Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 111 of 240
Found at i:34503080 original size:32 final size:32
Alignment explanation
Indices: 34503044--34503107 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
34503034 TGTATGGCCA
34503044 TACGTATTGAGGGTTAAGTAGATACATCATGG
1 TACGTATTGAGGGTTAAGTAGATACATCATGG
34503076 TACGTATTGAGGGTTAAGTAGATACATCATGG
1 TACGTATTGAGGGTTAAGTAGATACATCATGG
34503108 CAGAGGTTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.09, G:0.28, T:0.31
Consensus pattern (32 bp):
TACGTATTGAGGGTTAAGTAGATACATCATGG
Found at i:34505948 original size:17 final size:17
Alignment explanation
Indices: 34505921--34505954 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
34505911 AAGTATTGTG
34505921 TCAATTAATTAC-AATT
1 TCAATTAATTACTAATT
34505937 TCAATATAATTACTAATT
1 TCAAT-TAATTACTAATT
34505955 AATTCATTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 7 0.44
18 4 0.25
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (17 bp):
TCAATTAATTACTAATT
Found at i:34508400 original size:43 final size:43
Alignment explanation
Indices: 34508333--34508601 Score: 324
Period size: 43 Copynumber: 6.3 Consensus size: 43
34508323 TTATAGAAAT
* * *
34508333 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCCGC
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCAGCGCTTTTCCCAC
* * * *
34508376 AAATGCCGCTAAAGGCCATATTCTTTAGCGGCGCTTTT-CCAGA
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCAGCGCTTTTCCCA-C
** ** * * *
34508419 AAACGCCGCTAAAGAACATGGCCTTTAGCGGCGCTTTTTCCGC
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCAGCGCTTTTCCCAC
* * *
34508462 AAACGCCACTAAAGGCCATGTTCTTTAACAGCGCTTTTCCCAA
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCAGCGCTTTTCCCAC
* *
34508505 AAATGCCACTAAAGGCCATGTTCTTTAGCAGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCAGCGCTTTTCCCAC
* * *
34508548 AAACGCCGTTAAAGGTCATGTTCTTTAGCAACGCTTTTCCCAC
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCAGCGCTTTTCCCAC
34508591 AAACGCCGCTA
1 AAACGCCGCTA
34508602 TTGTTTGGTG
Statistics
Matches: 192, Mismatches: 32, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
42 2 0.01
43 188 0.98
44 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTAAAGGCCATGTTCTTTAGCAGCGCTTTTCCCAC
Found at i:34509268 original size:17 final size:17
Alignment explanation
Indices: 34509246--34509305 Score: 68
Period size: 17 Copynumber: 3.5 Consensus size: 17
34509236 ATATATTTTA
34509246 AAATTATTAAGTTATGT
1 AAATTATTAAGTTATGT
* *
34509263 AAATTATGCAAGTTGT-T
1 AAATTAT-TAAGTTATGT
*
34509280 AAGTTATTAAGTTATGT
1 AAATTATTAAGTTATGT
*
34509297 AAGTTATTA
1 AAATTATTA
34509306 TGTGAATTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
16 6 0.17
17 24 0.67
18 6 0.17
ACGTcount: A:0.38, C:0.02, G:0.15, T:0.45
Consensus pattern (17 bp):
AAATTATTAAGTTATGT
Found at i:34509332 original size:8 final size:8
Alignment explanation
Indices: 34509249--34509305 Score: 60
Period size: 9 Copynumber: 6.8 Consensus size: 8
34509239 TATTTTAAAA
34509249 TTATTAAG
1 TTATTAAG
*
34509257 TTATGTAAA
1 TTAT-TAAG
*
34509266 TTATGCAAG
1 TTAT-TAAG
*
34509275 TTGTTAAG
1 TTATTAAG
34509283 TTATTAAG
1 TTATTAAG
34509291 TTATGTAAG
1 TTAT-TAAG
34509300 TTATTA
1 TTATTA
34509306 TGTGAATTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
8 20 0.49
9 21 0.51
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.47
Consensus pattern (8 bp):
TTATTAAG
Found at i:34509334 original size:17 final size:17
Alignment explanation
Indices: 34509249--34509334 Score: 66
Period size: 17 Copynumber: 4.8 Consensus size: 17
34509239 TATTTTAAAA
* *
34509249 TTATTAAGTTATGTAAA
1 TTATTAAGTTATATAAG
* *
34509266 TTATGCAAGTTGT-TAAG
1 TTAT-TAAGTTATATAAG
*
34509283 TTATTAAGTTATGTAAG
1 TTATTAAGTTATATAAG
*
34509300 TTATTATGTGAATTATATAAG
1 TTATTA----AGTTATATAAG
34509321 TTATTAAGTTATAT
1 TTATTAAGTTATAT
34509335 GGTATGACAT
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
16 6 0.11
17 28 0.51
18 6 0.11
21 15 0.27
ACGTcount: A:0.36, C:0.01, G:0.15, T:0.48
Consensus pattern (17 bp):
TTATTAAGTTATATAAG
Found at i:34510065 original size:21 final size:21
Alignment explanation
Indices: 34510041--34510087 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
34510031 TTAACTATTT
* *
34510041 AAATTAGTTAATGATATTGTA
1 AAATTAGATAATGAAATTGTA
* *
34510062 AAATTAGATGATTAAATTGTA
1 AAATTAGATAATGAAATTGTA
34510083 AAATT
1 AAATT
34510088 TCAAATTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (21 bp):
AAATTAGATAATGAAATTGTA
Found at i:34511824 original size:31 final size:31
Alignment explanation
Indices: 34511784--34511843 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
34511774 ACAGCTGCCC
*
34511784 CAATTTATTGGCTAAGCCTAACAATGCCTAA
1 CAATGTATTGGCTAAGCCTAACAATGCCTAA
34511815 CAATGTATTGGCTAAGCCTAACAATGCCT
1 CAATGTATTGGCTAAGCCTAACAATGCCT
34511844 CCGCATCGGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.28
Consensus pattern (31 bp):
CAATGTATTGGCTAAGCCTAACAATGCCTAA
Found at i:34513586 original size:102 final size:103
Alignment explanation
Indices: 34513354--34513651 Score: 402
Period size: 109 Copynumber: 2.8 Consensus size: 103
34513344 AATGCCGCTA
* * * * * *
34513354 TTTCATTTTGAACAAAATGACACCATTTTGCTATGCTAATTTTTTTTTATTTTTTATAAATTGAT
1 TTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTTATTTTTTTTAAATTGAT
* * *
34513419 TTACTTTTTGTGGCGTTTATTTTTATAAAAACGCCGCAAAATTT
66 TTATTTTTTGCGGCGTTT-TTCTTAT----A-GCCGCAAAATTT
*
34513463 TTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTTTTAAATTGAT
1 TTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTTATTTTTTTTAAATTGAT
*
34513528 TTATTTTTTGCAGCGTTTTTGCTTAT-G-CGCAAAATTT
66 TTATTTTTTGCGGCGTTTTT-CTTATAGCCGCAAAATTT
34513565 TTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTTATTTTTTTTATAAATTG
1 TTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTTA-TTTTTTT-TAAATTG
34513630 ATTTATTTTTTGCGGCGTTTTT
64 ATTTATTTTTTGCGGCGTTTTT
34513652 ATAGAAAATG
Statistics
Matches: 173, Mismatches: 13, Indels: 11
0.88 0.07 0.06
Matches are distributed among these distances:
102 58 0.34
103 8 0.05
104 28 0.16
108 2 0.01
109 77 0.45
ACGTcount: A:0.25, C:0.12, G:0.11, T:0.52
Consensus pattern (103 bp):
TTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTTATTTTTTTTAAATTGAT
TTATTTTTTGCGGCGTTTTTCTTATAGCCGCAAAATTT
Found at i:34513999 original size:148 final size:147
Alignment explanation
Indices: 34513555--34514221 Score: 1180
Period size: 146 Copynumber: 4.6 Consensus size: 147
34513545 TTTGCTTATG
34513555 CGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTTATTTTTT
1 CGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTTATTTTTT
* *
34513620 TTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAATGCTGCTATTGCTTACCTTTAGCGG
66 TTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCGG
34513685 CGCTTCTTATAAAGCGC
131 CGCTTCTTATAAAGCGC
*
34513702 CGCAAAATTTTTTCATTTTGAACAAAACGACACCGTTTTGCTATTCTAAATTTTTTTTA-TTTTT
1 CGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTTATTTTTT
*
34513766 TTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAACACCGCTATTGCTTACCTTTAGCGG
66 TTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCGG
34513831 CGCTTCTTATAAAGCGC
131 CGCTTCTTATAAAGCGC
*
34513848 CGCAAATTTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTTATTTTT
1 CGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCT-AAATTTTTTTTATTTTT
* *
34513913 TTTATAAATTGATTTATTTTTTGTGGCGTTTTTATAGAAAATGCCGCTATTGCTTACCTTTAGCG
65 TTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCG
34513978 GCGCTTCTTATAAAGCGC
130 GCGCTTCTTATAAAGCGC
*
34513996 CGCAAATTTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAA--TTTTTT-TTTTTT
1 CGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTTATTTTTT
*
34514058 TTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAACGCTGCTATTGCTTACCTTTAGCGG
66 TTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCGG
34514123 CGCTTCTTATAAAGCGC
131 CGCTTCTTATAAAGCGC
* * *
34514140 TGCAAAATTTTTTCATTTTGAACAAAACGACGCCATTTTGCTATTCTAAAATTTTTTTATTTTTT
1 CGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTTATTTTTT
*
34514205 TTATAAGTTGATTTATT
66 TTATAAATTGATTTATT
34514222 ACCTTTAGCG
Statistics
Matches: 499, Mismatches: 16, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
144 132 0.26
145 6 0.01
146 135 0.27
147 95 0.19
148 131 0.26
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.46
Consensus pattern (147 bp):
CGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTTATTTTTT
TTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCGG
CGCTTCTTATAAAGCGC
Found at i:34514377 original size:14 final size:14
Alignment explanation
Indices: 34514358--34514391 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
34514348 AACCTTAAAT
* *
34514358 CCCTAACTTTTAAC
1 CCCTAACATCTAAC
34514372 CCCTAACATCTAAC
1 CCCTAACATCTAAC
34514386 CCCTAA
1 CCCTAA
34514392 ACCCCTAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.32, C:0.41, G:0.00, T:0.26
Consensus pattern (14 bp):
CCCTAACATCTAAC
Found at i:34514396 original size:8 final size:8
Alignment explanation
Indices: 34514383--34514417 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
34514373 CCTAACATCT
34514383 AACCCCTA
1 AACCCCTA
34514391 AACCCCTA
1 AACCCCTA
*
34514399 AACCACT-
1 AACCCCTA
34514406 AACCCCTA
1 AACCCCTA
34514414 AACC
1 AACC
34514418 TTAAATCCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 6 0.25
8 18 0.75
ACGTcount: A:0.40, C:0.49, G:0.00, T:0.11
Consensus pattern (8 bp):
AACCCCTA
Found at i:34514411 original size:23 final size:22
Alignment explanation
Indices: 34514369--34514417 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 22
34514359 CCTAACTTTT
34514369 AACCCCTAACATCTAACCCCTA
1 AACCCCTAACATCTAACCCCTA
34514391 AACCCCTAAACCA-CTAACCCCTA
1 AACCCCT-AA-CATCTAACCCCTA
34514414 AACC
1 AACC
34514418 TTAAATCCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 7 0.28
23 16 0.64
24 2 0.08
ACGTcount: A:0.39, C:0.47, G:0.00, T:0.14
Consensus pattern (22 bp):
AACCCCTAACATCTAACCCCTA
Found at i:34514875 original size:23 final size:25
Alignment explanation
Indices: 34514848--34514902 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
34514838 TAAATAATAA
*
34514848 TATTTTAATT-TTTCCATGTGTT-T
1 TATTTTAATTATTTCCACGTGTTAT
* *
34514871 TATTTCAAATTATTTCTACGTGTTAT
1 TATTT-TAATTATTTCCACGTGTTAT
34514897 TATTTT
1 TATTTT
34514903 TTTCTGAAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 5 0.20
24 4 0.16
25 10 0.40
26 6 0.24
ACGTcount: A:0.22, C:0.09, G:0.07, T:0.62
Consensus pattern (25 bp):
TATTTTAATTATTTCCACGTGTTAT
Found at i:34515993 original size:3 final size:3
Alignment explanation
Indices: 34515979--34516027 Score: 71
Period size: 3 Copynumber: 16.3 Consensus size: 3
34515969 ATTAATTAAT
* * *
34515979 TTA TTG TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA GTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
34516027 T
1 T
34516028 ATTTTTATAC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:34518547 original size:9 final size:9
Alignment explanation
Indices: 34518530--34518563 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
34518520 AAGGCCCCAA
*
34518530 GGAAGAAGG
1 GGAATAAGG
34518539 GGAATAAGG
1 GGAATAAGG
34518548 GGAATAAGG
1 GGAATAAGG
*
34518557 GGGATAA
1 GGAATAA
34518564 TGCAGGTAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.47, T:0.09
Consensus pattern (9 bp):
GGAATAAGG
Found at i:34520100 original size:17 final size:17
Alignment explanation
Indices: 34520071--34520127 Score: 55
Period size: 17 Copynumber: 3.3 Consensus size: 17
34520061 AATCAACAAA
*
34520071 AAAAT-AAAA-AAAATT
1 AAAATCAAAATAAAAAT
34520086 AAAATCAAAATAAAAAT
1 AAAATCAAAATAAAAAT
*
34520103 CAAATCAAAATTGAAAAAT
1 AAAATCAAAA-T-AAAAAT
34520122 GAAAAT
1 -AAAAT
34520128 GATGAAAAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
15 5 0.15
16 4 0.12
17 14 0.41
18 1 0.03
19 6 0.18
20 4 0.12
ACGTcount: A:0.72, C:0.05, G:0.04, T:0.19
Consensus pattern (17 bp):
AAAATCAAAATAAAAAT
Found at i:34521078 original size:7 final size:7
Alignment explanation
Indices: 34521067--34521136 Score: 106
Period size: 7 Copynumber: 10.0 Consensus size: 7
34521057 AGTCGTAAAA
*
34521067 AAAAATA
1 AAAAATG
34521074 AAAAATG
1 AAAAATG
34521081 -AAAATG
1 AAAAATG
34521087 AAAAATG
1 AAAAATG
34521094 AAAAATG
1 AAAAATG
34521101 AAAAATG
1 AAAAATG
34521108 AAAAATG
1 AAAAATG
34521115 AAAAATG
1 AAAAATG
*
34521122 AAAAAAG
1 AAAAATG
34521129 TAAAAATG
1 -AAAAATG
34521137 GAGAGGCTAA
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
6 6 0.10
7 46 0.79
8 6 0.10
ACGTcount: A:0.73, C:0.00, G:0.13, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:34522395 original size:88 final size:88
Alignment explanation
Indices: 34522290--34524295 Score: 2361
Period size: 88 Copynumber: 22.8 Consensus size: 88
34522280 CCATAAATCC
* *
34522290 TATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATAGTAGATCTTGTCTTCCTGTATTGGCAGCG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
*
34522355 AAGTAGATCGAAGACTTCAGCCT
66 AAGTAGATCGAAGACCTCAGCCT
* * * * * *
34522378 TATCTCCCTGAGTAGTAGTGGAGTAGGTTGAAAATAACA-ACTCTTGTGTTCTTGTATTGACAGC
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGA-TCTTGTCTTCCTGTATTGGCAGC
*
34522442 GAAGTAGATCGAAGATAC-CAGCCT
65 GAAGTAGATCGAAGA-CCTCAGCCT
* * * *
34522466 TGTCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAACAGATCTTGTCCTCCTGTATTGGCAGCG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
*
34522531 AAGTAGATCGAAGACCTCAACCT
66 AAGTAGATCGAAGACCTCAGCCT
* * * * * * *
34522554 TATCACCTTGAGCAGCGGTGGAGTAGGTTGAAAATAACATATCTTGTTTTCCTGTATTGGCAGGG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
* *
34522619 AAGTAGATTGAAGATAC-CAGCCT
66 AAGTAGATCGAAGA-CCTCAGCCT
* * * * ** * * *
34522642 TGTCTCCCGGAGCAGTAGTGGAATAGGTAAAAAATAGTAGATCTTGTCTTCTTGTATTGGCAACG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
* **
34522707 AAGTAAATCGAAGACCTCTTCCT
66 AAGTAGATCGAAGACCTCAGCCT
* * *
34522730 TATCTCCCTAAGTAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTAGCAGCG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
*
34522795 AAGTAGATCGAAGATAC-CAGCCT
66 AAGTAGATCGAAGA-CCTCAGCCT
* * * *
34522818 TGTCTCCCTGTGTAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
*
34522883 AAATAGATCGAAGACCTCAGCCT
66 AAGTAGATCGAAGACCTCAGCCT
* * * **
34522906 TATCTCCCTGAGCAACAGTGGAGTAGGTT-AAAATACCAGATTTTGTCTTCCTGTATTGATAGCG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
* *
34522970 CAGTAGATCGAAGATAC-CAGCCT
66 AAGTAGATCGAAGA-CCTCAGCCT
* * * * * * *
34522993 TGTCTCCCTGGGCAGTAGTGGAGTAGGTTTAAAATAGCAAATCTTATCTTCCTGTATTGGCCGCG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
34523058 AAGTAGATCGAAGACCTCAGCCT
66 AAGTAGATCGAAGACCTCAGCCT
** * * *
34523081 TATCTCTTTGAGCAGCAGTGGAGTAGGTTGAAAGTAGCAGATCTTGTCTTCCTGTACTGGCAGCA
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
* *
34523146 AAGTAGATCGAAGATACT-GGCCT
66 AAGTAGATCGAAGA-CCTCAGCCT
* * * * * * * * *
34523169 TGTCTCCTTCAACAACAGTGGAGTAGGATAAAAATAGCAGATCTTCTATT-CTAGTATTGGCAGC
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCT-GTATTGGCAGC
* *
34523233 GAAGTAGATCGAACACCGCAGCCT
65 GAAGTAGATCGAAGACCTCAGCCT
* * *** * *
34523257 TATCTCCCTGAGCAGCAGTGAAGTAGGTTGAAAATAGCGGATCTTGTCTTTGAGTATTAGTAGCG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
*
34523322 AAGTAGATCGAAGATAC-CAGCCT
66 AAGTAGATCGAAGA-CCTCAGCCT
* * * * * * * *
34523345 TGTCACCCTAAGCAGCAGTCGAGTAAGTTAAAAATAACAGATCTTATCTTCCTGTATTGGCAGCG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
*
34523410 AAGTAGATCGAAGACCTCAACCT
66 AAGTAGATCGAAGACCTCAGCCT
34523433 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
*
34523498 AAGTAGATCGAAGATAC-CAGCCT
66 AAGTAGATCGAAGA-CCTCAGCCT
* * * * * *
34523521 TCTCTCCCTGAGCAGTAGTGGAGTAGGTT-AAAATAGTAAATCTTATCTTCCTGAATTGGCAGCG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
34523585 AAGTAGATCGAAGACCTCAGCCT
66 AAGTAGATCGAAGACCTCAGCCT
* * * * * * *
34523608 TATCTCCTTCAGCAGTAGTGTAGTAGGTTGAAAGTAGCAAATCTTGTCTTCCTGTATTGGCAGCT
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
* *
34523673 AAGTAGATCGAATATAC-CAGCCT
66 AAGTAGATCGAAGA-CCTCAGCCT
* * * * * * *
34523696 TGTCTCCCTAAGCAACAGTGGAGTAGGTTTAAAATAACAGATCTTGTCTTCTTGTATTGGCAGTG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
34523761 AAGTAGATCGAAGACCTCAGCCT
66 AAGTAGATCGAAGACCTCAGCCT
* * * * *
34523784 TATCTCCCTAAGCAGTAGTGTAGTAGGGTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCA
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
*
34523849 AAGTAGTTCGAAGACCTCAGCCT
66 AAGTAGATCGAAGACCTCAGCCT
* *
34523872 TATCTCTCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTTTTCCTGTATTGGCAGCG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
*
34523937 AAGTAGATCGAAGATAC-CAGCCT
66 AAGTAGATCGAAGA-CCTCAGCCT
* * * * * *
34523960 TCTCTCCCTGAGCAGCAGTGGAGTAGGTT-AAAATAGTAAATCTTATCTTCTTGAATTGGCAGCG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
34524024 AAGTAGATC-AAGGACCTCAGCCT
66 AAGTAGATCGAA-GACCTCAGCCT
* * * * * * *
34524047 TATCTCCTTCAGCAGTAGTGTAGTAGGTTGAAAGTAGCAAATCTTGTCTTCCTGTATTGGCAGCT
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
* *
34524112 AAGTAGATCGAATATAC-CAGCCT
66 AAGTAGATCGAAGA-CCTCAGCCT
* * * * * * *
34524135 TGTCTCCTTGAGCAACAGTGGAGTAGGTTTAAAATAACAGATCTTGTCTTCTTGTATTGGCAGTG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
*
34524200 AAGTAGATCGAAGACCTCAACCT
66 AAGTAGATCGAAGACCTCAGCCT
* * * * * * * **
34524223 TATCTCCCTAAGCAGTAGTGTAGTAGGTTGAAAATAGTAGATCTTGTGTTCTTCTATTGATAGCG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
34524288 AAGTAGAT
66 AAGTAGAT
34524296 ATTGTCTTAA
Statistics
Matches: 1613, Mismatches: 276, Indels: 58
0.83 0.14 0.03
Matches are distributed among these distances:
86 4 0.00
87 231 0.14
88 1366 0.85
89 12 0.01
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (88 bp):
TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
AAGTAGATCGAAGACCTCAGCCT
Found at i:34523234 original size:439 final size:439
Alignment explanation
Indices: 34522306--34524295 Score: 2539
Period size: 439 Copynumber: 4.5 Consensus size: 439
34522296 CCTGAGCAGT
*
34522306 AGTGGAGTAGGTTGAAAATAGTAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACT
1 AGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGA-T
* * * * *
34522371 -TCAGCCTTATCTCCCTGAGTAGTAGTGGAGTAGGTTGAAAATAACA-ACTCTTGTGTTCTTGTA
65 ACCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAACAGA-TCTTGTCTTCTTGTA
* * * *
34522434 TTGACAGCGAAGTAGATCGAAGATAC-CAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTAAA
129 TTGGCAGCGAAGTAGATCGAAGA-CCTCAGCCTTATCTCCCTAAGCAGCAGTGGAGTAGGTTAAA
* * *
34522498 AATAACAGATCTTGTCCTCCTGTATTGGCAGCGAAGTAGATCGAAGACCTCAACCTTATCACCTT
193 AATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACCTCAACCTTATCTCCCT
* * * * * *
34522563 GAGCAGCGGTGGAGTAGGTTGAAAATAACATATCTTGTTTTCCTGTATTGGCAGGGAAGTAGATT
258 GAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * * * * *
34522628 GAAGATACCAGCCTTGTCTCCCGGAGCAGTAGTGGAATAGGTAAAAAATAGTAGATCTTGTCTTC
323 GAAGATACCAGCCTTCTCTCCCTGAGCAGCAGTGGAGTAGGT-TAAAATAGTAAATCTTATCTTC
* * * * ** * *
34522693 TTGTATTGGCAACGAAGTAAATCGAAGACCTCTTCCTTATCTCCCT-AAGTAGC
387 CTGAATTGGCAGCGAAGTAGATCGAAGACCTCAGCCTTATCTCCTTCAA-CAGC
*
34522746 AGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAGATA
1 AGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATA
* * * * *
34522811 CCAGCCTTGTCTCCCTGTGTAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATT
66 CCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAACAGATCTTGTCTTCTTGTATT
* * *
34522876 GGCAGCGAAATAGATCGAAGACCTCAGCCTTATCTCCCTGAGCAACAGTGGAGTAGGTT-AAAAT
131 GGCAGCGAAGTAGATCGAAGACCTCAGCCTTATCTCCCTAAGCAGCAGTGGAGTAGGTTAAAAAT
* * ** * * * * *
34522940 ACCAGATTTTGTCTTCCTGTATTGATAGCGCAGTAGATCGAAGATAC-CAGCCTTGTCTCCCTGG
196 AACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGA-CCTCAACCTTATCTCCCTGA
* * * * *
34523004 GCAGTAGTGGAGTAGGTTTAAAATAGCAAATCTTATCTTCCTGTATTGGCCGCGAAGTAGATCGA
260 GCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGA
* * ** * * * *
34523069 AGA-CCTCAGCCTTATCTCTTTGAGCAGCAGTGGAGTAGGTTGAAAGTAGCAGATCTTGTCTTCC
325 AGATAC-CAGCCTTCTCTCCCTGAGCAGCAGTGGAGTAGGTT-AAAATAGTAAATCTTATCTTCC
* * * * * * *
34523133 TGTACTGGCAGCAAAGTAGATCGAAGATACT-GGCCTTGTCTCCTTCAACAAC
388 TGAATTGGCAGCGAAGTAGATCGAAGA-CCTCAGCCTTATCTCCTTCAACAGC
* * * * *
34523185 AGTGGAGTAGGATAAAAATAGCAGATCTTCTATT-CTAGTATTGGCAGCGAAGTAGATCGAACA-
1 AGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCT-GTATTGGCAGCGAAGTAGATCGAAGAT
* * * * * *
34523248 CCGCAGCCTTATCTCCCTGAGCAGCAGTGAAGTAGGTTGAAAATAGCGGATCTTGTCTT-TGAGT
65 AC-CAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAACAGATCTTGTCTTCT-TGT
* * * * * * *
34523312 ATTAGTAGCGAAGTAGATCGAAGATAC-CAGCCTTGTCACCCTAAGCAGCAGTCGAGTAAGTTAA
128 ATTGGCAGCGAAGTAGATCGAAGA-CCTCAGCCTTATCTCCCTAAGCAGCAGTGGAGTAGGTTAA
*
34523376 AAATAACAGATCTTATCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACCTCAACCTTATCTCCC
192 AAATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACCTCAACCTTATCTCCC
34523441 TGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGAT
257 TGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGAT
*
34523506 CGAAGATACCAGCCTTCTCTCCCTGAGCAGTAGTGGAGTAGGTTAAAATAGTAAATCTTATCTTC
322 CGAAGATACCAGCCTTCTCTCCCTGAGCAGCAGTGGAGTAGGTTAAAATAGTAAATCTTATCTTC
* *
34523571 CTGAATTGGCAGCGAAGTAGATCGAAGACCTCAGCCTTATCTCCTTCAGCAGT
387 CTGAATTGGCAGCGAAGTAGATCGAAGACCTCAGCCTTATCTCCTTCAACAGC
* * * * *
34523624 AGTGTAGTAGGTTGAAAGTAGCAAATCTTGTCTTCCTGTATTGGCAGCTAAGTAGATCGAATATA
1 AGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATA
* * *
34523689 CCAGCCTTGTCTCCCTAAGCAACAGTGGAGTAGGTTTAAAATAACAGATCTTGTCTTCTTGTATT
66 CCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAACAGATCTTGTCTTCTTGTATT
* * * * *
34523754 GGCAGTGAAGTAGATCGAAGACCTCAGCCTTATCTCCCTAAGCAGTAGTGTAGTAGGGTGAAAAT
131 GGCAGCGAAGTAGATCGAAGACCTCAGCCTTATCTCCCTAAGCAGCAGTGGAGTAGGTTAAAAAT
* * * * *
34523819 AGCAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGTTCGAAGACCTCAGCCTTATCTCTCTGAG
196 AACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACCTCAACCTTATCTCCCTGAG
*
34523884 CAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTTTTCCTGTATTGGCAGCGAAGTAGATCGAA
261 CAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAA
*
34523949 GATACCAGCCTTCTCTCCCTGAGCAGCAGTGGAGTAGGTTAAAATAGTAAATCTTATCTTCTTGA
326 GATACCAGCCTTCTCTCCCTGAGCAGCAGTGGAGTAGGTTAAAATAGTAAATCTTATCTTCCTGA
* *
34524014 ATTGGCAGCGAAGTAGATC-AAGGACCTCAGCCTTATCTCCTTCAGCAGT
391 ATTGGCAGCGAAGTAGATCGAA-GACCTCAGCCTTATCTCCTTCAACAGC
* * * * *
34524063 AGTGTAGTAGGTTGAAAGTAGCAAATCTTGTCTTCCTGTATTGGCAGCTAAGTAGATCGAATATA
1 AGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATA
* * *
34524128 CCAGCCTTGTCTCCTTGAGCAACAGTGGAGTAGGTTTAAAATAACAGATCTTGTCTTCTTGTATT
66 CCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAACAGATCTTGTCTTCTTGTATT
* * * * *
34524193 GGCAGTGAAGTAGATCGAAGACCTCAACCTTATCTCCCTAAGCAGTAGTGTAGTAGGTTGAAAAT
131 GGCAGCGAAGTAGATCGAAGACCTCAGCCTTATCTCCCTAAGCAGCAGTGGAGTAGGTTAAAAAT
** * * * **
34524258 AGTAGATCTTGTGTTCTTCTATTGATAGCGAAGTAGAT
196 AACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGAT
34524296 ATTGTCTTAA
Statistics
Matches: 1361, Mismatches: 168, Indels: 43
0.87 0.11 0.03
Matches are distributed among these distances:
438 9 0.01
439 1021 0.75
440 329 0.24
441 2 0.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (439 bp):
AGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATA
CCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAACAGATCTTGTCTTCTTGTATT
GGCAGCGAAGTAGATCGAAGACCTCAGCCTTATCTCCCTAAGCAGCAGTGGAGTAGGTTAAAAAT
AACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACCTCAACCTTATCTCCCTGAG
CAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAA
GATACCAGCCTTCTCTCCCTGAGCAGCAGTGGAGTAGGTTAAAATAGTAAATCTTATCTTCCTGA
ATTGGCAGCGAAGTAGATCGAAGACCTCAGCCTTATCTCCTTCAACAGC
Found at i:34524381 original size:3 final size:3
Alignment explanation
Indices: 34524373--34524403 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
34524363 ATATATTGAT
*
34524373 TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
34524404 CTTGGTGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:34524395 original size:15 final size:15
Alignment explanation
Indices: 34524375--34524404 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
34524365 ATATTGATTT
34524375 ATTATTATTATTATC
1 ATTATTATTATTATC
34524390 ATTATTATTATTATC
1 ATTATTATTATTATC
34524405 TTGGTGAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (15 bp):
ATTATTATTATTATC
Found at i:34534027 original size:14 final size:15
Alignment explanation
Indices: 34533996--34534041 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
34533986 TGTTATCATA
34533996 TTTTATCTTATTGCT
1 TTTTATCTTATTGCT
34534011 TTTTATCTTATTG-T
1 TTTTATCTTATTGCT
* **
34534025 TTTCAAGTTATTGCT
1 TTTTATCTTATTGCT
34534040 TT
1 TT
34534042 GACAACTACT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 11 0.41
15 16 0.59
ACGTcount: A:0.15, C:0.11, G:0.09, T:0.65
Consensus pattern (15 bp):
TTTTATCTTATTGCT
Found at i:34534423 original size:13 final size:13
Alignment explanation
Indices: 34534405--34534434 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
34534395 AAGAACCCTG
34534405 ATGCAACACCAAA
1 ATGCAACACCAAA
*
34534418 ATGCAACATCAAA
1 ATGCAACACCAAA
34534431 ATGC
1 ATGC
34534435 TAATAACCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.27, G:0.10, T:0.13
Consensus pattern (13 bp):
ATGCAACACCAAA
Found at i:34539325 original size:45 final size:45
Alignment explanation
Indices: 34539258--34539349 Score: 166
Period size: 45 Copynumber: 2.0 Consensus size: 45
34539248 ACATTATTGA
*
34539258 GAAGGTTGTGAACCCTTCGAGGAAATATTGGTCTTCCAGATGGAT
1 GAAGGTTGTGAACCCTTCGAGGAAATATTGGTCTTCCAGACGGAT
*
34539303 GAAGGTTGTGAACCCTTTGAGGAAATATTGGTCTTCCAGACGGAT
1 GAAGGTTGTGAACCCTTCGAGGAAATATTGGTCTTCCAGACGGAT
34539348 GA
1 GA
34539350 CGTTTTATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.28
Consensus pattern (45 bp):
GAAGGTTGTGAACCCTTCGAGGAAATATTGGTCTTCCAGACGGAT
Found at i:34543965 original size:613 final size:613
Alignment explanation
Indices: 34542800--34544013 Score: 2061
Period size: 613 Copynumber: 2.0 Consensus size: 613
34542790 TAATTTGTCC
34542800 CCATTTAGTTATCTTTAGCACATATTTTAGCATTTTCAGTTTAGTAAATTGCATTTTACAACTAA
1 CCATTTAGTTATCTTTAGCACATATTTTAGCATTTTCAGTTTAGTAAATTGCATTTTACAACTAA
* *
34542865 GTGAATCTTAACATATTTTTCCTTAATTTCGTCATGTTTTGGTACTGATGTCACTGCATGAGTAT
66 GTGAATCTTAACATATTTTTCCTTAATTTCATCATGTTTTGGTACTGATATCACTGCATGAGTAT
* * ** * *
34542930 TTCTAGATTGCGCCCAGAATTGCCGTCGCACTTGATAGCTGTCCGGATAAGAACAAAAATGTGTG
131 TTCCAGATTGCGCCCAAAATTGCCACCGCACTTGACAGCTGTCCAGATAAGAACAAAAATGTGTG
* * * * * * *
34542995 AGCTGTCCAGTCTGGTATAACCAACTTGTACCTATAGAGGCTGCATGATTCTGATGAAATGACAA
196 AGCTATCCAATCTGGTATAACCAACTTGTACATACAGAAGCAGCATGATTCTGATGAAAGGACAA
* *
34543060 CTGTGCTATTTGCAAGAATACAAATAGTCACGTGAAAAAGAAAAAAAAATGGAGGGTTTTTGGGG
261 CTGTGCTATTTGCAAGAATACAAATAGTCACGTGAAAAAGAAAAAAAAAGGGAGGCTTTTTGGGG
* *
34543125 TATTATCTTATTGAACCTATCTTTTGAAGCTTTTCGGCTATGGTGGCTTAAGCCTCTTACGGGTG
326 TATTATCTTATTGAACCTATATTTTGAAGCTTTTCGGCTATGGTGGCTTAAGCCTCTTACAGGTG
34543190 AACCAACGTGAAAGGGATGCAGATTAGCTCTTGACAAGGAGTCCTGAGTGCAACACAAGAGGGAG
391 AACCAACGTGAAAGGGATGCAGATTAGCTCTTGACAAGGAGTCCTGAGTGCAACACAAGAGGGAG
*
34543255 TTGAGAGATTAAGTCGAGATTTTCTAGGAATAGTACTCTCTACTTGTTTCTTTTATATTTCTTTT
456 TTGAGAGATTAAGTCGAGATTTTCTAGGAATAGTACTCTCCACTTGTTTCTTTTATATTTCTTTT
*
34543320 CTAAACGCTAGTGATTACTTTCTATTTCATGTTTGTACGGAAGCATACATGATTTCTGGGTTAAA
521 CTAAACGCTAGTGATTACTTTCTATTTCATGTTTGTACGGAAGCATACATGATTTCTGAGTTAAA
34543385 TGTTATTTTATTCAATTTAGTTATCTTT
586 TGTTATTTTATTCAATTTAGTTATCTTT
* * *
34543413 CCATTTAGTTATCTTTAGCACATATTTTAGCATTTTCATTTTAGTAAATTGCATTTTATAACTCA
1 CCATTTAGTTATCTTTAGCACATATTTTAGCATTTTCAGTTTAGTAAATTGCATTTTACAACTAA
34543478 GTGAATCTTAACATATTTTTCCTTAATTTCATCATGTTTTGGTACTGATATCACTGCATGAGTAT
66 GTGAATCTTAACATATTTTTCCTTAATTTCATCATGTTTTGGTACTGATATCACTGCATGAGTAT
* * * *
34543543 TTCCAGATTGCGCCCAAAATTGTCACCGCACTTGACAGTTGTCTAGATAAGAACAAAAATTTGTG
131 TTCCAGATTGCGCCCAAAATTGCCACCGCACTTGACAGCTGTCCAGATAAGAACAAAAATGTGTG
*
34543608 AGCTATCCAATCTGGTATAACCAACTTGTACATACAGAAGCAGCATGATTTTGATGAAAGGAC-A
196 AGCTATCCAATCTGGTATAACCAACTTGTACATACAGAAGCAGCATGATTCTGATGAAAGGACAA
* * *
34543672 CTTGTGCTATTTGGAAGAATACAAATATTCATGTGAAAAAGAAAAAAAAAGGGAGGCTTTTTGGG
261 C-TGTGCTATTTGCAAGAATACAAATAGTCACGTGAAAAAGAAAAAAAAAGGGAGGCTTTTTGGG
34543737 GTATTATCTTATTGAACCTATATTTTGAAGCTTTTCGGCTATGGTGGCTTAAGCCTCTTACAGGT
325 GTATTATCTTATTGAACCTATATTTTGAAGCTTTTCGGCTATGGTGGCTTAAGCCTCTTACAGGT
* * **
34543802 GAACCAACGTGAAAGGGATGCATATTAGCTCTTGACAAGGAGTCTTGAGTGTGACACAAGAGGGA
390 GAACCAACGTGAAAGGGATGCAGATTAGCTCTTGACAAGGAGTCCTGAGTGCAACACAAGAGGGA
*
34543867 GTTGAGAGATTAAGTTGAGATTTTCTAGGAATAGTACTCTCCACTTGTTTCTTTTATATTTCTTT
455 GTTGAGAGATTAAGTCGAGATTTTCTAGGAATAGTACTCTCCACTTGTTTCTTTTATATTTCTTT
* *
34543932 TCTAAATGCTAGTGATTACTTTCTATTTCATGTTTGTACGGAAGTATACATGATTTCTGAGTTAA
520 TCTAAACGCTAGTGATTACTTTCTATTTCATGTTTGTACGGAAGCATACATGATTTCTGAGTTAA
34543997 ATGTTATTTTATTCAAT
585 ATGTTATTTTATTCAAT
34544014 CTTATTTCTA
Statistics
Matches: 561, Mismatches: 39, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
612 2 0.00
613 559 1.00
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.36
Consensus pattern (613 bp):
CCATTTAGTTATCTTTAGCACATATTTTAGCATTTTCAGTTTAGTAAATTGCATTTTACAACTAA
GTGAATCTTAACATATTTTTCCTTAATTTCATCATGTTTTGGTACTGATATCACTGCATGAGTAT
TTCCAGATTGCGCCCAAAATTGCCACCGCACTTGACAGCTGTCCAGATAAGAACAAAAATGTGTG
AGCTATCCAATCTGGTATAACCAACTTGTACATACAGAAGCAGCATGATTCTGATGAAAGGACAA
CTGTGCTATTTGCAAGAATACAAATAGTCACGTGAAAAAGAAAAAAAAAGGGAGGCTTTTTGGGG
TATTATCTTATTGAACCTATATTTTGAAGCTTTTCGGCTATGGTGGCTTAAGCCTCTTACAGGTG
AACCAACGTGAAAGGGATGCAGATTAGCTCTTGACAAGGAGTCCTGAGTGCAACACAAGAGGGAG
TTGAGAGATTAAGTCGAGATTTTCTAGGAATAGTACTCTCCACTTGTTTCTTTTATATTTCTTTT
CTAAACGCTAGTGATTACTTTCTATTTCATGTTTGTACGGAAGCATACATGATTTCTGAGTTAAA
TGTTATTTTATTCAATTTAGTTATCTTT
Found at i:34545231 original size:16 final size:15
Alignment explanation
Indices: 34545206--34545239 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
34545196 AGAGTTTATA
*
34545206 ATAATTAATATACATT
1 ATAATGAATATA-ATT
34545222 ATAATGAATATAATT
1 ATAATGAATATAATT
34545237 ATA
1 ATA
34545240 TATTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (15 bp):
ATAATGAATATAATT
Found at i:34558083 original size:15 final size:15
Alignment explanation
Indices: 34558063--34558092 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
34558053 CTATGCATGC
*
34558063 AAAACATGAAAGACA
1 AAAACACGAAAGACA
34558078 AAAACACGAAAGACA
1 AAAACACGAAAGACA
34558093 TAATAGTGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.17, G:0.13, T:0.03
Consensus pattern (15 bp):
AAAACACGAAAGACA
Found at i:34571873 original size:33 final size:33
Alignment explanation
Indices: 34571833--34571950 Score: 148
Period size: 33 Copynumber: 3.5 Consensus size: 33
34571823 TACACTTTGT
34571833 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
1 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
* *
34571866 TTAGTGTGTTGGTTGGATTAGCTCTTATGACCA
1 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
** * *
34571899 TTGGTGTGTTGGAGGGATTGGCT-TGTGTGAGCA
1 TTGGTGTGTTGGTTGGATTAGCTCT-TATGAGCA
34571932 TCTGGTGTGTTTGGTTGGA
1 T-TGGTGTG-TTGGTTGGA
34571951 CTAACAATGT
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
32 1 0.01
33 57 0.79
34 7 0.10
35 7 0.10
ACGTcount: A:0.14, C:0.08, G:0.36, T:0.42
Consensus pattern (33 bp):
TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
Found at i:34574429 original size:10 final size:10
Alignment explanation
Indices: 34574414--34574438 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
34574404 TTTATAATAA
34574414 ATTTTGATTT
1 ATTTTGATTT
34574424 ATTTTGATTT
1 ATTTTGATTT
34574434 ATTTT
1 ATTTT
34574439 CGACAGATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.08, T:0.72
Consensus pattern (10 bp):
ATTTTGATTT
Found at i:34593228 original size:21 final size:20
Alignment explanation
Indices: 34593187--34593231 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 20
34593177 AAAAAAAGAG
*
34593187 ATGAAAAATGAAAATTAAAA
1 ATGAAAAATGAAAAGTAAAA
34593207 ATGAATAAATGAAAAAGTAAAA
1 ATGAA-AAATG-AAAAGTAAAA
34593229 ATG
1 ATG
34593232 GAGAGGCTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.23
21 5 0.23
22 12 0.55
ACGTcount: A:0.67, C:0.00, G:0.13, T:0.20
Consensus pattern (20 bp):
ATGAAAAATGAAAAGTAAAA
Found at i:34594695 original size:132 final size:132
Alignment explanation
Indices: 34594448--34595026 Score: 734
Period size: 132 Copynumber: 4.4 Consensus size: 132
34594438 CAGATCAATG
* * *
34594448 AAGACGGCGAATCTCATCTTCCCCATGAGTATGGAAACAGATTTAAGCCACCGAGCCTTGTCTCC
1 AAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCACCGAGCCTTGTCTCC
* * *
34594513 CTGAGCAGCAGCGGAGCAGGTTGAAGATTACAGATCTTATCTCCCAAAGCAATAGTGGAGCAGAT
66 CTGAGCAGCAGAGGAGCAGGTTGAAGATTACAAATCTTATCTCCCTAAGCAATAGTGGAGCAGAT
34594578 CA
131 CA
**
34594580 AAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCATTGAGCCTTGTCTCC
1 AAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCACCGAGCCTTGTCTCC
* * * * * *
34594645 TTGAGCAGTAGAGGAGCAGGTTGAAGATTACAAATATTATATCCTTAAGCAGTAGTGGAGCAGAT
66 CTGAGCAGCAGAGGAGCAGGTTGAAGATTACAAATCTTATCTCCCTAAGCAATAGTGGAGCAGAT
34594710 CA
131 CA
* * * * * *
34594712 AAGACGACAAATATTATCATT-CCAAGATAGT-GGGAAGCAGATTTAAGCCACCGAGCCTTGTCT
1 AAGACGGCGAATCTTATC-TTCCCCAG-GAGTAGGGAAACAGATTTAAGCCACCGAGCCTTGTCT
* ** * * *
34594775 CCCTGAGCAGCAGCGGAGCAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGTAG
64 CCCTGAGCAGCAGAGGAGCAGGTTGAAGATTACAAATCTTATCTCCCTAAGCAATAGTGGAGCAG
34594840 ATCA
129 ATCA
** * * * * * *
34594844 AAGACGGTAAATCTTATCTTTCCAAGATAGT-GGGAAGCAGATTTAAGCCATCAAGCCTTGTCTC
1 AAGACGGCGAATCTTATCTTCCCCAG-GAGTAGGGAAACAGATTTAAGCCACCGAGCCTTGTCTC
* **
34594908 CCTGAGTAGCAGAGGAGCAGGTTGAAGA-TAGCAAATCTTATCTCCCTAATAAATAGTGGAGCAG
65 CCTGAGCAGCAGAGGAGCAGGTTGAAGATTA-CAAATCTTATCTCCCTAAGCAATAGTGGAGCAG
*
34594972 ATCG
129 ATCA
* *
34594976 AAGACGGCGACTCTTATCTTCCTCAGGAGTAGGGAAACAGATTTAAGCCAC
1 AAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCAC
34595027 AAGTCTTATT
Statistics
Matches: 386, Mismatches: 56, Indels: 10
0.85 0.12 0.02
Matches are distributed among these distances:
131 6 0.02
132 375 0.97
133 5 0.01
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.23
Consensus pattern (132 bp):
AAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCACCGAGCCTTGTCTCC
CTGAGCAGCAGAGGAGCAGGTTGAAGATTACAAATCTTATCTCCCTAAGCAATAGTGGAGCAGAT
CA
Found at i:34594722 original size:44 final size:44
Alignment explanation
Indices: 34594642--34594728 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 44
34594632 GAGCCTTGTC
* * ** **
34594642 TCCTTGAGCAGTAGAGGAGCAGGTTGAAGATTACAAATATTATA
1 TCCTTAAGCAGTAGAGGAGCAGATCAAAGACGACAAATATTATA
*
34594686 TCCTTAAGCAGTAGTGGAGCAGATCAAAGACGACAAATATTAT
1 TCCTTAAGCAGTAGAGGAGCAGATCAAAGACGACAAATATTAT
34594729 CATTCCAAGA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (44 bp):
TCCTTAAGCAGTAGAGGAGCAGATCAAAGACGACAAATATTATA
Found at i:34595104 original size:264 final size:264
Alignment explanation
Indices: 34594480--34595106 Score: 644
Period size: 264 Copynumber: 2.4 Consensus size: 264
34594470 CCATGAGTAT
* * * * * *
34594480 GGAAACAGATTTAAGCCACCGAGCCTTGTCTCCCTGAGCAGCAGCGGAGCAGGTTGAAGATTACA
1 GGAAACAGATTTAAGCCACCAAGCCTTATCTCCCTGAGCAACAGCGGAACAGGTTGAAGAATAAA
* ** * * * *
34594545 GATCTTATCTCCCAAAGCAATAGTGGAGCAGATCAAAGACGGCGAATCTTATCTTCCCCAGGAGT
66 GATCTTATCTCCCTAAGCAGCAGTAGAGTAGATCAAAGACGGCAAATCTTATCTTCCCAAGGAGT
** * *
34594610 AGGGAAACAGATTTAAGCCATTGAGCCTTGTCTCCTTGAGCAGTAGAGGAGCAGGTTGAAGATTA
131 AGGGAAACAGATTTAAGCCATCAAGCCTTGTCTCCCTGAGCAGCAGAGGAGCAGGTTGAAGATTA
* * * *
34594675 CAAATATTATATCCTTAAGCAGTAGTGGAGCAGATCAAAGACGACAAATATTATCATTCCAAGAT
196 CAAATATTATATCCCTAAGAAATAGTGGAGCAGATCAAAGACGACAAATATTATCATTCCAAGAG
34594740 AGTG
261 AGTG
* * * * * * **
34594744 GGAAGCAGATTTAAGCCACCGAGCCTTGTCTCCCTGAGCAGCAGCGGAGCAGGTTGAAGATTGTA
1 GGAAACAGATTTAAGCCACCAAGCCTTATCTCCCTGAGCAACAGCGGAACAGGTTGAAGAATAAA
* * * * *
34594809 GATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCAAAGACGGTAAATCTTATCTTTCCAAGATAG
66 GATCTTATCTCCCTAAGCAGCAGTAGAGTAGATCAAAGACGGCAAATCTTATCTTCCCAAG-GAG
* *
34594874 T-GGGAAGCAGATTTAAGCCATCAAGCCTTGTCTCCCTGAGTAGCAGAGGAGCAGGTTGAAGA-T
130 TAGGGAAACAGATTTAAGCCATCAAGCCTTGTCTCCCTGAGCAGCAGAGGAGCAGGTTGAAGATT
* * * * * * * * *
34594937 AGCAAATCTTATCTCCCTAATAAATAGTGGAGCAGATCGAAGACGGCGACTCTTATC-TTCCTCA
195 A-CAAATATTATATCCCTAAGAAATAGTGGAGCAGATCAAAGACGACAAATATTATCATTCC-AA
34595001 G-GAGTAG
258 GAGAGT-G
* * *
34595008 GGAAACAGATTTAAGCCA-CAAGTCTTATTTCCCTGAG-ATTACAGTGGAAC-GGATT-AA-AAT
1 GGAAACAGATTTAAGCCACCAAGCCTTATCTCCCTGAGCA--ACAGCGGAACAGG-TTGAAGAAT
* *
34595068 AAAGGATCTTATCTCTCTGAAGTTA-CAGTAGAGTAGATC
63 AAA-GATCTTATCTCCCT-AAG-CAGCAGTAGAGTAGATC
34595107 GCATCAGGTC
Statistics
Matches: 308, Mismatches: 45, Indels: 20
0.83 0.12 0.05
Matches are distributed among these distances:
262 4 0.01
263 41 0.13
264 259 0.84
265 4 0.01
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (264 bp):
GGAAACAGATTTAAGCCACCAAGCCTTATCTCCCTGAGCAACAGCGGAACAGGTTGAAGAATAAA
GATCTTATCTCCCTAAGCAGCAGTAGAGTAGATCAAAGACGGCAAATCTTATCTTCCCAAGGAGT
AGGGAAACAGATTTAAGCCATCAAGCCTTGTCTCCCTGAGCAGCAGAGGAGCAGGTTGAAGATTA
CAAATATTATATCCCTAAGAAATAGTGGAGCAGATCAAAGACGACAAATATTATCATTCCAAGAG
AGTG
Found at i:34595225 original size:44 final size:44
Alignment explanation
Indices: 34595152--34595269 Score: 173
Period size: 44 Copynumber: 2.7 Consensus size: 44
34595142 TAGACCGAAG
* *
34595152 AATCTTATCTCCCTGAGGTTATAGTGGAGCAAATTGAAGCCAGA
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAAATTGAAGCCAGA
* * * *
34595196 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAAATTGAAGCCAGA
*
34595240 AATCCTATCTCCCTGAGATTACAGTGGAGC
1 AATCTTATCTCCCTGAGATTACAGTGGAGC
34595270 GGATTAAAAT
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 66 1.00
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGATTACAGTGGAGCAAATTGAAGCCAGA
Found at i:34595293 original size:44 final size:44
Alignment explanation
Indices: 34595030--34595317 Score: 154
Period size: 44 Copynumber: 6.7 Consensus size: 44
34595020 AAGCCACAAG
* * *
34595030 TCTTATTTCCCTGAGATTACAGTGGAACGGATTAAAATAAAGGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGA
* * * *** *
34595074 TCTTATCTCTCTGA-AGTTACAGTAGAGTAGA-TCGCAT-CAGG-
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAATAAAGGA
* *** *
34595115 TCTTATCTCCCTGAGATTACAGT-G-G-A-A-TAGACCGAAGAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGA
* * * ***
34595154 TCTTATCTCCCTGAGGTTATAGTGGAGCAAATTGAAGCCAGAA--A
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATT-AAAATA-AAGGA
* ** *
34595198 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCT--AGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATT-AAAATAAAG-GA
* *
34595242 TCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGA
* * *
34595286 TCTTATCTCTCTGA-AGTTACAGTAGAGTAGAT
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGAT
34595318 CGCATCAGAT
Statistics
Matches: 189, Mismatches: 38, Indels: 34
0.72 0.15 0.13
Matches are distributed among these distances:
37 3 0.02
38 3 0.02
39 22 0.12
40 2 0.01
41 22 0.12
42 5 0.03
43 9 0.05
44 116 0.61
45 5 0.03
46 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.29
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGA
Found at i:34595426 original size:50 final size:50
Alignment explanation
Indices: 34595368--34595727 Score: 214
Period size: 50 Copynumber: 7.2 Consensus size: 50
34595358 GCAGTGGAGC
*
34595368 AGATTAAAGCCAAATCGGTGAATCTTGCTTCCCCGACATTGTAGTTAAAA
1 AGATTAAAGCCAAATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * * * * * ** **
34595418 AGATTAAAGCCACAAT-GGCGAATCTTACTTCTCTGGCGA-TGCAATGGAGC
1 AGATTAAAGCCA-AATCGGTGAATCTTGCTTCCCCGAC-ATTGCAGTTAAAA
* * * * *
34595468 AGATTAAATCCACATCGGTGAATCTCGCTTCCCCAACATTACAGTTAAAA
1 AGATTAAAGCCAAATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * * * * * *** *
34595518 AGATTAAAGCTACAA-CAGTGAATCTTAC-TCCCTAGGCAATGCAGCGGAAC
1 AGATTAAAGCCA-AATCGGTGAATCTTGCTTCCC-CGACATTGCAGTTAAAA
* *
34595568 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTACAGTTAAAA
1 AGATTAAAGCCAAATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* *** * * *** *
34595618 AGATTAAAGCTACAA-CAACGAATCTTAC-TCCCCAAGCGA-TGCAGCGGAAC
1 AGATTAAAGCCA-AATCGGTGAATCTTGCTTCCCCGA-C-ATTGCAGTTAAAA
* * *
34595668 AGATTAAAGCCACGA-CGGTGTATCTTGCTTCCTCGACATTGCAGTTAAAA
1 AGATTAAAGCCA-AATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
*
34595718 AGATTGAAGC
1 AGATTAAAGC
34595728 TACAAGCTAC
Statistics
Matches: 218, Mismatches: 79, Indels: 26
0.67 0.24 0.08
Matches are distributed among these distances:
49 15 0.07
50 187 0.86
51 16 0.07
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (50 bp):
AGATTAAAGCCAAATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
Found at i:34595460 original size:100 final size:100
Alignment explanation
Indices: 34595338--34595732 Score: 506
Period size: 100 Copynumber: 4.0 Consensus size: 100
34595328 TAAAGCCAGA
** * * *
34595338 AATCTTACCCCCCTGGCAATGCAGTGGAGCAGATTAAAGCCAAATCGGTGAATCTTGCTTCCCCG
1 AATCTTACTTCCCTGGCAATGCAGCGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
** * **
34595403 ACATTGTAGTTAAAAAGATTAAAGCCACAATGGCG
66 ACATTACAGTTAAAAAGATTAAAGCTACAACAGCG
* * ** * * * *
34595438 AATCTTACTTCTCTGGCGATGCAATGGAGCAGATTAAATCCACATCGGTGAATCTCGCTTCCCCA
1 AATCTTACTTCCCTGGCAATGCAGCGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
*
34595503 ACATTACAGTTAAAAAGATTAAAGCTACAACAGTG
66 ACATTACAGTTAAAAAGATTAAAGCTACAACAGCG
34595538 AATCTTAC-TCCCTAGGCAATGCAGCGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCC
1 AATCTTACTTCCCT-GGCAATGCAGCGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCC
*
34595602 GACATTACAGTTAAAAAGATTAAAGCTACAACAACG
65 GACATTACAGTTAAAAAGATTAAAGCTACAACAGCG
* ** * * *
34595638 AATCTTACTCCCCAAGCGATGCAGCGGAACAGATTAAAGCCACGA-CGGTGTATCTTGCTTCCTC
1 AATCTTACTTCCCTGGCAATGCAGCGGAACAGATTAAAGCCAC-ATCGGTGAATCTTGCTTCCCC
* *
34595702 GACATTGCAGTTAAAAAGATTGAAGCTACAA
65 GACATTACAGTTAAAAAGATTAAAGCTACAA
34595733 GCTACGAATC
Statistics
Matches: 259, Mismatches: 33, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
99 4 0.02
100 251 0.97
101 4 0.02
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.24
Consensus pattern (100 bp):
AATCTTACTTCCCTGGCAATGCAGCGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
ACATTACAGTTAAAAAGATTAAAGCTACAACAGCG
Found at i:34596307 original size:25 final size:25
Alignment explanation
Indices: 34596276--34596337 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 25
34596266 CGCAGCACAC
*
34596276 AAAAGAACAAAAAG-GAAGAAAAGA
1 AAAAGAACAAAAAGAGAAAAAAAGA
*
34596300 AAACAGAA-AAAAGGAGAAAAAAAGA
1 AAA-AGAACAAAAAGAGAAAAAAAGA
34596325 AAAAGAACAAAAA
1 AAAAGAACAAAAA
34596338 AGAGGACGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
24 12 0.38
25 20 0.62
ACGTcount: A:0.77, C:0.05, G:0.18, T:0.00
Consensus pattern (25 bp):
AAAAGAACAAAAAGAGAAAAAAAGA
Found at i:34600102 original size:24 final size:23
Alignment explanation
Indices: 34600038--34600115 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 23
34600028 GATAAAAACA
*
34600038 GGAAGCTCATGCGAGCCATGTAACG
1 GGAAGCT-ATACGAGCCAT-TAACG
* * *
34600063 AGAAGCTTTAGAGAGCCATTAACG
1 GGAAGCTATA-CGAGCCATTAACG
* *
34600087 GGAAGCTAATACGAGCCAATAATG
1 GGAAGCT-ATACGAGCCATTAACG
34600111 GGAAG
1 GGAAG
34600116 GTTCAAACGA
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
24 27 0.64
25 15 0.36
ACGTcount: A:0.36, C:0.18, G:0.29, T:0.17
Consensus pattern (23 bp):
GGAAGCTATACGAGCCATTAACG
Found at i:34600598 original size:115 final size:115
Alignment explanation
Indices: 34600396--34600629 Score: 441
Period size: 115 Copynumber: 2.0 Consensus size: 115
34600386 TGTCCACAAC
34600396 AAATGCAGAACCACAACCAATTCGAGAACCCTGTATCTATCGAATTTTATTTATTCAAACAAGAC
1 AAATGCAGAACCACAACCAATTCGAGAACCCTGTATCTATCGAATTTTATTTATTCAAACAAGAC
34600461 TTAATACTTGTCAGTCATCGTCGGATATGTGATTAATTTCATATACATGG
66 TTAATACTTGTCAGTCATCGTCGGATATGTGATTAATTTCATATACATGG
* *
34600511 AAATGCAGAACCACAACCAATTTGAGAACCCTGTATCTATCGAATTTTATTTATTCAAACGAGAC
1 AAATGCAGAACCACAACCAATTCGAGAACCCTGTATCTATCGAATTTTATTTATTCAAACAAGAC
*
34600576 TTAATACTTGTCGGTCATCGTCGGATATGTGATTAATTTCATATACATGG
66 TTAATACTTGTCAGTCATCGTCGGATATGTGATTAATTTCATATACATGG
34600626 AAAT
1 AAAT
34600630 AATACAATCA
Statistics
Matches: 116, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
115 116 1.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (115 bp):
AAATGCAGAACCACAACCAATTCGAGAACCCTGTATCTATCGAATTTTATTTATTCAAACAAGAC
TTAATACTTGTCAGTCATCGTCGGATATGTGATTAATTTCATATACATGG
Found at i:34602277 original size:258 final size:259
Alignment explanation
Indices: 34601702--34602302 Score: 974
Period size: 259 Copynumber: 2.3 Consensus size: 259
34601692 TTGTTACAAC
*
34601702 GGGGTTGAAAGCAAAATATTTGACTATGAAAGATCTACTTATGAGAAATAAAATATGATAATTCT
1 GGGGTTGAAAGCAAAATATTTGACTGTGAAAGATCTACTTATGAGAAATAAAATATGATAATTCT
* * * *
34601767 ATCGAAAACTCATTATGGTATCATATTAACATTGTGAACGAATAAAAAATTATATTTCATAAGAA
66 ATCTAAAACTCGTTATGGTATCATATTAACATTGTGAACGAAGAAAAAATTATACTTCATAAGAA
*
34601832 TCACTATTGATATAAATATCTATTTTGAAAGGATGAAAAAAAAGGAAGATTGAGTTATTGATTAC
131 TCACTATTGATATAAATATCTATTTTGAAAGGAGGAAAAAAAAGGAAGATTGAGTTATTGATTAC
*
34601897 TCTTGTTATTAAATTAAATTGATTGTGCCTATCTTTGTAATCTTTTTTTCATCATCCCTATTAA
196 TCTTGTTATTAAATTAAATTGATTGTGCCTATCTTTGTAATCTTTTTATCATCATCCCTATTAA
* * *
34601961 GGGGCTGAAAGCAAAATATTTGACTGTGAAAGATCTACTTATGAGTAATAACATATGATAATTCT
1 GGGGTTGAAAGCAAAATATTTGACTGTGAAAGATCTACTTATGAGAAATAAAATATGATAATTCT
* * * * *
34602026 ATCTAAAACTTGTTATGGTATCATATTGACATTGTGAATGAAGAAAAGATTA-ACTTCATATGAA
66 ATCTAAAACTCGTTATGGTATCATATTAACATTGTGAACGAAGAAAAAATTATACTTCATAAGAA
* * *
34602090 TCACTATTGTTATAAATATTTATTTTGAAAGGAGGAAAAAAAAGGGAGGATTGAGTTATTGATTA
131 TCACTATTGATATAAATATCTATTTTGAAAGGAGGAAAAAAAA-GGAAGATTGAGTTATTGATTA
*
34602155 CTCTTGTTATTAAATTAAATTGATTGT-CACTATCTTTGTGATC-TTTTATCATCATCCCTATTA
195 CTCTTGTTATTAAATTAAATTGATTGTGC-CTATCTTTGTAATCTTTTTATCATCATCCCTATTA
34602218 A
259 A
* *
34602219 GGGGTTGAAAGCAAAATATTTAACTGTGAAAGATCTACTTATGAGCAATAAAATATGATAATTCT
1 GGGGTTGAAAGCAAAATATTTGACTGTGAAAGATCTACTTATGAGAAATAAAATATGATAATTCT
34602284 ATCTAAAACTCGTTATGGT
66 ATCTAAAACTCGTTATGGT
34602303 TGGAAGCACC
Statistics
Matches: 316, Mismatches: 24, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
258 150 0.47
259 166 0.53
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.36
Consensus pattern (259 bp):
GGGGTTGAAAGCAAAATATTTGACTGTGAAAGATCTACTTATGAGAAATAAAATATGATAATTCT
ATCTAAAACTCGTTATGGTATCATATTAACATTGTGAACGAAGAAAAAATTATACTTCATAAGAA
TCACTATTGATATAAATATCTATTTTGAAAGGAGGAAAAAAAAGGAAGATTGAGTTATTGATTAC
TCTTGTTATTAAATTAAATTGATTGTGCCTATCTTTGTAATCTTTTTATCATCATCCCTATTAA
Found at i:34608851 original size:43 final size:42
Alignment explanation
Indices: 34608803--34608899 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 42
34608793 CTAAACGTGA
* * *
34608803 TCTTACATGTAATCAAATATCAGTGCCACTGTCCCAGACAGGG
1 TCTTACACGTAATCAAATATCA-TGCCAATGCCCCAGACAGGG
** * * *
34608846 TCTTACACAAAATCATATATGATGCCAATGCCCCAGACATGG
1 TCTTACACGTAATCAAATATCATGCCAATGCCCCAGACAGGG
34608888 TCTTACACGTAA
1 TCTTACACGTAA
34608900 ATCTCAAATC
Statistics
Matches: 44, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
42 27 0.61
43 17 0.39
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (42 bp):
TCTTACACGTAATCAAATATCATGCCAATGCCCCAGACAGGG
Found at i:34621080 original size:40 final size:40
Alignment explanation
Indices: 34620980--34621244 Score: 279
Period size: 40 Copynumber: 6.7 Consensus size: 40
34620970 GCTCCTCGTT
* * * *
34620980 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
34621020 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
34621059 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
34621099 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
34621139 CAAAGGCCTTC-GGATCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
34621179 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
34621220 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
34621245 CAGCATTCAA
Statistics
Matches: 199, Mismatches: 20, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 144 0.72
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:34621253 original size:41 final size:41
Alignment explanation
Indices: 34621176--34621253 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
34621166 TTTGTATCTC
* * *
34621176 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
34621217 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
34621254 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:34628802 original size:96 final size:96
Alignment explanation
Indices: 34628692--34628888 Score: 376
Period size: 96 Copynumber: 2.1 Consensus size: 96
34628682 ATTATACGTA
34628692 ATTATCTGATTATTTTATCTTTTACAGTAGTTTTTAATAATGGAGATAGATTAAATTTTTAACAA
1 ATTATCTGATTATTTTATCTTTTACAGTAGTTTTTAATAATGGAGATAGATTAAATTTTTAACAA
34628757 AAAATATTATTTTATTTTTTAATTTAATTTT
66 AAAATATTATTTTATTTTTTAATTTAATTTT
**
34628788 ATTATCTGATTATTTTATCTTTTACAGTAGTTTTTAATAATGGAGATAGATTAAATTTTTAAGGA
1 ATTATCTGATTATTTTATCTTTTACAGTAGTTTTTAATAATGGAGATAGATTAAATTTTTAACAA
34628853 AAAATATTATTTTATTTTTTAATTTAATTTT
66 AAAATATTATTTTATTTTTTAATTTAATTTT
34628884 ATTAT
1 ATTAT
34628889 TTATAAATAA
Statistics
Matches: 99, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
96 99 1.00
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.53
Consensus pattern (96 bp):
ATTATCTGATTATTTTATCTTTTACAGTAGTTTTTAATAATGGAGATAGATTAAATTTTTAACAA
AAAATATTATTTTATTTTTTAATTTAATTTT
Found at i:34635432 original size:19 final size:19
Alignment explanation
Indices: 34635409--34635458 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
34635399 AATAAAAAAT
*
34635409 TAAATTATAAAATTTATATA
1 TAAATTA-AAAATATATATA
*
34635429 -AAATCTAAATATATATATA
1 TAAAT-TAAAAATATATATA
34635448 TAAATTAAAAA
1 TAAATTAAAAA
34635459 ATAAATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAATTAAAAATATATATA
Found at i:34639897 original size:14 final size:14
Alignment explanation
Indices: 34639878--34639917 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
34639868 TTGATTGCCA
34639878 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
34639892 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
34639906 GGAAAATGTTTT
1 GTAAAATGTTTT
34639918 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:34641319 original size:27 final size:28
Alignment explanation
Indices: 34641289--34641356 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 28
34641279 ATATTAAATA
*
34641289 CAATATCCAACAAGGTT-AAAACATA-AT
1 CAATATCCAACAA-ATTCAAAACATATAT
* *
34641316 CAATATCTAACAAATTCAAGACATATAT
1 CAATATCCAACAAATTCAAAACATATAT
*
34641344 CAAAATCCAACAA
1 CAATATCCAACAA
34641357 TCTAAAATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
26 2 0.06
27 19 0.56
28 13 0.38
ACGTcount: A:0.53, C:0.21, G:0.04, T:0.22
Consensus pattern (28 bp):
CAATATCCAACAAATTCAAAACATATAT
Found at i:34646074 original size:21 final size:20
Alignment explanation
Indices: 34646015--34646078 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
34646005 TGGATACGGA
*
34646015 GAAGAGGGAACTGAGGAAAT
1 GAAGAGGGAACTGAGGTAAT
** * *
34646035 GAA-AGAAAACTGCGATAATT
1 GAAGAGGGAACTGAGGTAA-T
34646055 GAAGAGGGAACTGAGGTAAT
1 GAAGAGGGAACTGAGGTAAT
34646075 GAAG
1 GAAG
34646079 GAATGAAGGA
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
19 10 0.30
20 12 0.36
21 11 0.33
ACGTcount: A:0.45, C:0.06, G:0.34, T:0.14
Consensus pattern (20 bp):
GAAGAGGGAACTGAGGTAAT
Found at i:34647618 original size:16 final size:16
Alignment explanation
Indices: 34647594--34647645 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
34647584 TGGTTCACTT
34647594 TAATGGAATAGAGCTG
1 TAATGGAATAGAGCTG
* *
34647610 TAATTGAATAGAGCTC
1 TAATGGAATAGAGCTG
*
34647626 TAATGGAATAAAGCTG
1 TAATGGAATAGAGCTG
34647642 TAAT
1 TAAT
34647646 CAGTAATTCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (16 bp):
TAATGGAATAGAGCTG
Found at i:34652657 original size:47 final size:47
Alignment explanation
Indices: 34652606--34652701 Score: 192
Period size: 47 Copynumber: 2.0 Consensus size: 47
34652596 TTTTGTAGTG
34652606 TTAATTATAATTTTTAATCAAACAATATAAGTAATATAAAACATTGT
1 TTAATTATAATTTTTAATCAAACAATATAAGTAATATAAAACATTGT
34652653 TTAATTATAATTTTTAATCAAACAATATAAGTAATATAAAACATTGT
1 TTAATTATAATTTTTAATCAAACAATATAAGTAATATAAAACATTGT
34652700 TT
1 TT
34652702 GAAGACCAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.42
Consensus pattern (47 bp):
TTAATTATAATTTTTAATCAAACAATATAAGTAATATAAAACATTGT
Found at i:34658697 original size:29 final size:29
Alignment explanation
Indices: 34658625--34658699 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
34658615 GTCATTAGGA
* * *
34658625 ATTAGTAGGCACTACGTGCCAGTGTTTAT
1 ATTATTAGGCACTATGTGCCAGTGTTCAT
* *
34658654 ATTATCAGGCACTATGTGTCAGTGTTCAT
1 ATTATTAGGCACTATGTGCCAGTGTTCAT
*
34658683 ATTATTAGGTACTATGT
1 ATTATTAGGCACTATGT
34658700 ACGAGTGACT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.39
Consensus pattern (29 bp):
ATTATTAGGCACTATGTGCCAGTGTTCAT
Found at i:34659041 original size:51 final size:50
Alignment explanation
Indices: 34658961--34659056 Score: 183
Period size: 51 Copynumber: 1.9 Consensus size: 50
34658951 AAAAACAATA
34658961 TATGGATATTATTCATGAAATGCATATGAATGTTATGTGTATATGAATGT
1 TATGGATATTATTCATGAAATGCATATGAATGTTATGTGTATATGAATGT
34659011 TATGAGATATTATTCATGAAATGCATATGAATGTTATGTGTATATG
1 TATG-GATATTATTCATGAAATGCATATGAATGTTATGTGTATATG
34659057 CTATCTTTAT
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 4 0.09
51 41 0.91
ACGTcount: A:0.34, C:0.04, G:0.20, T:0.42
Consensus pattern (50 bp):
TATGGATATTATTCATGAAATGCATATGAATGTTATGTGTATATGAATGT
Found at i:34662207 original size:20 final size:20
Alignment explanation
Indices: 34662106--34662213 Score: 85
Period size: 20 Copynumber: 5.4 Consensus size: 20
34662096 AATGCTATAT
* *
34662106 AGAGGCACCGTAGTGCAACC
1 AGAGGCACCGAAGTGCAAAC
* **
34662126 AGAGGCA-CAAATGTGCAATT
1 AGAGGCACCGAA-GTGCAAAC
* *
34662146 AGAGGC-CCGGAAGTGAAAAT
1 AGAGGCACC-GAAGTGCAAAC
* * * *
34662166 AGAGACACTGAAGTGTATAC
1 AGAGGCACCGAAGTGCAAAC
34662186 AGAGGCACCGAAGTGCAAAC
1 AGAGGCACCGAAGTGCAAAC
34662206 AGAGGCAC
1 AGAGGCAC
34662214 AAATGTGTAA
Statistics
Matches: 68, Mismatches: 16, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
19 2 0.03
20 63 0.93
21 3 0.04
ACGTcount: A:0.38, C:0.20, G:0.30, T:0.12
Consensus pattern (20 bp):
AGAGGCACCGAAGTGCAAAC
Found at i:34662222 original size:40 final size:40
Alignment explanation
Indices: 34662101--34662222 Score: 124
Period size: 40 Copynumber: 3.0 Consensus size: 40
34662091 ATCGAAATGC
* *
34662101 TATATAGAGGCACCGTAGTGCAACCAGAGGCACAAATGTG
1 TATATAGAGGCACCGAAGTGCAAACAGAGGCACAAATGTG
* * * * *
34662141 CA-ATTAGAGGC-CCGGAAGTGAAAATAGAGACACTGAA-GTG
1 TATA-TAGAGGCACC-GAAGTGCAAACAGAGGCAC-AAATGTG
*
34662181 TATACAGAGGCACCGAAGTGCAAACAGAGGCACAAATGTG
1 TATATAGAGGCACCGAAGTGCAAACAGAGGCACAAATGTG
34662221 TA
1 TA
34662223 ATCCCGTACA
Statistics
Matches: 63, Mismatches: 13, Indels: 12
0.72 0.15 0.14
Matches are distributed among these distances:
39 5 0.08
40 53 0.84
41 5 0.08
ACGTcount: A:0.39, C:0.18, G:0.28, T:0.16
Consensus pattern (40 bp):
TATATAGAGGCACCGAAGTGCAAACAGAGGCACAAATGTG
Found at i:34664196 original size:40 final size:40
Alignment explanation
Indices: 34664133--34664308 Score: 142
Period size: 40 Copynumber: 4.3 Consensus size: 40
34664123 TATGTTTAGA
*
34664133 ACTTAGTGTGCGATTCGAGATAGCTTCGGCTATTTATGGC
1 ACTTAGTGTGCGATTCGAGATAGCTTCGGCTATATATGGC
* *
34664173 ACTTAGTGTGCGATT-GGGAATAGCTTCGGCTATATATGGT
1 ACTTAGTGTGCGATTCGAG-ATAGCTTCGGCTATATATGGC
* * * * * *
34664213 TCTTAGTGTGTGATACTGAGATAACATT-GGCTATGTAAGGC
1 ACTTAGTGTGCGATTC-GAGATAGC-TTCGGCTATATATGGC
* ** **
34664254 ACTTAGTGTGTAGGATTATA-ATAGCTTCGGCTATGCGATGGC
1 ACTTAGTGTG--CGATTCGAGATAGCTTCGGCTAT-ATATGGC
*
34664296 ATTTAGTGTGCGA
1 ACTTAGTGTGCGA
34664309 AACATTGAGT
Statistics
Matches: 106, Mismatches: 22, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
39 2 0.02
40 50 0.47
41 33 0.31
42 18 0.17
43 3 0.03
ACGTcount: A:0.23, C:0.14, G:0.28, T:0.35
Consensus pattern (40 bp):
ACTTAGTGTGCGATTCGAGATAGCTTCGGCTATATATGGC
Found at i:34669031 original size:29 final size:29
Alignment explanation
Indices: 34668993--34669055 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
34668983 ATTATTTAAG
* *
34668993 ATTCAGAGGTCGAATATGTGTACCAAGAA
1 ATTCAAAGGTCGAATATGTGAACCAAGAA
**
34669022 ATTCAAAGGTCGAATATGTGAACTGAGAA
1 ATTCAAAGGTCGAATATGTGAACCAAGAA
34669051 ATTCA
1 ATTCA
34669056 GAGTTAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.22, T:0.25
Consensus pattern (29 bp):
ATTCAAAGGTCGAATATGTGAACCAAGAA
Found at i:34671571 original size:40 final size:40
Alignment explanation
Indices: 34671506--34671597 Score: 125
Period size: 40 Copynumber: 2.3 Consensus size: 40
34671496 ACTATGTTTA
34671506 GCACTTAGTGTGCAATTCGAGATAGCTTCGGCTAT-TGATG
1 GCACTTAGTGTGCAATTCGAGATAGCTTCGGCTATAT-ATG
* *
34671546 GCACTTAGTGTGCGATT-GGGAATAGCTTCGGCTATATATG
1 GCACTTAGTGTGCAATTCGAG-ATAGCTTCGGCTATATATG
*
34671586 ACACTTAGTGTG
1 GCACTTAGTGTG
34671598 TGAGACTAAG
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
39 2 0.04
40 44 0.94
41 1 0.02
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (40 bp):
GCACTTAGTGTGCAATTCGAGATAGCTTCGGCTATATATG
Found at i:34678883 original size:539 final size:538
Alignment explanation
Indices: 34677866--34679844 Score: 3474
Period size: 539 Copynumber: 3.6 Consensus size: 538
34677856 TCATCTAAAT
34677866 TAAAACTTTCAAATTATTAACATGATTTTAGAATTCTTCATAATATATCCTCAAAATATTATATT
1 TAAAACTTTCAAATTATTAACATGATTTTAGAATTCTTCATAATATATCCTCAAAATATTATATT
* *
34677931 CATAATAAATAGGATCTACGAGACCCAATACATATTCATGCAATTCACAAGTCTTAATAATTCAA
66 CATAATAAATAGGATCTACGAGACCCGACACATATTCATGCAATTCACAAGTCTTAATAATTCAA
*
34677996 TGCTTCATTTCCATTTCATTCAATTCACAAATTTCTCATGTTCACAATTCAAATCATTAAGTTTA
131 TGCTTCATTTCCATTTCATTCAATTCACAAATTTCTCATGTTCACAATTCAAATCATTAAGTTCA
34678061 ATACTAATACGTATTTATCATTTAACTCAACGTTTATTGATTATACCTTTCATTAACACATTTAT
196 ATACTAATACGTATTTATCATTTAACTCAACGTTTATTGATTATACCTTTCATTAACACATTTAT
*
34678126 GAAATTCTCAAGTTTGCAATGAAAATATCACTTTAGCTTAAAGAACAACATCAACTCAACTCATC
261 GAAATTCTCAAGTTTGCAATGAAAATATCACTTTAGCTTAAATAACAACATCAACTCAACTCATC
34678191 ATCCTCAGACCGATGGTCAGTCTGAAAGGGTGATTCAGATACTAGAGGACATGTTGAGGCGCTAC
326 ATCCTCAGACCGATGGTCAGTCTGAAAGGGTGATTCAGATACTAGAGGACATGTTGAGGCGCTAC
34678256 CGCTCTGATCCTACTCATATTGTCCCTGTTGAAGAGATCGAGGTTAGGCCAGATTTGACCTGTAA
391 CGCTCTGATCCTACTCATATTGT-CCTGTTGAAGAGATCGAGGTTAGGCCAGATTTGACCTGTAA
34678321 CACCCCTTACCCGTATTCGACACCAGAATAGGGTACGAGGCATTACTAGAACACATACACTTGTA
455 CACCCCTTACCCGTATTCGACACCAGAATAGGGTACGAGGCATTACTAGAACACATACACTTGTA
34678386 AACGTATTTAATCGAGTTA
520 AACGTATTTAATCGAGTTA
34678405 TAAAACTTTCAAATTATTAACATGATTTTAGAATTCTTCATAATATATCCTCAAAATATTATATT
1 TAAAACTTTCAAATTATTAACATGATTTTAGAATTCTTCATAATATATCCTCAAAATATTATATT
* *
34678470 CATAATAAACAGGATGTACGAGACCCGACACATATTCATGCAATTCACAAGTCTTAATAATTCAA
66 CATAATAAATAGGATCTACGAGACCCGACACATATTCATGCAATTCACAAGTCTTAATAATTCAA
*
34678535 TGCTTCATTTCCATTTCATTCAATTCACAAATTTCTCATGTTCACAATTTAAATCATTAAGTTCA
131 TGCTTCATTTCCATTTCATTCAATTCACAAATTTCTCATGTTCACAATTCAAATCATTAAGTTCA
34678600 ATACTAATACGTATTTATCATTTAACTCAACGTTTATTGATTATACCTTTCATTAACACATTTAT
196 ATACTAATACGTATTTATCATTTAACTCAACGTTTATTGATTATACCTTTCATTAACACATTTAT
34678665 GAAATTCTCAAGTTTGCAATGAAAATATCACTTTAGCTTAAATAACAACATCAACTCAACTCATC
261 GAAATTCTCAAGTTTGCAATGAAAATATCACTTTAGCTTAAATAACAACATCAACTCAACTCATC
34678730 ATCCTCAGACCGATGGTCAGTCTGAAAGGGTGATTCAGATACTAGAGGACATGTTGAGGCGCTAC
326 ATCCTCAGACCGATGGTCAGTCTGAAAGGGTGATTCAGATACTAGAGGACATGTTGAGGCGCTAC
*
34678795 CGCTCTGATCCTACTCATATTGTCTCTGTTAAAGAGATCGAGGTTAGGCCAGATTTGACCTGTAA
391 CGCTCTGATCCTACTCATATTGTC-CTGTTGAAGAGATCGAGGTTAGGCCAGATTTGACCTGTAA
34678860 CACCCCTTACCCGTATTCGACACCAGAATAGGGTACGAGGCATTACTAGAACACATACACTTGTA
455 CACCCCTTACCCGTATTCGACACCAGAATAGGGTACGAGGCATTACTAGAACACATACACTTGTA
34678925 AACGTATTTAATCGAGTTATAAAACTTCATCTAAA
520 AACGTATTTAATCGAG-------------T-T--A
* *
34678960 TTAAAACTTTCAAATTATTAACATGATTTTATAATTCTTCATAATATATCCTCAAAATGTTATAT
1 -TAAAACTTTCAAATTATTAACATGATTTTAGAATTCTTCATAATATATCCTCAAAATATTATAT
*
34679025 TCATAATAAATAGGATGTACGAGACCCGACACATATTCATGCAATTCACAAGTCTTAATAATTCA
65 TCATAATAAATAGGATCTACGAGACCCGACACATATTCATGCAATTCACAAGTCTTAATAATTCA
34679090 ATGCTTCATTTCCATTTCATTCAATTCACAAATTTCTCATGTTCACAATTCAAATCATTAAGTTC
130 ATGCTTCATTTCCATTTCATTCAATTCACAAATTTCTCATGTTCACAATTCAAATCATTAAGTTC
34679155 AATACTAATACGTATTTATCATTTAACTCAACGTTTATTGATTATACCTTTCATTAACACATTTA
195 AATACTAATACGTATTTATCATTTAACTCAACGTTTATTGATTATACCTTTCATTAACACATTTA
*
34679220 TGAAATTATCAAGTTTGCAATGAAAATATCACTTTAGCTTAAATAACAACATCAACTCAACTCAT
260 TGAAATTCTCAAGTTTGCAATGAAAATATCACTTTAGCTTAAATAACAACATCAACTCAACTCAT
*
34679285 CATCCTCAGACCGATGGTCAGTCTGAAAGGGTGATTCAGATACTAGAGGACATGTTGAGGCACTA
325 CATCCTCAGACCGATGGTCAGTCTGAAAGGGTGATTCAGATACTAGAGGACATGTTGAGGCGCTA
34679350 CCGCTCTGATCCTACTCATATTGTCCTGTTGAAGAGATCGAGGTTAGGCCAGA-TTGACCTGTAA
390 CCGCTCTGATCCTACTCATATTGTCCTGTTGAAGAGATCGAGGTTAGGCCAGATTTGACCTGTAA
34679414 CACCCCTTACCCGTATTCGACACCAGAATAGGGTACGAGGCATTACTAGAACACATACACTTGTA
455 CACCCCTTACCCGTATTCGACACCAGAATAGGGTACGAGGCATTACTAGAACACATACACTTGTA
34679479 AACGTATTTAATCGAGTTA
520 AACGTATTTAATCGAGTTA
*
34679498 TAAAACTTCATCTAAATTAAAAGTTTCAAATTATTAACATGATTTTATAATTCTTCATAATATAT
1 T-AAA----A-C-----------TTTCAAATTATTAACATGATTTTAGAATTCTTCATAATATAT
*
34679563 CCTCAAAATATTATATTCATAATAAATAGGATCTACGAGACCCGATACATATTCATGCAATTCAC
49 CCTCAAAATATTATATTCATAATAAATAGGATCTACGAGACCCGACACATATTCATGCAATTCAC
34679628 AAGTCTTAATAATTCAATGCTTCATTTCCATTTCATTCAATTCACAAATTTCTCATGTTCACAAT
114 AAGTCTTAATAATTCAATGCTTCATTTCCATTTCATTCAATTCACAAATTTCTCATGTTCACAAT
*
34679693 TCAAATCATTAAGTTCAATACTAATACTTATTTATCATTTAACTCAACGTTTATTGATTATACCT
179 TCAAATCATTAAGTTCAATACTAATACGTATTTATCATTTAACTCAACGTTTATTGATTATACCT
*
34679758 TTCATTAACACATTTATGAAATTCTCAAGTTTGTAATGAAAATATCACTTTAGCTTAAATAACAA
244 TTCATTAACACATTTATGAAATTCTCAAGTTTGCAATGAAAATATCACTTTAGCTTAAATAACAA
34679823 CATCAACTCAACTCATCATCCT
309 CATCAACTCAACTCATCATCCT
34679845 GGTATAAATT
Statistics
Matches: 1384, Mismatches: 21, Indels: 55
0.95 0.01 0.04
Matches are distributed among these distances:
537 1 0.00
538 5 0.00
539 526 0.38
540 1 0.00
541 1 0.00
542 1 0.00
543 1 0.00
552 1 0.00
553 1 0.00
554 410 0.30
555 28 0.02
556 408 0.29
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.34
Consensus pattern (538 bp):
TAAAACTTTCAAATTATTAACATGATTTTAGAATTCTTCATAATATATCCTCAAAATATTATATT
CATAATAAATAGGATCTACGAGACCCGACACATATTCATGCAATTCACAAGTCTTAATAATTCAA
TGCTTCATTTCCATTTCATTCAATTCACAAATTTCTCATGTTCACAATTCAAATCATTAAGTTCA
ATACTAATACGTATTTATCATTTAACTCAACGTTTATTGATTATACCTTTCATTAACACATTTAT
GAAATTCTCAAGTTTGCAATGAAAATATCACTTTAGCTTAAATAACAACATCAACTCAACTCATC
ATCCTCAGACCGATGGTCAGTCTGAAAGGGTGATTCAGATACTAGAGGACATGTTGAGGCGCTAC
CGCTCTGATCCTACTCATATTGTCCTGTTGAAGAGATCGAGGTTAGGCCAGATTTGACCTGTAAC
ACCCCTTACCCGTATTCGACACCAGAATAGGGTACGAGGCATTACTAGAACACATACACTTGTAA
ACGTATTTAATCGAGTTA
Found at i:34679695 original size:554 final size:556
Alignment explanation
Indices: 34678405--34679844 Score: 2758
Period size: 554 Copynumber: 2.6 Consensus size: 556
34678395 AATCGAGTTA
*
34678405 TAAAACTTTCAAATTATTAACATGATTTTAGAATTCTTCATAATATATCCTCAAAATATTATATT
1 TAAAACTTTCAAATTATTAACATGATTTTATAATTCTTCATAATATATCCTCAAAATATTATATT
*
34678470 CATAATAAACAGGATGTACGAGACCCGACACATATTCATGCAATTCACAAGTCTTAATAATTCAA
66 CATAATAAATAGGATGTACGAGACCCGACACATATTCATGCAATTCACAAGTCTTAATAATTCAA
*
34678535 TGCTTCATTTCCATTTCATTCAATTCACAAATTTCTCATGTTCACAATTTAAATCATTAAGTTCA
131 TGCTTCATTTCCATTTCATTCAATTCACAAATTTCTCATGTTCACAATTCAAATCATTAAGTTCA
34678600 ATACTAATACGTATTTATCATTTAACTCAACGTTTATTGATTATACCTTTCATTAACACATTTAT
196 ATACTAATACGTATTTATCATTTAACTCAACGTTTATTGATTATACCTTTCATTAACACATTTAT
34678665 GAAATTCTCAAGTTTGCAATGAAAATATCACTTTAGCTTAAATAACAACATCAACTCAACTCATC
261 GAAATTCTCAAGTTTGCAATGAAAATATCACTTTAGCTTAAATAACAACATCAACTCAACTCATC
*
34678730 ATCCTCAGACCGATGGTCAGTCTGAAAGGGTGATTCAGATACTAGAGGACATGTTGAGGCGCTAC
326 ATCCTCAGACCGATGGTCAGTCTGAAAGGGTGATTCAGATACTAGAGGACATGTTGAGGCACTAC
34678795 CGCTCTGATCCTACTCATATTGTCTCTGTTAAAGAGATCGAGGTTAGGCCAGATTTGACCTGTAA
391 CGCTCTGATCCTACTCATATTGTCTCTGTTAAAGAGATCGAGGTTAGGCCAGATTTGACCTGTAA
34678860 CACCCCTTACCCGTATTCGACACCAGAATAGGGTACGAGGCATTACTAGAACACATACACTTGTA
456 CACCCCTTACCCGTATTCGACACCAGAATAGGGTACGAGGCATTACTAGAACACATACACTTGTA
34678925 AACGTATTTAATCGAGTTATAAAACTTCATCTAAAT
521 AACGTATTTAATCGAGTTATAAAACTTCATCTAAAT
*
34678961 TAAAACTTTCAAATTATTAACATGATTTTATAATTCTTCATAATATATCCTCAAAATGTTATATT
1 TAAAACTTTCAAATTATTAACATGATTTTATAATTCTTCATAATATATCCTCAAAATATTATATT
34679026 CATAATAAATAGGATGTACGAGACCCGACACATATTCATGCAATTCACAAGTCTTAATAATTCAA
66 CATAATAAATAGGATGTACGAGACCCGACACATATTCATGCAATTCACAAGTCTTAATAATTCAA
34679091 TGCTTCATTTCCATTTCATTCAATTCACAAATTTCTCATGTTCACAATTCAAATCATTAAGTTCA
131 TGCTTCATTTCCATTTCATTCAATTCACAAATTTCTCATGTTCACAATTCAAATCATTAAGTTCA
34679156 ATACTAATACGTATTTATCATTTAACTCAACGTTTATTGATTATACCTTTCATTAACACATTTAT
196 ATACTAATACGTATTTATCATTTAACTCAACGTTTATTGATTATACCTTTCATTAACACATTTAT
*
34679221 GAAATTATCAAGTTTGCAATGAAAATATCACTTTAGCTTAAATAACAACATCAACTCAACTCATC
261 GAAATTCTCAAGTTTGCAATGAAAATATCACTTTAGCTTAAATAACAACATCAACTCAACTCATC
34679286 ATCCTCAGACCGATGGTCAGTCTGAAAGGGTGATTCAGATACTAGAGGACATGTTGAGGCACTAC
326 ATCCTCAGACCGATGGTCAGTCTGAAAGGGTGATTCAGATACTAGAGGACATGTTGAGGCACTAC
*
34679351 CGCTCTGATCCTACTCATATTGTC-CTGTTGAAGAGATCGAGGTTAGGCCAGA-TTGACCTGTAA
391 CGCTCTGATCCTACTCATATTGTCTCTGTTAAAGAGATCGAGGTTAGGCCAGATTTGACCTGTAA
34679414 CACCCCTTACCCGTATTCGACACCAGAATAGGGTACGAGGCATTACTAGAACACATACACTTGTA
456 CACCCCTTACCCGTATTCGACACCAGAATAGGGTACGAGGCATTACTAGAACACATACACTTGTA
34679479 AACGTATTTAATCGAGTTATAAAACTTCATCTAAAT
521 AACGTATTTAATCGAGTTATAAAACTTCATCTAAAT
*
34679515 TAAAAGTTTCAAATTATTAACATGATTTTATAATTCTTCATAATATATCCTCAAAATATTATATT
1 TAAAACTTTCAAATTATTAACATGATTTTATAATTCTTCATAATATATCCTCAAAATATTATATT
* *
34679580 CATAATAAATAGGATCTACGAGACCCGATACATATTCATGCAATTCACAAGTCTTAATAATTCAA
66 CATAATAAATAGGATGTACGAGACCCGACACATATTCATGCAATTCACAAGTCTTAATAATTCAA
34679645 TGCTTCATTTCCATTTCATTCAATTCACAAATTTCTCATGTTCACAATTCAAATCATTAAGTTCA
131 TGCTTCATTTCCATTTCATTCAATTCACAAATTTCTCATGTTCACAATTCAAATCATTAAGTTCA
*
34679710 ATACTAATACTTATTTATCATTTAACTCAACGTTTATTGATTATACCTTTCATTAACACATTTAT
196 ATACTAATACGTATTTATCATTTAACTCAACGTTTATTGATTATACCTTTCATTAACACATTTAT
*
34679775 GAAATTCTCAAGTTTGTAATGAAAATATCACTTTAGCTTAAATAACAACATCAACTCAACTCATC
261 GAAATTCTCAAGTTTGCAATGAAAATATCACTTTAGCTTAAATAACAACATCAACTCAACTCATC
34679840 ATCCT
326 ATCCT
34679845 GGTATAAATT
Statistics
Matches: 870, Mismatches: 14, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
554 435 0.50
555 27 0.03
556 408 0.47
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.34
Consensus pattern (556 bp):
TAAAACTTTCAAATTATTAACATGATTTTATAATTCTTCATAATATATCCTCAAAATATTATATT
CATAATAAATAGGATGTACGAGACCCGACACATATTCATGCAATTCACAAGTCTTAATAATTCAA
TGCTTCATTTCCATTTCATTCAATTCACAAATTTCTCATGTTCACAATTCAAATCATTAAGTTCA
ATACTAATACGTATTTATCATTTAACTCAACGTTTATTGATTATACCTTTCATTAACACATTTAT
GAAATTCTCAAGTTTGCAATGAAAATATCACTTTAGCTTAAATAACAACATCAACTCAACTCATC
ATCCTCAGACCGATGGTCAGTCTGAAAGGGTGATTCAGATACTAGAGGACATGTTGAGGCACTAC
CGCTCTGATCCTACTCATATTGTCTCTGTTAAAGAGATCGAGGTTAGGCCAGATTTGACCTGTAA
CACCCCTTACCCGTATTCGACACCAGAATAGGGTACGAGGCATTACTAGAACACATACACTTGTA
AACGTATTTAATCGAGTTATAAAACTTCATCTAAAT
Found at i:34680107 original size:51 final size:51
Alignment explanation
Indices: 34680049--34680265 Score: 314
Period size: 51 Copynumber: 4.3 Consensus size: 51
34680039 AATCACATTT
*
34680049 ATCACTTGTCACTTGTC-CTTGATCA-AGTAAGGGTAGCTAAAGCTACCACTC
1 ATCACTTGTCACTTGTCAC-TGATCAGA-TAAGTGTAGCTAAAGCTACCACTC
34680100 ATCACTTGTCACTTGTCACTGAT-ACGATAAGTGTAGCTAAAGCTACCACTC
1 ATCACTTGTCACTTGTCACTGATCA-GATAAGTGTAGCTAAAGCTACCACTC
* * * *
34680151 GTCACTTGTCACTTGTCACTGATCAGATAAGTGTATCTAAAGCTATCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTC
* *
34680202 ATCACTTGTCACTTGTCACTAATCAGATAAGTGTAGCTAAAGCTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTC
*
34680253 ATCATTTGTCACT
1 ATCACTTGTCACT
34680266 GATCAGAAGT
Statistics
Matches: 152, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
50 1 0.01
51 148 0.97
52 3 0.02
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (51 bp):
ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTC
Found at i:34695183 original size:152 final size:152
Alignment explanation
Indices: 34694907--34695211 Score: 610
Period size: 152 Copynumber: 2.0 Consensus size: 152
34694897 CTCTTCAAGA
34694907 CCTTTTGCTACAGGCTGCTGATAACAATTAAGGAAACAACACATCAACACAAGCAAATAGTTTTT
1 CCTTTTGCTACAGGCTGCTGATAACAATTAAGGAAACAACACATCAACACAAGCAAATAGTTTTT
34694972 CTCTATTATCAAATATATAACACAAATATCTAACAACTTACATATGTAACAAGTAATCTATGCTA
66 CTCTATTATCAAATATATAACACAAATATCTAACAACTTACATATGTAACAAGTAATCTATGCTA
34695037 ATGAAGACAAAACATAGATCTT
131 ATGAAGACAAAACATAGATCTT
34695059 CCTTTTGCTACAGGCTGCTGATAACAATTAAGGAAACAACACATCAACACAAGCAAATAGTTTTT
1 CCTTTTGCTACAGGCTGCTGATAACAATTAAGGAAACAACACATCAACACAAGCAAATAGTTTTT
34695124 CTCTATTATCAAATATATAACACAAATATCTAACAACTTACATATGTAACAAGTAATCTATGCTA
66 CTCTATTATCAAATATATAACACAAATATCTAACAACTTACATATGTAACAAGTAATCTATGCTA
34695189 ATGAAGACAAAACATAGATCTT
131 ATGAAGACAAAACATAGATCTT
34695211 C
1 C
34695212 AACAGTATAA
Statistics
Matches: 153, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
152 153 1.00
ACGTcount: A:0.43, C:0.19, G:0.10, T:0.28
Consensus pattern (152 bp):
CCTTTTGCTACAGGCTGCTGATAACAATTAAGGAAACAACACATCAACACAAGCAAATAGTTTTT
CTCTATTATCAAATATATAACACAAATATCTAACAACTTACATATGTAACAAGTAATCTATGCTA
ATGAAGACAAAACATAGATCTT
Found at i:34696545 original size:24 final size:24
Alignment explanation
Indices: 34696512--34696576 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
34696502 GGTTTCACAC
*
34696512 TGTTTGGGTACTATTCACGAGCAT
1 TGTTTAGGTACTATTCACGAGCAT
* * *
34696536 TGTTTAGGTACCATTTACGAGTAT
1 TGTTTAGGTACTATTCACGAGCAT
*
34696560 TG-TTAGGGTACTGTTCA
1 TGTTTA-GGTACTATTCA
34696577 ACACTGTTTG
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
23 3 0.09
24 30 0.91
ACGTcount: A:0.22, C:0.14, G:0.25, T:0.40
Consensus pattern (24 bp):
TGTTTAGGTACTATTCACGAGCAT
Found at i:34697407 original size:31 final size:31
Alignment explanation
Indices: 34697369--34697429 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
34697359 AATAACATGG
34697369 ATATATTTTATGAAAAATCAGTCAGAGGTGA
1 ATATATTTTATGAAAAATCAGTCAGAGGTGA
34697400 ATATATTTTATGAAAAATCAGTCAGAGGTG
1 ATATATTTTATGAAAAATCAGTCAGAGGTG
34697430 TTTTTTCATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.33
Consensus pattern (31 bp):
ATATATTTTATGAAAAATCAGTCAGAGGTGA
Found at i:34702196 original size:30 final size:30
Alignment explanation
Indices: 34702160--34702229 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
34702150 GTCACCACTA
* *
34702160 ACCATTTTCCGTTACAGACGTAACGGATCT
1 ACCATTTTCCGTTACAGACGTAACAGAGCT
** *
34702190 ACCATTTTTTGTTACAGACTTAACAGAGCT
1 ACCATTTTCCGTTACAGACGTAACAGAGCT
34702220 ACCATTTTCC
1 ACCATTTTCC
34702230 ATCCCCCTAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.27, C:0.26, G:0.13, T:0.34
Consensus pattern (30 bp):
ACCATTTTCCGTTACAGACGTAACAGAGCT
Found at i:34703499 original size:30 final size:30
Alignment explanation
Indices: 34703465--34703531 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
34703455 ATAGGGGGAT
*
34703465 GGAAAATGGCAGCTCCGTTAAGTTTGTAAC
1 GGAAAATGGCAGCTCCGTTAAGTCTGTAAC
* *
34703495 GGAAAATGGTAGCTCCGTTACGTCTGTAAC
1 GGAAAATGGCAGCTCCGTTAAGTCTGTAAC
*
34703525 GAAAAAT
1 GGAAAAT
34703532 TGTTAGTGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.25
Consensus pattern (30 bp):
GGAAAATGGCAGCTCCGTTAAGTCTGTAAC
Found at i:34704512 original size:125 final size:125
Alignment explanation
Indices: 34704298--34704569 Score: 406
Period size: 125 Copynumber: 2.2 Consensus size: 125
34704288 TTATTTTGAG
* * **
34704298 TTGACATTTCTG-GTCAAATAGTATAAAATCGCTTCTACCAGGATGCTATCAGAGAAGAAATTAT
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCACTGATACCAGGATGCTATCAGAGAAGAAATTAT
* *
34704362 GAAATCGTGCCCTCGTGGACGCGATTTCGGTACAGTTGGTCATGTAAGAAATAATT-TTTT
65 GAAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTATTTT
*
34704422 TTGACGTTTTCTGAGCAAATAGTATAAAATCACTGATACCAGGATGCTAT-ATGAGAAGAAATTG
1 TTGACG-TTTCTGAGCAAATAGTATAAAATCACTGATACCAGGATGCTATCA-GAGAAGAAATTA
* *
34704486 TGAAATCGCGCCTTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAATTATTTT
64 TGAAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTATTTT
*
34704548 TTGACGTTTCTGACCAAATAGT
1 TTGACGTTTCTGAGCAAATAGT
34704570 GTCAAATCGC
Statistics
Matches: 134, Mismatches: 10, Indels: 7
0.89 0.07 0.05
Matches are distributed among these distances:
124 6 0.04
125 117 0.87
126 11 0.08
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (125 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCACTGATACCAGGATGCTATCAGAGAAGAAATTATG
AAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTATTTT
Found at i:34707797 original size:16 final size:17
Alignment explanation
Indices: 34707765--34707797 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
34707755 ATAACTTTTG
*
34707765 TTAATTAAAATTGGTTT
1 TTAATTAAAATTAGTTT
34707782 TTAATT-AAATTAGTTT
1 TTAATTAAAATTAGTTT
34707798 AGGGTTAGGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (17 bp):
TTAATTAAAATTAGTTT
Found at i:34707859 original size:23 final size:24
Alignment explanation
Indices: 34707815--34707861 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
34707805 GGGCTTTTAA
*
34707815 TTAAATTAAACTAGGGTTAGGGTT
1 TTAAATTAAAATAGGGTTAGGGTT
34707839 TTAAATTAAAATA-GGTTAGGGTT
1 TTAAATTAAAATAGGGTTAGGGTT
34707862 AGGGTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.36, C:0.02, G:0.23, T:0.38
Consensus pattern (24 bp):
TTAAATTAAAATAGGGTTAGGGTT
Found at i:34707950 original size:29 final size:29
Alignment explanation
Indices: 34707777--34707945 Score: 248
Period size: 29 Copynumber: 5.8 Consensus size: 29
34707767 AATTAAAATT
**
34707777 GGTTTTTAATTAAATTAGTTTAGGGTTAG
1 GGTTTTTAATTAAATTAAATTAGGGTTAG
* *
34707806 GGCTTTTAATTAAATTAAACTAGGGTTAG
1 GGTTTTTAATTAAATTAAATTAGGGTTAG
* * **
34707835 GGTTTTAAATTAAAATAGGTTAGGGTTAG
1 GGTTTTTAATTAAATTAAATTAGGGTTAG
*
34707864 GGTTTTTAATTAAATTAAATTAGGGTTGG
1 GGTTTTTAATTAAATTAAATTAGGGTTAG
*
34707893 GGTTTTTAATTAAATTAAATTAGGGTTGG
1 GGTTTTTAATTAAATTAAATTAGGGTTAG
34707922 GGTTTTTAATTAAATTAAATTAGG
1 GGTTTTTAATTAAATTAAATTAGG
34707946 TTTGGTAAAA
Statistics
Matches: 125, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 125 1.00
ACGTcount: A:0.33, C:0.01, G:0.23, T:0.43
Consensus pattern (29 bp):
GGTTTTTAATTAAATTAAATTAGGGTTAG
Found at i:34708788 original size:7 final size:7
Alignment explanation
Indices: 34708778--34708816 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
34708768 TTATATACAT
34708778 AATACTA
1 AATACTA
34708785 AATACTA
1 AATACTA
34708792 AATACTA
1 AATACTA
34708799 AATACTA
1 AATACTA
34708806 AATACTA
1 AATACTA
34708813 AATA
1 AATA
34708817 TCAATCCACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.59, C:0.13, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:34709791 original size:14 final size:15
Alignment explanation
Indices: 34709774--34709807 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
34709764 AATAATTATC
34709774 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
34709788 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
34709803 TAAAA
1 TAAAA
34709808 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:34710023 original size:22 final size:21
Alignment explanation
Indices: 34709995--34710045 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
34709985 AAATATGGAT
*
34709995 TTGAGAGATTTTTTGAAGGAAA
1 TTGAGAGA-TTTTGGAAGGAAA
*
34710017 TTGAGAGGATTTTGGAAGGAAT
1 TTGAGA-GATTTTGGAAGGAAA
34710039 TTGAGAG
1 TTGAGAG
34710046 TTTAAGAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 1 0.04
22 23 0.88
23 2 0.08
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (21 bp):
TTGAGAGATTTTGGAAGGAAA
Found at i:34710077 original size:22 final size:22
Alignment explanation
Indices: 34710050--34710100 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
34710040 TGAGAGTTTA
34710050 AGAGAATTATGGAAGGAAATTG
1 AGAGAATTATGGAAGGAAATTG
34710072 AGAGAATTATGGAAGGAAATTG
1 AGAGAATTATGGAAGGAAATTG
34710094 AGAGAAT
1 AGAGAAT
34710101 ATTTGTTTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.47, C:0.00, G:0.31, T:0.22
Consensus pattern (22 bp):
AGAGAATTATGGAAGGAAATTG
Found at i:34715177 original size:42 final size:42
Alignment explanation
Indices: 34715087--34715178 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 42
34715077 AGACACAAGC
* * * *
34715087 CCATTTCCTTGCCCGTCTGGCTCACACGACCTGGGCACACGT
1 CCATGTCCTTACCCGTCTGGCTCACACGACCTAGGCACACGA
* * *
34715129 CCATGTCCTTACCCGTGTGGCTCACACGGCCTAGGTACAC-A
1 CCATGTCCTTACCCGTCTGGCTCACACGACCTAGGCACACGA
34715170 CCTATGTCC
1 CC-ATGTCC
34715179 CTAGTCGTGT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
41 2 0.05
42 40 0.95
ACGTcount: A:0.16, C:0.39, G:0.21, T:0.24
Consensus pattern (42 bp):
CCATGTCCTTACCCGTCTGGCTCACACGACCTAGGCACACGA
Found at i:34722831 original size:41 final size:41
Alignment explanation
Indices: 34722786--34722887 Score: 152
Period size: 41 Copynumber: 2.5 Consensus size: 41
34722776 GCTTAGCGCT
*
34722786 TAGCAGGCTTATTGCCGGTGAAACACTTCAGACTAAATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
* * *
34722827 TAGCAGGCTTAATGCCGGTGAAATATTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
34722868 TAGCAGGC-TAAGTGCCGGTG
1 TAGCAGGCTTAA-TGCCGGTG
34722888 TACTGAATCA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
40 3 0.05
41 53 0.95
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (41 bp):
TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
Found at i:34730355 original size:41 final size:41
Alignment explanation
Indices: 34730310--34730411 Score: 143
Period size: 41 Copynumber: 2.5 Consensus size: 41
34730300 GCTTAGCGCT
*
34730310 TAGCAGGCTTATTGCCGGTGAAACACTTCAGACTAAATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
* * * *
34730351 TAGCAGGCTTAATGCTGGTGAAATATTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
34730392 TAGCAGGC-TAAGTGCCGGTG
1 TAGCAGGCTTAA-TGCCGGTG
34730412 TACTGAATCA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
40 3 0.06
41 51 0.94
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.28
Consensus pattern (41 bp):
TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
Found at i:34731444 original size:13 final size:13
Alignment explanation
Indices: 34731426--34731451 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34731416 GCTAGAGCTT
34731426 TGTAAAATGTAAA
1 TGTAAAATGTAAA
34731439 TGTAAAATGTAAA
1 TGTAAAATGTAAA
34731452 AATTTTATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTAAAATGTAAA
Found at i:34733767 original size:14 final size:14
Alignment explanation
Indices: 34733724--34733780 Score: 62
Period size: 14 Copynumber: 4.1 Consensus size: 14
34733714 ATCCTAAATT
**
34733724 AACCATATACCCTA
1 AACCATATACTATA
34733738 AACCATATACTATA
1 AACCATATACTATA
34733752 AACCATATA-TATTA
1 AACCATATACTA-TA
* *
34733766 AACCCTAAACTATA
1 AACCATATACTATA
34733780 A
1 A
34733781 TAATAATTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
13 2 0.05
14 33 0.89
15 2 0.05
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.26
Consensus pattern (14 bp):
AACCATATACTATA
Found at i:34734082 original size:20 final size:20
Alignment explanation
Indices: 34734045--34734083 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
34734035 TTAATTAAAA
*
34734045 TAAATAAACAAATTAAATAG
1 TAAATAAACAAATAAAATAG
* *
34734065 TAAATAGACAGATAAAATA
1 TAAATAAACAAATAAAATA
34734084 TTTTTGCGGC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.64, C:0.05, G:0.08, T:0.23
Consensus pattern (20 bp):
TAAATAAACAAATAAAATAG
Found at i:34734137 original size:41 final size:40
Alignment explanation
Indices: 34734092--34734319 Score: 264
Period size: 41 Copynumber: 5.6 Consensus size: 40
34734082 TATTTTTGCG
* *
34734092 GCGCTTTTTTAAAAATGCCGCTAAATCTCTGAGCATTAGC
1 GCGCTTTTTTAAAAACGCCGCTAAAGCTCTGAGCATTAGC
*
34734132 AGCGCTTTTCTAAAAACGCCGCTAAAAGCT-TGAGCATTAGC
1 -GCGCTTTTTTAAAAACGCCGCT-AAAGCTCTGAGCATTAGC
*
34734173 G-GCTCTTTTTAAAATCGCCGCTAAAGCTCTGAGCATTAGC
1 GCGCT-TTTTTAAAAACGCCGCTAAAGCTCTGAGCATTAGC
** * **
34734213 GACATTTTTTTTAAAACGCCAATAAAAGCT-TGAGCATTAGC
1 G-CGCTTTTTTAAAAACGCCGCT-AAAGCTCTGAGCATTAGC
* *
34734254 GGCGCTTTTTTAAAAACGCTGCTAAAGCTCTGAGCATTAGTG
1 -GCGCTTTTTTAAAAACGCCGCTAAAGCTCTGAGCATTAG-C
*
34734296 GCGCTTTTTCAAAAACGCCGCTAA
1 GCGCTTTTTTAAAAACGCCGCTAA
34734320 TGTCCCAAAA
Statistics
Matches: 158, Mismatches: 20, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
39 9 0.06
40 34 0.22
41 102 0.65
42 13 0.08
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.29
Consensus pattern (40 bp):
GCGCTTTTTTAAAAACGCCGCTAAAGCTCTGAGCATTAGC
Found at i:34734304 original size:81 final size:81
Alignment explanation
Indices: 34734089--34734314 Score: 301
Period size: 81 Copynumber: 2.8 Consensus size: 81
34734079 AAATATTTTT
* * * **
34734089 GCGGCGCTTTTTTAAAAATGCCGCTAAATCTCTGAGCATTAGCAGCGCTTTTCTAAAAACGCCGC
1 GCGGCGCTTTTTTAAAAACGCCGCTAAAGCTCTGAGCATTAGCGGCGCTTTT-TAAAAACGCCAA
34734154 TAAAAGCTTGAGCATTA
65 TAAAAGCTTGAGCATTA
* * * ** *
34734171 GCGGCTC-TTTTTAAAATCGCCGCTAAAGCTCTGAGCATTAGCGACATTTTTTTTAAAACGCCAA
1 GCGGCGCTTTTTTAAAAACGCCGCTAAAGCTCTGAGCATTAGCGGC-GCTTTTTAAAAACGCCAA
34734235 TAAAAGCTTGAGCATTA
65 TAAAAGCTTGAGCATTA
* *
34734252 GCGGCGCTTTTTTAAAAACGCTGCTAAAGCTCTGAGCATTAGTGGCGCTTTTTCAAAAACGCC
1 GCGGCGCTTTTTTAAAAACGCCGCTAAAGCTCTGAGCATTAGCGGCGCTTTTT-AAAAACGCC
34734315 GCTAATGTCC
Statistics
Matches: 122, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
81 70 0.57
82 52 0.43
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (81 bp):
GCGGCGCTTTTTTAAAAACGCCGCTAAAGCTCTGAGCATTAGCGGCGCTTTTTAAAAACGCCAAT
AAAAGCTTGAGCATTA
Found at i:34743601 original size:21 final size:21
Alignment explanation
Indices: 34743566--34743799 Score: 107
Period size: 21 Copynumber: 11.1 Consensus size: 21
34743556 TTTACTTTTC
* *
34743566 GTTTAGCTCTCATGAGCTTCT
1 GTTTAACTCTTATGAGCTTCT
* * *
34743587 GTTTAACTCATATGAGTTTCC
1 GTTTAACTCTTATGAGCTTCT
* * *
34743608 GTTTAGCTTTTTTGAGCTTCT
1 GTTTAACTCTTATGAGCTTCT
* * *
34743629 GTTTAACCCTTATG-GGTTTT
1 GTTTAACTCTTATGAGCTTCT
* *
34743649 CGTTTAGCTCTTTTGAGCTTCT
1 -GTTTAACTCTTATGAGCTTCT
* * *
34743671 GTTTAACCCTTATG-GGTTTT
1 GTTTAACTCTTATGAGCTTCT
* * * * *
34743691 CGTTCAGCTCTTTTGAACTTTT
1 -GTTTAACTCTTATGAGCTTCT
* * *
34743713 GTTTAA-TCCTTTTG-GGTTTT
1 GTTTAACT-CTTATGAGCTTCT
* * *
34743733 CGTTTAGCTCTTATAAGCTTCC
1 -GTTTAACTCTTATGAGCTTCT
* * *
34743755 GTTTAACCCTTATGGGTTTCT
1 GTTTAACTCTTATGAGCTTCT
* * *
34743776 GTTTAGCACTTATGTGCTTCT
1 GTTTAACTCTTATGAGCTTCT
34743797 GTT
1 GTT
34743800 CAACCTTCTA
Statistics
Matches: 152, Mismatches: 53, Indels: 16
0.69 0.24 0.07
Matches are distributed among these distances:
20 13 0.09
21 127 0.84
22 12 0.08
ACGTcount: A:0.14, C:0.19, G:0.18, T:0.49
Consensus pattern (21 bp):
GTTTAACTCTTATGAGCTTCT
Found at i:34743624 original size:42 final size:42
Alignment explanation
Indices: 34743561--34743804 Score: 301
Period size: 42 Copynumber: 5.8 Consensus size: 42
34743551 TTTTGTTTAC
** * * *
34743561 TTTTCGTTTAGCTCTCATGAGCTTCTGTTTAACTCATATGAG
1 TTTTCGTTTAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGG
* *
34743603 TTTCCGTTTAGCTTTTTTGAGCTTCTGTTTAACCCTTATGGG
1 TTTTCGTTTAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGG
34743645 TTTTCGTTTAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGG
1 TTTTCGTTTAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGG
* * * * *
34743687 TTTTCGTTCAGCTCTTTTGAACTTTTGTTTAATCCTTTTGGG
1 TTTTCGTTTAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGG
* * *
34743729 TTTTCGTTTAGCTCTTATAAGCTTCCGTTTAACCCTTATGGG
1 TTTTCGTTTAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGG
* * * *
34743771 -TTTCTGTTTAGCACTTATGTGCTTCTGTTCAACC
1 TTTTC-GTTTAGCTCTTTTGAGCTTCTGTTTAACC
34743805 TTCTAGCTTT
Statistics
Matches: 174, Mismatches: 27, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
41 4 0.02
42 170 0.98
ACGTcount: A:0.14, C:0.20, G:0.17, T:0.49
Consensus pattern (42 bp):
TTTTCGTTTAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGG
Found at i:34758227 original size:16 final size:16
Alignment explanation
Indices: 34758206--34758260 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
34758196 CACCATATCT
34758206 CACTCTTGACAATCCA
1 CACTCTTGACAATCCA
** *
34758222 CACTCTTGACCCTCTCT
1 CACTCTTGACAATC-CA
* *
34758239 CACTCTCGACAATACA
1 CACTCTTGACAATCCA
34758255 CACTCT
1 CACTCT
34758261 CGACCCTCTC
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
16 19 0.63
17 11 0.37
ACGTcount: A:0.25, C:0.42, G:0.05, T:0.27
Consensus pattern (16 bp):
CACTCTTGACAATCCA
Found at i:34758250 original size:33 final size:33
Alignment explanation
Indices: 34758203--34758270 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
34758193 CTACACCATA
* * *
34758203 TCTCACTCTTGACAATCCACACTCTTGACCCTC
1 TCTCACTCTCGACAATACACACTCTCGACCCTC
34758236 TCTCACTCTCGACAATACACACTCTCGACCCTC
1 TCTCACTCTCGACAATACACACTCTCGACCCTC
34758269 TC
1 TC
34758271 GTCAACCACC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.22, C:0.44, G:0.06, T:0.28
Consensus pattern (33 bp):
TCTCACTCTCGACAATACACACTCTCGACCCTC
Found at i:34770456 original size:41 final size:41
Alignment explanation
Indices: 34770411--34770512 Score: 152
Period size: 41 Copynumber: 2.5 Consensus size: 41
34770401 GCTTAGCGCT
*
34770411 TAGCAGGCTTATTGCCGGTGAAACACTTCAGACTAAATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
* * *
34770452 TAGCAGGCTTAATGCCGGTGAAATATTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
34770493 TAGCAGGC-TAAGTGCCGGTG
1 TAGCAGGCTTAA-TGCCGGTG
34770513 TACTGAATCA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
40 3 0.05
41 53 0.95
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (41 bp):
TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
Found at i:34772189 original size:38 final size:38
Alignment explanation
Indices: 34772146--34772222 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
34772136 CACAAGTCTG
*
34772146 ACTATTAAATGGGTCACAAAATCGTTCAAACAAAGAGA
1 ACTATTAAATGGGTCACAAAACCGTTCAAACAAAGAGA
*
34772184 ACTATTAAATGGGTCACAAAACCGTTCAAACAAGGAGA
1 ACTATTAAATGGGTCACAAAACCGTTCAAACAAAGAGA
34772222 A
1 A
34772223 TAGAAGCCCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.19
Consensus pattern (38 bp):
ACTATTAAATGGGTCACAAAACCGTTCAAACAAAGAGA
Found at i:34773761 original size:45 final size:46
Alignment explanation
Indices: 34773705--34773794 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 46
34773695 TGCAATTTGG
*
34773705 TTTATATTTTA-TATTTTATTTAATTTCTAACTTTATTAATTAATTC
1 TTTATATTTTATTATTTTATTT-ATTTCTAACTTAATTAATTAATTC
*
34773751 TTTAT-TTTTATTCTTTTATTTATTTCTAACTTAATTAATTAATT
1 TTTATATTTTATTATTTTATTTATTTCTAACTTAATTAATTAATT
34773795 ACTCTTTTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
45 27 0.66
46 14 0.34
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (46 bp):
TTTATATTTTATTATTTTATTTATTTCTAACTTAATTAATTAATTC
Found at i:34773817 original size:45 final size:45
Alignment explanation
Indices: 34773722--34773820 Score: 114
Period size: 45 Copynumber: 2.2 Consensus size: 45
34773712 TTTATATTTT
* * *
34773722 ATTTAATTTCTAACTTTATTAATTAATTCTTTATTTTTATTCTTTT
1 ATTT-ATTTCTAACTTAATTAATTAATTCTTTATTTTTATTCTGTG
34773768 ATTTATTTCTAACTTAATTAATTAATTACTCTT-TTATTT-TT-TGTG
1 ATTTATTTCTAACTTAATTAATTAATT-CT-TTATT-TTTATTCTGTG
34773813 ATTTATTT
1 ATTTATTT
34773821 TTTAGGTGTT
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
45 32 0.68
46 10 0.21
47 5 0.11
ACGTcount: A:0.26, C:0.08, G:0.02, T:0.64
Consensus pattern (45 bp):
ATTTATTTCTAACTTAATTAATTAATTCTTTATTTTTATTCTGTG
Found at i:34788674 original size:103 final size:105
Alignment explanation
Indices: 34788548--34788737 Score: 321
Period size: 104 Copynumber: 1.8 Consensus size: 105
34788538 TTGTTCCTAT
* * *
34788548 TAATAGATGATAACTTAAGATATTA-AATTCAAGATCTAACTAGTTGAGAGTTATTAGTTGGAAA
1 TAATAGATGATAAATTAAGATATTATAATTCAAGATCTAACTAGTTGACAATTATTAGTTGGAAA
34788612 CAAAAA-TTTAACAAAATACTTTAGTAAACAAACCAACAC
66 CAAAAATTTTAACAAAATACTTTAGTAAACAAACCAACAC
*
34788651 TAATAGATGATAAATTAAGATATTATCATTCAAGATCTAACTAGTTGACAATTATTAGTTGGAAA
1 TAATAGATGATAAATTAAGATATTATAATTCAAGATCTAACTAGTTGACAATTATTAGTTGGAAA
*
34788716 CAAAAATTTTAGCAAAATACTT
66 CAAAAATTTTAACAAAATACTT
34788738 CAATAGACAA
Statistics
Matches: 80, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
103 24 0.30
104 42 0.52
105 14 0.17
ACGTcount: A:0.46, C:0.11, G:0.12, T:0.32
Consensus pattern (105 bp):
TAATAGATGATAAATTAAGATATTATAATTCAAGATCTAACTAGTTGACAATTATTAGTTGGAAA
CAAAAATTTTAACAAAATACTTTAGTAAACAAACCAACAC
Found at i:34798984 original size:27 final size:26
Alignment explanation
Indices: 34798953--34799072 Score: 82
Period size: 27 Copynumber: 4.5 Consensus size: 26
34798943 GGTAAGTCTG
*
34798953 CAAGGACTATCT-TTTGCAGAAAGTACA
1 CAAGGACTATCTATGTG-AG-AAGTACA
* *
34798980 CAAGGAATATCTAATGTGAGAAGTCCA
1 CAAGGACTATCT-ATGTGAGAAGTACA
* * *
34799007 CAAGGACTATCCTATGCG-GTAAGTCCG
1 CAAGGACTAT-CTATGTGAG-AAGTACA
* * * *
34799034 CAGGGACTATCTTAAGTGGGAAGTTCA
1 CAAGGACTATC-TATGTGAGAAGTACA
34799061 CAAGGACTATCT
1 CAAGGACTATCT
34799073 TATATGGGAA
Statistics
Matches: 75, Mismatches: 12, Indels: 13
0.75 0.12 0.13
Matches are distributed among these distances:
26 3 0.04
27 64 0.85
28 5 0.07
29 3 0.04
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.24
Consensus pattern (26 bp):
CAAGGACTATCTATGTGAGAAGTACA
Found at i:34799045 original size:54 final size:54
Alignment explanation
Indices: 34798987--34799103 Score: 137
Period size: 54 Copynumber: 2.2 Consensus size: 54
34798977 ACACAAGGAA
* * * *
34798987 TATCTAATGTGAGAAGTCCACAAGGACTATCCTATGCGGTAAGTCCGCAGGGAC
1 TATCTAATGTGAGAAGTCCACAAGGACTATCCTATACGGGAAGTCCGCAAGAAC
* * * * *
34799041 TATCTTAA-GTGGGAAGTTCACAAGGACTATCTTATATGGGAAGTCTGCAAGAAC
1 TATC-TAATGTGAGAAGTCCACAAGGACTATCCTATACGGGAAGTCCGCAAGAAC
34799095 TATCTAATG
1 TATCTAATG
34799104 GGGGAGGTCC
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
53 3 0.06
54 46 0.88
55 3 0.06
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (54 bp):
TATCTAATGTGAGAAGTCCACAAGGACTATCCTATACGGGAAGTCCGCAAGAAC
Found at i:34799073 original size:27 final size:27
Alignment explanation
Indices: 34798973--34799099 Score: 105
Period size: 27 Copynumber: 4.7 Consensus size: 27
34798963 CTTTTGCAGA
* * *
34798973 AAGTACACAAGGAATATC-TAATGTGAG
1 AAGTCCACAAGGACTATCTTAA-GTGGG
* * * *
34799000 AAGTCCACAAGGACTATCCTATGCGGT
1 AAGTCCACAAGGACTATCTTAAGTGGG
* *
34799027 AAGTCCGCAGGGACTATCTTAAGTGGG
1 AAGTCCACAAGGACTATCTTAAGTGGG
*
34799054 AAGTTCACAAGGACTATCTTATA-TGGG
1 AAGTCCACAAGGACTATCTTA-AGTGGG
** *
34799081 AAGTCTGCAAGAACTATCT
1 AAGTCCACAAGGACTATCT
34799100 AATGGGGGAG
Statistics
Matches: 79, Mismatches: 19, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
27 76 0.96
28 3 0.04
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (27 bp):
AAGTCCACAAGGACTATCTTAAGTGGG
Found at i:34800434 original size:28 final size:28
Alignment explanation
Indices: 34800391--34800562 Score: 175
Period size: 28 Copynumber: 6.1 Consensus size: 28
34800381 ATTGACTTTT
*
34800391 GAGTCCGCATTGACTATCTTTCAAGTAA
1 GAGTCCGCATGGACTATCTTTCAAGTAA
* *
34800419 GAGTCCGCATGAACTATCTTTCAAGCAA
1 GAGTCCGCATGGACTATCTTTCAAGTAA
* * * *
34800447 GATTCTGAATGGACTATTTTTCAAGTAA
1 GAGTCCGCATGGACTATCTTTCAAGTAA
* *
34800475 GAGTCCACATGGGCTATCTTTCAAGTAA
1 GAGTCCGCATGGACTATCTTTCAAGTAA
* * * *
34800503 AATTTCGCATGGACGATCTTTCAAGTAA
1 GAGTCCGCATGGACTATCTTTCAAGTAA
* ** *
34800531 GAATCTACATGGACTAT-TCTTCAAGAAA
1 GAGTCCGCATGGACTATCT-TTCAAGTAA
34800559 GAGT
1 GAGT
34800563 TCACACGAAC
Statistics
Matches: 114, Mismatches: 29, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
27 1 0.01
28 113 0.99
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.31
Consensus pattern (28 bp):
GAGTCCGCATGGACTATCTTTCAAGTAA
Found at i:34800543 original size:84 final size:84
Alignment explanation
Indices: 34800404--34800567 Score: 222
Period size: 84 Copynumber: 2.0 Consensus size: 84
34800394 TCCGCATTGA
* * * *
34800404 CTATCTTTCAAGTAAGAGTCCGCATGAACTATCTTTCAAGCAAGATTCTGAATGGACTATTTTTC
1 CTATCTTTCAAGTAAAAGTCCGCATGAACGATCTTTCAAGCAAGAATCTGAATGGACTATTCTTC
*
34800469 AAGTAAGAGTCCACATGGG
66 AAGAAAGAGTCCACATGGG
* * * *
34800488 CTATCTTTCAAGTAAAATTTCGCATGGACGATCTTTCAAGTAAGAATCT-ACATGGACTATTCTT
1 CTATCTTTCAAGTAAAAGTCCGCATGAACGATCTTTCAAGCAAGAATCTGA-ATGGACTATTCTT
*
34800552 CAAGAAAGAGTTCACA
65 CAAGAAAGAGTCCACA
34800568 CGAACTCTTC
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
83 1 0.01
84 68 0.99
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (84 bp):
CTATCTTTCAAGTAAAAGTCCGCATGAACGATCTTTCAAGCAAGAATCTGAATGGACTATTCTTC
AAGAAAGAGTCCACATGGG
Found at i:34805024 original size:112 final size:112
Alignment explanation
Indices: 34804847--34805204 Score: 536
Period size: 112 Copynumber: 3.2 Consensus size: 112
34804837 GAAATCAAGT
** *
34804847 GTAAGACCATAAGGTTGAGACCCATAGCATCTTAGTATGATATGAAAATAGTTATGGTGTAGCCT
1 GTAAGACCATGTGGTTGAGACCCATGGCATCTTAGTATGATATGAAAATAGTTATGGTGTAGCCT
* * *
34804912 CTAGCAAGATGAAGACTAGACTAGTAGATCACGATACATGAATGTGA
66 CTAGTAAGATGAAGACTAGACTAGCAGATCACGATACATGAATATGA
* * *
34804959 GTAAGACCATGTGGTTGAGACCCATGGCATCATAGTATGATATGAAAATAATTATGGTGTGGCCT
1 GTAAGACCATGTGGTTGAGACCCATGGCATCTTAGTATGATATGAAAATAGTTATGGTGTAGCCT
* *
34805024 CTAATAAGATAAAGACTAGACTAGCAGATCACGATACATGAATATGA
66 CTAGTAAGATGAAGACTAGACTAGCAGATCACGATACATGAATATGA
* * * **
34805071 GTAAGACCATGTGGTTCAGACCCACGGCTTCTTAGTATGATATGGGAATAGTTATGGTGTAGCCT
1 GTAAGACCATGTGGTTGAGACCCATGGCATCTTAGTATGATATGAAAATAGTTATGGTGTAGCCT
*
34805136 CTAGTAAGATGAAGACTAGACTAGCAGATCACGGTACATGAATATGA
66 CTAGTAAGATGAAGACTAGACTAGCAGATCACGATACATGAATATGA
* * *
34805183 GTGATACTATGTGGTTGAGACC
1 GTAAGACCATGTGGTTGAGACC
34805205 TATGACAAGA
Statistics
Matches: 220, Mismatches: 26, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
112 220 1.00
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (112 bp):
GTAAGACCATGTGGTTGAGACCCATGGCATCTTAGTATGATATGAAAATAGTTATGGTGTAGCCT
CTAGTAAGATGAAGACTAGACTAGCAGATCACGATACATGAATATGA
Found at i:34809611 original size:28 final size:28
Alignment explanation
Indices: 34809580--34809657 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
34809570 AAAAGTCCGT
34809580 ATGGACTA-TCTTTCAAGTAAGAATTTGC
1 ATGGACTATTC-TTCAAGTAAGAATTTGC
* *
34809608 ATGGACTATTCTTCAAGCAAGAGTTTGC
1 ATGGACTATTCTTCAAGTAAGAATTTGC
* *
34809636 AAGAACTATTCTTCAAGTAAGA
1 ATGGACTATTCTTCAAGTAAGA
34809658 GTCCGCAGAA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
28 42 0.95
29 2 0.05
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (28 bp):
ATGGACTATTCTTCAAGTAAGAATTTGC
Found at i:34812368 original size:9 final size:9
Alignment explanation
Indices: 34812354--34812379 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
34812344 TACAACTATT
34812354 TATAGCTTA
1 TATAGCTTA
34812363 TATAGCTTA
1 TATAGCTTA
34812372 TATAGCTT
1 TATAGCTT
34812380 TTTACTGCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.46
Consensus pattern (9 bp):
TATAGCTTA
Found at i:34812397 original size:20 final size:20
Alignment explanation
Indices: 34812372--34812410 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
34812362 ATATAGCTTA
34812372 TATAGCTTTTTACTGCTTCG
1 TATAGCTTTTTACTGCTTCG
*
34812392 TATAGCTTTTTATTGCTTC
1 TATAGCTTTTTACTGCTTC
34812411 CTGCAGCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.18, G:0.13, T:0.54
Consensus pattern (20 bp):
TATAGCTTTTTACTGCTTCG
Found at i:34812418 original size:20 final size:20
Alignment explanation
Indices: 34812375--34812421 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
34812365 TAGCTTATAT
* *
34812375 AGCTTTTTACTGCTTCGTAT
1 AGCTTTTTACTGCTTCCTAC
* *
34812395 AGCTTTTTATTGCTTCCTGC
1 AGCTTTTTACTGCTTCCTAC
34812415 AGCTTTT
1 AGCTTTT
34812422 AAGTTCTATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.13, C:0.21, G:0.15, T:0.51
Consensus pattern (20 bp):
AGCTTTTTACTGCTTCCTAC
Found at i:34824244 original size:37 final size:37
Alignment explanation
Indices: 34824203--34824377 Score: 289
Period size: 37 Copynumber: 4.8 Consensus size: 37
34824193 TTTGAGTACT
34824203 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
34824240 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
34824277 TCTGATCAAGAAACAAAG-GATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
34824313 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
34824350 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
34824378 TAGCTTCAGC
Statistics
Matches: 132, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
36 35 0.27
37 97 0.73
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:34824320 original size:73 final size:74
Alignment explanation
Indices: 34824203--34824378 Score: 291
Period size: 73 Copynumber: 2.4 Consensus size: 74
34824193 TTTGAGTACT
*
34824203 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTATCTGATCAAGAAACAAAGTGATAAGTGG
*
34824268 TTACACTTA
66 CTACACTTA
*
34824277 TCTGATCAAGAAACAAAG-GATAAGTGGTTACACTTATCTGATCAAGAGACAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTATCTGATCAAGAAACAAAGTGATAAGTGG
34824341 CTACACTTA
66 CTACACTTA
** *
34824350 TCTGATCAAGTGATAAAGTGATAAGTGGT
1 TCTGATCAAGAAACAAAGTGATAAGTGGT
34824379 AGCTTCAGCT
Statistics
Matches: 95, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
73 67 0.71
74 28 0.29
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (74 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTATCTGATCAAGAAACAAAGTGATAAGTGG
CTACACTTA
Found at i:34824413 original size:45 final size:45
Alignment explanation
Indices: 34824340--34824462 Score: 189
Period size: 45 Copynumber: 2.8 Consensus size: 45
34824330 GTGATAAGTG
* *
34824340 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCT-A
*
34824386 GCTACACTTAT-TGATCAAGTGGCAAAGTGATAAGTGGTAGCCTA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTA
34824430 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
34824463 AGGTCATATG
Statistics
Matches: 72, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
43 10 0.14
44 14 0.19
45 37 0.51
46 11 0.15
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (45 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTA
Found at i:34831937 original size:37 final size:37
Alignment explanation
Indices: 34831896--34832071 Score: 273
Period size: 37 Copynumber: 4.8 Consensus size: 37
34831886 TTTGAGTACT
34831896 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
34831933 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
34831970 TCTGATCAAGAAACAAAAG-GATAAGTGGTTACACTTA
1 TCTGATCAAGAAAC-AAAGTGATAAGTGGCTACACTTA
* *
34832007 TTTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
34832044 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
34832072 TAGCTTCAGC
Statistics
Matches: 130, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
36 4 0.03
37 122 0.94
38 4 0.03
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:34832143 original size:45 final size:46
Alignment explanation
Indices: 34832034--34832157 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
34832024 GTGATAAGTG
* *
34832034 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
34832080 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
34832125 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
34832158 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:34845890 original size:5 final size:5
Alignment explanation
Indices: 34845880--34845906 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
34845870 TACTTCATGG
34845880 ATTAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT AT
34845907 ATTAATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:34850435 original size:5 final size:5
Alignment explanation
Indices: 34850425--34850458 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
34850415 ATAATTACCA
34850425 AAATG AAATG AAATG AAATG AAAATG AAATG AAA
1 AAATG AAATG AAATG AAATG -AAATG AAATG AAA
34850459 ATGGAGAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.65, C:0.00, G:0.18, T:0.18
Consensus pattern (5 bp):
AAATG
Found at i:34850451 original size:11 final size:11
Alignment explanation
Indices: 34850424--34850461 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
34850414 AATAATTACC
34850424 AAAATGAAATG
1 AAAATGAAATG
34850435 -AAATGAAATG
1 AAAATGAAATG
34850445 AAAATGAAATG
1 AAAATGAAATG
34850456 AAAATG
1 AAAATG
34850462 GAGAAATAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 10 0.38
11 16 0.62
ACGTcount: A:0.63, C:0.00, G:0.18, T:0.18
Consensus pattern (11 bp):
AAAATGAAATG
Found at i:34850518 original size:57 final size:58
Alignment explanation
Indices: 34850445--34850574 Score: 183
Period size: 57 Copynumber: 2.3 Consensus size: 58
34850435 AAATGAAATG
* * *
34850445 AAAATG-AAATGAAAATGGAGAAATAGAAACATTTGGAAATGATTA-TGGTTTTCTCC
1 AAAATGAAAATGAAAATGGAGAAATAGAAACATTTAGAAATGAATAGTAGTTTTCTCC
* * *
34850501 AAACTGAAAATGAAAATGGAGAAATGGAATCATTTAGAAATGAATAGTAGTTTTCTCC
1 AAAATGAAAATGAAAATGGAGAAATAGAAACATTTAGAAATGAATAGTAGTTTTCTCC
*
34850559 AAAATGAAAAAGAAAA
1 AAAATGAAAATGAAAA
34850575 AGAAAAATGA
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
56 5 0.08
57 35 0.55
58 24 0.38
ACGTcount: A:0.49, C:0.07, G:0.18, T:0.25
Consensus pattern (58 bp):
AAAATGAAAATGAAAATGGAGAAATAGAAACATTTAGAAATGAATAGTAGTTTTCTCC
Found at i:34853674 original size:163 final size:163
Alignment explanation
Indices: 34853481--34853781 Score: 503
Period size: 163 Copynumber: 1.8 Consensus size: 163
34853471 ATACTTCAAA
* * *
34853481 CATATTCTCGGTTCAAACACTTGCATACTCCAATAGCAATACATAAACAATTCAACCTAATGTAC
1 CATATTCTCGGTTCAAACACATGCATACTCCAATAGCAACACATAAACAATTCAACCTAATATAC
* *
34853546 ATATCATATACACTTCCCAAAATAAACATTTCATATATAGACTATTTTCATCATTTTCAAAAATC
66 ATATCATATACACTTCCCAAAATAAACATTTCATATATAGACTATTTTCAACAATTTCAAAAATC
34853611 AACATTTAAAATATAAGGCATCCCAAAAGCAAC
131 AACATTTAAAATATAAGGCATCCCAAAAGCAAC
* * *
34853644 CATATTCTCGGTTCAAACACATGTATACTCCAATAGCCACACATATACAATTCAACCTAATATAC
1 CATATTCTCGGTTCAAACACATGCATACTCCAATAGCAACACATAAACAATTCAACCTAATATAC
* * *
34853709 ATATCATATACACTTCCCAAAATAAACATTTCATATGTAGACTCTTTTCAACAATTTCTAAAATC
66 ATATCATATACACTTCCCAAAATAAACATTTCATATATAGACTATTTTCAACAATTTCAAAAATC
34853774 AACATTTA
131 AACATTTA
34853782 TTCGCATCAA
Statistics
Matches: 127, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
163 127 1.00
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.31
Consensus pattern (163 bp):
CATATTCTCGGTTCAAACACATGCATACTCCAATAGCAACACATAAACAATTCAACCTAATATAC
ATATCATATACACTTCCCAAAATAAACATTTCATATATAGACTATTTTCAACAATTTCAAAAATC
AACATTTAAAATATAAGGCATCCCAAAAGCAAC
Found at i:34854378 original size:19 final size:19
Alignment explanation
Indices: 34854354--34854401 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
34854344 TTTATAAATA
34854354 TTTGAATTTTAAAAATTAT
1 TTTGAATTTTAAAAATTAT
** *
34854373 TTTGAAGTTTTGTAAGTTAT
1 TTTGAA-TTTTAAAAATTAT
34854393 TTTG-ATTTT
1 TTTGAATTTT
34854402 TTTGTTTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 4 0.16
19 7 0.28
20 14 0.56
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.58
Consensus pattern (19 bp):
TTTGAATTTTAAAAATTAT
Found at i:34860598 original size:35 final size:35
Alignment explanation
Indices: 34860553--34860620 Score: 127
Period size: 35 Copynumber: 1.9 Consensus size: 35
34860543 ATGTTATAGT
34860553 AAAATGATTAAAGGAAATGTTATGGCAAAAATTTA
1 AAAATGATTAAAGGAAATGTTATGGCAAAAATTTA
*
34860588 AAAATTATTAAAGGAAATGTTATGGCAAAAATT
1 AAAATGATTAAAGGAAATGTTATGGCAAAAATT
34860621 AAGGTAAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.51, C:0.03, G:0.16, T:0.29
Consensus pattern (35 bp):
AAAATGATTAAAGGAAATGTTATGGCAAAAATTTA
Found at i:34864069 original size:20 final size:20
Alignment explanation
Indices: 34864046--34864084 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
34864036 AAGAAAATTC
34864046 ATAAGAAAATTCGTAAGAAA
1 ATAAGAAAATTCGTAAGAAA
34864066 ATAAGAAAATTCGTAAGAA
1 ATAAGAAAATTCGTAAGAA
34864085 TAACTGGCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.59, C:0.05, G:0.15, T:0.21
Consensus pattern (20 bp):
ATAAGAAAATTCGTAAGAAA
Found at i:34864082 original size:12 final size:12
Alignment explanation
Indices: 34864035--34864084 Score: 63
Period size: 12 Copynumber: 4.5 Consensus size: 12
34864025 TCAATTAAAA
*
34864035 TAAGAAAATTCA
1 TAAGAAAATTCG
34864047 TAAGAAAATTCG
1 TAAGAAAATTCG
34864059 TAAGAAAA----
1 TAAGAAAATTCG
34864067 TAAGAAAATTCG
1 TAAGAAAATTCG
34864079 TAAGAA
1 TAAGAA
34864085 TAACTGGCTC
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
8 8 0.24
12 25 0.76
ACGTcount: A:0.58, C:0.06, G:0.14, T:0.22
Consensus pattern (12 bp):
TAAGAAAATTCG
Found at i:34872474 original size:36 final size:35
Alignment explanation
Indices: 34872434--34872510 Score: 82
Period size: 36 Copynumber: 2.2 Consensus size: 35
34872424 ATGATGACTG
* *
34872434 ATGTGAAAGTGAATATGAGGGTATGTTATTCATGCC
1 ATGTGAAAGTAAATATGAGGGTATGTT-TTCATACC
** * **
34872470 ATGTGACGGTAAATTTGTTGGTATGTTTTCATACC
1 ATGTGAAAGTAAATATGAGGGTATGTTTTCATACC
34872505 ATGTGA
1 ATGTGA
34872511 CAATGATTAT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
35 13 0.38
36 21 0.62
ACGTcount: A:0.27, C:0.09, G:0.26, T:0.38
Consensus pattern (35 bp):
ATGTGAAAGTAAATATGAGGGTATGTTTTCATACC
Found at i:34878476 original size:18 final size:18
Alignment explanation
Indices: 34878443--34878481 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
34878433 GAAATGAGAG
* *
34878443 TGAGAGATGAATGATGTT
1 TGAGAGATGAAGGATGAT
*
34878461 TGAGAGATGAGGGATGAT
1 TGAGAGATGAAGGATGAT
34878479 TGA
1 TGA
34878482 TATGAGGAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.38, T:0.28
Consensus pattern (18 bp):
TGAGAGATGAAGGATGAT
Found at i:34879313 original size:18 final size:19
Alignment explanation
Indices: 34879285--34879321 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
34879275 GATTTTACAT
34879285 CTTTCCTCTCTTCTCTCCA
1 CTTTCCTCTCTTCTCTCCA
*
34879304 CTTT-CTCTCTTCTTTCCA
1 CTTTCCTCTCTTCTCTCCA
34879322 TTCCAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.05, C:0.43, G:0.00, T:0.51
Consensus pattern (19 bp):
CTTTCCTCTCTTCTCTCCA
Found at i:34886155 original size:19 final size:19
Alignment explanation
Indices: 34886114--34886156 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
34886104 GTTCACTTGA
34886114 AGAAAAAGGTTGAATTTTG
1 AGAAAAAGGTTGAATTTTG
34886133 AGAAATAAGGTT-AAGTTTT-
1 AGAAA-AAGGTTGAA-TTTTG
34886152 AGAAA
1 AGAAA
34886157 CCGAAATGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.47, C:0.00, G:0.23, T:0.30
Consensus pattern (19 bp):
AGAAAAAGGTTGAATTTTG
Done.