Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 57 of 290
Found at i:17701786 original size:24 final size:24
Alignment explanation
Indices: 17701758--17701973 Score: 308
Period size: 24 Copynumber: 9.0 Consensus size: 24
17701748 GAGGAAGTGC
17701758 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
17701782 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* * *
17701806 AAAAGGGCTTCTGTCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
17701830 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* * * *
17701854 AAAAGGGCTTCTGTCCCAATTATC
1 AAAAGGGCTTATGCCCCAGTTATT
17701878 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
17701902 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* * *
17701926 AAAAGGACTTTTGCCCCAGTTTTT
1 AAAAGGGCTTATGCCCCAGTTATT
*
17701950 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
17701974 ATGATAAAGC
Statistics
Matches: 169, Mismatches: 21, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
24 160 0.95
25 9 0.05
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:17713748 original size:27 final size:27
Alignment explanation
Indices: 17713717--17713785 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 27
17713707 TTAGTTTACC
* *
17713717 AAATTACTAAAATACCCTCGACTTGTA
1 AAATTACTAAAATACCCCCGACTTATA
* * *
17713744 AAATTACCAAAGTACCCCCGATTTATA
1 AAATTACTAAAATACCCCCGACTTATA
17713771 AAATTACTAAAATAC
1 AAATTACTAAAATAC
17713786 TCCTGTAAGA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.45, C:0.22, G:0.06, T:0.28
Consensus pattern (27 bp):
AAATTACTAAAATACCCCCGACTTATA
Found at i:17713825 original size:27 final size:27
Alignment explanation
Indices: 17713795--17714009 Score: 245
Period size: 27 Copynumber: 8.0 Consensus size: 27
17713785 CTCCTGTAAG
* *
17713795 ATAGAATTATCGTTTTACCCTTGATTT
1 ATAGAATTATCATTTTACCCTCGATTT
* *
17713822 ATAGAATTATCGTTTTACTCTCGATTT
1 ATAGAATTATCATTTTACCCTCGATTT
* *
17713849 ACAGAATTACCATTTTACCCTCGATTT
1 ATAGAATTATCATTTTACCCTCGATTT
*
17713876 ATAGAATTATCATTTTACTCTCGATTT
1 ATAGAATTATCATTTTACCCTCGATTT
* *
17713903 ATAGAATTACCATTTTACCCTCAATTT
1 ATAGAATTATCATTTTACCCTCGATTT
* * *
17713930 ACAAAATTATCGTTTTACCCTC-AGTTT
1 ATAGAATTATCATTTTACCCTCGA-TTT
* * * *
17713957 ACAAAATTACCGTTTTACCCTC-AGTTT
1 ATAGAATTATCATTTTACCCTCGA-TTT
*
17713984 ATAAAATTATCATTTTACCCTCGATT
1 ATAGAATTATCATTTTACCCTCGATT
17714010 GTGAAATTAC
Statistics
Matches: 166, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 164 0.99
28 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.43
Consensus pattern (27 bp):
ATAGAATTATCATTTTACCCTCGATTT
Found at i:17713857 original size:81 final size:81
Alignment explanation
Indices: 17713729--17713938 Score: 190
Period size: 81 Copynumber: 2.6 Consensus size: 81
17713719 ATTACTAAAA
* * * *** * * *
17713729 TACCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACTAAAATACTCCT-G-T
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCAAAATAC-CCTCGAT
*
17713792 AAGATAGAATTATCGTTT
65 -AGATAGAATTATCATTT
* * * * * *** *
17713810 TACCCTTGATTTATAGAATTATCGTTTTACTCTCGATTTACAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATA
*
17713875 TATAGAATTATCATTT
66 GATAGAATTATCATTT
* *
17713891 TACTCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAAAATTA
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTA
17713939 TCGTTTTACC
Statistics
Matches: 100, Mismatches: 27, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
80 3 0.03
81 96 0.96
82 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.08, T:0.39
Consensus pattern (81 bp):
TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATA
GATAGAATTATCATTT
Found at i:17714073 original size:27 final size:27
Alignment explanation
Indices: 17714043--17714189 Score: 140
Period size: 27 Copynumber: 5.5 Consensus size: 27
17714033 TAGGATAGAG
17714043 TTACCAAAATACCCCTAGTTTGTAAAA
1 TTACCAAAATACCCCTAGTTTGTAAAA
* *
17714070 TTACTAAAATA-CCTTAGTTTGTAAAA
1 TTACCAAAATACCCCTAGTTTGTAAAA
* * * *
17714096 TTACCGAAATACCACTGGTTTGTGAAA
1 TTACCAAAATACCCCTAGTTTGTAAAA
*
17714123 TTA-CATAAATA-CCCTCAATTTGTAAAA
1 TTACCA-AAATACCCCT-AGTTTGTAAAA
* **
17714150 TTACAAAAATACCCCT-GATTTACAAAA
1 TTACCAAAATACCCCTAG-TTTGTAAAA
*
17714177 TTACAAAAATACC
1 TTACCAAAATACC
17714190 ATTGACTTTC
Statistics
Matches: 97, Mismatches: 17, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
26 27 0.28
27 65 0.67
28 5 0.05
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (27 bp):
TTACCAAAATACCCCTAGTTTGTAAAA
Found at i:17714162 original size:54 final size:54
Alignment explanation
Indices: 17714043--17714256 Score: 164
Period size: 54 Copynumber: 3.9 Consensus size: 54
17714033 TAGGATAGAG
* * * * *
17714043 TTACCAAAATACCCCTAGTTTGTAAAATTAC-TAAAATA-CCTTAGTTTGTAAAA
1 TTACAAAAATACCACTGGTTTGTAAAATTACAT-AAATACCCTCAATTTGTAAAA
** *
17714096 TTACCGAAATACCACTGGTTTGTGAAATTACATAAATACCCTCAATTTGTAAAA
1 TTACAAAAATACCACTGGTTTGTAAAATTACATAAATACCCTCAATTTGTAAAA
* * ** * * * * *
17714150 TTACAAAAATACCCCTGATTTACAAAATTACAAAAATACCATTGACTTTCTAAAAA
1 TTACAAAAATACCACTGGTTTGTAAAATTACATAAATACC-CTCAATTTGT-AAAA
* * ** * *
17714206 TTATAAAAATACCATTGGTTTACAAAATTAC-TGAAATACCCTTAGTTTGTA
1 TTACAAAAATACCACTGGTTTGTAAAATTACAT-AAATACCCTCAATTTGTA
17714257 GATTTACCAA
Statistics
Matches: 129, Mismatches: 27, Indels: 9
0.78 0.16 0.05
Matches are distributed among these distances:
53 32 0.25
54 47 0.36
55 12 0.09
56 38 0.29
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.33
Consensus pattern (54 bp):
TTACAAAAATACCACTGGTTTGTAAAATTACATAAATACCCTCAATTTGTAAAA
Found at i:17714242 original size:27 final size:27
Alignment explanation
Indices: 17714060--17714254 Score: 101
Period size: 27 Copynumber: 7.2 Consensus size: 27
17714050 AATACCCCTA
* *
17714060 GTTTGTAAAATTACTAAAATACC-TTA
1 GTTTGCAAAATTACTAAAATACCATTG
* ** *
17714086 GTTTGTAAAATTACCGAAATACCACTG
1 GTTTGCAAAATTACTAAAATACCATTG
** * **
17714113 GTTTGTGAAATTAC-ATAAATACCCTCA
1 GTTTGCAAAATTACTA-AAATACCATTG
* * * **
17714140 ATTTGTAAAATTACAAAAATACCCCTG
1 GTTTGCAAAATTACTAAAATACCATTG
* * *
17714167 ATTTACAAAATTACAAAAATACCATTG
1 GTTTGCAAAATTACTAAAATACCATTG
*
17714194 ACTTT-CTAAAAATTA-TAAAAATACCATTG
1 -GTTTGC--AAAATTACT-AAAATACCATTG
* * * *
17714223 GTTTACAAAATTACTGAAATACCCTTA
1 GTTTGCAAAATTACTAAAATACCATTG
17714250 GTTTG
1 GTTTG
17714255 TAGATTTACC
Statistics
Matches: 134, Mismatches: 26, Indels: 17
0.76 0.15 0.10
Matches are distributed among these distances:
26 21 0.16
27 85 0.63
28 8 0.06
29 20 0.15
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (27 bp):
GTTTGCAAAATTACTAAAATACCATTG
Found at i:17715207 original size:25 final size:25
Alignment explanation
Indices: 17715169--17715238 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
17715159 AGGAAGTGCT
* *
17715169 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
17715194 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
17715219 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
17715239 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:17715251 original size:24 final size:24
Alignment explanation
Indices: 17715168--17715263 Score: 95
Period size: 25 Copynumber: 3.9 Consensus size: 24
17715158 GAGGAAGTGC
*
17715168 TAAAAGGGCTATGCCCCAGTTTACC
1 TAAAAGGGCTATGCCCCAGTTTA-T
* *
17715193 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTATGCCCCAGTTTAT
* *
17715217 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTATGCCCCAGTTTAT
*
17715241 TAAAAGAGGCTAGGCCTCCAGTT
1 TAAAAG-GGCTATGCC-CCAGTT
17715264 ATATGATAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
23 5 0.08
24 11 0.18
25 43 0.72
26 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTATGCCCCAGTTTAT
Found at i:17715262 original size:50 final size:50
Alignment explanation
Indices: 17715169--17715263 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
17715159 AGGAAGTGCT
**
17715169 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
* **
17715219 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
17715264 ATATGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 23 0.61
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.24
Consensus pattern (50 bp):
AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:17715447 original size:42 final size:42
Alignment explanation
Indices: 17715385--17715476 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
17715375 TAGTCTCCCC
* *
17715385 AAATGGGTTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATAAATTCATTGACATTACATGTGATATTG
*
17715427 AAATGGGCTTGCATAAATTCATTGACTTTACATGTGATATTG
1 AAATGGGCTTGCATAAATTCATTGACATTACATGTGATATTG
17715469 AAATGGGC
1 AAATGGGC
17715477 CTAAGGGCCA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATAAATTCATTGACATTACATGTGATATTG
Found at i:17715535 original size:31 final size:31
Alignment explanation
Indices: 17715500--17715590 Score: 173
Period size: 31 Copynumber: 2.9 Consensus size: 31
17715490 CGTTTACAGT
17715500 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
17715531 AAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
17715562 AAAGGCTTCGGCCCAGTGATATGATTTAT
1 AAAGGCTTCGGCCCAGTGATATGATTTAT
17715591 TGGGATTACA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 58 1.00
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:17719703 original size:30 final size:30
Alignment explanation
Indices: 17719668--17719724 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
17719658 TAGGCACTTC
*
17719668 CACACGGGTAAACCACACGCTCGTGTGAGG
1 CACACGGGCAAACCACACGCTCGTGTGAGG
*
17719698 CACACGGGCAATCCACACGCTCGTGTG
1 CACACGGGCAAACCACACGCTCGTGTG
17719725 TCATGGCCGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.25, C:0.33, G:0.28, T:0.14
Consensus pattern (30 bp):
CACACGGGCAAACCACACGCTCGTGTGAGG
Found at i:17722239 original size:16 final size:15
Alignment explanation
Indices: 17722219--17722260 Score: 66
Period size: 16 Copynumber: 2.7 Consensus size: 15
17722209 TTATTTTAAT
*
17722219 GTATTGTTATTTCTA
1 GTATTATTATTTCTA
17722234 GTTATTATTATTTCTA
1 G-TATTATTATTTCTA
17722250 GTATTATTATT
1 GTATTATTATT
17722261 ATAATATTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 11 0.44
16 14 0.56
ACGTcount: A:0.24, C:0.05, G:0.10, T:0.62
Consensus pattern (15 bp):
GTATTATTATTTCTA
Found at i:17722357 original size:11 final size:11
Alignment explanation
Indices: 17722343--17722369 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
17722333 TATTCTAATA
17722343 ATATTATTATT
1 ATATTATTATT
17722354 ATATTATTATT
1 ATATTATTATT
17722365 ATATT
1 ATATT
17722370 GTATTTAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
ATATTATTATT
Found at i:17722525 original size:18 final size:17
Alignment explanation
Indices: 17722483--17722565 Score: 57
Period size: 16 Copynumber: 4.9 Consensus size: 17
17722473 TTCACTATAT
*
17722483 TTTTTTAAATATTA-TA
1 TTTTTTATATATTATTA
*
17722499 -TTTTCATATATTATGTA
1 TTTTTTATATATTAT-TA
17722516 TTTTTTATATATTA-TA
1 TTTTTTATATATTATTA
* **
17722532 TTATTCGTATATT-TTA
1 TTTTTTATATATTATTA
*
17722548 TTGTATTATATATATATT
1 TT-TTTTATATAT-TATT
17722566 TTAAATAATT
Statistics
Matches: 50, Mismatches: 10, Indels: 11
0.70 0.14 0.15
Matches are distributed among these distances:
15 11 0.22
16 16 0.32
17 8 0.16
18 13 0.26
19 2 0.04
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (17 bp):
TTTTTTATATATTATTA
Found at i:17722528 original size:33 final size:31
Alignment explanation
Indices: 17722483--17722567 Score: 100
Period size: 33 Copynumber: 2.6 Consensus size: 31
17722473 TTCACTATAT
*
17722483 TTTTTTAAATATTATATTTTCATATATTATGTA
1 TTTTTTATATATTATATTTTCATATATT-T-TA
*
17722516 TTTTTTATATATTATATTATTCGTATATTTTA
1 TTTTTTATATATTATATT-TTCATATATTTTA
*
17722548 TTGTATTATATA-TATATTTT
1 TT-TTTTATATATTATATTTT
17722568 AAATAATTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
31 2 0.04
32 10 0.21
33 26 0.55
34 9 0.19
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.64
Consensus pattern (31 bp):
TTTTTTATATATTATATTTTCATATATTTTA
Found at i:17722536 original size:26 final size:25
Alignment explanation
Indices: 17722505--17722558 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
17722495 TATATTTTCA
*
17722505 TATATTA-T-GTATTTTTTATATAT
1 TATATTATTCGTATATTTTATATAT
*
17722528 TATATTATTCGTATATTTTATTGTAT
1 TATATTATTCGTATATTTTA-TATAT
17722554 TATAT
1 TATAT
17722559 ATATATTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 7 0.27
24 1 0.04
25 9 0.35
26 9 0.35
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.63
Consensus pattern (25 bp):
TATATTATTCGTATATTTTATATAT
Found at i:17722753 original size:25 final size:25
Alignment explanation
Indices: 17722715--17722762 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
17722705 ATTATTGTTA
* *
17722715 TTAATATTAGTATATGTATATATCT
1 TTAATATTAGTATAGGTACATATCT
17722740 TTAATATATA-TATAGGTACATAT
1 TTAATAT-TAGTATAGGTACATAT
17722763 TTATGTGACG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (25 bp):
TTAATATTAGTATAGGTACATATCT
Found at i:17732762 original size:41 final size:41
Alignment explanation
Indices: 17732715--17733043 Score: 331
Period size: 41 Copynumber: 8.1 Consensus size: 41
17732705 ATTTGCAATA
* * * *
17732715 AAACGCCGCAAAAAACTGAGCAATAGCGGCGTTTTTGTTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCC
* * ** *
17732756 AAACGCCGCCAAAAACTGAGCAATAGTTGCGTTTCTGATCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCC
* * *
17732797 AAACGCCACTAAAAACTGAGCTATAGCGGCATTGT-TGTTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTT-TCTGGTCC
* *
17732838 AAACGCCTCTAAAAATTGAGCAATAGCGGCGTTTCTGGTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCC
* * * * * * *
17732879 AAACACCACTAAAAACTTATCTATATCGGCGTTTTTGTTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCC
* * * *
17732920 AAATGCCACTAAAAACTGGGTAATAGCGCCGTTTCTGGT-C
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCC
* * ** *
17732960 AAACGCCACT-AAAACTAAGCTATAGCGATGTTTTTGGTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCC
** *
17733000 AAACGCTGCTAAAAACTGAGCAATAGCGGCATTTCTGGTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCC
17733041 AAA
1 AAA
17733044 TGCTACAAAA
Statistics
Matches: 231, Mismatches: 53, Indels: 8
0.79 0.18 0.03
Matches are distributed among these distances:
39 21 0.09
40 20 0.09
41 189 0.82
42 1 0.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (41 bp):
AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCC
Found at i:17732852 original size:82 final size:82
Alignment explanation
Indices: 17732715--17733043 Score: 403
Period size: 82 Copynumber: 4.0 Consensus size: 82
17732705 ATTTGCAATA
* * * * *
17732715 AAACGCCGCAAAAAACTGAGCAATAGCGGCGTTTTTGTTCCAAACGCCGCCAAAAACTGAGCAAT
1 AAACGCCACTAAAAACTGAGCTATAGCGGCGTTTTTGTTCCAAACGCCTCTAAAAACTGAGCAAT
** *
17732780 AGTTGCGTTTCTGATCC
66 AGCGGCGTTTCTGGTCC
* * *
17732797 AAACGCCACTAAAAACTGAGCTATAGCGGCATTGTTGTTCCAAACGCCTCTAAAAATTGAGCAAT
1 AAACGCCACTAAAAACTGAGCTATAGCGGCGTTTTTGTTCCAAACGCCTCTAAAAACTGAGCAAT
17732862 AGCGGCGTTTCTGGTCC
66 AGCGGCGTTTCTGGTCC
* * * * * * * *
17732879 AAACACCACTAAAAACTTATCTATATCGGCGTTTTTGTTCCAAATGCCACTAAAAACTGGGTAAT
1 AAACGCCACTAAAAACTGAGCTATAGCGGCGTTTTTGTTCCAAACGCCTCTAAAAACTGAGCAAT
*
17732944 AGCGCCGTTTCTGGT-C
66 AGCGGCGTTTCTGGTCC
* ** *
17732960 AAACGCCACT-AAAACTAAGCTATAGCGATGTTTTTGGTCCAAACG-CTGCTAAAAACTGAGCAA
1 AAACGCCACTAAAAACTGAGCTATAGCGGCGTTTTTGTTCCAAACGCCT-CTAAAAACTGAGCAA
*
17733023 TAGCGGCATTTCTGGTCC
65 TAGCGGCGTTTCTGGTCC
17733041 AAA
1 AAA
17733044 TGCTACAAAA
Statistics
Matches: 209, Mismatches: 36, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
79 1 0.00
80 55 0.26
81 14 0.07
82 139 0.67
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (82 bp):
AAACGCCACTAAAAACTGAGCTATAGCGGCGTTTTTGTTCCAAACGCCTCTAAAAACTGAGCAAT
AGCGGCGTTTCTGGTCC
Found at i:17733003 original size:40 final size:41
Alignment explanation
Indices: 17732715--17733084 Score: 316
Period size: 41 Copynumber: 9.1 Consensus size: 41
17732705 ATTTGCAATA
* * * *
17732715 AAACGCCGCAAAAAACTGAGCAATAGCGGCGTTTTTGTTCC
1 AAACGCCACTAAAAACTGAGCTATAGCGGCGTTTTTGGTCC
* * * ** * *
17732756 AAACGCCGCCAAAAACTGAGCAATAGTTGCGTTTCTGATCC
1 AAACGCCACTAAAAACTGAGCTATAGCGGCGTTTTTGGTCC
* * *
17732797 AAACGCCACTAAAAACTGAGCTATAGCGGCATTGTTGTTCC
1 AAACGCCACTAAAAACTGAGCTATAGCGGCGTTTTTGGTCC
* * * *
17732838 AAACGCCTCTAAAAATTGAGCAATAGCGGCGTTTCTGGTCC
1 AAACGCCACTAAAAACTGAGCTATAGCGGCGTTTTTGGTCC
* * * * *
17732879 AAACACCACTAAAAACTTATCTATATCGGCGTTTTTGTTCC
1 AAACGCCACTAAAAACTGAGCTATAGCGGCGTTTTTGGTCC
* * * *
17732920 AAATGCCACTAAAAACTG-GGTAATAGCGCCGTTTCTGGT-C
1 AAACGCCACTAAAAACTGAGCT-ATAGCGGCGTTTTTGGTCC
* **
17732960 AAACGCCACT-AAAACTAAGCTATAGCGATGTTTTTGGTCC
1 AAACGCCACTAAAAACTGAGCTATAGCGGCGTTTTTGGTCC
** * * *
17733000 AAACGCTGCTAAAAACTGAGCAATAGCGGCATTTCTGGTCC
1 AAACGCCACTAAAAACTGAGCTATAGCGGCGTTTTTGGTCC
* * * ** * *
17733041 AAATGCTAC-AAAAAGTTGATATATAGCGACGTTTTTCGTCC
1 AAACGCCACTAAAAA-CTGAGCTATAGCGGCGTTTTTGGTCC
17733082 AAA
1 AAA
17733085 TGCCGTAAAA
Statistics
Matches: 261, Mismatches: 63, Indels: 10
0.78 0.19 0.03
Matches are distributed among these distances:
39 20 0.08
40 27 0.10
41 214 0.82
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (41 bp):
AAACGCCACTAAAAACTGAGCTATAGCGGCGTTTTTGGTCC
Found at i:17733076 original size:162 final size:164
Alignment explanation
Indices: 17732737--17733088 Score: 428
Period size: 162 Copynumber: 2.2 Consensus size: 164
17732727 AAACTGAGCA
* * *
17732737 ATAGCGGCGTTTTTGTTCCAAACGCCGCCAAAAACTGAGCAATAGTTGCGTTTCTGATCCAAACG
1 ATAGCGGCGTTTTTGTTCCAAATGCCACCAAAAACTGAGCAATAGTCGCGTTTCTGATCCAAACG
* * * *
17732802 CCACTAAAAACTGAGCTATAGCGGCATTGTTGTTCCAAACGCCTCTAAAAATTGAGCAATAGCGG
66 CCACTAAAAACTAAGCTATAGCGACATTGTTGGTCCAAACGCCTCTAAAAACTGAGCAATAGCGG
* *
17732867 CGTTTCTGGTCCAAACACCACTAAAAACTTATCT
131 CATTTCTGGTCCAAACACCACTAAAAACTTATAT
* * * * *
17732901 ATATCGGCGTTTTTGTTCCAAATGCCACTAAAAACTGGGTAATAG-CGCCGTTTCTGGT-CAAAC
1 ATAGCGGCGTTTTTGTTCCAAATGCCACCAAAAACTGAGCAATAGTCG-CGTTTCTGATCCAAAC
** *
17732964 GCCACT-AAAACTAAGCTATAGCGATGTTTTTGGTCCAAACG-CTGCTAAAAACTGAGCAATAGC
65 GCCACTAAAAACTAAGCTATAGCGACATTGTTGGTCCAAACGCCT-CTAAAAACTGAGCAATAGC
** * *
17733027 GGCATTTCTGGTCCAAATGCTAC-AAAAAGTTGATAT
129 GGCATTTCTGGTCCAAACACCACTAAAAACTT-ATAT
*
17733063 ATAGCGACGTTTTTCG-TCCAAATGCC
1 ATAGCGGCGTTTTT-GTTCCAAATGCC
17733089 GTAAAAAGTT
Statistics
Matches: 161, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
161 9 0.06
162 91 0.57
163 13 0.08
164 48 0.30
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (164 bp):
ATAGCGGCGTTTTTGTTCCAAATGCCACCAAAAACTGAGCAATAGTCGCGTTTCTGATCCAAACG
CCACTAAAAACTAAGCTATAGCGACATTGTTGGTCCAAACGCCTCTAAAAACTGAGCAATAGCGG
CATTTCTGGTCCAAACACCACTAAAAACTTATAT
Found at i:17733391 original size:21 final size:21
Alignment explanation
Indices: 17733367--17733441 Score: 71
Period size: 21 Copynumber: 3.5 Consensus size: 21
17733357 TGGCTTTATC
17733367 TAAACCCTAAACCTTAAATCT
1 TAAACCCTAAACCTTAAATCT
* * * *
17733388 TAAACCCTAAATTCTAAAAACA
1 TAAACCCTAAA-CCTTAAATCT
* *
17733410 TAGACCCTAAACATT-AATCT
1 TAAACCCTAAACCTTAAATCT
17733430 ATAAACCCTAAA
1 -TAAACCCTAAA
17733442 ACCCTAAACC
Statistics
Matches: 41, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
20 3 0.07
21 22 0.54
22 16 0.39
ACGTcount: A:0.48, C:0.25, G:0.01, T:0.25
Consensus pattern (21 bp):
TAAACCCTAAACCTTAAATCT
Found at i:17733576 original size:7 final size:7
Alignment explanation
Indices: 17733565--17733628 Score: 56
Period size: 7 Copynumber: 9.0 Consensus size: 7
17733555 ATTATTTTTG
*
17733565 GGTTTAG
1 GGTTTAA
17733572 GGTTTAA
1 GGTTTAA
**
17733579 TATTTAA
1 GGTTTAA
17733586 GGTTTAA
1 GGTTTAA
* *
17733593 GGTCTAT
1 GGTTTAA
*
17733600 GGTTTAG
1 GGTTTAA
*
17733607 GGTTGTAT
1 GGTT-TAA
17733615 GGTTTAA
1 GGTTTAA
17733622 GGTTTAA
1 GGTTTAA
17733629 TAGTTATTAT
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
7 39 0.87
8 6 0.13
ACGTcount: A:0.23, C:0.02, G:0.30, T:0.45
Consensus pattern (7 bp):
GGTTTAA
Found at i:17733617 original size:15 final size:15
Alignment explanation
Indices: 17733586--17733625 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
17733576 TAATATTTAA
*
17733586 GGTTTAAGG-TCTAT
1 GGTTTAAGGTTGTAT
*
17733600 GGTTTAGGGTTGTAT
1 GGTTTAAGGTTGTAT
17733615 GGTTTAAGGTT
1 GGTTTAAGGTT
17733626 TAATAGTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.17, C:0.03, G:0.35, T:0.45
Consensus pattern (15 bp):
GGTTTAAGGTTGTAT
Found at i:17733666 original size:28 final size:28
Alignment explanation
Indices: 17733635--17733689 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 28
17733625 TTAATAGTTA
*
17733635 TTATGTTAAGTTTATGGTTTAGGGTTTG
1 TTATGTTAAGTTTAGGGTTTAGGGTTTG
* ** *
17733663 TTATTTTGGGTTTAGGGTTTAGTGTTT
1 TTATGTTAAGTTTAGGGTTTAGGGTTT
17733690 TAAAGTTTGT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (28 bp):
TTATGTTAAGTTTAGGGTTTAGGGTTTG
Found at i:17733738 original size:22 final size:20
Alignment explanation
Indices: 17733710--17733773 Score: 65
Period size: 22 Copynumber: 3.0 Consensus size: 20
17733700 TGTTTGGGGT
17733710 TTAGTGTTTAAGGTTTAAGG
1 TTAGTGTTTAAGGTTTAAGG
*
17733730 TCTTAGTGTTTATGGTTTTAAAGG
1 --TTAGTGTTTAAGG-TTT-AAGG
* *
17733754 TTAGGGTTTAGGGTTTAAGG
1 TTAGTGTTTAAGGTTTAAGG
17733774 GCTAAGGATT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
20 4 0.11
21 3 0.08
22 23 0.62
23 3 0.08
24 4 0.11
ACGTcount: A:0.22, C:0.02, G:0.31, T:0.45
Consensus pattern (20 bp):
TTAGTGTTTAAGGTTTAAGG
Found at i:17734066 original size:14 final size:14
Alignment explanation
Indices: 17734049--17734099 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
17734039 AGGTTTGATG
*
17734049 TTTAAGCTTTAGTT
1 TTTAAGGTTTAGTT
*
17734063 TTTAAGGTTCAGTT
1 TTTAAGGTTTAGTT
**
17734077 TTTAAGGTTTAGGG
1 TTTAAGGTTTAGTT
17734091 TTTAAGGTT
1 TTTAAGGTT
17734100 ATAGGGTTAG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.22, C:0.04, G:0.24, T:0.51
Consensus pattern (14 bp):
TTTAAGGTTTAGTT
Found at i:17734276 original size:7 final size:7
Alignment explanation
Indices: 17734264--17734325 Score: 58
Period size: 7 Copynumber: 8.9 Consensus size: 7
17734254 CATGGAAGTG
17734264 GGTTTAA
1 GGTTTAA
17734271 GGTTT-A
1 GGTTTAA
17734277 GGATTT-A
1 GG-TTTAA
*
17734284 GGATTTAG
1 GG-TTTAA
17734292 GGTTTAA
1 GGTTTAA
*
17734299 GGTTTAG
1 GGTTTAA
17734306 GGTATT-A
1 GGT-TTAA
17734313 GGTTTAA
1 GGTTTAA
17734320 GGTTTA
1 GGTTTA
17734326 GGGGTAAATT
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
6 5 0.11
7 38 0.81
8 4 0.09
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (7 bp):
GGTTTAA
Found at i:17734290 original size:14 final size:13
Alignment explanation
Indices: 17734263--17734327 Score: 76
Period size: 14 Copynumber: 4.7 Consensus size: 13
17734253 GCATGGAAGT
17734263 GGGTTTAAGGTTTA
1 GGGTTT-AGGTTTA
*
17734277 GGATTTAGGATTTA
1 GGGTTTAGG-TTTA
17734291 GGGTTTAAGGTTTA
1 GGGTTT-AGGTTTA
17734305 GGGTATTAGGTTTA
1 GGGT-TTAGGTTTA
*
17734319 AGGTTTAGG
1 GGGTTTAGG
17734328 GGTAAATTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
13 8 0.18
14 32 0.71
15 5 0.11
ACGTcount: A:0.23, C:0.00, G:0.35, T:0.42
Consensus pattern (13 bp):
GGGTTTAGGTTTA
Found at i:17734328 original size:21 final size:20
Alignment explanation
Indices: 17734263--17734328 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 20
17734253 GCATGGAAGT
17734263 GGGTTTAAGGTTT-AGGATTTA
1 GGGTTT-AGGTTTAAGG-TTTA
*
17734284 GGATTTAGGGTTTAAGGTTTA
1 GGGTTTA-GGTTTAAGGTTTA
17734305 GGGTATTAGGTTTAAGGTTTA
1 GGGT-TTAGGTTTAAGGTTTA
17734326 GGG
1 GGG
17734329 GTAAATTTTG
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
20 1 0.03
21 33 0.82
22 6 0.15
ACGTcount: A:0.23, C:0.00, G:0.36, T:0.41
Consensus pattern (20 bp):
GGGTTTAGGTTTAAGGTTTA
Found at i:17735687 original size:20 final size:20
Alignment explanation
Indices: 17735662--17735714 Score: 90
Period size: 20 Copynumber: 2.6 Consensus size: 20
17735652 AGGGGCACAC
17735662 GCCCGTGTGGCCT-GAGACAT
1 GCCCGTGTGGCCTGGA-ACAT
17735682 GCCCGTGTGGCCTGGAACAT
1 GCCCGTGTGGCCTGGAACAT
17735702 GCCCGTGTGGCCT
1 GCCCGTGTGGCCT
17735715 ACCCGTGGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 30 0.94
21 2 0.06
ACGTcount: A:0.11, C:0.32, G:0.36, T:0.21
Consensus pattern (20 bp):
GCCCGTGTGGCCTGGAACAT
Found at i:17739168 original size:24 final size:24
Alignment explanation
Indices: 17739141--17739198 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
17739131 AATACTATGT
*
17739141 ATATAATATTTGTAACTAAAATTA
1 ATATTATATTTGTAACTAAAATTA
* *
17739165 ATATTATATCTGTATCTAAAATTA
1 ATATTATATTTGTAACTAAAATTA
17739189 ATATTATATT
1 ATATTATATT
17739199 ATAAAATACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (24 bp):
ATATTATATTTGTAACTAAAATTA
Found at i:17739302 original size:21 final size:20
Alignment explanation
Indices: 17739278--17739316 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
17739268 TTGTAGGGGA
*
17739278 CATTTTATATTATAGTTATTT
1 CATTTCATATTATA-TTATTT
*
17739299 CATTTCATTTTATATTAT
1 CATTTCATATTATATTAT
17739317 AAAATTAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.62
Consensus pattern (20 bp):
CATTTCATATTATATTATTT
Found at i:17740540 original size:17 final size:16
Alignment explanation
Indices: 17740514--17740545 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
17740504 AAGTATTAAA
17740514 AAATTTAAAATAAAAT
1 AAATTTAAAATAAAAT
17740530 AAATATTAAAATAAAA
1 AAAT-TTAAAATAAAA
17740546 GAAGTGTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
AAATTTAAAATAAAAT
Found at i:17740775 original size:9 final size:9
Alignment explanation
Indices: 17740763--17740849 Score: 79
Period size: 9 Copynumber: 9.4 Consensus size: 9
17740753 ATCATATATA
17740763 ATAACTTAC
1 ATAACTTAC
*
17740772 ATAACTCAC
1 ATAACTTAC
*
17740781 ACAACTTAC
1 ATAACTTAC
17740790 ATAACTTA-
1 ATAACTTAC
*
17740798 ATAACTTAT
1 ATAACTTAC
17740807 ATATATCATATA-
1 ATA-A-C-T-TAC
*
17740819 ATAATTTAC
1 ATAACTTAC
*
17740828 ATAACTCAC
1 ATAACTTAC
17740837 ATAACTTAC
1 ATAACTTAC
17740846 ATAA
1 ATAA
17740850 TACATAAATA
Statistics
Matches: 64, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
8 10 0.16
9 45 0.70
10 1 0.02
11 2 0.03
12 4 0.06
13 2 0.03
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (9 bp):
ATAACTTAC
Found at i:17742725 original size:27 final size:26
Alignment explanation
Indices: 17742695--17742937 Score: 267
Period size: 27 Copynumber: 9.1 Consensus size: 26
17742685 ATAATAAAAG
*
17742695 AAATTACTAAAATATCCTCGATTTGTA
1 AAATTA-TAAAATACCCTCGATTTGTA
* *
17742722 AAATTACTAAAATACCATCGATTTGTG
1 AAATTA-TAAAATACCCTCGATTTGTA
* * *
17742749 AAATTATCGAAACACCCTCGATTTATA
1 AAATTAT-AAAATACCCTCGATTTGTA
* *
17742776 AAATTATTGAAATACCC-CAATTTGTA
1 AAATTA-TAAAATACCCTCGATTTGTA
* *
17742802 AAATTACTGAAATACCCTCGAATTGTA
1 AAATTA-TAAAATACCCTCGATTTGTA
*
17742829 AAATTATCAAAATACCCTC-AATTGTA
1 AAATTAT-AAAATACCCTCGATTTGTA
17742855 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTA-TAAAATACCCTCGATTTGTA
17742882 AAATTATCAAAATATCCCT-GATTTGTA
1 AAATTAT-AAAATA-CCCTCGATTTGTA
*
17742909 AAATTATCAAAACACCCTCGATTTGTA
1 AAATTAT-AAAATACCCTCGATTTGTA
17742936 AA
1 AA
17742938 CGATTTGTAA
Statistics
Matches: 190, Mismatches: 17, Indels: 18
0.84 0.08 0.08
Matches are distributed among these distances:
26 54 0.28
27 131 0.69
28 5 0.03
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.33
Consensus pattern (26 bp):
AAATTATAAAATACCCTCGATTTGTA
Found at i:17742822 original size:53 final size:53
Alignment explanation
Indices: 17742695--17743017 Score: 285
Period size: 53 Copynumber: 5.8 Consensus size: 53
17742685 ATAATAAAAG
* * * * *
17742695 AAATTACTAAAATATCCTCGATTTGTAAAATTA-CTAAAATACCATCGATTTGTG
1 AAATTACTAAAACACCCTCGATTTGTAAAATTATC-AAAATACC-CCAATTTGTA
* * **
17742749 AAATTA-TCGAAACACCCTCGATTTATAAAATTATTGAAATACCCCAATTTGTA
1 AAATTACT-AAAACACCCTCGATTTGTAAAATTATCAAAATACCCCAATTTGTA
* * *
17742802 AAATTACTGAAATACCCTCGAATTGTAAAATTATCAAAATACCCTCAA-TTGTA
1 AAATTACTAAAACACCCTCGATTTGTAAAATTATCAAAATACCC-CAATTTGTA
* **
17742855 AAATTACTAAAATACCCTCGATTTGTAAAATTATCAAAATATCCCTGATTTGTA
1 AAATTACTAAAACACCCTCGATTTGTAAAATTATCAAAATA-CCCCAATTTGTA
*
17742909 AAATTA-TCAAAACACCCTCGATTTGTAAACGATTTGTAAAATTACTGAAATACCCTCAATTTGT
1 AAATTACT-AAAACACCCTCGATTTGTAAA--A--T-T---A-T-C-AAAATACCC-CAATTTGT
17742973 A
53 A
** *
17742974 AAATTACCGAAACACCCTCGATTTGTAAAATTATCGAAATACCC
1 AAATTACTAAAACACCCTCGATTTGTAAAATTATCAAAATACCC
17743018 TTGTAGTGTA
Statistics
Matches: 225, Mismatches: 24, Indels: 40
0.78 0.08 0.14
Matches are distributed among these distances:
53 91 0.40
54 81 0.36
55 1 0.00
56 2 0.01
57 1 0.00
58 1 0.00
59 1 0.00
60 1 0.00
61 1 0.00
62 1 0.00
63 2 0.01
64 4 0.02
65 38 0.17
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (53 bp):
AAATTACTAAAACACCCTCGATTTGTAAAATTATCAAAATACCCCAATTTGTA
Found at i:17742952 original size:38 final size:38
Alignment explanation
Indices: 17742901--17742975 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
17742891 AAATATCCCT
*
17742901 GATTTGTAAAATTA-TCAAAACACCCTCGATTTGTAAAC
1 GATTTGTAAAATTACT-AAAACACCCTCAATTTGTAAAC
* *
17742939 GATTTGTAAAATTACTGAAATACCCTCAATTTGTAAA
1 GATTTGTAAAATTACTAAAACACCCTCAATTTGTAAA
17742976 ATTACCGAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 32 0.97
39 1 0.03
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (38 bp):
GATTTGTAAAATTACTAAAACACCCTCAATTTGTAAAC
Found at i:17742970 original size:27 final size:27
Alignment explanation
Indices: 17742940--17743018 Score: 115
Period size: 27 Copynumber: 2.9 Consensus size: 27
17742930 TTTGTAAACG
17742940 ATTTGTAAAATTACTGAAATACCCTCA
1 ATTTGTAAAATTACTGAAATACCCTCA
* * *
17742967 ATTTGTAAAATTACCGAAACACCCTCG
1 ATTTGTAAAATTACTGAAATACCCTCA
17742994 ATTTGTAAAATTA-TCGAAATACCCT
1 ATTTGTAAAATTACT-GAAATACCCT
17743019 TGTAGTGTAG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
ATTTGTAAAATTACTGAAATACCCTCA
Found at i:17742977 original size:65 final size:65
Alignment explanation
Indices: 17742873--17743002 Score: 192
Period size: 65 Copynumber: 2.0 Consensus size: 65
17742863 AAAATACCCT
* *
17742873 CGATTTGTAAAATTATCAAAATATCCCTGATTTGTAAAATTATCAAAACACCCTCGATTTGTAAA
1 CGATTTGTAAAATTATCAAAATATCCCTAATTTGTAAAATTACCAAAACACCCTCGATTTGTAAA
* *
17742938 CGATTTGTAAAATTA-CTGAAATA-CCCTCAATTTGTAAAATTACCGAAACACCCTCGATTTGTA
1 CGATTTGTAAAATTATC-AAAATATCCCT-AATTTGTAAAATTACCAAAACACCCTCGATTTGTA
17743001 AA
64 AA
17743003 ATTATCGAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
64 5 0.08
65 54 0.92
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.32
Consensus pattern (65 bp):
CGATTTGTAAAATTATCAAAATATCCCTAATTTGTAAAATTACCAAAACACCCTCGATTTGTAAA
Found at i:17743007 original size:92 final size:92
Alignment explanation
Indices: 17742850--17743018 Score: 259
Period size: 92 Copynumber: 1.8 Consensus size: 92
17742840 ATACCCTCAA
* * *
17742850 TTGTAAAATTACTAAAATACCCTCGATTTGTAAAATTATCAAAATATCCCTGATTTGTAAAATTA
1 TTGTAAAATTACTAAAATACCCTCAATTTGTAAAATTACCAAAACATCCCTGATTTGTAAAATTA
17742915 TCAAAACACCCTCGATTTGTAAACGAT
66 TCAAAACACCCTCGATTTGTAAACGAT
* *
17742942 TTGTAAAATTACTGAAATACCCTCAATTTGTAAAATTACCGAAACA-CCCTCGATTTGTAAAATT
1 TTGTAAAATTACTAAAATACCCTCAATTTGTAAAATTACCAAAACATCCCT-GATTTGTAAAATT
* *
17743006 ATCGAAATACCCT
65 ATCAAAACACCCT
17743019 TGTAGTGTAG
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
91 4 0.06
92 65 0.94
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.33
Consensus pattern (92 bp):
TTGTAAAATTACTAAAATACCCTCAATTTGTAAAATTACCAAAACATCCCTGATTTGTAAAATTA
TCAAAACACCCTCGATTTGTAAACGAT
Found at i:17743027 original size:27 final size:26
Alignment explanation
Indices: 17742943--17743085 Score: 92
Period size: 27 Copynumber: 5.3 Consensus size: 26
17742933 GTAAACGATT
** *
17742943 TGTAAAATTACTGAAATACCC-TCAATT
1 TGTAAAATTAC-GAAATACCCTTGTA-G
* * *
17742970 TGTAAAATTACCGAAACACCCTCG-ATT
1 TGTAAAATTA-CGAAATACCCTTGTA-G
17742997 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATTA-CGAAATACCCTTGTAG
* **
17743024 TGTAGAATTAACGAAATAAGCTTGTAG
1 TGTAAAATT-ACGAAATACCCTTGTAG
* * *
17743051 TGTAAAATGACTGACATACCCTTATAG
1 TGTAAAATTAC-GAAATACCCTTGTAG
*
17743078 GGTAAAAT
1 TGTAAAAT
17743086 GACAATTTTA
Statistics
Matches: 94, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.02
27 89 0.95
28 3 0.03
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.30
Consensus pattern (26 bp):
TGTAAAATTACGAAATACCCTTGTAG
Found at i:17748628 original size:13 final size:14
Alignment explanation
Indices: 17748612--17748640 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
17748602 TTTTAAATAT
17748612 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
17748625 TTATAATGGTTTAA
1 TTATAATGGTTTAA
17748639 TT
1 TT
17748641 CGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:17749462 original size:43 final size:42
Alignment explanation
Indices: 17749400--17749635 Score: 219
Period size: 43 Copynumber: 5.5 Consensus size: 42
17749390 TCTGCTAAAA
*
17749400 TTAGTGGCGTTTTTTAGAAAAGCGCCAGTAAAGGTCACTTTCT
1 TTAGCGGCG-TTTTTAGAAAAGCGCCAGTAAAGGTCACTTTCT
* * *
17749443 TTAGCGGCTTTTTTGAGAAAAGCACCGGTAAAGGTCA-TGTTCT
1 TTAGCGGCGTTTTT-AGAAAAGCGCCAGTAAAGGTCACT-TTCT
* * * * *
17749486 TTAACGGCGTTTGTATGAAAAGTG-CTGCTAAAGGTCACGTTCT
1 TTAGCGGCGTTTTTA-GAAAAGCGCCAG-TAAAGGTCACTTTCT
* * * *
17749529 TTAGCGGCGTTTGTATGAAAAGCGCCACTAAAGGCCACGTTCT
1 TTAGCGGCGTTTTTA-GAAAAGCGCCAGTAAAGGTCACTTTCT
*
17749572 TTAGCGGCGTTTTTGAGAAAAGTGCC-GCTAAAGGTCA-TGTTCT
1 TTAGCGGCGTTTTT-AGAAAAGCGCCAG-TAAAGGTCACT-TTCT
*
17749615 TTAGCGGCGTTTGTATGAAAA
1 TTAGCGGCGTTTTTA-GAAAA
17749636 CTGCCGCTAA
Statistics
Matches: 161, Mismatches: 22, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
42 10 0.06
43 149 0.93
44 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (42 bp):
TTAGCGGCGTTTTTAGAAAAGCGCCAGTAAAGGTCACTTTCT
Found at i:17749635 original size:129 final size:129
Alignment explanation
Indices: 17749406--17749745 Score: 400
Period size: 129 Copynumber: 2.7 Consensus size: 129
17749396 AAAATTAGTG
* * * * * * *
17749406 GCGTTTTTTAGAAAAGCGCCAGTAAAGGTCACTTTCTTTAGCGGCTTTTTTGAGAAAAGCACCGG
1 GCGTTTGTGAGAAAAGCGCCACTAAAGGTCACGTTCTTTAGCGGCGTTTTTGAGAAAAGCGCCGC
* * * ** * *
17749471 TAAAGGTCATGTTCTTTAACGGCGTTTGTATGAAAAGTGCTGCTAAAGGTCACGTTCTTTAGCG
66 TAAAGGTCATGTTCTTTAGCGGCGTTTGTATGAAAACTGCCGCTAAAGGTCACCCTCTTTAACA
* *
17749535 GCGTTTGT-ATGAAAAGCGCCACTAAAGGCCACGTTCTTTAGCGGCGTTTTTGAGAAAAGTGCCG
1 GCGTTTGTGA-GAAAAGCGCCACTAAAGGTCACGTTCTTTAGCGGCGTTTTTGAGAAAAGCGCCG
*
17749599 CTAAAGGTCATGTTCTTTAGCGGCGTTTGTATGAAAACTGCCGCTAAAGGTTACCCTCTTTAACA
65 CTAAAGGTCATGTTCTTTAGCGGCGTTTGTATGAAAACTGCCGCTAAAGGTCACCCTCTTTAACA
* * * * * * * *
17749664 GTGTTTTTGAGAAAAGCACCACTAAA-TTCACGTTCTTTAACGACGCTTTCTCA-AAAA-CGCCG
1 GCGTTTGTGAGAAAAGCGCCACTAAAGGTCACGTTCTTTAGCGGCG-TTTTTGAGAAAAGCGCCG
*
17749726 CTAAATGTCATGTTCTTTAG
65 CTAAAGGTCATGTTCTTTAG
17749746 TGGCATTTTT
Statistics
Matches: 181, Mismatches: 27, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
127 23 0.13
128 20 0.11
129 137 0.76
130 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.31
Consensus pattern (129 bp):
GCGTTTGTGAGAAAAGCGCCACTAAAGGTCACGTTCTTTAGCGGCGTTTTTGAGAAAAGCGCCGC
TAAAGGTCATGTTCTTTAGCGGCGTTTGTATGAAAACTGCCGCTAAAGGTCACCCTCTTTAACA
Found at i:17749659 original size:86 final size:86
Alignment explanation
Indices: 17749405--17749679 Score: 308
Period size: 86 Copynumber: 3.2 Consensus size: 86
17749395 TAAAATTAGT
* * * * *
17749405 GGCGTTTTTTAGAAAAGCGCCAG-TAAAGGTCACT-TTCTTTAGCGGCTTTTTTGA-GAAAAGCA
1 GGCGTTTTTGAGAAAAGTGCC-GCTAAAGGTCA-TGTTCTTTAGCGGCGTTTGT-ATGAAAAGCG
* *
17749467 CCGGTAAAGGTCATGTTCTTTAAC
63 CCGCTAAAGGTCACGTTCTTTAAC
* * *
17749491 GGCGTTTGT-ATGAAAAGTGCTGCTAAAGGTCACGTTCTTTAGCGGCGTTTGTATGAAAAGCGCC
1 GGCGTTTTTGA-GAAAAGTGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTATGAAAAGCGCC
* * *
17749555 ACTAAAGGCCACGTTCTTTAGC
65 GCTAAAGGTCACGTTCTTTAAC
17749577 GGCGTTTTTGAGAAAAGTGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTATGAAAA-CTGCC
1 GGCGTTTTTGAGAAAAGTGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTATGAAAAGC-GCC
* **
17749641 GCTAAAGGTTACCCTCTTTAAC
65 GCTAAAGGTCACGTTCTTTAAC
* *
17749663 AGTGTTTTTGAGAAAAG
1 GGCGTTTTTGAGAAAAG
17749680 CACCACTAAA
Statistics
Matches: 160, Mismatches: 23, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
85 4 0.03
86 155 0.97
87 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (86 bp):
GGCGTTTTTGAGAAAAGTGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTATGAAAAGCGCCG
CTAAAGGTCACGTTCTTTAAC
Found at i:17749660 original size:43 final size:43
Alignment explanation
Indices: 17749428--17749649 Score: 254
Period size: 43 Copynumber: 5.2 Consensus size: 43
17749418 AAAGCGCCAG
* * * * *
17749428 TAAAGGTCACTTTCTTTAGCGGCTTTTTTGA-GAAAAGC-ACCGG
1 TAAAGGTCACGTTCTTTAGCGGCGTTTGT-ATGAAAA-CTGCCGC
* * * *
17749471 TAAAGGTCATGTTCTTTAACGGCGTTTGTATGAAAAGTGCTGC
1 TAAAGGTCACGTTCTTTAGCGGCGTTTGTATGAAAACTGCCGC
*
17749514 TAAAGGTCACGTTCTTTAGCGGCGTTTGTATGAAAAGC-GCCAC
1 TAAAGGTCACGTTCTTTAGCGGCGTTTGTATGAAAA-CTGCCGC
* * *
17749557 TAAAGGCCACGTTCTTTAGCGGCGTTTTTGA-GAAAAGTGCCGC
1 TAAAGGTCACGTTCTTTAGCGGCGTTTGT-ATGAAAACTGCCGC
*
17749600 TAAAGGTCATGTTCTTTAGCGGCGTTTGTATGAAAACTGCCGC
1 TAAAGGTCACGTTCTTTAGCGGCGTTTGTATGAAAACTGCCGC
17749643 TAAAGGT
1 TAAAGGT
17749650 TACCCTCTTT
Statistics
Matches: 151, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
42 2 0.01
43 148 0.98
44 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
TAAAGGTCACGTTCTTTAGCGGCGTTTGTATGAAAACTGCCGC
Found at i:17749678 original size:43 final size:43
Alignment explanation
Indices: 17749406--17749678 Score: 119
Period size: 43 Copynumber: 6.3 Consensus size: 43
17749396 AAAATTAGTG
* ** * *
17749406 GCGTTTTTTAGAAAAGC-GCCAG-TAAAGGTCACTTTCTTTAGCG
1 GCGTTTTTGAGAAAA-CTGCC-GCTAAAGGTCACCCTCTTTAACA
* * * *** *
17749449 GCTTTTTTGAGAAAAGC-ACCGGTAAAGGTCATGTTCTTTAACG
1 GCGTTTTTGAGAAAA-CTGCCGCTAAAGGTCACCCTCTTTAACA
* * * ** * *
17749492 GCGTTTGT-ATGAAAAGTGCTGCTAAAGGTCACGTTCTTTAGCG
1 GCGTTTTTGA-GAAAACTGCCGCTAAAGGTCACCCTCTTTAACA
* * * ** * *
17749535 GCGTTTGTATGA-AAAGC-GCCACTAAAGGCCACGTTCTTTAGCG
1 GCGTTT-T-TGAGAAAACTGCCGCTAAAGGTCACCCTCTTTAACA
* *** * *
17749578 GCGTTTTTGAGAAAAGTGCCGCTAAAGGTCATGTTCTTTAGCG
1 GCGTTTTTGAGAAAACTGCCGCTAAAGGTCACCCTCTTTAACA
* *
17749621 GCGTTTGT-ATGAAAACTGCCGCTAAAGGTTACCCTCTTTAACA
1 GCGTTTTTGA-GAAAACTGCCGCTAAAGGTCACCCTCTTTAACA
*
17749664 GTGTTTTTGAGAAAA
1 GCGTTTTTGAGAAAA
17749679 GCACCACTAA
Statistics
Matches: 185, Mismatches: 35, Indels: 20
0.77 0.15 0.08
Matches are distributed among these distances:
41 3 0.02
42 7 0.04
43 169 0.91
44 4 0.02
45 1 0.01
46 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
GCGTTTTTGAGAAAACTGCCGCTAAAGGTCACCCTCTTTAACA
Found at i:17750069 original size:88 final size:88
Alignment explanation
Indices: 17749965--17750128 Score: 265
Period size: 88 Copynumber: 1.9 Consensus size: 88
17749955 TTTTTCAAGA
* *
17749965 TTTTAAAAATCCTAGATAAACCCCAATTTCCCTTTTGGCTCTTGAGAATGCTAACTTGAAGTTGG
1 TTTTAAAAACCCTAGATAAACCCCAATTTCCCTTTTGGCTATTGAGAATGCTAACTTGAAGTTGG
17750030 GTTTTCATGTGGTTAAGGTGGAT
66 GTTTTCATGTGGTTAAGGTGGAT
* * * * *
17750053 TTTTAAAAACCCTAGATAAACCCCAATTTTCCTTTTGGCTATTGAGAGTGTTGATTTGAAGTTGG
1 TTTTAAAAACCCTAGATAAACCCCAATTTCCCTTTTGGCTATTGAGAATGCTAACTTGAAGTTGG
17750118 GTTTTCATGTG
66 GTTTTCATGTG
17750129 CTTAGGTTCT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 69 1.00
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.39
Consensus pattern (88 bp):
TTTTAAAAACCCTAGATAAACCCCAATTTCCCTTTTGGCTATTGAGAATGCTAACTTGAAGTTGG
GTTTTCATGTGGTTAAGGTGGAT
Found at i:17752859 original size:25 final size:23
Alignment explanation
Indices: 17752817--17752866 Score: 64
Period size: 25 Copynumber: 2.1 Consensus size: 23
17752807 TCAATAAAAA
*
17752817 TTCTTTTTCTTTTCCTTTCTTAT
1 TTCTTTTTCTTTTACTTTCTTAT
*
17752840 TTCTTCTTCTCTTTTACTTTTTTAT
1 TTCTT-TT-TCTTTTACTTTCTTAT
17752865 TT
1 TT
17752867 TTTATTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 5 0.22
24 2 0.09
25 16 0.70
ACGTcount: A:0.06, C:0.20, G:0.00, T:0.74
Consensus pattern (23 bp):
TTCTTTTTCTTTTACTTTCTTAT
Found at i:17753011 original size:3 final size:3
Alignment explanation
Indices: 17753003--17753030 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
17752993 TCAAAATCTG
17753003 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
17753031 ACCTACTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:17756117 original size:14 final size:14
Alignment explanation
Indices: 17756095--17756127 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
17756085 GTCATCTCAC
*
17756095 TATTATATTGTTAT
1 TATTTTATTGTTAT
17756109 TATTTTATTGTTAT
1 TATTTTATTGTTAT
17756123 TATTT
1 TATTT
17756128 GAATATTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (14 bp):
TATTTTATTGTTAT
Found at i:17761766 original size:16 final size:16
Alignment explanation
Indices: 17761731--17761771 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
17761721 AAAATATAGC
*
17761731 ATTATATCTATTGTGT
1 ATTATATCAATTGTGT
17761747 ATTATATCAATTGATG-
1 ATTATATCAATTG-TGT
17761763 ATTA-ATCAA
1 ATTATATCAA
17761772 AAGTGTGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 5 0.22
16 16 0.70
17 2 0.09
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.46
Consensus pattern (16 bp):
ATTATATCAATTGTGT
Found at i:17765325 original size:15 final size:14
Alignment explanation
Indices: 17765302--17765382 Score: 53
Period size: 15 Copynumber: 5.7 Consensus size: 14
17765292 TTCATTTAGC
*
17765302 TTTAAATATTATTCA
1 TTTATATATTATT-A
17765317 TTTATATA-TATTA
1 TTTATATATTATTA
*
17765330 TTGT-TATCACTATTA
1 TT-TATAT-ATTATTA
*
17765345 TTTTTATATTATTA
1 TTTATATATTATTA
17765359 -TTATAT-TATATTTA
1 TTTATATAT-TA-TTA
*
17765373 GTTATATATT
1 TTTATATATT
17765383 TTAAATATCT
Statistics
Matches: 55, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
12 1 0.02
13 13 0.24
14 16 0.29
15 24 0.44
16 1 0.02
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (14 bp):
TTTATATATTATTA
Found at i:17765362 original size:17 final size:19
Alignment explanation
Indices: 17765340--17765384 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 19
17765330 TTGTTATCAC
17765340 TATTATTTTTATA-TTA-T
1 TATTATTTTTATATTTAGT
*
17765357 TATTA-TATTATATTTAGT
1 TATTATTTTTATATTTAGT
17765375 TATATATTTT
1 TAT-TATTTT
17765385 AAATATCTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
16 6 0.27
17 8 0.36
18 4 0.18
19 2 0.09
20 2 0.09
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (19 bp):
TATTATTTTTATATTTAGT
Found at i:17765432 original size:3 final size:3
Alignment explanation
Indices: 17765419--17765465 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
17765409 TATGCATATA
* * *
17765419 TAT TTT TAT TAT TAG TAT TAT TAT TA- TAT TCAT TAT TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT
17765464 TA
1 TA
17765466 GTACTAGTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
2 2 0.06
3 31 0.86
4 3 0.08
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:17765441 original size:12 final size:11
Alignment explanation
Indices: 17765424--17765465 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 11
17765414 ATATATATTT
17765424 TTATTATTAGTA
1 TTATTATTA-TA
17765436 TTATTATTATA
1 TTATTATTATA
17765447 TTCATTATTAATA
1 TT-ATTATT-ATA
17765460 TTATTA
1 TTATTA
17765466 GTACTAGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
11 4 0.14
12 19 0.68
13 5 0.18
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (11 bp):
TTATTATTATA
Found at i:17765592 original size:21 final size:21
Alignment explanation
Indices: 17765561--17765729 Score: 99
Period size: 21 Copynumber: 8.0 Consensus size: 21
17765551 CATTATTATC
17765561 ATTTTTAATATATATTGTATAT
1 ATTTTT-ATATATATTGTATAT
*
17765583 GTTTTTATATATATTATGTATAT
1 ATTTTTATATATA-T-TGTATAT
17765606 ATTTTTA-ATATTATTAGT-TAT
1 ATTTTTATATA-TATT-GTATAT
*
17765627 ATTTTTATACTAT-TTCGTGTAT
1 ATTTTTATA-TATATT-GTATAT
*
17765649 ATATTTATAT-TATCCT-TAT-T
1 ATTTTTATATATAT--TGTATAT
*
17765669 ATTATTAT-TAATATTAGTATAT
1 ATTTTTATAT-ATATT-GTATAT
*
17765691 -GTTTTAT-TATA-TGTATAT
1 ATTTTTATATATATTGTATAT
*
17765709 ATCTTTA-ATATATATGTATAT
1 ATTTTTATATATAT-TGTATAT
17765730 CTTTATGTAA
Statistics
Matches: 117, Mismatches: 11, Indels: 39
0.70 0.07 0.23
Matches are distributed among these distances:
18 6 0.05
19 11 0.09
20 11 0.09
21 45 0.38
22 26 0.22
23 18 0.15
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.59
Consensus pattern (21 bp):
ATTTTTATATATATTGTATAT
Found at i:17765613 original size:45 final size:45
Alignment explanation
Indices: 17765561--17765654 Score: 122
Period size: 45 Copynumber: 2.1 Consensus size: 45
17765551 CATTATTATC
*
17765561 ATTTTTAATATATATT-GTATATGTTTTTATA-TATATT-ATGTATAT
1 ATTTTTAATAT-TATTAGT-TATATTTTTATACTAT-TTCATGTATAT
*
17765606 ATTTTTAATATTATTAGTTATATTTTTATACTATTTCGTGTATAT
1 ATTTTTAATATTATTAGTTATATTTTTATACTATTTCATGTATAT
17765651 ATTT
1 ATTT
17765655 ATATTATCCT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
44 17 0.39
45 27 0.61
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (45 bp):
ATTTTTAATATTATTAGTTATATTTTTATACTATTTCATGTATAT
Found at i:17765650 original size:22 final size:20
Alignment explanation
Indices: 17765584--17765640 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 20
17765574 ATTGTATATG
*
17765584 TTTTTATATATATTATGTATATA
1 TTTTTATA-CTATTA-GT-TATA
*
17765607 TTTTTAATATTATTAGTTATA
1 TTTTT-ATACTATTAGTTATA
17765628 TTTTTATACTATT
1 TTTTTATACTATT
17765641 TCGTGTATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 7 0.23
21 9 0.29
22 2 0.06
23 10 0.32
24 3 0.10
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.63
Consensus pattern (20 bp):
TTTTTATACTATTAGTTATA
Found at i:17765742 original size:19 final size:19
Alignment explanation
Indices: 17765676--17765734 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
17765666 ATTATTATTA
*
17765676 TTAATAT-TA-GTATATGT
1 TTAATATATATGTATATCT
*
17765693 TTTAT-TATATGTATATATCT
1 TTAATATATATG--TATATCT
17765713 TTAATATATATGTATATCT
1 TTAATATATATGTATATCT
17765732 TTA
1 TTA
17765735 TGTAATATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
16 1 0.03
17 6 0.18
18 1 0.03
19 10 0.29
20 10 0.29
21 6 0.18
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.56
Consensus pattern (19 bp):
TTAATATATATGTATATCT
Found at i:17765820 original size:24 final size:23
Alignment explanation
Indices: 17765786--17765850 Score: 76
Period size: 24 Copynumber: 2.8 Consensus size: 23
17765776 TTCTAATATG
* *
17765786 TATATACTATGTAAATATTTTAA
1 TATATATTATGTATATATTTTAA
* *
17765809 TACTATATTATGTATACATTTTTA
1 TA-TATATTATGTATATATTTTAA
*
17765833 TATATATTACGTATATAT
1 TATATATTATGTATATAT
17765851 ATCTTTTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
23 16 0.46
24 19 0.54
ACGTcount: A:0.38, C:0.06, G:0.05, T:0.51
Consensus pattern (23 bp):
TATATATTATGTATATATTTTAA
Found at i:17765846 original size:23 final size:24
Alignment explanation
Indices: 17765802--17765847 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
17765792 CTATGTAAAT
*
17765802 ATTTTAATACTATATTATGTATAC
1 ATTTTAATACTATATTACGTATAC
*
17765826 ATTTTTATA-TATATTACGTATA
1 ATTTTAATACTATATTACGTATA
17765848 TATATCTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.52
Consensus pattern (24 bp):
ATTTTAATACTATATTACGTATAC
Found at i:17765987 original size:25 final size:25
Alignment explanation
Indices: 17765956--17766003 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
17765946 TTTTAAATAA
**
17765956 CTATATTATGTATGTATTTTTAACG
1 CTATATTATGTACATATTTTTAACG
17765981 CTATATTATGTACATATTTTTAA
1 CTATATTATGTACATATTTTTAA
17766004 TACTATGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.52
Consensus pattern (25 bp):
CTATATTATGTACATATTTTTAACG
Found at i:17766009 original size:25 final size:25
Alignment explanation
Indices: 17765945--17766009 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 25
17765935 TATATAATTT
**
17765945 TTTTTAAATAACTATATTATGTATGTA
1 TTTTT-AAT-ACTATATTATGTACATA
**
17765972 TTTTTAACGCTATATTATGTACATA
1 TTTTTAATACTATATTATGTACATA
17765997 TTTTTAATACTAT
1 TTTTTAATACTAT
17766010 GTATACACTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
25 25 0.78
26 2 0.06
27 5 0.16
ACGTcount: A:0.34, C:0.08, G:0.06, T:0.52
Consensus pattern (25 bp):
TTTTTAATACTATATTATGTACATA
Found at i:17769929 original size:22 final size:22
Alignment explanation
Indices: 17769904--17769948 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
17769894 ATTCATGACT
17769904 AACATTCATTTGTCATTTATTC
1 AACATTCATTTGTCATTTATTC
*
17769926 AACATTTATTTGTCATTTATTC
1 AACATTCATTTGTCATTTATTC
17769948 A
1 A
17769949 TTCATCCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.29, C:0.16, G:0.04, T:0.51
Consensus pattern (22 bp):
AACATTCATTTGTCATTTATTC
Found at i:17775359 original size:20 final size:20
Alignment explanation
Indices: 17775324--17775380 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
17775314 TTTATTATTT
17775324 ATTATTATTCTATTAAATTATA
1 ATTATTA-T-TATTAAATTATA
* *
17775346 ATTTTTATTATTAAATTATG
1 ATTATTATTATTAAATTATA
17775366 ATTATTATTATTAAA
1 ATTATTATTATTAAA
17775381 AATAAATTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
20 25 0.78
21 1 0.03
22 6 0.19
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
ATTATTATTATTAAATTATA
Found at i:17775363 original size:25 final size:26
Alignment explanation
Indices: 17775315--17775394 Score: 65
Period size: 26 Copynumber: 3.1 Consensus size: 26
17775305 ATATAGATAT
* **
17775315 TTATTATTTATTATTATTCTATTAAA
1 TTATAATTTATTATTATTAAATTAAA
*
17775341 TTATAATTT-TTATTATTAAATTATGA
1 TTATAATTTATTATTATTAAATTA-AA
* ** *
17775367 TTATTA-TTATTAAAAATAAATTAAA
1 TTATAATTTATTATTATTAAATTAAA
17775392 TTA
1 TTA
17775395 AAGATAAATG
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
25 18 0.42
26 25 0.58
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (26 bp):
TTATAATTTATTATTATTAAATTAAA
Found at i:17775752 original size:23 final size:23
Alignment explanation
Indices: 17775726--17775770 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
17775716 AGAACATTTC
17775726 GAAACAGAACAGG-AAAGAAAAAG
1 GAAACA-AACAGGAAAAGAAAAAG
* *
17775749 GAAAGAAAGAGGAAAAGAAAAA
1 GAAACAAACAGGAAAAGAAAAA
17775771 TTAAGGTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.69, C:0.04, G:0.27, T:0.00
Consensus pattern (23 bp):
GAAACAAACAGGAAAAGAAAAAG
Found at i:17775767 original size:12 final size:11
Alignment explanation
Indices: 17775736--17775770 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
17775726 GAAACAGAAC
17775736 AGGAAAGAAAA
1 AGGAAAGAAAA
*
17775747 AGGAAAGAAAG
1 AGGAAAGAAAA
17775758 AGGAAAAGAAAA
1 AGG-AAAGAAAA
17775770 A
1 A
17775771 TTAAGGTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 13 0.62
12 8 0.38
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (11 bp):
AGGAAAGAAAA
Found at i:17776808 original size:45 final size:45
Alignment explanation
Indices: 17776758--17776868 Score: 161
Period size: 45 Copynumber: 2.5 Consensus size: 45
17776748 CTACTATTGT
*
17776758 TACTGTTACTGTTACTGTTACCGATTC-GACACTTTGTGTGTCGAA
1 TACTGTTACTGTTACTGTTACAGATTCAG-CACTTTGTGTGTCGAA
* * * *
17776803 TACTGTTACCGTTACTATTATAGATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACTGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAA
17776848 TACTGTTACTGTTACTGTTAC
1 TACTGTTACTGTTACTGTTAC
17776869 TGCTACTGCT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 56 0.98
46 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (45 bp):
TACTGTTACTGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAA
Found at i:17776859 original size:6 final size:6
Alignment explanation
Indices: 17776848--17776905 Score: 55
Period size: 6 Copynumber: 9.3 Consensus size: 6
17776838 GTGTGTTGAA
* * *
17776848 TACTGT TACTGT TACTGT TACTGC TACTGC TACTGC TA-TCGT TACTGAT
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT TACT-GT TACTG-T
17776897 TACTTGT TA
1 TAC-TGT TA
17776906 GATATTGTGT
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
5 1 0.02
6 35 0.76
7 8 0.17
8 2 0.04
ACGTcount: A:0.19, C:0.21, G:0.16, T:0.45
Consensus pattern (6 bp):
TACTGT
Found at i:17777655 original size:15 final size:15
Alignment explanation
Indices: 17777624--17777654 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
17777614 GTCGAAATTT
17777624 ATAAAAAAATAAAAA
1 ATAAAAAAATAAAAA
17777639 ATAATAAAAATAAAAA
1 ATAA-AAAAATAAAAA
17777655 TTTGGAGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (15 bp):
ATAAAAAAATAAAAA
Found at i:17781287 original size:76 final size:75
Alignment explanation
Indices: 17781071--17781293 Score: 356
Period size: 75 Copynumber: 3.0 Consensus size: 75
17781061 TTATTCTAAT
* *
17781071 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACGCTGAGGTATTTTTAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCTGT
17781136 TTTTCAAAAA
66 TTTTCAAAAA
*
17781146 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTTAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCTGT
17781211 TTTTCAAAAA
66 TTTTCAAAAA
* * * ** *
17781221 AATCAACTCATATTACGAGAGCTGAGTTGAGCCGCGGGTCCACATTGAGGTATTTTCAATTTCTG
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT-CACGCTGAGGTATTTTTAATTTCTG
17781286 TTTTTCAA
65 TTTTTCAA
17781294 TTTCTACTTT
Statistics
Matches: 137, Mismatches: 10, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
75 107 0.78
76 30 0.22
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (75 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCTGT
TTTTCAAAAA
Found at i:17781304 original size:14 final size:14
Alignment explanation
Indices: 17781273--17781307 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
17781263 CATTGAGGTA
**
17781273 TTTTCAATTTCTGT
1 TTTTCAATTTCTAC
17781287 TTTTCAATTTCTAC
1 TTTTCAATTTCTAC
17781301 TTTTCAA
1 TTTTCAA
17781308 AAATCAACTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.20, C:0.17, G:0.03, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTAC
Found at i:17781381 original size:14 final size:14
Alignment explanation
Indices: 17781362--17781393 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
17781352 TGCCAAGGTA
17781362 TTTTCAAATTCTAT
1 TTTTCAAATTCTAT
17781376 TTTTCAAATTCTAT
1 TTTTCAAATTCTAT
17781390 TTTT
1 TTTT
17781394 AATTTCTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.25, C:0.12, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTTCAAATTCTAT
Found at i:17781400 original size:13 final size:13
Alignment explanation
Indices: 17781360--17781405 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
17781350 CATGCCAAGG
*
17781360 TATTTTCAAATTC
1 TATTTTTAAATTC
17781373 TATTTTTCAAATTC
1 TATTTTT-AAATTC
*
17781387 TATTTTTAATTTC
1 TATTTTTAAATTC
*
17781400 TGTTTT
1 TATTTT
17781406 AAAAAAAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 16 0.55
14 13 0.45
ACGTcount: A:0.24, C:0.11, G:0.02, T:0.63
Consensus pattern (13 bp):
TATTTTTAAATTC
Found at i:17781521 original size:86 final size:86
Alignment explanation
Indices: 17781376--17781654 Score: 330
Period size: 86 Copynumber: 3.2 Consensus size: 86
17781366 CAAATTCTAT
* * * * * *
17781376 TTTTCAAATTCTATTTTTAATTTCTGTTTTAAAAAAAAACAACTCATATTGCAAGAGGTGAGTTG
1 TTTTCAATTTCTGTTTTTAATGTCTGTTTT--CAAAAATCAACTCATATTGCGAGAGGTGAGTTG
* *
17781441 AGCCTCAGTCACATGCTAAGGTA
64 AGCCTCGGTCACATGCCAAGGTA
*
17781464 TTTTCAATTTCTGTTTTTCAAT-TCATG-TTTCAACAATCAACTCATATTGCGAGAGGTGAGTTG
1 TTTTCAATTTCTGTTTTT-AATGTC-TGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
* * *
17781527 AGCCCCGGGCTACATGCCGAGGTA
64 AGCCTCGGTC-ACATGCCAAGGTA
*
17781551 TTTT-AATTTCTGTTTTTAATGTCTGTTTTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAG
1 TTTTCAATTTCTGTTTTTAATGTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
* *
17781615 CCTTGGCTCACACGCCAAGGTA
66 CCTCGG-TCACATGCCAAGGTA
* *
17781637 TTTTCAATTCCTATTTTT
1 TTTTCAATTTCTGTTTTT
17781655 GAAAATCAAC
Statistics
Matches: 164, Mismatches: 20, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
85 5 0.03
86 106 0.65
87 27 0.16
88 21 0.13
89 5 0.03
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.38
Consensus pattern (86 bp):
TTTTCAATTTCTGTTTTTAATGTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
CCTCGGTCACATGCCAAGGTA
Found at i:17781710 original size:74 final size:74
Alignment explanation
Indices: 17781576--17781735 Score: 223
Period size: 74 Copynumber: 2.1 Consensus size: 74
17781566 TTAATGTCTG
* * *
17781576 TTTTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCCAAGGTATTTT
1 TTTTC-AAAATCAACTCATATTGCGAGAGATGAATTGAGCCTTGGCTCACACGCCAAGGTATTTT
*
17781641 C-AATTCCTAT
65 CAAATT-CTAC
* * * *
17781651 TTTTGAAAATCAACTCATATTGCGAGAGATGAATTGAGCCTTGGGTCACATGCCGAGGTATTTTC
1 TTTTCAAAATCAACTCATATTGCGAGAGATGAATTGAGCCTTGGCTCACACGCCAAGGTATTTTC
17781716 AAATTCTAC
66 AAATTCTAC
17781725 TTTTCAAAATC
1 TTTTCAAAATC
17781736 TGTTTTTAAT
Statistics
Matches: 75, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
74 67 0.89
75 8 0.11
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (74 bp):
TTTTCAAAATCAACTCATATTGCGAGAGATGAATTGAGCCTTGGCTCACACGCCAAGGTATTTTC
AAATTCTAC
Found at i:17783441 original size:3 final size:3
Alignment explanation
Indices: 17783433--17783474 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
17783423 GCATATATAT
* *
17783433 TTA TTA TTA TTA GTA TTA TTA -TA TTCA TTA TTA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA
17783475 GTACTAGTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:17783603 original size:23 final size:22
Alignment explanation
Indices: 17783573--17783654 Score: 71
Period size: 23 Copynumber: 3.6 Consensus size: 22
17783563 TTATCATTTC
17783573 TATATATATATCGTATATGTTTT
1 TATATATATATCGTATAT-TTTT
*
17783596 TATATATATTAT-GTATATATTT
1 TATATATA-TATCGTATATTTTT
*
17783618 TA-ATAT-TATTAGTTATATTTTT
1 TATATATATA-TCG-TATATTTTT
*
17783640 TATATACTATTTCGT
1 TATATA-TATATCGT
17783655 GTATATATTA
Statistics
Matches: 48, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
19 2 0.04
20 1 0.02
21 5 0.10
22 15 0.31
23 18 0.38
24 6 0.12
25 1 0.02
ACGTcount: A:0.32, C:0.04, G:0.06, T:0.59
Consensus pattern (22 bp):
TATATATATATCGTATATTTTT
Found at i:17783623 original size:21 final size:21
Alignment explanation
Indices: 17783574--17783737 Score: 64
Period size: 23 Copynumber: 7.7 Consensus size: 21
17783564 TATCATTTCT
*
17783574 ATATATATATCGTATATGTTTTTA
1 ATATAT-TAT-GTATAT-ATTTTA
17783598 TATATATTATGTATATATTTTA
1 -ATATATTATGTATATATTTTA
*
17783620 ATATTATTA-GTTATATTTTTTA
1 ATA-TATTATG-TATATATTTTA
*
17783642 TATACTATT-TCGTGTATA---TA
1 -ATA-TATTAT-GTATATATTTTA
*
17783662 TTATATTATCGT-TATTATTATT-
1 ATATATTAT-GTATA-TATT-TTA
*
17783684 A-ATATTA-GTATATGTTTT-
1 ATATATTATGTATATATTTTA
*
17783702 AT-TA-AATGTATATATCTTTA
1 ATATATTATGTATATAT-TTTA
17783722 ATATATATATGTATAT
1 ATATAT-TATGTATAT
17783738 CTTTATGTAA
Statistics
Matches: 109, Mismatches: 11, Indels: 40
0.68 0.07 0.25
Matches are distributed among these distances:
17 1 0.01
18 18 0.17
19 16 0.15
20 6 0.06
21 12 0.11
22 20 0.18
23 26 0.24
24 4 0.04
25 6 0.06
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.56
Consensus pattern (21 bp):
ATATATTATGTATATATTTTA
Found at i:17783837 original size:24 final size:24
Alignment explanation
Indices: 17783794--17783856 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 24
17783784 TTCTAATATG
*
17783794 TATATACTATGTA-A-ATATTTTAA
1 TATATATTATGTATACAT-TTTTAA
*
17783817 TACTATATTATGTATACATTTTTTA
1 TA-TATATTATGTATACATTTTTAA
*
17783842 TATATATTACGTATA
1 TATATATTATGTATA
17783857 TATATCTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
23 2 0.06
24 22 0.65
25 8 0.24
26 2 0.06
ACGTcount: A:0.38, C:0.06, G:0.05, T:0.51
Consensus pattern (24 bp):
TATATATTATGTATACATTTTTAA
Found at i:17783992 original size:25 final size:25
Alignment explanation
Indices: 17783961--17784008 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
17783951 TTTTAAATAA
**
17783961 CTATATTATGTATGTATTTTTAACG
1 CTATATTATGTACATATTTTTAACG
17783986 CTATATTATGTACATATTTTTAA
1 CTATATTATGTACATATTTTTAA
17784009 TACTATGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.52
Consensus pattern (25 bp):
CTATATTATGTACATATTTTTAACG
Found at i:17784014 original size:25 final size:25
Alignment explanation
Indices: 17783950--17784014 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 25
17783940 ATATATATAT
**
17783950 TTTTTAAATAACTATATTATGTATGTA
1 TTTTT-AAT-ACTATATTATGTACATA
**
17783977 TTTTTAACGCTATATTATGTACATA
1 TTTTTAATACTATATTATGTACATA
17784002 TTTTTAATACTAT
1 TTTTTAATACTAT
17784015 GTATACACTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
25 25 0.78
26 2 0.06
27 5 0.16
ACGTcount: A:0.34, C:0.08, G:0.06, T:0.52
Consensus pattern (25 bp):
TTTTTAATACTATATTATGTACATA
Found at i:17787008 original size:27 final size:27
Alignment explanation
Indices: 17786969--17787057 Score: 97
Period size: 27 Copynumber: 3.3 Consensus size: 27
17786959 AGTTGCGCCT
* * * *
17786969 ATAGGCCCTACCAGTCGCACCTGCCAG
1 ATAGGCTCAACCAGTCGCGCCTGTCAG
* *
17786996 ATAGGCTCAACCATTCGCGCCTATCAG
1 ATAGGCTCAACCAGTCGCGCCTGTCAG
* * *
17787023 ATAGGCTCCACCAGTTGCGTCTGTCAG
1 ATAGGCTCAACCAGTCGCGCCTGTCAG
17787050 ATAGGCTC
1 ATAGGCTC
17787058 CGCCAAGTGC
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.22, C:0.34, G:0.22, T:0.21
Consensus pattern (27 bp):
ATAGGCTCAACCAGTCGCGCCTGTCAG
Found at i:17787058 original size:27 final size:27
Alignment explanation
Indices: 17786993--17787088 Score: 90
Period size: 27 Copynumber: 3.6 Consensus size: 27
17786983 TCGCACCTGC
*
17786993 CAGATAGGCTCAACCATTCGCGCCTAT
1 CAGATAGGCTCCACCATTCGCGCCTAT
* *
17787020 CAGATAGGCTCCACCAGTT-GCGTCTGT
1 CAGATAGGCTCCACCA-TTCGCGCCTAT
* *
17787047 CAGATAGGCTCCGCCAAGT-GCGCCTA-
1 CAGATAGGCTCCACC-ATTCGCGCCTAT
*
17787073 CTAGATAGGCGCCACC
1 C-AGATAGGCTCCACC
17787089 TACCCATACC
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
26 1 0.02
27 53 0.93
28 3 0.05
ACGTcount: A:0.23, C:0.33, G:0.24, T:0.20
Consensus pattern (27 bp):
CAGATAGGCTCCACCATTCGCGCCTAT
Found at i:17788214 original size:32 final size:32
Alignment explanation
Indices: 17788177--17788252 Score: 82
Period size: 32 Copynumber: 2.3 Consensus size: 32
17788167 TTTTTTTATA
17788177 ATTTTTTATTTTTAAAAATTATAT-ATTTTTT
1 ATTTTTTATTTTTAAAAATTATATAATTTTTT
** * * *
17788208 ACTTTTTTAAATTTATAATTTATTTAATTTTTT
1 A-TTTTTTATTTTTAAAAATTATATAATTTTTT
17788241 ATGTTTTTATTT
1 AT-TTTTTATTT
17788253 AAAATGTGCA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
31 1 0.03
32 19 0.54
33 15 0.43
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.68
Consensus pattern (32 bp):
ATTTTTTATTTTTAAAAATTATATAATTTTTT
Found at i:17788240 original size:25 final size:24
Alignment explanation
Indices: 17788171--17788241 Score: 90
Period size: 25 Copynumber: 2.9 Consensus size: 24
17788161 AAGTGTTTTT
*
17788171 TTTATAATTTTTT-ATTTTTAAAA
1 TTTATAATTTTTTAATTTTTTAAA
* *
17788194 ATTATATATTTTTTACTTTTTTAAA
1 TTTATA-ATTTTTTAATTTTTTAAA
17788219 TTTATAATTTATTTAATTTTTTA
1 TTTATAATTT-TTTAATTTTTTA
17788242 TGTTTTTATT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
23 5 0.12
24 11 0.28
25 24 0.60
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.66
Consensus pattern (24 bp):
TTTATAATTTTTTAATTTTTTAAA
Found at i:17788477 original size:20 final size:18
Alignment explanation
Indices: 17788448--17788486 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
17788438 TAATGTTTTG
17788448 AAATTAAAATATAAAGAAAA
1 AAATTAAAAT-TAAA-AAAA
*
17788468 AAATTTAAATTAAAAAAA
1 AAATTAAAATTAAAAAAA
17788486 A
1 A
17788487 TAGAGAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 4 0.22
20 9 0.50
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (18 bp):
AAATTAAAATTAAAAAAA
Found at i:17789121 original size:28 final size:26
Alignment explanation
Indices: 17789089--17789149 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 26
17789079 TTTTAAATAA
17789089 TTTTAATGATTTTT-AATTTTACAAACAT
1 TTTTAAT-ATTTTTGAATTTT-CAAA-AT
*
17789117 TTTTACATTTTTTTGAATTTTCAAAAT
1 TTTTA-ATATTTTTGAATTTTCAAAAT
17789144 TTTTAA
1 TTTTAA
17789150 AAAATCAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
26 1 0.03
27 7 0.23
28 14 0.47
29 8 0.27
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (26 bp):
TTTTAATATTTTTGAATTTTCAAAAT
Found at i:17789496 original size:31 final size:31
Alignment explanation
Indices: 17789416--17789503 Score: 78
Period size: 29 Copynumber: 2.9 Consensus size: 31
17789406 AAAATACAAA
* *
17789416 AAAAAAATCAATTAAGCCCCTATATTAAATT
1 AAAACAATCAATTAAGCCCCTTTATTAAATT
*
17789447 --CAC-ATCCAATT-AGTCCCCTTTAATT-AATT
1 AAAACAAT-CAATTAAG-CCCCTTT-ATTAAATT
*
17789476 AAAACAATCAATTAAGCCCCTTTGTTAA
1 AAAACAATCAATTAAGCCCCTTTATTAA
17789504 TGGTTTCTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 16
0.68 0.08 0.25
Matches are distributed among these distances:
28 4 0.09
29 16 0.36
30 5 0.11
31 15 0.34
32 4 0.09
ACGTcount: A:0.42, C:0.22, G:0.05, T:0.32
Consensus pattern (31 bp):
AAAACAATCAATTAAGCCCCTTTATTAAATT
Found at i:17789666 original size:9 final size:9
Alignment explanation
Indices: 17789654--17789809 Score: 50
Period size: 9 Copynumber: 16.0 Consensus size: 9
17789644 GAAAAATTTA
*
17789654 TAAAATTGT
1 TAAAATTAT
17789663 TAAAA--AT
1 TAAAATTAT
17789670 TAAAATTAT
1 TAAAATTAT
*
17789679 TAAAATGGA-
1 TAAAAT-TAT
* *
17789688 TATAAACTAA
1 TA-AAATTAT
*
17789698 TAAAATATTT
1 TAAAAT-TAT
17789708 TAAATATTAT
1 TAAA-ATTAT
* *
17789718 AAAAAATAT
1 TAAAATTAT
17789727 CTAATAAATTAT
1 -T-A-AAATTAT
* *
17789739 AAAAAATATT
1 TAAAATTA-T
*
17789749 TAAAATATTTT
1 T-AAA-ATTAT
17789760 TAAAAATTAT
1 T-AAAATTAT
17789770 TAAAAGTATAT
1 TAAAA-T-TAT
17789781 TAAAATTAAT
1 TAAAATT-AT
17789791 ATAAAATTA-
1 -TAAAATTAT
17789800 TAAAGATTAT
1 TAAA-ATTAT
17789810 AATAAAAAAA
Statistics
Matches: 110, Mismatches: 18, Indels: 37
0.67 0.11 0.22
Matches are distributed among these distances:
7 6 0.05
8 4 0.04
9 37 0.34
10 28 0.25
11 27 0.25
12 8 0.07
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.38
Consensus pattern (9 bp):
TAAAATTAT
Found at i:17789725 original size:21 final size:21
Alignment explanation
Indices: 17789699--17789766 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
17789689 ATAAACTAAT
17789699 AAAATATTTTAAATATTATAA
1 AAAATATTTTAAATATTATAA
* *
17789720 AAAATA-TCTAATAAATTATAA
1 AAAATATTTTAA-ATATTATAA
* * *
17789741 AAAATATTTAAAATATTTTTA
1 AAAATATTTTAAATATTATAA
17789762 AAAAT
1 AAAAT
17789767 TATTAAAAGT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
20 4 0.11
21 31 0.82
22 3 0.08
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (21 bp):
AAAATATTTTAAATATTATAA
Found at i:17789752 original size:11 final size:11
Alignment explanation
Indices: 17789709--17789774 Score: 55
Period size: 11 Copynumber: 6.1 Consensus size: 11
17789699 AAAATATTTT
17789709 AAATATTATAAA
1 AAATATT-TAAA
* *
17789721 AAATATCTAAT
1 AAATATTTAAA
*
17789732 AAAT-TATAAA
1 AAATATTTAAA
17789742 AAATATTTAAA
1 AAATATTTAAA
* *
17789753 ATATTTTTAAA
1 AAATATTTAAA
*
17789764 AATTA-TTAAA
1 AAATATTTAAA
17789774 A
1 A
17789775 GTATATTAAA
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
10 14 0.33
11 23 0.53
12 6 0.14
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (11 bp):
AAATATTTAAA
Found at i:17790945 original size:86 final size:86
Alignment explanation
Indices: 17790791--17790966 Score: 255
Period size: 86 Copynumber: 2.0 Consensus size: 86
17790781 TTAGGTTTAT
* * * * *
17790791 TTTTTTCCTTATTGTACTCTCGTTTGTTTATTCATTTAGTGAAAAGTCGATGTCTCCTTTATCCA
1 TTTTCTCCATATTGTACTATCGTTTGTTTACTCATTTAGTGAAAAGTCGATGTCTCATTTATCCA
17790856 TGGTTTTTCCCTCTTTGAGGG
66 TGGTTTTTCCCTCTTTGAGGG
* * * *
17790877 TTTTCTCCATATTGTACTATTGTTTGTTTACTCATTTAGTTAAAATTTGAT-TCCTCATTTATCC
1 TTTTCTCCATATTGTACTATCGTTTGTTTACTCATTTAGTGAAAAGTCGATGT-CTCATTTATCC
17790941 ATGGTTTTTCCCTCTTTGAGGG
65 ATGGTTTTTCCCTCTTTGAGGG
17790963 TTTT
1 TTTT
17790967 TCACGTAAAA
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
85 1 0.01
86 79 0.99
ACGTcount: A:0.16, C:0.18, G:0.14, T:0.52
Consensus pattern (86 bp):
TTTTCTCCATATTGTACTATCGTTTGTTTACTCATTTAGTGAAAAGTCGATGTCTCATTTATCCA
TGGTTTTTCCCTCTTTGAGGG
Found at i:17792389 original size:20 final size:20
Alignment explanation
Indices: 17792334--17792389 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
17792324 AAAATTATAT
* *
17792334 TAATCTTATAATTTTTTTGTA
1 TAAT-TTATAATATTTTTCTA
* *
17792355 TAATTTATTAGATTTTTCTA
1 TAATTTATAATATTTTTCTA
*
17792375 TATTTTATAATATTT
1 TAATTTATAATATTT
17792390 ATAAGTTTTT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
20 24 0.86
21 4 0.14
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (20 bp):
TAATTTATAATATTTTTCTA
Found at i:17792401 original size:19 final size:19
Alignment explanation
Indices: 17792377--17792421 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
17792367 TTTTTCTATA
17792377 TTTTATAATATTT-ATAAGT
1 TTTTATAATATTTCATAA-T
*
17792396 TTTTAT-ATTTTTCATAAT
1 TTTTATAATATTTCATAAT
17792414 TTTTATAA
1 TTTTATAA
17792422 GTTTATATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTTATAATATTTCATAAT
Found at i:17792412 original size:28 final size:28
Alignment explanation
Indices: 17792357--17792444 Score: 92
Period size: 28 Copynumber: 3.1 Consensus size: 28
17792347 TTTTTGTATA
* *
17792357 ATTTATTAGATTTTTCTATATTTTATAAT
1 ATTTATAAG-TTTTTATATATTTTATAAT
17792386 ATTTATAAGTTTTTATAT-TTTTCATAAT
1 ATTTATAAGTTTTTATATATTTT-ATAAT
* *
17792414 TTTTATAAGTTTATATCA-ATTTT-TAAT
1 ATTTATAAGTTTTTAT-ATATTTTATAAT
17792441 ATTT
1 ATTT
17792445 TTTAATAGTT
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
27 11 0.22
28 27 0.53
29 13 0.25
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.61
Consensus pattern (28 bp):
ATTTATAAGTTTTTATATATTTTATAAT
Found at i:17792461 original size:27 final size:26
Alignment explanation
Indices: 17792431--17792505 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 26
17792421 AGTTTATATC
17792431 AATTTTTAATATTTTTTAATAGTTAAT
1 AATTTTTAATATTTTTTAAT-GTTAAT
* *
17792458 AATTTTATAA-ATTTTTTTACTTTTAAT
1 AATTTT-TAATA-TTTTTTAATGTTAAT
17792485 AATTGTTT-ATGATTTTTTAAT
1 AATT-TTTAAT-ATTTTTTAAT
17792506 CATTTTTATG
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
26 1 0.03
27 25 0.62
28 14 0.35
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.61
Consensus pattern (26 bp):
AATTTTTAATATTTTTTAATGTTAAT
Found at i:17792504 original size:21 final size:20
Alignment explanation
Indices: 17792478--17792516 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
17792468 ATTTTTTTAC
17792478 TTTTAATAATTGTTTATGATT
1 TTTTAATAATT-TTTATGATT
*
17792499 TTTTAATCATTTTTATGA
1 TTTTAATAATTTTTATGA
17792517 GAAAAACATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.28, C:0.03, G:0.08, T:0.62
Consensus pattern (20 bp):
TTTTAATAATTTTTATGATT
Found at i:17802717 original size:26 final size:24
Alignment explanation
Indices: 17802687--17802736 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 24
17802677 AAATAAAAAA
17802687 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAATATAA-AAA-CAAATAT
17802713 ATTTAAAAATATAAAAACAAATAT
1 ATTTAAAAATATAAAAACAAATAT
17802737 TAAAACAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 7 0.29
25 3 0.12
26 14 0.58
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (24 bp):
ATTTAAAAATATAAAAACAAATAT
Found at i:17802734 original size:12 final size:12
Alignment explanation
Indices: 17802719--17802751 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
17802709 ATATATTTAA
17802719 AAATATAAAAAC
1 AAATATAAAAAC
*
17802731 AAATATTAAAAC
1 AAATATAAAAAC
17802743 AAATA-AAAA
1 AAATATAAAA
17802752 TAATACTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 3 0.16
12 16 0.84
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (12 bp):
AAATATAAAAAC
Found at i:17802746 original size:24 final size:25
Alignment explanation
Indices: 17802691--17802752 Score: 67
Period size: 26 Copynumber: 2.6 Consensus size: 25
17802681 AAAAAAATTT
**
17802691 AAAAATATAATAAATCAAATATATTT
1 AAAAATATAA-AAATCAAATATATAA
17802717 AAAAATATAAAAA-CAAATAT-TAA
1 AAAAATATAAAAATCAAATATATAA
*
17802740 AACAA-ATAAAAAT
1 AAAAATATAAAAAT
17802753 AATACTAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
22 7 0.22
23 5 0.16
24 7 0.22
25 3 0.09
26 10 0.31
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (25 bp):
AAAAATATAAAAATCAAATATATAA
Found at i:17802750 original size:21 final size:21
Alignment explanation
Indices: 17802723--17802765 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
17802713 ATTTAAAAAT
* *
17802723 ATAAAAACAAATATTAAAACAA
1 ATAAAAA-TAATACTAAAACAA
17802745 ATAAAAATAATACTAAAACAA
1 ATAAAAATAATACTAAAACAA
17802766 TACACAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.72, C:0.09, G:0.00, T:0.19
Consensus pattern (21 bp):
ATAAAAATAATACTAAAACAA
Found at i:17802789 original size:28 final size:27
Alignment explanation
Indices: 17802741--17802794 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
17802731 AAATATTAAA
*
17802741 ACAAATAAAAATAATACTAAAACAATAC
1 ACAAATAAAAATAATAATAAAA-AATAC
*
17802769 ACAAATTAATAAT-ATAATAAAAAATA
1 ACAAA-TAAAAATAATAATAAAAAATA
17802795 GTTATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 4 0.17
28 13 0.57
29 6 0.26
ACGTcount: A:0.69, C:0.09, G:0.00, T:0.22
Consensus pattern (27 bp):
ACAAATAAAAATAATAATAAAAAATAC
Found at i:17804292 original size:22 final size:21
Alignment explanation
Indices: 17804243--17804297 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
17804233 AATACTTTAT
*
17804243 TTTCAAATTATTTATTTGGGA
1 TTTCAAAATATTTATTTGGGA
*
17804264 ATT-AAAATATTTGGATTT-GGA
1 TTTCAAAATATTT--ATTTGGGA
17804285 TTTCAAAAT-TTTA
1 TTTCAAAATATTTA
17804298 GCTTAAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
19 1 0.04
20 8 0.29
21 10 0.36
22 9 0.32
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.49
Consensus pattern (21 bp):
TTTCAAAATATTTATTTGGGA
Found at i:17815025 original size:3 final size:3
Alignment explanation
Indices: 17815017--17815045 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
17815007 TCACTTTGAA
17815017 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
17815046 AGATGCACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:17819802 original size:21 final size:21
Alignment explanation
Indices: 17819776--17819816 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
17819766 ATCTGCTCAA
* *
17819776 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
17819797 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
17819817 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:17826343 original size:26 final size:26
Alignment explanation
Indices: 17826314--17826363 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
17826304 CCAGCACACC
*
17826314 AATATCGCAGCAAAGCTGCCAGTAAT
1 AATAACGCAGCAAAGCTGCCAGTAAT
***
17826340 AATAACGCAGGGTAGCTGCCAGTA
1 AATAACGCAGCAAAGCTGCCAGTA
17826364 GCAGTAAGTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (26 bp):
AATAACGCAGCAAAGCTGCCAGTAAT
Found at i:17829645 original size:104 final size:104
Alignment explanation
Indices: 17829484--17829852 Score: 611
Period size: 104 Copynumber: 3.6 Consensus size: 104
17829474 TTGTATATAA
** * *
17829484 AGGGGTTGCTGTGTGCTGATTCCCCGATTTA-TGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
17829547 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
17829587 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
17829652 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTG-AAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
17829692 AGGGGTTGCTAAGTGCTGATTCCCCG-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
*
17829756 TGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
17829794 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
17829853 ATAACGGTTA
Statistics
Matches: 252, Mismatches: 10, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
102 56 0.22
103 56 0.22
104 83 0.33
105 57 0.23
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.30
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:17837276 original size:103 final size:103
Alignment explanation
Indices: 17837068--17837425 Score: 560
Period size: 95 Copynumber: 3.6 Consensus size: 103
17837058 TGTATATAAA
** *
17837068 AGGGGTTGCTGTGTGCTGATTCCCCGATTCA-T--TGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
*
17837129 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCCG
17837169 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
17837234 TGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
17837272 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCA-C----C--
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
17837330 -GAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
17837367 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
17837426 ATAACGGTTA
Statistics
Matches: 245, Mismatches: 6, Indels: 16
0.92 0.02 0.06
Matches are distributed among these distances:
95 91 0.37
96 1 0.00
98 1 0.00
101 29 0.12
102 2 0.01
103 86 0.35
104 34 0.14
105 1 0.00
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:17837314 original size:32 final size:32
Alignment explanation
Indices: 17837275--17837414 Score: 100
Period size: 32 Copynumber: 4.4 Consensus size: 32
17837265 TCCCCCGAGG
17837275 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCA-TGGT
** * *
17837308 GG-TGCTAAGTGC-GATATCCACCGAAATGAAAAGGG
1 GGTTGCTAAGTGCTGAT-TCC-CCG--AT-TCATGGT
*
17837343 GGTTGCTATGTGCTGATTCCCC----CGA-GG-
1 GGTTGCTAAGTGCTGATTCCCCGATTC-ATGGT
17837370 GGTTGCTAAGTGCTGATTCCCCGATTCAGTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCA-TGGT
17837403 GG-TGCTAAGTGC
1 GGTTGCTAAGTGC
17837415 GAGATCCACC
Statistics
Matches: 85, Mismatches: 7, Indels: 31
0.69 0.06 0.25
Matches are distributed among these distances:
27 21 0.25
28 2 0.02
29 1 0.01
30 1 0.01
31 4 0.05
32 25 0.29
33 7 0.08
35 8 0.09
36 13 0.15
37 3 0.04
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.29
Consensus pattern (32 bp):
GGTTGCTAAGTGCTGATTCCCCGATTCATGGT
Found at i:17852265 original size:35 final size:35
Alignment explanation
Indices: 17852219--17852290 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
17852209 TTATAGGATT
*
17852219 TGGAATGCCTAAGAACCCTCAAAATTGGCCTTTTC
1 TGGAATGCCTAAGAACCCTCAAAATTAGCCTTTTC
*
17852254 TGGAATGCCTAAGAACCCTTAAAATTAGCCTTTTC
1 TGGAATGCCTAAGAACCCTCAAAATTAGCCTTTTC
17852289 TG
1 TG
17852291 AATTGGACTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.31
Consensus pattern (35 bp):
TGGAATGCCTAAGAACCCTCAAAATTAGCCTTTTC
Found at i:17856246 original size:25 final size:24
Alignment explanation
Indices: 17856214--17856281 Score: 65
Period size: 26 Copynumber: 3.0 Consensus size: 24
17856204 TTAAATAAAA
* *
17856214 ATTTTAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
17856240 ATTTAAAAACATAAAAAC-AA-AT
1 ATTTAAAAACATAAAAACAAATAT
17856262 A-TT-AAAACA-AAAAACAAATA
1 ATTTAAAAACATAAAAACAAATA
17856282 AAAAATGAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
19 6 0.16
20 8 0.21
21 3 0.08
22 3 0.08
23 2 0.05
24 1 0.03
25 3 0.08
26 12 0.32
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.26
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:17857058 original size:55 final size:55
Alignment explanation
Indices: 17856963--17857080 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 55
17856953 TAGTCCCACA
* * * * *
17856963 CCCGTGTTAATATAATAGGTTCAACCACGGTTGCTTGGCACGGGCGTGTCGCATG
1 CCCGTGTTAATATAACAGGATCAACCACGATTGCTAGGCACGGGCGTGTCGCACG
* * * * *
17857018 CCCGTGTTAATTTGACAGGATCAGCCACGATTTCTAGGCACGGGTGTGTCGCACG
1 CCCGTGTTAATATAACAGGATCAACCACGATTGCTAGGCACGGGCGTGTCGCACG
17857073 CCCGTGTT
1 CCCGTGTT
17857081 GTTTTGAAAG
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.19, C:0.25, G:0.29, T:0.27
Consensus pattern (55 bp):
CCCGTGTTAATATAACAGGATCAACCACGATTGCTAGGCACGGGCGTGTCGCACG
Found at i:17859317 original size:8 final size:8
Alignment explanation
Indices: 17859295--17859326 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
17859285 AAATAAGAAA
17859295 TAATAATT
1 TAATAATT
17859303 ATAATAATT
1 -TAATAATT
17859312 TAATAATT
1 TAATAATT
17859320 TAATAAT
1 TAATAAT
17859327 ATATGTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 15 0.65
9 8 0.35
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (8 bp):
TAATAATT
Found at i:17861785 original size:9 final size:9
Alignment explanation
Indices: 17861771--17861802 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
17861761 GCAATTTAAT
17861771 TTAATTTTA
1 TTAATTTTA
17861780 TTAATTTTA
1 TTAATTTTA
17861789 TT-A-TTTA
1 TTAATTTTA
17861796 TTAATTT
1 TTAATTT
17861803 ACTTTTTCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
7 6 0.29
8 2 0.10
9 13 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTAATTTTA
Done.