Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 55 of 185
Found at i:17011057 original size:11 final size:11
Alignment explanation
Indices: 17011041--17011100 Score: 58
Period size: 11 Copynumber: 5.9 Consensus size: 11
17011031 AGTAGATTCG
17011041 TGAAAAAAAAT
1 TGAAAAAAAAT
17011052 TG--AAAAAA-
1 TGAAAAAAAAT
*
17011060 --AAAAGAAAT
1 TGAAAAAAAAT
*
17011069 TGAAAAAAAAA
1 TGAAAAAAAAT
*
17011080 TCAAAAAAAAT
1 TGAAAAAAAAT
17011091 TGAAAAAAAA
1 TGAAAAAAAA
17011101 ATTTATACGA
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
8 5 0.13
9 6 0.16
11 27 0.71
ACGTcount: A:0.77, C:0.02, G:0.08, T:0.13
Consensus pattern (11 bp):
TGAAAAAAAAT
Found at i:17011060 original size:12 final size:12
Alignment explanation
Indices: 17011058--17011103 Score: 60
Period size: 12 Copynumber: 3.9 Consensus size: 12
17011048 AAATTGAAAA
17011058 AAAAAAGAAATTG
1 AAAAAA-AAATTG
17011071 AAAAAAAAA-T-
1 AAAAAAAAATTG
*
17011081 CAAAAAAAATTG
1 AAAAAAAAATTG
17011093 AAAAAAAAATT
1 AAAAAAAAATT
17011104 TATACGATCT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
10 8 0.28
11 2 0.07
12 13 0.45
13 6 0.21
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.15
Consensus pattern (12 bp):
AAAAAAAAATTG
Found at i:17011074 original size:16 final size:16
Alignment explanation
Indices: 17011043--17011079 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 16
17011033 TAGATTCGTG
17011043 AAAAAAAATTGAAAAA
1 AAAAAAAATTGAAAAA
17011059 AAAAAGAAATTGAAAAA
1 AAAAA-AAATTGAAAAA
17011076 AAAA
1 AAAA
17011080 TCAAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.11
Consensus pattern (16 bp):
AAAAAAAATTGAAAAA
Found at i:17011079 original size:22 final size:22
Alignment explanation
Indices: 17011054--17011102 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
17011044 AAAAAAATTG
*
17011054 AAAAA-AAAAAGAAATTGAAAA
1 AAAAATAAAAAAAAATTGAAAA
*
17011075 AAAAATCAAAAAAAATTGAAAA
1 AAAAATAAAAAAAAATTGAAAA
17011097 AAAAAT
1 AAAAAT
17011103 TTATACGATC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 5 0.20
22 20 0.80
ACGTcount: A:0.80, C:0.02, G:0.06, T:0.12
Consensus pattern (22 bp):
AAAAATAAAAAAAAATTGAAAA
Found at i:17013249 original size:20 final size:20
Alignment explanation
Indices: 17013224--17013268 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
17013214 GCGAAATTAC
*
17013224 AAAAGAAAAGAAAAATGAAA
1 AAAAGAAAAGAAAAATCAAA
*
17013244 AAAAG-AAAGAAAATTCAAA
1 AAAAGAAAAGAAAAATCAAA
17013263 AAAAGA
1 AAAAGA
17013269 GAATGAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.78, C:0.02, G:0.13, T:0.07
Consensus pattern (20 bp):
AAAAGAAAAGAAAAATCAAA
Found at i:17013316 original size:14 final size:15
Alignment explanation
Indices: 17013287--17013316 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
17013277 AGAGAGCGAG
17013287 AAAAGAAAAAGATGA
1 AAAAGAAAAAGATGA
17013302 AAAAGAAAAAG-TGA
1 AAAAGAAAAAGATGA
17013316 A
1 A
17013317 TGAAAAATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (15 bp):
AAAAGAAAAAGATGA
Found at i:17014783 original size:20 final size:20
Alignment explanation
Indices: 17014726--17014786 Score: 56
Period size: 20 Copynumber: 3.0 Consensus size: 20
17014716 TATAAACGCA
*
17014726 ATTGAGCTTAA-AATGAGCTG
1 ATTGAGC-TAAGAGTGAGCTG
*
17014746 ATTGAGCTAAGAGGGAGCTCG
1 ATTGAGCTAAGAGTGAGCT-G
17014767 A-TGAGCTAA-AGTTGAGCTG
1 ATTGAGCTAAGAG-TGAGCTG
17014786 A
1 A
17014787 ATGAACTTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
19 7 0.20
20 26 0.74
21 2 0.06
ACGTcount: A:0.33, C:0.11, G:0.31, T:0.25
Consensus pattern (20 bp):
ATTGAGCTAAGAGTGAGCTG
Found at i:17019727 original size:20 final size:20
Alignment explanation
Indices: 17019704--17019757 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
17019694 AGTTTTTCCC
*
17019704 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
17019724 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
17019744 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
17019758 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:17019739 original size:30 final size:30
Alignment explanation
Indices: 17019704--17019775 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 30
17019694 AGTTTTTCCC
17019704 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
17019734 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
17019764 AGCTCGTTTGAG
1 AGCTCGTTTGAG
17019776 ATTGGCTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
29 4 0.11
30 34 0.89
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:17019767 original size:20 final size:20
Alignment explanation
Indices: 17019704--17019768 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
17019694 AGTTTTTCCC
* * * *
17019704 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
17019724 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
17019743 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
17019764 AGCTC
1 AGCTC
17019769 GTTTGAGATT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:17026917 original size:409 final size:409
Alignment explanation
Indices: 17026151--17026975 Score: 1632
Period size: 409 Copynumber: 2.0 Consensus size: 409
17026141 GAGATGTTTA
*
17026151 ATATGTCAACAAGTGAAAGCGGAACATCAAGTGCCTTCAGGATTACTTCAGCCGATCATGATACC
1 ATATGTTAACAAGTGAAAGCGGAACATCAAGTGCCTTCAGGATTACTTCAGCCGATCATGATACC
17026216 CGAGTGGAAATGGGATCGAGTCACAATGGACTTTGTGTCCGGACTGCCATTGTCAGCAAGTAAGA
66 CGAGTGGAAATGGGATCGAGTCACAATGGACTTTGTGTCCGGACTGCCATTGTCAGCAAGTAAGA
17026281 AGGATGCGATTTGGATTGTTGTTGATAGACTGACTAAGTCGGCTCACTTTATCCCCGTGCGTATG
131 AGGATGCGATTTGGATTGTTGTTGATAGACTGACTAAGTCGGCTCACTTTATCCCCGTGCGTATG
17026346 GATTTTTCATTGGATAAACTAGCCGAATTGTATGTTTCTCAGATTGTGAGATTACACGGGGTACC
196 GATTTTTCATTGGATAAACTAGCCGAATTGTATGTTTCTCAGATTGTGAGATTACACGGGGTACC
17026411 TATTTCTATCGTGTCGGATAGAGATCCGAGATTCACCTCGCGATTTTGGAGGAAATTGCAAGAAG
261 TATTTCTATCGTGTCGGATAGAGATCCGAGATTCACCTCGCGATTTTGGAGGAAATTGCAAGAAG
*
17026476 CTTTGGGTACCAAGCTGCATTTTAGCACTGCTTTTCACCCCCAAACCGATGGTCAATCTGAGCGG
326 CTTTGGGGACCAAGCTGCATTTTAGCACTGCTTTTCACCCCCAAACCGATGGTCAATCTGAGCGG
17026541 ATAATTCAGATACTTGAGG
391 ATAATTCAGATACTTGAGG
17026560 ATATGTTAACAAGTGAAAGCGGAACATCAAGTGCCTTCAGGATTACTTCAGCCGATCATGATACC
1 ATATGTTAACAAGTGAAAGCGGAACATCAAGTGCCTTCAGGATTACTTCAGCCGATCATGATACC
17026625 CGAGTGGAAATGGGATCGAGTCACAATGGACTTTGTGTCCGGACTGCCATTGTCAGCAAGTAAGA
66 CGAGTGGAAATGGGATCGAGTCACAATGGACTTTGTGTCCGGACTGCCATTGTCAGCAAGTAAGA
17026690 AGGATGCGATTTGGATTGTTGTTGATAGACTGACTAAGTCGGCTCACTTTATCCCCGTGCGTATG
131 AGGATGCGATTTGGATTGTTGTTGATAGACTGACTAAGTCGGCTCACTTTATCCCCGTGCGTATG
17026755 GATTTTTCATTGGATAAACTAGCCGAATTGTATGTTTCTCAGATTGTGAGATTACACGGGGTACC
196 GATTTTTCATTGGATAAACTAGCCGAATTGTATGTTTCTCAGATTGTGAGATTACACGGGGTACC
17026820 TATTTCTATCGTGTCGGATAGAGATCCGAGATTCACCTCGCGATTTTGGAGGAAATTGCAAGAAG
261 TATTTCTATCGTGTCGGATAGAGATCCGAGATTCACCTCGCGATTTTGGAGGAAATTGCAAGAAG
17026885 CTTTGGGGACCAAGCTGCATTTTAGCACTGCTTTTCACCCCCAAACCGATGGTCAATCTGAGCGG
326 CTTTGGGGACCAAGCTGCATTTTAGCACTGCTTTTCACCCCCAAACCGATGGTCAATCTGAGCGG
17026950 ATAATTCAGATACTTGAGG
391 ATAATTCAGATACTTGAGG
17026969 ATATGTT
1 ATATGTT
17026976 GAGATGTTGC
Statistics
Matches: 414, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
409 414 1.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.29
Consensus pattern (409 bp):
ATATGTTAACAAGTGAAAGCGGAACATCAAGTGCCTTCAGGATTACTTCAGCCGATCATGATACC
CGAGTGGAAATGGGATCGAGTCACAATGGACTTTGTGTCCGGACTGCCATTGTCAGCAAGTAAGA
AGGATGCGATTTGGATTGTTGTTGATAGACTGACTAAGTCGGCTCACTTTATCCCCGTGCGTATG
GATTTTTCATTGGATAAACTAGCCGAATTGTATGTTTCTCAGATTGTGAGATTACACGGGGTACC
TATTTCTATCGTGTCGGATAGAGATCCGAGATTCACCTCGCGATTTTGGAGGAAATTGCAAGAAG
CTTTGGGGACCAAGCTGCATTTTAGCACTGCTTTTCACCCCCAAACCGATGGTCAATCTGAGCGG
ATAATTCAGATACTTGAGG
Found at i:17049527 original size:11 final size:11
Alignment explanation
Indices: 17049511--17049553 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
17049501 TCGGTATTGT
17049511 AAAAAAAAT-A
1 AAAAAAAATGA
17049521 AAAAAAAATTGA
1 AAAAAAAA-TGA
*
17049533 AAAAAAATTCGA
1 AAAAAAAAT-GA
17049545 AAAAAAAAT
1 AAAAAAAAT
17049554 TCAAAAAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 8 0.29
11 2 0.07
12 18 0.64
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.14
Consensus pattern (11 bp):
AAAAAAAATGA
Found at i:17049536 original size:13 final size:12
Alignment explanation
Indices: 17049506--17049562 Score: 66
Period size: 11 Copynumber: 4.9 Consensus size: 12
17049496 CATTTTCGGT
*
17049506 ATTGTAAAAAAA
1 ATTGAAAAAAAA
17049518 A-T-AAAAAAAA
1 ATTGAAAAAAAA
17049528 ATTG-AAAAAAA
1 ATTGAAAAAAAA
17049539 ATTCGAAAAAAAA
1 ATT-GAAAAAAAA
*
17049552 ATTCAAAAAAA
1 ATTGAAAAAAA
17049563 CGAGGGTTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
10 8 0.21
11 12 0.31
12 9 0.23
13 10 0.26
ACGTcount: A:0.74, C:0.04, G:0.05, T:0.18
Consensus pattern (12 bp):
ATTGAAAAAAAA
Found at i:17057402 original size:23 final size:23
Alignment explanation
Indices: 17057372--17057420 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
17057362 TGTGATGCTT
17057372 TATTCTTGTAAAATTATTATCAA
1 TATTCTTGTAAAATTATTATCAA
17057395 TATTCTTGTAAAATTATTATCAA
1 TATTCTTGTAAAATTATTATCAA
17057418 TAT
1 TAT
17057421 GTTTTAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.39, C:0.08, G:0.04, T:0.49
Consensus pattern (23 bp):
TATTCTTGTAAAATTATTATCAA
Found at i:17057722 original size:29 final size:28
Alignment explanation
Indices: 17057676--17057739 Score: 85
Period size: 29 Copynumber: 2.3 Consensus size: 28
17057666 TTTTAAAAAT
* *
17057676 TTTA-TTAATTTCTATTATTTTAATTTG
1 TTTACTTAATTTCAATTATTTTAATTGG
17057703 TTTACTTACATTTCAATTATTTTAATTGG
1 TTTACTTA-ATTTCAATTATTTTAATTGG
*
17057732 TTAACTTA
1 TTTACTTA
17057740 TGATTAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
27 4 0.12
28 3 0.09
29 25 0.78
ACGTcount: A:0.28, C:0.08, G:0.05, T:0.59
Consensus pattern (28 bp):
TTTACTTAATTTCAATTATTTTAATTGG
Found at i:17057749 original size:29 final size:29
Alignment explanation
Indices: 17057689--17057755 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
17057679 ATTAATTTCT
* * *
17057689 ATTATTTTAATTTGTTTACTTACATTTCA
1 ATTATTTTAATTGGTTAACTTACATTTAA
*
17057718 ATTATTTTAATTGGTTAACTTATGA-TTAA
1 ATTATTTTAATTGGTTAACTTA-CATTTAA
17057747 ATTATTTTA
1 ATTATTTTA
17057756 TATTAATTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 32 0.97
30 1 0.03
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (29 bp):
ATTATTTTAATTGGTTAACTTACATTTAA
Found at i:17061381 original size:19 final size:18
Alignment explanation
Indices: 17061357--17061402 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
17061347 CGCTCCTTTT
* *
17061357 TGCATTCATTTCATGCATC
1 TGCATTCATATCAT-CATA
17061376 TGCATTACATATCATCATA
1 TGCATT-CATATCATCATA
17061395 TGCATTCA
1 TGCATTCA
17061403 AGATTATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 15 0.62
20 7 0.29
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (18 bp):
TGCATTCATATCATCATA
Found at i:17069443 original size:39 final size:40
Alignment explanation
Indices: 17069348--17069621 Score: 206
Period size: 39 Copynumber: 6.7 Consensus size: 40
17069338 TTGAATGATG
* *
17069348 TCCGGGCTAAGTCCCGAAGGC-TCT-TGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
17069386 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
* *
17069427 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* ** *
17069466 TCCGGGTTAAGTCCCGAATACTAATTCCGGGCTAAGCCCCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGC--ATT---TG-T--G---CGAGATACTAAT
* *
17069517 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
17069556 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
17069595 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
17069622 AACGAGGAGC
Statistics
Matches: 190, Mismatches: 24, Indels: 41
0.75 0.09 0.16
Matches are distributed among these distances:
39 74 0.39
40 68 0.36
41 8 0.04
42 5 0.03
44 1 0.01
45 2 0.01
46 1 0.01
48 4 0.02
50 7 0.04
51 20 0.11
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:17069487 original size:25 final size:24
Alignment explanation
Indices: 17069459--17069533 Score: 105
Period size: 25 Copynumber: 3.0 Consensus size: 24
17069449 TTGTGCGAGT
* *
17069459 TACTAAATCCGGGTTAAGTCCCGAA
1 TACTAATTCCGGGCTAAG-CCCGAA
17069484 TACTAATTCCGGGCTAAGCCCCGAGA
1 TACTAATTCCGGGCTAAG-CCCGA-A
17069510 TACTAATTCCGGGCTAAGCCCGAA
1 TACTAATTCCGGGCTAAGCCCGAA
17069534 GGCATTTGTG
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
24 1 0.02
25 26 0.57
26 19 0.41
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (24 bp):
TACTAATTCCGGGCTAAGCCCGAA
Found at i:17069519 original size:26 final size:26
Alignment explanation
Indices: 17069454--17069530 Score: 111
Period size: 26 Copynumber: 3.0 Consensus size: 26
17069444 GGCATTTGTG
* * * *
17069454 CGAGTTACTAAATCCGGGTTAAGTCC
1 CGAGATACTAATTCCGGGCTAAGCCC
17069480 CGA-ATACTAATTCCGGGCTAAGCCC
1 CGAGATACTAATTCCGGGCTAAGCCC
17069505 CGAGATACTAATTCCGGGCTAAGCCC
1 CGAGATACTAATTCCGGGCTAAGCCC
17069531 GAAGGCATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
25 21 0.46
26 25 0.54
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (26 bp):
CGAGATACTAATTCCGGGCTAAGCCC
Found at i:17069635 original size:40 final size:39
Alignment explanation
Indices: 17069518--17069621 Score: 140
Period size: 40 Copynumber: 2.6 Consensus size: 39
17069508 GATACTAATT
17069518 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAA
* *
17069556 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTATAA
*
17069597 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
17069622 AACGAGGAGC
Statistics
Matches: 58, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
39 9 0.16
40 46 0.79
41 3 0.05
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAA
Found at i:17075246 original size:42 final size:42
Alignment explanation
Indices: 17075147--17075239 Score: 150
Period size: 42 Copynumber: 2.2 Consensus size: 42
17075137 GGCTCAAATA
* * *
17075147 TTGATCAGAATAGGGCATGAAGTGTTTAGAGTAGCTTGTATC
1 TTGATCAGAATGGGGCATGAAGTGTTTAGAGCAACTTGTATC
*
17075189 TTGATCAGAATGGGGCATGATGTGTTTAGAGCAACTTGTATC
1 TTGATCAGAATGGGGCATGAAGTGTTTAGAGCAACTTGTATC
17075231 TTGATCAGA
1 TTGATCAGA
17075240 TCGGGGCGTG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.28, C:0.11, G:0.28, T:0.33
Consensus pattern (42 bp):
TTGATCAGAATGGGGCATGAAGTGTTTAGAGCAACTTGTATC
Found at i:17076604 original size:44 final size:45
Alignment explanation
Indices: 17076536--17076901 Score: 187
Period size: 44 Copynumber: 7.8 Consensus size: 45
17076526 TAGATCGCAT
*
17076536 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCT-GAG
1 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCTAGAG
* * * *
17076580 CAGATTGAAGCTAGTAATCCTATCTCCCTGATATTACAG-TGGAG
1 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCTAGAG
* ** * *
17076624 CGGATT-AAAATA-AAGGATCTTATCTCTCTGATG-TTACAGTAGAGTAGATCG
1 CAGATTGAAGCTAGAA--ATCTTATCTCCCTGA-GATTAC---AG-CTAGA--G
* *
17076675 CATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGC-GGAG
1 ---CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCTAGAG
* * * *
17076722 CAGATTAAAGCTAGTAATCCTATCTCCCTGAGATTATAG-TAGAG
1 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCTAGAG
** * * * *
17076766 TGGATTAAAAC-A-AAGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCG
1 CAGATTGAAGCTAGAA--ATCTTATCTCCCTGAGA-TTAC---AG-CTAGA--G
* *
17076817 CATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAG-TGGAG
1 ---CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCTAGAG
* * * *
17076864 CAGATTAAAGCTAGTAATCCTATCTCCTTGAGATTACA
1 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACA
17076902 ATGGAGCGAA
Statistics
Matches: 245, Mismatches: 43, Indels: 68
0.69 0.12 0.19
Matches are distributed among these distances:
42 2 0.01
43 7 0.03
44 154 0.63
47 6 0.02
49 12 0.05
51 6 0.02
53 1 0.00
54 48 0.20
55 5 0.02
56 4 0.02
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (45 bp):
CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCTAGAG
Found at i:17076744 original size:142 final size:142
Alignment explanation
Indices: 17076488--17076964 Score: 783
Period size: 142 Copynumber: 3.4 Consensus size: 142
17076478 TTCCTAATCG
* * *
17076488 AAAATAAAGGATCTTATCTCTCTAAAATTACAATGGAGTAGATCGCATCAGATTGAAGCCAGAAA
1 AAAATAAAGGATCTTATCTCTCTGAAGTTACAATAGAGTAGATCGCATCAGATTGAAGCCAGAAA
* * *
17076553 TCTTATCTCCCTGAGATTACAGCTGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGATATTACA
66 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCTAGTAATCCTATCTCCCTGAGATTACA
17076618 GTGGAGCGGATT
131 GTGGAGCGGATT
* *
17076630 AAAATAAAGGATCTTATCTCTCTGATGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAA
1 AAAATAAAGGATCTTATCTCTCTGAAGTTACAATAGAGTAGATCGCATCAGATTGAAGCCAGAAA
*
17076695 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCTAGTAATCCTATCTCCCTGAGATTATA
66 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCTAGTAATCCTATCTCCCTGAGATTACA
* *
17076760 GTAGAGTGGATT
131 GTGGAGCGGATT
* *
17076772 AAAACAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAA
1 AAAATAAAGGATCTTATCTCTCTGAAGTTACAATAGAGTAGATCGCATCAGATTGAAGCCAGAAA
* *
17076837 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAGCTAGTAATCCTATCTCCTTGAGATTACA
66 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCTAGTAATCCTATCTCCCTGAGATTACA
* *
17076902 ATGGAGCGAATT
131 GTGGAGCGGATT
* *
17076914 AAAATAAAGGATCTTATCTTTCTGAAGTTACAATTGAGTAGATCGCATCAG
1 AAAATAAAGGATCTTATCTCTCTGAAGTTACAATAGAGTAGATCGCATCAG
17076965 GTCTTATCTC
Statistics
Matches: 311, Mismatches: 24, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
142 311 1.00
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (142 bp):
AAAATAAAGGATCTTATCTCTCTGAAGTTACAATAGAGTAGATCGCATCAGATTGAAGCCAGAAA
TCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCTAGTAATCCTATCTCCCTGAGATTACA
GTGGAGCGGATT
Found at i:17076763 original size:98 final size:97
Alignment explanation
Indices: 17076580--17076766 Score: 225
Period size: 98 Copynumber: 1.9 Consensus size: 97
17076570 TACAGCTGAG
* * * * * * *
17076580 CAGATTGAAGCTAGTAATCCTATCTCCCTGATATTACAGTGGAGCGGATTAAAATAAAGGATCTT
1 CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATTAAAAT-AAGAATCCT
*
17076645 ATCTCTCTGATGTTACAGTAGAGTAGATCGCAT
65 ATCTCCCTGATGTTACAGTAGAGTAGATCGCAT
* *
17076678 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCT-AGTAATCC
1 CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATTAAA-ATAAG-AATCC
*
17076742 TATCTCCCTGA-GATTATAGTAGAGT
64 TATCTCCCTGATG-TTACAGTAGAGT
17076767 GGATTAAAAC
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
97 3 0.04
98 71 0.95
99 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (97 bp):
CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATTAAAATAAGAATCCTA
TCTCCCTGATGTTACAGTAGAGTAGATCGCAT
Found at i:17076907 original size:44 final size:44
Alignment explanation
Indices: 17076820--17076916 Score: 124
Period size: 44 Copynumber: 2.2 Consensus size: 44
17076810 TAGATCGCAT
* * *
17076820 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGTGGAG
1 CAGATTAAAGCCAGAAATCCTATCTCCCTGAGATTACAATGGAG
* * *
17076864 CAGATTAAAGCTAGTAATCCTATCTCCTTGAGATTACAATGGAG
1 CAGATTAAAGCCAGAAATCCTATCTCCCTGAGATTACAATGGAG
17076908 C-GAATTAAA
1 CAG-ATTAAA
17076917 ATAAAGGATC
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
43 1 0.02
44 45 0.98
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.27
Consensus pattern (44 bp):
CAGATTAAAGCCAGAAATCCTATCTCCCTGAGATTACAATGGAG
Found at i:17077113 original size:50 final size:50
Alignment explanation
Indices: 17077040--17077222 Score: 190
Period size: 50 Copynumber: 3.7 Consensus size: 50
17077030 GCAGTGGAGC
** * *
17077040 AGATTAAAGCCACATCGGT-GAATCTTGCTTCCCCGATACTGCAGTTAAAA
1 AGATTAAAGCCACA-AAGTCGAATCTTACTTCCCCGACACTGCAGTTAAAA
* * *
17077090 AGATTAAAGCCACAAAGTCGAATCTTACTTCCCTGGCAGTGCAGTTAAAA
1 AGATTAAAGCCACAAAGTCGAATCTTACTTCCCCGACACTGCAGTTAAAA
* * * **
17077140 AGATTAAAGCCACAAAGGCGAATCTTACTTCCCTGGCGGTGCAGTTAAAA
1 AGATTAAAGCCACAAAGTCGAATCTTACTTCCCCGACACTGCAGTTAAAA
* * * *
17077190 ATATTGAAGCTA-AAATGACGAATCTTACTTCCC
1 AGATTAAAGCCACAAA-GTCGAATCTTACTTCCC
17077223 AAAACTTGCG
Statistics
Matches: 118, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
49 5 0.04
50 113 0.96
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.25
Consensus pattern (50 bp):
AGATTAAAGCCACAAAGTCGAATCTTACTTCCCCGACACTGCAGTTAAAA
Found at i:17086718 original size:76 final size:76
Alignment explanation
Indices: 17086575--17086806 Score: 288
Period size: 76 Copynumber: 3.0 Consensus size: 76
17086565 TCGTGTTATA
* * * * * * * *
17086575 CTTTATGTTTGGCGTTTCGGTTGGATCAACTCTTATGAGCTTCTGTTTGTTATTTCGATTCGTTC
1 CTTT-TGTTTGGCATTTCGATTGAATCAACTCTTATGAGCTTCTATTTGGTGTTTCGGTTCGATC
17086640 AGCTCTTATGAG
65 AGCTCTTATGAG
* *
17086652 CTTTTGTTTGGCATTTCGATTCAATCAACTCTTATGAGCTTCTATTTGGTGTTTTGGTTCGATCA
1 CTTTTGTTTGGCATTTCGATTGAATCAACTCTTATGAGCTTCTATTTGGTGTTTCGGTTCGATCA
17086717 GCTCTTATGAG
66 GCTCTTATGAG
* * * * *
17086728 CTTCTGTTTGACGA-TTCGA-TGAGATTAGCTCTTATGAGCTTCTATTTGGTGTTTCGGTTGGAT
1 CTTTTGTTTGGC-ATTTCGATTGA-ATCAACTCTTATGAGCTTCTATTTGGTGTTTCGGTTCGAT
17086791 CAGCTCTTATGAG
64 CAGCTCTTATGAG
17086804 CTT
1 CTT
17086807 CTATCTGCTG
Statistics
Matches: 136, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
75 2 0.01
76 129 0.95
77 5 0.04
ACGTcount: A:0.16, C:0.17, G:0.22, T:0.45
Consensus pattern (76 bp):
CTTTTGTTTGGCATTTCGATTGAATCAACTCTTATGAGCTTCTATTTGGTGTTTCGGTTCGATCA
GCTCTTATGAG
Found at i:17086783 original size:114 final size:114
Alignment explanation
Indices: 17086582--17086825 Score: 285
Period size: 114 Copynumber: 2.1 Consensus size: 114
17086572 ATACTTTATG
* * * ** **
17086582 TTTGGCGTTTCGGTTGGATCAACTCTTATGAGCTTCTGTTTGTTATTTCGATTCGTTCAGCTCTT
1 TTTGGTGTTTTGGTTCGATCAACTCTTATGAGCTTCTGTTTGCGATTTCGATGAGTTCAGCTCTT
* *
17086647 ATGAGCTTTTGTTTGGCATTTCGATTCAATCAACTCTTATGAGCTTCTA
66 ATGAGCTTCTATTTGGCATTTCGATTCAATCAACTCTTATGAGCTTCTA
*
17086696 TTTGGTGTTTTGGTTCGATCAGCTCTTATGAGCTTCTGTTTGACGA-TTCGATGAGATT-AGCTC
1 TTTGGTGTTTTGGTTCGATCAACTCTTATGAGCTTCTGTTTG-CGATTTCGATGAG-TTCAGCTC
** * ** *
17086759 TTATGAGCTTCTATTTGGTGTTTCGGTTGGATCAGCTCTTATGAGCTTCTA
64 TTATGAGCTTCTATTTGGCATTTCGATTCAATCAACTCTTATGAGCTTCTA
* *
17086810 TCTGCTGTGTTTGGTT
1 TTTGGTGT-TTTGGTT
17086826 GATTTGATGA
Statistics
Matches: 109, Mismatches: 18, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
114 99 0.91
115 10 0.09
ACGTcount: A:0.15, C:0.17, G:0.23, T:0.45
Consensus pattern (114 bp):
TTTGGTGTTTTGGTTCGATCAACTCTTATGAGCTTCTGTTTGCGATTTCGATGAGTTCAGCTCTT
ATGAGCTTCTATTTGGCATTTCGATTCAATCAACTCTTATGAGCTTCTA
Found at i:17086809 original size:38 final size:38
Alignment explanation
Indices: 17086582--17086810 Score: 233
Period size: 38 Copynumber: 6.0 Consensus size: 38
17086572 ATACTTTATG
* * *
17086582 TTTGGCGTTTCGGTTGGATCAACTCTTATGAGCTTCTG
1 TTTGGCGTTTCGGTTCGATCAGCTCTTATGAGCTTCTA
*** * * * *
17086620 TTTGTTATTTCGATTCGTTCAGCTCTTATGAGCTTTTG
1 TTTGGCGTTTCGGTTCGATCAGCTCTTATGAGCTTCTA
* * * *
17086658 TTTGGCATTTCGATTCAATCAACTCTTATGAGCTTCTA
1 TTTGGCGTTTCGGTTCGATCAGCTCTTATGAGCTTCTA
* * *
17086696 TTTGGTGTTTTGGTTCGATCAGCTCTTATGAGCTTCTG
1 TTTGGCGTTTCGGTTCGATCAGCTCTTATGAGCTTCTA
* * * ** *
17086734 TTTGACGATTCGATGAGATTAGCTCTTATGAGCTTCTA
1 TTTGGCGTTTCGGTTCGATCAGCTCTTATGAGCTTCTA
* *
17086772 TTTGGTGTTTCGGTTGGATCAGCTCTTATGAGCTTCTA
1 TTTGGCGTTTCGGTTCGATCAGCTCTTATGAGCTTCTA
17086810 T
1 T
17086811 CTGCTGTGTT
Statistics
Matches: 153, Mismatches: 38, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
38 153 1.00
ACGTcount: A:0.16, C:0.17, G:0.22, T:0.45
Consensus pattern (38 bp):
TTTGGCGTTTCGGTTCGATCAGCTCTTATGAGCTTCTA
Found at i:17095539 original size:11 final size:12
Alignment explanation
Indices: 17095516--17095552 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
17095506 TTTCGAAAAG
17095516 AAAA-AAAGAGA
1 AAAAGAAAGAGA
17095527 AAAAGAAAG-GA
1 AAAAGAAAGAGA
17095538 AAAAGAGAAGAGA
1 AAAAGA-AAGAGA
17095551 AA
1 AA
17095553 GAAGGGAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 12 0.52
12 7 0.30
13 4 0.17
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AAAAGAAAGAGA
Found at i:17095539 original size:21 final size:22
Alignment explanation
Indices: 17095510--17095560 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
17095500 ATCTGCTTTC
*
17095510 GAAAAGAAAAAAAG-AGAAAAA
1 GAAAGGAAAAAAAGAAGAAAAA
* *
17095531 GAAAGGAAAAAGAGAAGAGAAA
1 GAAAGGAAAAAAAGAAGAAAAA
*
17095553 GAAGGGAA
1 GAAAGGAA
17095561 TTGATGACTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (22 bp):
GAAAGGAAAAAAAGAAGAAAAA
Found at i:17102855 original size:38 final size:38
Alignment explanation
Indices: 17102544--17102844 Score: 395
Period size: 38 Copynumber: 7.9 Consensus size: 38
17102534 ATACTTTTTA
* *
17102544 TTTGGCGTTTCAGTTGTATCAGCTCTTATGAGCTTCTG
1 TTTGGCGTTTCGGTTGGATCAGCTCTTATGAGCTTCTG
* * * *
17102582 TTTGGCATTTCGATTCGATCAGCTCTTATGAGCTTCTA
1 TTTGGCGTTTCGGTTGGATCAGCTCTTATGAGCTTCTG
* ** * *
17102620 TTTGGCGTTTTGGTTTAATCACCTATTATGAGCTTCTG
1 TTTGGCGTTTCGGTTGGATCAGCTCTTATGAGCTTCTG
* * *
17102658 TTTGGTGTTTCGGTTGGACCAGCTCTTATGAGCGTCTG
1 TTTGGCGTTTCGGTTGGATCAGCTCTTATGAGCTTCTG
* * *
17102696 TTTGGCGATTCAGTTGGATCAGCTCTTTTGAGCTTCTG
1 TTTGGCGTTTCGGTTGGATCAGCTCTTATGAGCTTCTG
* *
17102734 TTTGGTGTTTCGATTGGATCAGCTCTTATGAGCTTCTG
1 TTTGGCGTTTCGGTTGGATCAGCTCTTATGAGCTTCTG
**
17102772 TTTGGCAATTCGGTTGGATCAGCTCTTATGAGCTTCTG
1 TTTGGCGTTTCGGTTGGATCAGCTCTTATGAGCTTCTG
* *
17102810 TTTGGTGTTTCGGTTGGATTAGCTCTTATGAGCTT
1 TTTGGCGTTTCGGTTGGATCAGCTCTTATGAGCTT
17102845 TTGTCTGGTG
Statistics
Matches: 222, Mismatches: 41, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 222 1.00
ACGTcount: A:0.14, C:0.17, G:0.25, T:0.44
Consensus pattern (38 bp):
TTTGGCGTTTCGGTTGGATCAGCTCTTATGAGCTTCTG
Found at i:17106047 original size:21 final size:23
Alignment explanation
Indices: 17106020--17106072 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 23
17106010 TATTTATACT
17106020 TTTATATATTTTAAATTTAT-TA
1 TTTATATATTTTAAATTTATGTA
* **
17106042 -TTATATTTTTTGGATTTATGTA
1 TTTATATATTTTAAATTTATGTA
17106064 TTTATATAT
1 TTTATATAT
17106073 ATTTTTTGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 16 0.64
22 2 0.08
23 7 0.28
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (23 bp):
TTTATATATTTTAAATTTATGTA
Found at i:17112194 original size:17 final size:17
Alignment explanation
Indices: 17112172--17112204 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
17112162 CTGAATCTGC
*
17112172 TTTGGGCTTCTATTTGG
1 TTTGGGCCTCTATTTGG
17112189 TTTGGGCCTCTATTTG
1 TTTGGGCCTCTATTTG
17112205 TTTTTATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.15, G:0.27, T:0.52
Consensus pattern (17 bp):
TTTGGGCCTCTATTTGG
Found at i:17120478 original size:17 final size:17
Alignment explanation
Indices: 17120456--17120514 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 17
17120446 CCGAATCTGC
* * *
17120456 TTTGGGCTTCTGTTTGG
1 TTTGGGCCTCAGTTGGG
17120473 TTTGGGCCTCAGTTGGG
1 TTTGGGCCTCAGTTGGG
* *
17120490 TTTGGGCCACA--TAGG
1 TTTGGGCCTCAGTTGGG
17120505 TTTGGGCCTC
1 TTTGGGCCTC
17120515 TATTTGTTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
15 12 0.33
17 24 0.67
ACGTcount: A:0.07, C:0.19, G:0.36, T:0.39
Consensus pattern (17 bp):
TTTGGGCCTCAGTTGGG
Found at i:17121850 original size:30 final size:30
Alignment explanation
Indices: 17121816--17121873 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
17121806 CATTGACTCG
17121816 AACTTTGGCAAAATTACAATTTTACCCCTA
1 AACTTTGGCAAAATTACAATTTTACCCCTA
* * * *
17121846 AACTTTTGCATATTTACACTTTTACCCC
1 AACTTTGGCAAAATTACAATTTTACCCC
17121874 AAAGCTCAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.26, G:0.05, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACAATTTTACCCCTA
Found at i:17124506 original size:50 final size:50
Alignment explanation
Indices: 17124395--17124641 Score: 230
Period size: 50 Copynumber: 4.8 Consensus size: 50
17124385 ATTTGGGTAA
* *
17124395 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTAGCATCATTGAGATTATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
* * *
17124451 AGAGGTCCCATGTAATACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * *
17124501 AGAGGTCCCCTGTAAGACCTTGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * * *
17124551 AGA-ACTCCTATGTAAGACCATATCTGGGATATGACATTGGCA--GTACAAG
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* * *
17124600 AAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
17124642 TGTTATTATC
Statistics
Matches: 161, Mismatches: 27, Indels: 13
0.80 0.13 0.06
Matches are distributed among these distances:
48 1 0.01
49 37 0.23
50 81 0.50
53 3 0.02
55 1 0.01
56 38 0.24
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:17136261 original size:20 final size:19
Alignment explanation
Indices: 17136223--17136261 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
17136213 TTTGGCTTGA
*
17136223 TTTTGAAGGAGTTTTGTGT
1 TTTTGAAGGAGTATTGTGT
17136242 TTTTGAAGGAGATATTGTGT
1 TTTTGAAGGAG-TATTGTGT
17136262 GCCTGATGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.49
Consensus pattern (19 bp):
TTTTGAAGGAGTATTGTGT
Found at i:17138876 original size:101 final size:100
Alignment explanation
Indices: 17138770--17138991 Score: 270
Period size: 101 Copynumber: 2.2 Consensus size: 100
17138760 TGGCACGAAT
* * *
17138770 TGTGTGTAGGCCACTATGTAAAAGTGAAAGTGAT-GGTCACGTGTGTAGTACTATGTGCAGGCTA
1 TGTGTGAAGGCTACTATGT-AAAG-GAAAGT-ATCGATCACGTGTGTAGTACTATGTGCAGGCTA
*
17138834 CTACGTGTACCGAA-A-TGATAGGTCACATGTGTAGTAC
63 CTACGTGTACCGAATAGTAAT-GGTCACATGTGTAGTAC
** * *
17138871 TGTGTGAAGGCTACTATGCGTACCGGATAGTTTCGATCACGTGTGTAGTACTATGTGCAGGCTAC
1 TGTGTGAAGGCTACTAT--GTAAAGGAAAGTATCGATCACGTGTGTAGTACTATGTGCAGGCTAC
*
17138936 TACGTGTATCGAATAGTAATGGTCACATGTGTAGTAC
64 TACGTGTACCGAATAGTAATGGTCACATGTGTAGTAC
* *
17138973 TATGTGCAGGCTACTATGT
1 TGTGTGAAGGCTACTATGT
17138992 GAACCAAACA
Statistics
Matches: 105, Mismatches: 11, Indels: 11
0.83 0.09 0.09
Matches are distributed among these distances:
100 3 0.03
101 62 0.59
102 35 0.33
103 5 0.05
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.31
Consensus pattern (100 bp):
TGTGTGAAGGCTACTATGTAAAGGAAAGTATCGATCACGTGTGTAGTACTATGTGCAGGCTACTA
CGTGTACCGAATAGTAATGGTCACATGTGTAGTAC
Found at i:17138933 original size:51 final size:51
Alignment explanation
Indices: 17138802--17138988 Score: 227
Period size: 51 Copynumber: 3.7 Consensus size: 51
17138792 AGTGAAAGTG
* * *
17138802 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GA-AATG
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
* * * *
17138851 ATAGGTCACATGTGTAGTACTGTGTGAAGGCTACTATGCGTACCGGATAGT-
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
* * * * *
17138902 TTCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATAGTA
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
17138954 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
17138989 TGTGAACCAA
Statistics
Matches: 115, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
49 2 0.02
50 36 0.31
51 74 0.64
52 3 0.03
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.30
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
Found at i:17138992 original size:26 final size:26
Alignment explanation
Indices: 17138912--17138992 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
17138902 TTCGATCACG
17138912 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* * *
17138938 CGTGTA-T-CGAATAGT-AATGG-TCAC-A
1 TGTGTAGTAC-TAT-GTGCA-GGCT-ACTA
17138963 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
17138989 TGTG
1 TGTG
17138993 AACCAAACAT
Statistics
Matches: 40, Mismatches: 6, Indels: 18
0.62 0.09 0.28
Matches are distributed among these distances:
24 1 0.03
25 17 0.43
26 21 0.52
27 1 0.03
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:17139157 original size:23 final size:22
Alignment explanation
Indices: 17139131--17139175 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
17139121 AAATTGACTA
17139131 AGTGT-AATTGAATAATGAATATG
1 AGTGTGAATTGAAT--TGAATATG
17139154 AGTGTGGAATTGAATTGAATAT
1 AGTGT-GAATTGAATTGAATAT
17139176 TGACTTAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 12 0.60
25 8 0.40
ACGTcount: A:0.40, C:0.00, G:0.24, T:0.36
Consensus pattern (22 bp):
AGTGTGAATTGAATTGAATATG
Found at i:17155689 original size:23 final size:24
Alignment explanation
Indices: 17155657--17155712 Score: 87
Period size: 23 Copynumber: 2.4 Consensus size: 24
17155647 TGCAAAATTA
17155657 AGTGGCTTGTCAACAACGCT-ATG
1 AGTGGCTTGTCAACAACGCTAATG
* *
17155680 AGTGGTTTGTCCACAACGCTAATG
1 AGTGGCTTGTCAACAACGCTAATG
17155704 AGTGGCTTG
1 AGTGGCTTG
17155713 GCTACAGTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 18 0.62
24 11 0.38
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (24 bp):
AGTGGCTTGTCAACAACGCTAATG
Found at i:17157174 original size:43 final size:43
Alignment explanation
Indices: 17157127--17157209 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
17157117 CATCTACATT
* *
17157127 GCAAATGCACAGTCCCAAGCCAATAGTTGATCATGTTGAAGTA
1 GCAAATGCACACTCCCAAGCCAATAGCTGATCATGTTGAAGTA
**
17157170 GCAAATGTGCACTCCCAAGCCAATAGCTGATCATGTTGAA
1 GCAAATGCACACTCCCAAGCCAATAGCTGATCATGTTGAA
17157210 CAGGTACTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (43 bp):
GCAAATGCACACTCCCAAGCCAATAGCTGATCATGTTGAAGTA
Found at i:17166997 original size:81 final size:81
Alignment explanation
Indices: 17166862--17167028 Score: 316
Period size: 81 Copynumber: 2.1 Consensus size: 81
17166852 ATCGAGTACC
* *
17166862 CGGATAGTGTTGTCCAACCAAAATTCAGCTTGTTCGGCATCGTCGCTATCCGTAGCTTTAAATTC
1 CGGATAGTGTTGTCCAACCAAAATTCAGCTTGCTCGGCATCGTCGCTATCCGTAGCCTTAAATTC
17166927 AGTAGCCCCATGTTTT
66 AGTAGCCCCATGTTTT
17166943 CGGATAGTGTTGTCCAACCAAAATTCAGCTTGCTCGGCATCGTCGCTATCCGTAGCCTTAAATTC
1 CGGATAGTGTTGTCCAACCAAAATTCAGCTTGCTCGGCATCGTCGCTATCCGTAGCCTTAAATTC
17167008 AGTAGCCCCATGTTTT
66 AGTAGCCCCATGTTTT
17167024 CGGAT
1 CGGAT
17167029 TCTGTCAACT
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
81 84 1.00
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (81 bp):
CGGATAGTGTTGTCCAACCAAAATTCAGCTTGCTCGGCATCGTCGCTATCCGTAGCCTTAAATTC
AGTAGCCCCATGTTTT
Found at i:17171497 original size:29 final size:29
Alignment explanation
Indices: 17171452--17171529 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
17171442 TTTTAAATGT
* *
17171452 TAGTCACTGCCCA-ACTCTTGTTTGGCA-GA
1 TAGTCACT-ACCAGACTCTTGGTTGG-AGGA
*
17171481 TAGTCACTACTAGACTCTTGGTTGGAGGA
1 TAGTCACTACCAGACTCTTGGTTGGAGGA
*
17171510 TAGTCACTTCCAGACTCTTG
1 TAGTCACTACCAGACTCTTG
17171530 ACTTAAAGAT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
28 3 0.07
29 39 0.93
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (29 bp):
TAGTCACTACCAGACTCTTGGTTGGAGGA
Found at i:17172192 original size:52 final size:54
Alignment explanation
Indices: 17172126--17172234 Score: 136
Period size: 53 Copynumber: 2.1 Consensus size: 54
17172116 CTGTCATAAA
17172126 CATGTGCTCATATA-TCTCCGTATAATCCAATC-AAACCTCCACAAAACCAAATAT
1 CATGTGCTCATATATTCTCCGTATAAT-CAATCGAAACCTCCACAAAACC-AATAT
** **
17172180 CATGTG-T-ATATATTCTTTGTATAATCTGTCGAAACCTCCACAAAACCAATAT
1 CATGTGCTCATATATTCTCCGTATAATCAATCGAAACCTCCACAAAACCAATAT
17172232 CAT
1 CAT
17172235 ATGGCATAGA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
52 16 0.33
53 27 0.55
54 6 0.12
ACGTcount: A:0.37, C:0.26, G:0.07, T:0.30
Consensus pattern (54 bp):
CATGTGCTCATATATTCTCCGTATAATCAATCGAAACCTCCACAAAACCAATAT
Found at i:17180287 original size:23 final size:23
Alignment explanation
Indices: 17180261--17180305 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
17180251 TTTTTTACTG
*
17180261 TAGTAATTTTCGGGGTATTACAA
1 TAGTAATTTTCGGGATATTACAA
*
17180284 TAGTAATTTTTGGGATATTACA
1 TAGTAATTTTCGGGATATTACA
17180306 TATGTTTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (23 bp):
TAGTAATTTTCGGGATATTACAA
Found at i:17181853 original size:40 final size:40
Alignment explanation
Indices: 17181755--17182017 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
17181745 TCCTCGTTCA
* * * * *
17181755 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
17181794 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
17181834 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
17181874 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
17181914 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
17181954 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
17181994 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
17182018 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:17189804 original size:40 final size:40
Alignment explanation
Indices: 17189706--17189968 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
17189696 TCCTCGTTCA
* * * * *
17189706 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
17189745 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
17189785 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
17189825 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
17189865 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
17189905 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
17189945 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
17189969 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:17197722 original size:15 final size:16
Alignment explanation
Indices: 17197702--17197731 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
17197692 TAACAACTAA
17197702 TATATAAT-TATATTT
1 TATATAATATATATTT
17197717 TATATAATATATATT
1 TATATAATATATATT
17197732 AATTTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATATAATATATATTT
Found at i:17204540 original size:21 final size:22
Alignment explanation
Indices: 17204516--17204564 Score: 55
Period size: 24 Copynumber: 2.2 Consensus size: 22
17204506 CAGTTTTACT
17204516 ACAA-TATTAAGTGGCTTGACC
1 ACAATTATTAAGTGGCTTGACC
* *
17204537 ACAATGTTATTGAGTGGCTTGTCC
1 ACAA--TTATTAAGTGGCTTGACC
17204561 ACAA
1 ACAA
17204565 CATGTAGCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 4 0.17
24 19 0.83
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (22 bp):
ACAATTATTAAGTGGCTTGACC
Found at i:17204624 original size:39 final size:39
Alignment explanation
Indices: 17204544--17204645 Score: 107
Period size: 39 Copynumber: 2.6 Consensus size: 39
17204534 ACCACAATGT
* * * **
17204544 TATTGAGTGGCTTGTCCACAACATGTAGCTTGACTGTGA
1 TATTGAGTGGCTTGTCCACAACGTGCAACTTGACTACGA
*
17204583 TATTGAGTGGCTTGTCCACAACGTGCAACTCT-TCTACGA
1 TATTGAGTGGCTTGTCCACAACGTGCAACT-TGACTACGA
* * *
17204622 TATTAAATGGCTTGGCCACAACGT
1 TATTGAGTGGCTTGTCCACAACGT
17204646 TATTGAGTGG
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
39 52 0.98
40 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.31
Consensus pattern (39 bp):
TATTGAGTGGCTTGTCCACAACGTGCAACTTGACTACGA
Found at i:17204650 original size:63 final size:63
Alignment explanation
Indices: 17204583--17204708 Score: 173
Period size: 63 Copynumber: 2.0 Consensus size: 63
17204573 TTGACTGTGA
* *
17204583 TATTGAGTGGCTTGTCCACAACGTGCAACTCT-TCTACGATATTAAATGGCTTGGCCACAACGT
1 TATTGAGTGGCTTGTCCACAACGTGCAACT-TGTCTACAATATTAAATAGCTTGGCCACAACGT
* * * * *
17204646 TATTGAGTGGTTTGTCCACCACGTGCAACTTGTCTGCAATATTGAGTAGCTTGGCCACAACGT
1 TATTGAGTGGCTTGTCCACAACGTGCAACTTGTCTACAATATTAAATAGCTTGGCCACAACGT
17204709 GGTATGTCAT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
62 1 0.02
63 54 0.98
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (63 bp):
TATTGAGTGGCTTGTCCACAACGTGCAACTTGTCTACAATATTAAATAGCTTGGCCACAACGT
Found at i:17204661 original size:102 final size:102
Alignment explanation
Indices: 17204514--17204709 Score: 266
Period size: 102 Copynumber: 1.9 Consensus size: 102
17204504 GGCAGTTTTA
* * * *
17204514 CTACAATATTAAGTGGCTTGACCACAATGTTATTGAGTGGCTTGTCCACAACATGTAGCTTGACT
1 CTACAATATTAAATGGCTTGACCACAACGTTATTGAGTGGCTTGTCCACAACATGCAACTTGACT
** * *
17204579 GTGATATTGAGTGGCTTGTCCACAACGTGCAACTCTT
66 GCAATATTGAGTAGCTTGGCCACAACGTGCAACTCTT
* * * * * *
17204616 CTACGATATTAAATGGCTTGGCCACAACGTTATTGAGTGGTTTGTCCACCACGTGCAACTTGTCT
1 CTACAATATTAAATGGCTTGACCACAACGTTATTGAGTGGCTTGTCCACAACATGCAACTTGACT
17204681 GCAATATTGAGTAGCTTGGCCACAACGTG
66 GCAATATTGAGTAGCTTGGCCACAACGTG
17204710 GTATGTCATT
Statistics
Matches: 80, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
102 80 1.00
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.31
Consensus pattern (102 bp):
CTACAATATTAAATGGCTTGACCACAACGTTATTGAGTGGCTTGTCCACAACATGCAACTTGACT
GCAATATTGAGTAGCTTGGCCACAACGTGCAACTCTT
Found at i:17220333 original size:13 final size:13
Alignment explanation
Indices: 17220313--17220337 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17220303 TTATTTTATT
17220313 TTATTTTGTTTTG
1 TTATTTTGTTTTG
17220326 TTATTTTGTTTT
1 TTATTTTGTTTT
17220338 CCCCAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.12, T:0.80
Consensus pattern (13 bp):
TTATTTTGTTTTG
Found at i:17220337 original size:5 final size:5
Alignment explanation
Indices: 17220293--17220324 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
17220283 AGTTGGGATA
*
17220293 TTATT TTATT TTATT TTATT TTATT TTGTT TT
1 TTATT TTATT TTATT TTATT TTATT TTATT TT
17220325 GTTATTTTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:17222064 original size:23 final size:23
Alignment explanation
Indices: 17221958--17222058 Score: 98
Period size: 23 Copynumber: 4.4 Consensus size: 23
17221948 ACATGACTTA
* *
17221958 CCACAAAGGCACTT--AGAGTACG
1 CCACAAAGGCA-TTACAGAATATG
* *
17221980 CCACAAAGGCATTATAGAATACG
1 CCACAAAGGCATTACAGAATATG
* *
17222003 CCACAAAGGCATTACAAAATATA
1 CCACAAAGGCATTACAGAATATG
** *
17222026 CCACAAATACATCACAGAATATG
1 CCACAAAGGCATTACAGAATATG
17222049 CCACAAAGGC
1 CCACAAAGGC
17222059 TTCACAAATA
Statistics
Matches: 65, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
21 2 0.03
22 11 0.17
23 52 0.80
ACGTcount: A:0.45, C:0.26, G:0.15, T:0.15
Consensus pattern (23 bp):
CCACAAAGGCATTACAGAATATG
Found at i:17237228 original size:33 final size:34
Alignment explanation
Indices: 17237180--17237388 Score: 127
Period size: 33 Copynumber: 5.7 Consensus size: 34
17237170 TTATCCGTTA
* *
17237180 TCGGTGGATTCAGCACTTAGCAACCACCAGTGAT
1 TCGGTGGAATCAGCACTTAGCAACCACCAATGAT
*
17237214 TCGG-GGAATCAGCACTTAGCAACCCCTTTCACATTCAGTGAT
1 TCGGTGGAATCAGCACTTAGCAA---C---CAC---CAATGAT
* * * *
17237256 ACGGTGGAATCAACACTTAGAAACCACCAATGAA
1 TCGGTGGAATCAGCACTTAGCAACCACCAATGAT
* *
17237290 TC-GAGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGAT
1 TCGGTGGAATCAGCACTTAGCAACCAC---CA-A--T--GAT
* * *
17237331 ACGGTGGGATCAGCACTTAGCAACCACCAATGAA
1 TCGGTGGAATCAGCACTTAGCAACCACCAATGAT
*
17237365 TCGG-GGAATCAGCACTTATCAACC
1 TCGGTGGAATCAGCACTTAGCAACC
17237389 CCCTTTATAT
Statistics
Matches: 136, Mismatches: 20, Indels: 39
0.70 0.10 0.20
Matches are distributed among these distances:
33 55 0.40
34 15 0.11
36 4 0.03
37 4 0.03
38 1 0.01
39 6 0.04
40 1 0.01
41 3 0.02
42 31 0.23
43 16 0.12
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.22
Consensus pattern (34 bp):
TCGGTGGAATCAGCACTTAGCAACCACCAATGAT
Found at i:17237307 original size:76 final size:75
Alignment explanation
Indices: 17237181--17237390 Score: 321
Period size: 76 Copynumber: 2.8 Consensus size: 75
17237171 TATCCGTTAT
* * *
17237181 CGGTGGATTCAGCACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
*
17237246 ATTCAGTGATA
66 ATTCA-AGATA
* * *
17237257 CGGTGGAATCAACACTTAGAAACCACCAATGAATCGAGGAATCAGCACTTAGCAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
*
17237322 ATTTAAGATA
66 ATTCAAGATA
* *
17237332 CGGTGGGATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTATCAACCCC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCC
17237391 CTTTATATTC
Statistics
Matches: 121, Mismatches: 13, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
75 58 0.48
76 63 0.52
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.21
Consensus pattern (75 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
ATTCAAGATA
Found at i:17249497 original size:28 final size:28
Alignment explanation
Indices: 17249409--17249537 Score: 136
Period size: 28 Copynumber: 4.6 Consensus size: 28
17249399 GCTATCTCTG
*
17249409 AAAGGAAGCCTTTGTGGCGATCTCTGTT
1 AAAGGAAGCCTTTGTGGCGATCTCTATT
**
17249437 ATAAGGAAGTGCCTTTGTGGTTATCTCTA--
1 A-AAGGAA--GCCTTTGTGGCGATCTCTATT
17249466 AAAGGAAGCCTTTGTGGCGATCTCTATT
1 AAAGGAAGCCTTTGTGGCGATCTCTATT
* * * * *
17249494 AAAGAAAACCTTTGTGCCTATATCTATT
1 AAAGGAAGCCTTTGTGGCGATCTCTATT
*
17249522 AAAGGAAACCTTTGTG
1 AAAGGAAGCCTTTGTG
17249538 ACTATATCTG
Statistics
Matches: 85, Mismatches: 11, Indels: 10
0.80 0.10 0.09
Matches are distributed among these distances:
26 17 0.20
28 45 0.53
29 7 0.08
31 16 0.19
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.33
Consensus pattern (28 bp):
AAAGGAAGCCTTTGTGGCGATCTCTATT
Found at i:17249542 original size:28 final size:28
Alignment explanation
Indices: 17249466--17249546 Score: 108
Period size: 28 Copynumber: 2.9 Consensus size: 28
17249456 GTTATCTCTA
* * * *
17249466 AAAGGAAGCCTTTGTGGCGATCTCTATT
1 AAAGGAAACCTTTGTGACTATATCTATT
* *
17249494 AAAGAAAACCTTTGTGCCTATATCTATT
1 AAAGGAAACCTTTGTGACTATATCTATT
17249522 AAAGGAAACCTTTGTGACTATATCT
1 AAAGGAAACCTTTGTGACTATATCT
17249547 GAAAGGACGC
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Consensus pattern (28 bp):
AAAGGAAACCTTTGTGACTATATCTATT
Found at i:17249635 original size:29 final size:28
Alignment explanation
Indices: 17249392--17249636 Score: 139
Period size: 29 Copynumber: 8.8 Consensus size: 28
17249382 AAAGAAGTGT
* *
17249392 CTTTATGGCTATCTC--TGAAAGGAAGC
1 CTTTGTGGCTATCTCATTAAAAGGAAGC
* * *
17249418 CTTTGTGGCGATCTCTGTTATAAGGAAGTGC
1 CTTTGTGGCTATCTC-ATTAAAAGGAA--GC
*
17249449 CTTTGTGGTTATCTC--TAAAAGGAAGC
1 CTTTGTGGCTATCTCATTAAAAGGAAGC
* * *
17249475 CTTTGTGGCGATCTCTATT-AAAGAAAAC
1 CTTTGTGGCTATCTC-ATTAAAAGGAAGC
* * *
17249503 CTTTGTGCCTATATCTATT-AAAGGAAAC
1 CTTTGTGGCTATCTC-ATTAAAAGGAAGC
* * * *
17249531 CTTTGTGACTATATC--TGAAAGGACGC
1 CTTTGTGGCTATCTCATTAAAAGGAAGC
* * * * *
17249557 GTTTATGGTTATCTCTGTTAAAAGGATGC
1 CTTTGTGGCTATCTC-ATTAAAAGGAAGC
* *
17249586 CTTTGTGGCTATAAAT-ATTAAAAGGATGC
1 CTTTGTGGCTAT--CTCATTAAAAGGAAGC
17249615 CTTTGTGGCTATCTCAGTTAAA
1 CTTTGTGGCTATCTCA-TTAAA
17249637 TGATGTCTTG
Statistics
Matches: 172, Mismatches: 31, Indels: 29
0.74 0.13 0.12
Matches are distributed among these distances:
25 1 0.01
26 45 0.26
27 1 0.01
28 54 0.31
29 55 0.32
31 16 0.09
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (28 bp):
CTTTGTGGCTATCTCATTAAAAGGAAGC
Found at i:17259906 original size:34 final size:34
Alignment explanation
Indices: 17259868--17259935 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
17259858 AAAATATGTG
17259868 AAAGGCTATAAAACAATTTTAGTTTTACATTTGT
1 AAAGGCTATAAAACAATTTTAGTTTTACATTTGT
17259902 AAAGGCTATAAAACAATTTTAGTTTTACATTTGT
1 AAAGGCTATAAAACAATTTTAGTTTTACATTTGT
17259936 GTAACTGTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.41
Consensus pattern (34 bp):
AAAGGCTATAAAACAATTTTAGTTTTACATTTGT
Found at i:17275716 original size:39 final size:40
Alignment explanation
Indices: 17275615--17275799 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
17275605 TTGAATGATG
* * * *
17275615 TCCGGGCTAAGTCCCGAAGGC-TTTCTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
17275654 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
*
17275695 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
17275734 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
17275773 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
17275800 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 9 0.07
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:17275821 original size:79 final size:79
Alignment explanation
Indices: 17275668--17275832 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
17275658 GGACTAAGAT
* **
17275668 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
* *
17275733 ATCTGGGTTAAGTC
66 ATCTCGGTTAAATC
* *
17275747 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
17275810 TATATC-CGGTTAAATT
63 TAAATCTCGGTTAAATC
17275826 CCGAAGG
1 CCGAAGG
17275833 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCTCGGTTAAATC
Found at i:17282440 original size:39 final size:39
Alignment explanation
Indices: 17282397--17282513 Score: 171
Period size: 39 Copynumber: 3.0 Consensus size: 39
17282387 TCATTTTGTT
*
17282397 TGAGTTTTTAATTATGTCATAATTTAAACATCATTAATA
1 TGAGTTTTTAATTATGTCATAATTTGAACATCATTAATA
* *
17282436 TGAGTTTTTAAATATGTCATAATCTGAACATCATTAATA
1 TGAGTTTTTAATTATGTCATAATTTGAACATCATTAATA
* * * *
17282475 AGAGTTTTTAATTATGTCATAGTTTGGACATCTTTAATA
1 TGAGTTTTTAATTATGTCATAATTTGAACATCATTAATA
17282514 CATTTTTTTA
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 69 1.00
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.44
Consensus pattern (39 bp):
TGAGTTTTTAATTATGTCATAATTTGAACATCATTAATA
Found at i:17284710 original size:27 final size:27
Alignment explanation
Indices: 17284680--17284857 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
17284670 ATATTGAGTC
* * * *
17284680 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
17284707 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
17284734 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
17284762 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
17284789 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
17284816 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
17284843 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
17284858 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:17284819 original size:82 final size:81
Alignment explanation
Indices: 17284701--17284856 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
17284691 TGCTATATAA
* *
17284701 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
17284766 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
17284783 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
17284847 CACTTAGTGC
65 CACTTAGTGC
17284857 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:17292774 original size:27 final size:27
Alignment explanation
Indices: 17292744--17292921 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
17292734 ATATTGAGCC
* * * *
17292744 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
17292771 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
17292798 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
17292826 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
17292853 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
17292880 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
17292907 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
17292922 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:17292883 original size:82 final size:81
Alignment explanation
Indices: 17292765--17292920 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
17292755 TGCTATATAA
* *
17292765 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
17292830 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
17292847 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
17292911 CACTTAGTGC
65 CACTTAGTGC
17292921 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:17300374 original size:909 final size:903
Alignment explanation
Indices: 17298058--17300424 Score: 3119
Period size: 909 Copynumber: 2.6 Consensus size: 903
17298048 AATAAAAAAC
** * *
17298058 ATGAAGAATCAACCATATTAAGATGATTTGAACTATTCTTGGATGAAAAGATGATGTCTAATCGA
1 ATGAAGAATCAAGTATATTAAGATGATTTGAACCATTCTTGGATGAAAAGATGATGTCAAATCGA
* *
17298123 GATCTAAACAAAAAAATAAAA-CAATTTAGATTTCTTGTTAAAAGAATGAAAAAGTAAACCAAAC
66 GATCTAAACAAAAGAATAAAACCAA-TTAGATTT-TTGTTAAAAGAATGAAAAAGAAAACCAAAC
* * * * * ** *
17298187 AGCATGGAAGGAGAGAGGTGGCAAAGTAGAGTGC-ACGACCGAGTGGGATACGGTTTCTTGGATG
129 AGCAAGGAAAGAGAGAGATGGCAAAG-AGAG-CCTAAGAAAGAGTGGGATACGGTTTCATGGATG
*
17298251 AGAAAGAACCATTCTTGAACCAAAAGAAGGCCTCAAAATA-TATCTAGAATCGAAAGAAGAAAAT
192 AGAAAGAACCATTCTTGAACCAAAAGAAGGCCTCAAACTAGT-TCTA-AATCGAAAGAAGAAAAT
* ** * * * *
17298315 AGATTG-TCAGAATGGATTTTTAAGCTATAAC-AGTTTTTTTTGTCATAAAAGCAATTGACACCA
255 AGA-TGATCAGAATGGATTTTTAAGCCATAACAAAATTTTTTTGTGATAAAAGCAATCGGCACAA
* * * ** * * *
17298378 -AATAAAAAAAAGACTTCCCTGTTTTCAATGGTTCTTAGCATATTATGAAGGGGAAATATATTTT
319 TAAGAAAAAAGAGACTTCCTTGTTTTCAATGGTTCTTAGTGTATTAAGAAGGGG-AA-CTCTTTT
* * * * * *
17298442 CTTGTTGATTCTTGATCTGATAGAAAAGAAATAAAATATTAGAAAGAAATAGACAAGAATCGAAA
382 CTTGTTGATTCCTGATATGA-AGTAAAGAAATAAAAGATTAGAAAAAAATAGACAAGAATCGAAC
** * *
17298507 TACAAATTAGTGGAAAGAGAGATGAAAGCTTTGAAAACACTACAGTGGCATGAAGATGTCCTAAG
446 TACAAATTAAAGGAAAGAGAGATGAAAGCTTTGAAAACACTAAAGTGGCGTGAAGATGTCCTAA-
* *
17298572 GAGCCTTGGATTA-TTGGATTTTCAAGATTAGTCAGAATCAAAGTTTCATCTTTCGCCTAGAGCC
510 GAGCCTTGGA-TAGTTGGATTCTCAAGATTAGTCAGAATCAAAATTTCATCTTTCGCCTAGAGCC
* *
17298636 GTAGAATAGATCCACGATTGGGAAAAACTTGAGATCCTATTCTGCACGCGTCCTTATCAATTATT
574 GTACAATAGATCCACGATTGGGAAAAACTTGAGATCCTATTCTGCACGCATCCTTATCAATTATT
* *
17298701 CAAATCTTTTCTTAATCGATTGTTTTCCCATCTTGGAAGCCTTAATTCCATTAGAATTTATCAAG
639 CAAATCTTTTCTTAATCGATTGTTATCCCATCTTGGAAGCCTTAATACCATTAGAATTTATCAAG
* *
17298766 AACAAGTCCTCTCAGTGAACCGAATTGATCTCTTTCAAGATCCTTGTTCTTGCTCGGTTTACTTG
704 AACAAGTCCTCTCAGTGAACCGAATTGATCTCTTTCAAGAACCTTGTTCTTGCTCAGTTTACTTG
* *
17298831 TTCTATTTCTATCACAATGAAATAAATTTATTCAATGTTCTTCAATTATTAAATTTGAATCAGTC
769 TTCTATTTCTATCACAATGAAATAAATTTATTCAATGTTCTTCAATTATTAAATTTGAATAAGTA
* * * * * *
17298896 GTTTATGAAGTGATACATGCGGTACAGGATCAATAGTTTTTCCAAGTTTAAGATTTTATATTGGG
834 ATTTATGAAGTGATA-ATGCAGTACAAGATCAAAACTTTTTCCAAGTTTAAGATTTTACATTGGG
17298961 CTCTAG
898 CTCTAG
* *
17298967 ATGAAGAATCAAGTATATTAAGATGATTTGAAGCATTCTTGGATGAAAAGATGATGTCAATTCGA
1 ATGAAGAATCAAGTATATTAAGATGATTTGAACCATTCTTGGATGAAAAGATGATGTCAAATCGA
17299032 GATCTAAACAAAAGAAATAAAACCAATTAGATTTTTGGTTAAAAGAATGAAAAAGAAAACCAAAC
66 GATCTAAACAAAAG-AATAAAACCAATTAGATTTTT-GTTAAAAGAATGAAAAAGAAAACCAAAC
* * * * *
17299097 AGCAAAGAAAGAGAGAGATAGCCAAAGAAGAGTCTAAGAAAGTGTGGGATGCGGTTTCATGGATG
129 AGCAAGGAAAGAGAGAGAT-GGCAAAG-AGAGCCTAAGAAAGAGTGGGATACGGTTTCATGGATG
* * * *
17299162 AGAAGGAACCATTCTTGAACCAAAAGAAGGCCTCTAACTAGTTCTAAAATCAAAAGAAGAAAACA
192 AGAAAGAACCATTCTTGAACCAAAAGAAGGCCTCAAACTAGTTCT-AAATCGAAAGAAGAAAATA
* * * * * * * * *
17299227 TATTACCAGAATGGATTTTTATGCCATAATAAAATTCTTTTGTGATAAAAGAAATCAGCATAATA
256 GATGATCAGAATGGATTTTTAAGCCATAACAAAATTTTTTTGTGATAAAAGCAATCGGCACAATA
* * *
17299292 AGAAAAGAAGAGACTTCCTTGTTTTCAAAGGTTCTTCGTGTATTAAGAAGGGGGAACACATTTTC
321 AGAAAA-AAGAGACTTCCTTGTTTTCAATGGTTCTTAGTGTATTAAGAA-GGGGAACTC-TTTTC
* * * * *
17299357 TTATTGATTCCTGATATGGAAGTAAAGAACTAAAAGATTAGAAAAAAACAGACCAGAATTGAACT
383 TTGTTGATTCCTGATAT-GAAGTAAAGAAATAAAAGATTAGAAAAAAATAGACAAGAATCGAACT
* *
17299422 ACAAATTAAAGAAAAGAGAGATCAAAGCTTTGAAAACACTAAAGTGGCGTGAAGATGTCCTAATG
447 ACAAATTAAAGGAAAGAGAGATGAAAGCTTTGAAAACACTAAAGTGGCGTGAAGATGTCCTAA-G
* *
17299487 AGCCTTGGATAGTTGGATTCTCAAGATTAGTCAGAATCAAAATTTCATCTTTCGTCTAGAGCTGT
511 AGCCTTGGATAGTTGGATTCTCAAGATTAGTCAGAATCAAAATTTCATCTTTCGCCTAGAGCCGT
* *
17299552 ACTATAGATCCACGACTT-GGACAAACTTGAGATCCTATTTCT-CACGCATCCTTATCAATTATT
576 ACAATAGATCCACGA-TTGGGAAAAACTTGAGATCCTA-TTCTGCACGCATCCTTATCAATTATT
* * * * *
17299615 CAAATCTTTTCTTAATCGATTGTTATCCCTTCTTTGCAGCCTTAATACCATTGGATTTTATCAAG
639 CAAATCTTTTCTTAATCGATTGTTATCCCATCTTGGAAGCCTTAATACCATTAGAATTTATCAAG
* *
17299680 AACAAGTCCTCTCAGTGAACCGACTTGATCTCTTTCAA-AACCTTGTTCTTGCTTAGTTTACTTG
704 AACAAGTCCTCTCAGTGAACCGAATTGATCTCTTTCAAGAACCTTGTTCTTGCTCAGTTTACTTG
* * * ** *
17299744 TTCTTTTTCTATCACAATGAATTGAATTTATTTGATGTTCTGT-AGTTATTAAATTTGAATAAGT
769 TTCTATTTCTATCACAATGAAATAAATTTATTCAATGTTCT-TCAATTATTAAATTTGAATAAGT
* * *
17299808 AATTTATGAAGTGAT-GTGCAGTACAAGATCAAAACTTTTTCTAAGTTTCAGATTTTACATTGGG
833 AATTTATGAAGTGATAATGCAGTACAAGATCAAAACTTTTTCCAAGTTTAAGATTTTACATTGGG
17299872 CTCTAG
898 CTCTAG
* *
17299878 ATGAAGAATCAAGTATATTAAGATGATTTGAACCATTCTTGGATGAAAAAGATGATGTCGAGTCG
1 ATGAAGAATCAAGTATATTAAGATGATTTGAACCATTCTTGGATG-AAAAGATGATGTCAAATCG
*
17299943 AGATCTAAACAAAAGAATAAAACCAATTA-ATTTTT-CTAAAAGAATGAAAAAGAAAACCAAACA
65 AGATCTAAACAAAAGAATAAAACCAATTAGATTTTTGTTAAAAGAATGAAAAAGAAAACCAAACA
* *
17300006 GCAAGGAAAGAGAGAGATGGCGAAAAGAGGAGCCTAAGAATGAGTGGGATATGGTTTCATGGATG
130 GCAAGGAAAGAGAGAGATGGC--AAAGA-GAGCCTAAGAAAGAGTGGGATACGGTTTCATGGATG
* * * * *
17300071 AGAATGAACCACTCTTGAACCAAAAGAAGGACTCCAACTAGTTTTGAAATCGAAAGAAGAAAATA
192 AGAAAGAACCATTCTTGAACCAAAAGAAGGCCTCAAACTAGTTCT-AAATCGAAAGAAGAAAATA
17300136 GATGATC-GTAATGGATTTTTAAGCCATAACAAAATTTTTTTGTGATAAAAGCAATCGGCACAAT
256 GATGATCAG-AATGGATTTTTAAGCCATAACAAAATTTTTTTGTGATAAAAGCAATCGGCACAAT
** *
17300200 AAGAAAGAAAGAGACTTATTTGTTTTCAATGGTTCTTGGTGTATTAAGAATGGGGAACGTCTTTT
320 AAGAAA-AAAGAGACTTCCTTGTTTTCAATGGTTCTTAGTGTATTAAGAA-GGGGAAC-TCTTTT
* *
17300265 CTTGTTGATTCCTCATATAGAAGTAAAGAAATAAAAGATTAGAAATAAATAGACAAGAATCGAAC
382 CTTGTTGATTCCTGATAT-GAAGTAAAGAAATAAAAGATTAGAAAAAAATAGACAAGAATCGAAC
* * * *
17300330 TACAAATTAAAGGAAAGAGAGAAGGAAG-TTGGGAAAAGACTAAAGTGGCGTGAAGATGTCCTAA
446 TACAAATTAAAGGAAAGAGAGATGAAAGCTT-TGAAAACACTAAAGTGGCGTGAAGATGTCCTAA
* * * *
17300394 GCAGCATTAGATTGTTGCATTCTCAAGATTA
510 G-AGCCTTGGATAGTTGGATTCTCAAGATTA
17300425 AGGAATCATG
Statistics
Matches: 1272, Mismatches: 159, Indels: 54
0.86 0.11 0.04
Matches are distributed among these distances:
907 2 0.00
908 49 0.04
909 411 0.32
910 67 0.05
911 220 0.17
912 56 0.04
913 99 0.08
914 356 0.28
915 12 0.01
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.30
Consensus pattern (903 bp):
ATGAAGAATCAAGTATATTAAGATGATTTGAACCATTCTTGGATGAAAAGATGATGTCAAATCGA
GATCTAAACAAAAGAATAAAACCAATTAGATTTTTGTTAAAAGAATGAAAAAGAAAACCAAACAG
CAAGGAAAGAGAGAGATGGCAAAGAGAGCCTAAGAAAGAGTGGGATACGGTTTCATGGATGAGAA
AGAACCATTCTTGAACCAAAAGAAGGCCTCAAACTAGTTCTAAATCGAAAGAAGAAAATAGATGA
TCAGAATGGATTTTTAAGCCATAACAAAATTTTTTTGTGATAAAAGCAATCGGCACAATAAGAAA
AAAGAGACTTCCTTGTTTTCAATGGTTCTTAGTGTATTAAGAAGGGGAACTCTTTTCTTGTTGAT
TCCTGATATGAAGTAAAGAAATAAAAGATTAGAAAAAAATAGACAAGAATCGAACTACAAATTAA
AGGAAAGAGAGATGAAAGCTTTGAAAACACTAAAGTGGCGTGAAGATGTCCTAAGAGCCTTGGAT
AGTTGGATTCTCAAGATTAGTCAGAATCAAAATTTCATCTTTCGCCTAGAGCCGTACAATAGATC
CACGATTGGGAAAAACTTGAGATCCTATTCTGCACGCATCCTTATCAATTATTCAAATCTTTTCT
TAATCGATTGTTATCCCATCTTGGAAGCCTTAATACCATTAGAATTTATCAAGAACAAGTCCTCT
CAGTGAACCGAATTGATCTCTTTCAAGAACCTTGTTCTTGCTCAGTTTACTTGTTCTATTTCTAT
CACAATGAAATAAATTTATTCAATGTTCTTCAATTATTAAATTTGAATAAGTAATTTATGAAGTG
ATAATGCAGTACAAGATCAAAACTTTTTCCAAGTTTAAGATTTTACATTGGGCTCTAG
Found at i:17301893 original size:833 final size:827
Alignment explanation
Indices: 17299878--17302001 Score: 2967
Period size: 823 Copynumber: 2.6 Consensus size: 827
17299868 TGGGCTCTAG
*
17299878 ATGAAGAATCAAGTATATTAAGATGATTTGAACCATTCTTGGATGAAAAAGATGATGTCGAGTCG
1 ATGAAGAATCAAGTATATTAAGATGATTTGAACCATTCTTGGATG-AAAAGATGATGTCGAATCG
* * *
17299943 AGATCTAAAC-AAAAGAATAAAACCAATTA-ATTTTT-CTAAAAGAATGAAAAAGAAAACCAAAC
65 AGATCTAAACAAAAAAAATAAAA-CAATTAGATTTTTGTTAAAAGAATGAAAAAGTAAACCAAAC
* * * * * * * *
17300005 AGCAAGGAAAGAGAGAGATGGCGAAAAGAGGAG-CCTAAGAATGAGTGGGATATGGTTTCATGGA
129 AGCATGGAAGGAGAGAGGTGG-G-AAAGAGGAGTGC-AAGAACGAGTGGGATAGGGTTTCTTGAA
* * * * *
17300069 TGAGAATGAACCACTCTTGAACCAAAAGAAGGACTCCAACTAGT-T-TTGAAATCGAAAGAAGAA
191 TGAGAAAGAACCATTCTTGAACCAAAAGAAGGCCTCAAACTA-TATCTAG-AATCGAAAGAAGAA
* * * *
17300132 AATAGA-TGATC-GTAATGGATTTTTAAGCCATAACAAAATTTTTTTGTGATAAAAGCAATCGGC
254 AACAGATTG-TCAG-AATGGATTTTTAAGCCATAATAAAATTATTTTGTGATAAAAGCAATCGAC
** *
17300195 ACAATAAG-AAAGAAAGAGACTTATTTGTTTTCAATGGTTCTTGGTGTATTAAGAATGGG-GAAC
317 ACAATAAGAAAAG-AAGAGACTTCCTTGTTTTCAATGGTTCTTGGTGTATTAAGGA-GGGAGAAC
* * *
17300258 GTCTTTTCTTGTTGATTCCTCATAT-AGAAGTAAAGAAATAAAAGATTAGAAATAAATAGACAAG
380 GTCTTTTCTTGTTGATTCCTGATATGA-AAGTAAAGAAATAAAAGATTAGAAACAAACAGACAAG
* * * *
17300322 AATCGAACTACAAATTAAAGGAAAGAGAGAAGGAAGTTGGGAAAAGACTAAAGTGGCGTGAAGAT
444 AATCAAACTACAAATTAAAGGAAAAAGAGAAGAAAGTAGGGAAAAGACTAAAGTGGCGTGAAGAT
* **
17300387 GTCCTAAGCAGCATTAGATTGTTGCATTCTCAAGATTAAGGAATCATGGAGTTCGTCCCCACCCA
509 GTCCTAAGCAGCATTAGATTATTGCATTCTCAAGATTAAGGAATCATGGAGTTCGAACCCACCCA
* *
17300452 AAACTCAAACAATCCAAGTTAGAATTAAAAAGGCAACAACACAAATCAAGTCATAAAAGAATAAG
574 AAACTCAAAAAATCCAAGTTAGAATTAAAAAGGCAACAACACAAATCAAGTCATAAAAAAATAAG
* * *
17300517 GAAACTGAATCGAAATTAGGGTTCTTAGAAGAGACCAAGTAGGTTAAGGAAGCACTATTCTGTAT
639 GAAACTGAATCCAAATTAAGGTTCTTAGAAGACACCAAGTAGGTTAAGGAAGCACTATTCTGTAT
* **
17300582 GAAATCCAAAAGGGCAAGGCTACAAATTAAGTGAAAACAAACAGTTGGACAGATTTGAAGAATAA
704 GAAATCCAAAAGGGCAAAGCTACAAATTAAGTGAAAACAAACAGTTGGACAGACCTGAAGAATAA
* * * * * ** * *
17300647 AGATCAAAATTGAATGAGATCACAAGATAGATTAAAGGAATGCGTGACCAGTAAAGAAC
769 AAAGCAAAATCGAATGAAATCACAAGAAAGATTAAAGGAATGCCCGACCAATAAAAAAC
* * *
17300706 TTGAAGAATCAAGTATATTAAGATGATTTGAACCATTCTTGGATGAAAAGATTATGTCGAATCTA
1 ATGAAGAATCAAGTATATTAAGATGATTTGAACCATTCTTGGATGAAAAGATGATGTCGAATCGA
* * ** * *
17300771 GATCTAAACAAAAGAAATAAAAGAAATTAGATGTTCGGTCAAAAGAATGAAAAAGTAAACCAAAT
66 GATCTAAACAAAAAAAATAAAA-CAATTAGAT-TTTTGTTAAAAGAATGAAAAAGTAAACCAAAC
*
17300836 AGCATGGAAGGAGAGAGGT------G-GGAGTGCAAGAACGAGTGAGATATGGGTTTCTTGAATG
129 AGCATGGAAGGAGAGAGGTGGGAAAGAGGAGTGCAAGAACGAGTGGGATA-GGGTTTCTTGAATG
* * * *
17300894 AGAAAGAACCATTCTTGAACCAAAAGAAGGCTTCAAACTAGATCTGGAATTGAAAGAAGAAAACA
193 AGAAAGAACCATTCTTGAACCAAAAGAAGGCCTCAAACTATATCTAGAATCGAAAGAAGAAAACA
17300959 GATTGTCAGAATGGATTTTTAAGCCATAATAAAATTATTTTGTGATAAAAGCAATCGACACAATA
258 GATTGTCAGAATGGATTTTTAAGCCATAATAAAATTATTTTGTGATAAAAGCAATCGACACAATA
*
17301024 AGAAAAGAAGAGACTTCCTTGTTTTCAATGGTTCTTGGTGTATTAAGGAGGGAGAACATCTTTTC
323 AGAAAAGAAGAGACTTCCTTGTTTTCAATGGTTCTTGGTGTATTAAGGAGGGAGAACGTCTTTTC
* * *
17301089 TTGTTGATTCCTGATATGAAAGTAAAGAAATAAAAGACTAGAAACAAACAAAAAAGAATCAAACT
388 TTGTTGATTCCTGATATGAAAGTAAAGAAATAAAAGATTAGAAACAAACAGACAAGAATCAAACT
*
17301154 ACAAATTAAAGGAAAAAGAGAAGAAAGTAGGGAAAAGACTAAAGTCGG-GTGAAGATGTCTTAAG
453 ACAAATTAAAGGAAAAAGAGAAGAAAGTAGGGAAAAGACTAAAGT-GGCGTGAAGATGTCCTAAG
* * *
17301218 GAGCATTAGATTATTGCATTCTCAAGATTAAGGAATCATGGATTTCGAACCTA-CCAAAACCTCA
517 CAGCATTAGATTATTGCATTCTCAAGATTAAGGAATCATGGAGTTCGAACCCACCCAAAA-CTCA
* * * *
17301282 AAAAATCCATGTTAGGATTAAAAGGGTAACAACACAAATCAAGTCATAAAAAAAATAAGGAAACT
581 AAAAATCCAAGTTAGAATTAAAAAGGCAACAACACAAATCAAGTCAT-AAAAAAATAAGGAAACT
* * *
17301347 GAATCCAAATTAAGGTTCTTGGAGGACACCAAGTAGGTTAGGGAAGCACTATTCTGTATGAAATC
645 GAATCCAAATTAAGGTTCTTAGAAGACACCAAGTAGGTTAAGGAAGCACTATTCTGTATGAAATC
* * * **
17301412 CAAAGGGGTCAAAGTTGCAAATTAAGTGAAAACAAATGGTTGG-CAGACCTGAAGAATAAAAAGC
710 CAAAAGGG-CAAAGCTACAAATTAAGTGAAAACAAACAGTTGGACAGACCTGAAGAATAAAAAGC
17301476 AAAATCGAATGAAATCACAAGAAAGATTAAAGGAATGCCCGACCAATAAAAAAAC
774 AAAATCGAATGAAATCACAAGAAAGATTAAAGGAATGCCCGACCAAT-AAAAAAC
*
17301531 ATGAAGAATCAACTATATTAAGATGATTTGAACCATTCTTGGATGAAAAGATGATGTCGAATCGA
1 ATGAAGAATCAAGTATATTAAGATGATTTGAACCATTCTTGGATGAAAAGATGATGTCGAATCGA
17301596 GATCTAAACAAAAAAAATAAAACAATTTAGATTTATTGTTAAAAGAATGAAAAAGTAAACCAAAC
66 GATCTAAACAAAAAAAATAAAACAA-TTAGATTT-TTGTTAAAAGAATGAAAAAGTAAACCAAAC
* *
17301661 AGCATGGGAGGAGAGAGGTGGGCAAAGAGGAGTGCAAGAACAAGTGGGATACGGGTTTCTTGAAT
129 AGCATGGAAGGAGAGAGGTGGG-AAAGAGGAGTGCAAGAACGAGTGGGATA-GGGTTTCTTGAAT
* * * * *
17301726 GAGAAAGAACCATTCTTAAACCAAAATATGGCCTCAAACTATATCTAGAACCAAAAGAAGAAAAC
192 GAGAAAGAACCATTCTTGAACCAAAAGAAGGCCTCAAACTATATCTAGAATCGAAAGAAGAAAAC
* * *
17301791 AGATTGTCAGAATGGATTTTTAAGCCATAATAAAATTGTTTTGTGATAAAAGCAATCGCCTCAAT
257 AGATTGTCAGAATGGATTTTTAAGCCATAATAAAATTATTTTGTGATAAAAGCAATCGACACAAT
* *
17301856 AAGAAAAGAAGAGACTTCCTTGTTTTCAATGGTTCTTGGTGTATTAATGAGGGAGAATGTCTTTT
322 AAGAAAAGAAGAGACTTCCTTGTTTTCAATGGTTCTTGGTGTATTAAGGAGGGAGAACGTCTTTT
* * *
17301921 CTTGTTGATTCCTGATATGGAAGTAAAGAAATAAAATATTAGAAACAAACAGACAAGAATCAACC
387 CTTGTTGATTCCTGATATGAAAGTAAAGAAATAAAAGATTAGAAACAAACAGACAAGAATCAAAC
*
17301986 TGCAAATTAAAGGAAA
452 TACAAATTAAAGGAAA
17302002 GTGATACGAG
Statistics
Matches: 1147, Mismatches: 121, Indels: 51
0.87 0.09 0.04
Matches are distributed among these distances:
822 27 0.02
823 380 0.33
824 156 0.14
825 167 0.15
827 26 0.02
828 59 0.05
829 2 0.00
830 2 0.00
831 39 0.03
832 1 0.00
833 288 0.25
ACGTcount: A:0.44, C:0.12, G:0.21, T:0.24
Consensus pattern (827 bp):
ATGAAGAATCAAGTATATTAAGATGATTTGAACCATTCTTGGATGAAAAGATGATGTCGAATCGA
GATCTAAACAAAAAAAATAAAACAATTAGATTTTTGTTAAAAGAATGAAAAAGTAAACCAAACAG
CATGGAAGGAGAGAGGTGGGAAAGAGGAGTGCAAGAACGAGTGGGATAGGGTTTCTTGAATGAGA
AAGAACCATTCTTGAACCAAAAGAAGGCCTCAAACTATATCTAGAATCGAAAGAAGAAAACAGAT
TGTCAGAATGGATTTTTAAGCCATAATAAAATTATTTTGTGATAAAAGCAATCGACACAATAAGA
AAAGAAGAGACTTCCTTGTTTTCAATGGTTCTTGGTGTATTAAGGAGGGAGAACGTCTTTTCTTG
TTGATTCCTGATATGAAAGTAAAGAAATAAAAGATTAGAAACAAACAGACAAGAATCAAACTACA
AATTAAAGGAAAAAGAGAAGAAAGTAGGGAAAAGACTAAAGTGGCGTGAAGATGTCCTAAGCAGC
ATTAGATTATTGCATTCTCAAGATTAAGGAATCATGGAGTTCGAACCCACCCAAAACTCAAAAAA
TCCAAGTTAGAATTAAAAAGGCAACAACACAAATCAAGTCATAAAAAAATAAGGAAACTGAATCC
AAATTAAGGTTCTTAGAAGACACCAAGTAGGTTAAGGAAGCACTATTCTGTATGAAATCCAAAAG
GGCAAAGCTACAAATTAAGTGAAAACAAACAGTTGGACAGACCTGAAGAATAAAAAGCAAAATCG
AATGAAATCACAAGAAAGATTAAAGGAATGCCCGACCAATAAAAAAC
Found at i:17308365 original size:17 final size:17
Alignment explanation
Indices: 17308343--17308384 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
17308333 AACTAGCTTC
17308343 TTTTTTTTTTCACGAAT
1 TTTTTTTTTTCACGAAT
17308360 TTTTTTTTTTCACGAAT
1 TTTTTTTTTTCACGAAT
17308377 TTTTTTTT
1 TTTTTTTT
17308385 CAACTTGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.14, C:0.10, G:0.05, T:0.71
Consensus pattern (17 bp):
TTTTTTTTTTCACGAAT
Found at i:17308442 original size:12 final size:12
Alignment explanation
Indices: 17308425--17308492 Score: 109
Period size: 12 Copynumber: 5.7 Consensus size: 12
17308415 AGGAAACCAT
17308425 TTTTTTTTTGAA
1 TTTTTTTTTGAA
17308437 TTTTTTTTTGAA
1 TTTTTTTTTGAA
*
17308449 TTTTTTTTCGAA
1 TTTTTTTTTGAA
17308461 TTTTTTTTTGAA
1 TTTTTTTTTGAA
* *
17308473 TTTTTTTTCGAG
1 TTTTTTTTTGAA
17308485 TTTTTTTT
1 TTTTTTTT
17308493 GAGAAACTAC
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 52 1.00
ACGTcount: A:0.13, C:0.03, G:0.09, T:0.75
Consensus pattern (12 bp):
TTTTTTTTTGAA
Found at i:17309256 original size:21 final size:23
Alignment explanation
Indices: 17309211--17309257 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
17309201 TCACCTGCAA
* *
17309211 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
17309234 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
17309255 TAA
1 TAA
17309258 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:17328800 original size:27 final size:27
Alignment explanation
Indices: 17328769--17328937 Score: 196
Period size: 27 Copynumber: 6.2 Consensus size: 27
17328759 TAAATTGTAC
17328769 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
17328796 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
17328822 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
17328850 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
17328878 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
17328905 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
17328932 AGCACT
1 AGCACT
17328938 GNNNNNNNNN
Statistics
Matches: 121, Mismatches: 18, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
27 98 0.81
28 23 0.19
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:17328883 original size:82 final size:81
Alignment explanation
Indices: 17328770--17328925 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
17328760 AAATTGTACA
* *
17328770 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
17328834 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
17328851 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
17328916 TGCGAGTTGA
65 TGCGAATTGA
17328926 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:17336948 original size:40 final size:40
Alignment explanation
Indices: 17336904--17337127 Score: 308
Period size: 40 Copynumber: 5.6 Consensus size: 40
17336894 AAGTGAATAT
* * * * **
17336904 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTGTTAA
17336944 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
17336984 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
17337024 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * **
17337064 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * *
17337103 AACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATT
17337128 TGAACGAGGA
Statistics
Matches: 171, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.20
40 136 0.80
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
Found at i:17337002 original size:80 final size:80
Alignment explanation
Indices: 17336865--17337127 Score: 318
Period size: 80 Copynumber: 3.3 Consensus size: 80
17336855 TTGAATGCTG
* * * * *
17336865 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCC
*
17336927 TTTGTGCGAGATACTAAA
63 TTTGTGCGAGTTACTAAA
* * *
17336945 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
**
17337010 GTGCGAGTTGTTAAA
66 GTGCGAGTTACTAAA
* * *
17337025 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
17337089 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
17337104 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
17337128 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
79 35 0.22
80 116 0.73
81 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:17337079 original size:120 final size:120
Alignment explanation
Indices: 17336865--17337127 Score: 318
Period size: 120 Copynumber: 2.2 Consensus size: 120
17336855 TTGAATGCTG
* * *
17336865 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
* **
17336929 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
66 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* * * *
17336985 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAG-TGAATAAATCCGGATTAAGAT-CCGAAGGCA
* ** * *
17337047 TTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
64 TTCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
17337104 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
17337128 TGAACGAGGA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
119 34 0.28
120 80 0.66
121 8 0.07
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:17353503 original size:11 final size:11
Alignment explanation
Indices: 17353487--17353518 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
17353477 AAATTCACGA
*
17353487 AATTTTTTTTT
1 AATTTTTTTTC
17353498 AATTTTTTTTC
1 AATTTTTTTTC
17353509 AATTTTTTTT
1 AATTTTTTTT
17353519 ACAAACCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (11 bp):
AATTTTTTTTC
Found at i:17355089 original size:22 final size:22
Alignment explanation
Indices: 17355061--17355106 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
17355051 GACAAAATTA
17355061 ATTAAGCAATCCAATCAGACAT
1 ATTAAGCAATCCAATCAGACAT
17355083 ATTAAGCAATCCAATCAGACAT
1 ATTAAGCAATCCAATCAGACAT
17355105 AT
1 AT
17355107 AATTTAGCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.46, C:0.22, G:0.09, T:0.24
Consensus pattern (22 bp):
ATTAAGCAATCCAATCAGACAT
Found at i:17357924 original size:14 final size:12
Alignment explanation
Indices: 17357876--17357921 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
17357866 TAGTTTCTCG
17357876 AAAAAAAAACTT-
1 AAAAAAAAA-TTC
*
17357888 GAAAAAAAATTC
1 AAAAAAAAATTC
17357900 AAAAAAAAATTCC
1 AAAAAAAAATT-C
17357913 AAAAAAAAA
1 AAAAAAAAA
17357922 ATTTGGTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
11 2 0.07
12 18 0.60
13 10 0.33
ACGTcount: A:0.76, C:0.09, G:0.02, T:0.13
Consensus pattern (12 bp):
AAAAAAAAATTC
Found at i:17357985 original size:14 final size:14
Alignment explanation
Indices: 17357961--17358014 Score: 92
Period size: 14 Copynumber: 3.9 Consensus size: 14
17357951 GGATATCAAG
17357961 TTGTG-AAAAAAAA
1 TTGTGAAAAAAAAA
*
17357974 TTTTGAAAAAAAAA
1 TTGTGAAAAAAAAA
17357988 TTGTGAAAAAAAAA
1 TTGTGAAAAAAAAA
17358002 TTGTGAAAAAAAA
1 TTGTGAAAAAAAA
17358015 GAGAGCTAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
13 4 0.11
14 34 0.89
ACGTcount: A:0.63, C:0.00, G:0.13, T:0.24
Consensus pattern (14 bp):
TTGTGAAAAAAAAA
Found at i:17367263 original size:27 final size:28
Alignment explanation
Indices: 17367233--17367294 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 28
17367223 CTAGTTCGCT
17367233 AGACCTACC-GACATACACCATCTTGCC
1 AGACCTACCTGACATACACCATCTTGCC
* * * *
17367260 AGA-CTTCCTGGCATACACCGTCTTGTC
1 AGACCTACCTGACATACACCATCTTGCC
17367287 AGACCTAC
1 AGACCTAC
17367295 TAGGTGAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 4 0.14
27 21 0.75
28 3 0.11
ACGTcount: A:0.26, C:0.37, G:0.15, T:0.23
Consensus pattern (28 bp):
AGACCTACCTGACATACACCATCTTGCC
Found at i:17367352 original size:27 final size:27
Alignment explanation
Indices: 17367312--17367379 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
17367302 ATACTAGCTT
* * *
17367312 GCCAAGCCTTCTGGCGAACTTTAACTC
1 GCCAAACCTACTGGCGAACTCTAACTC
* *
17367339 GCCAAACCTACTGGCGAACTCTAGCTT
1 GCCAAACCTACTGGCGAACTCTAACTC
17367366 GCCAAACCTACTGG
1 GCCAAACCTACTGG
17367380 TGGTCATAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.25, C:0.34, G:0.19, T:0.22
Consensus pattern (27 bp):
GCCAAACCTACTGGCGAACTCTAACTC
Found at i:17373831 original size:23 final size:23
Alignment explanation
Indices: 17373804--17373848 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
17373794 AAACAAAAAA
17373804 AAAGAAAAAAAAA-AGAAAGAAAG
1 AAAGAAAAAAAAAGA-AAAGAAAG
*
17373827 AAAGAAAAGAAAAGAAAAGAAA
1 AAAGAAAAAAAAAGAAAAGAAA
17373849 AAGGACACCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (23 bp):
AAAGAAAAAAAAAGAAAAGAAAG
Found at i:17373842 original size:10 final size:10
Alignment explanation
Indices: 17373788--17373849 Score: 58
Period size: 10 Copynumber: 6.3 Consensus size: 10
17373778 AGGAAAAAAT
*
17373788 AAAGCAAAACA
1 AAAG-AAAAGA
*
17373799 AAAAAAAAGA
1 AAAGAAAAGA
*
17373809 AAA-AAAAAA
1 AAAGAAAAGA
17373818 GAAAG-AAAG-
1 -AAAGAAAAGA
17373827 AAAGAAAAGA
1 AAAGAAAAGA
17373837 AAAGAAAAGA
1 AAAGAAAAGA
17373847 AAA
1 AAA
17373850 AGGACACCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
8 4 0.09
9 9 0.21
10 27 0.63
11 3 0.07
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:17383347 original size:24 final size:24
Alignment explanation
Indices: 17383320--17383372 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
17383310 AGATGGAAAC
17383320 GAAGACAAAGATGAGGGTGGAGAT
1 GAAGACAAAGATGAGGGTGGAGAT
** *
17383344 GAAGATGAAGATGAGGGTTGAGAT
1 GAAGACAAAGATGAGGGTGGAGAT
17383368 GAAGA
1 GAAGA
17383373 TGAAGACGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.42, C:0.02, G:0.42, T:0.15
Consensus pattern (24 bp):
GAAGACAAAGATGAGGGTGGAGAT
Found at i:17383373 original size:24 final size:24
Alignment explanation
Indices: 17383327--17383378 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
17383317 AACGAAGACA
17383327 AAGATGAGGGTGGAGATGAAGATG
1 AAGATGAGGGTGGAGATGAAGATG
*
17383351 AAGATGAGGGTTGAGATGAAGATG
1 AAGATGAGGGTGGAGATGAAGATG
17383375 AAGA
1 AAGA
17383379 CGATGATCAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.40, C:0.00, G:0.42, T:0.17
Consensus pattern (24 bp):
AAGATGAGGGTGGAGATGAAGATG
Found at i:17384130 original size:9 final size:9
Alignment explanation
Indices: 17384111--17384147 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
17384101 TGAGTTTTCG
17384111 AATTCGAAT
1 AATTCGAAT
17384120 AACTT-GAAT
1 AA-TTCGAAT
17384129 AATTCGAAT
1 AATTCGAAT
17384138 AATTCGAAT
1 AATTCGAAT
17384147 A
1 A
17384148 TCAAACTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 2 0.08
9 22 0.85
10 2 0.08
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:17387072 original size:20 final size:20
Alignment explanation
Indices: 17387047--17387088 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
17387037 GAGAGTGGTC
17387047 ATGCCTTAATTATTGAGATT
1 ATGCCTTAATTATTGAGATT
17387067 ATGCCTTAATTATTGAGATT
1 ATGCCTTAATTATTGAGATT
17387087 AT
1 AT
17387089 CTATGCATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.45
Consensus pattern (20 bp):
ATGCCTTAATTATTGAGATT
Found at i:17393468 original size:20 final size:20
Alignment explanation
Indices: 17393419--17393473 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
17393409 GCCTTCAAGG
**
17393419 TCATTCAGCTCAACTCTAGC
1 TCATTCAGCTCATTTCTAGC
*
17393439 TCA-ACGAGCTCATTTCTAGC
1 TCATTC-AGCTCATTTCTAGC
17393459 TCATTCAGCTCATTT
1 TCATTCAGCTCATTT
17393474 TAATTCATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 1 0.03
20 27 0.93
21 1 0.03
ACGTcount: A:0.24, C:0.31, G:0.11, T:0.35
Consensus pattern (20 bp):
TCATTCAGCTCATTTCTAGC
Found at i:17409214 original size:12 final size:12
Alignment explanation
Indices: 17409185--17409229 Score: 58
Period size: 11 Copynumber: 3.9 Consensus size: 12
17409175 TAGTAGTTTC
*
17409185 TCGAAAAAAAAC
1 TCGAAAAAAAAT
17409197 TC-AAAAAAAAT
1 TCGAAAAAAAAT
*
17409208 TTG-AAAAAAAT
1 TCGAAAAAAAAT
17409219 TCGAAAAAAAA
1 TCGAAAAAAAA
17409230 ACTAGTTTCC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
11 19 0.68
12 9 0.32
ACGTcount: A:0.69, C:0.09, G:0.07, T:0.16
Consensus pattern (12 bp):
TCGAAAAAAAAT
Found at i:17409292 original size:13 final size:14
Alignment explanation
Indices: 17409268--17409308 Score: 73
Period size: 14 Copynumber: 2.9 Consensus size: 14
17409258 GGATATCAAG
17409268 TTGTGAAAAAAAAA
1 TTGTGAAAAAAAAA
*
17409282 TTTTGAAAAAAAAA
1 TTGTGAAAAAAAAA
17409296 TTGTGAAAAAAAA
1 TTGTGAAAAAAAA
17409309 GAGAGCTAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.12, T:0.24
Consensus pattern (14 bp):
TTGTGAAAAAAAAA
Found at i:17413610 original size:20 final size:21
Alignment explanation
Indices: 17413582--17413620 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
17413572 CAAAACGAGC
*
17413582 AAACAAGCT-CATTGAGCTGA
1 AAACAAGCTGAATTGAGCTGA
*
17413602 AAACGAGCTGAATTGAGCT
1 AAACAAGCTGAATTGAGCT
17413621 CAACCAGCCG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.21
Consensus pattern (21 bp):
AAACAAGCTGAATTGAGCTGA
Found at i:17415278 original size:30 final size:30
Alignment explanation
Indices: 17415244--17415315 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
17415234 ATGTGCATAT
* * *
17415244 GGAGCTGAATTAATGCATGGATGTGTTTAA
1 GGAGCTGAATGAAGGCATGGATGTATTTAA
* * *
17415274 GGAGCTGAATGGAGGCATGTATGTATTTAG
1 GGAGCTGAATGAAGGCATGGATGTATTTAA
17415304 GGAGCTGAATGA
1 GGAGCTGAATGA
17415316 GGATGCTAGT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.29, C:0.07, G:0.35, T:0.29
Consensus pattern (30 bp):
GGAGCTGAATGAAGGCATGGATGTATTTAA
Found at i:17415749 original size:18 final size:18
Alignment explanation
Indices: 17415709--17415750 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
17415699 TACTCATCAT
17415709 TTAATTAAACTGAATTAA
1 TTAATTAAACTGAATTAA
* *
17415727 CTAATTAAACT-AACTTGA
1 TTAATTAAACTGAA-TTAA
17415745 TTAATT
1 TTAATT
17415751 TATTATAGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (18 bp):
TTAATTAAACTGAATTAA
Found at i:17417557 original size:40 final size:39
Alignment explanation
Indices: 17417526--17417735 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
17417516 GGACTAAGAT
* *
17417526 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
17417566 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
17417606 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
17417646 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
17417686 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
17417725 CCGAAGGCATT
1 CCGAAGGCATT
17417736 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:17417689 original size:120 final size:120
Alignment explanation
Indices: 17417473--17417735 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
17417463 TTGAATGCTG
* *
17417473 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
17417537 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
17417593 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
17417656 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
17417712 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
17417736 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:17417755 original size:79 final size:80
Alignment explanation
Indices: 17417474--17417770 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
17417464 TGAATGCTGT
* ** * * * **
17417474 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
17417537 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
17417554 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
17417618 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
17417634 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
17417698 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
17417713 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
17417771 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:17419811 original size:20 final size:20
Alignment explanation
Indices: 17419764--17419811 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
17419754 TTTTTCCTTG
17419764 CTCTTGCTTTTCTCACAATCT
1 CTCTT-CTTTTCTCACAATCT
** *
17419785 CGATTCTTTTCTCTCAATCT
1 CTCTTCTTTTCTCACAATCT
17419805 CTCTTCT
1 CTCTTCT
17419812 CTATTTTATT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
20 19 0.86
21 3 0.14
ACGTcount: A:0.12, C:0.33, G:0.04, T:0.50
Consensus pattern (20 bp):
CTCTTCTTTTCTCACAATCT
Found at i:17421264 original size:30 final size:30
Alignment explanation
Indices: 17421230--17421301 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
17421220 ATGTGCATAT
* * *
17421230 GGAGCTGAATTAATGCATGGATGTGTTTAA
1 GGAGCTGAATGAAGGCATGGATGTATTTAA
* * *
17421260 GGAGCTGAATGGAGGCATGTATGTATTTAG
1 GGAGCTGAATGAAGGCATGGATGTATTTAA
17421290 GGAGCTGAATGA
1 GGAGCTGAATGA
17421302 GGATGCTAGT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.29, C:0.07, G:0.35, T:0.29
Consensus pattern (30 bp):
GGAGCTGAATGAAGGCATGGATGTATTTAA
Found at i:17427958 original size:15 final size:14
Alignment explanation
Indices: 17427922--17427966 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
17427912 TCTATTGAGC
17427922 GAGAAAAAGAAAAA
1 GAGAAAAAGAAAAA
*
17427936 GAGAAAAACAAAAA
1 GAGAAAAAGAAAAA
*
17427950 GAGTGAAAAGAAAAA
1 GAG-AAAAAGAAAAA
17427965 GA
1 GA
17427967 AAGAAACGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 16 0.59
15 11 0.41
ACGTcount: A:0.73, C:0.02, G:0.22, T:0.02
Consensus pattern (14 bp):
GAGAAAAAGAAAAA
Found at i:17427972 original size:15 final size:15
Alignment explanation
Indices: 17427922--17427972 Score: 61
Period size: 14 Copynumber: 3.5 Consensus size: 15
17427912 TCTATTGAGC
17427922 GAGA-AAAAGAAAAA
1 GAGAGAAAAGAAAAA
*
17427936 GAGA-AAAACAAAAA
1 GAGAGAAAAGAAAAA
*
17427950 GAGTGAAAAGAAAAA
1 GAGAGAAAAGAAAAA
*
17427965 GAAAGAAA
1 GAGAGAAA
17427973 CGAAGATGAG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
14 16 0.52
15 15 0.48
ACGTcount: A:0.75, C:0.02, G:0.22, T:0.02
Consensus pattern (15 bp):
GAGAGAAAAGAAAAA
Found at i:17440931 original size:10 final size:9
Alignment explanation
Indices: 17440906--17440930 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
17440896 ACGAAATCCC
17440906 TTTTTTTAA
1 TTTTTTTAA
17440915 TTTTTTTAA
1 TTTTTTTAA
17440924 TTTTTTT
1 TTTTTTT
17440931 TTCAAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:17441882 original size:20 final size:20
Alignment explanation
Indices: 17441857--17441894 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
17441847 AGCTTGTTTC
*
17441857 CAACTCACTCGAGCTCAAGT
1 CAACTCACTCAAGCTCAAGT
*
17441877 CAACTCATTCAAGCTCAA
1 CAACTCACTCAAGCTCAA
17441895 TTCAGCTCAA
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:0.34, G:0.11, T:0.21
Consensus pattern (20 bp):
CAACTCACTCAAGCTCAAGT
Found at i:17449038 original size:19 final size:19
Alignment explanation
Indices: 17449014--17449051 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
17449004 TGTAAATATT
*
17449014 TTTATCATTTTGACTTTTA
1 TTTATCATTTTAACTTTTA
17449033 TTTATCATTTTAACTTTTA
1 TTTATCATTTTAACTTTTA
17449052 ACATTTTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.11, G:0.03, T:0.63
Consensus pattern (19 bp):
TTTATCATTTTAACTTTTA
Found at i:17449315 original size:43 final size:43
Alignment explanation
Indices: 17449244--17449531 Score: 377
Period size: 43 Copynumber: 6.8 Consensus size: 43
17449234 GGTGTTTTTT
* * * *
17449244 AAAAACGCCACTAAAAGTCATGGTCTTTAGCGGCGTTTGTAGG
1 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGG
*
17449287 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGAGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGG
* * * *
17449330 AAAAGCACTGCTAAAGGTCATGGTCCTTAGCGGCGCTTGTGGG
1 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGG
** *
17449373 AAAATTGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGT
1 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGG
* * * * * *
17449416 AAAACCGCCGCTAAAGGTCATTGTCTTTAGCAGTGATTGAGGG
1 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGG
*
17449459 AAAAGCGCCGCTAAAGG----GGTTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGG
17449498 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGC
1 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGC
17449532 ATTTATTTCT
Statistics
Matches: 208, Mismatches: 33, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
39 33 0.16
43 175 0.84
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGG
Found at i:17449655 original size:22 final size:22
Alignment explanation
Indices: 17449629--17449670 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
17449619 AGCGGCGCTT
*
17449629 AAAAGCGCCACTAAAGGCCTAA
1 AAAAGCGCCACTAAAAGCCTAA
*
17449651 AAAAGCGCCGCTAAAAGCCT
1 AAAAGCGCCACTAAAAGCCT
17449671 GTTTTGGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.29, G:0.19, T:0.10
Consensus pattern (22 bp):
AAAAGCGCCACTAAAAGCCTAA
Found at i:17453976 original size:28 final size:27
Alignment explanation
Indices: 17453906--17453976 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 27
17453896 TTAAGTTATT
*
17453906 TTTTTCTTTTTTTTTCCTTTCTCTTTC
1 TTTTTCTTTCTTTTTCCTTTCTCTTTC
17453933 TTTTT-TTTCCTATTTTCCTTTCTCTTTTC
1 TTTTTCTTT-CT-TTTTCCTTTCTC-TTTC
17453962 TTTTTCTTTCTTTTT
1 TTTTTCTTTCTTTTT
17453977 TTTGGTATTA
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
26 3 0.08
27 6 0.15
28 16 0.41
29 11 0.28
30 3 0.08
ACGTcount: A:0.01, C:0.21, G:0.00, T:0.77
Consensus pattern (27 bp):
TTTTTCTTTCTTTTTCCTTTCTCTTTC
Found at i:17458756 original size:3 final size:3
Alignment explanation
Indices: 17458748--17458774 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
17458738 TGTTAGAAGT
17458748 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
17458775 TAAGTGTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:17461206 original size:44 final size:42
Alignment explanation
Indices: 17461096--17461210 Score: 137
Period size: 44 Copynumber: 2.7 Consensus size: 42
17461086 AGCTCGTACA
17461096 ATGCCAACGTCCCAGATGTGGTCTTACATGTAATCAAATAACG
1 ATGCCAACGTCCCAGATGTGGTCTTACATGTAATCAAAT-ACG
* *
17461139 ATGCC-ACTGTCCTAGACAG-GGTCTTACATGTAAATCTTAAAT-CG
1 ATGCCAAC-GTCCCAGA-TGTGGTCTTACATGT-AATC--AAATACG
17461183 ATGCCAACGTCCCAGATGTGGTCTTACA
1 ATGCCAACGTCCCAGATGTGGTCTTACA
17461211 CGAAATCATA
Statistics
Matches: 61, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
42 2 0.03
43 25 0.41
44 28 0.46
45 2 0.03
46 4 0.07
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (42 bp):
ATGCCAACGTCCCAGATGTGGTCTTACATGTAATCAAATACG
Found at i:17485875 original size:20 final size:20
Alignment explanation
Indices: 17485852--17485891 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
17485842 AAGATTATTC
17485852 TCAATCAAAGATAATGGAGA
1 TCAATCAAAGATAATGGAGA
17485872 TCAATCAAAGATAATGGAGA
1 TCAATCAAAGATAATGGAGA
17485892 ATATTGAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.10, G:0.20, T:0.20
Consensus pattern (20 bp):
TCAATCAAAGATAATGGAGA
Found at i:17494682 original size:14 final size:14
Alignment explanation
Indices: 17494665--17494698 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
17494655 ATAATATCCA
17494665 AATAATAACAATAT
1 AATAATAACAATAT
17494679 AATAATAACAATAT
1 AATAATAACAATAT
17494693 AATAAT
1 AATAAT
17494699 GAAATGGCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (14 bp):
AATAATAACAATAT
Found at i:17514986 original size:18 final size:18
Alignment explanation
Indices: 17514959--17515005 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
17514949 AAGCGGCATC
*
17514959 ATTAATTTTTTTAAAAAA
1 ATTAAATTTTTTAAAAAA
**
17514977 ATTAAATTTTTTTTAAAA
1 ATTAAATTTTTTAAAAAA
17514995 ATTAATATTTT
1 ATTAA-ATTTT
17515006 AATAGTGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 20 0.80
19 5 0.20
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTAAATTTTTTAAAAAA
Found at i:17514986 original size:19 final size:18
Alignment explanation
Indices: 17514962--17515005 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 18
17514952 CGGCATCATT
17514962 AATTTTTTTAAAAAAATTA
1 AATTTTTTT-AAAAAATTA
*
17514981 AATTTTTTTTAAAAATTA
1 AATTTTTTTAAAAAATTA
17514999 ATATTTT
1 A-ATTTT
17515006 AATAGTGGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
AATTTTTTTAAAAAATTA
Found at i:17515256 original size:17 final size:17
Alignment explanation
Indices: 17515225--17515258 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
17515215 AGATATGGAG
17515225 AAGAAAGAAAGAAAGAA
1 AAGAAAGAAAGAAAGAA
17515242 AAGAGAAGAAA-AAAGAA
1 AAGA-AAGAAAGAAAGAA
17515259 TGATAAGGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (17 bp):
AAGAAAGAAAGAAAGAA
Done.