTTCGATC-GACTCCACTACTGCTTAGGGTGACGGAATCTACAATCTTCAACC
66 AAGATTCACCATCTTCGATCTG-CTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACC
*
29938464 AAC
130 TAC
* *
29938467 TCCACTACTACTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTAGGAAGAT
1 TCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGAT
* * *
29938532 AAGATTCACCATCTTCGTTCTGCTCCACTACTGCTTAGGGTGACAGAATCTACAATCTTTAACCT
66 AAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCT
29938597 AC
131 AC
* * * * *
29938599 TCGACTACTGCTTAGGGTGGTAGGACTAATGGTTTAAATCTGCTTCTCCATTGTATTCGGAAGAT
1 TCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGAT
* * *
29938664 AAGATTCACCATATTCGATCTGCTCCACTACTACTTAGGTTGACAGAATCTGCAATCTTCAACCT
66 AAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCT
*
29938729 GC
131 AC
** * * *
29938731 TCCACTACTGCTTAGGGTGATCTGACTAATGGCTTCAATCTGCTTCTCCACTATATTGGGAAGGT
1 TCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGAT
* *** * * ** *
29938796 AAGATTTATTTTCTTCGATCTGCCCCACTACTGTTTAGGGTGACAGAATCTATAATCTTTAACCT
66 AAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCT
29938861 AC
131 AC
* * * * *
29938863 TCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTTCTCCTCTACTGTTTTGGGAAGAT
1 TCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGAT
* * * * *
29938928 AAGATTCACTATTTTCGGTCTACTCCACTACTGCTTAGGGTGACAGAAAT-TGTAATCTTCAACC
66 AAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAG-AATCTGCAATCTTCAACC
*
29938992 CAC
130 TAC
* * * * * * * *
29938995 TCCACTGCTTCTTAGGGAGACAGGACTAATGGCTTAAATCTTCTACTCCACTATATTAGGAAGAT
1 TCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGAT
* ** * * * *
29939060 AAGATTCACTATCTTCGATCCACTCCACTACTGCTTAAGGTGATAGAGTCTGCAATCTTCAACGT
66 AAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCT
29939125 AC
131 AC
* * * * * * *
29939127 TCCACTACTGCTTATGGAGATTGGGCTAATGGCTTAAATCTGCTTCTCCACTATCTTGAGAAGAT
1 TCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGAT
* * *
29939192 ATGATTCACCATCTTCTATCCGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCT
66 AAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCT
29939257 AC
131 AC
* * * * * ** * * * * * *
29939259 TCCACTACTACTTAGGGAGATTGGGCTAATGGCTTCAATCTGCGACTTCATTATCTTGAGAAGTT
1 TCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGAT
* * * * ** * * *
29939324 ATGATTCGCCATCTTCAATCCGCTCCACTACTGCTTAGAATGACAGTATCTCCAATCTTCAACCC
66 AAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCT
29939389 AC
131 AC
* * * *
29939391 TCCACTACTGCTTAGGCTGATAAGACTGATGGCTTAAATCTGCTTCTCCACTGTGTTGGGAAGAT
1 TCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGAT
* * *
29939456 AAGAATCACCATCTTCGATCTGCTCGACTACTGCTTAGGGTGACAGAATCTGTAATCTTCAA-CT
66 AAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCT
29939520 GAC
131 -AC
* * * * *
29939523 TCCACTACTACTTAGGGTGATAGGACTAATGGCTGAAATCTTCTTCTCCATTGTATTTGGAAGAT
1 TCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGAT
* * * * * *
29939588 GAGATTCACCATATTCGATCTGCTCCACTACTGCTCAGGGTGGCAGAATCTGAAATCTTCATCCT
66 AAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCT
29939653 AC
131 AC
* *
29939655 TCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTACTTCTCCACTAT-TTGGGAAGAT
1 TCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGAT
* ** *
29939719 AGGATTCACCATCTTCGATCTGCTCCACTACTGCTTACAGTGGCAGAATCTG-ATATCTTCAACC
66 AAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCA-ATCTTCAACC
29939783 TAC
130 TAC
* * * * ** *
29939786 TCGACTACTCCTTA-GGTGGTAGGACGAATGGCTTAAATCCACTTCTCCACTGTATTTGGAAGAT
1 TCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGAT
* * * * * *
29939850 AAGAATCACCGTCTTCGTTCTGCTCCACTACTTCTTAGGGTGACA-AATCTGTAATCTTCAACCG
66 AAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCT
29939914 AC
131 AC
* *
29939916 ACCACTACTGCTTAGGGTGAT-TGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGAT
1 TCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGAT
29939980 AAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCT
66 AAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCT
29940045 AC
131 AC
* * * *
29940047 TCCGCTACTGCTTAGGGTGATAGGACTAATAGCTTAAATATGCTTCTCCACTGTGTTGGGAAGAT
1 TCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGAT
*
29940112 AAGATTCACCATCTTCGATCTGCAT-CACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAATC
66 AAGATTCACCATCTTCGATCTGC-TCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACC
*
29940176 GAC
130 TAC
* *
29940179 TCCACTACTGCTTAGGGTGATAGGACTAATAGCTTAAATCTGTTTCTCCACTGTATTGGGAA-AT
1 TCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGAT
* * * * *
29940243 AAGATTCACCATCTTGGATCTACTCCAATACTGCTTACGGTGACAGAATCTGCAATCTTCAACTT
66 AAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCT
29940308 AC
131 AC
* * * * *
29940310 TCGACTATTGCTTAGGGTGGTTGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAACAT
1 TCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGAT
* * * *
29940375 AAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTAAAAGAATCAT-AAATCTTCAACT
66 AAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATC-TGCAATCTTCAACC
29940439 TAC
130 TAC
* *
29940442 TCCACTACTGCTTAGGGTGATAGGACTGATGGCTTAAATCTGCTTCTCCACTATATTGGGAAGGA
1 TCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAA-GA
* * *
29940507 -AAGATTCATCATATTCGATCTGATCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACC
65 TAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACC
29940571 TAC
130 TAC
*
29940574 TCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTACTTCTCCACTGTATTGGGAAGAT
1 TCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGAT
*
29940639 AAGATTCACCATCATCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCT
66 AAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCT
29940704 AC
131 AC
* * * *
29940706 TCAACTACTGCTTAGGGTGATAGGACTAATAGCTTAAATCTGCTTCTCCATTGTATTTGGAAGAT
1 TCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGAT
* * * *
29940771 GAGATTGACCATATTCGATCTGCTCCACTACTGCTCAGGGTGACAGAATCTGCAATCTTCAACCT
66 AAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCT
29940836 AC
131 AC
* * *
29940838 TCCACTACTACTTAGGGTGATAGGACTAATGGCTTAAATCTACTTCTCCACTTTATTGGGAAGAT
1 TCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGAT
* * *
29940903 GAGATTCACTATCTTCGATCTGCTCCACTACTGCCTAGGGTGACAGAATCTGCAATCTTCAACCT
66 AAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCT
*
29940968 AG
131 AC
* * * * * * *
29940970 TCCACCACTACTTAGGGTGGTAGGACTAATGGCTTAAATCTGCTTCTACACTCTCTTGAGAAGAT
1 TCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGAT
** * * * *
29941035 AAGATTCACCATCTTCGATCTGCTCCACTACTTATTAGGGTGA-AAAATCTACAATCTTCGACCG
66 AAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCT
29941099 AC
131 AC
* * ** * *
29941101 TACACTACTGCTTAGGGGGATTTGACTAATAGCTTAAATCTGGTTC-CCACTGTATTGGGAAGAT
1 TCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGAT
* *
29941165 AAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAAAATCTGCAATCTTTAACCT
66 AAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCT
29941230 AC
131 AC
* * * *
29941232 TCCGCGACTGCTTAAGGTGATAGCACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGAT
1 TCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGAT
29941297 AAGATTCACCATCTTCGATCTGCAT-CACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACC
66 AAGATTCACCATCTTCGATCTGC-TCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACC
*
29941361 GAC
130 TAC
* * *
29941364 TCCACTACTGCTTAAGGTGATAGGACTAAT-GCTTAAATATGCTTCTCCACTGTATTGGAAAGAT
1 TCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGAT
* **
29941428 AAGATTCACCATCTTCGAACTATTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCT
66 AAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCT
29941493 AC
131 AC
* * * * * *
29941495 TCGACTACTGCTTGGGGTGGTAGGACTAATGGCTTAGATCTACTTCTCCACTGTATTGGGAACAT
1 TCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGAT
* *
29941560 AAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGAAAGAATCAT-AAATCTTCAACC
66 AAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATC-TGCAATCTTCAACC
29941624 TAC
130 TAC
* * *
29941627 TCCACTACTGCTTAGGGTGATTGGACTGATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGGT
1 TCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGAT
* * * * * *
29941692 AAGATTCATCATATTCGATTTGTTCCACTACTGCTTAGGGTGACAGAATCTACAATCTTCAACTT
66 AAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCT
29941757 AC
131 AC
* * *
29941759 TCCACTACTGCTTACGGCGATAGGACTAATGGCTTAAATCTACTTCTCCACTGTATTGGGAAGAT
1 TCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGAT
29941824 AAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCT
66 AAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCT
29941889 AC
131 AC
* * * * *
29941891 TCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTACTTCTCAACCGTGTTGCGAAGAT
1 TCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGAT
* * * * * * * * *
29941956 AAAATTCATCAACTTCTATCTGATCCACTACTGCCTAGGGTGACAGAATCGGTAATCTTCAACCA
66 AAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCT
29942021 AC
131 AC
* *
29942023 TCCACTACTGCTTAGAGTGATAGGGCTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGAT
1 TCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGAT
*
29942088 AAGATTCACCATCTTCGATCTGCTCCACTACTTCTTAGGGTG
66 AAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTG
29942130 GTAGGACTAA
Statistics
Matches: 3753, Mismatches: 518, Indels: 98
0.86 0.12 0.02
Matches are distributed among these distances:
128 3 0.00
129 4 0.00
130 226 0.06
131 804 0.21
132 2672 0.71
133 38 0.01
134 3 0.00
135 3 0.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (132 bp):
TCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGAT
AAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCT
AC
Found at i:29938261 original size:88 final size:87
Alignment explanation
Indices: 29938076--29938442 Score: 302
Period size: 88 Copynumber: 4.2 Consensus size: 87
29938066 AACCAACTCT
* * *
29938076 ACTACAGCTTAGGGTGATAGGACTAATGCCTTAAATCTACTTCTCCACTGTATGGGAAGATAAGA
1 ACTACTGCTTAGCGTGATAGGACTAATGCCTTAAATCTACTTCTCCACTGTATGGGAACATAAGA
29938141 TTCACCATCTTCGATCTGCTCC
66 TTCACCATCTTCGATCTGCTCC
* * * * *
29938163 ACCACTGCTTAGCGTGGTAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAACATAGG
1 ACTACTGCTTAGCGTGATAGGACTAATGCCTTAAATCTACTTCTCCACTGTA-TGGGAACATAAG
* *
29938228 ATTCACCATCTTTGATTTGCTCC
65 ATTCACCATCTTCGATCTGCTCC
* * * * * * *
29938251 ACTACTGCTTAGGGTGAAAGTATCATAAAT--CTTCAACCTAC-TCCCCTACTGCT-TAGGGTGA
1 ACTACTGCTTAGCGTGATAGGA-C-T-AATGCCTTAAATCTACTTCTCC-ACTG-TAT-GGG-AA
* ** * * *
29938312 C---AGAATCTAAAATCTTCAACCTACTCC
59 CATAAGATTC-ACCATCTTCGATCTGCTCC
* * * * * *
29938339 ACCACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCT-CACTGTGCTGGGAAGATAAG
1 ACTACTGCTTAGCGTGATAGGACTAATGCCTTAAATCTACTTCTCCACTGT-ATGGGAACATAAG
29938403 ATTCACCATCTTCGATC-GACTCC
65 ATTCACCATCTTCGATCTG-CTCC
*
29938426 ACTACTGCTTAGGGTGA
1 ACTACTGCTTAGCGTGA
29938443 CGGAATCTAC
Statistics
Matches: 217, Mismatches: 45, Indels: 36
0.73 0.15 0.12
Matches are distributed among these distances:
85 5 0.02
86 8 0.04
87 90 0.41
88 91 0.42
89 16 0.07
90 4 0.02
91 3 0.01
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (87 bp):
ACTACTGCTTAGCGTGATAGGACTAATGCCTTAAATCTACTTCTCCACTGTATGGGAACATAAGA
TTCACCATCTTCGATCTGCTCC
Found at i:29938302 original size:44 final size:44
Alignment explanation
Indices: 29938247--29938355 Score: 159
Period size: 44 Copynumber: 2.5 Consensus size: 44
29938237 CTTTGATTTG
* *
29938247 CTCCACTACTGCTTAGGGTGAAAGTATC-ATAAATCTTCAACCTA
1 CTCCCCTACTGCTTAGGGTGAAAGAATCTA-AAATCTTCAACCTA
*
29938291 CTCCCCTACTGCTTAGGGTGACAGAATCTAAAATCTTCAACCTA
1 CTCCCCTACTGCTTAGGGTGAAAGAATCTAAAATCTTCAACCTA
29938335 CTCCACC-ACTGCTTAGGGTGA
1 CTCC-CCTACTGCTTAGGGTGA
29938356 TAGGACTAAT
Statistics
Matches: 60, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
44 57 0.95
45 3 0.05
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (44 bp):
CTCCCCTACTGCTTAGGGTGAAAGAATCTAAAATCTTCAACCTA
Found at i:29938438 original size:87 final size:88
Alignment explanation
Indices: 29938071--29938442 Score: 325
Period size: 87 Copynumber: 4.2 Consensus size: 88
29938061 TCTTCAACCA
* * * *
29938071 ACTCTACTACAGCTTAGGGTGATAGGACTAATGCCTTAAATCTACTTCTCCACTGT-ATGGGAAG
1 ACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTACTTCTCCACTGTGCTGGGAAG
29938135 ATAAGATTCACCATCTTCGATCTG
66 ATAAGATTCACCATCTTCGATC-G
* * * * ** *
29938159 -CTCCACCACTGCTTAGCGTGGTAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAC
1 ACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTACTTCTCCACTGTGCTGGGAAG
* * *
29938223 ATAGGATTCACCATCTTTGATTTG
66 ATAAGATTCACCATCTTCGA-TCG
* * * * *
29938247 -CTCCACTACTGCTTAGGGTGAAAGTATCATAAAT--CTTCAACCTAC-TC-CC-CTACTGCTTA
1 ACTCCACTACTGCTTAGGGTGATAGGA-C-T-AATGGCTTAAATCTACTTCTCCACT-GTGC-T-
* * * ** * * *
29938306 GGG-TGA-CAGAATCTAAAATCTTCAACCT
60 GGGAAGATAAGATTC-ACCATCTTCGATCG
* *
29938334 ACTCCACCACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCT-CACTGTGCTGGGAAG
1 ACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTACTTCTCCACTGTGCTGGGAAG
29938398 ATAAGATTCACCATCTTCGATCG
66 ATAAGATTCACCATCTTCGATCG
29938421 ACTCCACTACTGCTTAGGGTGA
1 ACTCCACTACTGCTTAGGGTGA
29938443 CGGAATCTAC
Statistics
Matches: 216, Mismatches: 51, Indels: 35
0.72 0.17 0.12
Matches are distributed among these distances:
85 3 0.01
86 6 0.03
87 97 0.45
88 91 0.42
89 15 0.07
90 1 0.00
91 3 0.01
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (88 bp):
ACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTACTTCTCCACTGTGCTGGGAAG
ATAAGATTCACCATCTTCGATCG
Found at i:29938441 original size:175 final size:176
Alignment explanation
Indices: 29938159--29938486 Score: 491
Period size: 175 Copynumber: 1.9 Consensus size: 176
29938149 CTTCGATCTG
* *
29938159 CTCCACCACTGCTTAGCGTGGTAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAACA
1 CTCCACCACTGCTTAGCGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTACTGGGAACA
* * * *
29938224 TAGGATTCACCATCTTTGATTTGCTCCACTACTGCTTAGGGTGAAAGTATCATA-AATCTTCAAC
66 TAAGATTCACCATCTTCGATTCGCTCCACTACTGCTTAGGGTGAAAGAATC-TACAATCTTCAAC
* * *
29938288 CTACTCCCCTACTGCTTAGGGTGACAGAATCTAAAATCTTCAACCTA
130 CAACTCCACTACTACTTAGGGTGACAGAATCTAAAATCTTCAACCTA
* * *
29938335 CTCCACCACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCT-CACTGTGCTGGGAAGA
1 CTCCACCACTGCTTAGCGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTACTGGGAACA
**
29938399 TAAGATTCACCATCTTCGA-TCGACTCCACTACTGCTTAGGGTGACGGAATCTACAATCTTCAAC
66 TAAGATTCACCATCTTCGATTCG-CTCCACTACTGCTTAGGGTGAAAGAATCTACAATCTTCAAC
29938463 CAACTCCACTACTACTTAGGGTGA
130 CAACTCCACTACTACTTAGGGTGA
29938487 TAGGACTAAT
Statistics
Matches: 136, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
174 4 0.03
175 86 0.63
176 46 0.34
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (176 bp):
CTCCACCACTGCTTAGCGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTACTGGGAACA
TAAGATTCACCATCTTCGATTCGCTCCACTACTGCTTAGGGTGAAAGAATCTACAATCTTCAACC
AACTCCACTACTACTTAGGGTGACAGAATCTAAAATCTTCAACCTA
Found at i:29940593 original size:44 final size:44
Alignment explanation
Indices: 29940530--29940725 Score: 150
Period size: 44 Copynumber: 4.5 Consensus size: 44
29940520 TTCGATCTGA
29940530 TCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCTAC
1 TCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCTAC
* * * *
29940574 TCCACTACTGCTTAGGGTGATAGGA-CT--AATGGCTTAAATCTAC
1 TCCACTACTGCTTAGGGTGACAGAATCTGCAAT--CTTCAACCTAC
* * * * * * * * * * * * *
29940617 TTCTCCACTG-TATTGGGAAGATAAGATTC-ACCATCATCGATCTGC
1 TCCACTACTGCT-TAGGG-TGA-CAGAATCTGCAATCTTCAACCTAC
29940662 TCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCTAC
1 TCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCTAC
*
29940706 TCAACTACTGCTTAGGGTGA
1 TCCACTACTGCTTAGGGTGA
29940726 TAGGACTAAT
Statistics
Matches: 111, Mismatches: 31, Indels: 20
0.69 0.19 0.12
Matches are distributed among these distances:
41 3 0.03
42 1 0.01
43 27 0.24
44 56 0.50
45 20 0.18
46 2 0.02
47 2 0.02
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (44 bp):
TCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCTAC
Found at i:29941897 original size:44 final size:44
Alignment explanation
Indices: 29941715--29941910 Score: 141
Period size: 44 Copynumber: 4.5 Consensus size: 44
29941705 TTCGATTTGT
*
29941715 TCCACTACTGCTTAGGGTGACAGAATCTACAATCTTCAACTTAC
1 TCCACTACTGCTTAGGGTGACAGAATCTACAATCTTCAACCTAC
* * * * * *
29941759 TCCACTACTGCTTACGGCGATAGGA-CT--AATGGCTTAAATCTAC
1 TCCACTACTGCTTAGGGTGACAGAATCTACAAT--CTTCAACCTAC
* * * * * * * * * * *
29941802 TTCTCCACTG-TATTGGGAAGATAAGATTC-ACCATCTTCGATCTGC
1 TCCACTACTGCT-TAGGG-TGA-CAGAATCTACAATCTTCAACCTAC
*
29941847 TCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCTAC
1 TCCACTACTGCTTAGGGTGACAGAATCTACAATCTTCAACCTAC
29941891 TCCACTACTGCTTAGGGTGA
1 TCCACTACTGCTTAGGGTGA
29941911 TAGGACTAAT
Statistics
Matches: 110, Mismatches: 32, Indels: 20
0.68 0.20 0.12
Matches are distributed among these distances:
41 3 0.03
42 1 0.01
43 25 0.23
44 56 0.51
45 21 0.19
46 2 0.02
47 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.30
Consensus pattern (44 bp):
TCCACTACTGCTTAGGGTGACAGAATCTACAATCTTCAACCTAC
Found at i:29942141 original size:220 final size:220
Alignment explanation
Indices: 29941890--29942350 Score: 564
Period size: 220 Copynumber: 2.1 Consensus size: 220
29941880 CTTCAACCTA
* * *
29941890 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTACTTCTCAACCGTGTTGCGAAGA
1 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTACTTCTCAACCATATTGCGAACA
* * * *
29941955 TAAAATTCATCAACTTCTATCTGATCCACTACTGCCTAGGGTGACAGAATCGGT-AATCTTCAAC
66 TAAAATTCACCAACTTCGATCTGATCCACTACTGCCTAGGGTGAAAGAATC-ATAAATCTTCAAC
* * *
29942019 CAACTCCACTACTGCTTAGAGTGATAGGGCTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGA
130 CAACTCCACTACTGCTTAGAGTGATACGACTAATGGCTTAAATCTGCTTCTCCACTATATTGGGA
*
29942084 AGATAAGATTCACCATCTTCGATCTG
195 AGATAAGATTCACCATATTCGATCTG
* * * * * *
29942110 CTCCACTACTTCTTAGGGTGGTAGGACTAATGGCTTAAATCTGCTTCTCCACTATATTGGGAACA
1 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTACTTCTCAACCATATTGCGAACA
** * * * * * *
29942175 TAGGATTCACCATCTTCGATTTGCTCCACTATTGCTTCGGGTGAAAGAATCATAAATCTTCAACC
66 TAAAATTCACCAACTTCGATCTGATCCACTACTGCCTAGGGTGAAAGAATCATAAATCTTCAACC
* * * * ** * *
29942240 TATTCCACTACTGTTTAGGGTGATACGACTGGTTGCTTAAATCTGTTTCTCCACTATATTGGGAA
131 AACTCCACTACTGCTTAGAGTGATACGACTAATGGCTTAAATCTGCTTCTCCACTATATTGGGAA
* * *
29942305 GGTAGGATTCATCATATTCGATCTG
196 GATAAGATTCACCATATTCGATCTG
* *
29942330 CTCCGCTGCTGCTTAGGGTGA
1 CTCCACTACTGCTTAGGGTGA
29942351 CAGAATCTGC
Statistics
Matches: 200, Mismatches: 40, Indels: 2
0.83 0.17 0.01
Matches are distributed among these distances:
219 1 0.00
220 199 1.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.32
Consensus pattern (220 bp):
CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTACTTCTCAACCATATTGCGAACA
TAAAATTCACCAACTTCGATCTGATCCACTACTGCCTAGGGTGAAAGAATCATAAATCTTCAACC
AACTCCACTACTGCTTAGAGTGATACGACTAATGGCTTAAATCTGCTTCTCCACTATATTGGGAA
GATAAGATTCACCATATTCGATCTG
Found at i:29942159 original size:88 final size:88
Alignment explanation
Indices: 29942022--29942211 Score: 299
Period size: 88 Copynumber: 2.2 Consensus size: 88
29942012 CTTCAACCAA
* * *
29942022 CTCCACTACTGCTTAGAGTGATAGGGCTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGA
1 CTCCACTACTGCTTAGAGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATATTGGGAACA
29942087 TAAGATTCACCATCTTCGATCTG
66 TAAGATTCACCATCTTCGATCTG
* * *
29942110 CTCCACTACTTCTTAGGGTGGTAGGACTAATGGCTTAAATCTGCTTCTCCACTATATTGGGAACA
1 CTCCACTACTGCTTAGAGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATATTGGGAACA
* *
29942175 TAGGATTCACCATCTTCGATTTG
66 TAAGATTCACCATCTTCGATCTG
*
29942198 CTCCACTATTGCTT
1 CTCCACTACTGCTT
29942212 CGGGTGAAAG
Statistics
Matches: 92, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 92 1.00
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.34
Consensus pattern (88 bp):
CTCCACTACTGCTTAGAGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATATTGGGAACA
TAAGATTCACCATCTTCGATCTG
Found at i:29942250 original size:132 final size:132
Alignment explanation
Indices: 29942110--29944004 Score: 2573
Period size: 132 Copynumber: 14.4 Consensus size: 132
29942100 CTTCGATCTG
* * * *
29942110 CTCCACTACTTCTTAGGGTGGTAGGACTAATGGCTTAAATCTGCTTCTCCACTATATTGGGAACA
1 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGA
* * * * * *
29942175 TAGGATTCACCATCTTCGATTTGCTCCACTATTGCTTCGGGTGAAAGAATCAT-AAATCTTCAAC
66 TAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATC-TGCAATCTTCAAC
29942239 CTA
130 CTA
* * * ** * * * *
29942242 TTCCACTACTGTTTAGGGTGATACGACTGGTTGCTTAAATCTGTTTCTCCACTATATTGGGAAGG
1 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGA
* * * * * *
29942307 TAGGATTCATCATATTCGATCTGCTCCGCTGCTGCTTAGGGTGACAGAATCTGCAATCTTCATCC
66 TAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACC
29942372 TA
131 TA
* * * *
29942374 CTCCATTACTGCTTAGGGTGATAGGACTAATGGCTTAAATATACTTCTCCATTGTATTGGG-AGC
1 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAG-
*
29942438 ATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAAT
65 ATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAAC
29942503 CTA
130 CTA
* * * *
29942506 CTCCACTACTGCTTAGGGTGATAGAACTATTGGCTTAAATGTACTTCTCCACTGTATTGGGAAGA
1 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGA
* * **
29942571 TAAGATTCACCATCTTTGATCTGCTCCACTACTGCTTAGAGTGACAGAATCTAAAATCTTCAACC
66 TAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACC
29942636 TA
131 TA
* ** * * *
29942638 ATTGACTACTGCTTAGGGTGGTAGGACTAATGGTTTAAATCTGCTTCTCCATTGTATTGGGAAGA
1 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGA
* * * * * *
29942703 TAAGATTCACGATCTTCGATCTGCTCCACTACTACTTTGGTTGACAGAATCTACAATCTTTAACC
66 TAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACC
29942768 TA
131 TA
* * * *
29942770 CTCCACTACTGCTTAGGGTGATCGGACTAATGGCTTCAATCTGCTTCTCCACTATATTGGGAAGG
1 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGA
* * * * * * *
29942835 TAAGATTTATCATATTCGATCTGCCCCACTACTGTTTAGGGTGACAGAATCTGTAATATTCAACC
66 TAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACC
29942900 TA
131 TA
* * * *
29942902 CTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAACCTTCTTCTCCACTGTTTTGGGAAGA
1 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGA
* * * ** * *
29942967 TAAGATTCACTATCTTTGGTCCACTTCACTACTGCTTAGGGTGACAGAATCTGTAATCTTCAACC
66 TAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACC
29943032 TA
131 TA
* * * * *
29943034 CTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTTCTTCTCCACTATATTAGAAAGA
1 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGA
** * *
29943099 TAAGATTCACCATCTTCGATCCACTCCACTACTGCTTAAGGTGACAGAGTCTGCAATCTTCAACC
66 TAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACC
29943164 TA
131 TA
* * * * * *
29943166 CTCCACTACTGCTTATGGAGATTGGGCTAATGGCTTAAATCTGCTTCTCCACTATCA-TGAGAAG
1 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGT-ATTGGGAAG
* * *
29943230 ATATGATTCACCATCTTTGATCCGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAAC
65 ATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAAC
29943295 CTA
130 CTA
* * * * * * * *
29943298 CTCCAC-ATCTGCTTAGGGAGATTGGGCTAATGGCTTAAATCTGCTTCTTCATTATCTTGAGAAG
1 CTCCACTA-CTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAG
* * **
29943362 ATATA-AGTCACCATCTTCAATCCACTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAA
65 ATA-AGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAA
29943426 CCTA
129 CCTA
* * *
29943430 CTCCACTACTGCTTAGGCTGATAGGACTGATGGCTTAAATCTGCTTCTCCACTGTGTTGGGAAGA
1 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGA
* * * *
29943495 TAAGAATCACCATCTTCGATCTGCTCGACTACTGCTTAGGGTGACAGAATCTGTAATCTTCAA-T
66 TAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACC
29943559 TGA
131 T-A
* * *
29943562 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTGAAATCTGCTTCTCCATTGTATTTGGAAGA
1 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGA
* * *
29943627 TGAGATTCACCATATTCGATCTGCTCCACTACTGCTCA-GGTGACAGAATCTGCAATCTTCAACC
66 TAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACC
29943691 TA
131 TA
*
29943693 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTACTTCTCCACTGTATTGGGAAGA
1 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGA
*
29943758 TAGGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTG-CAGAATCTGCAATCTTCAACC
66 TAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACC
29943822 TA
131 TA
* * * **
29943824 CTCCACTACTACTTAGGGTGGTAGGACTAATGGCTTAAATCTACTTCTCCACTGTGGTGGGAAGA
1 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGA
*
29943889 TAAGAATCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACC
66 TAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACC
29943954 TA
131 TA
29943956 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTC
1 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTC
29944005 AACCGTGTTG
Statistics
Matches: 1558, Mismatches: 192, Indels: 26
0.88 0.11 0.01
Matches are distributed among these distances:
131 250 0.16
132 1304 0.84
133 4 0.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (132 bp):
CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGA
TAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACC
TA
Found at i:29942280 original size:352 final size:352
Alignment explanation
Indices: 29941758--29942482 Score: 1006
Period size: 352 Copynumber: 2.1 Consensus size: 352
29941748 CTTCAACTTA
* * * *
29941758 CTCCACTACTGCTTACGGCGATAGGACTAATGGCTTAAATCTACTTCTCCACTGTATTGGGAAGA
1 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTACTTCTCCACTATATTGGGAACA
* *
29941823 TAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACC
66 TAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGAAAGAATCTGAAATCTTCAACC
* * *
29941888 TACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTACTTCTCAACCGTGTTGCGAA
131 TACTCCACTACTGCTTAGGGTGATACGACTAATGGCTTAAATCTACTTCTCAACCATATTGCGAA
* *
29941953 GATAAAATTCATCA-ACTTCTATCTGATCCACTACTGCCTAGGGTGACAGAATCGGTAATCTTCA
196 GATAAAATTCATCATA-TTCGATCTGATCCACTACTGCCTAGGGTGACAGAATCGGCAATCTTCA
* * *
29942017 ACCAACTCCACTACTGCTTAGAGTGATAGGGCTAATGGCTTAAATCTGCTTCTCCACTGTATTGG
260 ACCAACTCCACTACTGCTTAGAGTGATAGGACTAATGGCTTAAATATACTTCTCCACTGTATTGG
29942082 GAAG-ATAAGATTCACCATCTTCGATCTG
325 G-AGCATAAGATTCACCATCTTCGATCTG
* * *
29942110 CTCCACTACTTCTTAGGGTGGTAGGACTAATGGCTTAAATCTGCTTCTCCACTATATTGGGAACA
1 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTACTTCTCCACTATATTGGGAACA
* * * *
29942175 TAGGATTCACCATCTTCGATTTGCTCCACTATTGCTTCGGGTGAAAGAATCAT-AAATCTTCAAC
66 TAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGAAAGAATC-TGAAATCTTCAAC
* * ** * ** * * *
29942239 CTATTCCACTACTGTTTAGGGTGATACGACTGGTTGCTTAAATCTGTTTCTCCACTATATTGGGA
130 CTACTCCACTACTGCTTAGGGTGATACGACTAATGGCTTAAATCTACTTCTCAACCATATTGCGA
* ** * * * * *
29942304 AGGTAGGATTCATCATATTCGATCTGCTCCGCTGCTGCTTAGGGTGACAGAATCTGCAATCTTCA
195 AGATAAAATTCATCATATTCGATCTGATCCACTACTGCCTAGGGTGACAGAATCGGCAATCTTCA
* * * * *
29942369 TCCTACTCCATTACTGCTTAGGGTGATAGGACTAATGGCTTAAATATACTTCTCCATTGTATTGG
260 ACCAACTCCACTACTGCTTAGAGTGATAGGACTAATGGCTTAAATATACTTCTCCACTGTATTGG
29942434 GAGCATAAGATTCACCATCTTCGATCTG
325 GAGCATAAGATTCACCATCTTCGATCTG
29942462 CTCCACTACTGCTTAGGGTGA
1 CTCCACTACTGCTTAGGGTGA
29942483 CAGAATCTGC
Statistics
Matches: 324, Mismatches: 46, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
351 2 0.01
352 320 0.99
353 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.32
Consensus pattern (352 bp):
CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTACTTCTCCACTATATTGGGAACA
TAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGAAAGAATCTGAAATCTTCAACC
TACTCCACTACTGCTTAGGGTGATACGACTAATGGCTTAAATCTACTTCTCAACCATATTGCGAA
GATAAAATTCATCATATTCGATCTGATCCACTACTGCCTAGGGTGACAGAATCGGCAATCTTCAA
CCAACTCCACTACTGCTTAGAGTGATAGGACTAATGGCTTAAATATACTTCTCCACTGTATTGGG
AGCATAAGATTCACCATCTTCGATCTG
Found at i:29942406 original size:484 final size:484
Alignment explanation
Indices: 29941626--29942614 Score: 1424
Period size: 484 Copynumber: 2.0 Consensus size: 484
29941616 CTTCAACCTA
* * * **
29941626 CTCCACTACTGCTTAGGGTGATTGGACTGATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGG
1 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATATTGGGAACA
* * * *
29941691 TAAGATTCATCATATTCGATTTGTTCCACTACTGCTTAGGGTGACAGAATCTACAATCTTCAACT
66 TAAGATTCACCATATTCGATTTGCTCCACTACTGCTTAGGGTGAAAGAATCTACAATCTTCAACC
* *
29941756 TACTCCACTACTGCTTACGGCGATAGGACTAATGGCTTAAATCTACTTCTCCACTGTATTGGGAA
131 TACTCCACTACTGCTTACGGCGATACGACTAATGGCTTAAATCTACTTCTCCACTATATTGGGAA
*
29941821 GATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAA
196 GATAAGATTCACCATATTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAA
* *
29941886 CCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTACTTCTCAACCGTGTTGCG
261 CCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATATACTTCTCAACCGTATTG-G
* * *
29941951 AAG-ATAAAATTCATCAACTTCTATCTGATCCACTACTGCCTAGGGTGACAGAATCGGTAATCTT
325 AAGCATAAAATTCACCAACTTCGATCTGATCCACTACTGCCTAGGGTGACAGAATCGGCAATCTT
** *
29942015 CAACCAACTCCACTACTGCTTAGAGTGATAGGGCTAATGGCTTAAATCTGCTTCTCCACTGTATT
390 CAACCAACTCCACTACTGCTTAGAGTGATAGAACTAATGGCTTAAATCTACTTCTCCACTGTATT
29942080 GGGAAGATAAGATTCACCATCTTCGATCTG
455 GGGAAGATAAGATTCACCATCTTCGATCTG
* *
29942110 CTCCACTACTTCTTAGGGTGGTAGGACTAATGGCTTAAATCTGCTTCTCCACTATATTGGGAACA
1 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATATTGGGAACA
* * * *
29942175 TAGGATTCACCATCTTCGATTTGCTCCACTATTGCTTCGGGTGAAAGAATCATA-AATCTTCAAC
66 TAAGATTCACCATATTCGATTTGCTCCACTACTGCTTAGGGTGAAAGAATC-TACAATCTTCAAC
* * * * ** * **
29942239 CTATTCCACTACTGTTTAGGGTGATACGACTGGTTGCTTAAATCTGTTTCTCCACTATATTGGGA
130 CTACTCCACTACTGCTTACGGCGATACGACTAATGGCTTAAATCTACTTCTCCACTATATTGGGA
* * * * *
29942304 AGGTAGGATTCATCATATTCGATCTGCTCCGCTGCTGCTTAGGGTGACAGAATCTGCAATCTTCA
195 AGATAAGATTCACCATATTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCA
* * * **
29942369 TCCTACTCCATTACTGCTTAGGGTGATAGGACTAATGGCTTAAATATACTTCTCCATTGTATTGG
260 ACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATATACTTCTCAACCGTATTGG
* * * * * *
29942434 GAGCATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTT
325 AAGCATAAAATTCACCAACTTCGATCTGATCCACTACTGCCTAGGGTGACAGAATCGGCAATCTT
* * * * *
29942499 CAATCTACTCCACTACTGCTTAGGGTGATAGAACTATTGGCTTAAATGTACTTCTCCACTGTATT
390 CAACCAACTCCACTACTGCTTAGAGTGATAGAACTAATGGCTTAAATCTACTTCTCCACTGTATT
*
29942564 GGGAAGATAAGATTCACCATCTTTGATCTG
455 GGGAAGATAAGATTCACCATCTTCGATCTG
*
29942594 CTCCACTACTGCTTAGAGTGA
1 CTCCACTACTGCTTAGGGTGA
29942615 CAGAATCTAA
Statistics
Matches: 443, Mismatches: 60, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
483 3 0.01
484 438 0.99
485 2 0.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (484 bp):
CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATATTGGGAACA
TAAGATTCACCATATTCGATTTGCTCCACTACTGCTTAGGGTGAAAGAATCTACAATCTTCAACC
TACTCCACTACTGCTTACGGCGATACGACTAATGGCTTAAATCTACTTCTCCACTATATTGGGAA
GATAAGATTCACCATATTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAA
CCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATATACTTCTCAACCGTATTGGA
AGCATAAAATTCACCAACTTCGATCTGATCCACTACTGCCTAGGGTGACAGAATCGGCAATCTTC
AACCAACTCCACTACTGCTTAGAGTGATAGAACTAATGGCTTAAATCTACTTCTCCACTGTATTG
GGAAGATAAGATTCACCATCTTCGATCTG
Found at i:29942682 original size:616 final size:616
Alignment explanation
Indices: 29941498--29942735 Score: 1933
Period size: 616 Copynumber: 2.0 Consensus size: 616
29941488 AACCTACTCG
* * *
29941498 ACTACTGCTTGGGGTGGTAGGACTAATGGCTTAGATCTACTTCTCCACTGTATTGGGAACATAAG
1 ACTACTGCTTAGGGTGGTAGGACTAATGGCTTAAATCTACTTCTCCACTATATTGGGAACATAAG
29941563 ATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGAAAGAATCATAAATCTTCAACCTACT
66 ATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGAAAGAATCATAAATCTTCAACCTACT
** *
29941628 CCACTACTGCTTAGGGTGATTGGACTGATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGGTA
131 CCACTACTGCTTAGGGTGATACGACTGATGGCTTAAATCTGCTTCTCCACTATATTGGGAAGGTA
* * *
29941693 AGATTCATCATATTCGATTTGTTCCACTACTGCTTAGGGTGACAGAATCTACAATCTTCAACTTA
196 AGATTCATCATATTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTACAATCTTCAACCTA
*
29941758 CTCCACTACTGCTTACGGCGATAGGACTAATGGCTTAAATCTACTTCTCCACTGTATTGGGAAGA
261 CTCCACTACTGCTTACGGCGATAGGACTAATGGCTTAAATATACTTCTCCACTGTATTGGGAAGA
29941823 TAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACC
326 TAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACC
* *
29941888 TACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTACTTCTCAACCGTGTTGCGAA
391 TACTCCACTACTGCTTAGGGTGATAGAACTAATGGCTTAAATCTACTTCTCAACCGTATTGCGAA
* * **
29941953 GATAAAATTCATCAACTTCTATCTGATCCACTACTGCCTAGGGTGACAGAATCGGTAATCTTCAA
456 GATAAAATTCACCAACTTCTATCTGATCCACTACTGCCTAGAGTGACAGAATCGAAAATCTTCAA
*
29942018 CCAACTCCACTACTGCTTAGAGTGATAGGGCTAATGGCTTAAATCTGCTTCTCCACTGTATTGGG
521 CCAACTCCACTACTGCTTAGAGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGG
29942083 AAGATAAGATTCACCATCTTCGATCTGCTCC
586 AAGATAAGATTCACCATCTTCGATCTGCTCC
* * *
29942114 ACTACTTCTTAGGGTGGTAGGACTAATGGCTTAAATCTGCTTCTCCACTATATTGGGAACATAGG
1 ACTACTGCTTAGGGTGGTAGGACTAATGGCTTAAATCTACTTCTCCACTATATTGGGAACATAAG
* * * *
29942179 ATTCACCATCTTCGATTTGCTCCACTATTGCTTCGGGTGAAAGAATCATAAATCTTCAACCTATT
66 ATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGAAAGAATCATAAATCTTCAACCTACT
* * * *
29942244 CCACTACTGTTTAGGGTGATACGACTGGTTGCTTAAATCTGTTTCTCCACTATATTGGGAAGGTA
131 CCACTACTGCTTAGGGTGATACGACTGATGGCTTAAATCTGCTTCTCCACTATATTGGGAAGGTA
* * * * *
29942309 GGATTCATCATATTCGATCTGCTCCGCTGCTGCTTAGGGTGACAGAATCTGCAATCTTCATCCTA
196 AGATTCATCATATTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTACAATCTTCAACCTA
* * * *
29942374 CTCCATTACTGCTTAGGGTGATAGGACTAATGGCTTAAATATACTTCTCCATTGTATTGGG-AGC
261 CTCCACTACTGCTTACGGCGATAGGACTAATGGCTTAAATATACTTCTCCACTGTATTGGGAAG-
*
29942438 ATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAAT
325 ATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAAC
* * * * *
29942503 CTACTCCACTACTGCTTAGGGTGATAGAACTATTGGCTTAAATGTACTTCTCCACTGTATTGGGA
390 CTACTCCACTACTGCTTAGGGTGATAGAACTAATGGCTTAAATCTACTTCTCAACCGTATTGCGA
* * * * *
29942568 AGATAAGATTCACCATCTT-TGATCTGCTCCACTACTGCTTAGAGTGACAGAATCTAAAATCTTC
455 AGATAAAATTCACCAACTTCT-ATCTGATCCACTACTGCCTAGAGTGACAGAATCGAAAATCTTC
** * * * *
29942632 AACCTAA-TTGACTACTGCTTAGGGTGGTAGGACTAATGGTTTAAATCTGCTTCTCCATTGTATT
519 AACC-AACTCCACTACTGCTTAGAGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATT
*
29942696 GGGAAGATAAGATTCACGATCTTCGATCTGCTCC
583 GGGAAGATAAGATTCACCATCTTCGATCTGCTCC
29942730 ACTACT
1 ACTACT
29942736 ACTTTGGTTG
Statistics
Matches: 564, Mismatches: 55, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
615 3 0.01
616 559 0.99
617 2 0.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (616 bp):
ACTACTGCTTAGGGTGGTAGGACTAATGGCTTAAATCTACTTCTCCACTATATTGGGAACATAAG
ATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGAAAGAATCATAAATCTTCAACCTACT
CCACTACTGCTTAGGGTGATACGACTGATGGCTTAAATCTGCTTCTCCACTATATTGGGAAGGTA
AGATTCATCATATTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTACAATCTTCAACCTA
CTCCACTACTGCTTACGGCGATAGGACTAATGGCTTAAATATACTTCTCCACTGTATTGGGAAGA
TAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACC
TACTCCACTACTGCTTAGGGTGATAGAACTAATGGCTTAAATCTACTTCTCAACCGTATTGCGAA
GATAAAATTCACCAACTTCTATCTGATCCACTACTGCCTAGAGTGACAGAATCGAAAATCTTCAA
CCAACTCCACTACTGCTTAGAGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGG
AAGATAAGATTCACCATCTTCGATCTGCTCC
Found at i:29944303 original size:35 final size:35
Alignment explanation
Indices: 29944241--29944326 Score: 106
Period size: 35 Copynumber: 2.5 Consensus size: 35
29944231 ATTTTATTTG
*
29944241 TTTA-ATTATATAATTAATGATATTTAAA-TATAA
1 TTTATATTATATAATTAATGATAATTAAATTATAA
*
29944274 TTTATATTATATGAATTTATGATAATTAAATTATAA
1 TTTATATTATAT-AATTAATGATAATTAAATTATAA
* *
29944310 -TGATATTATATTATTAA
1 TTTATATTATATAATTAA
29944327 ATAAATCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
33 4 0.09
34 11 0.24
35 25 0.56
36 5 0.11
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (35 bp):
TTTATATTATATAATTAATGATAATTAAATTATAA
Found at i:29944312 original size:25 final size:23
Alignment explanation
Indices: 29944268--29944328 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
29944258 TGATATTTAA
*
29944268 ATATAATTTATATTATATGA-ATTT
1 ATATAA-TTAAATTATATGATA-TT
29944292 ATGATAATTAAATTATAATGATATT
1 AT-ATAATTAAATTAT-ATGATATT
*
29944317 ATATTATTAAAT
1 ATATAATTAAAT
29944329 AAATCAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 19 0.59
25 12 0.38
26 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (23 bp):
ATATAATTAAATTATATGATATT
Found at i:29945640 original size:37 final size:39
Alignment explanation
Indices: 29945590--29945673 Score: 93
Period size: 39 Copynumber: 2.2 Consensus size: 39
29945580 TCGATGAGGT
* *
29945590 ACTGGGTACCAACT-TT-CTTCG-ACTTTGCCAATGAGAC
1 ACTGGGTGCCAACTATTGCTTCGAACTAT-CCAATGAGAC
* * *
29945627 ACTGGGTGTCAACTATTGCTTCGAACTATCCGATGAGGC
1 ACTGGGTGCCAACTATTGCTTCGAACTATCCAATGAGAC
29945666 ACTGGGTG
1 ACTGGGTG
29945674 ACATTCTGGT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
37 12 0.31
38 2 0.05
39 21 0.54
40 4 0.10
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.29
Consensus pattern (39 bp):
ACTGGGTGCCAACTATTGCTTCGAACTATCCAATGAGAC
Found at i:29951565 original size:3 final size:3
Alignment explanation
Indices: 29951557--29951587 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
29951547 TAAATGAGGG
29951557 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
29951588 TTAAGAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:29952212 original size:10 final size:10
Alignment explanation
Indices: 29952199--29952232 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
29952189 AAACAAAATA
29952199 AAAAATGAAT
1 AAAAATGAAT
*
29952209 -AAAATAAAT
1 AAAAATGAAT
29952218 AAAAATGAAT
1 AAAAATGAAT
29952228 AAAAA
1 AAAAA
29952233 AGGATTTGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (10 bp):
AAAAATGAAT
Found at i:29952232 original size:20 final size:20
Alignment explanation
Indices: 29952194--29952231 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
29952184 GCACAAAACA
29952194 AAATAAAAAATGAATAAAAT
1 AAATAAAAAATGAATAAAAT
29952214 AAAT-AAAAATGAATAAAA
1 AAATAAAAAATGAATAAAA
29952232 AAGGATTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.18
Consensus pattern (20 bp):
AAATAAAAAATGAATAAAAT
Found at i:29952605 original size:27 final size:28
Alignment explanation
Indices: 29952547--29952606 Score: 72
Period size: 26 Copynumber: 2.2 Consensus size: 28
29952537 TGAAACCCTA
** *
29952547 GTTT-GGCTATTGTTTTTTTTTTGGCCT
1 GTTTGGGCTATTGTTTTAATTTGGGCCT
29952574 G-TTGGGCTATT-TTTTAATTTGGGCCT
1 GTTTGGGCTATTGTTTTAATTTGGGCCT
29952600 GTTTGGG
1 GTTTGGG
29952607 TTAGTTTGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
26 15 0.54
27 13 0.46
ACGTcount: A:0.07, C:0.10, G:0.28, T:0.55
Consensus pattern (28 bp):
GTTTGGGCTATTGTTTTAATTTGGGCCT
Found at i:29952964 original size:59 final size:58
Alignment explanation
Indices: 29952818--29952966 Score: 160
Period size: 59 Copynumber: 2.5 Consensus size: 58
29952808 ATAGGATTAC
* * * * * *
29952818 TATTGAATATGATTTAATAAAAAAATAAAAAAAATTTAATCATATTTTAATATAATAAT
1 TATTAAATATGAATTAATAAAAAAA-ATATAAAATTTAATCATATCTCAATATAATAAT
* *
29952877 TATTAAATAT-AATTTAATAAAAATAATATATAATTTAATAGCAT-TCTCAATATAAT-AT
1 TATTAAATATGAA-TTAATAAAAAAAATATAAAATTTAAT--CATATCTCAATATAATAAT
29952935 TATTAAAATATGAATTAATAAAAAAAATATAA
1 TATT-AAATATGAATTAATAAAAAAAATATAA
29952967 TATATAATAT
Statistics
Matches: 75, Mismatches: 10, Indels: 10
0.79 0.11 0.11
Matches are distributed among these distances:
58 18 0.24
59 52 0.69
60 5 0.07
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (58 bp):
TATTAAATATGAATTAATAAAAAAAATATAAAATTTAATCATATCTCAATATAATAAT
Found at i:29954229 original size:58 final size:57
Alignment explanation
Indices: 29954100--29954235 Score: 168
Period size: 57 Copynumber: 2.4 Consensus size: 57
29954090 TATTGTTATT
* *
29954100 AAATTTTAATA-AGATTATTATTAAAATAATTTAGTAAAAATAATAAATAATTTAACC
1 AAATTTTAATATA-ATTATTATTAAAATAATTTAATAAAAATAATAAATAATTTAACA
* * * * *
29954157 ATATTTTAACATAATTATTGTTAAATATAATTTAAT-AAAATAATATATAATTTAATA
1 AAATTTTAATATAATTATTATTAAA-ATAATTTAATAAAAATAATAAATAATTTAACA
29954214 AAATTCTTAATATAATTATTAT
1 AAATT-TTAATATAATTATTAT
29954236 ATGAATTAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
57 42 0.64
58 24 0.36
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.43
Consensus pattern (57 bp):
AAATTTTAATATAATTATTATTAAAATAATTTAATAAAAATAATAAATAATTTAACA
Found at i:29957723 original size:9 final size:9
Alignment explanation
Indices: 29957709--29957745 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
29957699 TATTCAATTC
29957709 AAAAAAGAA
1 AAAAAAGAA
29957718 AAAAAAGAA
1 AAAAAAGAA
*
29957727 AGAAAAGAA
1 AAAAAAGAA
29957736 AAGAAAAGAA
1 AA-AAAAGAA
29957746 TGTGTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 18 0.72
10 7 0.28
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:29957728 original size:4 final size:5
Alignment explanation
Indices: 29957711--29957745 Score: 56
Period size: 5 Copynumber: 7.4 Consensus size: 5
29957701 TTCAATTCAA
29957711 AAAAG AAAA- AAAAG -AAAG AAAAG AAAAG AAAAG AA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AA
29957746 TGTGTTTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 8 0.29
5 20 0.71
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:29958209 original size:23 final size:22
Alignment explanation
Indices: 29958177--29958991 Score: 256
Period size: 23 Copynumber: 35.5 Consensus size: 22
29958167 GCAGAACTTA
*
29958177 AACACTTCAATTTACAACATTT
1 AACACCTCAATTTACAACATTT
* * *
29958199 GAGCACCTCAATTTACAGCAATTA
1 -AACACCTCAATTTACAAC-ATTT
*
29958223 AACACTTCAATTTACAACATTT
1 AACACCTCAATTTACAACATTT
*
29958245 AAACACCTCAACTTACAACACTTT
1 -AACACCTCAATTTACAACA-TTT
*
29958269 AACATCC-CAATTAACAACATTT
1 AACA-CCTCAATTTACAACATTT
*
29958291 ATACACCTCAA-TTACAACGA-TA
1 A-ACACCTCAATTTACAAC-ATTT
* *
29958313 AACATCTCAATTTCTAGCAAC--TA
1 AACACCTCAA-TT-TA-CAACATTT
** * *
29958336 AACAATTCAATTTGCAGTAC-TTAA
1 AACACCTCAATTTACA--ACATT-T
*
29958360 AACACTTCAATTTACAACATTT
1 AACACCTCAATTTACAACATTT
* * *
29958382 AA-ATGCTTCAATTTGCAGCACTTT
1 AACA--CCTCAATTTACAACA-TTT
* * *
29958406 AACACTTCAATTCACATCATTT
1 AACACCTCAATTTACAACATTT
* * *
29958428 AAATACTTCAA-TTGCAACACTTT
1 -AACACCTCAATTTACAACA-TTT
* *
29958451 AACACTTCAATTTACAGCATTT
1 AACACCTCAATTTACAACATTT
* * *
29958473 AAACACTTCAATTTGCAGCACTTT
1 -AACACCTCAATTTACAACA-TTT
* * *
29958497 AACATCTCTATTAACAACATTT
1 AACACCTCAATTTACAACATTT
*
29958519 ATACACCTCAA-TTACAACA-AT
1 A-ACACCTCAATTTACAACATTT
* * ** * *
29958540 AACACATCTTAATTTCCTGCAACTA
1 AACAC--CTCAATTTACAAC-ATTT
** * *
29958565 AACAATTCAATTTGCAGTAC-TTAA
1 AACACCTCAATTTACA--ACATT-T
*
29958589 AACACTTCAATTTACAACATTT
1 AACACCTCAATTTACAACATTT
** *
29958611 AAACAATTCAATTTGCAACACTTT
1 -AACACCTCAATTTACAACA-TTT
* * *
29958635 AACA-CTGCAATTCATAGCATTT
1 AACACCT-CAATTTACAACATTT
* * *
29958657 AAATACTTCAATTTGCAACACTTT
1 -AACACCTCAATTTACAACA-TTT
* * *
29958681 AACTCTTCAATTTACAGCATTT
1 AACACCTCAATTTACAACATTT
* * *
29958703 AAACACTTCAATTTGCAGCACTTT
1 -AACACCTCAATTTACAACA-TTT
* * *
29958727 AACATCTCTATTAACAACATTT
1 AACACCTCAATTTACAACATTT
*
29958749 ATACACCTCAA-TTACAACA-AT
1 A-ACACCTCAATTTACAACATTT
* * * * *
29958770 AACACATCTTAATTTCCAGCAACTA
1 AACAC--CTCAATTTACAAC-ATTT
** * *
29958795 AACAATTCAATTTGCAGTAC-TTAA
1 AACACCTCAATTTACA--ACATT-T
*
29958819 AACACTTCAATTTACAACATTT
1 AACACCTCAATTTACAACATTT
** *
29958841 AAACAATTCAATTTGCAACACTTT
1 -AACACCTCAATTTACAACA-TTT
* * * *
29958865 AACACTTCAATTCATAGCATTT
1 AACACCTCAATTTACAACATTT
* * *
29958887 AAATACTTCAATTTTCAACACTTT
1 -AACACCTCAATTTACAACA-TTT
* * * *
29958911 AACTCTTCAATTTACAGCTTTT
1 AACACCTCAATTTACAACATTT
* * *
29958933 AAACACTTCAATTTGCAGCACTTT
1 -AACACCTCAATTTACAACA-TTT
* * *
29958957 AACATCTCTATTAACAACATTT
1 AACACCTCAATTTACAACATTT
29958979 ATACACCTCAATT
1 A-ACACCTCAATT
29958992 ACAGCAATAA
Statistics
Matches: 601, Mismatches: 131, Indels: 120
0.71 0.15 0.14
Matches are distributed among these distances:
20 10 0.02
21 14 0.02
22 96 0.16
23 382 0.64
24 84 0.14
25 15 0.02
ACGTcount: A:0.39, C:0.24, G:0.04, T:0.33
Consensus pattern (22 bp):
AACACCTCAATTTACAACATTT
Found at i:29958241 original size:46 final size:46
Alignment explanation
Indices: 29958172--29958991 Score: 502
Period size: 46 Copynumber: 17.9 Consensus size: 46
29958162 TATTTGCAGA
* * *
29958172 ACTTAAACACTTCAATTTACAACATTTGAGCACCTCAATTTACAGC
1 ACTTAAACACTTCAATTTACAACATTTAAACACCTCAATTTACAAC
* *
29958218 AATTAAACACTTCAATTTACAACATTTAAACACCTCAACTTACAAC
1 ACTTAAACACTTCAATTTACAACATTTAAACACCTCAATTTACAAC
* * * *
29958264 ACTTTAACA-TCCCAATTAACAACATTTATACACCTCAA-TTACAAC
1 ACTTAAACACT-TCAATTTACAACATTTAAACACCTCAATTTACAAC
* ** ** * **
29958309 GA--TAAACA-TCTCAATTT-CTAGCAACTAAACAATTCAATTTGCAGT
1 -ACTTAAACACT-TCAATTTAC-AACATTTAAACACCTCAATTTACAAC
** * * *
29958354 ACTTAAAACACTTCAATTTACAACATTTAAATGCTTCAATTTGCAGC
1 ACTT-AAACACTTCAATTTACAACATTTAAACACCTCAATTTACAAC
* * * * * *
29958401 ACTTTAACACTTCAATTCACATCATTTAAATACTTCAA-TTGCAAC
1 ACTTAAACACTTCAATTTACAACATTTAAACACCTCAATTTACAAC
* * * * *
29958446 ACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGC
1 ACTTAAACACTTCAATTTACAACATTTAAACACCTCAATTTACAAC
* * * *
29958492 ACTTTAACA-TCTCTATTAACAACATTTATACACCTCAA-TTACAAC
1 ACTTAAACACT-TCAATTTACAACATTTAAACACCTCAATTTACAAC
* * ** ** ** * **
29958537 A-ATAACACATCTT-AATTTCCTGCAACTAAACAATTCAATTTGCAGT
1 ACTTAA-ACA-CTTCAATTTACAACATTTAAACACCTCAATTTACAAC
** *
29958583 ACTTAAAACACTTCAATTTACAACATTTAAACAATTCAATTTGCAAC
1 ACTT-AAACACTTCAATTTACAACATTTAAACACCTCAATTTACAAC
* * * * * * * *
29958630 ACTTTAACACTGCAATTCATAGCATTTAAATACTTCAATTTGCAAC
1 ACTTAAACACTTCAATTTACAACATTTAAACACCTCAATTTACAAC
* * * * * *
29958676 ACTTTAACTCTTCAATTTACAGCATTTAAACACTTCAATTTGCAGC
1 ACTTAAACACTTCAATTTACAACATTTAAACACCTCAATTTACAAC
* * * *
29958722 ACTTTAACA-TCTCTATTAACAACATTTATACACCTCAA-TTACAAC
1 ACTTAAACACT-TCAATTTACAACATTTAAACACCTCAATTTACAAC
* * * ** ** * **
29958767 A-ATAACACATCTT-AATTTCCAGCAACTAAACAATTCAATTTGCAGT
1 ACTTAA-ACA-CTTCAATTTACAACATTTAAACACCTCAATTTACAAC
** *
29958813 ACTTAAAACACTTCAATTTACAACATTTAAACAATTCAATTTGCAAC
1 ACTT-AAACACTTCAATTTACAACATTTAAACACCTCAATTTACAAC
* * * * * * *
29958860 ACTTTAACACTTCAATTCATAGCATTTAAATACTTCAATTTTCAAC
1 ACTTAAACACTTCAATTTACAACATTTAAACACCTCAATTTACAAC
* * * * * * *
29958906 ACTTTAACTCTTCAATTTACAGCTTTTAAACACTTCAATTTGCAGC
1 ACTTAAACACTTCAATTTACAACATTTAAACACCTCAATTTACAAC
* * * *
29958952 ACTTTAACA-TCTCTATTAACAACATTTATACACCTCAATT
1 ACTTAAACACT-TCAATTTACAACATTTAAACACCTCAATT
29958992 ACAGCAATAA
Statistics
Matches: 616, Mismatches: 131, Indels: 54
0.77 0.16 0.07
Matches are distributed among these distances:
43 1 0.00
44 29 0.05
45 105 0.17
46 369 0.60
47 106 0.17
48 6 0.01
ACGTcount: A:0.39, C:0.24, G:0.04, T:0.34
Consensus pattern (46 bp):
ACTTAAACACTTCAATTTACAACATTTAAACACCTCAATTTACAAC
Found at i:29958773 original size:230 final size:230
Alignment explanation
Indices: 29958227--29959049 Score: 1389
Period size: 230 Copynumber: 3.6 Consensus size: 230
29958217 CAATTAAACA
* * * * * * *
29958227 CTTCAATTTACAACATTTAAACACCTCAACTTACAACACTTTAACATCCCAATTAACAACATTTA
1 CTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACATCTCTATTAACAACATTTA
* *
29958292 TACACCTCAATTACAACGATAA-ACATCTCAATTTCTAGCAACTAAACAATTCAATTTGCAGTAC
66 TACACCTCAATTACAACAATAACACATCTCAATTTCCAGCAACTAAACAATTCAATTTGCAGTAC
*** * *
29958356 TTAAAACACTTCAATTTACAACATTTAAATGCTTCAATTTGCAGCACTTTAACACTTCAATTCAC
131 TTAAAACACTTCAATTTACAACATTTAAACAATTCAATTTGCAACACTTTAACACTTCAATTCAT
* *
29958421 ATCATTTAAATACTTCAA-TTGCAACACTTTAACA
196 AGCATTTAAATACTTCAATTTGCAACACTTTAACT
29958455 CTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACATCTCTATTAACAACATTTA
1 CTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACATCTCTATTAACAACATTTA
* *
29958520 TACACCTCAATTACAACAATAACACATCTTAATTTCCTGCAACTAAACAATTCAATTTGCAGTAC
66 TACACCTCAATTACAACAATAACACATCTCAATTTCCAGCAACTAAACAATTCAATTTGCAGTAC
*
29958585 TTAAAACACTTCAATTTACAACATTTAAACAATTCAATTTGCAACACTTTAACACTGCAATTCAT
131 TTAAAACACTTCAATTTACAACATTTAAACAATTCAATTTGCAACACTTTAACACTTCAATTCAT
29958650 AGCATTTAAATACTTCAATTTGCAACACTTTAACT
196 AGCATTTAAATACTTCAATTTGCAACACTTTAACT
29958685 CTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACATCTCTATTAACAACATTTA
1 CTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACATCTCTATTAACAACATTTA
*
29958750 TACACCTCAATTACAACAATAACACATCTTAATTTCCAGCAACTAAACAATTCAATTTGCAGTAC
66 TACACCTCAATTACAACAATAACACATCTCAATTTCCAGCAACTAAACAATTCAATTTGCAGTAC
29958815 TTAAAACACTTCAATTTACAACATTTAAACAATTCAATTTGCAACACTTTAACACTTCAATTCAT
131 TTAAAACACTTCAATTTACAACATTTAAACAATTCAATTTGCAACACTTTAACACTTCAATTCAT
*
29958880 AGCATTTAAATACTTCAATTTTCAACACTTTAACT
196 AGCATTTAAATACTTCAATTTGCAACACTTTAACT
*
29958915 CTTCAATTTACAGCTTTTAAACACTTCAATTTGCAGCACTTTAACATCTCTATTAACAACATTTA
1 CTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACATCTCTATTAACAACATTTA
* * * * *
29958980 TACACCTCAATTACAGCAATAAAACATCTCAATTTCCAGCAACTAAACACTTCAAATTGCAATAC
66 TACACCTCAATTACAACAATAACACATCTCAATTTCCAGCAACTAAACAATTCAATTTGCAGTAC
29959045 TTAAA
131 TTAAA
29959050 TAGGGCTTTA
Statistics
Matches: 564, Mismatches: 29, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
228 79 0.14
229 115 0.20
230 370 0.66
ACGTcount: A:0.39, C:0.24, G:0.04, T:0.33
Consensus pattern (230 bp):
CTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACATCTCTATTAACAACATTTA
TACACCTCAATTACAACAATAACACATCTCAATTTCCAGCAACTAAACAATTCAATTTGCAGTAC
TTAAAACACTTCAATTTACAACATTTAAACAATTCAATTTGCAACACTTTAACACTTCAATTCAT
AGCATTTAAATACTTCAATTTGCAACACTTTAACT
Found at i:29965316 original size:6 final size:6
Alignment explanation
Indices: 29965305--29965372 Score: 136
Period size: 6 Copynumber: 11.3 Consensus size: 6
29965295 CAAAAAAGGG
29965305 AATGAT AATGAT AATGAT AATGAT AATGAT AATGAT AATGAT AATGAT
1 AATGAT AATGAT AATGAT AATGAT AATGAT AATGAT AATGAT AATGAT
29965353 AATGAT AATGAT AATGAT AA
1 AATGAT AATGAT AATGAT AA
29965373 CTCCACAAAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 62 1.00
ACGTcount: A:0.51, C:0.00, G:0.16, T:0.32
Consensus pattern (6 bp):
AATGAT
Found at i:29973927 original size:18 final size:19
Alignment explanation
Indices: 29973884--29973927 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
29973874 TAGAGCGCCT
*
29973884 CAAAATAAAATTGATATTA
1 CAAAATAAAATTGATACTA
* *
29973903 CACAATAAAATT-TTACTA
1 CAAAATAAAATTGATACTA
29973921 CAAAATA
1 CAAAATA
29973928 CTCATTCTAC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (19 bp):
CAAAATAAAATTGATACTA
Found at i:29976628 original size:26 final size:26
Alignment explanation
Indices: 29976598--29976648 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
29976588 AACGCATGAC
29976598 TCAGAAGAAGTCTCTCCTCATGAATA
1 TCAGAAGAAGTCTCTCCTCATGAATA
29976624 TCAGAAGAAGTCTCTCCTCATGAAT
1 TCAGAAGAAGTCTCTCCTCATGAAT
29976649 TAAGTGTAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (26 bp):
TCAGAAGAAGTCTCTCCTCATGAATA
Found at i:29976937 original size:30 final size:30
Alignment explanation
Indices: 29976901--29977297 Score: 460
Period size: 30 Copynumber: 13.2 Consensus size: 30
29976891 AACCAAAGGA
*
29976901 ATTTGTATATAGATATACATTTCCGAATTG
1 ATTTGTATATAGATATACATTGCCGAATTG
*
29976931 ATTTGTATTTAGATATACATTGCCGAATTG
1 ATTTGTATATAGATATACATTGCCGAATTG
* * *
29976961 ATTTGTAT-TTG-GATACATTGCTGAATTG
1 ATTTGTATATAGATATACATTGCCGAATTG
29976989 ATTTGTATATAGATATACATTGCCGAATTG
1 ATTTGTATATAGATATACATTGCCGAATTG
* * * *
29977019 ATTTGTATTTGGATATACATTGTCAAATTG
1 ATTTGTATATAGATATACATTGCCGAATTG
* * *
29977049 ATTCGTATTTGGATATACATTGCCGAATTG
1 ATTTGTATATAGATATACATTGCCGAATTG
* *
29977079 ATTTGTATATAGATATACATTGTCGAATTT
1 ATTTGTATATAGATATACATTGCCGAATTG
* * *
29977109 ATTTTTATTTGGATATACATTGCCGAATTG
1 ATTTGTATATAGATATACATTGCCGAATTG
* * * *
29977139 ATTCGTATTTGGATATACATTGCCAAATTG
1 ATTTGTATATAGATATACATTGCCGAATTG
29977169 ATTTGTATATAGATATACATT-CTCGAATTG
1 ATTTGTATATAGATATACATTGC-CGAATTG
* *
29977199 ATTTTTATATAGATATACATTGCCAAATTG
1 ATTTGTATATAGATATACATTGCCGAATTG
* *
29977229 ATTCGTAT-TTGAATATACATTGCCGAATTG
1 ATTTGTATATAG-ATATACATTGCCGAATTG
* * *
29977259 ATTTTTATATGTATACATATATATTGCCGAATTG
1 A--TTTGTA--TATAGATATACATTGCCGAATTG
29977293 ATTTG
1 ATTTG
29977298 AGCATTGGAT
Statistics
Matches: 313, Mismatches: 44, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
28 23 0.07
29 7 0.02
30 255 0.81
31 1 0.00
32 7 0.02
34 19 0.06
35 1 0.00
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.44
Consensus pattern (30 bp):
ATTTGTATATAGATATACATTGCCGAATTG
Found at i:29977118 original size:90 final size:90
Alignment explanation
Indices: 29976901--29977276 Score: 564
Period size: 90 Copynumber: 4.2 Consensus size: 90
29976891 AACCAAAGGA
* *
29976901 ATTTGTATATAGATATACATT-TCCGAATTGATTTGTATTTAGATATACATTGCCGAATTGATTT
1 ATTTGTATATAGATATACATTGT-CGAATTGATTTGTATTTAGATATACATTGCCAAATTGATTC
*
29976965 GTATTTGG--ATACATTGCTGAATTG
65 GTATTTGGATATACATTGCCGAATTG
* * *
29976989 ATTTGTATATAGATATACATTGCCGAATTGATTTGTATTTGGATATACATTGTCAAATTGATTCG
1 ATTTGTATATAGATATACATTGTCGAATTGATTTGTATTTAGATATACATTGCCAAATTGATTCG
29977054 TATTTGGATATACATTGCCGAATTG
66 TATTTGGATATACATTGCCGAATTG
* * * *
29977079 ATTTGTATATAGATATACATTGTCGAATTTATTTTTATTTGGATATACATTGCCGAATTGATTCG
1 ATTTGTATATAGATATACATTGTCGAATTGATTTGTATTTAGATATACATTGCCAAATTGATTCG
*
29977144 TATTTGGATATACATTGCCAAATTG
66 TATTTGGATATACATTGCCGAATTG
* * *
29977169 ATTTGTATATAGATATACATTCTCGAATTGATTTTTATATAGATATACATTGCCAAATTGATTCG
1 ATTTGTATATAGATATACATTGTCGAATTGATTTGTATTTAGATATACATTGCCAAATTGATTCG
*
29977234 TATTTGAATATACATTGCCGAATTG
66 TATTTGGATATACATTGCCGAATTG
*
29977259 ATTTTTATAT-G-TATACAT
1 ATTTGTATATAGATATACAT
29977277 ATATATTGCC
Statistics
Matches: 265, Mismatches: 20, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
88 73 0.28
89 1 0.00
90 191 0.72
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (90 bp):
ATTTGTATATAGATATACATTGTCGAATTGATTTGTATTTAGATATACATTGCCAAATTGATTCG
TATTTGGATATACATTGCCGAATTG
Found at i:29983478 original size:16 final size:17
Alignment explanation
Indices: 29983459--29983491 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
29983449 GTATAAAGGT
29983459 TAATTAA-GTAAAATAA
1 TAATTAATGTAAAATAA
*
29983475 TAATTAATGTTAAATAA
1 TAATTAATGTAAAATAA
29983492 ACAAAACAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (17 bp):
TAATTAATGTAAAATAA
Found at i:29984216 original size:30 final size:30
Alignment explanation
Indices: 29984180--29984457 Score: 385
Period size: 30 Copynumber: 9.3 Consensus size: 30
29984170 GTATATGTTT
* * *
29984180 TATACATTACTGAATTGATTTGTATATAGA
1 TATACATTGCCGAATTGATTTGTATTTAGA
29984210 TATACATTGCCGAATTGATTTGTATTTAGA
1 TATACATTGCCGAATTGATTTGTATTTAGA
* * *
29984240 TATACATTGCCGAATTGGTTCGTATTTGGA
1 TATACATTGCCGAATTGATTTGTATTTAGA
* ** *
29984270 TATATATTGCTAAATTGATTTGTATATAGA
1 TATACATTGCCGAATTGATTTGTATTTAGA
*
29984300 TATACATTGCCGAATTGATTTGTATTTGGA
1 TATACATTGCCGAATTGATTTGTATTTAGA
* * *
29984330 TATACATTGCCGAATTTATTCGTATTTGGA
1 TATACATTGCCGAATTGATTTGTATTTAGA
* *
29984360 TATACATTGCCAAATTGATTTGTATATAGA
1 TATACATTGCCGAATTGATTTGTATTTAGA
* *
29984390 TATACATTGCCGAATTGATTCGTATTTGGA
1 TATACATTGCCGAATTGATTTGTATTTAGA
*
29984420 TATACATTGCCGAATTGATTTGTATATAGA
1 TATACATTGCCGAATTGATTTGTATTTAGA
29984450 TATACATT
1 TATACATT
29984458 TTGGATATAC
Statistics
Matches: 216, Mismatches: 32, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 216 1.00
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.42
Consensus pattern (30 bp):
TATACATTGCCGAATTGATTTGTATTTAGA
Found at i:29984345 original size:90 final size:90
Alignment explanation
Indices: 29984192--29984457 Score: 451
Period size: 90 Copynumber: 3.0 Consensus size: 90
29984182 TACATTACTG
*
29984192 AATTGATTTGTATATAGATATACATTGCCGAATTGATTTGTATTTAGATATACATTGCCGAATTG
1 AATTGATTTGTATATAGATATACATTGCCGAATTGATTTGTATTTGGATATACATTGCCGAATTG
* * *
29984257 GTTCGTATTTGGATATATATTGCTA
66 ATTCGTATTTGGATATACATTGCCA
*
29984282 AATTGATTTGTATATAGATATACATTGCCGAATTGATTTGTATTTGGATATACATTGCCGAATTT
1 AATTGATTTGTATATAGATATACATTGCCGAATTGATTTGTATTTGGATATACATTGCCGAATTG
29984347 ATTCGTATTTGGATATACATTGCCA
66 ATTCGTATTTGGATATACATTGCCA
*
29984372 AATTGATTTGTATATAGATATACATTGCCGAATTGATTCGTATTTGGATATACATTGCCGAATTG
1 AATTGATTTGTATATAGATATACATTGCCGAATTGATTTGTATTTGGATATACATTGCCGAATTG
* * *
29984437 ATTTGTATATAGATATACATT
66 ATTCGTATTTGGATATACATT
29984458 TTGGATATAC
Statistics
Matches: 166, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
90 166 1.00
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.42
Consensus pattern (90 bp):
AATTGATTTGTATATAGATATACATTGCCGAATTGATTTGTATTTGGATATACATTGCCGAATTG
ATTCGTATTTGGATATACATTGCCA
Found at i:29984479 original size:43 final size:43
Alignment explanation
Indices: 29984414--29984500 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
29984404 TTGATTCGTA
*
29984414 TTTGGATATACATTGCCGAATTGATTTGTATATAGATATACAT
1 TTTGGATATACATTGCCGAATTGATTTGCATATAGATATACAT
*
29984457 TTTGGATATACATTGCCTAATTGATTTGCATATAGATATACAT
1 TTTGGATATACATTGCCGAATTGATTTGCATATAGATATACAT
29984500 T
1 T
29984501 GCCGAATTGA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.43
Consensus pattern (43 bp):
TTTGGATATACATTGCCGAATTGATTTGCATATAGATATACAT
Found at i:29984484 original size:24 final size:24
Alignment explanation
Indices: 29984413--29984490 Score: 60
Period size: 24 Copynumber: 3.5 Consensus size: 24
29984403 ATTGATTCGT
*
29984413 ATTTGGATATACATTGCCGAATTG
1 ATTTGGATATACATTGCCTAATTG
* * *
29984437 ATTTGTATATAGA-T--ATACA-T-
1 ATTTGGATATACATTGCCTA-ATTG
29984457 -TTTGGATATACATTGCCTAATTG
1 ATTTGGATATACATTGCCTAATTG
*
29984480 ATTTGCATATA
1 ATTTGGATATA
29984491 GATATACATT
Statistics
Matches: 39, Mismatches: 8, Indels: 14
0.64 0.13 0.23
Matches are distributed among these distances:
19 10 0.26
20 1 0.03
21 3 0.08
22 4 0.10
23 1 0.03
24 20 0.51
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.42
Consensus pattern (24 bp):
ATTTGGATATACATTGCCTAATTG
Found at i:29984497 original size:30 final size:29
Alignment explanation
Indices: 29984461--29984587 Score: 139
Period size: 30 Copynumber: 4.3 Consensus size: 29
29984451 ATACATTTTG
* *
29984461 GATATACATTGCCTAATTGATTTGCATAT
1 GATATACATTGCCGAATTGATTTGTATAT
*
29984490 AGATATACATTGCCGAATTGATTAGTATAT
1 -GATATACATTGCCGAATTGATTTGTATAT
** * * *
29984520 GCATATACATTATCGAATTTATTCGTATTT
1 G-ATATACATTGCCGAATTGATTTGTATAT
*
29984550 GGATATACATCGCCGAATTGATTTGTATAT
1 -GATATACATTGCCGAATTGATTTGTATAT
29984580 G-TATACAT
1 GATATACAT
29984588 ATATATTGCC
Statistics
Matches: 81, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
28 7 0.09
29 2 0.02
30 71 0.88
31 1 0.01
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.40
Consensus pattern (29 bp):
GATATACATTGCCGAATTGATTTGTATAT
Found at i:29984507 original size:73 final size:73
Alignment explanation
Indices: 29984388--29984530 Score: 216
Period size: 73 Copynumber: 2.0 Consensus size: 73
29984378 TTTGTATATA
* * * *
29984388 GATATACATTGCCGAATTGATTCGTATTTGGATATACATTGCCGAATTGATTTGTATATAG-ATA
1 GATATACATTGCCGAATTGATTCGCATATAGATATACATTGCCGAATTGATTAGTATAT-GCATA
29984452 TACATTTTG
65 TACATTTTG
* *
29984461 GATATACATTGCCTAATTGATTTGCATATAGATATACATTGCCGAATTGATTAGTATATGCATAT
1 GATATACATTGCCGAATTGATTCGCATATAGATATACATTGCCGAATTGATTAGTATATGCATAT
29984526 ACATT
66 ACATT
29984531 ATCGAATTTA
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
72 1 0.02
73 62 0.98
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (73 bp):
GATATACATTGCCGAATTGATTCGCATATAGATATACATTGCCGAATTGATTAGTATATGCATAT
ACATTTTG
Found at i:29984537 original size:103 final size:103
Alignment explanation
Indices: 29984354--29984559 Score: 313
Period size: 103 Copynumber: 2.0 Consensus size: 103
29984344 TTTATTCGTA
* * * *
29984354 TTTGGATATACATTGCCAAATTGATTTGTATATAGATATACATTGCCGAATTGATTCGTATTTGG
1 TTTGGATATACATTGCCAAATTGATTTGCATATAGATATACATTGCCGAATTGATTAGTATATGC
* *
29984419 ATATACATTGCCGAATTGATTTGTATATAGATATACAT
66 ATATACATTACCGAATTGATTCGTATATAGATATACAT
*
29984457 TTTGGATATACATTGCCTAATTGATTTGCATATAGATATACATTGCCGAATTGATTAGTATATGC
1 TTTGGATATACATTGCCAAATTGATTTGCATATAGATATACATTGCCGAATTGATTAGTATATGC
* * * *
29984522 ATATACATTATCGAATTTATTCGTATTTGGATATACAT
66 ATATACATTACCGAATTGATTCGTATATAGATATACAT
29984560 CGCCGAATTG
Statistics
Matches: 92, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
103 92 1.00
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (103 bp):
TTTGGATATACATTGCCAAATTGATTTGCATATAGATATACATTGCCGAATTGATTAGTATATGC
ATATACATTACCGAATTGATTCGTATATAGATATACAT
Found at i:29984565 original size:133 final size:131
Alignment explanation
Indices: 29984324--29984587 Score: 386
Period size: 133 Copynumber: 2.0 Consensus size: 131
29984314 TTGATTTGTA
* * * * *
29984324 TTTGGATATACATTGCCGAATTTATTCGTATTTGGATATACATTGCCAAATTGATTTGTATATAG
1 TTTGGATATACATTGCCGAATTGATTCGCATATAGATATACATTGCCAAATTGATTAGTATATAG
* *
29984389 ATATACATTGCCGAATTGATTCGTATTTGGATATACATTGCCGAATTGATTTGTATATAGATATA
66 ATATACATTACCGAATTGATTCGTATTTGGATATACATCGCCGAATTGATTTGTATAT-G-TATA
29984454 CAT
129 CAT
* * *
29984457 TTTGGATATACATTGCCTAATTGATTTGCATATAGATATACATTGCCGAATTGATTAGTATAT-G
1 TTTGGATATACATTGCCGAATTGATTCGCATATAGATATACATTGCCAAATTGATTAGTATATAG
* *
29984521 CATATACATTATCGAATTTATTCGTATTTGGATATACATCGCCGAATTGATTTGTATATGTATAC
66 -ATATACATTACCGAATTGATTCGTATTTGGATATACATCGCCGAATTGATTTGTATATGTATAC
29984586 AT
130 AT
29984588 ATATATTGCC
Statistics
Matches: 118, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
131 7 0.06
132 2 0.02
133 109 0.92
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (131 bp):
TTTGGATATACATTGCCGAATTGATTCGCATATAGATATACATTGCCAAATTGATTAGTATATAG
ATATACATTACCGAATTGATTCGTATTTGGATATACATCGCCGAATTGATTTGTATATGTATACA
T
Found at i:29994607 original size:57 final size:57
Alignment explanation
Indices: 29994533--29994654 Score: 226
Period size: 57 Copynumber: 2.1 Consensus size: 57
29994523 CTAGTTCAAC
*
29994533 CACATATAAACTCTTAATAATTCATTTCAACTAATATTAAAGTACTTCATTAAAATA
1 CACAAATAAACTCTTAATAATTCATTTCAACTAATATTAAAGTACTTCATTAAAATA
29994590 CACAAATAAACTCTTAATAATTCATTTCAACTAATATTAAAGTACTTCATTAAAATA
1 CACAAATAAACTCTTAATAATTCATTTCAACTAATATTAAAGTACTTCATTAAAATA
*
29994647 AACAAATA
1 CACAAATA
29994655 GGTGAAATTC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 63 1.00
ACGTcount: A:0.48, C:0.16, G:0.02, T:0.34
Consensus pattern (57 bp):
CACAAATAAACTCTTAATAATTCATTTCAACTAATATTAAAGTACTTCATTAAAATA
Found at i:29995930 original size:17 final size:17
Alignment explanation
Indices: 29995908--29995944 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
29995898 GAAATTCAGC
*
29995908 AAAGCTTGGGTTTGGTG
1 AAAGCTTGGGTGTGGTG
29995925 AAAGCTTGGGTGTGGTG
1 AAAGCTTGGGTGTGGTG
29995942 AAA
1 AAA
29995945 TTTTGAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.24, C:0.05, G:0.41, T:0.30
Consensus pattern (17 bp):
AAAGCTTGGGTGTGGTG
Found at i:29996120 original size:27 final size:27
Alignment explanation
Indices: 29996081--29996138 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 27
29996071 TCATATTTGT
*
29996081 ATTAATTTAGATC-AAGAAAAGAAGAA
1 ATTAATTTAGATCGAAGAAAAGAAAAA
* * *
29996107 ATTAGATTTGGATCGAGGAAAATAAAAA
1 ATTA-ATTTAGATCGAAGAAAAGAAAAA
29996135 ATTA
1 ATTA
29996139 TCGAATAGTC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 4 0.15
27 8 0.31
28 14 0.54
ACGTcount: A:0.53, C:0.03, G:0.17, T:0.26
Consensus pattern (27 bp):
ATTAATTTAGATCGAAGAAAAGAAAAA
Found at i:30001296 original size:114 final size:114
Alignment explanation
Indices: 30001097--30001774 Score: 1025
Period size: 114 Copynumber: 6.0 Consensus size: 114
30001087 AAAATAAGCA
*** *
30001097 TTAGCGGCGTTTTCCAGAAAGCGCCGC-AAAATACCTAAGCCCAACGACGCCGTTTTCCGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* * * *
30001161 TCGAGGATTTAGCGGCGTTTTTAAGAAAGCACCGCTAATGCTCAGGGCT
66 TCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
* * * * *
30001210 TTAGCGGCGTTTTTGAGAAAGCGCCACAAAAAAATCTAAGCCCAACGACACCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* * *
30001275 TCGGGGATTTAGTGGTGTTTTTAGGTAAGCGCCGCTAATGCTCAGGTCT
66 TCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
* *
30001324 TTAGTGGCTTTTTTGGGAAAGCGCCGCAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* * * *
30001389 TCAGGGATTTAGTGGCATTTTTAAGTAAGTGCCGCTAATGCTTAGGGCT
66 TCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
* *
30001438 TTAGCGGCATTTTTGGGAAAGCGCCGCAAAAATACCTAAGGCCAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* *
30001503 TCGGGGATTTAGTGGCGTTTTTAAGTAAGCGTCGCTAATGCTCAAGGCT
66 TCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
* * *
30001552 TTAGCGGCGTTTTTGGGAAAGTGCCGCAAAAATACCTAAGCCCAACTACGTCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
*
30001617 TCGGGGATTTAGTGGCGTTTTTAAGTAATCGCCGCTAATGCTCAGGGCT
66 TCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
* * *
30001666 TTAGCGGCGTTTTTGGGAAATCGCAGCAAAAATACCTAAGCCCAACGATGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* **
30001731 TCGGGGATTTAGTGGCGTTTCTAAGTAAGCGATGCTAATGCTCA
66 TCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCA
30001775 AGGATTTAAA
Statistics
Matches: 509, Mismatches: 55, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
113 24 0.05
114 485 0.95
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.29
Consensus pattern (114 bp):
TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
TCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
Found at i:30002383 original size:14 final size:14
Alignment explanation
Indices: 30002364--30002428 Score: 58
Period size: 14 Copynumber: 4.6 Consensus size: 14
30002354 TTAATGTGAT
* *
30002364 TTAAGGTTTATGGG
1 TTAAGGGTTAGGGG
30002378 TTAAGGGTTAGGGG
1 TTAAGGGTTAGGGG
* **
30002392 TTAGGGGTTAGATG
1 TTAAGGGTTAGGGG
* *
30002406 TTAAGAGTTAGGGA
1 TTAAGGGTTAGGGG
*
30002420 TTTAGGGTT
1 TTAAGGGTT
30002429 TATAAATTTA
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 39 1.00
ACGTcount: A:0.23, C:0.00, G:0.40, T:0.37
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:30002571 original size:26 final size:27
Alignment explanation
Indices: 30002496--30002567 Score: 76
Period size: 26 Copynumber: 2.7 Consensus size: 27
30002486 ATATATTAAA
*
30002496 TAAGATTTAGGGGTTAGGAGTTAGAGGT
1 TAAGGTTTAGGGGTTAGGA-TTAGAGGT
* *
30002524 TAAGGGTTAGGGATTTAGGATT-G-GGT
1 TAAGGTTTAGGG-GTTAGGATTAGAGGT
*
30002550 TATGGTTTAGGGGTTAGG
1 TAAGGTTTAGGGGTTAGG
30002568 GATTTGGGGT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
25 5 0.14
26 13 0.35
27 1 0.03
28 12 0.32
29 6 0.16
ACGTcount: A:0.24, C:0.00, G:0.42, T:0.35
Consensus pattern (27 bp):
TAAGGTTTAGGGGTTAGGATTAGAGGT
Found at i:30002583 original size:33 final size:34
Alignment explanation
Indices: 30002527--30002593 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 34
30002517 TAGAGGTTAA
* *
30002527 GGGTTAGGGATTTAGGATTGGG-TTATGGTTTAG
1 GGGTTAGGGATTTAGGATCGGGTTTAGGGTTTAG
* *
30002560 GGGTTAGGGATTTGGGGTCGGGTTTAGGGTTTAG
1 GGGTTAGGGATTTAGGATCGGGTTTAGGGTTTAG
30002594 ATTAATTAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 19 0.66
34 10 0.34
ACGTcount: A:0.15, C:0.01, G:0.46, T:0.37
Consensus pattern (34 bp):
GGGTTAGGGATTTAGGATCGGGTTTAGGGTTTAG
Found at i:30002656 original size:83 final size:84
Alignment explanation
Indices: 30002556--30002717 Score: 220
Period size: 89 Copynumber: 1.9 Consensus size: 84
30002546 GGGTTATGGT
* * **
30002556 TTAGGGGTTAGGGATTTGGGGTCGGGTTTAGGGTTT-A-GATTAATTAGTGTTTTTTAATTTATA
1 TTAGAGGTTAGGGATTTGGGGTCGAG-TTAGGGTTTAATGATTAATTAGTACTTTTTAATTTATA
30002619 TATTAAATAAAGTTTAGTGG
65 TATTAAATAAAGTTTAGTGG
30002639 TTAGAGGTTAGGGATTTGGGGTCGAGTTAGGGTTTAAGATTTGGATTAATTAGTACTTTTTAATT
1 TTAGAGGTTAGGGATTTGGGGTCGAGTTAGGGTTT-A-A--T-GATTAATTAGTACTTTTTAATT
30002704 TATATATTAAATAA
61 TATATATTAAATAA
30002718 GTTCTTTATA
Statistics
Matches: 68, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
82 9 0.13
83 24 0.35
85 1 0.01
89 34 0.50
ACGTcount: A:0.28, C:0.02, G:0.27, T:0.44
Consensus pattern (84 bp):
TTAGAGGTTAGGGATTTGGGGTCGAGTTAGGGTTTAATGATTAATTAGTACTTTTTAATTTATAT
ATTAAATAAAGTTTAGTGG
Found at i:30002834 original size:8 final size:8
Alignment explanation
Indices: 30002809--30002852 Score: 54
Period size: 8 Copynumber: 5.2 Consensus size: 8
30002799 TGAATATAAT
30002809 AATT-TAA
1 AATTGTAA
30002816 AATTGTAAA
1 AATTGT-AA
30002825 AATTGTAA
1 AATTGTAA
30002833 AATTGTAAAA
1 AATTGT--AA
30002843 AATTGTAA
1 AATTGTAA
30002851 AA
1 AA
30002853 ATTATAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
7 4 0.12
8 13 0.39
9 8 0.24
10 8 0.24
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (8 bp):
AATTGTAA
Found at i:30002846 original size:10 final size:9
Alignment explanation
Indices: 30002814--30002862 Score: 73
Period size: 9 Copynumber: 5.4 Consensus size: 9
30002804 ATAATAATTT
30002814 AAAATTGTA
1 AAAATTGTA
30002823 AAAATTGT-
1 AAAATTGTA
30002831 AAAATTGTAA
1 AAAATTGT-A
30002841 AAAATTGTA
1 AAAATTGTA
*
30002850 AAAATTATA
1 AAAATTGTA
30002859 AAAA
1 AAAA
30002863 ATAAAATAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
8 8 0.22
9 21 0.57
10 8 0.22
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (9 bp):
AAAATTGTA
Found at i:30002873 original size:20 final size:20
Alignment explanation
Indices: 30002848--30002908 Score: 81
Period size: 20 Copynumber: 3.0 Consensus size: 20
30002838 TAAAAAATTG
30002848 TAAAAATTATAAAA-AATAAAA
1 TAAAAA-TA-AAAACAATAAAA
30002869 TAAAAATAAAAACAATAAAA
1 TAAAAATAAAAACAATAAAA
30002889 -AATAAATAAAAACAATAAAA
1 TAA-AAATAAAAACAATAAAA
30002909 ATTTTATTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.16
20 26 0.68
21 6 0.16
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (20 bp):
TAAAAATAAAAACAATAAAA
Found at i:30002878 original size:27 final size:29
Alignment explanation
Indices: 30002848--30002911 Score: 87
Period size: 27 Copynumber: 2.3 Consensus size: 29
30002838 TAAAAAATTG
*
30002848 TAAAAATTATAAAAAATAAA-ATAAA-AA
1 TAAAAATTATAAAAAATAAATAAAAACAA
**
30002875 TAAAAACAATAAAAAATAAATAAAAACAA
1 TAAAAATTATAAAAAATAAATAAAAACAA
30002904 TAAAAATT
1 TAAAAATT
30002912 TTATTTTTAC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 18 0.60
28 4 0.13
29 8 0.27
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (29 bp):
TAAAAATTATAAAAAATAAATAAAAACAA
Found at i:30002955 original size:47 final size:48
Alignment explanation
Indices: 30002895--30002993 Score: 112
Period size: 47 Copynumber: 2.1 Consensus size: 48
30002885 AAAAAATAAA
* * *
30002895 TAAAAACAATAAAAATT-TTATTTTTACCTAATTTTTAGAAATACTACT
1 TAAAAACAAT-AAAATTGATAATTTTACCTAATTTTTAGAAATACTACC
* * * *
30002943 TAAAAA-ACTAAAATTGATAATTTTATCTAATTTTTATAAATATTACC
1 TAAAAACAATAAAATTGATAATTTTACCTAATTTTTAGAAATACTACC
30002990 TAAA
1 TAAA
30002994 CAAAACTATG
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
46 6 0.14
47 31 0.72
48 6 0.14
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.41
Consensus pattern (48 bp):
TAAAAACAATAAAATTGATAATTTTACCTAATTTTTAGAAATACTACC
Found at i:30003389 original size:18 final size:18
Alignment explanation
Indices: 30003366--30003407 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
30003356 TTTTGGCTGT
30003366 GAATTTAATGGGTTTTGC
1 GAATTTAATGGGTTTTGC
*
30003384 GAATTTGATGGGTTTTGC
1 GAATTTAATGGGTTTTGC
30003402 GAATTT
1 GAATTT
30003408 TAAATATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.05, G:0.29, T:0.45
Consensus pattern (18 bp):
GAATTTAATGGGTTTTGC
Found at i:30005356 original size:117 final size:114
Alignment explanation
Indices: 30005030--30005356 Score: 458
Period size: 114 Copynumber: 2.8 Consensus size: 114
30005020 AAAACAGGCT
*
30005030 TTTAGCGGCGTGTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
* * ** *
30005095 TTCGGGGATTTAGCAGCGTTTTTAAGAAAGCGCCGCTAATGCTTAGGGC
66 TTCGGGGATTTAGCAGCGTTTTTGAGAAAGCACCGCTAATGCCCAGAGC
** * * * *
30005144 TTTAGCGGCGTTTTTAAGAAAGCGCTGCAAAAAGACCTAATCCTAACGACGCCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
* *
30005209 TTCGGGGATTTAACTGCGTTTTTG-GAAAAGCACCGCTAATGCCCAGAGC
66 TTCGGGGATTTAGCAGCGTTTTTGAG-AAAGCACCGCTAATGCCCAGAGC
*
30005258 TTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAAAAACCTAAGCCCAACGACGCCGTTTTTTGA
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGC---AAAAAAACCTAAGCCCAACGACGCCGTTTTCTGA
* *
30005323 GCTTTCGGGGCTTTAGCGGCGTTTTTGAGAAAGC
63 GCTTTCGGGGATTTAGCAGCGTTTTTGAGAAAGC
30005357 GTCGCAAAAA
Statistics
Matches: 184, Mismatches: 24, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
113 1 0.01
114 123 0.67
117 59 0.32
118 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (114 bp):
TTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
TTCGGGGATTTAGCAGCGTTTTTGAGAAAGCACCGCTAATGCCCAGAGC
Found at i:30005398 original size:73 final size:72
Alignment explanation
Indices: 30005256--30005440 Score: 271
Period size: 73 Copynumber: 2.5 Consensus size: 72
30005246 AATGCCCAGA
*
30005256 GCTTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAAAAACCTAAGCCCAACGACGCCGTTTTTT
1 GCTTTAGCGGCGTTTTT-GGAAAGCGCCGC---AAAAAAACCTAAGCCCAACGACGCCGTTTTCT
30005321 GAGCTTTCGGG
62 GAGCTTTCGGG
* *
30005332 GCTTTAGCGGCGTTTTTGAGAAAGCGTCGCAAAAAAACCTAAGCCCAATGACGCCGTTTTCTGAG
1 GCTTTAGCGGCGTTTTTG-GAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAG
*
30005397 CTTTCGGT
65 CTTTCGGG
*
30005405 GATTTAGCGGCGTTTTTGGAAAAGCGCCGCAAAAAA
1 GCTTTAGCGGCGTTTTTGG-AAAGCGCCGCAAAAAA
30005441 TATTTTATCT
Statistics
Matches: 101, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
72 1 0.01
73 72 0.71
75 1 0.01
76 27 0.27
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (72 bp):
GCTTTAGCGGCGTTTTTGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGC
TTTCGGG
Done.