Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008240.1 Hibiscus syriacus cultivar Beakdansim tig00110888_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 893855
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 5
Found at i:343745 original size:16 final size:15
Alignment explanation
Indices: 343724--343753 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
343714 GCCGGCCGTT
343724 ATCCCGGGACTGACCC
1 ATCCCGGGA-TGACCC
343740 ATCCCGGGATGACC
1 ATCCCGGGATGACC
343754 GGTCACACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.20, C:0.40, G:0.27, T:0.13
Consensus pattern (15 bp):
ATCCCGGGATGACCC
Found at i:344560 original size:9 final size:9
Alignment explanation
Indices: 344541--344665 Score: 57
Period size: 9 Copynumber: 14.0 Consensus size: 9
344531 TCCTTTTTTA
344541 TTTATTTATT
1 TTTA-TTATT
344551 TTTATTATT
1 TTTATTATT
344560 TTTATTATT
1 TTTATTATT
344569 TATT-TTATT
1 T-TTATTATT
344578 TTT-TCTA-T
1 TTTAT-TATT
* * **
344586 ATAACCATT
1 TTTATTATT
344595 TTTATT-TT
1 TTTATTATT
* *
344603 ATT-TCATT
1 TTTATTATT
344611 TTTATT-TT
1 TTTATTATT
344619 TTTCATTATT
1 TTT-ATTATT
* *
344629 ATTATTGTT
1 TTTATTATT
* *
344638 ATTTTTTATC
1 -TTTATTATT
344648 TTTATT-TAT
1 TTTATTAT-T
344657 TTTATTATT
1 TTTATTATT
344666 ATCACGATAT
Statistics
Matches: 84, Mismatches: 20, Indels: 23
0.66 0.16 0.18
Matches are distributed among these distances:
7 1 0.01
8 20 0.24
9 47 0.56
10 16 0.19
ACGTcount: A:0.22, C:0.05, G:0.01, T:0.73
Consensus pattern (9 bp):
TTTATTATT
Found at i:344565 original size:23 final size:23
Alignment explanation
Indices: 344535--344709 Score: 79
Period size: 23 Copynumber: 7.8 Consensus size: 23
344525 TATTAGTCCT
344535 TTTTTATTTATTTATTTTTATTA
1 TTTTTATTTATTTATTTTTATTA
344558 TTTTTA-TTATTTA-TTTTATT-
1 TTTTTATTTATTTATTTTTATTA
* ***
344578 TTTTCTATATAACCATTTTTATT-
1 TTTT-TATTTATTTATTTTTATTA
344601 TTATTTCA-TT-TTTATTTTT-TTCA
1 TT-TTT-ATTTATTTATTTTTATT-A
*
344624 TTATTA-TTATTGT-TATTTT-TTA
1 TTTTTATTTATT-TAT-TTTTATTA
* * *
344646 TCTTTATTTATTTTATTATTATCA
1 TTTTTATTTA-TTTATTTTTATTA
***
344670 -CGATATTTATTTA-TTTTA-TA
1 TTTTTATTTATTTATTTTTATTA
344690 TTTTTATTTGTATTTATTTT
1 TTTTTA-TT-TATTTATTTT
344710 CTTTTGACTT
Statistics
Matches: 114, Mismatches: 20, Indels: 35
0.67 0.12 0.21
Matches are distributed among these distances:
20 5 0.04
21 20 0.18
22 32 0.28
23 46 0.40
24 11 0.10
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.71
Consensus pattern (23 bp):
TTTTTATTTATTTATTTTTATTA
Found at i:344610 original size:16 final size:15
Alignment explanation
Indices: 344591--344631 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
344581 TCTATATAAC
344591 CATTTTTATTTTATTT
1 CATTTTTATTTT-TTT
344607 CATTTTTATTTTTTT
1 CATTTTTATTTTTTT
*
344622 CATTATTATT
1 CATTTTTATT
344632 ATTGTTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (15 bp):
CATTTTTATTTTTTT
Found at i:344683 original size:37 final size:36
Alignment explanation
Indices: 344564--344697 Score: 103
Period size: 37 Copynumber: 3.6 Consensus size: 36
344554 ATTATTTTTA
* * ***
344564 TTATTTATTTTATTTTTTCTA-TATAACCATTTTTATT
1 TTATTTATTTTATTTTTT-TATTATTATCATCGATA-T
* * *
344601 TTATTTCATTTTTATTTTTTTCATTATTATTATTGTTAT
1 TTATTT-A-TTTTATTTTTTT-ATTATTATCATCGATAT
344640 TT-TTTATCTTTATTTATTTTATTATTATCA-CGATAT
1 TTATTTAT-TTTATTT-TTTTATTATTATCATCGATAT
*
344676 TTATTTATTTTATATTTTTATT
1 TTATTTATTTTATTTTTTTATT
344698 TGTATTTATT
Statistics
Matches: 82, Mismatches: 8, Indels: 16
0.77 0.08 0.15
Matches are distributed among these distances:
35 7 0.09
36 13 0.16
37 28 0.34
38 9 0.11
39 15 0.18
40 10 0.12
ACGTcount: A:0.23, C:0.06, G:0.01, T:0.69
Consensus pattern (36 bp):
TTATTTATTTTATTTTTTTATTATTATCATCGATAT
Found at i:355224 original size:21 final size:20
Alignment explanation
Indices: 355200--355238 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
355190 ATTGTTGTAA
355200 TATGAGTTAAAAATATTTATT
1 TATGAGTTAAAAAT-TTTATT
*
355221 TATGAGTTATAAATTTTA
1 TATGAGTTAAAAATTTTA
355239 ATTAAATCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (20 bp):
TATGAGTTAAAAATTTTATT
Found at i:356487 original size:17 final size:18
Alignment explanation
Indices: 356469--356501 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
356459 TAATTAAATA
356469 AAATA-TTAAA-AAATTT
1 AAATACTTAAATAAATTT
356485 AAATACTTAAATAAATT
1 AAATACTTAAATAAATT
356502 CAAACAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 5 0.33
18 5 0.33
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (18 bp):
AAATACTTAAATAAATTT
Found at i:366007 original size:22 final size:22
Alignment explanation
Indices: 365980--366023 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
365970 GCTACAAATT
365980 TTTATTTTAATATTTTTTAAAA
1 TTTATTTTAATATTTTTTAAAA
*
366002 TTTATTTTAGTATTTTTTAAAA
1 TTTATTTTAATATTTTTTAAAA
366024 AAAATTATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
TTTATTTTAATATTTTTTAAAA
Found at i:366979 original size:25 final size:25
Alignment explanation
Indices: 366951--367019 Score: 97
Period size: 24 Copynumber: 2.8 Consensus size: 25
366941 AAATTGTTTC
* *
366951 TTTTAGCTACAATCAATTTTCTTAT
1 TTTTAGCTACAATCAAGTTTATTAT
*
366976 TTTTAGCTACAA-CCAGTTTATTAT
1 TTTTAGCTACAATCAAGTTTATTAT
367000 TTTTAGCTACAATC-AGTTTA
1 TTTTAGCTACAATCAAGTTTA
367020 CCACCTTCAC
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
24 27 0.68
25 13 0.32
ACGTcount: A:0.29, C:0.16, G:0.07, T:0.48
Consensus pattern (25 bp):
TTTTAGCTACAATCAAGTTTATTAT
Found at i:370796 original size:2 final size:2
Alignment explanation
Indices: 370789--370822 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
370779 TCATCTTGTA
370789 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
370823 TCATAATTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:373161 original size:18 final size:18
Alignment explanation
Indices: 373138--373175 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
373128 GAAGATCGAT
373138 TCATTGACCTTAATGCAG
1 TCATTGACCTTAATGCAG
373156 TCATTGACCTTAATGCAG
1 TCATTGACCTTAATGCAG
373174 TC
1 TC
373176 GTCCGGCATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (18 bp):
TCATTGACCTTAATGCAG
Found at i:373304 original size:9 final size:9
Alignment explanation
Indices: 373290--373320 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
373280 ATGTGCTTTC
373290 ACCCTTACA
1 ACCCTTACA
373299 ACCCTTACA
1 ACCCTTACA
373308 ACCCTTACA
1 ACCCTTACA
373317 ACCC
1 ACCC
373321 ATAAAGGGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.32, C:0.48, G:0.00, T:0.19
Consensus pattern (9 bp):
ACCCTTACA
Found at i:376086 original size:50 final size:50
Alignment explanation
Indices: 376005--376115 Score: 188
Period size: 50 Copynumber: 2.2 Consensus size: 50
375995 TCTCTAAAAG
376005 CTTGTGGAAGAGTGTGGAATCCTCTGAAATATTCTGGAGATGTGTGGAAC
1 CTTGTGGAAGAGTGTGGAATCCTCTGAAATATTCTGGAGATGTGTGGAAC
*
376055 CTTGTGGAAGAGTGTGGACTCCTCTTG-AATATTCTGGAGATGTGTGGAAC
1 CTTGTGGAAGAGTGTGGAATCCTC-TGAAATATTCTGGAGATGTGTGGAAC
*
376105 CTTATGGAAGA
1 CTTGTGGAAGA
376116 ATATGGAAGG
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
50 56 0.97
51 2 0.03
ACGTcount: A:0.25, C:0.13, G:0.32, T:0.31
Consensus pattern (50 bp):
CTTGTGGAAGAGTGTGGAATCCTCTGAAATATTCTGGAGATGTGTGGAAC
Found at i:376288 original size:8 final size:9
Alignment explanation
Indices: 376267--376298 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
376257 TCCAAACCAT
376267 AAAAAATCC
1 AAAAAATCC
376276 AAAAAATCC
1 AAAAAATCC
376285 AAAAAATCC
1 AAAAAATCC
376294 AAAAA
1 AAAAA
376299 GTGTCCACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.72, C:0.19, G:0.00, T:0.09
Consensus pattern (9 bp):
AAAAAATCC
Found at i:385132 original size:15 final size:15
Alignment explanation
Indices: 385112--385154 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
385102 TCATGTACCT
385112 AGAAAAAATAAATGA-
1 AGAAAAAATAAA-GAC
*
385127 AGAAAAATTAAAGAC
1 AGAAAAAATAAAGAC
*
385142 AGTAAAAATAAAG
1 AGAAAAAATAAAG
385155 CTAACTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 2 0.08
15 22 0.92
ACGTcount: A:0.70, C:0.02, G:0.14, T:0.14
Consensus pattern (15 bp):
AGAAAAAATAAAGAC
Found at i:389522 original size:59 final size:59
Alignment explanation
Indices: 389453--389570 Score: 218
Period size: 59 Copynumber: 2.0 Consensus size: 59
389443 AAAATAAATT
*
389453 TATTGATTGAAATATGATGCAAGGTTAATGAATATACATGTCCAATATAATAGATTAAG
1 TATTGATTGAAATATGATGCAAGGTTAATGAATATACATGTCCAATATAATAAATTAAG
*
389512 TATTGATTGAAATATGATGCAAGGTTAATGAATATACATGTCCAGTATAATAAATTAAG
1 TATTGATTGAAATATGATGCAAGGTTAATGAATATACATGTCCAATATAATAAATTAAG
389571 ATGAACTCTG
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.42, C:0.07, G:0.17, T:0.34
Consensus pattern (59 bp):
TATTGATTGAAATATGATGCAAGGTTAATGAATATACATGTCCAATATAATAAATTAAG
Found at i:392387 original size:35 final size:35
Alignment explanation
Indices: 392348--392482 Score: 166
Period size: 35 Copynumber: 3.8 Consensus size: 35
392338 TAAGAATAAT
* *
392348 GAAAGGAAGCATC-GACACTTTTGATTCAAGTGAAC
1 GAAAGGAAACATCAG-CACTTTCGATTCAAGTGAAC
* *
392383 GAAAGGAAACATC-GACACTTTCGATTCAAGAAGAAT
1 GAAAGGAAACATCAG-CACTTTCGATTCAAG-TGAAC
*
392419 GAAATGAAACATCAGCACTTTCGATTCAAGTGAAC
1 GAAAGGAAACATCAGCACTTTCGATTCAAGTGAAC
* *
392454 GGAAGGAAGCATCAGCACTTTCGATTCAA
1 GAAAGGAAACATCAGCACTTTCGATTCAA
392483 TTGTTCATCT
Statistics
Matches: 88, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
35 57 0.65
36 30 0.34
37 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (35 bp):
GAAAGGAAACATCAGCACTTTCGATTCAAGTGAAC
Found at i:392438 original size:71 final size:71
Alignment explanation
Indices: 392339--392482 Score: 202
Period size: 71 Copynumber: 2.0 Consensus size: 71
392329 GAAGGTGAAT
* * *
392339 AAGAATAATGAAAGGAAGCATCGACACTTTTGATTCAAGTGAACGAAAGGAAACATC-GACACTT
1 AAGAAGAATGAAAGGAAACATCGACACTTTCGATTCAAGTGAACGAAAGGAAACATCAG-CACTT
392403 TCGATTC
65 TCGATTC
* * *
392410 AAGAAGAATGAAATGAAACATC-AGCACTTTCGATTCAAGTGAACGGAAGGAAGCATCAGCACTT
1 AAGAAGAATGAAAGGAAACATCGA-CACTTTCGATTCAAGTGAACGAAAGGAAACATCAGCACTT
392474 TCGATTC
65 TCGATTC
392481 AA
1 AA
392483 TTGTTCATCT
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
70 1 0.02
71 63 0.97
72 1 0.02
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (71 bp):
AAGAAGAATGAAAGGAAACATCGACACTTTCGATTCAAGTGAACGAAAGGAAACATCAGCACTTT
CGATTC
Found at i:394903 original size:6 final size:6
Alignment explanation
Indices: 394892--394924 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
394882 CTGTTCCTTA
394892 TCACTC TCACTC TCACTC TCACTC TCACTC TCA
1 TCACTC TCACTC TCACTC TCACTC TCACTC TCA
394925 TTTCAACACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.18, C:0.48, G:0.00, T:0.33
Consensus pattern (6 bp):
TCACTC
Found at i:411514 original size:157 final size:157
Alignment explanation
Indices: 411342--411864 Score: 962
Period size: 157 Copynumber: 3.3 Consensus size: 157
411332 CTAAACCCAA
* *
411342 AAGAACATAAAATTCAGCAA-AAGGAATCAATGGCATATATAATGGTTCAGAAAAGAAAAACATT
1 AAGAACATAAAATTCAGCAACAA-GAATCAATGGCATATATAATGATTCAAAAAAGAAAAACATT
*
411406 CACAAGCTCTGCTAAGGCACAACTTCCTCTGAATAAACCTAAAACCTCCGGATTTCACGGATATT
65 CGCAAGCTCTGCTAAGGCACAACTTCCTCTGAATAAACCTAAAACCTCCGGATTTCACGGATATT
411471 CATCGACAATACATTGACTATAACCCGG
130 CATCGACAATACATTGACTATAACCCGG
411499 AAGAACATAAAATTCAGCAACAAGAATCAATGGCATATATAATGATTCAAAAAAGAAAAACATTC
1 AAGAACATAAAATTCAGCAACAAGAATCAATGGCATATATAATGATTCAAAAAAGAAAAACATTC
*
411564 GCAAGCTCTGCTAAGGCACAACTTCCTCTGAATAAACCTAAAACCTCCGGATTTCATGGATATTC
66 GCAAGCTCTGCTAAGGCACAACTTCCTCTGAATAAACCTAAAACCTCCGGATTTCACGGATATTC
411629 ATCGACAATACATTGACTATAACCCGG
131 ATCGACAATACATTGACTATAACCCGG
411656 AAGAACATAAAATTCAGCAACAAGAATCAATGGCATATATAATGATTCAAAAAAGAAAAACATTC
1 AAGAACATAAAATTCAGCAACAAGAATCAATGGCATATATAATGATTCAAAAAAGAAAAACATTC
*
411721 GCAAGCTCTGCTAAGGCACAACTTCCTCTGAATAAACCTAAAACCTCCGGATTTCACGGATATTT
66 GCAAGCTCTGCTAAGGCACAACTTCCTCTGAATAAACCTAAAACCTCCGGATTTCACGGATATTC
411786 ATCGACAATACATTGACTATAACCCGG
131 ATCGACAATACATTGACTATAACCCGG
*
411813 AAGAACATAAAATTCAGCAACAAGAATCAATGGC--ATATAATGATTCTAAAAA
1 AAGAACATAAAATTCAGCAACAAGAATCAATGGCATATATAATGATTCAAAAAA
411865 CCTTCACAAG
Statistics
Matches: 358, Mismatches: 7, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
155 17 0.05
157 339 0.95
158 2 0.01
ACGTcount: A:0.43, C:0.21, G:0.14, T:0.23
Consensus pattern (157 bp):
AAGAACATAAAATTCAGCAACAAGAATCAATGGCATATATAATGATTCAAAAAAGAAAAACATTC
GCAAGCTCTGCTAAGGCACAACTTCCTCTGAATAAACCTAAAACCTCCGGATTTCACGGATATTC
ATCGACAATACATTGACTATAACCCGG
Found at i:413959 original size:23 final size:24
Alignment explanation
Indices: 413903--413959 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 24
413893 CTAAACTTTA
*
413903 AATATTTTAAAAAAATTAAAAATT
1 AATAATTTAAAAAAATTAAAAATT
* *
413927 --TAATACTAAAAAAA-TCAAAATT
1 AATAAT-TTAAAAAAATTAAAAATT
413949 AATAATTTAAA
1 AATAATTTAAA
413960 TATTATATGC
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
22 10 0.38
23 12 0.46
24 4 0.15
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (24 bp):
AATAATTTAAAAAAATTAAAAATT
Found at i:421566 original size:49 final size:48
Alignment explanation
Indices: 421494--421586 Score: 141
Period size: 49 Copynumber: 1.9 Consensus size: 48
421484 TCCAAAGAAT
421494 TATTTCCTTTCACAAAACAGGAAAATAAATCAAATGATTTGTTTCGATC
1 TATTTCCTTTCACAAAACAGGAAAATAAATCAAATGATTT-TTTCGATC
* * * *
421543 TATTTCCTTTTACAAAATAGGAAACTAAATCCAATGATTTTTTC
1 TATTTCCTTTCACAAAACAGGAAAATAAATCAAATGATTTTTTC
421587 CTTTTTACAA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
48 4 0.10
49 36 0.90
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (48 bp):
TATTTCCTTTCACAAAACAGGAAAATAAATCAAATGATTTTTTCGATC
Found at i:421597 original size:39 final size:39
Alignment explanation
Indices: 421543--421712 Score: 211
Period size: 39 Copynumber: 4.4 Consensus size: 39
421533 TGTTTCGATC
*
421543 TATTTCCTTTTACAAAATAGGAAACTAAATCCAATGATT
1 TATTTCCTTTTACAAAATAGGAAAATAAATCCAATGATT
421582 T-TTTCCTTTTTACAAAATAGGAAAATAAATCCAATGATT
1 TATTTCC-TTTTACAAAATAGGAAAATAAATCCAATGATT
* * * *
421621 TATTTCCTTTTACAAACTAGGAAACTAAAT-TATATGGTT
1 TATTTCCTTTTACAAAATAGGAAAATAAATCCA-ATGATT
* * *
421660 TATTTACTTTTTCAAACTAGGAAAATAAATCCAACT-ATT
1 TATTTCCTTTTACAAAATAGGAAAATAAATCCAA-TGATT
*
421699 TATTTCATTTTACA
1 TATTTCCTTTTACA
421713 TATCAGAATC
Statistics
Matches: 113, Mismatches: 13, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 6 0.05
39 100 0.88
40 7 0.06
ACGTcount: A:0.39, C:0.14, G:0.07, T:0.40
Consensus pattern (39 bp):
TATTTCCTTTTACAAAATAGGAAAATAAATCCAATGATT
Found at i:421597 original size:88 final size:88
Alignment explanation
Indices: 421455--421626 Score: 229
Period size: 88 Copynumber: 2.0 Consensus size: 88
421445 TCCATCACTT
*
421455 TATTTTCTTTCACAAAACAGAAAAATAAATCCAAAGAATTATTTCCTTTCACAAAACAGGAAAAT
1 TATTTCCTTTCACAAAACAGAAAAATAAATCCAAAGAATTATTTCCTTTCACAAAACAGGAAAAT
*
421520 AAATCAAATGATTTGTTTCGATC
66 AAATCAAATGATTTATTTCGATC
* * * * * * * *
421543 TATTTCCTTTTACAAAATAGGAAACTAAATCCAATG-ATTTTTTCCTTTTTACAAAATAGGAAAA
1 TATTTCCTTTCACAAAACAGAAAAATAAATCCAAAGAATTATTTCC-TTTCACAAAACAGGAAAA
*
421607 TAAATCCAATGATTTATTTC
65 TAAATCAAATGATTTATTTC
421627 CTTTTACAAA
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
87 8 0.11
88 64 0.89
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (88 bp):
TATTTCCTTTCACAAAACAGAAAAATAAATCCAAAGAATTATTTCCTTTCACAAAACAGGAAAAT
AAATCAAATGATTTATTTCGATC
Found at i:421636 original size:78 final size:78
Alignment explanation
Indices: 421543--421712 Score: 238
Period size: 78 Copynumber: 2.2 Consensus size: 78
421533 TGTTTCGATC
*
421543 TATTTCCTTTTACAAAATAGGAAACTAAATCCA-ATGATTT-TTTCCTTTTTACAAAATAGGAAA
1 TATTTCCTTTTACAAAATAGGAAACTAAAT-CATATGATTTATTTACTTTTT-CAAAATAGGAAA
421606 ATAAATCCAA-TGATT
64 ATAAATCCAACT-ATT
* * * *
421621 TATTTCCTTTTACAAACTAGGAAACTAAATTATATGGTTTATTTACTTTTTCAAACTAGGAAAAT
1 TATTTCCTTTTACAAAATAGGAAACTAAATCATATGATTTATTTACTTTTTCAAAATAGGAAAAT
421686 AAATCCAACTATT
66 AAATCCAACTATT
*
421699 TATTTCATTTTACA
1 TATTTCCTTTTACA
421713 TATCAGAATC
Statistics
Matches: 83, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
77 1 0.01
78 72 0.87
79 10 0.12
ACGTcount: A:0.39, C:0.14, G:0.07, T:0.40
Consensus pattern (78 bp):
TATTTCCTTTTACAAAATAGGAAACTAAATCATATGATTTATTTACTTTTTCAAAATAGGAAAAT
AAATCCAACTATT
Found at i:421819 original size:39 final size:37
Alignment explanation
Indices: 421776--421883 Score: 119
Period size: 39 Copynumber: 2.8 Consensus size: 37
421766 TTTTTAAACA
* *
421776 AGAAAAGTAAAGCCACCGGTTTATTTTCTTTCATAAAAT
1 AGAAAA-TAAA-CCAACGGTTTATTTCCTTTCATAAAAT
*
421815 AGAAAATAAACTCAATGAG-TTATTTCCTTTCATAAAAT
1 AGAAAATAAAC-CAACG-GTTTATTTCCTTTCATAAAAT
*
421853 AGGAAAATAAATCCAACGATTTATTTCCTTT
1 A-GAAAATAAA-CCAACGGTTTATTTCCTTT
421884 TACAAATTAG
Statistics
Matches: 59, Mismatches: 5, Indels: 10
0.80 0.07 0.14
Matches are distributed among these distances:
37 1 0.02
38 26 0.44
39 31 0.53
40 1 0.02
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.34
Consensus pattern (37 bp):
AGAAAATAAACCAACGGTTTATTTCCTTTCATAAAAT
Found at i:421845 original size:38 final size:39
Alignment explanation
Indices: 421796--421883 Score: 126
Period size: 39 Copynumber: 2.3 Consensus size: 39
421786 AGCCACCGGT
* *
421796 TTATTTTCTTTCATAAAATA-GAAAATAAA-CTCAATGAG
1 TTATTTCCTTTCATAAAATAGGAAAATAAATC-CAACGAG
*
421834 TTATTTCCTTTCATAAAATAGGAAAATAAATCCAACGAT
1 TTATTTCCTTTCATAAAATAGGAAAATAAATCCAACGAG
421873 TTATTTCCTTT
1 TTATTTCCTTT
421884 TACAAATTAG
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
38 19 0.42
39 25 0.56
40 1 0.02
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.40
Consensus pattern (39 bp):
TTATTTCCTTTCATAAAATAGGAAAATAAATCCAACGAG
Found at i:422028 original size:53 final size:53
Alignment explanation
Indices: 421948--422050 Score: 197
Period size: 53 Copynumber: 1.9 Consensus size: 53
421938 CTTTTACAAG
421948 ATAGGAAAATAAATTCAACAATTTATTTCTTTATTCAAAATTCCTGAGAATTT
1 ATAGGAAAATAAATTCAACAATTTATTTCTTTATTCAAAATTCCTGAGAATTT
*
422001 ATAGGAAAATAAATTCAACAATTTATTTCTTTATTCAAAATTCTTGAGAA
1 ATAGGAAAATAAATTCAACAATTTATTTCTTTATTCAAAATTCCTGAGAA
422051 AATAAATTTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.43, C:0.11, G:0.08, T:0.39
Consensus pattern (53 bp):
ATAGGAAAATAAATTCAACAATTTATTTCTTTATTCAAAATTCCTGAGAATTT
Found at i:422083 original size:96 final size:92
Alignment explanation
Indices: 421911--422084 Score: 226
Period size: 96 Copynumber: 1.8 Consensus size: 92
421901 TGAGATTCTC
* *
421911 AGGAAAATAAATTCAACGATTTATTTTCTTTTACAAGATAGGAAAATAAATTCAACAATTTATTT
1 AGGAAAATAAATTCAACAATTTATTTTCTTTTACAAAATAGGAAAATAAATTCAACAATTTATTT
*
421976 CTTTATTCAAAATTCCTGAGAATTTAT
66 CTTTATACAAAATTCCTGAGAATTTAT
* * *
422003 AGGAAAATAAATTCAACAATTTA-TTTCTTTATTCAAAATTCTTGAGAAAATAAATTTAACAATT
1 AGGAAAATAAATTCAACAATTTATTTTCTTT-TACAAAA---TAG-GAAAATAAATTCAACAATT
422067 TATTTCCTTTA-ACAAAAT
61 TATTT-CTTTATACAAAAT
422085 AGAACCATTT
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
91 7 0.10
92 27 0.39
95 2 0.03
96 29 0.41
97 5 0.07
ACGTcount: A:0.43, C:0.11, G:0.07, T:0.39
Consensus pattern (92 bp):
AGGAAAATAAATTCAACAATTTATTTTCTTTTACAAAATAGGAAAATAAATTCAACAATTTATTT
CTTTATACAAAATTCCTGAGAATTTAT
Found at i:422422 original size:58 final size:58
Alignment explanation
Indices: 422047--422436 Score: 370
Period size: 58 Copynumber: 6.8 Consensus size: 58
422037 AAAATTCTTG
*
422047 AGAAAATAAATTTAACAATTTA-TTTCCTTTAACAAA-ATAGAACCATTTAAGATTCTCA
1 AGAAAATAAATTTAACAATTTATTTTCC-TT-ACAAAGATAGAATCATTTAAGATTCTCA
* ** *
422105 CGAAAATAAATTTAACAATTTATTAACTTTTACAAA-ATAGAATCATTTAAGATTCTCA
1 AGAAAATAAATTTAACAATTTATTTTC-CTTACAAAGATAGAATCATTTAAGATTCTCA
** * * * * ** *
422163 AGAAAATAAATTTAACAATTT-TTTCTTTTTA-GAGGATAAAATGATCCACGATTCTCA
1 AGAAAATAAATTTAACAATTTATTT-TCCTTACAAAGATAGAATCATTTAAGATTCTCA
* * * * *
422220 AAAAAAT-AATTTGACAATTTATTTTCCTTACAAAGTTAAAATCA-TTCAGATT-TCCA
1 AGAAAATAAATTTAACAATTTATTTTCCTTACAAAGATAGAATCATTTAAGATTCT-CA
* * * *
422276 AGGAGATAAATTCAACAATTTATTTTCCTTACAAAGTTAGAATCATTTAAGATTCTCA
1 AGAAAATAAATTTAACAATTTATTTTCCTTACAAAGATAGAATCATTTAAGATTCTCA
* * *
422334 A-AGAAATAAATTCAAC-ATTCTATTTTCCTTACAAAGTTAGAATCATTAAAGATTCTCA
1 AGA-AAATAAATTTAACAATT-TATTTTCCTTACAAAGATAGAATCATTTAAGATTCTCA
* * *
422392 AGAAAATAAATCTAACTATTTATTTTCCTTACGAAGCA-AGAATCA
1 AGAAAATAAATTTAACAATTTATTTTCCTTACAAAG-ATAGAATCA
422437 ACACAAGATT
Statistics
Matches: 275, Mismatches: 42, Indels: 30
0.79 0.12 0.09
Matches are distributed among these distances:
55 1 0.00
56 27 0.10
57 78 0.28
58 160 0.58
59 9 0.03
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.35
Consensus pattern (58 bp):
AGAAAATAAATTTAACAATTTATTTTCCTTACAAAGATAGAATCATTTAAGATTCTCA
Found at i:425325 original size:20 final size:21
Alignment explanation
Indices: 425302--425347 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
425292 GAGGTATCGG
425302 TACCACCC-CAGGGGTACCGA
1 TACCACCCTCAGGGGTACCGA
*
425322 TACCACCCTTCAGGGGTATCGA
1 TACCACCC-TCAGGGGTACCGA
425344 TACC
1 TACC
425348 TACGCATGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.35
22 15 0.65
ACGTcount: A:0.24, C:0.37, G:0.22, T:0.17
Consensus pattern (21 bp):
TACCACCCTCAGGGGTACCGA
Found at i:425444 original size:54 final size:53
Alignment explanation
Indices: 425335--425474 Score: 167
Period size: 54 Copynumber: 2.6 Consensus size: 53
425325 CACCCTTCAG
* * *
425335 GGGTATCGATACCTACGC-ATGTACCGATACCTAATTTGCATTCGAAGTTACAA
1 GGGTATCGATACCTCCTCAAGGTACCGATACC-AATTTGCATTCGAAGTTACAA
* **
425388 GGGTATCGATACCTCCTCAAGGTACCGATA-CACATTTGACATTCGATGTTTTAA
1 GGGTATCGATACCTCCTCAAGGTACCGATACCA-ATTTG-CATTCGAAGTTACAA
*
425442 GGGTATCGATACCCTCCTTAAGGTACCGATACC
1 GGGTATCGATA-CCTCCTCAAGGTACCGATACC
425475 CATCCCTCAA
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
52 1 0.01
53 22 0.29
54 33 0.44
55 18 0.24
56 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (53 bp):
GGGTATCGATACCTCCTCAAGGTACCGATACCAATTTGCATTCGAAGTTACAA
Found at i:425493 original size:22 final size:22
Alignment explanation
Indices: 425443--425517 Score: 77
Period size: 22 Copynumber: 3.5 Consensus size: 22
425433 ATGTTTTAAG
*
425443 GGTATCGATACCC-T-CCTTAA
1 GGTATCGATACCCATCCCTCAA
*
425463 GGTACCGATACCCATCCCTCAA
1 GGTATCGATACCCATCCCTCAA
*
425485 GGTATCGATA-CCA-CTCTCAACA
1 GGTATCGATACCCATCCCTC-A-A
425507 GGTATCGATAC
1 GGTATCGATAC
425518 ATCCCTTACA
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
20 16 0.35
21 5 0.11
22 25 0.54
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.24
Consensus pattern (22 bp):
GGTATCGATACCCATCCCTCAA
Found at i:431667 original size:24 final size:24
Alignment explanation
Indices: 431618--431694 Score: 97
Period size: 24 Copynumber: 3.3 Consensus size: 24
431608 TCCCAAAGGA
*
431618 CCACATA-G-TTTGAACCGAAGTG
1 CCACATAGGTTTTGTACCGAAGTG
* *
431640 CCACATAGGTTTT-TCACTGAAGTA
1 CCACATAGGTTTTGT-ACCGAAGTG
431664 CCACATAGGTTTTGTACCGAAGTG
1 CCACATAGGTTTTGTACCGAAGTG
431688 CCACATA
1 CCACATA
431695 TTTGTCTCAG
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
22 7 0.15
23 1 0.02
24 37 0.80
25 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.27
Consensus pattern (24 bp):
CCACATAGGTTTTGTACCGAAGTG
Found at i:432259 original size:20 final size:22
Alignment explanation
Indices: 432234--432277 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
432224 AGGTATCGGG
432234 TACCACCC-T-AAGGGTACCGA
1 TACCACCCTTCAAGGGTACCGA
*
432254 TACCACCCTTCAAGGGTATCGA
1 TACCACCCTTCAAGGGTACCGA
432276 TA
1 TA
432278 ACTACGCATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.38
21 1 0.05
22 12 0.57
ACGTcount: A:0.30, C:0.32, G:0.18, T:0.20
Consensus pattern (22 bp):
TACCACCCTTCAAGGGTACCGA
Found at i:432384 original size:53 final size:53
Alignment explanation
Indices: 432265--432405 Score: 144
Period size: 53 Copynumber: 2.6 Consensus size: 53
432255 ACCACCCTTC
* * * *
432265 AAGGGTATCGATAACTACGCAT-GTACCGATACCTAATTTGCATTCGAAGTTGT
1 AAGGGTATCGATACCTCCTCATGGTATCGATACC-AATTTGCATTCGAAGTTGT
**
432318 AAGGGTATCGATACCTCCTCATGGTATCGATA-CACATTTGGCATTCGGTGTT-T
1 AAGGGTATCGATACCTCCTCATGGTATCGATACCA-ATTT-GCATTCGAAGTTGT
* * *
432371 AAGGGTATCGATACCCTCCTTAAGGTATTGATACC
1 AAGGGTATCGATA-CCTCCTCATGGTATCGATACC
432406 CATCCCTCAA
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
52 1 0.01
53 38 0.51
54 34 0.46
55 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (53 bp):
AAGGGTATCGATACCTCCTCATGGTATCGATACCAATTTGCATTCGAAGTTGT
Found at i:432389 original size:54 final size:53
Alignment explanation
Indices: 432300--432404 Score: 140
Period size: 54 Copynumber: 2.0 Consensus size: 53
432290 CCGATACCTA
*
432300 ATTTGCATTCGAAGTTGTAAGGGTATCGATACCTCCTCATGGTATCGATACAC
1 ATTTGCATTCGAAGTTGTAAGGGTATCGATACCTCCTCAAGGTATCGATACAC
** * *
432353 ATTTGGCATTCGGTGTT-TAAGGGTATCGATACCCTCCTTAAGGTATTGATAC
1 ATTT-GCATTCGAAGTTGTAAGGGTATCGATA-CCTCCTCAAGGTATCGATAC
432405 CCATCCCTCA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
53 18 0.40
54 27 0.60
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (53 bp):
ATTTGCATTCGAAGTTGTAAGGGTATCGATACCTCCTCAAGGTATCGATACAC
Found at i:432403 original size:20 final size:22
Alignment explanation
Indices: 432369--432426 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
432359 CATTCGGTGT
432369 TTAAGGGTATCGATACCC-T-CC
1 TTAA-GGTATCGATACCCATCCC
*
432390 TTAAGGTATTGATACCCATCCC
1 TTAAGGTATCGATACCCATCCC
*
432412 TCAAGGTATCGATAC
1 TTAAGGTATCGATAC
432427 TACTCTCAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 12 0.38
21 5 0.16
22 15 0.47
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (22 bp):
TTAAGGTATCGATACCCATCCC
Found at i:432420 original size:22 final size:20
Alignment explanation
Indices: 432374--432448 Score: 71
Period size: 22 Copynumber: 3.5 Consensus size: 20
432364 GGTGTTTAAG
*
432374 GGTATCGATACCCTCCTTAA
1 GGTATCGATACCCTCCTCAA
*
432394 GGTATTGATACCCATCCCTCAA
1 GGTATCGATACCC-T-CCTCAA
*
432416 GGTATCGATACTACT-CTCAACA
1 GGTATCGATAC-CCTCCTC-A-A
432438 GGTATCGATAC
1 GGTATCGATAC
432449 ATCCCTTACA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
20 15 0.33
21 2 0.04
22 28 0.61
23 1 0.02
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (20 bp):
GGTATCGATACCCTCCTCAA
Found at i:441498 original size:21 final size:21
Alignment explanation
Indices: 441472--441512 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
441462 GAAAATTTAG
* *
441472 TGCATCGGTGCACTGTAGCAA
1 TGCATCGATGCACTATAGCAA
441493 TGCATCGATGCACTATAGCA
1 TGCATCGATGCACTATAGCA
441513 CTGTTCATGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.24
Consensus pattern (21 bp):
TGCATCGATGCACTATAGCAA
Found at i:445582 original size:64 final size:63
Alignment explanation
Indices: 445460--445582 Score: 149
Period size: 64 Copynumber: 1.9 Consensus size: 63
445450 ATCATATATT
* * * *
445460 TTAATATAATTTACAATATTTTATATATTTTAACTTTTTGTTAATGGAATAAATAATTTTTTA
1 TTAATATAATTTACAACATTTTATATATTTTAACTTTTTGTTAATGAAAGAAACAATTTTTTA
* * * *
445523 TTAACTATAATTTATAACATTTTTGTATATTTTTA-TTTTTGTTAATGAAAGGAACAATTT
1 TTAA-TATAATTTACAACA-TTTTATATATTTTAACTTTTTGTTAATGAAAGAAACAATTT
445583 CTATTTTTAT
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
63 4 0.08
64 33 0.66
65 13 0.26
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.53
Consensus pattern (63 bp):
TTAATATAATTTACAACATTTTATATATTTTAACTTTTTGTTAATGAAAGAAACAATTTTTTA
Found at i:445602 original size:73 final size:72
Alignment explanation
Indices: 445519--445769 Score: 269
Period size: 76 Copynumber: 3.5 Consensus size: 72
445509 TAAATAATTT
* * * *
445519 TTTATTAACTATAATTTATAACATTTTTGTATATTTTTATTTTTGTTAATGAAAGGAACAATTTC
1 TTTATTAACTATAATTTATAAAATTTTTATATATTTTTATTTTTGTTAATGAAAGAAATAATTT-
445584 TATTTTTA
65 TATTTTTA
* * * *
445592 TTTATTAACTATACTTTATAAAATATTTTACCATATTTTTCATTTTTGTTAATGAAATAAATAGT
1 TTTATTAACTATAATTTATAAAAT-TTTTA-TATATTTTT-ATTTTTGTTAATGAAAGAAATAAT
445657 TGTTAATTTTTA
63 T-TT-ATTTTTA
* * * *
445669 TTTATCAATTATAATATATAATATTTTTATATA-TTTTA-TTTT-TTAATGAAAGAAATAATTTG
1 TTTATTAACTATAATTTATAAAATTTTTATATATTTTTATTTTTGTTAATGAAAGAAATAATTT-
*
445731 TAATTTTA
65 TATTTTTA
* *
445739 TTTATTAATTATAATTTA-ATAA-TTTTATATA
1 TTTATTAACTATAATTTATAAAATTTTTATATA
445770 ATATTGAATT
Statistics
Matches: 151, Mismatches: 21, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
68 9 0.06
69 2 0.01
70 23 0.15
71 17 0.11
72 4 0.03
73 23 0.15
74 8 0.05
75 11 0.07
76 27 0.18
77 27 0.18
ACGTcount: A:0.37, C:0.04, G:0.05, T:0.55
Consensus pattern (72 bp):
TTTATTAACTATAATTTATAAAATTTTTATATATTTTTATTTTTGTTAATGAAAGAAATAATTTT
ATTTTTA
Found at i:445692 original size:75 final size:73
Alignment explanation
Indices: 445519--445765 Score: 231
Period size: 75 Copynumber: 3.4 Consensus size: 73
445509 TAAATAATTT
* * * ** * *
445519 TTTATTAACTATAATTTATAACATTTTTGTATATTTTTATTTTTGTTAATGAAAGGAACAATTTC
1 TTTATTAATTATAATATATAATA-TTTTACATATTTTTATTTTTGTTAATGAAAGAAATAATTTC
445584 T-ATTTTTA
65 TAATTTTTA
* * * * *
445592 TTTATTAACTATACTTTATAAAATATTTTACCATATTTTTCATTTTTGTTAATGAAATAAATAGT
1 TTTATTAATTATA--ATATATAATATTTTA-CATATTTTT-ATTTTTGTTAATGAAAGAAATAAT
445657 TGT-TAATTTTTA
62 T-TCTAATTTTTA
* * *
445669 TTTATCAATTATAATATATAATATTTT-TATATATTTTA-TTTT-TTAATGAAAGAAATAATTTG
1 TTTATTAATTATAATATATAATATTTTACATAT-TTTTATTTTTGTTAATGAAAGAAATAATTTC
445731 TAA-TTTTA
65 TAATTTTTA
445739 TTTATTAATTATAAT-T-TAATAATTTTA
1 TTTATTAATTATAATATATAAT-ATTTTA
445766 TATAATATTG
Statistics
Matches: 146, Mismatches: 18, Indels: 23
0.78 0.10 0.12
Matches are distributed among these distances:
68 4 0.03
69 6 0.04
70 20 0.14
71 19 0.13
72 4 0.03
73 18 0.12
74 8 0.05
75 26 0.18
76 22 0.15
77 19 0.13
ACGTcount: A:0.36, C:0.04, G:0.05, T:0.55
Consensus pattern (73 bp):
TTTATTAATTATAATATATAATATTTTACATATTTTTATTTTTGTTAATGAAAGAAATAATTTCT
AATTTTTA
Found at i:445831 original size:18 final size:18
Alignment explanation
Indices: 445803--445847 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
445793 GAAATAGTTT
445803 TTAATATTAT-ATATAATTA
1 TTAA-ATTATAAT-TAATTA
445822 TTAAATTATAATTAATTA
1 TTAAATTATAATTAATTA
*
445840 ATAAATTA
1 TTAAATTA
445848 AAAATTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 18 0.75
19 6 0.25
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TTAAATTATAATTAATTA
Found at i:451380 original size:31 final size:31
Alignment explanation
Indices: 451311--451380 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
451301 GTTGGGTGAA
* * *
451311 CAATTTGCAACAAATCCATAATGTTAGTAAC
1 CAATTTGTAGCAAATCCATAATGCTAGTAAC
* *
451342 CAATTTGTAGCAAATCGATAATGCTAGTGAC
1 CAATTTGTAGCAAATCCATAATGCTAGTAAC
*
451373 CGATTTGT
1 CAATTTGT
451381 TACTTTCGAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (31 bp):
CAATTTGTAGCAAATCCATAATGCTAGTAAC
Found at i:451507 original size:22 final size:23
Alignment explanation
Indices: 451464--451509 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
451454 TCTAATTACC
451464 AAAAAGAAACATATAAAGGAAAT
1 AAAAAGAAACATATAAAGGAAAT
* *
451487 AAAAATAATCATATAAA-GAAAT
1 AAAAAGAAACATATAAAGGAAAT
451509 A
1 A
451510 TAATTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.70, C:0.04, G:0.09, T:0.17
Consensus pattern (23 bp):
AAAAAGAAACATATAAAGGAAAT
Found at i:454621 original size:435 final size:434
Alignment explanation
Indices: 453798--454668 Score: 1626
Period size: 435 Copynumber: 2.0 Consensus size: 434
453788 TTTAGAGATT
*
453798 TCCCAAAATGAATTCCCTAACCAACCATTAGGCACTCTTTGTTCATAAATTAAAGCCCCAAGAAA
1 TCCCAAAATGAATACCCTAACCAACCATTAGGCACTCTTTGTTCATAAATTAAAGCCCCAAGAAA
453863 TCTCTAACATATAATCACTACTACTTTTGACCTTGCTAAGCAATCCCCCATACACAATATACTTC
66 -CTCTAACATATAAT-ACTACTACTTTTGACCTTGCTAAGCAATCCCCCATACACAATATACTTC
453928 TCCAACCATAAATGCCAAAGGGGAAAAAAAGATGTTTATTTGATTTTCAAATAATAAAATATTCA
129 TCCAACCATAAATGCCAAAGGGGAAAAAAAGATGTTTATTTGATTTTCAAATAATAAAATATTCA
453993 ATTCGAAATCAGTAATATCATTTAGTGTATACAAGGAAGAATTATTTAATTTAAAAGCAATGGGT
194 ATTCGAAATCAGTAATATCATTTAGTGTATACAAGGAAGAATTATTTAATTTAAAAGCAATGGGT
454058 GTTTGCTTCTATACAAGGAATAAGATTCATGCTTGGGAATCATTTAATTGTGTATGACTGATTCG
259 GTTTGCTTCTATACAAGGAATAAGATTCATGCTTGGGAATCATTTAATTGTGTATGACTGATTCG
454123 TATTATTTTCCAAAGGAATAGCAAGCTTGCTTCAAGTTGAAACAATGGATGCCCACAAAAGCCAA
324 TATTATTTTCCAAAGGAATAGCAAGCTTGCTTCAAGTTGAAACAATGGATGCCCACAAAAGCCAA
454188 AGATCACTTGTTGAAGCAACCAGCACCTAATAACCT-TTTGTATGC
389 AGATCACTTGTTGAAGCAACCAGCACCTAATAACCTATTTGTATGC
454233 TCCCAAAATGAATACCCTAACCAACCATTAGGCACTCTTTGTTCATAAATTAAAGCCCCAAGAAA
1 TCCCAAAATGAATACCCTAACCAACCATTAGGCACTCTTTGTTCATAAATTAAAGCCCCAAGAAA
454298 -TCTAACATATAAT-C-ACTACTTTTGACCTTGCTAAGCAATCCCCCATACACAATATACTTCTC
66 CTCTAACATATAATACTACTACTTTTGACCTTGCTAAGCAATCCCCCATACACAATATACTTCTC
454360 CAACCATAAATGCCAAAGGGGAAAAAAAGATGTTTATTTGATTTTCAAATAATAAAATATTCAAT
131 CAACCATAAATGCCAAAGGGGAAAAAAAGATGTTTATTTGATTTTCAAATAATAAAATATTCAAT
454425 TCGAAATCAGTAATATCATTTAGTGTATACAAGGAAGAAATTATTTAATTTAAAAGCAATGGGTG
196 TCGAAATCAGTAATATCATTTAGTGTATACAAGGAAG-AATTATTTAATTTAAAAGCAATGGGTG
454490 TTTGCTTCTATACAAGGAAAGTTAAAGATTCATGCTTGGGAATCATTTAATTGTGTATGACTGAT
260 TTTGCTTCTATACAAGG-AA--T-AAGATTCATGCTTGGGAATCATTTAATTGTGTATGACTGAT
454555 TCGTATTATTTTCCAAAGGGAATAGCAAGCTTGCTTCAAGTTG-AACAATGGATGCCCACAAAAG
321 TCGTATTATTTTCCAAA-GGAATAGCAAGCTTGCTTCAAGTTGAAACAATGGATGCCCACAAAAG
454619 CCAAAGATCACTTGTTGAAGCAACCAGCACCTAATAACCTATTTGTATGC
385 CCAAAGATCACTTGTTGAAGCAACCAGCACCTAATAACCTATTTGTATGC
454669 CCTCAGTATT
Statistics
Matches: 428, Mismatches: 1, Indels: 13
0.97 0.00 0.03
Matches are distributed among these distances:
430 150 0.35
431 45 0.11
432 2 0.00
433 13 0.03
434 1 0.00
435 183 0.43
436 34 0.08
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.30
Consensus pattern (434 bp):
TCCCAAAATGAATACCCTAACCAACCATTAGGCACTCTTTGTTCATAAATTAAAGCCCCAAGAAA
CTCTAACATATAATACTACTACTTTTGACCTTGCTAAGCAATCCCCCATACACAATATACTTCTC
CAACCATAAATGCCAAAGGGGAAAAAAAGATGTTTATTTGATTTTCAAATAATAAAATATTCAAT
TCGAAATCAGTAATATCATTTAGTGTATACAAGGAAGAATTATTTAATTTAAAAGCAATGGGTGT
TTGCTTCTATACAAGGAATAAGATTCATGCTTGGGAATCATTTAATTGTGTATGACTGATTCGTA
TTATTTTCCAAAGGAATAGCAAGCTTGCTTCAAGTTGAAACAATGGATGCCCACAAAAGCCAAAG
ATCACTTGTTGAAGCAACCAGCACCTAATAACCTATTTGTATGC
Found at i:461236 original size:136 final size:134
Alignment explanation
Indices: 460882--461252 Score: 440
Period size: 134 Copynumber: 2.8 Consensus size: 134
460872 TAACATGAGG
* * *
460882 AAGCTTAGTTAGAAACTTTGGCATCTCATCCGTATATGCAACACTCTGTTAACTGGTTGACCTTC
1 AAGCTTAGTTAGAAGCTTTGGCATCTCATCCGCATATGCAACACTCTGTTAACCGGTTGACCTTC
* * * *
460947 AGCACGTAATTTGGCAATGTTCCATCCTGCAAAATTCCACCACCCATAAACCTGAACAAACGTCT
66 AGCACATAATTTGGCAATGTTCCAACCTGCAAAATTCCACCACCCATAAACCTGAACAAAAGTCG
*
461012 AAGG
131 AAGA
* * * * * * * * *
461016 AAGCTTAGTTAGAGGTTTTGACATATAATCTGCATATGTAACACTCTGTTAATCGGTTGGCCTTC
1 AAGCTTAGTTAGAAGCTTTGGCATCTCATCCGCATATGCAACACTCTGTTAACCGGTTGACCTTC
* * *
461081 AGCATATAATTTGGCAATGTTCCAACCTGCAAAACTT-CACCACTCATAAACCTGAGCAAGCAAG
66 AGCACATAATTTGGCAATGTTCCAACCTGCAAAA-TTCCACCACCCATAAACCTGAACAA--AAG
461145 TCCGAA-A
128 T-CGAAGA
* ** **
461152 AAGCTTAGTTAGAAGCTTTGGCATCTCATCCGCATATGCATCACTCTGTCGACCAATTGACCTTC
1 AAGCTTAGTTAGAAGCTTTGGCATCTCATCCGCATATGCAACACTCTGTTAACCGGTTGACCTTC
* * *
461217 AACACATAATTTGGTAATGTTCCAACCTGAAAAATT
66 AGCACATAATTTGGCAATGTTCCAACCTGCAAAATT
461253 AGGTACAACT
Statistics
Matches: 195, Mismatches: 38, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
134 104 0.53
135 4 0.02
136 84 0.43
137 3 0.02
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (134 bp):
AAGCTTAGTTAGAAGCTTTGGCATCTCATCCGCATATGCAACACTCTGTTAACCGGTTGACCTTC
AGCACATAATTTGGCAATGTTCCAACCTGCAAAATTCCACCACCCATAAACCTGAACAAAAGTCG
AAGA
Found at i:462966 original size:22 final size:22
Alignment explanation
Indices: 462941--463012 Score: 78
Period size: 23 Copynumber: 3.3 Consensus size: 22
462931 CACCACAACT
462941 CACATAATTTG-CACCGAAGTG-C
1 CACATAATTTGTC-CCGAAG-GAC
*
462963 CACAT-ATTTGTCCTGAAGGAC
1 CACATAATTTGTCCCGAAGGAC
*
462984 CACATAATTTTGTCTCGAAGGAC
1 CACATAA-TTTGTCCCGAAGGAC
463007 CACATA
1 CACATA
463013 GAACCATCGA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
20 1 0.02
21 16 0.37
22 7 0.16
23 19 0.44
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (22 bp):
CACATAATTTGTCCCGAAGGAC
Found at i:463720 original size:16 final size:16
Alignment explanation
Indices: 463699--463735 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
463689 TTCAGTATCG
463699 GTACCTCCTTCAATCA
1 GTACCTCCTTCAATCA
*
463715 GTACCTTCTTCAATCA
1 GTACCTCCTTCAATCA
463731 GTACC
1 GTACC
463736 GATACTGATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.24, C:0.35, G:0.08, T:0.32
Consensus pattern (16 bp):
GTACCTCCTTCAATCA
Found at i:465059 original size:17 final size:17
Alignment explanation
Indices: 465037--465072 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
465027 CCAATAAAGT
*
465037 TAGTTCATTCATATAAC
1 TAGTTCATTAATATAAC
*
465054 TAGTTCATTAATCTAAC
1 TAGTTCATTAATATAAC
465071 TA
1 TA
465073 ACCCTTTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.36, C:0.17, G:0.06, T:0.42
Consensus pattern (17 bp):
TAGTTCATTAATATAAC
Found at i:466331 original size:30 final size:30
Alignment explanation
Indices: 466296--466375 Score: 151
Period size: 30 Copynumber: 2.7 Consensus size: 30
466286 TTACTGGCTA
466296 TACTGTGCATTATTTGAATGACATTAACTC
1 TACTGTGCATTATTTGAATGACATTAACTC
466326 TACTGTGCATTATTTGAATGACATTAACTC
1 TACTGTGCATTATTTGAATGACATTAACTC
*
466356 TACTGTGCATTATCTGAATG
1 TACTGTGCATTATTTGAATG
466376 CAATATTAAC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (30 bp):
TACTGTGCATTATTTGAATGACATTAACTC
Found at i:466813 original size:28 final size:28
Alignment explanation
Indices: 466782--466855 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 28
466772 TTTTTAGTTG
466782 TTATTGCTAT-TGTTTTTAACTGTTACTA
1 TTATTG-TATATGTTTTTAACTGTTACTA
* * *
466810 TTATTGTTTATGTTTTTAATTGTTACTG
1 TTATTGTATATGTTTTTAACTGTTACTA
*
466838 TTATTGTTTATGTTTTTA
1 TTATTGTATATGTTTTTA
466856 TATGTGTTGA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
27 2 0.05
28 40 0.95
ACGTcount: A:0.19, C:0.05, G:0.12, T:0.64
Consensus pattern (28 bp):
TTATTGTATATGTTTTTAACTGTTACTA
Found at i:468907 original size:2 final size:2
Alignment explanation
Indices: 468900--469025 Score: 252
Period size: 2 Copynumber: 63.0 Consensus size: 2
468890 ATCTTATGTT
468900 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
468942 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
468984 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
469026 TATATATATC
Statistics
Matches: 124, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 124 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:469572 original size:20 final size:20
Alignment explanation
Indices: 469544--469620 Score: 59
Period size: 20 Copynumber: 3.7 Consensus size: 20
469534 TTCCCCTTGA
469544 AGTGCATCGATACATTCTAC
1 AGTGCATCGATACATTCTAC
* *
469564 AGTGTATCGATGCATTCTTTAAC
1 AGTGCATCGATACATTC--T-AC
* *
469587 ATGTGCATCGATGCACTACT-C
1 A-GTGCATCGATACA-TTCTAC
469608 A-TGCATCGATACA
1 AGTGCATCGATACA
469621 CAAATCACCT
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
19 11 0.23
20 15 0.32
21 2 0.04
22 1 0.02
23 4 0.09
24 12 0.26
25 2 0.04
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATACATTCTAC
Found at i:469601 original size:24 final size:20
Alignment explanation
Indices: 469544--469601 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 20
469534 TTCCCCTTGA
*
469544 AGTGCATCGATACATTCTAC
1 AGTGCATCGATGCATTCTAC
*
469564 AGTGTATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC--T-AC
469587 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
469602 CTACTCATGC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 15 0.48
22 1 0.03
23 3 0.10
24 12 0.39
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:473669 original size:21 final size:21
Alignment explanation
Indices: 473593--473670 Score: 61
Period size: 21 Copynumber: 3.7 Consensus size: 21
473583 CATTAGAGAT
*
473593 ATATATGTAATCCTTTGGAAC
1 ATATATGTGATCCTTTGGAAC
* * * *
473614 ATATATGCGGTTCTTCGGGGAAC
1 ATATATGTGATCCTT--TGGAAC
* *
473637 ATAT-T-TGGTCCTTTGGAAT
1 ATATATGTGATCCTTTGGAAC
473656 ATATATGTGATCCTT
1 ATATATGTGATCCTT
473671 AAGGAGTGGT
Statistics
Matches: 43, Mismatches: 10, Indels: 8
0.70 0.16 0.13
Matches are distributed among these distances:
19 8 0.19
20 1 0.02
21 24 0.56
22 1 0.02
23 9 0.21
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.40
Consensus pattern (21 bp):
ATATATGTGATCCTTTGGAAC
Found at i:473710 original size:21 final size:21
Alignment explanation
Indices: 473676--473719 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
473666 TCCTTAAGGA
* * *
473676 GTGGTCCTTTGGGATATATAT
1 GTGGTACTTCGGGACATATAT
*
473697 GTGGTACTTCGGGACATCTAT
1 GTGGTACTTCGGGACATATAT
473718 GT
1 GT
473720 ATATATGTGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.18, C:0.14, G:0.30, T:0.39
Consensus pattern (21 bp):
GTGGTACTTCGGGACATATAT
Found at i:476757 original size:639 final size:640
Alignment explanation
Indices: 475508--476773 Score: 1894
Period size: 639 Copynumber: 2.0 Consensus size: 640
475498 CGCCACTCTA
* * * *
475508 AAGATAATTTTCATATTTGAGGAAAAGGTTATGGCAAACACTATGGTGTTGCACCTAATTTACAA
1 AAGACAATTTTCATATTTCAGGAAAAGGTGACGGCAAACACTATGGTGTTGCACCTAATTTACAA
* * * *
475573 ACGCAAGCAATGCTTCGTGAATTGTCAAGATTGTGGAGGGAAGCATTGAGAACCATTTCAAGAGA
66 ACGCAAACAATGCTTCGTGAATTATCAAGATTGTGGAGGGAAGAATTAAGAACCATTTCAAGAGA
* * * *
475638 AAAGAATATTGCGAAGCACTATTAGGGCTCAATTTCTAACTCGAGTCAAAGACCAAGAAAAGATG
131 AAAGAATATTGCAAAACACTATTAGGGCTCAATTTCTAACTCGAGGCAAAGACCAAGAAAAAATG
* *
475703 ACATTGTTCCTCAATAAAGAGAGTACATGCCAAAAAAGAAGATTGCTCTAATAAAAGCAACGTAA
196 ACATAGTTCCTCAATAAAGAGAGTACATGCCAAAAAAGAAGACTGCTCTAATAAAAGCAACGTAA
* *
475768 ATCCAGATTTTAGATATCATTGCTTGAAAATAGGACATACACCTAGACAATGTCCTAATCGGAGT
261 ATCCAGATTTTAGATATCATTGCTTGAAAACAGGACACACACCTAGACAATGTCCTAATCGGAGT
* * * *
475833 GCTACAAAGTCTAAAGTTGTCGCCAACCGTAAACCAAAAGAAGAAATCAATATAGAGGCAATTGA
326 ACTACAAAGTCTAAAGTTGTCGCCAACCATAAACCAAAAGAAAAAATCAATATAGAGGCAATTAA
* * *
475898 ACAAGTTAACTCGAGACAAGATGAGAGCAAAGTTGCAACCGACGTAGATCTATGAAACGAGATCT
391 ACAAGTTAACTCGAGACAAGATGAGAGCAAAGTTACAACCAACATAGATCTATGAAACGAGATCT
* * *
475963 TGTTGGAGACTTGTAAGTTCGAACTTCTTTTACTTTGCACCACTGAGGTTGAAACTATTCCTAGT
456 TGTTGGAGACTTGTAAGTTCGAACTTCTTTTACTTTACACCACTAAGGTTGAAACAATTCCTAGT
* ** * *
476028 GCATGCAAAGGTGGAAATGATTTAACAATCAAGAAATAACCTAAAGGTAATGCCCCGACAATTTA
521 GCATACAAAGGTGGAAACAATTTAACAATCAAGAAATAACCCAAAGGCAATGCCCCGACAATTTA
* **
476093 TAAAGCCATTATCGAAATTAGCAAAGGCAATGCCCCGACAATCCCAAACTATTTC
586 TAAAGCCATTATCAAAACCAGCAAAGGCAATGCCCCGACAATCCCAAACTATTTC
*
476148 AAGACAATTTT-ATTATTTCAGGAAAAGGTGACGGCAAACATTATGGTGTTGCACCTAATTTACA
1 AAGACAATTTTCA-TATTTCAGGAAAAGGTGACGGCAAACACTATGGTGTTGCACCTAATTTACA
* *
476212 AATGCAAACAATGC-TCTTTGAATTATCAAGATTGTGGAGGGAAGAATTAAGAACCATTTCAAGA
65 AACGCAAACAATGCTTC-GTGAATTATCAAGATTGTGGAGGGAAGAATTAAGAACCATTTCAAGA
* *
476276 GAAAA-AATGTTGCAAAACACTATTCA-GGTTCAATTTCTAACTCGAGGCAAAGACCAAGAAAAA
129 GAAAAGAATATTGCAAAACACTATT-AGGGCTCAATTTCTAACTCGAGGCAAAGACCAAGAAAAA
** *
476339 ATGATGTAGTTCCTCAATAAAGAGAGTATATGCCAAAAAAGAAGACTGCTCTAATAAAAGCAACG
193 ATGACATAGTTCCTCAATAAAGAGAGTACATGCCAAAAAAGAAGACTGCTCTAATAAAAGCAACG
* * * *
476404 TAAATCCATATTTTAGATATCATTGCTTGGAAACATGACACACACCTAGCCAATGTCCTAATCGG
258 TAAATCCAGATTTTAGATATCATTGCTTGAAAACAGGACACACACCTAGACAATGTCCTAATCGG
* * * *
476469 GGTACTACAAAGTCTGAAGTTGTCTCCAACCATAAACCAAAAGAAAAAATCAATGTAGAGGCAAT
323 AGTACTACAAAGTCTAAAGTTGTCGCCAACCATAAACCAAAAGAAAAAATCAATATAGAGGCAAT
* * *
476534 TAAACAAGTTAACTTGAGACAAGATGAGAGCAAAGTTACAATCAACATAGATCTATGAAATGAGA
388 TAAACAAGTTAACTCGAGACAAGATGAGAGCAAAGTTACAACCAACATAGATCTATGAAACGAGA
* ** * *
476599 TCTTTTTTTAGACTTGTAAGTTTGAACTTCTTTTACTTTACACCACTAAGGTTTAAACAATTCCT
453 TCTTGTTGGAGACTTGTAAGTTCGAACTTCTTTTACTTTACACCACTAAGGTTGAAACAATTCCT
* * *
476664 AGTGCATACAAAGGTGGAAACAATTTTACACTCAAGGAAA-AACCCAAAGGCAATGCCCCGATAA
518 AGTGCATACAAAGGTGGAAACAATTTAACAATCAA-GAAATAACCCAAAGGCAATGCCCCGACAA
* *
476728 TTTGTAAAGCCATTATCAAAACCAGCAAAGGGAATGCCCCGACAAT
582 TTTATAAAGCCATTATCAAAACCAGCAAAGGCAATGCCCCGACAAT
476774 TCGTAAAGTC
Statistics
Matches: 559, Mismatches: 63, Indels: 9
0.89 0.10 0.01
Matches are distributed among these distances:
639 437 0.78
640 122 0.22
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (640 bp):
AAGACAATTTTCATATTTCAGGAAAAGGTGACGGCAAACACTATGGTGTTGCACCTAATTTACAA
ACGCAAACAATGCTTCGTGAATTATCAAGATTGTGGAGGGAAGAATTAAGAACCATTTCAAGAGA
AAAGAATATTGCAAAACACTATTAGGGCTCAATTTCTAACTCGAGGCAAAGACCAAGAAAAAATG
ACATAGTTCCTCAATAAAGAGAGTACATGCCAAAAAAGAAGACTGCTCTAATAAAAGCAACGTAA
ATCCAGATTTTAGATATCATTGCTTGAAAACAGGACACACACCTAGACAATGTCCTAATCGGAGT
ACTACAAAGTCTAAAGTTGTCGCCAACCATAAACCAAAAGAAAAAATCAATATAGAGGCAATTAA
ACAAGTTAACTCGAGACAAGATGAGAGCAAAGTTACAACCAACATAGATCTATGAAACGAGATCT
TGTTGGAGACTTGTAAGTTCGAACTTCTTTTACTTTACACCACTAAGGTTGAAACAATTCCTAGT
GCATACAAAGGTGGAAACAATTTAACAATCAAGAAATAACCCAAAGGCAATGCCCCGACAATTTA
TAAAGCCATTATCAAAACCAGCAAAGGCAATGCCCCGACAATCCCAAACTATTTC
Found at i:476758 original size:45 final size:45
Alignment explanation
Indices: 476708--476818 Score: 132
Period size: 45 Copynumber: 2.5 Consensus size: 45
476698 AGGAAAAACC
* * *
476708 CAAAGGCAATGCCCCGATAATTTGTAAAGCCATTATCAAAACCAG
1 CAAAGGAAATGCCCCGACAATTCGTAAAGCCATTATCAAAACCAG
* * * *
476753 CAAAGGGAATGCCCCGACAATTCGTAAAGTCATTGTCGAAACCAG
1 CAAAGGAAATGCCCCGACAATTCGTAAAGCCATTATCAAAACCAG
* * *
476798 TAAAGGAAATGCTCCAACAAT
1 CAAAGGAAATGCCCCGACAAT
476819 CCCAAACCAT
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 56 1.00
ACGTcount: A:0.40, C:0.23, G:0.18, T:0.19
Consensus pattern (45 bp):
CAAAGGAAATGCCCCGACAATTCGTAAAGCCATTATCAAAACCAG
Found at i:479031 original size:23 final size:23
Alignment explanation
Indices: 479001--479047 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
478991 CAAAGATTTG
479001 TAAGAAATCAATTCAATAAACGT
1 TAAGAAATCAATTCAATAAACGT
479024 TAAGAAATCAATTCAATAAACGT
1 TAAGAAATCAATTCAATAAACGT
479047 T
1 T
479048 CTGCAGTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.51, C:0.13, G:0.09, T:0.28
Consensus pattern (23 bp):
TAAGAAATCAATTCAATAAACGT
Found at i:492325 original size:28 final size:28
Alignment explanation
Indices: 492266--492326 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
492256 GTCGAGAGTT
*
492266 CTACGTGGTCCTACGAGACATATGTGTT
1 CTACGTGGTCCTACGAGACATATGTGTC
*
492294 CTACGTGGTCCTACGGGACATA-GTGGTC
1 CTACGTGGTCCTACGAGACATATGT-GTC
492322 CTACG
1 CTACG
492327 GGACATATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 2 0.07
28 28 0.93
ACGTcount: A:0.20, C:0.25, G:0.28, T:0.28
Consensus pattern (28 bp):
CTACGTGGTCCTACGAGACATATGTGTC
Found at i:492337 original size:46 final size:46
Alignment explanation
Indices: 492270--492377 Score: 180
Period size: 46 Copynumber: 2.3 Consensus size: 46
492260 AGAGTTCTAC
* * *
492270 GTGGTCCTACGAGACATATGTGTTCTACGTGGTCCTACGGGACATA
1 GTGGTCCTACGGGACATATGTGTTCTACGTGGTCCTAAGGAACATA
492316 GTGGTCCTACGGGACATATGTGTTCTACGTGGTCCTAAGGAACATA
1 GTGGTCCTACGGGACATATGTGTTCTACGTGGTCCTAAGGAACATA
*
492362 GTGGTCCCACGGGACA
1 GTGGTCCTACGGGACA
492378 AATTCTACGT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 58 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (46 bp):
GTGGTCCTACGGGACATATGTGTTCTACGTGGTCCTAAGGAACATA
Found at i:492344 original size:18 final size:18
Alignment explanation
Indices: 492298--492333 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
492288 TGTGTTCTAC
492298 GTGGTCCTACGGGACATA
1 GTGGTCCTACGGGACATA
492316 GTGGTCCTACGGGACATA
1 GTGGTCCTACGGGACATA
492334 TGTGTTCTAC
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:0.22, C:0.22, G:0.33, T:0.22
Consensus pattern (18 bp):
GTGGTCCTACGGGACATA
Found at i:497807 original size:98 final size:98
Alignment explanation
Indices: 497638--497834 Score: 385
Period size: 98 Copynumber: 2.0 Consensus size: 98
497628 TAGGAATCAG
497638 CAATTACCAAATGGAGTATATTTTTGCACATGGATACAAAGATATGAAGCTCGTTTTAAAAGAGT
1 CAATTACCAAATGGAGTATATTTTTGCACATGGATACAAAGATATGAAGCTCGTTTTAAAAGAGT
497703 TCAACAAGTCCGTGTGGGACATGAACTCATATA
66 TCAACAAGTCCGTGTGGGACATGAACTCATATA
497736 CAATTACCAAATGGAGTATATTTTTGCACATGGATACAAAGATATGAAGCTCGTTTTAAAAGAGT
1 CAATTACCAAATGGAGTATATTTTTGCACATGGATACAAAGATATGAAGCTCGTTTTAAAAGAGT
*
497801 TCAACAAGTCCGTGTGGGATATGAACTCATATA
66 TCAACAAGTCCGTGTGGGACATGAACTCATATA
497834 C
1 C
497835 GACATTCAAA
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 98 1.00
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (98 bp):
CAATTACCAAATGGAGTATATTTTTGCACATGGATACAAAGATATGAAGCTCGTTTTAAAAGAGT
TCAACAAGTCCGTGTGGGACATGAACTCATATA
Found at i:498297 original size:3 final size:3
Alignment explanation
Indices: 498289--498394 Score: 140
Period size: 3 Copynumber: 34.7 Consensus size: 3
498279 TCATTTAAAT
** *
498289 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA GTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
498337 TAA TTA TAA TTA TTA TTA TTA TTTA TTA TTA TTA TTA ATA TTA TATA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA T-TA
498384 TTA TTA TTA TT
1 TTA TTA TTA TT
498395 TAATAAATAA
Statistics
Matches: 89, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
3 83 0.93
4 6 0.07
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:498812 original size:28 final size:30
Alignment explanation
Indices: 498738--498813 Score: 90
Period size: 28 Copynumber: 2.7 Consensus size: 30
498728 CAGATCCTGC
*
498738 AAAACAAAAAAAAGAGG-A-CGACGACAGA
1 AAAAAAAAAAAAAGAGGAAGCGACGACAGA
* *
498766 AAAAAAAGAAAAAGA-GAAGGGA-GACA-A
1 AAAAAAAAAAAAAGAGGAAGCGACGACAGA
498793 AAAAAAAAAAAAAGAGGAAGC
1 AAAAAAAAAAAAAGAGGAAGC
498814 AACTAACGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
27 16 0.40
28 22 0.55
29 2 0.05
ACGTcount: A:0.70, C:0.08, G:0.22, T:0.00
Consensus pattern (30 bp):
AAAAAAAAAAAAAGAGGAAGCGACGACAGA
Found at i:500528 original size:16 final size:18
Alignment explanation
Indices: 500507--500544 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
500497 TTTTCAAATT
500507 TTTTATA-TACTTAT-TA
1 TTTTATAGTACTTATATA
*
500523 TTTTATAGTATTTATATA
1 TTTTATAGTACTTATATA
500541 TTTT
1 TTTT
500545 CTTATTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 6 0.32
18 6 0.32
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (18 bp):
TTTTATAGTACTTATATA
Found at i:505172 original size:16 final size:15
Alignment explanation
Indices: 505130--505187 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 15
505120 TCCAGCAAAG
505130 AAAGAAGAAAAAAAACC
1 AAAGAA-AAAAAAAA-C
*
505147 AAA-AACAAAAAAAC
1 AAAGAAAAAAAAAAC
*
505161 ATAAGAAAAAAAAAGAA
1 A-AAGAAAAAAAAA-AC
505178 AAAGAAAAAA
1 AAAGAAAAAA
505188 TTGAATCAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
14 2 0.06
15 9 0.26
16 19 0.54
17 5 0.14
ACGTcount: A:0.83, C:0.07, G:0.09, T:0.02
Consensus pattern (15 bp):
AAAGAAAAAAAAAAC
Found at i:507371 original size:114 final size:114
Alignment explanation
Indices: 507168--507393 Score: 398
Period size: 114 Copynumber: 2.0 Consensus size: 114
507158 AAGTGTCATG
*
507168 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATC
*
507233 TGGTTTGGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATT
66 TGGTTTGGTATGAACCCCAAAACCAATCATTGGAATTGAAAGATGAATT
* *
507282 TGCTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATC
* *
507347 TGGTTTGGTATGAACCCCAGAACCAATCATTGGAATTGAAAGGTGAA
66 TGGTTTGGTATGAACCCCAAAACCAATCATTGGAATTGAAAGATGAA
507394 CTGCATGATC
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
114 106 1.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.31
Consensus pattern (114 bp):
TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATC
TGGTTTGGTATGAACCCCAAAACCAATCATTGGAATTGAAAGATGAATT
Found at i:510841 original size:76 final size:75
Alignment explanation
Indices: 510715--510907 Score: 302
Period size: 76 Copynumber: 2.6 Consensus size: 75
510705 ATTTCCCACG
510715 TCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
1 TCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA-
510780 CC-TCAGGGTCA
65 CCTTC-GGGTCA
* *
510791 TCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTTTGATGTTTTCAAAC
1 TCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAC
510856 CTTCGGGTCA
66 CTTCGGGTCA
* * *
510866 TCTGTAAGCCCTTCAGTGCATGATGTTTTC--AAAGCCTTCGGG
1 TCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGG
510908 TCATCCGTAA
Statistics
Matches: 110, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
73 11 0.10
75 35 0.32
76 64 0.58
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.34
Consensus pattern (75 bp):
TCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAC
CTTCGGGTCA
Found at i:510912 original size:45 final size:45
Alignment explanation
Indices: 510842--510988 Score: 260
Period size: 45 Copynumber: 3.3 Consensus size: 45
510832 GGGAGCTTTT
*
510842 TGATGTTTTCAAA-CCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCCGTAAGCCCTTCAGTGCA
510886 TGATGTTTTCAAAGCCTTCGGGTCATCCGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCCGTAAGCCCTTCAGTGCA
*
510931 TGATGTTTTCAAAGCCTTCGGGTCATCCGTAAGCCCTGCAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCCGTAAGCCCTTCAGTGCA
*
510976 GGATGTTTTCAAA
1 TGATGTTTTCAAA
510989 AAGCCTTCAA
Statistics
Matches: 99, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
44 13 0.13
45 86 0.87
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.32
Consensus pattern (45 bp):
TGATGTTTTCAAAGCCTTCGGGTCATCCGTAAGCCCTTCAGTGCA
Found at i:511065 original size:76 final size:76
Alignment explanation
Indices: 510931--511437 Score: 786
Period size: 76 Copynumber: 6.7 Consensus size: 76
510921 CTTCAGTGCA
* * * * *
510931 TGATGTTTTCAAAGCCTTC-GGGTCATCCGTAAGCCCTGCAGTGCAGGATGTTTTCAAAAAGCCT
1 TGATGTTTTCAAAGCC-TCAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCT
**
510995 TCAAGAGCTTTT
65 TCGGGAGCTTTT
* * *
511007 TGATATTTTCAAAGCCTCAGGGTCGTTTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTT
1 TGATGTTTTCAAAGCCTCAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTT
511072 CGGGAGCTTTT
66 CGGGAGCTTTT
*
511083 TGATGTTTTCAAAGCCTCAGGGTCGTCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTT
1 TGATGTTTTCAAAGCCTCAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTT
511148 CGGGAGCTTTT
66 CGGGAGCTTTT
* *
511159 TGATGTTCTCAAAGCCTCAGGGTCGTCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTT
1 TGATGTTTTCAAAGCCTCAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTT
511224 CGGGAGCTTTT
66 CGGGAGCTTTT
* *
511235 TGATGTTTTCAAAGCCTCAGGGTCATCTGTAAGTCCTGCAGAGCATGATGTTTCCAAAAAGCCTT
1 TGATGTTTTCAAAGCCTCAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTT
*
511300 TGGGAGCTTTT
66 CGGGAGCTTTT
* *
511311 TGATGTTTTTAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTT
1 TGATGTTTTCAAAGCCTCAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTT
*
511376 CAGGAGCTTTT
66 CGGGAGCTTTT
* * *
511387 TGATGTTTTCAAA-CCTTA-GGTCATCTGTAAGCCCTTCAGTGCATGATGTTT
1 TGATGTTTTCAAAGCCTCAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTT
511438 TCAACATTTC
Statistics
Matches: 403, Mismatches: 27, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
74 31 0.08
75 7 0.02
76 365 0.91
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.34
Consensus pattern (76 bp):
TGATGTTTTCAAAGCCTCAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTT
CGGGAGCTTTT
Found at i:511579 original size:3 final size:3
Alignment explanation
Indices: 511571--511675 Score: 142
Period size: 3 Copynumber: 35.7 Consensus size: 3
511561 TCATTTAAAT
** *
511571 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TTA GTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
511619 TTA -TA ATA ATA ATA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
511665 TTA TTA TTA TT
1 TTA TTA TTA TT
511676 TAATAAATAA
Statistics
Matches: 93, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
2 4 0.04
3 89 0.96
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:512049 original size:28 final size:27
Alignment explanation
Indices: 512018--512091 Score: 87
Period size: 28 Copynumber: 2.7 Consensus size: 27
512008 CGGATCTTGC
*
512018 AAAACAAAAAAAAGAGGA-CGACGACAG
1 AAAAAAAAAAAAAGAGGAGCGA-GACAG
* *
512045 AAAAAAAAAGAAAAGAGAAGGGAGACAG
1 AAAAAAAAA-AAAAGAGGAGCGAGACAG
512073 AAAAAACAAAAAAAGAGGA
1 AAAAAA-AAAAAAAGAGGA
512092 AGCAACTAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
27 8 0.20
28 27 0.68
29 5 0.12
ACGTcount: A:0.69, C:0.08, G:0.23, T:0.00
Consensus pattern (27 bp):
AAAAAAAAAAAAAGAGGAGCGAGACAG
Found at i:512784 original size:21 final size:19
Alignment explanation
Indices: 512758--512805 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
512748 TATTTAGTCC
*
512758 TTTAATTTTAATAATTAATAT
1 TTTAATTTGAATAA-T-ATAT
* *
512779 TTTAATCTGAATAATATGT
1 TTTAATTTGAATAATATAT
512798 TTTAATTT
1 TTTAATTT
512806 ATTTTAATCT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 10 0.43
20 1 0.04
21 12 0.52
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (19 bp):
TTTAATTTGAATAATATAT
Found at i:528495 original size:18 final size:19
Alignment explanation
Indices: 528460--528498 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
528450 TATATTAATG
*
528460 ATTCAAAATGGATAATTTT
1 ATTCAAAATAGATAATTTT
*
528479 ATTC-AAATAGATCATTTT
1 ATTCAAAATAGATAATTTT
528497 AT
1 AT
528499 ATATCAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.44
Consensus pattern (19 bp):
ATTCAAAATAGATAATTTT
Found at i:531548 original size:18 final size:18
Alignment explanation
Indices: 531525--531567 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
531515 TCTTAGATTA
531525 TTTATTTAATTATTT-TCT
1 TTTATTTAATT-TTTATCT
531543 TTTATTTAATTTTTATCT
1 TTTATTTAATTTTTATCT
531561 TTTATTT
1 TTTATTT
531568 TAAAAATAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 3 0.12
18 21 0.88
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTATTTAATTTTTATCT
Found at i:531684 original size:36 final size:35
Alignment explanation
Indices: 531587--531689 Score: 106
Period size: 35 Copynumber: 2.9 Consensus size: 35
531577 CTTTTAAAAC
531587 CCCTTTTTATCTT-TACTATTA-TTATTTTATTA-TTT
1 CCCTTTTTAT-TTATA--ATTATTTATTTTATTATTTT
*
531622 CCCTTTTTATTTATTATTATTTATTTTATTATTTT
1 CCCTTTTTATTTATAATTATTTATTTTATTATTTT
**
531657 TTCTTTTTAAATTT-TAATTATTTATTTTATTAT
1 CCCTTTTT--ATTTATAATTATTTATTTTATTAT
531690 ATCTTTTCAA
Statistics
Matches: 59, Mismatches: 4, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
33 4 0.07
34 13 0.22
35 20 0.34
36 18 0.31
37 4 0.07
ACGTcount: A:0.22, C:0.09, G:0.00, T:0.69
Consensus pattern (35 bp):
CCCTTTTTATTTATAATTATTTATTTTATTATTTT
Found at i:537112 original size:5 final size:5
Alignment explanation
Indices: 537086--537178 Score: 50
Period size: 5 Copynumber: 18.8 Consensus size: 5
537076 TCGTTCTATT
** * *
537086 TTTTA TTTT- TTTTA TTACA TTTTA TTTTCA TTTCA TTTTCA TTTTA -CTT-
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT-A TTTTA TTTT-A TTTTA TTTTA
* ** * *
537135 TTTTA GTAAA CTTTA TTTTCA TTCTA -TTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTT-A TTTTA TTTTA TTTTA TTTTA TTTT
537179 TCTTTGAACA
Statistics
Matches: 64, Mismatches: 17, Indels: 14
0.67 0.18 0.15
Matches are distributed among these distances:
4 11 0.17
5 40 0.62
6 13 0.20
ACGTcount: A:0.20, C:0.09, G:0.01, T:0.70
Consensus pattern (5 bp):
TTTTA
Found at i:537117 original size:11 final size:11
Alignment explanation
Indices: 537086--537136 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
537076 TCGTTCTATT
537086 TTTTATTTT--
1 TTTTATTTTCA
*
537095 TTTTA-TTACA
1 TTTTATTTTCA
537105 TTTTATTTTCA
1 TTTTATTTTCA
*
537116 TTTCATTTTCA
1 TTTTATTTTCA
537127 TTTTACTTTT
1 TTTTA-TTTT
537137 TTAGTAAACT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
8 2 0.06
9 5 0.15
10 5 0.15
11 18 0.53
12 4 0.12
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTTATTTTCA
Found at i:539180 original size:76 final size:76
Alignment explanation
Indices: 538989--539180 Score: 225
Period size: 76 Copynumber: 2.6 Consensus size: 76
538979 TGAATTAATC
* * * *
538989 TTAAG-TTTAGGATAATATTTTAAACATTATATTT-TATCTT-TGTATTTTAGTTTAAATATGTT
1 TTAAGATTTAGGATATTATTTTAAATATTAT-TTTGTATTTTATGTATTTTAGTTTAAATAGGTT
539051 TTAGTATTTTAA
65 TTAGTATTTTAA
* * *
539063 TTAAGTTTTAGGATATTATTTTTATATTTTATCTTTG--TTTTATGTATTTTAGTTTAAATAGGT
1 TTAAGATTTAGGATATTA-TTTTAAATATTAT-TTTGTATTTTATGTATTTTAGTTTAAATAGGT
539126 TTTAGTATTTTAA
64 TTTAGTATTTTAA
* *
539139 TT-AGAATTTAGAATATTATTTTAAATAATATTTTGTATTTTA
1 TTAAG-ATTTAGGATATTATTTTAAATATTATTTTGTATTTTA
539181 GTTTAAATAG
Statistics
Matches: 99, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
74 9 0.09
75 26 0.26
76 64 0.65
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (76 bp):
TTAAGATTTAGGATATTATTTTAAATATTATTTTGTATTTTATGTATTTTAGTTTAAATAGGTTT
TAGTATTTTAA
Found at i:539829 original size:17 final size:18
Alignment explanation
Indices: 539794--539835 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
539784 TCTTGGATTA
539794 TTTATTTAATTACTTTC-
1 TTTATTTAATTACTTTCT
*
539811 TTTATTTAATT-TTTATCT
1 TTTATTTAATTACTT-TCT
539829 TTTATTT
1 TTTATTT
539836 TAAAAACAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 2 0.09
17 13 0.59
18 7 0.32
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTATTTAATTACTTTCT
Found at i:539920 original size:15 final size:15
Alignment explanation
Indices: 539900--539958 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 15
539890 TATTTTCCAT
539900 TTTATTTTATTATTA
1 TTTATTTTATTATTA
539915 TTTATTTTATTA-T-
1 TTTATTTTATTATTA
* ** *
539928 TTAAAATTATAATTA
1 TTTATTTTATTATTA
539943 TTTATTTTATT-TTA
1 TTTATTTTATTATTA
539957 TT
1 TT
539959 ATAGAAGAGC
Statistics
Matches: 34, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
13 8 0.24
14 7 0.21
15 19 0.56
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTATTTTATTATTA
Found at i:553569 original size:82 final size:81
Alignment explanation
Indices: 553427--553585 Score: 309
Period size: 82 Copynumber: 2.0 Consensus size: 81
553417 TTGGCCTTGT
553427 TATTTTCAACATTGGTAATAAATTGCCACTCATTCATTACTGTTATTCTCACTTCATTCAGGCCA
1 TATTTTCAACATTGGTAATAAATTGCCACTCATTCATTACTGTTATTCTCACTTCATTCAGGCCA
553492 ACTACTCTGGTCTGTA
66 ACTACTCTGGTCTGTA
553508 TATTTTCAACATTGGTAATAAATTGCCACTCCATTCATTACTGTTATTCTCACTTCATTCAGGCC
1 TATTTTCAACATTGGTAATAAATTGCCACT-CATTCATTACTGTTATTCTCACTTCATTCAGGCC
553573 AACTACTCTGGTC
65 AACTACTCTGGTC
553586 AAAGGAGCTC
Statistics
Matches: 77, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
81 30 0.39
82 47 0.61
ACGTcount: A:0.26, C:0.25, G:0.11, T:0.39
Consensus pattern (81 bp):
TATTTTCAACATTGGTAATAAATTGCCACTCATTCATTACTGTTATTCTCACTTCATTCAGGCCA
ACTACTCTGGTCTGTA
Found at i:557145 original size:3 final size:3
Alignment explanation
Indices: 557137--557252 Score: 114
Period size: 3 Copynumber: 38.7 Consensus size: 3
557127 TTATTTATTA
557137 AAT AAT AAT AAT AA- ATAT AAT AAT AAT -AT AAAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
* * * * *
557182 TAT TAT -TT AAT AAT AAT AAT ACT AAT AAT AAT ATTT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT
*
557227 AAT AAT AAT AA- ATTT AAT AAT AAT AA
1 AAT AAT AAT AAT A-AT AAT AAT AAT AA
557253 ATTTAAATGA
Statistics
Matches: 96, Mismatches: 9, Indels: 16
0.79 0.07 0.13
Matches are distributed among these distances:
2 5 0.05
3 85 0.89
4 6 0.06
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:557509 original size:76 final size:76
Alignment explanation
Indices: 557383--557778 Score: 728
Period size: 76 Copynumber: 5.3 Consensus size: 76
557373 GTTTGAAAAT
*
557383 CACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTG
1 CACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTG
557448 GAAACATCATG
66 GAAACATCATG
557459 CACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTG
1 CACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTG
557524 GAAACATCATG
66 GAAACATCATG
557535 CACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTG
1 CACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTG
557600 GAAACATCATG
66 GAAACATCATG
*
557611 CACTGAAGG-CTTACAGATGA-CCGAAGGATTTGAAAACATC-AAAAGCTCCCGAAGGCTTTTTG
1 CACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTG
557673 G-AACATCATG
66 GAAACATCATG
* *
557683 CACTGAAGGGCTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTG
1 CACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTG
557748 GAAACATCATG
66 GAAACATCATG
557759 CACTGAAGGACTTACAGATG
1 CACTGAAGGACTTACAGATG
557779 TGGGAAATAG
Statistics
Matches: 313, Mismatches: 3, Indels: 8
0.97 0.01 0.02
Matches are distributed among these distances:
72 18 0.06
73 34 0.11
74 39 0.12
75 34 0.11
76 188 0.60
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (76 bp):
CACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTG
GAAACATCATG
Found at i:558472 original size:21 final size:22
Alignment explanation
Indices: 558439--558483 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
558429 CATAAAGCTT
* *
558439 TCATTTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAACCTA
558461 TCATCTTT-AAAAGAGAACCTA
1 TCATCTTTGAAAAGAGAACCTA
558482 TC
1 TC
558484 TTTGAAGAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAACCTA
Found at i:560284 original size:25 final size:26
Alignment explanation
Indices: 560240--560289 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 26
560230 ACTTGTGGCT
560240 TTATTCATGCCCCAAATCTGTTTATC
1 TTATTCATGCCCCAAATCTGTTTATC
560266 TTATTCATG-CCCAAATCTGTTTAT
1 TTATTCATGCCCCAAATCTGTTTAT
560290 TGAATACTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 15 0.62
26 9 0.38
ACGTcount: A:0.24, C:0.24, G:0.08, T:0.44
Consensus pattern (26 bp):
TTATTCATGCCCCAAATCTGTTTATC
Found at i:561195 original size:91 final size:91
Alignment explanation
Indices: 561040--561328 Score: 452
Period size: 91 Copynumber: 3.2 Consensus size: 91
561030 CTTATTTCTA
* ** * * * *
561040 CTATGAGCAAATTATCTTTTAAATTCAATGATTGGTTTTGGGGTTCATACCAAATCATATCAGAT
1 CTATGAGCACATTATCTTCCAAATTCAATGATTGGTTCTGTGGTTCATACCAAACCAGATCAGAT
*
561105 AATTCAAAGAACACTTCCAGAAGATG
66 AACTCAAAGAACACTTCCAGAAGATG
*
561131 CTATGAGCACATTGTCTTCCAAATTCAATGATTGGTTCTGTGGTTCATACCAAACCAGATCAGAT
1 CTATGAGCACATTATCTTCCAAATTCAATGATTGGTTCTGTGGTTCATACCAAACCAGATCAGAT
561196 AACTCAAAGAACACTTCCAGAAGATG
66 AACTCAAAGAACACTTCCAGAAGATG
* * *
561222 CTATGAGCACATTCCTCTTCCAAATTCAATAACTGGTTCTGTGGTTCATACCAAACCAGATCAGA
1 CTATGAGCACATT-ATCTTCCAAATTCAATGATTGGTTCTGTGGTTCATACCAAACCAGATCAGA
561287 TAACTCAAAGAACACTTCCAGAAGATG
65 TAACTCAAAGAACACTTCCAGAAGATG
*
561314 CTATGGGCACATTAT
1 CTATGAGCACATTAT
561329 TTCTACTATG
Statistics
Matches: 183, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
91 96 0.52
92 87 0.48
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.29
Consensus pattern (91 bp):
CTATGAGCACATTATCTTCCAAATTCAATGATTGGTTCTGTGGTTCATACCAAACCAGATCAGAT
AACTCAAAGAACACTTCCAGAAGATG
Found at i:563603 original size:12 final size:12
Alignment explanation
Indices: 563587--563620 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
563577 CAATTTTCCC
563587 CTTTTTT-TTTT
1 CTTTTTTCTTTT
563598 CTTTTTTCTTTT
1 CTTTTTTCTTTT
*
563610 CTTCTTTCTTT
1 CTTTTTTCTTT
563621 GTTGGATGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 7 0.33
12 14 0.67
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (12 bp):
CTTTTTTCTTTT
Found at i:568260 original size:18 final size:17
Alignment explanation
Indices: 568212--568262 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
568202 AAATACTTGC
*
568212 AAATAAAATAAAACATAT
1 AAAT-AAATAAAAAATAT
*
568230 AAAT-ATTATAAAAATAAT
1 AAATAAATA-AAAAAT-AT
568248 AAATAAATAAAAAAT
1 AAATAAATAAAAAAT
568263 TTGACAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
16 3 0.11
17 5 0.19
18 16 0.59
19 3 0.11
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (17 bp):
AAATAAATAAAAAATAT
Found at i:570509 original size:3 final size:3
Alignment explanation
Indices: 570501--570628 Score: 132
Period size: 3 Copynumber: 41.7 Consensus size: 3
570491 TTATTTATTA
*
570501 AAT AAT AAT AAT ATAT AAT ATT AAT AAT AAT AAT AAAT AAT AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
* * * * * * *
570548 AAT TAT TAT TAT TAT TAT AAT AAT AAT ACT AAT AAT AAT ATTT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT
*
570594 AAT AAT AAT AAT AAT AA- ATTT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AA
570629 ATTTAAATGA
Statistics
Matches: 110, Mismatches: 10, Indels: 10
0.85 0.08 0.08
Matches are distributed among these distances:
2 1 0.01
3 100 0.91
4 9 0.08
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (3 bp):
AAT
Found at i:573290 original size:40 final size:40
Alignment explanation
Indices: 573237--573343 Score: 101
Period size: 40 Copynumber: 2.6 Consensus size: 40
573227 TATATTTCAT
* * * *
573237 ATTAATAATAATAATTAAACAT-ATTGGAAATAAACATAAAA
1 ATTAA-AACAATAATTAAA-ATAAATGAAAATAAAAATAAAA
* *
573278 ATTAAAACAATAACTAAAATAAATGAAAATAAAAATAATA
1 ATTAAAACAATAATTAAAATAAATGAAAATAAAAATAAAA
* *
573318 A-TAAAACTAGTAATTAAAATTAATGA
1 ATTAAAAC-AATAATTAAAATAAATGA
573344 CTAAATTAGA
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
39 8 0.15
40 42 0.76
41 5 0.09
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.27
Consensus pattern (40 bp):
ATTAAAACAATAATTAAAATAAATGAAAATAAAAATAAAA
Found at i:574703 original size:45 final size:46
Alignment explanation
Indices: 574618--574705 Score: 133
Period size: 45 Copynumber: 1.9 Consensus size: 46
574608 AAATAGCTTG
* *
574618 AGTGCATCAATGCATGGTCTTGTGCATCGATGCATCAAATGCACTA
1 AGTGCATCAATGCATGGTCATGTGCATCGATGCATAAAATGCACTA
* *
574664 AGTGCATCGATGCATGGT-ATGTGCATCGATTCATAAAATGCA
1 AGTGCATCAATGCATGGTCATGTGCATCGATGCATAAAATGCA
574706 TTCGATGTTC
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
45 21 0.55
46 17 0.45
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (46 bp):
AGTGCATCAATGCATGGTCATGTGCATCGATGCATAAAATGCACTA
Found at i:580731 original size:3 final size:3
Alignment explanation
Indices: 580725--580765 Score: 57
Period size: 3 Copynumber: 13.3 Consensus size: 3
580715 AATAATATTT
580725 TAA TAA TAA TAA TAA TAA TATA TAA TAA T-A TAAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA T-AA TAA TAA T
580766 CAAATGAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 2 0.06
3 28 0.80
4 5 0.14
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:581290 original size:113 final size:112
Alignment explanation
Indices: 581087--581548 Score: 541
Period size: 113 Copynumber: 4.0 Consensus size: 112
581077 TGTGATAGAA
* * *
581087 TCAAAC-AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTTCTCTTCAGATAAGTTCTT
1 TCAAACAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTT
*
581151 CTCATTACGAACTTTCTCTGGAAAAGTTGATCCATTGAGTAATGAAT
66 CTCATTATGAACTTTCTCTGGAAAAGTTGATCCATTGAGTAATGAAT
* *
581198 TCAAACAAAAGGTTAAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
1 TCAAACAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAGTTCT
*
581263 TCTCATTATGAACTTTCTTTGGAAAAGTTGATCCATTGAGTAATGAAT
65 TCTCATTATGAACTTTCTCTGGAAAAGTTGATCCATTGAGTAATGAAT
* * * *
581311 TCAAACAAAAGGTTAAACGAGTTCTTCTCATTATGAACTTCTTCTTCATTCTACAGATGAGTTCT
1 TCAAACAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTC-CTCTTCAGATAAGTTCT
* * * ** * *
581376 TCCCATTATGAACTTTCTCTGTTAAAGTTGATGTTGATCTATCTCCTTCTGTGAT-AGAG
65 TCTCATTATGAACTTTCTCTG-GAAA----A-GTTG----ATC-CATTGAGTAATGA-AT
** * * *
581435 TCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTTTT
1 TCAAACAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTT
* * * *
581500 CTCATTATGGACTTTCTCTGGAAAAGTTGATCTATTGAGTGATGGAT
66 CTCATTATGAACTTTCTCTGGAAAAGTTGATCCATTGAGTAATGAAT
581547 TC
1 TC
581549 GAATATTTGC
Statistics
Matches: 298, Mismatches: 37, Indels: 31
0.81 0.10 0.08
Matches are distributed among these distances:
111 6 0.02
112 47 0.16
113 143 0.48
114 3 0.01
117 4 0.01
118 2 0.01
119 4 0.01
122 3 0.01
123 36 0.12
124 50 0.17
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.39
Consensus pattern (112 bp):
TCAAACAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTT
CTCATTATGAACTTTCTCTGGAAAAGTTGATCCATTGAGTAATGAAT
Found at i:587978 original size:46 final size:46
Alignment explanation
Indices: 587918--588010 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
587908 TATTTTCTGC
587918 ATCATACTGTCTTGTGAATTTGCAATGTTGGATTCAATCTTTTCTA
1 ATCATACTGTCTTGTGAATTTGCAATGTTGGATTCAATCTTTTCTA
587964 ATCATACTGTCTTGTGAATTTGCAATGTTGGATTCAATCTTTTCTA
1 ATCATACTGTCTTGTGAATTTGCAATGTTGGATTCAATCTTTTCTA
588010 A
1 A
588011 CATCAATCTC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.45
Consensus pattern (46 bp):
ATCATACTGTCTTGTGAATTTGCAATGTTGGATTCAATCTTTTCTA
Found at i:593887 original size:3 final size:3
Alignment explanation
Indices: 593881--593927 Score: 60
Period size: 3 Copynumber: 15.3 Consensus size: 3
593871 AATAATATTT
*
593881 TAA TAA TAA TAA TAA TAA TAA TAA CATA TAA TAA T-A TAAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA T-AA TAA TAA
593927 T
1 T
593928 CAAATGAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 33 0.85
4 4 0.10
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:595310 original size:20 final size:20
Alignment explanation
Indices: 595282--595322 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
595272 AATTTCACGA
*
595282 GGAATAAAGGTATAAATCGT
1 GGAACAAAGGTATAAATCGT
595302 GGAACAAAGGTATAAATCGT
1 GGAACAAAGGTATAAATCGT
595322 G
1 G
595323 ATGTCATGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.44, C:0.07, G:0.27, T:0.22
Consensus pattern (20 bp):
GGAACAAAGGTATAAATCGT
Found at i:595598 original size:23 final size:21
Alignment explanation
Indices: 595568--595620 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
595558 TTTGGAGTTT
*
595568 TTTTTTAATTTAAGAAAAATTAA
1 TTTTTTAA-ATAA-AAAAATTAA
*
595591 TTTTTTAAATAAAAATATTAA
1 TTTTTTAAATAAAAAAATTAA
595612 TATTTTTAA
1 T-TTTTTAA
595621 GTTTTTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 9 0.33
22 10 0.37
23 8 0.30
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
TTTTTTAAATAAAAAAATTAA
Found at i:596102 original size:21 final size:21
Alignment explanation
Indices: 596060--596102 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
596050 AAAACAAAAA
* **
596060 AAAATTAACGTTTTTTTTAAT
1 AAAATTAACATTTTTTCAAAT
596081 AAAATTAACATTTTTTCAAAT
1 AAAATTAACATTTTTTCAAAT
596102 A
1 A
596103 CTAATATTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (21 bp):
AAAATTAACATTTTTTCAAAT
Found at i:598386 original size:46 final size:47
Alignment explanation
Indices: 598319--598411 Score: 129
Period size: 46 Copynumber: 2.0 Consensus size: 47
598309 CCTCAAAAAC
* *
598319 CCTAAAAATCCTAAAAGATAATTCTTAA-AACATTGC-AAAGATAATT
1 CCTAAAAATCCTAAAAGATAATTCCTAATAA-ATTACAAAAGATAATT
598365 CCTAAAAATCAC-AAAAGATAATTCCTAATAAATTACAAAAGATAATT
1 CCTAAAAATC-CTAAAAGATAATTCCTAATAAATTACAAAAGATAATT
598412 TTCATAATTG
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
46 29 0.69
47 13 0.31
ACGTcount: A:0.53, C:0.15, G:0.05, T:0.27
Consensus pattern (47 bp):
CCTAAAAATCCTAAAAGATAATTCCTAATAAATTACAAAAGATAATT
Found at i:598402 original size:24 final size:23
Alignment explanation
Indices: 598331--598411 Score: 110
Period size: 23 Copynumber: 3.5 Consensus size: 23
598321 TAAAAATCCT
* *
598331 AAAAGATAATTCTTAAAACATTGC
1 AAAAGATAATTCCTAAAA-ATTAC
*
598355 -AAAGATAATTCCTAAAAATCAC
1 AAAAGATAATTCCTAAAAATTAC
598377 AAAAGATAATTCCTAATAAATTAC
1 AAAAGATAATTCCTAA-AAATTAC
598401 AAAAGATAATT
1 AAAAGATAATT
598412 TTCATAATTG
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
22 3 0.06
23 31 0.61
24 17 0.33
ACGTcount: A:0.54, C:0.12, G:0.06, T:0.27
Consensus pattern (23 bp):
AAAAGATAATTCCTAAAAATTAC
Found at i:601328 original size:44 final size:45
Alignment explanation
Indices: 601273--601375 Score: 111
Period size: 45 Copynumber: 2.3 Consensus size: 45
601263 CACATTCAAT
* * * *
601273 GTGCGTCGATGCA-CTCTTTAAAGAAG-AAACATCGAATGCAATTG
1 GTGCATCGATGCATCCCCTTAAA-AAGAAAACATCGAAGGCAATTG
* * *
601317 GTGCATCGATGCATCCCCTTAAAATGAAAACATCGAAGGTAATTT
1 GTGCATCGATGCATCCCCTTAAAAAGAAAACATCGAAGGCAATTG
*
601362 GTGTATCGATGCAT
1 GTGCATCGATGCAT
601376 GGGTAGTGCA
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
44 14 0.29
45 35 0.71
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.27
Consensus pattern (45 bp):
GTGCATCGATGCATCCCCTTAAAAAGAAAACATCGAAGGCAATTG
Found at i:602249 original size:18 final size:18
Alignment explanation
Indices: 602226--602295 Score: 113
Period size: 18 Copynumber: 3.9 Consensus size: 18
602216 GAGGGTCTAC
*
602226 GTGGTCCTTCGGGACATA
1 GTGGTCCTTCGGGACACA
602244 GTGGTCCTTCGGGACACA
1 GTGGTCCTTCGGGACACA
*
602262 GTGGTCCTTTGGGACACA
1 GTGGTCCTTCGGGACACA
*
602280 GTGGTCCTACGGGACA
1 GTGGTCCTTCGGGACA
602296 AATTCTGCGC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 48 1.00
ACGTcount: A:0.17, C:0.24, G:0.34, T:0.24
Consensus pattern (18 bp):
GTGGTCCTTCGGGACACA
Found at i:614356 original size:64 final size:63
Alignment explanation
Indices: 614181--614356 Score: 169
Period size: 64 Copynumber: 2.8 Consensus size: 63
614171 CTGTAGCGAT
* * * * *
614181 CTGAAACCGACTTGCATCCGACTGATATGAACATGAACCCGAG-TTGGACCTAGAAATTGTGGA
1 CTGAAACCGACTTGCATCCGACTGATATGAACCTGAACCCGAGATTGAACCGAAAAAATGT-GA
* * * ** **
614244 TTCGAACCCGACTTGCATCCGACCTGAGAACAACCTGAACTTGA-ATTGAACCGAAAAAATGAT-
1 CT-GAAACCGACTTGCATCCGA-CTGATATGAACCTGAACCCGAGATTGAACCGAAAAAATG-TG
614307 A
63 A
*
614308 CCTGAAACCGACCTGCATCCGACTGATATGAACCTGAACCCGAGATTGA
1 -CTGAAACCGACTTGCATCCGACTGATATGAACCTGAACCCGAGATTGA
614357 CCTGGTAAAT
Statistics
Matches: 87, Mismatches: 20, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
63 17 0.20
64 41 0.47
65 28 0.32
66 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (63 bp):
CTGAAACCGACTTGCATCCGACTGATATGAACCTGAACCCGAGATTGAACCGAAAAAATGTGA
Found at i:614444 original size:16 final size:16
Alignment explanation
Indices: 614433--614475 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
614423 TGACCTGGTC
614433 TGATATTTACCTGACT
1 TGATATTTACCTGACT
*
614449 TGATATTTACCTTACT
1 TGATATTTACCTGACT
614465 T-ATATATTACC
1 TGATAT-TTACC
614476 ATGGACGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 4 0.16
16 21 0.84
ACGTcount: A:0.28, C:0.19, G:0.07, T:0.47
Consensus pattern (16 bp):
TGATATTTACCTGACT
Found at i:615021 original size:21 final size:21
Alignment explanation
Indices: 614971--615022 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
614961 GGATTTGTGA
* *
614971 TTTAGGATTTAATATTTAGTG
1 TTTAGGGTTTAATATTTAGGG
*
614992 TTTATGGTTTAA-AGTTTAGGG
1 TTTAGGGTTTAATA-TTTAGGG
615013 TTTAGGGTTT
1 TTTAGGGTTT
615023 CTATAAACTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 1 0.04
21 25 0.96
ACGTcount: A:0.23, C:0.00, G:0.25, T:0.52
Consensus pattern (21 bp):
TTTAGGGTTTAATATTTAGGG
Found at i:615117 original size:2 final size:2
Alignment explanation
Indices: 615106--615173 Score: 68
Period size: 2 Copynumber: 34.0 Consensus size: 2
615096 TTATATAGTT
* * *
615106 TA TA TT TA TA TA TA TA TG T- TA TA TA TA TA TA TA TA TG T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
615146 TA TA TA TA TA TA GTT TA TA TA TA CTA TA
1 TA TA TA TA TA TA -TA TA TA TA TA -TA TA
615174 CATGGTTTAT
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
1 2 0.04
2 51 0.91
3 3 0.05
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.53
Consensus pattern (2 bp):
TA
Found at i:615119 original size:17 final size:17
Alignment explanation
Indices: 615097--615173 Score: 93
Period size: 17 Copynumber: 4.2 Consensus size: 17
615087 TAATTTACTT
615097 TATATAGTTTATATTTATA
1 TATATAGTTTATA--TATA
615116 TATATATGTTATATATATA
1 TATATA-GTT-TATATATA
615135 TATATA-TGTTATATATA
1 TATATAGT-TTATATATA
615152 TATATAGTTTATATATA
1 TATATAGTTTATATATA
615169 CTATA
1 -TATA
615174 CATGGTTTAT
Statistics
Matches: 53, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
17 24 0.45
18 6 0.11
19 16 0.30
20 3 0.06
21 4 0.08
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.53
Consensus pattern (17 bp):
TATATAGTTTATATATA
Found at i:615121 original size:19 final size:19
Alignment explanation
Indices: 615097--615184 Score: 101
Period size: 19 Copynumber: 4.7 Consensus size: 19
615087 TAATTTACTT
*
615097 TATATAGTTTATATTTATA
1 TATATAGTTTATATATATA
615116 TATATA-TGTTATATATATA
1 TATATAGT-TTATATATATA
*
615135 TATATA-TGT-TATATATA
1 TATATAGTTTATATATATA
615152 TATATAGTTTATATATACTA
1 TATATAGTTTATATATA-TA
* *
615172 TACATGGTTTATA
1 TATATAGTTTATA
615185 CATACATATT
Statistics
Matches: 60, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
17 14 0.23
18 4 0.07
19 29 0.48
20 13 0.22
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (19 bp):
TATATAGTTTATATATATA
Found at i:615579 original size:28 final size:27
Alignment explanation
Indices: 615543--615609 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 27
615533 TCCATTTATA
615543 TTAAGGTTT-GTGATTTAGGGTGTAATAT
1 TTAAGGTTTAGT-ATTTAGGGTGTAA-AT
* *
615571 TTAATGTTTAGTATTTAGGGTTTAAATT
1 TTAAGGTTTAGTATTTAGGGTGTAAA-T
*
615599 TTAGGGTTTAG
1 TTAAGGTTTAG
615610 AGTTTCTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 1 0.03
28 30 0.91
29 2 0.06
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.49
Consensus pattern (27 bp):
TTAAGGTTTAGTATTTAGGGTGTAAAT
Found at i:615874 original size:489 final size:480
Alignment explanation
Indices: 615152--616132 Score: 1620
Period size: 489 Copynumber: 2.0 Consensus size: 480
615142 GTTATATATA
615152 TATATAGTTTATATATACTATACATGGTTTATACATACATATTATATAAAATTATCTAATAAAAT
1 TATATAGTTTATATATACTATACATGGTTTATACATACATATTATATAAAATTATCTAATAAAAT
*
615217 TAATAAAATTATTTAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTATG
66 TAATAAAATTATTTAAATGTAAATTATATAAAACACGATTAATTAGGTGTTAAATAATTAGTATG
*
615282 TCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCGTTTGCATAATT
131 TCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAATT
* * *
615347 AGTATTTTAGTTGCATGTTAAGTTAATTCACGTTAATAGCTCATTTATTTTGTTGTTATGAATAA
196 AGTATTTTAGTTGCATGTTAAGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAACAA
* **
615412 GTAATAATAAAACCTAAAAAATAAGTTCATTTACATTAGTGTTAGTCCATTTACATTAGTTTACA
261 GTAATAATAAAACC-AAAAAATAAGTCCATTTACATTAGTACTAGTCCATTTACATTAGTTTACA
* *
615477 TATGCCCAATACATAAGTCCACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCCATTTAT
325 TATGCCCAATACATAAGCCCACTCTTTTATTACAAATATATATGCATTAGTGCTAGCCCATTTAT
* *
615542 ATTAAGGTTTGTGATTTAGGGTGTAATATTTAATGTTTAGTATTTAGGGTTTAAATTTTAGGGTT
390 ATTAAGGTTTGTGATTTA-GG-G-----TTTAATGTTTAGTATTTAGGGTTTAAAGTTTAGGATT
*
615607 TAGAGTTTCTATAAACTATATAAGTAATTTATTT
448 TAGAGTTTCCATAAACTATATAAGTAA-TTATTT
* *
615641 TATATAGTTTATATATATTATACATGGTTTATACATACATATTATATAAAATTATTTAATAAAAT
1 TATATAGTTTATATATACTATACATGGTTTATACATACATATTATATAAAATTATCTAATAAAAT
615706 TAATAAAATTATTTAAATGTAAATTATATAAAACACGATTAATTAGGTGTTAAATAATTAGTATG
66 TAATAAAATTATTTAAATGTAAATTATATAAAACACGATTAATTAGGTGTTAAATAATTAGTATG
615771 TCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAATT
131 TCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAATT
**
615836 AGTATTTTAGTTGCATGTTTGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAACAA
196 AGTATTTTAGTTGCATGTTAAGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAACAA
* * *
615901 GTAATAATAAAACCCAAAAATAAGTCCATTTGCATTAGTACTAGTCCATTTTCATTAGTTTACAT
261 GTAATAATAAAACCAAAAAATAAGTCCATTTACATTAGTACTAGTCCATTTACATTAGTTTACAT
*
615966 ATGCTCAATACATAAGCCCACTCTTTTATTACAAATATATATGCATTAGTGCTAGCCCATTTATA
326 ATGCCCAATACATAAGCCCACTCTTTTATTACAAATATATATGCATTAGTGCTAGCCCATTTATA
* * * * *
616031 TTAGGGTTTGTGTTTTAGGGTTTAATGTTTAGTGTTTATGGTTTAAAGTTTAGGATTTAGGGTTT
391 TTAAGGTTTGTGATTTAGGGTTTAATGTTTAGTATTTAGGGTTTAAAGTTTAGGATTTAGAGTTT
* * *
616096 CCGTAAACTATATAATTTATTATTT
456 CCATAAACTATATAAGTAATTATTT
616121 TATATAGTTTAT
1 TATATAGTTTAT
616133 GCATAATTTT
Statistics
Matches: 463, Mismatches: 29, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
480 18 0.04
481 55 0.12
486 1 0.00
487 2 0.00
488 122 0.26
489 265 0.57
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.43
Consensus pattern (480 bp):
TATATAGTTTATATATACTATACATGGTTTATACATACATATTATATAAAATTATCTAATAAAAT
TAATAAAATTATTTAAATGTAAATTATATAAAACACGATTAATTAGGTGTTAAATAATTAGTATG
TCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAATT
AGTATTTTAGTTGCATGTTAAGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAACAA
GTAATAATAAAACCAAAAAATAAGTCCATTTACATTAGTACTAGTCCATTTACATTAGTTTACAT
ATGCCCAATACATAAGCCCACTCTTTTATTACAAATATATATGCATTAGTGCTAGCCCATTTATA
TTAAGGTTTGTGATTTAGGGTTTAATGTTTAGTATTTAGGGTTTAAAGTTTAGGATTTAGAGTTT
CCATAAACTATATAAGTAATTATTT
Found at i:616060 original size:21 final size:21
Alignment explanation
Indices: 616036--616095 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
616026 TTATATTAGG
*
616036 GTTT-GTGTTTTAGGGTTTAAT
1 GTTTAGTG-TTTAGGGTTTAAA
*
616057 GTTTAGTGTTTATGGTTTAAA
1 GTTTAGTGTTTAGGGTTTAAA
616078 GTTTAG-GATTTAGGGTTT
1 GTTTAGTG-TTTAGGGTTT
616096 CCGTAAACTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 1 0.03
21 30 0.88
22 3 0.09
ACGTcount: A:0.18, C:0.00, G:0.28, T:0.53
Consensus pattern (21 bp):
GTTTAGTGTTTAGGGTTTAAA
Found at i:616849 original size:2 final size:2
Alignment explanation
Indices: 616844--616898 Score: 56
Period size: 2 Copynumber: 26.0 Consensus size: 2
616834 TTATATAGTT
* * *
616844 TA TA TA TA TT TA GGA TA TA TA TA TA TA TA TA TA TA TA TA GTT TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
616888 TA TA TA CTA TA
1 TA TA TA -TA TA
616899 CATGGTTTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
2 40 0.91
3 4 0.09
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (2 bp):
TA
Found at i:617303 original size:7 final size:7
Alignment explanation
Indices: 617259--617317 Score: 73
Period size: 7 Copynumber: 8.4 Consensus size: 7
617249 AGGTTTGTGA
617259 TTTAGGG
1 TTTAGGG
**
617266 TTTAATG
1 TTTAGGG
*
617273 TTTAGTG
1 TTTAGGG
617280 TTTAGGG
1 TTTAGGG
**
617287 TTTAAAG
1 TTTAGGG
617294 TTTAGGG
1 TTTAGGG
617301 TTTAGGG
1 TTTAGGG
617308 TTTAGGG
1 TTTAGGG
617315 TTT
1 TTT
617318 CTATAAACTA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 44 1.00
ACGTcount: A:0.19, C:0.00, G:0.32, T:0.49
Consensus pattern (7 bp):
TTTAGGG
Found at i:617317 original size:21 final size:21
Alignment explanation
Indices: 617259--617311 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
617249 AGGTTTGTGA
* *
617259 TTTAGGGTTTAATGTTTAGTG
1 TTTAGGGTTTAAAGTTTAGGG
617280 TTTAGGGTTTAAAGTTTAGGG
1 TTTAGGGTTTAAAGTTTAGGG
617301 TTTAGGGTTTA
1 TTTAGGGTTTA
617312 GGGTTTCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (21 bp):
TTTAGGGTTTAAAGTTTAGGG
Found at i:617408 original size:2 final size:2
Alignment explanation
Indices: 617403--617448 Score: 60
Period size: 2 Copynumber: 24.0 Consensus size: 2
617393 ATATAGTTTT
**
617403 TA TA TA TA GG TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
617444 T- TA TA
1 TA TA TA
617449 CATGGTTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
1 2 0.05
2 36 0.95
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (2 bp):
TA
Found at i:617657 original size:23 final size:23
Alignment explanation
Indices: 617646--617690 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
617636 ATTTATAAAG
* *
617646 TATATAATTTATATAGTTATACA
1 TATATAATTTATATATTTATAAA
* *
617669 TATATAGTTTATATATCTATAA
1 TATATAATTTATATATTTATAA
617691 TTAAAAGTAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.49
Consensus pattern (23 bp):
TATATAATTTATATATTTATAAA
Done.