Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 293 of 328
Found at i:87468280 original size:88 final size:88
Alignment explanation
Indices: 87467986--87468292 Score: 376
Period size: 88 Copynumber: 3.5 Consensus size: 88
87467976 GATCCAAGAT
* * *
87467986 GATTTGGCATCTCT-GTATTGTCAGAGAGCAGATCGAAGATAGCAAATTTGGCATCTCTGTATTG
1 GATTTGGCGTCTCTAGTATTG-CAGAGAGCAGATTGAAGATAGCAGATTTGGCATCTCTGTATTG
* *
87468050 ACAGAGAGCAGATCAAAGATAGCA
65 TCAGAGAGCAGATCGAAGATAGCA
* * * *
87468074 GATTTGGCATCTCTA-TATTGTTAGAGAGCAGATAGAAGATAGCAGATTTGGCATCTTTGTATTG
1 GATTTGGCGTCTCTAGTATTG-CAGAGAGCAGATTGAAGATAGCAGATTTGGCATCTCTGTATTG
*
87468138 TCAGAGAGCAGATCGAAGGTAGCA
65 TCAGAGAGCAGATCGAAGATAGCA
87468162 GATTTGGCGTCTCT-GTATTGTCAGAGAGCAGATTGAAGATAGCAGATTTGGCATCTCTGTATTG
1 GATTTGGCGTCTCTAGTATTG-CAGAGAGCAGATTGAAGATAGCAGATTTGGCATCTCTGTATTG
* * *
87468226 TCA-AGGAGTAGATCGGAGATAACA
65 TCAGA-GAGCAGATCGAAGATAGCA
*
87468250 GATTTGGCGT-TCGTGAGT-TTGCA-AGAAGCAGGTTGAAGATAGC
1 GATTTGGCGTCTC-T-AGTATTGCAGAG-AGCAGATTGAAGATAGC
87468293 TAGTTTGACA
Statistics
Matches: 196, Mismatches: 16, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
87 5 0.03
88 186 0.95
89 3 0.02
90 2 0.01
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (88 bp):
GATTTGGCGTCTCTAGTATTGCAGAGAGCAGATTGAAGATAGCAGATTTGGCATCTCTGTATTGT
CAGAGAGCAGATCGAAGATAGCA
Found at i:87470659 original size:40 final size:40
Alignment explanation
Indices: 87470610--87470816 Score: 249
Period size: 40 Copynumber: 5.2 Consensus size: 40
87470600 TCTTCGGAAT
* * *
87470610 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * ** * *
87470649 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
*
87470689 TTAGCCCGGATATAA-CAACTCGCAC-AATGCCTTCGGGTC
1 TTAGCCCGGATATAATC-ACTAGCACAAATGCCTTCGGGTC
* *
87470728 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * *
87470768 TTAGCCCGGATATATTCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
87470808 TTAGCCCGG
1 TTAGCCCGG
87470817 GTATCATTCA
Statistics
Matches: 145, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 38 0.26
40 107 0.74
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
Found at i:87470736 original size:79 final size:78
Alignment explanation
Indices: 87470601--87470816 Score: 245
Period size: 79 Copynumber: 2.7 Consensus size: 78
87470591 AACCGAGCTT
* * * * * **
87470601 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CTTCGGGACTTAGCCCGGATATAA-CACTAGCACAA-TGCCTTCGGGTCTTAGCCCGGATATAAT
*
87470665 AACTTGCACAAATGC
64 AACTAGCACAAATGC
* * *
87470680 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAATGCCTTCGGGTCTTAGCCCGGATATAATC
1 CTTCGGGACTTAGCCCGGATATAAC-ACTAGCACAATGCCTTCGGGTCTTAGCCCGGATATAATA
*
87470745 ACTAGCATAAATGC
65 ACTAGCACAAATGC
* * *
87470759 CTTCGGGACTTAGCCCGGATATATTCACTAGCATAAATGCCTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGGATATA-ACACTAGCA-CAATGCCTTCGGGTCTTAGCCCGG
87470817 GTATCATTCA
Statistics
Matches: 116, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
79 75 0.65
80 41 0.35
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (78 bp):
CTTCGGGACTTAGCCCGGATATAACACTAGCACAATGCCTTCGGGTCTTAGCCCGGATATAATAA
CTAGCACAAATGC
Found at i:87477941 original size:40 final size:40
Alignment explanation
Indices: 87477892--87478098 Score: 249
Period size: 40 Copynumber: 5.2 Consensus size: 40
87477882 TCTTCGGAAT
* * *
87477892 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * ** * *
87477931 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* *
87477971 TTAGCCCGGATATAA-CAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAATC-ACTAGCACAAATGCCTTCGGGTC
* *
87478011 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* *
87478051 TTAGCCCGGATAT-ATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
87478090 TTAGCCCGG
1 TTAGCCCGG
87478099 GTATCATTCA
Statistics
Matches: 145, Mismatches: 20, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
39 38 0.26
40 106 0.73
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
Found at i:87480456 original size:23 final size:23
Alignment explanation
Indices: 87480429--87480539 Score: 71
Period size: 23 Copynumber: 4.6 Consensus size: 23
87480419 TTTCTTTGTA
87480429 TATTATTTTTTATATTATTTATT
1 TATTATTTTTTATATTATTTATT
* *
87480452 TATTATTATATATTATATTACTTACAT
1 TATTATT-T-T-TTATATTATTTA-TT
* * * *
87480479 T-TTAATATATATATTATTTATA
1 TATTATTTTTTATATTATTTATT
* * * *
87480501 TATTACTTATCATATTGTTTATAT
1 TATTATTTTTTATATTATTTAT-T
87480525 TATTATTTGTTTATA
1 TATTATTT-TTTATA
87480540 AATTTTATTA
Statistics
Matches: 63, Mismatches: 18, Indels: 12
0.68 0.19 0.13
Matches are distributed among these distances:
22 1 0.02
23 31 0.49
24 9 0.14
25 5 0.08
26 15 0.24
27 2 0.03
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (23 bp):
TATTATTTTTTATATTATTTATT
Found at i:87480522 original size:12 final size:11
Alignment explanation
Indices: 87480427--87480532 Score: 70
Period size: 12 Copynumber: 9.1 Consensus size: 11
87480417 TTTTTCTTTG
*
87480427 TATATTATTTTT
1 TATA-TATTATT
87480439 TATATTATTTATT
1 TATA-TA-TTATT
*
87480452 TAT-TATTATA
1 TATATATTATT
*
87480462 TATTATATTACT
1 TA-TATATTATT
* * *
87480474 TACATTTTAATA
1 TATATATT-ATT
87480486 TATATATTATT
1 TATATATTATT
*
87480497 TATATATTACT
1 TATATATTATT
*
87480508 TATCATATTGTT
1 TAT-ATATTATT
87480520 TATATTATTATT
1 TATA-TATTATT
87480532 T
1 T
87480533 GTTTATAAAT
Statistics
Matches: 73, Mismatches: 15, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
10 6 0.08
11 23 0.32
12 37 0.51
13 7 0.10
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (11 bp):
TATATATTATT
Found at i:87480558 original size:19 final size:20
Alignment explanation
Indices: 87480524--87480565 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
87480514 ATTGTTTATA
*
87480524 TTATTATTTGTTTATAAATT
1 TTATTATATGTTTATAAATT
*
87480544 TTATTATAT-TTTATATATT
1 TTATTATATGTTTATAAATT
87480563 TTA
1 TTA
87480566 CCATATATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (20 bp):
TTATTATATGTTTATAAATT
Found at i:87480571 original size:19 final size:19
Alignment explanation
Indices: 87480534--87480576 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
87480524 TTATTATTTG
**
87480534 TTTATAAATTTTATTATAT
1 TTTATAAATTTTACCATAT
*
87480553 TTTATATATTTTACCATAT
1 TTTATAAATTTTACCATAT
*
87480572 ATTAT
1 TTTAT
87480577 CTCTTACATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTATAAATTTTACCATAT
Found at i:87480838 original size:16 final size:16
Alignment explanation
Indices: 87480802--87480834 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
87480792 AAATATCTTT
*
87480802 TATTTTATTTGATTTA
1 TATTTTATATGATTTA
87480818 TATTTTATATG-TTTA
1 TATTTTATATGATTTA
87480833 TA
1 TA
87480835 ATTTGCTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (16 bp):
TATTTTATATGATTTA
Found at i:87482421 original size:54 final size:55
Alignment explanation
Indices: 87482339--87482447 Score: 166
Period size: 54 Copynumber: 2.0 Consensus size: 55
87482329 TAGTTGCCAA
* * * *
87482339 CTTGATGTTCATGTTAGCCATGGTTCAAA-CCTTGTTATGCCATGGAAGTGGTAT
1 CTTGATGTGCATGTTAGCCATGGCTCAAATCCTTGGTATGCCATGGAAATGGTAT
*
87482393 CTTGATGTGCATGTTAGCCATGGCTCAAATCTTTGGTATGCCATGGAAATGGTAT
1 CTTGATGTGCATGTTAGCCATGGCTCAAATCCTTGGTATGCCATGGAAATGGTAT
87482448 TTGGCCAAAG
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
54 27 0.55
55 22 0.45
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.36
Consensus pattern (55 bp):
CTTGATGTGCATGTTAGCCATGGCTCAAATCCTTGGTATGCCATGGAAATGGTAT
Found at i:87482629 original size:17 final size:18
Alignment explanation
Indices: 87482587--87482635 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
87482577 AGTTGAAAAG
87482587 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
87482606 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
87482623 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
87482636 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:87483524 original size:40 final size:40
Alignment explanation
Indices: 87483458--87483624 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
87483448 AAATTGAATG
* * *
87483458 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
87483497 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
87483537 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
87483577 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
87483617 ATATCCGG
1 ATATCCGG
87483625 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:87490616 original size:17 final size:18
Alignment explanation
Indices: 87490574--87490622 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
87490564 AGTTGAAAAG
87490574 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
87490593 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
87490610 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
87490623 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:87491511 original size:40 final size:39
Alignment explanation
Indices: 87491445--87491610 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 39
87491435 AAATTGAATG
* * *
87491445 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGG-TATT
* * **
87491484 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTATT
*
87491523 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-G-TATT
* * **
87491563 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGT-ATT
87491603 ATATCCGG
1 ATATCCGG
87491611 TTATATTCCG
Statistics
Matches: 103, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
38 3 0.03
39 42 0.41
40 56 0.54
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTATT
Found at i:87495947 original size:33 final size:30
Alignment explanation
Indices: 87495887--87495956 Score: 86
Period size: 33 Copynumber: 2.2 Consensus size: 30
87495877 AAGAATATAT
*
87495887 ATATATATATATATAAATAATAGTATTAGAA
1 ATATATATATATATAAATAATAATATTA-AA
* *
87495918 ATCATATAGTATATATAACTGATAATATTAAA
1 AT-ATATA-TATATATAAATAATAATATTAAA
87495950 ATATATA
1 ATATATA
87495957 CATAATATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 7 0.21
32 9 0.26
33 18 0.53
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.39
Consensus pattern (30 bp):
ATATATATATATATAAATAATAATATTAAA
Found at i:87496180 original size:3 final size:3
Alignment explanation
Indices: 87496172--87496210 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
87496162 ACAAGGATAT
87496172 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
87496211 TTGAAACACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:87496328 original size:3 final size:3
Alignment explanation
Indices: 87496314--87496365 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
87496304 AATGTATTTC
*
87496314 AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
87496362 AAT A
1 AAT A
87496366 TTGAAACACA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:87496449 original size:154 final size:155
Alignment explanation
Indices: 87496172--87496507 Score: 656
Period size: 154 Copynumber: 2.2 Consensus size: 155
87496162 ACAAGGATAT
87496172 ATAATAATAATAATAATAATAATAATAATAATAATAATATTGAAACACAAAAGCCATTATAATAA
1 ATAATAATAATAATAATAATAATAATAATAATAATAATATTGAAACACAAAAGCCATTATAATAA
*
87496237 AAATATTAAAATAAAGTAATAGAAACATTACTACATATATATGTATACATACATGAAGATATACA
66 AAATATTAAAATAAAGTAATAGAAACATTACTACATATATATATATACATACATGAAGATATACA
87496302 CTAATGTATTTCAATAACAATAATA
131 CTAATGTATTTCAATAACAATAATA
87496327 ATAATAATAATAATAATAATAATAATAATAATAATAATATTGAAACACAAAAGCCATTATAAT-A
1 ATAATAATAATAATAATAATAATAATAATAATAATAATATTGAAACACAAAAGCCATTATAATAA
87496391 AAATATTAAAATAAAGTAATAGAAACATTACTACATATATATATATACATACATGAAGATATACA
66 AAATATTAAAATAAAGTAATAGAAACATTACTACATATATATATATACATACATGAAGATATACA
87496456 CTAATGTATTTCAATAACAATAATA
131 CTAATGTATTTCAATAACAATAATA
87496481 ATAATAATAATAATAATAATAATAATA
1 ATAATAATAATAATAATAATAATAATA
87496508 TTGAAATGCA
Statistics
Matches: 180, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
154 117 0.65
155 63 0.35
ACGTcount: A:0.57, C:0.08, G:0.04, T:0.31
Consensus pattern (155 bp):
ATAATAATAATAATAATAATAATAATAATAATAATAATATTGAAACACAAAAGCCATTATAATAA
AAATATTAAAATAAAGTAATAGAAACATTACTACATATATATATATACATACATGAAGATATACA
CTAATGTATTTCAATAACAATAATA
Found at i:87496482 original size:3 final size:3
Alignment explanation
Indices: 87496468--87496507 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
87496458 AATGTATTTC
*
87496468 AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
87496508 TTGAAATGCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:87497542 original size:35 final size:35
Alignment explanation
Indices: 87497497--87497565 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
87497487 GAGTGTGTGA
*
87497497 TGGTGTTGGTGGCAGACAGCATGGGAGAATGGGAG
1 TGGTGCTGGTGGCAGACAGCATGGGAGAATGGGAG
*
87497532 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
1 TGGTGCTGGTGGCAGACAGCATGGGAGAATGGGA
87497566 AGAGGCAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.22, C:0.10, G:0.49, T:0.19
Consensus pattern (35 bp):
TGGTGCTGGTGGCAGACAGCATGGGAGAATGGGAG
Found at i:87499323 original size:41 final size:41
Alignment explanation
Indices: 87499265--87499412 Score: 185
Period size: 41 Copynumber: 3.6 Consensus size: 41
87499255 GAGCTTGGTC
87499265 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
1 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
* * *
87499306 TCGAAGGGCTTTAGAGCCAGTG-TCATAACCGGACTTAGTT
1 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
* * * * *
87499346 CCGAAGGGCCTTTGAGCCAGTGGTCTAAT--CCGAGCTTGGTC
1 TCGAAGGGCTTTTGAGCCAGT-G-CTAATAACCGAACTTAGTT
87499387 TCGAAGGGCTTTTGAGCCAGTGCTAA
1 TCGAAGGGCTTTTGAGCCAGTGCTAA
87499413 GAATCGGGCT
Statistics
Matches: 91, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
39 4 0.04
40 35 0.38
41 49 0.54
43 3 0.03
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (41 bp):
TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
Found at i:87501158 original size:60 final size:59
Alignment explanation
Indices: 87501031--87501169 Score: 156
Period size: 60 Copynumber: 2.3 Consensus size: 59
87501021 TTTAGTGTTA
* *
87501031 ACTGGGCCTTAGCCCATATCAATATTAATCTGGCCCATAGCCCCTTACAGTAACAGAGTAT
1 ACTGGGCC-TAGCCCATATCAATATCAATCTGGCCCATAGCCCATTACAGT-ACAGAGTAT
* * *
87501092 ACTGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAGT-C-GAGATAT
1 ACTGGGCCTAGCCCATATCAATATCAATCTGGCCCATAGCCC-ATTAC-AGTACAGAG-TAT
* *
87501152 ATTGGGCCTTGCCCATAT
1 ACTGGGCCTAGCCCATAT
87501170 TAACACAGTT
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
59 3 0.04
60 50 0.74
61 12 0.18
62 3 0.04
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (59 bp):
ACTGGGCCTAGCCCATATCAATATCAATCTGGCCCATAGCCCATTACAGTACAGAGTAT
Found at i:87501205 original size:19 final size:20
Alignment explanation
Indices: 87501162--87501217 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
87501152 ATTGGGCCTT
87501162 GCCCATATTAACACAGTTGG
1 GCCCATATTAACACAGTTGG
* *
87501182 GCCCATTTTAATACAGTT-G
1 GCCCATATTAACACAGTTGG
* *
87501201 GCCCATAATAAAACAGT
1 GCCCATATTAACACAGT
87501218 CTCATATGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:87501830 original size:8 final size:8
Alignment explanation
Indices: 87501816--87501855 Score: 62
Period size: 8 Copynumber: 5.0 Consensus size: 8
87501806 TCACAAATGC
87501816 CGGCTTTT
1 CGGCTTTT
*
87501824 TGGCTTTT
1 CGGCTTTT
87501832 CGGCTTTT
1 CGGCTTTT
*
87501840 TGGCTTTT
1 CGGCTTTT
87501848 CGGCTTTT
1 CGGCTTTT
87501856 GCCGATCTAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.00, C:0.20, G:0.25, T:0.55
Consensus pattern (8 bp):
CGGCTTTT
Found at i:87501837 original size:16 final size:16
Alignment explanation
Indices: 87501816--87501855 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
87501806 TCACAAATGC
87501816 CGGCTTTTTGGCTTTT
1 CGGCTTTTTGGCTTTT
87501832 CGGCTTTTTGGCTTTT
1 CGGCTTTTTGGCTTTT
87501848 CGGCTTTT
1 CGGCTTTT
87501856 GCCGATCTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.00, C:0.20, G:0.25, T:0.55
Consensus pattern (16 bp):
CGGCTTTTTGGCTTTT
Found at i:87505133 original size:18 final size:18
Alignment explanation
Indices: 87505106--87505141 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
87505096 CCAAAAGTGG
* *
87505106 AAATGGAAATGGAAATGA
1 AAATGAAAATAGAAATGA
87505124 AAATGAAAATAGAAATGA
1 AAATGAAAATAGAAATGA
87505142 TCCAATTGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.22, T:0.17
Consensus pattern (18 bp):
AAATGAAAATAGAAATGA
Found at i:87505321 original size:26 final size:26
Alignment explanation
Indices: 87505285--87505346 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 26
87505275 ACATATTTTC
* **
87505285 TCAAATTTTTACCTTGAGAAAAATCA
1 TCAAAATTTTACCAGGAGAAAAATCA
* * *
87505311 TCAAAATTTTACCAGGGGTAAAATCG
1 TCAAAATTTTACCAGGAGAAAAATCA
87505337 TCAAAATTTT
1 TCAAAATTTT
87505347 GTTGTGGATA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (26 bp):
TCAAAATTTTACCAGGAGAAAAATCA
Found at i:87517902 original size:32 final size:32
Alignment explanation
Indices: 87517866--87517930 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
87517856 TGTATGCATT
87517866 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
87517898 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
87517930 T
1 T
87517931 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:87527340 original size:19 final size:18
Alignment explanation
Indices: 87527301--87527432 Score: 76
Period size: 17 Copynumber: 7.1 Consensus size: 18
87527291 TCTAACCCTA
87527301 TATATTTATTTTTATTAT
1 TATATTTATTTTTATTAT
87527319 TATATTT-TTTTTA-TAT
1 TATATTTATTTTTATTAT
* * *
87527335 TGTTATTT-GTTTTATTTT
1 T-ATATTTATTTTTATTAT
*
87527353 TA-ACCTTATTTTTA-TAT
1 TATA-TTTATTTTTATTAT
*
87527370 TATATATTATATAATTATTTTAT
1 TATAT-TTAT-T--TT-TATTAT
*
87527393 TATATATTATTTATATTAT
1 TATAT-TTATTTTTATTAT
*
87527412 TATTATTTATTATATATTAT
1 TA-TATTTATT-TTTATTAT
87527432 T
1 T
87527433 TTCACAAATT
Statistics
Matches: 90, Mismatches: 11, Indels: 24
0.72 0.09 0.19
Matches are distributed among these distances:
16 5 0.06
17 22 0.24
18 20 0.22
19 13 0.14
20 13 0.14
21 2 0.02
22 2 0.02
23 13 0.14
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (18 bp):
TATATTTATTTTTATTAT
Found at i:87527372 original size:11 final size:11
Alignment explanation
Indices: 87527312--87527434 Score: 65
Period size: 11 Copynumber: 10.6 Consensus size: 11
87527302 ATATTTATTT
*
87527312 TTATTATTATA
1 TTATTTTTATA
*
87527323 TTTTTTTTATA
1 TTATTTTTATA
* * *
87527334 TTGTTATTTGTT
1 TTATT-TTTATA
87527346 TTATTTTTA-A
1 TTATTTTTATA
87527356 CCTTATTTTTATA
1 --TTATTTTTATA
87527369 TTATATATTATATAA
1 TTAT-T-TT-TAT-A
87527384 TTA-TTTTATTA
1 TTATTTTTA-TA
87527395 TATATTATTTATA
1 T-TATT-TTTATA
*
87527408 TTATTATTAT-
1 TTATTTTTATA
*
87527418 TTA-TTATATA
1 TTATTTTTATA
87527428 TTATTTT
1 TTATTTT
87527435 CACAAATTAT
Statistics
Matches: 86, Mismatches: 12, Indels: 28
0.68 0.10 0.22
Matches are distributed among these distances:
9 4 0.05
10 6 0.07
11 30 0.35
12 27 0.31
13 8 0.09
14 7 0.08
15 4 0.05
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (11 bp):
TTATTTTTATA
Found at i:87527403 original size:3 final size:3
Alignment explanation
Indices: 87527358--87527619 Score: 86
Period size: 3 Copynumber: 85.0 Consensus size: 3
87527348 ATTTTTAACC
* *
87527358 TTA TTT TTA -TA TTA TATA TTA -TA TAA TTA TT- TTA TTA TATA TTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
**
87527402 TT- TATA TTA TTA TTA TTTA TTA TATA TTA TT- TTCA CAAA TTA TTA
1 TTA T-TA TTA TTA TTA -TTA TTA T-TA TTA TTA TT-A -TTA TTA TTA
* * *
87527447 TTA TT- TTA -CA TAA TTA TTTA TATA TTA TTA TTA -TA TTT TTA CTT-
1 TTA TTA TTA TTA TTA TTA -TTA T-TA TTA TTA TTA TTA TTA TTA -TTA
* * * *
87527491 GTA TTA TATA TTA TATA TTA TTT TTT TTA CATA TATA CTT- TTA -TA
1 TTA TTA T-TA TTA T-TA TTA TTA TTA TTA -TTA T-TA -TTA TTA TTA
*
87527536 TTA TATA TTA TAA TTA TT- TTA TTA TATA TTA TTA TGTCA TT- TT- TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA T-TA TTA TTA T-T-A TTA TTA TTA
* * *
87527582 -TA TTA TTA TACA TTT TTA TCTA TATA TTA TTA TCA TTA
1 TTA TTA TTA T-TA TTA TTA T-TA T-TA TTA TTA TTA TTA
87527620 AAGGTTTTTA
Statistics
Matches: 196, Mismatches: 28, Indels: 70
0.67 0.10 0.24
Matches are distributed among these distances:
2 27 0.14
3 117 0.60
4 49 0.25
5 3 0.02
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:87527450 original size:19 final size:19
Alignment explanation
Indices: 87527420--87527464 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 19
87527410 ATTATTATTT
87527420 ATTATATATTATTTTCACA-A
1 ATTAT-TATTATTTT-ACATA
87527440 ATTATTATTATTTTACATA
1 ATTATTATTATTTTACATA
87527459 ATTATT
1 ATTATT
87527465 TATATATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.12
19 16 0.67
20 5 0.21
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.56
Consensus pattern (19 bp):
ATTATTATTATTTTACATA
Found at i:87527474 original size:30 final size:30
Alignment explanation
Indices: 87527364--87527514 Score: 121
Period size: 30 Copynumber: 4.8 Consensus size: 30
87527354 AACCTTATTT
87527364 TTATATTATATATTATATAATTATTTTATTATATA
1 TTAT-TTATATATTAT-T-ATTATTTTA-TATA-A
*
87527399 TTATTTATATTATTATTATT-TATTATAT-A
1 TTATTTATA-TATTATTATTATTTTATATAA
* * *
87527428 TTATTTTCACAAATTATTATTATTTTACATAA
1 TTA-TTT-ATATATTATTATTATTTTATATAA
*
87527460 TTATTTATATATTATTATTATATTT-T-TAC
1 TTATTTATATATTATTATTAT-TTTATATAA
*
87527489 TTGTATTATATATTATATATTATTTT
1 TTAT-TTATATATTAT-TATTATTTT
87527515 TTTTACATAT
Statistics
Matches: 98, Mismatches: 10, Indels: 21
0.76 0.08 0.16
Matches are distributed among these distances:
29 9 0.09
30 39 0.40
31 23 0.23
32 8 0.08
33 3 0.03
34 6 0.06
35 10 0.10
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.62
Consensus pattern (30 bp):
TTATTTATATATTATTATTATTTTATATAA
Found at i:87527546 original size:102 final size:101
Alignment explanation
Indices: 87527358--87527619 Score: 230
Period size: 102 Copynumber: 2.5 Consensus size: 101
87527348 ATTTTTAACC
* * *
87527358 TTATTTTTATATTATATATTATATAATTATTTTATTATATATTATTTATATTATTATTATTTATT
1 TTATTTATATATTATATATTATATAATTATTGTATTATATATTA-TTATATTATTATTATTTAAT
*
87527423 ATATATTATTTTCACAAATTATTATTATTTTACATAA
65 ATATATTATTTTCACAAATTATAATTATTTTACATAA
** *
87527460 TTATTTATATATTAT-TATTATATTTTTACTTGTATTATATATTA-TATATTATT-TTTTTTACA
1 TTATTTATATATTATATATTATATAATTA-TTGTATTATATATTATTATATTATTATTATTTA-A
* * * *
87527522 TATATACTT-TTATATTATATATTATAATTATTTTATTATATA
64 TATATA-TTATT-T-TCACAAATTATAATTATTTTA-CATA-A
* * *
87527564 TTATTATGTCATTTTTTATATTATTATACATT-TT-TATCTATATATTATTATCATTA
1 TTATT-TAT-ATATTATATATTA-TATA-ATTATTGTAT-TATATATTATTAT-ATTA
87527620 AAGGTTTTTA
Statistics
Matches: 129, Mismatches: 16, Indels: 23
0.77 0.10 0.14
Matches are distributed among these distances:
99 6 0.05
100 17 0.13
101 14 0.11
102 45 0.35
103 3 0.02
104 6 0.05
105 2 0.02
106 8 0.06
107 16 0.12
108 6 0.05
109 6 0.05
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (101 bp):
TTATTTATATATTATATATTATATAATTATTGTATTATATATTATTATATTATTATTATTTAATA
TATATTATTTTCACAAATTATAATTATTTTACATAA
Found at i:87527556 original size:37 final size:35
Alignment explanation
Indices: 87527440--87527594 Score: 119
Period size: 35 Copynumber: 4.5 Consensus size: 35
87527430 ATTTTCACAA
87527440 ATTATTATTATTTTACATA-ATTATTTATATATTAT-T
1 ATTA-TATTATTTTACATATA-TATTT-TATATTATAT
* *
87527476 ATTATA-T-TTTTAC-T-TGTATTATATATTATAT
1 ATTATATTATTTTACATATATATTTTATATTATAT
*
87527507 ATTAT-TTTTTTTACATATATACTTTTATATTATAT
1 ATTATATTATTTTACATATATA-TTTTATATTATAT
* * * *
87527542 ATTATAATTATTTTA-TTATATATTATTATGTCATTT
1 ATTAT-ATTATTTTACATATATATT-TTATATTATAT
* *
87527578 TTTATATTATTATACAT
1 ATTATATTATTTTACAT
87527595 TTTTATCTAT
Statistics
Matches: 96, Mismatches: 12, Indels: 22
0.74 0.09 0.17
Matches are distributed among these distances:
30 8 0.08
31 11 0.11
32 7 0.07
33 7 0.07
34 4 0.04
35 29 0.30
36 23 0.24
37 7 0.07
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (35 bp):
ATTATATTATTTTACATATATATTTTATATTATAT
Found at i:87527558 original size:80 final size:81
Alignment explanation
Indices: 87527362--87527587 Score: 207
Period size: 83 Copynumber: 2.8 Consensus size: 81
87527352 TTAACCTTAT
* *
87527362 TTTTATATTATATATTATATAATTATTTTATTATA-TATTATTTATATTATTATTATTTATTATA
1 TTTTATATTATATA-T-TATAATTATTTTATTATATTATTACTTATATTATTATTATATATTATA
87527426 TATTATTTTCACAAATTA
64 TATTATTTTCACAAATTA
* * * * *
87527444 TTATTATTTTACATAATTATTTATATATTATTATTATATTTTTACTTGTATTATATATTATATAT
1 TT-TTATATTATAT-ATTA-TAAT-TATT-TTATTATATTATTACTTATATTAT-TATTATATAT
*
87527509 TAT-T-TT-TTTT-ACATATATA
60 TATATATTATTTTCACAAAT-TA
* * *
87527528 CTTTTATATTATATATTATAATTATTTTATTATA-TATTA-TTATGTCATT-TTTTATATTAT
1 -TTTTATATTATATATTATAATTATTTTATTATATTATTACTTATATTATTATTATATATTAT
87527588 TATACATTTT
Statistics
Matches: 119, Mismatches: 16, Indels: 24
0.75 0.10 0.15
Matches are distributed among these distances:
76 10 0.08
77 1 0.01
78 6 0.05
79 4 0.03
80 8 0.07
81 4 0.03
82 7 0.06
83 22 0.18
84 20 0.17
85 12 0.10
86 13 0.11
87 12 0.10
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (81 bp):
TTTTATATTATATATTATAATTATTTTATTATATTATTACTTATATTATTATTATATATTATATA
TTATTTTCACAAATTA
Found at i:87527579 original size:24 final size:22
Alignment explanation
Indices: 87527367--87527618 Score: 113
Period size: 21 Copynumber: 12.0 Consensus size: 22
87527357 CTTATTTTTA
87527367 TATTATATATTATATAATT-ATTT
1 TATTATATATTAT-T-ATTCATTT
87527390 TATTATATATTATT-TAT-ATTAT
1 TATTATATATTATTAT-TCATT-T
*
87527412 TATTATTTATTATATATT-ATTT
1 TATTATATATTAT-TATTCATTT
*
87527434 TCA-CA-A-ATTATTATT-ATTT
1 T-ATTATATATTATTATTCATTT
*
87527453 TA-CATA-ATTATTTATAT-ATTAT
1 TATTATATATTA-TTAT-TCATT-T
*
87527475 TATTATAT-TT-TTA--C-TTG
1 TATTATATATTATTATTCATTT
87527492 TATTATATATTATATATT-ATTT
1 TATTATATATTAT-TATTCATTT
* * * *
87527514 T-TTTTACA-TA-TATACTTTT
1 TATTATATATTATTATTCATTT
*
87527533 ATATTATATATTATAATT-ATTT
1 -TATTATATATTATTATTCATTT
87527555 TATTATATATTATTATGTCA-TT
1 TATTATATATTATTAT-TCATTT
*
87527577 T-TT-TATATTATTATACATTTT
1 TATTATATATTATTATTCA-TTT
87527598 TATCTATATATTATTA-TCATT
1 TAT-TATATATTATTATTCATT
87527619 AAAGGTTTTT
Statistics
Matches: 181, Mismatches: 18, Indels: 61
0.70 0.07 0.23
Matches are distributed among these distances:
17 8 0.04
18 10 0.06
19 20 0.11
20 26 0.14
21 41 0.23
22 35 0.19
23 30 0.17
24 11 0.06
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (22 bp):
TATTATATATTATTATTCATTT
Found at i:87527598 original size:20 final size:22
Alignment explanation
Indices: 87527551--87527611 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 22
87527541 TATTATAATT
* *
87527551 ATTTTATTATATATTATTATGTC
1 ATTTTA-TCTATATTATTATGAC
87527574 ATTTT-T-TATATTATTAT-AC
1 ATTTTATCTATATTATTATGAC
87527593 ATTTTTATCTATA-TATTAT
1 A-TTTTATCTATATTATTAT
87527612 TATCATTAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
19 2 0.06
20 15 0.44
21 8 0.24
22 4 0.12
23 5 0.15
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (22 bp):
ATTTTATCTATATTATTATGAC
Found at i:87527606 original size:63 final size:62
Alignment explanation
Indices: 87527367--87527608 Score: 143
Period size: 65 Copynumber: 3.8 Consensus size: 62
87527357 CTTATTTTTA
*
87527367 TATTATATATTATATAATTATTTTATTAT--ATAT-TA--TTTATATTAT-TAT-TATTTATTAT
1 TATTATATATTATAT-ATTATTTT-TTATACATATATACTTTTATATTATATATATAATTATT-T
* * * **
87527425 ATATTAT-T-TTCACAAATTATTATTATTTTACATA-ATTA-TTTATATATTATTATTATATTTT
1 -TATTATATATT-ATATATTATT-TT-TTATACATATA-TACTTT-TATATTA-TA-TATATAAT
*
87527486 TACTTG
58 TA-TTT
*
87527492 TATTATATATTATATATTATTTTTTTTACATATATACTTTTATATTATATATTATAATTATTT
1 TATTATATATTATATATTATTTTTTATACATATATACTTTTATATTATATA-TATAATTATTT
*
87527555 TATTATATATTAT-TATGTCATTTTTTATA-TTATTATACATTTT-TATCTATATAT
1 TATTATATATTATATAT-T-ATTTTTTATACATA-TATAC-TTTTATAT-TATATAT
87527609 TATTATCATT
Statistics
Matches: 148, Mismatches: 12, Indels: 41
0.74 0.06 0.20
Matches are distributed among these distances:
57 8 0.05
58 9 0.06
59 6 0.04
60 3 0.02
61 2 0.01
62 5 0.03
63 27 0.18
64 27 0.18
65 28 0.19
66 15 0.10
67 14 0.09
68 4 0.03
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (62 bp):
TATTATATATTATATATTATTTTTTATACATATATACTTTTATATTATATATATAATTATTT
Found at i:87527798 original size:23 final size:21
Alignment explanation
Indices: 87527749--87527800 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 21
87527739 ATCATTAATT
*
87527749 ACTTATTTTATATTATTCTAA
1 ACTTATTTTATATTATTATAA
87527770 ACTTATATTTATATATATTATATA
1 ACTTAT-TTTATAT-TATTATA-A
87527794 A-TTATTT
1 ACTTATTT
87527801 CATTATAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 6 0.22
22 9 0.33
23 10 0.37
24 2 0.07
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.58
Consensus pattern (21 bp):
ACTTATTTTATATTATTATAA
Found at i:87527881 original size:17 final size:17
Alignment explanation
Indices: 87527861--87527926 Score: 66
Period size: 17 Copynumber: 3.9 Consensus size: 17
87527851 TTCTAAACCA
*
87527861 ATATATTTTATATTTTT
1 ATATATATTATATTTTT
*
87527878 ATATA-ATTATTATTCTT
1 ATATATATTA-TATTTTT
*
87527895 ATAAATA-TAT-TTTTT
1 ATATATATTATATTTTT
87527910 ATTATATATTATATTTT
1 A-TATATATTATATTTT
87527927 AAATTTATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
15 5 0.13
16 9 0.23
17 20 0.51
18 5 0.13
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (17 bp):
ATATATATTATATTTTT
Found at i:87535299 original size:45 final size:45
Alignment explanation
Indices: 87535184--87535739 Score: 401
Period size: 45 Copynumber: 12.9 Consensus size: 45
87535174 TGAAAATAGT
* * * * ** *
87535184 AGATCTTATTTCTCTGTATTCGACAGGGAACAGATAAAAAAT-AGC
1 AGATCTTATCTCTCTGTAATCGACGGGGAGCAGATCCAAGATGA-C
*
87535229 AGATCTTATCTCTCTGTAATAGACGGGGAGCAGATCCAAGATGAC
1 AGATCTTATCTCTCTGTAATCGACGGGGAGCAGATCCAAGATGAC
* * * *
87535274 AGATCTTATCTCTCTGTATTCGACGGAGAGTAGATCAAAGACAT-AGC
1 AGATCTTATCTCTCTGTAATCGACGGGGAGCAGATCCAAG--ATGA-C
* *
87535321 AGATCTGA---C-CT-TCATCGA----G-GCAGATCCAAGATGAC
1 AGATCTTATCTCTCTGTAATCGACGGGGAGCAGATCCAAGATGAC
* *
87535356 AGATCTTATCTCTCTGTATTCGACGGGGAGCAGATCAAAGACAT-AGC
1 AGATCTTATCTCTCTGTAATCGACGGGGAGCAGATCCAAG--ATGA-C
* * *
87535403 AGATCTGA---C-CT-TCAT---C-GGG-GTAGATCCAAGATGAC
1 AGATCTTATCTCTCTGTAATCGACGGGGAGCAGATCCAAGATGAC
* *
87535438 AGATCTTATCTCTCTGTATTCGACGGGGAGCAGATCAAAGACAT-AGC
1 AGATCTTATCTCTCTGTAATCGACGGGGAGCAGATCCAAG--ATGA-C
* * *
87535485 AGATCTGA---C-CT-TCAT---C-GGG-GCAGATCCAAGATGGC
1 AGATCTTATCTCTCTGTAATCGACGGGGAGCAGATCCAAGATGAC
* * * *
87535520 GGATCTTATCTCTCTATAATGGACGGGG-GCAGATCCAAGATGAT
1 AGATCTTATCTCTCTGTAATCGACGGGGAGCAGATCCAAGATGAC
* *
87535564 AGATCTTATCTCTCTGTAATGGACGGGGAGTAGATCCAAGATGAC
1 AGATCTTATCTCTCTGTAATCGACGGGGAGCAGATCCAAGATGAC
** * *
87535609 AGATCTTATCTCTCCATAATGGACGGGGAGTAGATCCAAGATGAC
1 AGATCTTATCTCTCTGTAATCGACGGGGAGCAGATCCAAGATGAC
* * *
87535654 AGATCTTATCTCTCTGTAATGGA-GAGGGAGTATATCCAAGATGAC
1 AGATCTTATCTCTCTGTAATCGACG-GGGAGCAGATCCAAGATGAC
* * *
87535699 AGATCTTATCTCTCTGTATTCGACAGGGAGCAGATCGAAGA
1 AGATCTTATCTCTCTGTAATCGACGGGGAGCAGATCCAAGA
87535740 CGTAGCAGAT
Statistics
Matches: 409, Mismatches: 57, Indels: 90
0.74 0.10 0.16
Matches are distributed among these distances:
35 29 0.07
36 2 0.00
37 28 0.07
38 10 0.02
39 8 0.02
40 10 0.02
42 9 0.02
43 8 0.02
44 51 0.12
45 220 0.54
46 4 0.01
47 30 0.07
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (45 bp):
AGATCTTATCTCTCTGTAATCGACGGGGAGCAGATCCAAGATGAC
Found at i:87535395 original size:82 final size:82
Alignment explanation
Indices: 87535258--87535817 Score: 523
Period size: 82 Copynumber: 6.7 Consensus size: 82
87535248 TAGACGGGGA
* *
87535258 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGAGAGTAGATCAAAGACATAGCAG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGCAGATCAAAGACATAGCAG
87535323 ATCTGACCTTCATCGAG
66 ATCTGACCTTCATCGAG
87535340 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGCAGATCAAAGACATAGCAG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGCAGATCAAAGACATAGCAG
*
87535405 ATCTGACCTTCATCGGG
66 ATCTGACCTTCATCGAG
*
87535422 GTAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGCAGATCAAAGACATAGCAG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGCAGATCAAAGACATAGCAG
*
87535487 ATCTGACCTTCATCGGG
66 ATCTGACCTTCATCGAG
* * * * * * *
87535504 GCAGATCCAAGATGGCGGATCTTATCTCTCTATAATGGACGGGG-GCAGATCCAAGATGATAGAT
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGCAGATCAAAGA-CATAG--
** * *
87535568 CTTATCT--CTCTGTAATGGACGGGG
63 CAGATCTGAC-CT-TCAT---C-GAG
* ** * * * *
87535592 AGTAGATCCAAGATGACAGATCTTATCTCTCCATAATGGACGGGGAGTAGATCCAAG--AT-GAC
1 -GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGCAGATCAAAGACATAG-C
* * *
87535654 AGATCTTATCTCTCTGTAATGGAGAG
64 AGATCTGA---C-CT-TCAT--CGAG
* * * *
87535680 GGAGTATATCCAAGATGACAGATCTTATCTCTCTGTATTCGACAGGGAGCAGATCGAAGACGTAG
1 GCAG---ATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGCAGATCAAAGACATAG
*
87535745 CAGATTTGACCTTCA-CTGAG
63 CAGATCTGACCTTCATC-GAG
** *
87535765 GCAGATCCAAGAT----GAT-TTGGCATCTCTGTATTCGACGGGGAGCAGATCGAAGA
1 GCAGATCCAAGATGACAGATCTTATC-TCTCTGTATTCGACGGGGAGCAGATCAAAGA
87535818 ATTCAAGACT
Statistics
Matches: 411, Mismatches: 43, Indels: 52
0.81 0.08 0.10
Matches are distributed among these distances:
77 3 0.01
78 33 0.08
81 11 0.03
82 212 0.52
83 2 0.00
84 8 0.02
85 11 0.03
86 1 0.00
87 8 0.02
88 7 0.02
89 42 0.10
90 64 0.16
92 8 0.02
93 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (82 bp):
GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGCAGATCAAAGACATAGCAG
ATCTGACCTTCATCGAG
Found at i:87537322 original size:18 final size:18
Alignment explanation
Indices: 87537241--87537505 Score: 85
Period size: 17 Copynumber: 14.6 Consensus size: 18
87537231 AAACTAACCC
87537241 TATATATTTATTTTTATTAT
1 TATATA-TTATTTTTA-TAT
87537261 TATATATT-TTTTTATAT
1 TATATATTATTTTTATAT
*
87537278 TGT-TATT-TGTTTTAT-T
1 TATATATTAT-TTTTATAT
*
87537294 TTTA-ACCTTATTTTTATAT
1 TATATA--TTATTTTTATAT
* *
87537313 TCTATATTA--TATA-AT
1 TATATATTATTTTTATAT
*
87537328 TAT-T-TTA-TTATATAT
1 TATATATTATTTTTATAT
*
87537343 TATTTATATTATTATT-TAT
1 TA--TATATTATTTTTATAT
* *
87537362 TATATATTATTTTCACAAAT
1 TATATATTATTTT--TATAT
* *
87537382 TATTATTTTACATTATTAT-T
1 TA-TATATT--ATTTTTATAT
*
87537402 TATATATTATTATTATAT
1 TATATATTATTTTTATAT
* * * *
87537420 T-TTTAGTTGTATTATAAAT
1 TATATA-TTAT-TTTTATAT
87537439 TATATATTATTTTT-T-T
1 TATATATTATTTTTATAT
* * *
87537455 TACATATATACTTTTCTAT
1 TATATAT-TATTTTTATAT
*
87537474 TATATATTATAATTATTTTAT
1 TATATATTAT--TT-TTATAT
87537495 TATATATTATT
1 TATATATTATT
87537506 ATGTCATTTT
Statistics
Matches: 186, Mismatches: 29, Indels: 61
0.67 0.11 0.22
Matches are distributed among these distances:
13 3 0.02
14 5 0.03
15 8 0.04
16 19 0.10
17 39 0.21
18 29 0.16
19 37 0.20
20 21 0.11
21 21 0.11
23 4 0.02
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (18 bp):
TATATATTATTTTTATAT
Found at i:87537329 original size:8 final size:7
Alignment explanation
Indices: 87537308--87537504 Score: 88
Period size: 7 Copynumber: 28.1 Consensus size: 7
87537298 ACCTTATTTT
*
87537308 TATATTC
1 TATATTA
87537315 TATATTA
1 TATATTA
87537322 TATAATTA
1 TAT-ATTA
*
87537330 TTTTATTA
1 -TATATTA
87537338 TATATTA
1 TATATTA
*
87537345 TTTA-TA
1 TATATTA
87537351 T-TATTA
1 TATATTA
*
87537357 TTTATTA
1 TATATTA
87537364 TATATTA
1 TATATTA
87537371 T-T-TTCA
1 TATATT-A
* *
87537377 CAAATTA
1 TATATTA
*
87537384 T-TATTT
1 TATATTA
*
87537390 TACATTA
1 TATATTA
87537397 T-TATTTA
1 TATA-TTA
87537404 TATATTA
1 TATATTA
87537411 T-TATTA
1 TATATTA
*
87537417 TATTTTTA
1 TA-TATTA
*
87537425 GTTGTATTA
1 --TATATTA
*
87537434 TAAATTA
1 TATATTA
87537441 TATATTA
1 TATATTA
* * *
87537448 TTTTTTT
1 TATATTA
*
87537455 TACA-TA
1 TATATTA
*
87537461 TATACTTT
1 TATA-TTA
*
87537469 TCTATTA
1 TATATTA
87537476 TATATTA
1 TATATTA
87537483 TA-ATTA
1 TATATTA
*
87537489 TTTTATTA
1 -TATATTA
87537497 TATATTA
1 TATATTA
87537504 T
1 T
87537505 TATGTCATTT
Statistics
Matches: 139, Mismatches: 33, Indels: 36
0.67 0.16 0.17
Matches are distributed among these distances:
5 4 0.03
6 27 0.19
7 77 0.55
8 24 0.17
9 6 0.04
10 1 0.01
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.61
Consensus pattern (7 bp):
TATATTA
Found at i:87537346 original size:3 final size:3
Alignment explanation
Indices: 87537317--87537527 Score: 59
Period size: 3 Copynumber: 68.0 Consensus size: 3
87537307 TTATATTCTA
*
87537317 TAT TA- TAT AAT TAT T-T TAT TAT ATAT TAT T-T ATAT TAT TATT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT -TAT TAT TA-T TAT
* * *
87537362 TAT ATAT TAT T-T TCACA AAT TAT TAT T-T TA- CAT TAT TATT TAT ATAT
1 TAT -TAT TAT TAT T-A-T TAT TAT TAT TAT TAT TAT TAT TA-T TAT -TAT
* * * * *
87537409 TAT TAT TA- TAT TTT TAGT T-G TAT TAT AAAT TAT ATAT TAT TTT TTT
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT -TAT TAT -TAT TAT TAT TAT
* * *
87537455 TACA TAT ATACT TTT CTAT TAT ATAT TAT AAT TAT T-T TAT TAT ATAT
1 TA-T TAT -TA-T TAT -TAT TAT -TAT TAT TAT TAT TAT TAT TAT -TAT
87537502 TAT TAT GTCAT T-T T-T TA- TAT TAT TAT
1 TAT TAT -T-AT TAT TAT TAT TAT TAT TAT
87537528 ACGTTTTTAT
Statistics
Matches: 156, Mismatches: 22, Indels: 60
0.66 0.09 0.25
Matches are distributed among these distances:
2 21 0.13
3 93 0.60
4 39 0.25
5 3 0.02
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:87537346 original size:26 final size:25
Alignment explanation
Indices: 87537317--87537372 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 25
87537307 TTATATTCTA
87537317 TATTATATAATTATTTTATTATATAT
1 TATTATATAATTA-TTTATTATATAT
*
87537343 TATTTATATTATTATTTATTATATAT
1 TA-TTATATAATTATTTATTATATAT
87537369 TATT
1 TATT
87537373 TTCACAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 2 0.07
26 16 0.57
27 10 0.36
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (25 bp):
TATTATATAATTATTTATTATATAT
Found at i:87537354 original size:19 final size:18
Alignment explanation
Indices: 87537317--87537528 Score: 79
Period size: 17 Copynumber: 12.4 Consensus size: 18
87537307 TTATATTCTA
*
87537317 TATTATATA--ATTATTT
1 TATTATATATTATTATAT
87537333 TATTATATATTATTTATAT
1 TATTATATATTA-TTATAT
*
87537352 TATTATTTATTA-TATAT
1 TATTATATATTATTATAT
** *
87537369 TATT-T-TCACAAAT-TAT
1 TATTATAT-ATTATTATAT
* *
87537385 TATTTTACATTATTAT-T
1 TATTATATATTATTATAT
87537402 TA-TATATTATTATTATAT
1 TATTATA-TATTATTATAT
87537420 T-TT-TAGT-TGTATTATA-
1 TATTATA-TAT-TATTATAT
*
87537436 AATTATATATTATT-T-T
1 TATTATATATTATTATAT
* *
87537452 TTTTACATATATACTT-T-T
1 TATTATATAT-TA-TTATAT
87537470 CTATTATATATTA-TA-AT
1 -TATTATATATTATTATAT
87537487 TATT-T-TATTA-TATAT
1 TATTATATATTATTATAT
* *
87537502 TATTATGTCATTTTTTATAT
1 TATTATAT-A-TTATTATAT
87537522 TATTATA
1 TATTATA
87537529 CGTTTTTATC
Statistics
Matches: 150, Mismatches: 19, Indels: 50
0.68 0.09 0.23
Matches are distributed among these distances:
14 7 0.05
15 8 0.05
16 37 0.25
17 46 0.31
18 15 0.10
19 26 0.17
20 11 0.07
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.61
Consensus pattern (18 bp):
TATTATATATTATTATAT
Found at i:87537366 original size:42 final size:41
Alignment explanation
Indices: 87537320--87537505 Score: 124
Period size: 37 Copynumber: 4.7 Consensus size: 41
87537310 TATTCTATAT
87537320 TATATAATTATTTTATTATATATTATTTATATTATTATTTA
1 TATATAATTATTTTATTATATATTATTTATATTATTATTTA
* * *
87537361 T-TATATATTATTTTCA-CAAATTATTATTTTACATTATTATTTA
1 TATATA-ATTATTTT-ATTATA-TATTA-TTTATATTATTATTTA
* * * * * *
87537404 TATATTATTA--TTA-TAT-TTTTAGTTGTATTATAAATTA
1 TATATAATTATTTTATTATATATTATTTATATTATTATTTA
* * * *
87537441 TATATTATT-TTTT-TTACATATATACTTT-T-CTATTATATA
1 TATATAATTATTTTATTATATAT-TA-TTTATATTATTATTTA
87537480 T-TATAATTATTTTATTATATATTATT
1 TATATAATTATTTTATTATATATTATT
87537506 ATGTCATTTT
Statistics
Matches: 111, Mismatches: 21, Indels: 29
0.69 0.13 0.18
Matches are distributed among these distances:
37 20 0.18
38 16 0.14
39 15 0.14
40 16 0.14
41 15 0.14
42 6 0.05
43 20 0.18
44 3 0.03
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.61
Consensus pattern (41 bp):
TATATAATTATTTTATTATATATTATTTATATTATTATTTA
Found at i:87537516 original size:24 final size:22
Alignment explanation
Indices: 87537329--87537555 Score: 84
Period size: 21 Copynumber: 10.1 Consensus size: 22
87537319 TTATATAATT
*
87537329 ATTTTATTATATATTATTTATATT
1 ATTTTATTATATATTA-TTAT-TC
87537353 ATTATTTATTATATATTATT-TTCAC
1 A-T-TTTATTATATATTATTATT--C
* * *
87537378 AAATTATTATTTTACATTATTATTT
1 --ATT-TTATTATATATTATTATTC
*
87537403 ATATATTATTAT-TA-TATT-TTT
1 AT-T-TTATTATATATTATTATTC
* *
87537424 AGTTGTATTATAAATTATATATT-
1 A-TTTTATTATATATTAT-TATTC
* * *
87537447 ATTTT-TTTTACA-TA-TATAC
1 ATTTTATTATATATTATTATTC
* *
87537466 TTTTCTATTATATATTATAATT-
1 ATTT-TATTATATATTATTATTC
87537488 ATTTTATTATATATTATTATGTC
1 ATTTTATTATATATTATTAT-TC
*
87537511 A-TTT-TT-TATATTATTATAC
1 ATTTTATTATATATTATTATTC
*
87537530 GTTTTTATCTATATATTATTA-TC
1 -ATTTTAT-TATATATTATTATTC
87537553 ATT
1 ATT
87537556 AAAGGTTTTT
Statistics
Matches: 154, Mismatches: 23, Indels: 54
0.67 0.10 0.23
Matches are distributed among these distances:
18 3 0.02
19 4 0.03
20 20 0.13
21 36 0.23
22 23 0.15
23 11 0.07
24 22 0.14
25 4 0.03
26 28 0.18
27 3 0.02
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (22 bp):
ATTTTATTATATATTATTATTC
Found at i:87541995 original size:35 final size:35
Alignment explanation
Indices: 87541921--87541996 Score: 91
Period size: 35 Copynumber: 2.2 Consensus size: 35
87541911 CTGTAACTGT
*
87541921 ATCTGTATTTGGAATAGGCTCAAGCCCGAATCTGT
1 ATCTGTATTTGGAATAGGCTCAAGCCCGAATCTGA
* * * *
87541956 ATCTGTATTT-GACATAGGCTCAGGCTCGATTGTGA
1 ATCTGTATTTGGA-ATAGGCTCAAGCCCGAATCTGA
87541991 ATCTGT
1 ATCTGT
87541997 CTAATTTGTG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 2 0.06
35 33 0.94
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (35 bp):
ATCTGTATTTGGAATAGGCTCAAGCCCGAATCTGA
Found at i:87551871 original size:22 final size:22
Alignment explanation
Indices: 87551846--87551897 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
87551836 CACTAGGAAC
* *
87551846 TATGTGATCTGAGGTCATGAGA
1 TATGTGATCTAAGCTCATGAGA
*
87551868 TATGTGGTCTAAGCTCATGAGA
1 TATGTGATCTAAGCTCATGAGA
87551890 TATGTGAT
1 TATGTGAT
87551898 ATATGTTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.27, C:0.10, G:0.29, T:0.35
Consensus pattern (22 bp):
TATGTGATCTAAGCTCATGAGA
Found at i:87555048 original size:93 final size:93
Alignment explanation
Indices: 87554935--87555105 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
87554925 GCCCATAAGT
* * *
87554935 GAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
87555000 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
87555028 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
87555093 CGAGTTCGGATGC
66 CGAGCTCGGATGC
87555106 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:87555121 original size:46 final size:46
Alignment explanation
Indices: 87554927--87555107 Score: 220
Period size: 46 Copynumber: 3.9 Consensus size: 46
87554917 TGTAACCCGC
* * *
87554927 CCATAAGTGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * *
87554973 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCGCAT
* *** *
87555019 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* *
87555066 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTC
87555108 AACCATCCTA
Statistics
Matches: 113, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
46 77 0.68
47 36 0.32
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:87559723 original size:20 final size:20
Alignment explanation
Indices: 87559698--87559735 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
87559688 GTTTATTCGC
*
87559698 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
87559718 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
87559736 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:87569320 original size:28 final size:28
Alignment explanation
Indices: 87569288--87569356 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
87569278 GCGTAGATCA
87569288 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
87569316 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
87569344 CGATA-TACCCCTA
1 CGAAATTACCCCTA
87569357 GGGTTTAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:87571924 original size:40 final size:40
Alignment explanation
Indices: 87571860--87572019 Score: 171
Period size: 39 Copynumber: 4.0 Consensus size: 40
87571850 GCTACTCGTT
* * * ***
87571860 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* *
87571900 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* * * *
87571940 CAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* * *
87571979 CCATTGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
87572018 CA
1 CA
87572020 TTCATACACA
Statistics
Matches: 104, Mismatches: 16, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 59 0.57
40 45 0.43
ACGTcount: A:0.24, C:0.33, G:0.21, T:0.21
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
Found at i:87571977 original size:39 final size:39
Alignment explanation
Indices: 87571896--87572019 Score: 194
Period size: 39 Copynumber: 3.2 Consensus size: 39
87571886 TATGGTAACC
* *
87571896 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
87571936 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
87571975 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
87572014 CGCACA
1 CGCACA
87572020 TTCATACACA
Statistics
Matches: 76, Mismatches: 8, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
39 59 0.78
40 17 0.22
ACGTcount: A:0.24, C:0.34, G:0.20, T:0.22
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:87579781 original size:40 final size:40
Alignment explanation
Indices: 87579717--87579876 Score: 171
Period size: 39 Copynumber: 4.0 Consensus size: 40
87579707 GCTACTCGTT
* * * ***
87579717 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* *
87579757 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* * * *
87579797 CAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* * *
87579836 CCATTGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
87579875 CA
1 CA
87579877 TTCATACACA
Statistics
Matches: 104, Mismatches: 16, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 59 0.57
40 45 0.43
ACGTcount: A:0.24, C:0.33, G:0.21, T:0.21
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
Found at i:87579834 original size:39 final size:39
Alignment explanation
Indices: 87579753--87579876 Score: 194
Period size: 39 Copynumber: 3.2 Consensus size: 39
87579743 TATGGTAACC
* *
87579753 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
87579793 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
87579832 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
87579871 CGCACA
1 CGCACA
87579877 TTCATACACA
Statistics
Matches: 76, Mismatches: 8, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
39 59 0.78
40 17 0.22
ACGTcount: A:0.24, C:0.34, G:0.20, T:0.22
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:87586446 original size:41 final size:41
Alignment explanation
Indices: 87586304--87586474 Score: 150
Period size: 41 Copynumber: 4.2 Consensus size: 41
87586294 TTGAGTCCAA
* *
87586304 CAGGCTTCATGCCGGTGTATATTATCAGGCTTTGTGCCTAG
1 CAGGCTTTATGTCGGTGTATATTATCAGGCTTTGTGCCTAG
* * * * *
87586345 TAGG-TTTCATGTTGGTTTATATTATTAAGG-TTTATGCCTAG
1 CAGGCTTT-ATGTCGGTGTATATTA-TCAGGCTTTGTGCCTAG
* * * *
87586386 CAAGCTTTGTTTCGGTGTATATTATCAGGTTTTGTGCCTAG
1 CAGGCTTTATGTCGGTGTATATTATCAGGCTTTGTGCCTAG
* * * * *
87586427 CAGGCTTTAAGTCGATGTAT-TGTATTAGGCTTTGAGCCTAA
1 CAGGCTTTATGTCGGTGTATAT-TATCAGGCTTTGTGCCTAG
87586468 CAGGCTT
1 CAGGCTT
87586475 CCTACCGGTG
Statistics
Matches: 101, Mismatches: 24, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
40 7 0.07
41 87 0.86
42 7 0.07
ACGTcount: A:0.20, C:0.15, G:0.25, T:0.40
Consensus pattern (41 bp):
CAGGCTTTATGTCGGTGTATATTATCAGGCTTTGTGCCTAG
Found at i:87586484 original size:82 final size:82
Alignment explanation
Indices: 87586294--87586497 Score: 186
Period size: 82 Copynumber: 2.5 Consensus size: 82
87586284 GTATCAAGCC
* * * * *
87586294 TTGAGTCC-AACAGGCTTCATGCCGGTGTATATTATCAGGCTTTGTGCCTAGTAGGTTTCATGTT
1 TTGAG-CCTAACAGGCTTCATACCGGTGTATATTATCAGGTTTTGTGCCTAGCAGGTTTCAAGTC
* *
87586358 GGTTTATATTATTAAGGT
65 GATGTATATTATTAAGGT
* * ** **
87586376 TT-ATGCCTAGCAAGCTTTGTTTCGGTGTATATTATCAGGTTTTGTGCCTAGCAGGCTTT-AAGT
1 TTGA-GCCTAACAGGCTTCATACCGGTGTATATTATCAGGTTTTGTGCCTAGCAGG-TTTCAAGT
87586439 CGATGTAT-TGTATT-AGGCT
64 CGATGTATAT-TATTAAGG-T
*
87586458 TTGAGCCTAACAGGCTTCCTACCGGTGTAT-TGTATCAGGT
1 TTGAGCCTAACAGGCTTCATACCGGTGTATAT-TATCAGGT
87586498 AACTTGTACT
Statistics
Matches: 97, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
81 8 0.08
82 85 0.88
83 4 0.04
ACGTcount: A:0.20, C:0.16, G:0.25, T:0.39
Consensus pattern (82 bp):
TTGAGCCTAACAGGCTTCATACCGGTGTATATTATCAGGTTTTGTGCCTAGCAGGTTTCAAGTCG
ATGTATATTATTAAGGT
Found at i:87588250 original size:23 final size:23
Alignment explanation
Indices: 87588224--87588282 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
87588214 ATATGATGCA
87588224 TGTGTGGTGTGA-TCTGCTAAGCT
1 TGTGTGGTGT-ATTCTGCTAAGCT
* * *
87588247 TGTGTTGTGTATTCTGTTTAGCT
1 TGTGTGGTGTATTCTGCTAAGCT
87588270 T-TGTGGTGTATTC
1 TGTGTGGTGTATTC
87588283 GATATTGCCC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
22 12 0.39
23 19 0.61
ACGTcount: A:0.10, C:0.10, G:0.31, T:0.49
Consensus pattern (23 bp):
TGTGTGGTGTATTCTGCTAAGCT
Found at i:87591657 original size:31 final size:31
Alignment explanation
Indices: 87591611--87591672 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
87591601 CTGGCACTCC
*
87591611 AATCCAACTCGGACTAAATTGAGCTTGTGAA
1 AATCCAACTCAGACTAAATTGAGCTTGTGAA
*
87591642 AATCTAACTCAGACTAAATTGAGCTTGTGAA
1 AATCCAACTCAGACTAAATTGAGCTTGTGAA
87591673 TCTTTCTCCC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (31 bp):
AATCCAACTCAGACTAAATTGAGCTTGTGAA
Found at i:87599803 original size:16 final size:16
Alignment explanation
Indices: 87599751--87599803 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
87599741 TATTTACTTT
** *
87599751 TTTTATTTTACCTTAC
1 TTTTATTTTAGGTTAA
* *
87599767 TTTTACTTTAGGTTTA
1 TTTTATTTTAGGTTAA
*
87599783 GTTTATTTTAGGTTAA
1 TTTTATTTTAGGTTAA
87599799 TTTTA
1 TTTTA
87599804 ATTACGTTAA
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.21, C:0.08, G:0.09, T:0.62
Consensus pattern (16 bp):
TTTTATTTTAGGTTAA
Found at i:87602682 original size:21 final size:21
Alignment explanation
Indices: 87602656--87602696 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
87602646 ATCTGCTCAA
*
87602656 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGTTGTGGAGTAC
87602677 ACTCCACCTGTTGTGGAGTA
1 ACTCCACCTGTTGTGGAGTA
87602697 TCGCTTGTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.32
Consensus pattern (21 bp):
ACTCCACCTGTTGTGGAGTAC
Found at i:87603924 original size:10 final size:10
Alignment explanation
Indices: 87603909--87603935 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
87603899 ATATCTAGAA
87603909 TTCTCTTCAT
1 TTCTCTTCAT
87603919 TTCTCTTCAT
1 TTCTCTTCAT
87603929 TTCTCTT
1 TTCTCTT
87603936 TATATTCATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.07, C:0.30, G:0.00, T:0.63
Consensus pattern (10 bp):
TTCTCTTCAT
Found at i:87611421 original size:19 final size:19
Alignment explanation
Indices: 87611387--87611424 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
87611377 GTTCTTTTTA
*
87611387 TTTATTAGTATATAAAAAT
1 TTTATTAGTAGATAAAAAT
*
87611406 TTTATTAGTAGGTAAAAAT
1 TTTATTAGTAGATAAAAAT
87611425 AATATTTTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.45
Consensus pattern (19 bp):
TTTATTAGTAGATAAAAAT
Found at i:87612315 original size:23 final size:26
Alignment explanation
Indices: 87612256--87612317 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 26
87612246 GATAAAGAGA
87612256 ATTATTTATGTTATTATATAATGATTAC
1 ATTATTTAT-TTATTATATAAT-ATTAC
87612284 ATTAGTTTATTTA-TATATAAT-TTA-
1 ATTA-TTTATTTATTATATAATATTAC
*
87612308 TTTATTTATT
1 ATTATTTATT
87612318 GATTCAATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
23 6 0.19
24 3 0.09
25 3 0.09
27 8 0.25
28 7 0.22
29 5 0.16
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.60
Consensus pattern (26 bp):
ATTATTTATTTATTATATAATATTAC
Found at i:87612379 original size:21 final size:21
Alignment explanation
Indices: 87612350--87612419 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
87612340 ATATATAATT
*
87612350 TTTTTATTATGATTAATATAA
1 TTTTAATTATGATTAATATAA
*
87612371 TTTTAATTATGATTTAATATCA
1 TTTTAATTATGA-TTAATATAA
* * * *
87612393 -TATAATTTTAAATAATATAA
1 TTTTAATTATGATTAATATAA
87612413 TTTTAAT
1 TTTTAAT
87612420 CATTTTATTC
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
20 7 0.18
21 24 0.62
22 8 0.21
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (21 bp):
TTTTAATTATGATTAATATAA
Found at i:87612410 original size:15 final size:15
Alignment explanation
Indices: 87612363--87612418 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
87612353 TTATTATGAT
87612363 TAATATAATTTT-AA
1 TAATATAATTTTAAA
*
87612377 T--TATGA-TTTAATA
1 TAATATAATTTTAA-A
*
87612390 TCATATAATTTTAAA
1 TAATATAATTTTAAA
87612405 TAATATAATTTTAA
1 TAATATAATTTTAA
87612419 TCATTTTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
11 3 0.09
12 5 0.15
13 2 0.06
14 1 0.03
15 18 0.53
16 5 0.15
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (15 bp):
TAATATAATTTTAAA
Found at i:87616253 original size:16 final size:17
Alignment explanation
Indices: 87616213--87616263 Score: 61
Period size: 16 Copynumber: 3.0 Consensus size: 17
87616203 GGATATTAAT
87616213 ATTAAT-ATATATTATA
1 ATTAATAATATATTATA
87616229 ATTTAAATAATATA-TATA
1 A-TT-AATAATATATTATA
*
87616247 ATTAATAATTTATTATA
1 ATTAATAATATATTATA
87616264 GGTTATTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 9 0.30
17 8 0.27
18 8 0.27
19 5 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTAATAATATATTATA
Found at i:87618236 original size:60 final size:60
Alignment explanation
Indices: 87618138--87618257 Score: 222
Period size: 60 Copynumber: 2.0 Consensus size: 60
87618128 CCTACTACAT
*
87618138 CAATGATGTATTTAACCAAATACATAATGACAACTAAGAATGTATTTACATGTCATTAAA
1 CAATGATGTATTTAACCAAAGACATAATGACAACTAAGAATGTATTTACATGTCATTAAA
*
87618198 CAATTATGTATTTAACCAAAGACATAATGACAACTAAGAATGTATTTACATGTCATTAAA
1 CAATGATGTATTTAACCAAAGACATAATGACAACTAAGAATGTATTTACATGTCATTAAA
87618258 TTTTTTTCCA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.32
Consensus pattern (60 bp):
CAATGATGTATTTAACCAAAGACATAATGACAACTAAGAATGTATTTACATGTCATTAAA
Found at i:87628199 original size:17 final size:15
Alignment explanation
Indices: 87628165--87628209 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 15
87628155 CCTTATTTTA
87628165 TAATTAAATTAAATT
1 TAATTAAATTAAATT
87628180 TAATTAATATTTAAATT
1 TAATTAA-A-TTAAATT
*
87628197 TAACTCAAATTAA
1 TAA-TTAAATTAA
87628210 CCCCCAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 7 0.27
16 5 0.19
17 11 0.42
18 3 0.12
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (15 bp):
TAATTAAATTAAATT
Found at i:87634157 original size:20 final size:20
Alignment explanation
Indices: 87634132--87634172 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
87634122 TGTTCTATTA
87634132 CGTCGAGGTTTAGAAACATT
1 CGTCGAGGTTTAGAAACATT
87634152 CGTCGAGGTTTAGAAACATT
1 CGTCGAGGTTTAGAAACATT
87634172 C
1 C
87634173 AGGTGTGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (20 bp):
CGTCGAGGTTTAGAAACATT
Found at i:87638853 original size:11 final size:11
Alignment explanation
Indices: 87638835--87638876 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
87638825 CTTCAAAAAT
87638835 AAATAAAA-GA
1 AAATAAAATGA
87638845 AAGATAAAATGA
1 AA-ATAAAATGA
*
87638857 AAATAAAGATAA
1 AAATAAA-ATGA
87638869 AAATAAAA
1 AAATAAAA
87638877 ATAAAAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 2 0.07
11 12 0.43
12 14 0.50
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.14
Consensus pattern (11 bp):
AAATAAAATGA
Found at i:87638864 original size:17 final size:17
Alignment explanation
Indices: 87638835--87638901 Score: 64
Period size: 20 Copynumber: 3.7 Consensus size: 17
87638825 CTTCAAAAAT
*
87638835 AAATAAAAGAAAGAT-A
1 AAATAAAATAAAGATAA
87638851 AAATGAAAATAAAGATAA
1 AAAT-AAAATAAAGATAA
*
87638869 AAATAAAAATAAAAAATAAA
1 AAAT-AAAAT-AAAGAT-AA
87638889 AAATAAAAATAAA
1 AAAT-AAAATAAA
87638902 ATAGATGGAC
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
16 4 0.09
17 10 0.23
18 10 0.23
19 8 0.18
20 12 0.27
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (17 bp):
AAATAAAATAAAGATAA
Found at i:87638868 original size:6 final size:5
Alignment explanation
Indices: 87638830--87638904 Score: 57
Period size: 5 Copynumber: 14.2 Consensus size: 5
87638820 TAAGTCTTCA
*
87638830 AAAAT -AAAT AAAAG AAAGAT AAAAT GAAAAT AAAGAT AAAAAT AAAAAT
1 AAAAT AAAAT AAAAT AAA-AT AAAAT -AAAAT AAA-AT -AAAAT -AAAAT
87638879 AAAA- AATAA- AAAAT AAAAAT AAAAT A
1 AAAAT AA-AAT AAAAT -AAAAT AAAAT A
87638905 GATGGACTCA
Statistics
Matches: 60, Mismatches: 2, Indels: 16
0.77 0.03 0.21
Matches are distributed among these distances:
4 8 0.13
5 25 0.42
6 24 0.40
7 3 0.05
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:87638871 original size:12 final size:11
Alignment explanation
Indices: 87638835--87638904 Score: 68
Period size: 11 Copynumber: 5.9 Consensus size: 11
87638825 CTTCAAAAAT
*
87638835 AAATAAAAGAA
1 AAATAAAATAA
* *
87638846 AGATAAAATGA
1 AAATAAAATAA
87638857 AAATAAAGATAA
1 AAATAAA-ATAA
87638869 AAATAAAAATAAA
1 AAAT-AAAAT-AA
87638882 AAATAAAAAATAA
1 AAAT--AAAATAA
87638895 AAATAAAATA
1 AAATAAAATA
87638905 GATGGACTCA
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
11 20 0.40
12 9 0.18
13 15 0.30
14 6 0.12
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.16
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:87638871 original size:38 final size:38
Alignment explanation
Indices: 87638829--87638901 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
87638819 ATAAGTCTTC
* * *
87638829 AAAAATAAATAA-AAGAAAGATAAAATGAAAATAAAGAT
1 AAAAATAAA-AATAAAAAAGAAAAAATAAAAATAAAGAT
*
87638867 AAAAATAAAAATAAAAAATAAAAAATAAAAATAAA
1 AAAAATAAAAATAAAAAAGAAAAAATAAAAATAAA
87638902 ATAGATGGAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
37 2 0.07
38 28 0.93
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.15
Consensus pattern (38 bp):
AAAAATAAAAATAAAAAAGAAAAAATAAAAATAAAGAT
Found at i:87638883 original size:7 final size:7
Alignment explanation
Indices: 87638867--87638902 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
87638857 AAATAAAGAT
87638867 AAAAAT-
1 AAAAATA
87638873 AAAAATA
1 AAAAATA
87638880 AAAAATA
1 AAAAATA
87638887 AAAAAT-
1 AAAAATA
87638893 AAAAATA
1 AAAAATA
87638900 AAA
1 AAA
87638903 TAGATGGACT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 12 0.43
7 16 0.57
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAAATA
Found at i:87650954 original size:17 final size:17
Alignment explanation
Indices: 87650934--87650971 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
87650924 TTTTATTAAG
87650934 TTTTTAAGATTCATTCA
1 TTTTTAAGATTCATTCA
*
87650951 TTTTTAAGATTCATTTA
1 TTTTTAAGATTCATTCA
87650968 TTTT
1 TTTT
87650972 CCTTTTCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.26, C:0.08, G:0.05, T:0.61
Consensus pattern (17 bp):
TTTTTAAGATTCATTCA
Found at i:87652437 original size:40 final size:40
Alignment explanation
Indices: 87652382--87652462 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
87652372 AGGACAAGCA
87652382 AATGCTTAAGTGTGGGGGTATTTGATAAACCGTAAATTAT
1 AATGCTTAAGTGTGGGGGTATTTGATAAACCGTAAATTAT
87652422 AATGCTTAAGTGTGGGGGTATTTGATAAACCGTAAATTAT
1 AATGCTTAAGTGTGGGGGTATTTGATAAACCGTAAATTAT
87652462 A
1 A
87652463 CATATTTTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.33, C:0.07, G:0.25, T:0.35
Consensus pattern (40 bp):
AATGCTTAAGTGTGGGGGTATTTGATAAACCGTAAATTAT
Found at i:87670327 original size:19 final size:19
Alignment explanation
Indices: 87670280--87670337 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 19
87670270 AAAATGATAA
87670280 AATCAAGTTAAAATGGTTTC
1 AATCAAGTTAAAAT-GTTTC
**
87670300 AATTGAGTTAAACAT-TTTC
1 AATCAAGTTAAA-ATGTTTC
87670319 AATCAAGTTAAAATTGTTT
1 AATCAAGTTAAAA-TGTTT
87670338 TAAAACAAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
18 1 0.03
19 15 0.48
20 13 0.42
21 2 0.06
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.40
Consensus pattern (19 bp):
AATCAAGTTAAAATGTTTC
Found at i:87689843 original size:11 final size:11
Alignment explanation
Indices: 87689821--87689853 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
87689811 TTAGTTTAGG
87689821 TTTTCATTTTTC
1 TTTTC-TTTTTC
87689833 TTTTCTTTTTC
1 TTTTCTTTTTC
87689844 TTTTCTTTTT
1 TTTTCTTTTT
87689854 GTTGTAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 16 0.76
12 5 0.24
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:87698330 original size:2 final size:2
Alignment explanation
Indices: 87698323--87698366 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
87698313 TACAAGTACA
87698323 AT AT AT AT 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 AT AT AT AT
87698365 AT
1 AT
87698367 CAGTTTATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:87704640 original size:35 final size:37
Alignment explanation
Indices: 87704569--87704666 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
87704559 ATAATCTTCA
87704569 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAGAT
87704607 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
87704642 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
87704667 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:87704666 original size:17 final size:19
Alignment explanation
Indices: 87704569--87704659 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
87704559 ATAATCTTCA
87704569 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
87704588 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
87704607 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
87704624 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
87704642 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
87704660 AGATATGATT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:87704685 original size:22 final size:22
Alignment explanation
Indices: 87704569--87704682 Score: 96
Period size: 19 Copynumber: 5.8 Consensus size: 22
87704559 ATAATCTTCA
87704569 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
87704588 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
87704607 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
87704624 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
87704642 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
87704664 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
87704683 GATTTAATTT
Statistics
Matches: 86, Mismatches: 2, Indels: 10
0.88 0.02 0.10
Matches are distributed among these distances:
17 16 0.19
18 16 0.19
19 34 0.40
22 8 0.09
23 12 0.14
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:87714945 original size:89 final size:87
Alignment explanation
Indices: 87714816--87714977 Score: 209
Period size: 89 Copynumber: 1.8 Consensus size: 87
87714806 ATTCGACGGA
* * *
87714816 GAGCAGATCGAAGACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATG
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTCCGATGTTTACAC-T-GAAGCAGATCCAAGATG
87714881 ATTTGGCATCCTTGCGTTTACAAG
64 ATTTGGCATCCTTGCGTTTACAAG
* * * * * *
87714905 GAGCAGATCGAAGACATAGCAGATTTGACTTTCACG-TGTTTACGCTGAAGCATATCTAAGATGA
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTC-CGATGTTTACACTGAAGCAGATCCAAGATGA
87714969 TTTGGCATC
65 TTTGGCATC
87714978 TCTGTACTGT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
87 24 0.38
88 1 0.02
89 37 0.59
90 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (87 bp):
GAGCAGATCGAAGACATAGCAGATCTAACCTTCCGATGTTTACACTGAAGCAGATCCAAGATGAT
TTGGCATCCTTGCGTTTACAAG
Found at i:87715160 original size:78 final size:78
Alignment explanation
Indices: 87715010--87715303 Score: 448
Period size: 78 Copynumber: 3.8 Consensus size: 78
87715000 CGAAAAAACA
* * * *
87715010 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATA-CAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCATTGAA
87715074 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * *
87715087 GATTTGGCATCTCTGTATTAGACGGGGAGTAGATCAAAGACACAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCATTGAA
87715152 GCAGATCCAAGAT
66 GCAGATCCAAGAT
**
87715165 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCAAAGACATAATAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCAAAGACATAGCAGATCT-GACCTTCATTGA
*
87715229 AGCACATCCAAGAT
65 AGCAGATCCAAGAT
* * *
87715243 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATATAGCAGATCTGACCTTCAT
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCAT
87715304 GTATTTACAT
Statistics
Matches: 196, Mismatches: 18, Indels: 5
0.89 0.08 0.02
Matches are distributed among these distances:
77 38 0.19
78 157 0.80
79 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.25
Consensus pattern (78 bp):
GATTTGGCATCTCTATATTAGACGGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:87715381 original size:45 final size:45
Alignment explanation
Indices: 87715243--87715516 Score: 322
Period size: 45 Copynumber: 6.1 Consensus size: 45
87715233 CATCCAAGAT
87715243 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATA-A-CA
* * * * ** * *
87715290 GATCTGACCT-TCATGTATTTACATC--AAAGCAGATCCAAGATGACA
1 GATTTGGCATCTC-TGTA-TTAGA-CGGGGAGCAGATCGAAGATAACA
* *
87715335 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGGAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* *
87715380 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGA-AGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
**
87715424 GATTTGGTGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* * *
87715469 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
87715514 GAT
1 GAT
87715517 ATTGCCTTCC
Statistics
Matches: 191, Mismatches: 29, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
43 1 0.01
44 44 0.23
45 112 0.59
46 5 0.03
47 24 0.13
48 4 0.02
49 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.26
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
Found at i:87715465 original size:89 final size:89
Alignment explanation
Indices: 87715243--87715516 Score: 329
Period size: 89 Copynumber: 3.0 Consensus size: 89
87715233 CATCCAAGAT
* * *
87715243 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATATAGCAGATCTGACCT-TCATGTA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATA-A-CAGATTTGGCATCTC-TGTA
* ** * *
87715307 TTTACATC--AAAGCAGATCCAAGATGACA
63 -TTAGA-CGGGGAGCAGATCAAAGAAG-CA
* *
87715335 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGGAGATAACAGATTTGGCATCTCTGTATTA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTA
**
87715400 GACGGGGAGCAGATTGAAGAAGCA
66 GACGGGGAGCAGATCAAAGAAGCA
** *
87715424 GATTTGGTGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTA
87715489 GACGGGGAGCAGATCAAAGATAGCA
66 GACGGGGAGCAGATCAAAGA-AGCA
87715514 GAT
1 GAT
87715517 ATTGCCTTCC
Statistics
Matches: 160, Mismatches: 18, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
88 1 0.01
89 84 0.52
90 32 0.20
91 3 0.02
92 40 0.25
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.26
Consensus pattern (89 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTA
GACGGGGAGCAGATCAAAGAAGCA
Found at i:87715486 original size:134 final size:136
Alignment explanation
Indices: 87715243--87715499 Score: 344
Period size: 134 Copynumber: 1.9 Consensus size: 136
87715233 CATCCAAGAT
87715243 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATATAGCAGATCTGACCTTCATGTAT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGA-ATAGCAGATCTGACCTTCATGTAT
*
87715308 TTACATCAAAGCAGATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGGA
65 TTACATCAAAGCAGATCCAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGGA
87715373 GATAACA
130 GATAACA
* * ***
87715380 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAG-A-AGCAGATTTGGTGTCTC-TGTA-
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGAATAGCAGATCTGACCT-TCATGTAT
* ** * *
87715441 TTAGA-CGGGGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGGAGCA
65 TTACATC--AAAGCAGATCCAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCA
87715500 GATCAAAGAT
Statistics
Matches: 106, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
132 1 0.01
133 4 0.04
134 60 0.57
135 3 0.03
137 38 0.36
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (136 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGAATAGCAGATCTGACCTTCATGTATT
TACATCAAAGCAGATCCAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGGAG
ATAACA
Found at i:87715899 original size:17 final size:17
Alignment explanation
Indices: 87715879--87715940 Score: 88
Period size: 18 Copynumber: 3.5 Consensus size: 17
87715869 ATGATATGCT
87715879 ATCTTAGATATGATACA
1 ATCTTAGATATGATACA
*
87715896 ATCTTAGATATGATTGCA
1 ATCTTAGATATGA-TACA
87715914 ATCTTAGATATGATATGCA
1 ATCTTAGATATGATA--CA
87715933 ATCTTAGA
1 ATCTTAGA
87715941 AGATATGATT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
17 14 0.35
18 16 0.40
19 10 0.25
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (17 bp):
ATCTTAGATATGATACA
Found at i:87715919 original size:35 final size:37
Alignment explanation
Indices: 87715869--87715947 Score: 112
Period size: 35 Copynumber: 2.2 Consensus size: 37
87715859 ATAATCTTCA
*
87715869 ATGATATGCTATCTTAGATATGATA-CAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATAGCAATCTTAGAT
87715905 ATGAT-TGCAATCTTAGATATGATATGCAATCTTAGA-
1 ATGATATGCAATCTTAGATATGATA-GCAATCTTAGAT
87715941 A-GATATG
1 ATGATATG
87715948 ATTTTGTAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
35 21 0.54
36 8 0.21
37 10 0.26
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (37 bp):
ATGATATGCAATCTTAGATATGATAGCAATCTTAGAT
Found at i:87715947 original size:17 final size:19
Alignment explanation
Indices: 87715869--87715940 Score: 114
Period size: 19 Copynumber: 3.9 Consensus size: 19
87715859 ATAATCTTCA
*
87715869 ATGATATGCTATCTTAGAT
1 ATGATATGCAATCTTAGAT
87715888 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
87715905 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
87715923 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
87715941 AGATATGATT
Statistics
Matches: 49, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
17 15 0.31
18 16 0.33
19 18 0.37
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:87715966 original size:22 final size:22
Alignment explanation
Indices: 87715901--87715963 Score: 71
Period size: 23 Copynumber: 3.0 Consensus size: 22
87715891 ATACAATCTT
87715901 AGATATGAT-TGCAATCTT---
1 AGATATGATATGCAATCTTAGA
87715919 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATCTTAGA
* *
87715941 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGCAATCTTAGA
87715964 GATTTAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
18 9 0.24
19 9 0.24
22 8 0.21
23 12 0.32
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATCTTAGA
Found at i:87716233 original size:17 final size:17
Alignment explanation
Indices: 87716207--87716243 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
87716197 CATGTTTCCC
*
87716207 TAATTTTTTTATATATTT
1 TAATTTTTTAATA-ATTT
87716225 TAATTTTTTAATAATTT
1 TAATTTTTTAATAATTT
87716242 TA
1 TA
87716244 GTATCATATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TAATTTTTTAATAATTT
Found at i:87717659 original size:88 final size:88
Alignment explanation
Indices: 87717510--87717685 Score: 343
Period size: 88 Copynumber: 2.0 Consensus size: 88
87717500 AAATTTCTAT
87717510 ATATTTTATGAAGTTTTCTACTCATACGTCTCAAGAAAAAATGATTAAGTAAAAATTATGTTTAT
1 ATATTTTATGAAGTTTTCTACTCATACGTCTCAAGAAAAAATGATTAAGTAAAAATTATGTTTAT
87717575 GCATGAAATTATAATATAAGGAA
66 GCATGAAATTATAATATAAGGAA
*
87717598 ATATTTTATGAAGTTTTCTCCTCATACGTCTCAAGAAAAAATGATTAAGTAAAAATTATGTTTAT
1 ATATTTTATGAAGTTTTCTACTCATACGTCTCAAGAAAAAATGATTAAGTAAAAATTATGTTTAT
87717663 GCATGAAATTATAATATAAGGAA
66 GCATGAAATTATAATATAAGGAA
87717686 TTAGAATGTC
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 87 1.00
ACGTcount: A:0.43, C:0.09, G:0.12, T:0.36
Consensus pattern (88 bp):
ATATTTTATGAAGTTTTCTACTCATACGTCTCAAGAAAAAATGATTAAGTAAAAATTATGTTTAT
GCATGAAATTATAATATAAGGAA
Found at i:87723855 original size:41 final size:40
Alignment explanation
Indices: 87723810--87723951 Score: 250
Period size: 41 Copynumber: 3.5 Consensus size: 40
87723800 GCATTTCTGA
87723810 ATCAATGAAAAGGTTGAAAAGGATGTTATCCGAAAAAAGG-T
1 ATCAATGAAAAGGTTGAAAAGGATGTTATCCG--AAAAGGAT
87723851 ATCAATGAAAAGGTTGAAAAGGATGTTATCCGAAAAGGAT
1 ATCAATGAAAAGGTTGAAAAGGATGTTATCCGAAAAGGAT
87723891 ATCATATGAAAAGGTTGAAAAGGATGTTATCCGAAAAGGAT
1 ATCA-ATGAAAAGGTTGAAAAGGATGTTATCCGAAAAGGAT
87723932 ATCAATGAAAAGGTTGAAAA
1 ATCAATGAAAAGGTTGAAAA
87723952 TGATAACAAT
Statistics
Matches: 99, Mismatches: 0, Indels: 5
0.95 0.00 0.05
Matches are distributed among these distances:
39 6 0.06
40 21 0.21
41 72 0.73
ACGTcount: A:0.46, C:0.07, G:0.24, T:0.23
Consensus pattern (40 bp):
ATCAATGAAAAGGTTGAAAAGGATGTTATCCGAAAAGGAT
Found at i:87723956 original size:24 final size:24
Alignment explanation
Indices: 87723923--87723969 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
87723913 GATGTTATCC
*
87723923 GAAAAGGATATCAATGAAAAGGTT
1 GAAAAGGATAACAATGAAAAGGTT
*
87723947 GAAAATGATAACAATGAAAAGGT
1 GAAAAGGATAACAATGAAAAGGT
87723970 CGATATCTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.53, C:0.04, G:0.23, T:0.19
Consensus pattern (24 bp):
GAAAAGGATAACAATGAAAAGGTT
Found at i:87738855 original size:40 final size:40
Alignment explanation
Indices: 87738800--87738967 Score: 223
Period size: 40 Copynumber: 4.2 Consensus size: 40
87738790 TGTGGCTAAT
* *
87738800 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
87738840 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* *
87738880 -CCGGGCTAAGTCCCAAAGGCATTTGTGCAAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * * * **
87738919 ACCGGACTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
87738959 TCC-GGCTAA
1 TCCGGGCTAA
87738968 ACTCCGAAGG
Statistics
Matches: 113, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 41 0.36
40 72 0.64
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:87738966 original size:79 final size:80
Alignment explanation
Indices: 87738791--87738967 Score: 225
Period size: 79 Copynumber: 2.2 Consensus size: 80
87738781 TTGTTTGTAT
* * * *
87738791 GTGGCTA-ATTCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATCCGGGCTAAGTCCC
1 GTGGCTATA-TCCGGGCTAAGTCCCAAAGGCATTCGTGCAAGCTACTATAACCGGACTAAGTCCC
*
87738855 GAAGGCATTTGTGCGA
65 GAAGGCATTTGAGCGA
*** * *
87738871 GTTATTATA-CCGGGCTAAGTCCCAAAGGCATTTGTGCAAGTTACTATAACCGGACTAAGTCCCG
1 GTGGCTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCAAGCTACTATAACCGGACTAAGTCCCG
*
87738935 AAGGCATTTGAGCTA
66 AAGGCATTTGAGCGA
87738950 GTGGCTATATCC-GGCTAA
1 GTGGCTATATCCGGGCTAA
87738968 ACTCCGAAGG
Statistics
Matches: 81, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
79 74 0.91
80 6 0.07
81 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
GTGGCTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCAAGCTACTATAACCGGACTAAGTCCCG
AAGGCATTTGAGCGA
Found at i:87742299 original size:40 final size:39
Alignment explanation
Indices: 87742218--87742303 Score: 118
Period size: 40 Copynumber: 2.2 Consensus size: 39
87742208 TAATGACTTA
** *
87742218 TCGGCTAAAATGGCACTTAGTGTGCGGTTCGAAATAGCT
1 TCGGCTAAAATGGCACTTAGTGTGCAATTCGAAATAACT
* *
87742257 TCGGCTAAAAGTGGCACTTAGTGTGCAATTTGAGATAACT
1 TCGGCTAAAA-TGGCACTTAGTGTGCAATTCGAAATAACT
87742297 TCGGCTA
1 TCGGCTA
87742304 TATTTATATA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 10 0.24
40 31 0.76
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (39 bp):
TCGGCTAAAATGGCACTTAGTGTGCAATTCGAAATAACT
Found at i:87747306 original size:12 final size:12
Alignment explanation
Indices: 87747273--87747313 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
87747263 ACTACCAAAC
87747273 ATTTAATCACA-
1 ATTTAATCACAT
87747284 ATGTTAA-CACAT
1 AT-TTAATCACAT
87747296 ATTTAATCACAT
1 ATTTAATCACAT
*
87747308 AATTAA
1 ATTTAA
87747314 CCATGAAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
11 10 0.38
12 16 0.62
ACGTcount: A:0.46, C:0.15, G:0.02, T:0.37
Consensus pattern (12 bp):
ATTTAATCACAT
Found at i:87748760 original size:40 final size:40
Alignment explanation
Indices: 87748702--87748819 Score: 155
Period size: 40 Copynumber: 3.0 Consensus size: 40
87748692 ATTATGTTTG
* *
87748702 GCACTTAGTGTGCATATTGAAATAGCTTTGGCTATATAAA
1 GCACTTAGTGTGCGTATTGAAATAGCTTCGGCTATATAAA
* *
87748742 GCACTTAGTGTGCGTATTGAGATAACTTCGGCTATATAAA
1 GCACTTAGTGTGCGTATTGAAATAGCTTCGGCTATATAAA
* * * * *
87748782 GCAGTTAGTGTGCGAATAGGAATAGCTTCGGATATATA
1 GCACTTAGTGTGCGTATTGAAATAGCTTCGGCTATATA
87748820 TATATATATA
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 67 1.00
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (40 bp):
GCACTTAGTGTGCGTATTGAAATAGCTTCGGCTATATAAA
Found at i:87752110 original size:10 final size:10
Alignment explanation
Indices: 87752097--87752145 Score: 64
Period size: 10 Copynumber: 4.9 Consensus size: 10
87752087 TTTATTTTCT
87752097 TTTATCTTTA
1 TTTATCTTTA
87752107 TTTATCTTTA
1 TTTATCTTTA
* *
87752117 GTTATATTTA
1 TTTATCTTTA
87752127 TTTAT-TTGTA
1 TTTATCTT-TA
87752137 TTTATCTTT
1 TTTATCTTT
87752146 TAGAATTTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 2 0.06
10 30 0.88
11 2 0.06
ACGTcount: A:0.20, C:0.06, G:0.04, T:0.69
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:87755860 original size:19 final size:19
Alignment explanation
Indices: 87755833--87755871 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
87755823 TGATTCAATC
87755833 TTCAATTCA-ATTACTTTTG
1 TTCAATTCAGA-TACTTTTG
*
87755852 TTCAGTTCAGATACTTTTG
1 TTCAATTCAGATACTTTTG
87755871 T
1 T
87755872 ATCCAATACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.23, C:0.15, G:0.10, T:0.51
Consensus pattern (19 bp):
TTCAATTCAGATACTTTTG
Found at i:87769759 original size:46 final size:48
Alignment explanation
Indices: 87769687--87769806 Score: 154
Period size: 48 Copynumber: 2.5 Consensus size: 48
87769677 GACAGGACAG
* * * *
87769687 GACAGAAATGAGCCATGTAAGTCCATATCA-GT-TATATGGCTTTGGA
1 GACAGGAATGATCCATGTAAGTCCATATCATATATATATGGCATTGGA
* *
87769733 GACAGGAATGATCCATGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGGAATGATCCATGTAAGTCCATATCATATATATATGGCATTGGA
* *
87769781 GACAGGAATAATTCATGTAAGTCCAT
1 GACAGGAATGATCCATGTAAGTCCAT
87769807 GTCGAAGACA
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 26 0.41
47 1 0.02
48 36 0.57
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (48 bp):
GACAGGAATGATCCATGTAAGTCCATATCATATATATATGGCATTGGA
Found at i:87773593 original size:28 final size:28
Alignment explanation
Indices: 87773553--87773631 Score: 122
Period size: 28 Copynumber: 2.8 Consensus size: 28
87773543 GCAGTTAAAT
* *
87773553 ATGGCACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
87773581 ATGGCACTTAGTGTGCGCAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
87773609 ATGACACTTAGTGTGCGAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
87773632 CGAATGATTC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:87778067 original size:39 final size:40
Alignment explanation
Indices: 87778024--87778105 Score: 112
Period size: 39 Copynumber: 2.1 Consensus size: 40
87778014 CTACTTACTC
**
87778024 CCTCATTACAATTTGGTAACTCTGCCCCACTATTT-ATTT
1 CCTCATTACAATTTGGTAACTCACCCCCACTATTTAATTT
* **
87778063 CCTCATTAGAATTTGGTATTTCACCCCCACTATTTAATTT
1 CCTCATTACAATTTGGTAACTCACCCCCACTATTTAATTT
87778103 CCT
1 CCT
87778106 TTCCCTAGTG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
39 30 0.81
40 7 0.19
ACGTcount: A:0.23, C:0.28, G:0.07, T:0.41
Consensus pattern (40 bp):
CCTCATTACAATTTGGTAACTCACCCCCACTATTTAATTT
Found at i:87778427 original size:12 final size:12
Alignment explanation
Indices: 87778410--87778437 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
87778400 AGCAAAACAG
87778410 GTTTTTAGCGGC
1 GTTTTTAGCGGC
87778422 GTTTTTAGCGGC
1 GTTTTTAGCGGC
87778434 GTTT
1 GTTT
87778438 GAATGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.14, G:0.32, T:0.46
Consensus pattern (12 bp):
GTTTTTAGCGGC
Found at i:87778499 original size:40 final size:40
Alignment explanation
Indices: 87778466--87778567 Score: 132
Period size: 40 Copynumber: 2.5 Consensus size: 40
87778456 AAGAATGAGC
* *
87778466 ATTAGCGGGGCTTTTTAAAAAACGCCACTAAAGATCGAGT
1 ATTAGCGGCGCTTTTTAAAAAACACCACTAAAGATCGAGT
* * ** *
87778506 ATTAGCGGTGCTGTACAAAAAACACCACTAAAGATCAAGT
1 ATTAGCGGCGCTTTTTAAAAAACACCACTAAAGATCGAGT
*
87778546 ATTAGCGGCGCTTTTTTAAAAA
1 ATTAGCGGCGCTTTTTAAAAAA
87778568 TGTCGTTATA
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (40 bp):
ATTAGCGGCGCTTTTTAAAAAACACCACTAAAGATCGAGT
Found at i:87778731 original size:40 final size:40
Alignment explanation
Indices: 87778687--87778771 Score: 127
Period size: 40 Copynumber: 2.1 Consensus size: 40
87778677 AGATCGAGTA
* *
87778687 TTAGCGGCGCTTTTT-AGGAAACGCCGCTATAAGTACACCT
1 TTAGCGGCGCTTTTTGA-AAAACGCCACTATAAGTACACCT
*
87778727 TTAGCGGCGCTTTTTGAAAAACGCCACTATATGTACACCT
1 TTAGCGGCGCTTTTTGAAAAACGCCACTATAAGTACACCT
87778767 TTAGC
1 TTAGC
87778772 ATCGTTTTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 40 0.98
41 1 0.02
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (40 bp):
TTAGCGGCGCTTTTTGAAAAACGCCACTATAAGTACACCT
Found at i:87778787 original size:40 final size:40
Alignment explanation
Indices: 87778687--87778790 Score: 120
Period size: 40 Copynumber: 2.6 Consensus size: 40
87778677 AGATCGAGTA
* ** *
87778687 TTAGCGGCGCTTTTTAGGAAACGCCGCTATAAGTACACCT
1 TTAGCAGCGCTTTTTAAAAAACGCCACTATAAGTACACCT
* * *
87778727 TTAGCGGCGCTTTTTGAAAAACGCCACTATATGTACACCT
1 TTAGCAGCGCTTTTTAAAAAACGCCACTATAAGTACACCT
*
87778767 TTAGCATCG-TTTTTCAAAAAACGC
1 TTAGCAGCGCTTTTT-AAAAAACGC
87778791 TGCAAAAGAA
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
39 5 0.09
40 50 0.91
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (40 bp):
TTAGCAGCGCTTTTTAAAAAACGCCACTATAAGTACACCT
Found at i:87781611 original size:26 final size:26
Alignment explanation
Indices: 87781580--87781661 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
87781570 TGAAATGCCC
87781580 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
87781606 ATCATGGAACATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
87781632 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
87781658 ATCA
1 ATCA
87781662 ATTTGTACCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:87783272 original size:29 final size:29
Alignment explanation
Indices: 87783211--87783307 Score: 155
Period size: 29 Copynumber: 3.4 Consensus size: 29
87783201 AATGAGATTG
87783211 GCACTAAGTGTGCGAGTTT-AATTGTATA
1 GCACTAAGTGTGCGAGTTTGAATTGTATA
87783239 GCACTAAGTGTGCGAGTTTGAATTGTATA
1 GCACTAAGTGTGCGAGTTTGAATTGTATA
*
87783268 GCACTAAGTGTGCGGGTTTGAATAT-TA-A
1 GCACTAAGTGTGCGAGTTTGAAT-TGTATA
87783296 GCACTAAGTGTG
1 GCACTAAGTGTG
87783308 TGGACTTACT
Statistics
Matches: 66, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
28 32 0.48
29 33 0.50
30 1 0.02
ACGTcount: A:0.28, C:0.11, G:0.28, T:0.33
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTTGAATTGTATA
Found at i:87785129 original size:21 final size:21
Alignment explanation
Indices: 87785083--87785134 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
87785073 TTAATTATCA
* *
87785083 TTATAGTTTAGGGTTTATGAT
1 TTATGGTTAAGGGTTTATGAT
*
87785104 ATATGGTTAAGGGTTTAATG-T
1 TTATGGTTAAGGGTTT-ATGAT
87785125 TTATGAGTTA
1 TTATG-GTTA
87785135 CTATTTTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 18 0.72
22 7 0.28
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (21 bp):
TTATGGTTAAGGGTTTATGAT
Found at i:87785182 original size:15 final size:15
Alignment explanation
Indices: 87785146--87785178 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
87785136 TATTTTAAGT
*
87785146 TTTATGGATTATAGG
1 TTTAGGGATTATAGG
87785161 TTTAGGGATTAT-GG
1 TTTAGGGATTATAGG
87785175 TTTA
1 TTTA
87785179 AGGGTGATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.48
Consensus pattern (15 bp):
TTTAGGGATTATAGG
Done.