Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold194
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: 3945165
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1023 characters in sequence are not A, C, G, or T
File 14 of 24
Found at i:2258289 original size:13 final size:14
Alignment explanation
Indices: 2258261--2258294 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
2258251 ACTAGCTTAG
2258261 TTTTT-TTCTTTAA
1 TTTTTCTTCTTTAA
2258274 TTTTTCTTCTTT-A
1 TTTTTCTTCTTTAA
2258287 TTTTTCTT
1 TTTTTCTT
2258295 TTTGCCTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 14 0.70
14 6 0.30
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTTCTTCTTTAA
Found at i:2259071 original size:166 final size:165
Alignment explanation
Indices: 2258773--2259081 Score: 356
Period size: 166 Copynumber: 1.9 Consensus size: 165
2258763 TAATATATAC
* * * *
2258773 AAAAAATCAAAATTAATGAAATAAATTAAAATTTTCAAAACTGAATTAATGGGAGTTCAATGATA
1 AAAAAATCAAAACTAATGAAATAAATTAAAATTTTCAAAACTGAATTAATGGGAATTAAATAATA
* ** * * * **
2258838 ATATTAGATGCATTTTAAAAATTTTAGACTAAAGAAAATCCCCCTAAAAATATTTTTGGAATAGA
66 ATATTAGATGAATTTTAAAAATTACAAACTAAAGAAAAACCCCCGAAAAATATTTACGGAATAGA
*
2258903 AAACTCTGTTTTTGGGAAAATGGGGATTTCAAAGA
131 AAACTCCGTTTTTGGGAAAATGGGGATTTCAAAGA
* * * **
2258938 AAAAAATTCAAAACTCATGAAAATAAATT-AATTTTTCAAAACT-AATTTCATTTGAATTAAATA
1 AAAAAA-TCAAAACTAATG-AAATAAATTAAAATTTTCAAAACTGAA-TTAATGGGAATTAAATA
* *
2259001 ATAATATTTGATGAATTTTAAAAATTACAAAC-CAAGAAAAACACCCTCGAAAAAT-TTTACGGA
63 ATAATATTAGATGAATTTTAAAAATTACAAACTAAAGAAAAAC-CCC-CGAAAAATATTTACGGA
*
2259064 GTAGAAAACTCCGTTTTT
126 ATAGAAAACTCCGTTTTT
2259082 CGAAAACAAG
Statistics
Matches: 118, Mismatches: 21, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
165 16 0.14
166 86 0.73
167 16 0.14
ACGTcount: A:0.47, C:0.10, G:0.11, T:0.32
Consensus pattern (165 bp):
AAAAAATCAAAACTAATGAAATAAATTAAAATTTTCAAAACTGAATTAATGGGAATTAAATAATA
ATATTAGATGAATTTTAAAAATTACAAACTAAAGAAAAACCCCCGAAAAATATTTACGGAATAGA
AAACTCCGTTTTTGGGAAAATGGGGATTTCAAAGA
Found at i:2263485 original size:40 final size:40
Alignment explanation
Indices: 2263361--2263486 Score: 126
Period size: 40 Copynumber: 3.1 Consensus size: 40
2263351 GTTTAAAAGG
** * * * * *
2263361 GGTTGATTGGGACAAAACTAACTAGTCAACAAAGAGTGAG
1 GGTTGATTGGGATGAAACCAACAAGCCAACAAATAGTGAA
* * * ** * *
2263401 GGTTAACTGCGATGAAACCGGCAAGCTAACAAATAGTAAA
1 GGTTGATTGGGATGAAACCAACAAGCCAACAAATAGTGAA
2263441 GGTTGATTGGGATGAAACCAACAAGCCAACAAATAGTGAA
1 GGTTGATTGGGATGAAACCAACAAGCCAACAAATAGTGAA
2263481 GGTTGA
1 GGTTGA
2263487 CTAGGATAAA
Statistics
Matches: 65, Mismatches: 21, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
40 65 1.00
ACGTcount: A:0.40, C:0.14, G:0.26, T:0.19
Consensus pattern (40 bp):
GGTTGATTGGGATGAAACCAACAAGCCAACAAATAGTGAA
Found at i:2264505 original size:60 final size:59
Alignment explanation
Indices: 2264419--2264674 Score: 287
Period size: 60 Copynumber: 4.3 Consensus size: 59
2264409 AAGTCTACAA
* * *
2264419 AATGACTTAGGCGAAACCAAGCCTCAAAGAAATGGCCTGGACAAAACCAGAAACCTAAAC
1 AATGACTTAGGTGAAACCAAGACTCAAAGAAATGGCCTGGATAAAACCA-AAACCTAAAC
* * * *
2264479 AATAACTTAGGTGAAACTAAGACTCAATAAAAATGGCCTGGATAAAACCAAAACCTAAAT
1 AATGACTTAGGTGAAACCAAGACTCAA-AGAAATGGCCTGGATAAAACCAAAACCTAAAC
* ** * * * *
2264539 AATGACTTGGGCAAAACCAAGACTCAATGAAATGGCCTAGATGAAACCAAAGACCTGAAC
1 AATGACTTAGGTGAAACCAAGACTCAAAGAAATGGCCTGGATAAAACCAAA-ACCTAAAC
* * ** * * *
2264599 AATGACTTAGGTAAAACCAAGACTTAACTAAATGACATGGATGAAACCAAAAACCTAAAC
1 AATGACTTAGGTGAAACCAAGACTCAAAGAAATGGCCTGGATAAAACC-AAAACCTAAAC
2264659 AATGACTTAGGTGAAA
1 AATGACTTAGGTGAAA
2264675 TCAGAATAGT
Statistics
Matches: 165, Mismatches: 28, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
59 20 0.12
60 122 0.74
61 23 0.14
ACGTcount: A:0.47, C:0.20, G:0.17, T:0.17
Consensus pattern (59 bp):
AATGACTTAGGTGAAACCAAGACTCAAAGAAATGGCCTGGATAAAACCAAAACCTAAAC
Found at i:2264674 original size:30 final size:30
Alignment explanation
Indices: 2264462--2264674 Score: 97
Period size: 30 Copynumber: 7.1 Consensus size: 30
2264452 GGCCTGGACA
*
2264462 AAACCAGAA-ACCTAAACAATAACTTAGGTG
1 AAACCA-AAGACCTAAACAATGACTTAGGTG
* * * *
2264492 AAA-CTAAGACTCAATAAA-AATGGCCT-GGATA
1 AAACCAAAGAC-C--TAAACAATGACTTAGG-TG
* * **
2264523 AAACCAAA-ACCTAAATAATGACTTGGGCA
1 AAACCAAAGACCTAAACAATGACTTAGGTG
* * *
2264552 AAACC-AAGA-CTCAATGA-AATGGCCTAGATG
1 AAACCAAAGACCT-AA--ACAATGACTTAGGTG
* *
2264582 AAACCAAAGACCTGAACAATGACTTAGGTA
1 AAACCAAAGACCTAAACAATGACTTAGGTG
* *
2264612 AAACC-AAGA-CTTAACTAAATGACAT-GGATG
1 AAACCAAAGACCTAAAC--AATGACTTAGG-TG
*
2264642 AAACCAAAAACCTAAACAATGACTTAGGTG
1 AAACCAAAGACCTAAACAATGACTTAGGTG
2264672 AAA
1 AAA
2264675 TCAGAATAGT
Statistics
Matches: 136, Mismatches: 26, Indels: 42
0.67 0.13 0.21
Matches are distributed among these distances:
28 15 0.11
29 25 0.18
30 60 0.44
31 22 0.16
32 14 0.10
ACGTcount: A:0.48, C:0.19, G:0.15, T:0.17
Consensus pattern (30 bp):
AAACCAAAGACCTAAACAATGACTTAGGTG
Found at i:2266012 original size:112 final size:112
Alignment explanation
Indices: 2265705--2266090 Score: 503
Period size: 112 Copynumber: 3.5 Consensus size: 112
2265695 GGTTGGCTTG
* * * * * * *
2265705 AAAATTTCAAAACTGATATGATACATACCCCATTTTCCTAGGCACGAATAGA-TCGAGTCATATA
1 AAAATTTCAAAACTGATAAGATACATGCCCTATTTTCCTAGGCACAAATGGATTAG-GACATATA
* * * *
2265769 AAATAGTAATTTCTTTGAAAATCTA-ACAAATTTGGTGTTATTAGCTCA
65 AAACACTAATTTCTTTGAAAATC-AGACAAATTTGATGTTATTGGCTCA
* * * * * *
2265817 AAAATTTCAAAATTGATAGGATACAT-CCCTATTTTCCTA-ACACAAATGAATCAGGATATATAA
1 AAAATTTCAAAACTGATAAGATACATGCCCTATTTTCCTAGGCACAAATGGATTAGGACATATAA
* * *
2265880 AACACGAATTTCCTTGAAAATCAGACAAATTTGATGTTGTTGGCTCA
66 AACACTAATTTCTTTGAAAATCAGACAAATTTGATGTTATTGGCTCA
*
2265927 AAAATTTCAAAACTAATAAGATACATGCCCTATTTTCCTAGGCACAAATGGATTAGGACATATAA
1 AAAATTTCAAAACTGATAAGATACATGCCCTATTTTCCTAGGCACAAATGGATTAGGACATATAA
*
2265992 AACACTAATTTCTTTGAAAATCAGACAAGTTTGATGTTATTGGCTCA
66 AACACTAATTTCTTTGAAAATCAGACAAATTTGATGTTATTGGCTCA
* *
2266039 AAAATTTCAAAACTGAT-AGATACATGCCCTATTTTCCTGGGCACGAATGGAT
1 AAAATTTCAAAACTGATAAGATACATGCCCTATTTTCCTAGGCACAAATGGAT
2266091 CAGTTTGTAT
Statistics
Matches: 238, Mismatches: 32, Indels: 9
0.85 0.11 0.03
Matches are distributed among these distances:
109 1 0.00
110 75 0.32
111 59 0.25
112 103 0.43
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (112 bp):
AAAATTTCAAAACTGATAAGATACATGCCCTATTTTCCTAGGCACAAATGGATTAGGACATATAA
AACACTAATTTCTTTGAAAATCAGACAAATTTGATGTTATTGGCTCA
Found at i:2267247 original size:79 final size:80
Alignment explanation
Indices: 2267006--2267237 Score: 319
Period size: 79 Copynumber: 2.9 Consensus size: 80
2266996 TTTTGGGTTG
* *
2267006 AAAAGCGGGGTTGGAGTAT-CCTCTCGAAAATGATGGGGTTGGAGTATCCCCAATGGTGAAAAAT
1 AAAAACGGGGTTGGAGTATCCCT-TCGAAAATGATGAGGTTGGAGTATCCCCAATGGTGAAAAAT
2267070 TGAT-ATTTTGGAAAT
65 TGATAATTTTGGAAAT
** * * **
2267085 AAAAATAGGGTTGGACTATCCCTTTGAAAATGATGCA-GTTGGAGTATCCCTGATGGTGAAAAAT
1 AAAAACGGGGTTGGAGTATCCCTTCGAAAATGATG-AGGTTGGAGTATCCCCAATGGTGAAAAAT
*
2267149 AGATAA-TTTGGAAAT
65 TGATAATTTTGGAAAT
* *
2267164 AAAAACGGGGTTAGAGTATCCCTTCAAAAATGATGAGGTTGGAGTATCCCCAATGGTGAAAAATT
1 AAAAACGGGGTTGGAGTATCCCTTCGAAAATGATGAGGTTGGAGTATCCCCAATGGTGAAAAATT
2267229 GATAATTTT
66 GATAATTTT
2267238 TTTGAAAAAA
Statistics
Matches: 130, Mismatches: 18, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
78 1 0.01
79 122 0.94
80 7 0.05
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.28
Consensus pattern (80 bp):
AAAAACGGGGTTGGAGTATCCCTTCGAAAATGATGAGGTTGGAGTATCCCCAATGGTGAAAAATT
GATAATTTTGGAAAT
Found at i:2269537 original size:27 final size:28
Alignment explanation
Indices: 2269499--2269572 Score: 98
Period size: 27 Copynumber: 2.7 Consensus size: 28
2269489 TTTTTCGAAA
2269499 AATGGGGTTGGAGTATCCCCTT-GGAGG
1 AATGGGGTTGGAGTATCCCCTTCGGAGG
* *
2269526 AATGGAGTTGGAGTAT-CTCTTCGGAGG
1 AATGGGGTTGGAGTATCCCCTTCGGAGG
* *
2269553 AATGGGGTTAGAGTGTCCCC
1 AATGGGGTTGGAGTATCCCC
2269573 AACGATGATA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
26 4 0.10
27 33 0.85
28 2 0.05
ACGTcount: A:0.20, C:0.15, G:0.38, T:0.27
Consensus pattern (28 bp):
AATGGGGTTGGAGTATCCCCTTCGGAGG
Found at i:2271940 original size:79 final size:79
Alignment explanation
Indices: 2271826--2272119 Score: 349
Period size: 79 Copynumber: 3.7 Consensus size: 79
2271816 CATTCCTCGA
* * * * *
2271826 TGAAAAATTTAATATTTTGGAGATAAAAATGGGGTTGGAGTATCCCCTCGAAAATAAGAGGGTTG
1 TGAAAAA-TTAATATTTTGGAAATAAAACTAGGGTTGGAGTATCCCCTCAAAAATAAGAGGGTTA
*
2271891 GAGTATCCCTGATTG
65 GAGTATCCCCGATTG
* * ** *
2271906 TGAAAAATCAATATTTTAGAAATAAAACTAGGGTTGGAGTATCCTTTCAGAAATAACG-GGGTTA
1 TGAAAAATTAATATTTTGGAAATAAAACTAGGGTTGGAGTATCCCCTCAAAAATAA-GAGGGTTA
2271970 GAGTATCCCCGATTG
65 GAGTATCCCCGATTG
* * ** * *
2271985 TGAAAAATTAGTGTTTTCCAAATAAAA-TAGGGGTTGGAGTATCCCTTCAAAAATAATAGGGTTA
1 TGAAAAATTAATATTTTGGAAATAAAACTA-GGGTTGGAGTATCCCCTCAAAAATAAGAGGGTTA
*
2272049 GAGTATCCCCGATTA
65 GAGTATCCCCGATTG
* ** *
2272064 TGAAAAATTGATATTTTGGAAATAAAACCGGGGTTAGAGTATCCCCTCAAAAATAA
1 TGAAAAATTAATATTTTGGAAATAAAACTAGGGTTGGAGTATCCCCTCAAAAATAA
2272120 AAACATGAAT
Statistics
Matches: 181, Mismatches: 29, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
78 2 0.01
79 171 0.94
80 8 0.04
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (79 bp):
TGAAAAATTAATATTTTGGAAATAAAACTAGGGTTGGAGTATCCCCTCAAAAATAAGAGGGTTAG
AGTATCCCCGATTG
Found at i:2274523 original size:50 final size:50
Alignment explanation
Indices: 2274466--2274600 Score: 171
Period size: 50 Copynumber: 2.7 Consensus size: 50
2274456 AAAAATGCCT
* * * * *
2274466 GAATGTATCGATACATTGAAAAATGCATTGATACATTTGGGCAAAACCCA
1 GAATGTATCGATACAATGAAAAATGTATCGATACATCTAGGCAAAACCCA
* * * * *
2274516 GAATGTATGGATACAATGAACAATGTATCGCTACATCTAGGTAAAACTCA
1 GAATGTATCGATACAATGAAAAATGTATCGATACATCTAGGCAAAACCCA
*
2274566 GAATGTATCGATACAATGAATAATGTATCGATACA
1 GAATGTATCGATACAATGAAAAATGTATCGATACA
2274601 AATTGTGAAA
Statistics
Matches: 72, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 72 1.00
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.27
Consensus pattern (50 bp):
GAATGTATCGATACAATGAAAAATGTATCGATACATCTAGGCAAAACCCA
Found at i:2275370 original size:79 final size:79
Alignment explanation
Indices: 2275282--2275544 Score: 253
Period size: 79 Copynumber: 3.2 Consensus size: 79
2275272 GTCTTGCTCA
*
2275282 TTGAGGACAAAGGAAAAAAAAGAAAAAGGAAAGTGTCTTGCTCCTAAAGGACAAAGGGAAAAAGA
1 TTGAGGACAAAGGAAAAAAAAGAAAAAGGAAAGTGTCTTGCTCCTTAAGGACAAAGGGAAAAAGA
*
2275347 GTACGTCCTGCTCT
66 GTACGTCCTACTCT
* * * * * *
2275361 TTGAGGACAAAGG--AAAAAAG-GAAATGAAATGTGCCCTACTCTTTAAGGACAAAGGGAAAAGA
1 TTGAGGACAAAGGAAAAAAAAGAAAAAGGAAA-GTGTCTTGCTCCTTAAGGACAAAGGG-AAA-A
** *
2275423 AGGAAATGAAATGGGTCCTACTCC
63 A-G--A-G---TACGTCCTACTCT
* * * * * *
2275447 TTAAGGACAAAAGAAAAAAAAGAAAGAGGAAAGTATCTTGCTCCTTGAGGACAAAGGGAAAAATA
1 TTGAGGACAAAGGAAAAAAAAGAAAAAGGAAAGTGTCTTGCTCCTTAAGGACAAAGGGAAAAAGA
2275512 GTACGTCCTACTCT
66 GTACGTCCTACTCT
*
2275526 TCGAGGACAAAGGAAAAAA
1 TTGAGGACAAAGGAAAAAA
2275545 GGAGATAAAG
Statistics
Matches: 142, Mismatches: 29, Indels: 26
0.72 0.15 0.13
Matches are distributed among these distances:
76 7 0.05
77 28 0.20
78 3 0.02
79 41 0.29
80 1 0.01
82 2 0.01
83 2 0.01
86 22 0.15
87 3 0.02
88 27 0.19
89 6 0.04
ACGTcount: A:0.45, C:0.14, G:0.24, T:0.17
Consensus pattern (79 bp):
TTGAGGACAAAGGAAAAAAAAGAAAAAGGAAAGTGTCTTGCTCCTTAAGGACAAAGGGAAAAAGA
GTACGTCCTACTCT
Found at i:2275403 original size:42 final size:42
Alignment explanation
Indices: 2275351--2275760 Score: 281
Period size: 42 Copynumber: 9.8 Consensus size: 42
2275341 AAAAGAGTAC
*
2275351 GTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAATGAAATGT
1 GTCCTACTCTTTGAGGACAAAGGAAAAAAGGAAATGAAATGT
* * *
2275393 GCCCTACTCTTTAAGGACAAAGGGAAAAGAAGGAAATGAAATGG
1 GTCCTACTCTTTGAGGACAAA-GGAAAA-AAGGAAATGAAATGT
* * * * *
2275437 GTCCTACTCCTTAAGGACAAAAGAAAAAAAAGAAA-GAGGAAAGT
1 GTCCTACTCTTTGAGGAC-AAAGGAAAAAAGGAAATGA--AATGT
* * * * * * **
2275481 ATCTTGCTCCTTGAGGACAAAGG---GAA--AAAT--AGTAC
1 GTCCTACTCTTTGAGGACAAAGGAAAAAAGGAAATGAAATGT
* *
2275516 GTCCTACTCTTCGAGGACAAAGGAAAAAAGGAGAT-AAAGTGT
1 GTCCTACTCTTTGAGGACAAAGGAAAAAAGGAAATGAAA-TGT
* *
2275558 GCCCTGCTCTTTGAGGACAAAGGAGAAAAA-GAAAT-AAA-GT
1 GTCCTACTCTTTGAGGACAAAGGA-AAAAAGGAAATGAAATGT
*
2275598 GCATCCTAGTCTTTGAGGACAAAGGGAAAAGAAGGAAATGAAATGT
1 G--TCCTACTCTTTGAGGACAAA-GGAAAA-AAGGAAATGAAATGT
* * * * *
2275644 GTCATGCTTTTTGAGGATAAAGG-AAAAAGGAGAACGAAATGT
1 GTCCTACTCTTTGAGGACAAAGGAAAAAAGGA-AATGAAATGT
* * * * *
2275686 GTCC-AGCTTTTTGAGGACAAATGAAAAAAAAGAAATAAAATGC
1 GTCCTA-CTCTTTGAGGACAAA-GGAAAAAAGGAAATGAAATGT
* * *
2275729 ATCCTGCTCTTTGAGGACAACGGAAAAAAGGA
1 GTCCTACTCTTTGAGGACAAAGGAAAAAAGGA
2275761 GAAGGCTCTT
Statistics
Matches: 285, Mismatches: 57, Indels: 52
0.72 0.14 0.13
Matches are distributed among these distances:
35 19 0.07
38 5 0.02
40 8 0.03
41 6 0.02
42 107 0.38
43 52 0.18
44 79 0.28
45 6 0.02
46 3 0.01
ACGTcount: A:0.43, C:0.13, G:0.25, T:0.19
Consensus pattern (42 bp):
GTCCTACTCTTTGAGGACAAAGGAAAAAAGGAAATGAAATGT
Found at i:2275465 original size:165 final size:166
Alignment explanation
Indices: 2275285--2275586 Score: 482
Period size: 165 Copynumber: 1.8 Consensus size: 166
2275275 TTGCTCATTG
* *
2275285 AGGACAAAGGAAAAAAAAGAAAAAGGAAAGTGTCTTGCTCCTAAAGGACAAAGGGAAAAAGAGTA
1 AGGACAAAAGAAAAAAAAGAAAAAGGAAAGTATCTTGCTCCTAAAGGACAAAGGGAAAAAGAGTA
* *
2275350 CGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAATGAAA-TGTGCCCTACTCTTTAAGGACAAA
66 CGTCCTACTCTTCGAGGACAAAGGAAAAAAGGAAAT-AAAGTGTGCCCTACTCTTTAAGGACAAA
2275414 GG-GAAAAGAAGGAAATGAAATGGGTCCTACTCCTTA
130 GGAGAAAAGAAGGAAATGAAATGGGTCCTACTCCTTA
* ** *
2275450 AGGACAAAAGAAAAAAAAGAAAGAGGAAAGTATCTTGCTCCTTGAGGACAAAGGGAAAAATAGTA
1 AGGACAAAAGAAAAAAAAGAAAAAGGAAAGTATCTTGCTCCTAAAGGACAAAGGGAAAAAGAGTA
* * *
2275515 CGTCCTACTCTTCGAGGACAAAGGAAAAAAGGAGATAAAGTGTGCCCTGCTCTTTGAGGACAAAG
66 CGTCCTACTCTTCGAGGACAAAGGAAAAAAGGAAATAAAGTGTGCCCTACTCTTTAAGGACAAAG
2275580 GAGAAAA
131 GAGAAAA
2275587 AGAAATAAAG
Statistics
Matches: 124, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
164 3 0.02
165 116 0.94
166 5 0.04
ACGTcount: A:0.44, C:0.14, G:0.25, T:0.17
Consensus pattern (166 bp):
AGGACAAAAGAAAAAAAAGAAAAAGGAAAGTATCTTGCTCCTAAAGGACAAAGGGAAAAAGAGTA
CGTCCTACTCTTCGAGGACAAAGGAAAAAAGGAAATAAAGTGTGCCCTACTCTTTAAGGACAAAG
GAGAAAAGAAGGAAATGAAATGGGTCCTACTCCTTA
Found at i:2275666 original size:86 final size:83
Alignment explanation
Indices: 2275517--2275758 Score: 208
Period size: 86 Copynumber: 2.9 Consensus size: 83
2275507 AAATAGTACG
* *
2275517 TCCTACTCTTCGAGGACAAAGGAAAAAAGGAGATAAAGTGTGCCCTGCTCTTTGAGGACAAAGGA
1 TCCTACTCTTCGAGGACAAAGGAAAAAAGGAAATAAAGTGTGCCATGCTCTTTGAGGACAAAGGA
2275582 GAAAAAGAAATAAAGTGCA
66 -AAAAAGAAATAAAGTGCA
* * * * *
2275601 TCCTAGTCTTTGAGGACAAAGGGAAAAGAAGGAAATGAAA-TGTGTCATGCTTTTTGAGGATAAA
1 TCCTACTCTTCGAGGACAAA-GGAAAA-AAGGAAAT-AAAGTGTGCCATGCTCTTTGAGGACAAA
**
2275665 GGAAAAAGGAGAACGAAATGTG--
63 GGAAAAA--AGAAATAAA-GTGCA
* * * * *
2275687 TCC-AGCTTTTTGAGGACAAATGAAAAAAAAGAAATAAAATGCAT-CC-TGCTCTTTGAGGACAA
1 TCCTA-CTCTTCGAGGACAAA-GGAAAAAAGGAAATAAAGTG--TGCCATGCTCTTTGAGGACAA
*
2275749 CGGAAAAAAG
62 AGGAAAAAAG
2275759 GAGAAGGCTC
Statistics
Matches: 130, Mismatches: 18, Indels: 21
0.77 0.11 0.12
Matches are distributed among these distances:
83 2 0.02
84 21 0.16
85 41 0.32
86 52 0.40
87 11 0.08
88 3 0.02
ACGTcount: A:0.42, C:0.13, G:0.25, T:0.20
Consensus pattern (83 bp):
TCCTACTCTTCGAGGACAAAGGAAAAAAGGAAATAAAGTGTGCCATGCTCTTTGAGGACAAAGGA
AAAAAGAAATAAAGTGCA
Found at i:2275869 original size:62 final size:62
Alignment explanation
Indices: 2275798--2276475 Score: 778
Period size: 62 Copynumber: 11.0 Consensus size: 62
2275788 CACCAACTCA
* * *
2275798 CCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTAAGGACAAAAAGATG
1 CCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTG
* *
2275860 CCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCGTCCTACTCTTTGAGGAC-AAAAGGATG
1 CCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAGG-TG
* * * * * * *
2275922 CCACTAACTCGTGTGGGCTTTGAAAAGAAAAAAGCGTCCTGCTTTTTGAAGACTAAAGGGTG
1 CCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTG
** * * * *
2275984 CCACCAACTTGTGTGGGCTTTCAAAAGGAAAAGGCATCATGCTCTTTGAGGACTAAAGGGTG
1 CCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTG
* ***
2276046 CCACCAACTCATGTGTGCTTTGAAAAGAAAAAGTTGTCCTGCTCTTTGAGGAC-AAAAGGGTG
1 CCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAA-GGTG
* * * * *
2276108 CCACCGACTCGTGTGGGCTTTGAAAAG-AAAAGAGCATCCTACTCTTTGGGGACTAAAGGGTG
1 CCACCAACTCATGTGGGCTTTGAAAAGAAAAAG-GCATCCTGCTCTTTGAGGACTAAAAGGTG
* * * * *
2276170 CCACCAACTCATGTAGGCTTTGAAAAGGAAAAGGCATCCTACTTTTTGAGGACTAAAAGTGTA
1 CCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAG-GTG
** * * *
2276233 CCACTGACTCTTGTGGGCTTTAAAAAG-TAAA-GCATCCTGCTCTTTGAGGACTAAAAGGTG
1 CCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTG
* * * * * *
2276293 CCACCGACTCATATGGCCTTTAAAAAGGAAAAGGTATCCTGCTCTTTGAGGACT-AAAGAGTG
1 CCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAG-GTG
* * *
2276355 CCACCGACTCATGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTAAGAACTAAAAGGTG
1 CCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTG
** * * * *
2276417 CCACCAACTTGTGTGGGCTTTAAAAAGAAAAA-G-AGTCCTACTATTTGAGAACTAAAAGG
1 CCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCA-TCCTGCTCTTTGAGGACTAAAAGG
2276476 CTAAAAGGGG
Statistics
Matches: 529, Mismatches: 75, Indels: 25
0.84 0.12 0.04
Matches are distributed among these distances:
60 26 0.05
61 66 0.12
62 396 0.75
63 41 0.08
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (62 bp):
CCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTG
Found at i:2277755 original size:12 final size:12
Alignment explanation
Indices: 2277726--2277784 Score: 54
Period size: 11 Copynumber: 5.1 Consensus size: 12
2277716 GTCGTTCCCC
*
2277726 TTTTATTCATTCT
1 TTTTTTTCA-TCT
2277739 TTTTTTTC-TCT
1 TTTTTTTCATCT
2277750 TGTTTTTTCAT-T
1 T-TTTTTTCATCT
2277762 TTTTTTTCAT-T
1 TTTTTTTCATCT
*
2277773 TTTATTTC-TCT
1 TTTTTTTCATCT
2277784 T
1 T
2277785 GTGTTTCTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
10 1 0.02
11 23 0.56
12 9 0.22
13 8 0.20
ACGTcount: A:0.08, C:0.14, G:0.02, T:0.76
Consensus pattern (12 bp):
TTTTTTTCATCT
Found at i:2277771 original size:36 final size:35
Alignment explanation
Indices: 2277726--2277800 Score: 91
Period size: 34 Copynumber: 2.1 Consensus size: 35
2277716 GTCGTTCCCC
*
2277726 TTTTATTCATTCTTTTTTTTCTCTTGT-TTT-TTCATT
1 TTTTATTCA-T-TTTTATTTCTCTTGTGTTTCTT-ATT
*
2277762 TTTTTTTCATTTTTATTTCTCTTGTGTTTCTTATT
1 TTTTATTCATTTTTATTTCTCTTGTGTTTCTTATT
2277797 TTTT
1 TTTT
2277801 GCTTTTACCC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
34 14 0.40
35 11 0.31
36 10 0.29
ACGTcount: A:0.08, C:0.12, G:0.04, T:0.76
Consensus pattern (35 bp):
TTTTATTCATTTTTATTTCTCTTGTGTTTCTTATT
Found at i:2282055 original size:7 final size:7
Alignment explanation
Indices: 2282043--2282072 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
2282033 AACGCCCGAA
2282043 ATCTTAG
1 ATCTTAG
2282050 ATCTTAG
1 ATCTTAG
2282057 ATCTTAG
1 ATCTTAG
2282064 ATCTTAG
1 ATCTTAG
2282071 AT
1 AT
2282073 TCCTTGGTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (7 bp):
ATCTTAG
Found at i:2282911 original size:79 final size:79
Alignment explanation
Indices: 2282636--2282912 Score: 310
Period size: 79 Copynumber: 3.5 Consensus size: 79
2282626 AAATTTAATA
* * * * * *
2282636 TTTTGGAGATAAAAACGGGGTTGGAGTATCCCCTCGAAAATAACAGAGTTTGGAGTATCCTTGAT
1 TTTTGGAAATAAAATCAGGGTTGGAGTATCCCCTCGAAAATAACA-AGGTTAGAGTATCCTCGAT
*
2282701 TATGAAAAATTGATG
65 TATGAAAAATTGGTG
* ** * * *
2282716 TTTTGGAAATAAAATTAGGGTTGGAGTAAACCCT----AATAACAGGGTTAGAGTATTCTCGATC
1 TTTTGGAAATAAAATCAGGGTTGGAGTATCCCCTCGAAAATAACAAGGTTAGAGTATCCTCGATT
* *
2282777 GTGAAAAATTAGTG
66 ATGAAAAATTGGTG
** * * * *
2282791 TTTTTTAAATAAAATCTGGGTTGGAGTATCCCTTTGAAAATAACAAGGTTAGAGTATCCCCGATT
1 TTTTGGAAATAAAATCAGGGTTGGAGTATCCCCTCGAAAATAACAAGGTTAGAGTATCCTCGATT
2282856 ATGAAAAATTGGTG
66 ATGAAAAATTGGTG
* *
2282870 TTTTGGAAATAAAATCAGGGTTAGAGTATCCCCTCGGAAATAA
1 TTTTGGAAATAAAATCAGGGTTGGAGTATCCCCTCGAAAATAA
2282913 AAACATGAAT
Statistics
Matches: 158, Mismatches: 35, Indels: 9
0.78 0.17 0.04
Matches are distributed among these distances:
75 52 0.33
76 7 0.04
79 71 0.45
80 28 0.18
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.31
Consensus pattern (79 bp):
TTTTGGAAATAAAATCAGGGTTGGAGTATCCCCTCGAAAATAACAAGGTTAGAGTATCCTCGATT
ATGAAAAATTGGTG
Found at i:2285656 original size:41 final size:41
Alignment explanation
Indices: 2285611--2285692 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
2285601 CCAACACAAG
*
2285611 CAACTATACTCATTTGCTGGTTTGAAAAGACTAAGCAGCTT
1 CAACTATACTCATTTGCTGGCTTGAAAAGACTAAGCAGCTT
*
2285652 CAACTATACTGATTTGCTGGCTTGAAAAGACTAAGCAGCTT
1 CAACTATACTCATTTGCTGGCTTGAAAAGACTAAGCAGCTT
2285693 GTTTAACACC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (41 bp):
CAACTATACTCATTTGCTGGCTTGAAAAGACTAAGCAGCTT
Found at i:2286366 original size:22 final size:20
Alignment explanation
Indices: 2286322--2286393 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
2286312 ACCCAAAATA
* * *
2286322 TATCACTACAATGAGAAATG
1 TATCAATACAATTAGTAATG
2286342 TATCAATACAATT-GTAACCATG
1 TATCAATACAATTAGT-A--ATG
* *
2286364 TATCGATACATTTAGTAATG
1 TATCAATACAATTAGTAATG
2286384 TATCAATACA
1 TATCAATACA
2286394 TTTCCTTGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
19 1 0.02
20 24 0.57
22 15 0.36
23 2 0.05
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (20 bp):
TATCAATACAATTAGTAATG
Found at i:2287734 original size:30 final size:31
Alignment explanation
Indices: 2287669--2287743 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 31
2287659 GATACATTGA
* * *
2287669 AGAACGTATCAATACATTTGGGTCAAAACCC
1 AGAATGTATCGATACATTTGAGTCAAAACCC
* *
2287700 AGAATGTATCGATACATTTGAG-CTAAACCT
1 AGAATGTATCGATACATTTGAGTCAAAACCC
2287730 AGAATGTATCGATA
1 AGAATGTATCGATA
2287744 TAATAAAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
30 20 0.51
31 19 0.49
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (31 bp):
AGAATGTATCGATACATTTGAGTCAAAACCC
Found at i:2287833 original size:21 final size:21
Alignment explanation
Indices: 2287807--2287858 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
2287797 CATGGTCCTA
2287807 TATCGATACACTTCA-TACATG
1 TATCGATACA-TTCACTACATG
**
2287828 TATCGATACATTCACTATTTG
1 TATCGATACATTCACTACATG
2287849 TATCGATACA
1 TATCGATACA
2287859 AATTGTAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 4 0.14
21 24 0.86
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.37
Consensus pattern (21 bp):
TATCGATACATTCACTACATG
Found at i:2288584 original size:32 final size:33
Alignment explanation
Indices: 2288544--2288623 Score: 103
Period size: 32 Copynumber: 2.5 Consensus size: 33
2288534 CTACTGATGT
* *
2288544 TGGG-TTTAGA-AGGTGATGCCACCTACTTGTG
1 TGGGCTTTAGAGAGGTGATGCCACCAACTTGTA
*
2288575 TGGGCTTTAGAGAGGT-TTGCCACCAACTTGTA
1 TGGGCTTTAGAGAGGTGATGCCACCAACTTGTA
*
2288607 TGGGCTTTTGAGAGGTG
1 TGGGCTTTAGAGAGGTG
2288624 CCACAAACTT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
31 4 0.10
32 34 0.81
33 4 0.10
ACGTcount: A:0.19, C:0.15, G:0.34, T:0.33
Consensus pattern (33 bp):
TGGGCTTTAGAGAGGTGATGCCACCAACTTGTA
Found at i:2288633 original size:30 final size:30
Alignment explanation
Indices: 2288541--2288759 Score: 106
Period size: 30 Copynumber: 7.4 Consensus size: 30
2288531 AGGCTACTGA
**
2288541 TGTTGGG-TTTAGA-AGGTGATGCCACCTACT
1 TGTTGGGCTTTAGAGAGGT--TGCCACAAACT
*
2288571 TGTGTGGGCTTTAGAGAGGTTTGCCACCAACT
1 TGT-TGGGCTTTAGAGAGG-TTGCCACAAACT
*
2288603 TGTATGGGCTTTTGAGAGG-TGCCACAAACT
1 TGT-TGGGCTTTAGAGAGGTTGCCACAAACT
** *
2288633 TG-TGGGCTTT-GA-AAATATGCCACAGACT
1 TGTTGGGCTTTAGAGAGGT-TGCCACAAACT
* **
2288661 TG-TGGGCTTT-GAAAAGG-TGCCACTGACT
1 TGTTGGGCTTTAG-AGAGGTTGCCACAAACT
* * *
2288689 TG-TAGGCTTTA-AAAGGATATGCCACTAACT
1 TGTTGGGCTTTAGAGAGG-T-TGCCACAAACT
* *
2288719 TG-TGGGCTTTA-AAAGGATATGCCACTAACT
1 TGTTGGGCTTTAGAGAGG-T-TGCCACAAACT
2288749 TG-TGGGCTTTA
1 TGTTGGGCTTTA
2288760 AAAAGGTGCC
Statistics
Matches: 164, Mismatches: 13, Indels: 24
0.82 0.06 0.12
Matches are distributed among these distances:
26 1 0.01
27 7 0.04
28 48 0.29
29 1 0.01
30 66 0.40
31 4 0.02
32 33 0.20
33 3 0.02
34 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (30 bp):
TGTTGGGCTTTAGAGAGGTTGCCACAAACT
Found at i:2288653 original size:28 final size:28
Alignment explanation
Indices: 2288622--2288947 Score: 208
Period size: 28 Copynumber: 11.2 Consensus size: 28
2288612 TTTTGAGAGG
* *
2288622 TGCCACAAACTTGTGGGCTTTGAAAATA
1 TGCCACAAACTTGTGGGCTTTAAAAAGA
* * *
2288650 TGCCACAGACTTGTGGGCTTTGAAAAGG
1 TGCCACAAACTTGTGGGCTTTAAAAAGA
** * *
2288678 TGCCACTGACTTGTAGGCTTTAAAAGGATA
1 TGCCACAAACTTGTGGGCTTTAAAA--AGA
* *
2288708 TGCCACTAACTTGTGGGCTTTAAAAGGATA
1 TGCCACAAACTTGTGGGCTTTAAAA--AGA
* *
2288738 TGCCACTAACTTGTGGGCTTTAAAAAGG
1 TGCCACAAACTTGTGGGCTTTAAAAAGA
** *
2288766 TGCCACTGACATGTGGGCTTT-AAAAGA
1 TGCCACAAACTTGTGGGCTTTAAAAAGA
** * * *
2288793 TGCCACGGAGTTGTGGACTTTGAAGAAAATGT
1 TGCCACAAACTTGTGGGCTTT--A-AAAA-GA
* * *
2288825 TGCCA-AAGAGTTGTGGACTTTGAAGAAAAATA
1 TGCCACAA-ACTTGTGGGCTTT----AAAAAGA
* * *
2288857 TGCCACAGAGTTGTGGACTTTAAAAGAGA
1 TGCCACAAACTTGTGGGCTTTAAAA-AGA
* * *
2288886 TGCCACGAAGTTGTGGACTTTAAAAGAGA
1 TGCCACAAACTTGTGGGCTTTAAAA-AGA
*
2288915 TGCCACGAAA-TTGTGGGCTTTAAAAAGG
1 TGCCAC-AAACTTGTGGGCTTTAAAAAGA
2288943 TGCCA
1 TGCCA
2288948 TGGAGTTGTA
Statistics
Matches: 252, Mismatches: 33, Indels: 26
0.81 0.11 0.08
Matches are distributed among these distances:
27 22 0.09
28 78 0.31
29 49 0.19
30 56 0.22
31 4 0.02
32 37 0.15
33 5 0.02
34 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (28 bp):
TGCCACAAACTTGTGGGCTTTAAAAAGA
Found at i:2288836 original size:32 final size:31
Alignment explanation
Indices: 2288787--2289436 Score: 435
Period size: 32 Copynumber: 20.8 Consensus size: 31
2288777 TGTGGGCTTT
*
2288787 AAAAGATGCCACGGAGTTGTGGACTTTGAAG
1 AAAAGATGCCACAGAGTTGTGGACTTTGAAG
* *
2288818 AAAATGTTGCCAAAGAGTTGTGGACTTTGAAG
1 AAAA-GATGCCACAGAGTTGTGGACTTTGAAG
*
2288850 AAAAATATGCCACAGAGTTGTGGACTTT-AA-
1 -AAAAGATGCCACAGAGTTGTGGACTTTGAAG
*
2288880 AAGAGATGCCAC-GAAGTTGTGGACTTT-AA-
1 AAAAGATGCCACAG-AGTTGTGGACTTTGAAG
* * *
2288909 AAGAGATGCCAC-GAAATTGTGGGCTTT--A-
1 AAAAGATGCCACAG-AGTTGTGGACTTTGAAG
* ** *
2288937 AAAAGGTGCCATGGAGTTGTAGACTTT-AA-
1 AAAAGATGCCACAGAGTTGTGGACTTTGAAG
* * * * **
2288966 AAAGGGTGCCACGGAGTTATGGACTTCAAAAAAAG
1 AAAAGATGCCACAGAGTTGTGGACTT----TGAAG
* * * * *
2289001 AAAAGGTTCCACGGATTTGTGAACTTTGAAG
1 AAAAGATGCCACAGAGTTGTGGACTTTGAAG
* * * *
2289032 AAAAAGGTGTCATAGAGTTGTGGACTTT-AAA
1 -AAAAGATGCCACAGAGTTGTGGACTTTGAAG
*
2289063 AAAAGGATGCCATAGAGTTGTGGACTTTGAAG
1 AAAA-GATGCCACAGAGTTGTGGACTTTGAAG
* *
2289095 AAAAAGGTGCCACAGAGTTGTGAACTTTGAAG
1 -AAAAGATGCCACAGAGTTGTGGACTTTGAAG
* *
2289127 AAAAGGGTGCCACAGAGTTGTGGACTTTTAA-
1 AAAA-GATGCCACAGAGTTGTGGACTTTGAAG
* *
2289158 AAAAAATGGGCCACAAAGTTGTGGACTTT--AG
1 AAAAGAT--GCCACAGAGTTGTGGACTTTGAAG
* *
2289189 -AAAGGTGCCACAGAGTTATGGACTTT-AA-
1 AAAAGATGCCACAGAGTTGTGGACTTTGAAG
* **
2289217 AAGAGATGCCATGGAGTTGTGGACTTTGAAG
1 AAAAGATGCCACAGAGTTGTGGACTTTGAAG
* * ** *
2289248 AAAAAGGTACCATGGAATTGTGGACTTTGAAG
1 -AAAAGATGCCACAGAGTTGTGGACTTTGAAG
*
2289280 AAAAAGATGCCACGGAGTTGTGGAC-TTGAAAGGGTG
1 -AAAAGATGCCACAGAGTTGTGGACTTTG-AA----G
* * * *
2289316 TAGAAAGGTGCCACGGAGTTATGAACTTT-AA-
1 -A-AAAGATGCCACAGAGTTGTGGACTTTGAAG
* *
2289347 AAGAGATGCCACAAAGTTGTGGACTTTGAAG
1 AAAAGATGCCACAGAGTTGTGGACTTTGAAG
**
2289378 AAAA-ATGTGCCATGGAGTTGTGGACTTTGAAG
1 AAAAGA--TGCCACAGAGTTGTGGACTTTGAAG
2289410 AAAAAGATGCCACAGAGTTGTGGACTT
1 -AAAAGATGCCACAGAGTTGTGGACTT
2289437 AAAAGGGTGC
Statistics
Matches: 503, Mismatches: 79, Indels: 73
0.77 0.12 0.11
Matches are distributed among these distances:
28 39 0.08
29 116 0.23
30 16 0.03
31 46 0.09
32 224 0.45
33 12 0.02
34 3 0.01
35 21 0.04
36 4 0.01
37 20 0.04
38 2 0.00
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.25
Consensus pattern (31 bp):
AAAAGATGCCACAGAGTTGTGGACTTTGAAG
Found at i:2288868 original size:64 final size:63
Alignment explanation
Indices: 2288787--2289502 Score: 528
Period size: 64 Copynumber: 11.6 Consensus size: 63
2288777 TGTGGGCTTT
* * **
2288787 AAAAGATGCCACGGAGTTGTGGACTTTGAAGAAAATGTTGCCAAAGAGTTGTGGACTTTGAAGA
1 AAAAGATGCCACAGAGTTGTGGACTTTGAAGAAAA-GGTGCCACGGAGTTGTGGACTTTGAAGA
* * * *
2288851 AAAATATGCCACAGAGTTGTGGACTTT-AA-AAGAGATGCCACGAAGTTGTGGACTTT--A-A
1 AAAAGATGCCACAGAGTTGTGGACTTTGAAGAAAAGGTGCCACGGAGTTGTGGACTTTGAAGA
* * * * *
2288909 AAGAGATGCCAC-GAAATTGTGGGCTTT--A-AAAAGGTGCCATGGAGTTGTAGACTTT--A-A
1 AAAAGATGCCACAG-AGTTGTGGACTTTGAAGAAAAGGTGCCACGGAGTTGTGGACTTTGAAGA
* * * * ** * * *
2288966 AAAGGGTGCCACGGAGTTATGGACTTCAAAAAAAGAAAAGGTTCCACGGATTTGTGAACTTTGAA
1 AAAAGATGCCACAGAGTTGTGGACTT----TGAAGAAAAGGTGCCACGGAGTTGTGGACTTTGAA
2289031 GA
62 GA
* * * * **
2289033 AAAAGGTGTCATAGAGTTGTGGACTTT-AAAAAAAGGATGCCATAGAGTTGTGGACTTTGAAGA
1 AAAAGATGCCACAGAGTTGTGGACTTTGAAGAAAAGG-TGCCACGGAGTTGTGGACTTTGAAGA
* * * *
2289096 AAAAGGTGCCACAGAGTTGTGAACTTTGAAGAAAAGGGTGCCACAGAGTTGTGGACTTTTAA-A
1 AAAAGATGCCACAGAGTTGTGGACTTTGAAGAAAA-GGTGCCACGGAGTTGTGGACTTTGAAGA
* * *
2289159 AAAA-ATGGGCCACAAAGTTGTGGACTTT--AG-AAAGGTGCCACAGAGTTATGGACTTT--A-A
1 AAAAGAT--GCCACAGAGTTGTGGACTTTGAAGAAAAGGTGCCACGGAGTTGTGGACTTTGAAGA
* ** * * *
2289217 AAGAGATGCCATGGAGTTGTGGACTTTGAAGAAAAAGGTACCATGGAATTGTGGACTTTGAAGA
1 AAAAGATGCCACAGAGTTGTGGACTTTGAAG-AAAAGGTGCCACGGAGTTGTGGACTTTGAAGA
* * *
2289281 AAAAGATGCCACGGAGTTGTGGAC-TTGAAAGGGTGTAGAAAGGTGCCACGGAGTTATGAACTTT
1 AAAAGATGCCACAGAGTTGTGGACTTTG-AA----G-A-AAAGGTGCCACGGAGTTGTGGACTTT
2289345 --A-A
59 GAAGA
* * * *
2289347 AAGAGATGCCACAAAGTTGTGGACTTTGAAGAAAAATGTGCCATGGAGTTGTGGACTTTGAAGA
1 AAAAGATGCCACAGAGTTGTGGACTTTGAAG-AAAAGGTGCCACGGAGTTGTGGACTTTGAAGA
* * * *
2289411 AAAAGATGCCACAGAGTTGTGGAC-TT--A-AAAGGGTGCTAC-GACATTGTGCAC-TTGAA-A
1 AAAAGATGCCACAGAGTTGTGGACTTTGAAGAAAAGGTGCCACGGA-GTTGTGGACTTTGAAGA
* *
2289468 AAAAGGTGCCACAGAGTTATGGACTTT-AA-AAAAGG
1 AAAAGATGCCACAGAGTTGTGGACTTTGAAGAAAAGG
2289503 GTGGTTTACT
Statistics
Matches: 528, Mismatches: 86, Indels: 81
0.76 0.12 0.12
Matches are distributed among these distances:
57 84 0.16
58 37 0.07
59 26 0.05
60 22 0.04
61 66 0.12
62 16 0.03
63 60 0.11
64 141 0.27
65 2 0.00
66 25 0.05
67 26 0.05
68 2 0.00
69 21 0.04
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.24
Consensus pattern (63 bp):
AAAAGATGCCACAGAGTTGTGGACTTTGAAGAAAAGGTGCCACGGAGTTGTGGACTTTGAAGA
Found at i:2288936 original size:58 final size:58
Alignment explanation
Indices: 2288617--2288967 Score: 199
Period size: 58 Copynumber: 6.0 Consensus size: 58
2288607 TGGGCTTTTG
* * * * *
2288617 AGAGGTGCCAC-AAACTTGTGGGCTTTGAAAATATGCCAC-AGACTTGTGGGCTTTGAAA
1 AGAGATGCCACGAAA-TTGTGGGCTTTAAAAAGATGCCACGAGAGTTGTGGACTTT-AAA
* * * * * *
2288675 AG-G-TGCCACTG-ACTTGTAGGCTTTAAAAGGATATGCCACTA-ACTTGTGGGCTTTAAA
1 AGAGATGCCAC-GAAATTGTGGGCTTTAAAA--AGATGCCACGAGAGTTGTGGACTTTAAA
* * * * * *
2288732 AGGATATGCCACTAACTTGTGGGCTTTAAAAAGGTGCCACTGACA--TGTGGGCTTT-AA
1 A-GAGATGCCACGAAATTGTGGGCTTTAAAAAGATGCCAC-GAGAGTTGTGGACTTTAAA
* * * * *
2288789 A-AGATGCCACGGAGTTGTGGACTTTGAAGAAAATGTTGCCA-AAGAGTTGTGGACTTTGAAGAA
1 AGAGATGCCACGAAATTGTGGGCTTT--A-AAAA-GATGCCACGAGAGTTGTGGACTTT--A-AA
* * * *
2288852 AAATATGCCAC-AGAGTTGTGGACTTTAAAAGAGATGCCACGA-AGTTGTGGACTTTAAA
1 AGAGATGCCACGA-AATTGTGGGCTTTAAAA-AGATGCCACGAGAGTTGTGGACTTTAAA
* * *
2288910 AGAGATGCCACGAAATTGTGGGCTTTAAAAAGGTGCCATG-GAGTTGTAGACTTTAAA
1 AGAGATGCCACGAAATTGTGGGCTTTAAAAAGATGCCACGAGAGTTGTGGACTTTAAA
2288967 A
1 A
2288968 AGGGTGCCAC
Statistics
Matches: 237, Mismatches: 29, Indels: 55
0.74 0.09 0.17
Matches are distributed among these distances:
55 19 0.08
56 19 0.08
57 36 0.15
58 72 0.30
59 19 0.08
60 23 0.10
61 22 0.09
62 3 0.01
63 3 0.01
64 21 0.09
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.27
Consensus pattern (58 bp):
AGAGATGCCACGAAATTGTGGGCTTTAAAAAGATGCCACGAGAGTTGTGGACTTTAAA
Found at i:2288997 original size:57 final size:57
Alignment explanation
Indices: 2288707--2288997 Score: 171
Period size: 57 Copynumber: 5.0 Consensus size: 57
2288697 TTAAAAGGAT
* * * * * ** * *
2288707 ATGCCACTAACTTGTGGGCTTTAAAAGGATATGCCACTAACTTGTGGGCTTTAAAAAG
1 ATGCCACGAAGTTGTAGACTTTAAAA-GAGATGCCACGGAGTTGTGGACTTTAAAAAG
* * *
2288765 GTGCCACTGACA--TGTGGGCTTT-AAA-AGATGCCACGGAGTTGTGGACTTTGAAGAAAATG
1 ATGCCAC-GA-AGTTGTAGACTTTAAAAGAGATGCCACGGAGTTGTGGACTTT--A-AAAA-G
* * * * * *
2288824 TTGCCA-AAGAGTTGTGGACTTTGAAGAAAAATATGCCACAGAGTTGTGGACTTTAAAAGAG
1 ATGCCACGA-AGTTGTAGACTTT--A-AAAGAGATGCCACGGAGTTGTGGACTTTAAAA-AG
* * * *
2288885 ATGCCACGAAGTTGTGGACTTTAAAAGAGATGCCACGAAATTGTGGGCTTTAAAAAG
1 ATGCCACGAAGTTGTAGACTTTAAAAGAGATGCCACGGAGTTGTGGACTTTAAAAAG
* * * * * *
2288942 GTGCCATGGAGTTGTAGACTTTAAAA-AGGGTGCCACGGAGTTATGGACTTCAAAAA
1 ATGCCACGAAGTTGTAGACTTTAAAAGA-GATGCCACGGAGTTGTGGACTTTAAAAA
2288998 AAGAAAAGGT
Statistics
Matches: 186, Mismatches: 31, Indels: 33
0.74 0.12 0.13
Matches are distributed among these distances:
55 19 0.10
56 1 0.01
57 52 0.28
58 46 0.25
59 17 0.09
60 1 0.01
61 22 0.12
62 3 0.02
63 3 0.02
64 22 0.12
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.26
Consensus pattern (57 bp):
ATGCCACGAAGTTGTAGACTTTAAAAGAGATGCCACGGAGTTGTGGACTTTAAAAAG
Found at i:2289035 original size:31 final size:31
Alignment explanation
Indices: 2288998--2289502 Score: 290
Period size: 32 Copynumber: 16.3 Consensus size: 31
2288988 ACTTCAAAAA
* * *
2288998 AAGAAAAGGTTCCACGGATTTGTGAACTTTG
1 AAGAAAAGGTGCCACAGAGTTGTGAACTTTG
* * *
2289029 AAGAAAAAGGTGTCATAGAGTTGTGGACTTT-
1 AAG-AAAAGGTGCCACAGAGTTGTGAACTTTG
* * *
2289060 AAAAAAAGGATGCCATAGAGTTGTGGACTTTG
1 AAGAAAAGG-TGCCACAGAGTTGTGAACTTTG
2289092 AAGAAAAAGGTGCCACAGAGTTGTGAACTTTG
1 AAG-AAAAGGTGCCACAGAGTTGTGAACTTTG
* *
2289124 AAGAAAAGGGTGCCACAGAGTTGTGGACTTTTA
1 AAGAAAA-GGTGCCACAGAGTTGTGAAC-TTTG
* * *
2289157 AAAAAAATGG-GCCACAAAGTTGTGGACTTT-
1 AAGAAAA-GGTGCCACAGAGTTGTGAACTTTG
* *
2289187 -AG-AAAGGTGCCACAGAGTTATGGACTTT-
1 AAGAAAAGGTGCCACAGAGTTGTGAACTTTG
* * ** *
2289215 AA-AAGAGATGCCATGGAGTTGTGGACTTTG
1 AAGAAAAGGTGCCACAGAGTTGTGAACTTTG
* ** * *
2289245 AAGAAAAAGGTACCATGGAATTGTGGACTTTG
1 AAG-AAAAGGTGCCACAGAGTTGTGAACTTTG
* * *
2289277 AAGAAAAAGATGCCACGGAGTTGTGGAC-TTG
1 AAG-AAAAGGTGCCACAGAGTTGTGAACTTTG
* *
2289308 AAAGGGTGTAGAAAGGTGCCACGGAGTTATGAACTTT-
1 -AA----G-A-AAAGGTGCCACAGAGTTGTGAACTTTG
* * * *
2289345 AA-AAGAGATGCCACAAAGTTGTGGACTTTG
1 AAGAAAAGGTGCCACAGAGTTGTGAACTTTG
* ** *
2289375 AAGAAAAATGTGCCATGGAGTTGTGGACTTTG
1 AAG-AAAAGGTGCCACAGAGTTGTGAACTTTG
* *
2289407 AAGAAAAAGATGCCACAGAGTTGTGGAC-TT-
1 AAG-AAAAGGTGCCACAGAGTTGTGAACTTTG
* * * *
2289437 -A-AAAGGGTGCTAC-GACATTGTGCAC-TTG
1 AAGAAAAGGTGCCACAGA-GTTGTGAACTTTG
* * *
2289465 AAAAAAAGGTGCCACAGAGTTATGGACTTT-
1 AAGAAAAGGTGCCACAGAGTTGTGAACTTTG
2289495 AA-AAAAGG
1 AAGAAAAGG
2289503 GTGGTTTACT
Statistics
Matches: 384, Mismatches: 62, Indels: 58
0.76 0.12 0.12
Matches are distributed among these distances:
26 2 0.01
27 20 0.05
28 21 0.05
29 51 0.13
30 29 0.08
31 41 0.11
32 177 0.46
33 17 0.04
36 4 0.01
37 20 0.05
38 2 0.01
ACGTcount: A:0.36, C:0.12, G:0.29, T:0.24
Consensus pattern (31 bp):
AAGAAAAGGTGCCACAGAGTTGTGAACTTTG
Found at i:2289375 original size:251 final size:245
Alignment explanation
Indices: 2288787--2289446 Score: 631
Period size: 251 Copynumber: 2.6 Consensus size: 245
2288777 TGTGGGCTTT
* * * * * * *
2288787 AAAAGATGCCACGGAGTTGTGGACTTTGAAGAAAATGTTGCCAAAGAGTTGTGGACTTTGAAGAA
1 AAAAGATGCCACAGAGTTGTGGAC-TTGAAAAAAAGGATGCCACAGAGTTATGAACTTT-AAGAA
* * * * *
2288852 AAATATGCCACAGAGTTGTGGACTTT-AA-AAGAGATGCCACGAAGTTGTGGAC-TTTAAAAGAG
64 AAAGATGCCACAGAGTTGTGGACTTTGAAGAAAAGGTGCCACG-AGTTGTGGACTTTTAAAAAAA
* ** * *
2288914 ATGCCACGAAA-TTGTGGGCTTTAAAAAGGTGCCATGGAGTTGTAGACTTTAAAAAGGGTGCCAC
128 ATGCCAC-AAAGTTGTGGACTTTAAAAAGGTGCCACAGAGTTATAGACTTTAAAAAGGATGCCAC
* *
2288978 GGAGTTATGGACTTCAAAAAAAGAAAAGGTTCCACGGATTTGTGAACTTTGAAGA
192 GGAGTTATGGACTT-AAAAAAAGAAAAGGTACCACGGAATTGTGAACTTTGAAGA
* * * * * * *
2289033 AAAAGGTGTCATAGAGTTGTGGACTTTAAAAAAAGGATGCCATAGAGTTGTGGACTTTGAAGAAA
1 AAAAGATGCCACAGAGTTGTGGACTTGAAAAAAAGGATGCCACAGAGTTATGAACTTT-AAGAAA
* *
2289098 AAGGTGCCACAGAGTTGTGAACTTTGAAGAAAAGGGTGCCACAGAGTTGTGGACTTTTAAAAAAA
65 AAGATGCCACAGAGTTGTGGACTTTGAAGAAAA-GGTGCCAC-GAGTTGTGGACTTTTAAAAAAA
* *
2289163 ATGGGCCACAAAGTTGTGGACTTTAGAAAGGTGCCACAGAGTTATGGACTTT-AAAAGAGATGCC
128 AT--GCCACAAAGTTGTGGACTTTAAAAAGGTGCCACAGAGTTATAGACTTTAAAAAG-GATGCC
* * ** * * *
2289227 ATGGAGTTGTGGACTT-TGAAGA-AAAAGGTACCATGGAATTGTGGACTTTGAAGA
190 ACGGAGTTATGGACTTAAAAAAAGAAAAGGTACCACGGAATTGTGAACTTTGAAGA
* *
2289281 AAAAGATGCCACGGAGTTGTGGACTTGAAAGGGTGTAGAAAGG-TGCCACGGAGTTATGAACTTT
1 AAAAGATGCCACAGAGTTGTGGACTTGAAA------A-AAAGGATGCCACAGAGTTATGAACTTT
* * * * *
2289345 -A-AAAGAGATGCCACAAAGTTGTGGACTTTGAAGAAAAATGTGCCATGGAGTTGTGGACTTTGA
59 AAGAAAAAGATGCCACAGAGTTGTGGACTTTGAAG-AAAAGGTGCCA-CGAGTTGTGGACTTTTA
* *
2289408 AGAAAAAGATGCCACAGAGTTGTGGAC-TTAAAAGGGTGC
122 A-AAAAA-ATGCCACAAAGTTGTGGACTTTAAAAAGGTGC
2289447 TACGACATTG
Statistics
Matches: 343, Mismatches: 51, Indels: 36
0.80 0.12 0.08
Matches are distributed among these distances:
245 58 0.17
246 22 0.06
247 3 0.01
248 70 0.20
249 14 0.04
250 18 0.05
251 123 0.36
252 10 0.03
253 2 0.01
254 18 0.05
255 5 0.01
ACGTcount: A:0.35, C:0.12, G:0.29, T:0.24
Consensus pattern (245 bp):
AAAAGATGCCACAGAGTTGTGGACTTGAAAAAAAGGATGCCACAGAGTTATGAACTTTAAGAAAA
AGATGCCACAGAGTTGTGGACTTTGAAGAAAAGGTGCCACGAGTTGTGGACTTTTAAAAAAAATG
CCACAAAGTTGTGGACTTTAAAAAGGTGCCACAGAGTTATAGACTTTAAAAAGGATGCCACGGAG
TTATGGACTTAAAAAAAGAAAAGGTACCACGGAATTGTGAACTTTGAAGA
Found at i:2289419 original size:130 final size:130
Alignment explanation
Indices: 2289186--2289445 Score: 430
Period size: 130 Copynumber: 2.0 Consensus size: 130
2289176 TTGTGGACTT
* ***
2289186 TAGAAAGGTGCCACAGAGTTATGGACTTTAAAAGAGATGCCATGGAGTTGTGGACTTTGAAGAAA
1 TAGAAAGGTGCCACAGAGTTATGAACTTTAAAAGAGATGCCACAAAGTTGTGGACTTTGAAGAAA
* *
2289251 AAGGTACCATGGAATTGTGGACTTTGAAGAAAAAGATGCCACGGAGTTGTGGACTTGAAAGGGTG
66 AAGGTACCATGGAATTGTGGACTTTGAAGAAAAAGATGCCACAGAGTTGTGGACTTAAAAGGGTG
*
2289316 TAGAAAGGTGCCACGGAGTTATGAACTTTAAAAGAGATGCCACAAAGTTGTGGACTTTGAAGAAA
1 TAGAAAGGTGCCACAGAGTTATGAACTTTAAAAGAGATGCCACAAAGTTGTGGACTTTGAAGAAA
* * *
2289381 AATGTGCCATGGAGTTGTGGACTTTGAAGAAAAAGATGCCACAGAGTTGTGGACTTAAAAGGGTG
66 AAGGTACCATGGAATTGTGGACTTTGAAGAAAAAGATGCCACAGAGTTGTGGACTTAAAAGGGTG
2289446 CTACGACATT
Statistics
Matches: 120, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 120 1.00
ACGTcount: A:0.35, C:0.11, G:0.30, T:0.24
Consensus pattern (130 bp):
TAGAAAGGTGCCACAGAGTTATGAACTTTAAAAGAGATGCCACAAAGTTGTGGACTTTGAAGAAA
AAGGTACCATGGAATTGTGGACTTTGAAGAAAAAGATGCCACAGAGTTGTGGACTTAAAAGGGTG
Found at i:2294375 original size:20 final size:20
Alignment explanation
Indices: 2294350--2294398 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
2294340 CTGAAAAATG
2294350 TAGCTGAAAGCAAAAGTCTT
1 TAGCTGAAAGCAAAAGTCTT
2294370 TAGCTGAAAGCAAAAGTCTT
1 TAGCTGAAAGCAAAAGTCTT
2294390 TAGCTGAAA
1 TAGCTGAAA
2294399 ATGGATTGGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.24
Consensus pattern (20 bp):
TAGCTGAAAGCAAAAGTCTT
Found at i:2294883 original size:40 final size:40
Alignment explanation
Indices: 2294839--2294916 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
2294829 AAAACCCAAA
*
2294839 ATGTATCGATAAAATGAGAAATGTATCGATACAATTTCTT
1 ATGTATCGATAAAATGAAAAATGTATCGATACAATTTCTT
* *
2294879 ATGTATCGATATATTGAAAAATGTATCGATACAATTTC
1 ATGTATCGATAAAATGAAAAATGTATCGATACAATTTC
2294917 CTTCCAGAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (40 bp):
ATGTATCGATAAAATGAAAAATGTATCGATACAATTTCTT
Found at i:2294963 original size:21 final size:21
Alignment explanation
Indices: 2294939--2294993 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 21
2294929 CACATGGTCT
*
2294939 TGTATTGATACATTTCAGGCA
1 TGTATTGATACATTTCACGCA
* * **
2294960 TGTATCGATAC-TTTTACTTA
1 TGTATTGATACATTTCACGCA
2294980 TGTATTGATACATT
1 TGTATTGATACATT
2294994 GCCTTATTGT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.27, C:0.13, G:0.15, T:0.45
Consensus pattern (21 bp):
TGTATTGATACATTTCACGCA
Found at i:2295010 original size:21 final size:20
Alignment explanation
Indices: 2294959--2295012 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
2294949 CATTTCAGGC
* *
2294959 ATGTATCGATACTTTTACTT
1 ATGTATCGATACATTGACTT
* *
2294979 ATGTATTGATACATTGCCTT
1 ATGTATCGATACATTGACTT
2294999 ATTGTATCGATACA
1 A-TGTATCGATACA
2295013 AATTATTGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTGACTT
Found at i:2297485 original size:52 final size:52
Alignment explanation
Indices: 2297423--2297562 Score: 174
Period size: 52 Copynumber: 2.7 Consensus size: 52
2297413 TATGAAAAGA
* * * *
2297423 AAATGTATCGATACATTTTTCTTTGTATCAATACTTTTTGGGTTTTTTACCC
1 AAATGTATCGATACATTTTTCATTATATCAATACATTCTGGGTTTTTTACCC
* *
2297475 AAATGTATCGATAAATTTTTCATTATATCGATACATTCTGGGTTTTTTACCC
1 AAATGTATCGATACATTTTTCATTATATCAATACATTCTGGGTTTTTTACCC
* * * *
2297527 AAATGTA-CTGATACATTCTTCAATGTATCGATACAT
1 AAATGTATC-GATACATTTTTCATTATATCAATACAT
2297563 GCCAGTAATT
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
51 1 0.01
52 76 0.99
ACGTcount: A:0.29, C:0.16, G:0.11, T:0.44
Consensus pattern (52 bp):
AAATGTATCGATACATTTTTCATTATATCAATACATTCTGGGTTTTTTACCC
Found at i:2297868 original size:13 final size:13
Alignment explanation
Indices: 2297838--2297862 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2297828 TAGCATTAAT
2297838 CTCAGCCACCTTA
1 CTCAGCCACCTTA
2297851 CTCAGCCACCTT
1 CTCAGCCACCTT
2297863 TGTCAGTAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.48, G:0.08, T:0.24
Consensus pattern (13 bp):
CTCAGCCACCTTA
Found at i:2300014 original size:92 final size:94
Alignment explanation
Indices: 2299843--2300075 Score: 301
Period size: 92 Copynumber: 2.5 Consensus size: 94
2299833 ATTTTTGGTT
* * * ** * * *
2299843 AAAAAACGGGGA-TGGACTGTCCCCTCGGAGGAATGGGGTTGGAGTGCCCTCGACAATAATAATT
1 AAAAAAC-GGGATTGGAGTATCCCCTCAGAATAATGGGGTTGGAGT-CCCT-AATAACAATAATT
* * *
2299907 TAGGTAAAAGTAAAAATGATCTTGACAAGTTC
63 TAGGTAAAAGTAAAAATAATCCTAACAAGTTC
*
2299939 -AAAAACGGGATTGGAGTATCCCTTCAGAATAAT-GGGTTGGAGTCCCTAATAACAATAATTTAG
1 AAAAAACGGGATTGGAGTATCCCCTCAGAATAATGGGGTTGGAGTCCCTAATAACAATAATTTAG
2300002 GTAAAAGTAAAAATAATCCTAACAAGTTC
66 GTAAAAGTAAAAATAATCCTAACAAGTTC
*
2300031 AAAAAACGGGGTTGGAGTATCCCCTCAGAATAATGGGGTTGGAGT
1 AAAAAACGGGATTGGAGTATCCCCTCAGAATAATGGGGTTGGAGT
2300076 ATCCCCGATG
Statistics
Matches: 120, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
92 39 0.32
93 35 0.29
94 24 0.20
95 22 0.18
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (94 bp):
AAAAAACGGGATTGGAGTATCCCCTCAGAATAATGGGGTTGGAGTCCCTAATAACAATAATTTAG
GTAAAAGTAAAAATAATCCTAACAAGTTC
Found at i:2300785 original size:8 final size:8
Alignment explanation
Indices: 2300769--2300798 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
2300759 ATGGGAAAAA
2300769 TACTGAGC
1 TACTGAGC
*
2300777 TACTAAGC
1 TACTGAGC
2300785 TACTGAGC
1 TACTGAGC
2300793 TACTGA
1 TACTGA
2300799 TTTTAAAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (8 bp):
TACTGAGC
Found at i:2302348 original size:13 final size:13
Alignment explanation
Indices: 2302330--2302354 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2302320 ACAAAACTTA
2302330 TGTATCGATACAT
1 TGTATCGATACAT
2302343 TGTATCGATACA
1 TGTATCGATACA
2302355 AATTGTAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2307286 original size:13 final size:13
Alignment explanation
Indices: 2307268--2307319 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
2307258 AGCTTCGTAG
2307268 CGATACATTGTAT
1 CGATACATTGTAT
2307281 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
2307300 CGATACATTGTAT
1 CGATACATTGTAT
2307313 CGATACA
1 CGATACA
2307320 AATTGTTGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:2315628 original size:28 final size:27
Alignment explanation
Indices: 2315579--2315634 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 27
2315569 GATAACTTTT
*
2315579 CGTTACCCACATTGATACTCTGGTAGA
1 CGTTACCCACATTAATACTCTGGTAGA
*
2315606 CGTTACCCTATATTAATACTCTGGTAGA
1 CGTTACCC-ACATTAATACTCTGGTAGA
2315634 C
1 C
2315635 AACACAACCA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 8 0.31
28 18 0.69
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (27 bp):
CGTTACCCACATTAATACTCTGGTAGA
Found at i:2318854 original size:25 final size:25
Alignment explanation
Indices: 2318825--2318875 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
2318815 AAGGACCAAA
2318825 AAAGGATTTTAAAAGGGATGAAACT
1 AAAGGATTTTAAAAGGGATGAAACT
2318850 AAAGGATTTTAAAAGGGATGAAACT
1 AAAGGATTTTAAAAGGGATGAAACT
2318875 A
1 A
2318876 TCCTAAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.49, C:0.04, G:0.24, T:0.24
Consensus pattern (25 bp):
AAAGGATTTTAAAAGGGATGAAACT
Found at i:2319744 original size:168 final size:165
Alignment explanation
Indices: 2319408--2319849 Score: 537
Period size: 168 Copynumber: 2.6 Consensus size: 165
2319398 TCCAATTTAC
* * * * * *
2319408 AAAAATCCATTTTGAACCTTAATGGAATTCCGGAAAGATATGAAAAGTTTTTAAAATCTTTTATA
1 AAAAATACATTTTGTACCTTAATGGAAGTCCGAAAAGATACGAAAAGTTTTTGAAATCTTTTATA
* * **
2319473 CCCCTACGGACCCCCATAGGAATATTAAAGATTTAAAAAGAAAGATTTAAAATTTATCTTGGTTA
66 CCCCTACGGACCCCCATAGGAATATAAAAGA-TTAAAAA-AATGATTTAAAATTTATCTTAATTA
* * **
2319538 TGAAAGTGTTGATTTAATTTAATTTTATTTGGTTTCG
129 TGAAAGTATTAATTTAATTTAATTTTATTCAGTTTCG
* * *
2319575 AAAAATACAATTTTGTACCTTAATGGAAGCCCAAAAAGATACGAAAATTTTTTGAAATCTTTTAT
1 AAAAATAC-ATTTTGTACCTTAATGGAAGTCCGAAAAGATACGAAAAGTTTTTGAAATCTTTTAT
*
2319640 ACCCCTACGGACCCCCATAGGAATATAAAAGATTAAAAAAATGA-TTAATATTTAT-TTCAATTA
65 ACCCCTACGGACCCCCATAGGAATATAAAAGATTAAAAAAATGATTTAAAATTTATCTT-AATTA
* *
2319703 TGAAAGTATTAATTTAATTTTATTTATTTATTCATTTTCG
129 TGAAAGTATTAATTTAA-TTTA-AT-TTTATTCAGTTTCG
* * *
2319743 AAAAATATCATTTCGTACCTTAATGAAAGTTCGAAAAGATACGAAAAGTTTTTGAAATCTTTTAT
1 AAAAATA-CATTTTGTACCTTAATGGAAGTCCGAAAAGATACGAAAAGTTTTTGAAATCTTTTAT
* ** * * *
2319808 ACCCCTACGAATGCCTATAGGAATATGAAAGATTTAAAAAAT
65 ACCCCTACGGACCCCCATAGGAATATAAAAGATTAAAAAAAT
2319850 AACAACCATG
Statistics
Matches: 237, Mismatches: 32, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
164 2 0.01
165 28 0.12
166 8 0.03
167 15 0.06
168 183 0.77
169 1 0.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (165 bp):
AAAAATACATTTTGTACCTTAATGGAAGTCCGAAAAGATACGAAAAGTTTTTGAAATCTTTTATA
CCCCTACGGACCCCCATAGGAATATAAAAGATTAAAAAAATGATTTAAAATTTATCTTAATTATG
AAAGTATTAATTTAATTTAATTTTATTCAGTTTCG
Found at i:2321451 original size:165 final size:163
Alignment explanation
Indices: 2321167--2321885 Score: 609
Period size: 166 Copynumber: 4.4 Consensus size: 163
2321157 CAATATATAT
* * * * ** ** * *
2321167 AAAAAATTCAAAATTAAT-GAAATAAATTAAATTTTTCAAAACTGAATTAATGGGAGCTCAATGA
1 AAAAAATTCAAAATTTATGGAAATGAA-TGAATTTTTAAAAACTGAATTAATATGAAATAAATAA
* * * ** * * *
2321231 CAATATTAT-ATGAATTCTAAAAATTTTAAA-CAGAGAAAAATTCTCCCCAAAAAA-TTACGGAG
65 TAATATT-TGATAAATTTTAAAAA-TAAAAACCA-AGAAAAATCCTCTCAAAAAAATTTACGGAG
* *
2321293 AAGAAAACTCGGTTTCTTGGAAAAGAGGATTTTCGAAGA
127 AAGAAAACTCGGTTTC-TGGAAAAAAGGAATTTC-AAGA
* * * * * * * *
2321332 AAAAAATTCAAAACTCATGAAAATGAATTTATTTTTTTAAAATTGATTTAATATGAAATAAATAA
1 AAAAAATTCAAAATTTATGGAAATGAA-TGAATTTTTAAAAACTGAATTAATATGAAATAAATAA
* * ** * * **
2321397 TAATATTTGATAAATTTTAAAAATAAAGAACTAAGATAAATTTTCTCGAAAAATTTTACAAAGTA
65 TAATATTTGATAAATTTTAAAAATAAA-AACCAAGAAAAATCCTCTCAAAAAAATTTACGGAG-A
2321462 A-AAAACTCTGTGTTTC-GGAAAAAAGGAAATTTCAAGA
128 AGAAAACTC-G-GTTTCTGGAAAAAAGG-AATTTCAAGA
* *
2321499 AAAAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAACTGAATTACTATGAAATAAATAAT
1 AAAAAATTCAAAATTTATGGAAATGAATGAATTTTTAAAAACTGAATTAATATGAAATAAATAAT
* *
2321564 AATATTTGATAAATTTTAAAAATTTAAAACCAAGAAAAATCCTCTCAAAAAAATTTACGGAGTAG
66 AATATTTGATAAATTTTAAAAA-TAAAAACCAAGAAAAATCCTCTCAAAAAAATTTACGGAGAAG
* *
2321629 AAAACTCCGTATT-TCGAAAAAAAGAGAATTTCAA-A
130 AAAACTCGGT-TTCT-GGAAAAAAG-GAATTTCAAGA
* * **
2321664 GAAAAATTTAAAATTTATGGAAATGAATGAATTTTTAAAAACAAAATTAATATGAAATAAATAAT
1 AAAAAATTCAAAATTTATGGAAATGAATGAATTTTTAAAAACTGAATTAATATGAAATAAATAAT
* * * *
2321729 AATATTTGATAAATTTTAAAAATCAAAAA-AAAGAAAAATCCCCT-TAAAAAATTTACGGAGTAG
66 AATATTTGATAAATTTTAAAAAT-AAAAACCAAGAAAAATCCTCTCAAAAAAATTTACGGAGAAG
* * * * * * *
2321792 AAATCTCCGTATGTC-AGAAAAAGGAGAATTTTAGGG
130 AAAACTCGGT-T-TCTGGAAAAAAG-GAATTTCAAGA
* * *
2321828 AAAAAATAT-AAAATTCATGGAAATGAAAGAATTTTTGAAAAA-TGATTTAATATGAAAT
1 AAAAAAT-TCAAAATTTATGGAAATGAATGAATTTTT-AAAAACTGAATTAATATGAAAT
2321886 TTAAAAATTA
Statistics
Matches: 459, Mismatches: 74, Indels: 43
0.80 0.13 0.07
Matches are distributed among these distances:
163 43 0.09
164 61 0.13
165 114 0.25
166 173 0.38
167 55 0.12
168 8 0.02
169 5 0.01
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.30
Consensus pattern (163 bp):
AAAAAATTCAAAATTTATGGAAATGAATGAATTTTTAAAAACTGAATTAATATGAAATAAATAAT
AATATTTGATAAATTTTAAAAATAAAAACCAAGAAAAATCCTCTCAAAAAAATTTACGGAGAAGA
AAACTCGGTTTCTGGAAAAAAGGAATTTCAAGA
Found at i:2321573 original size:166 final size:165
Alignment explanation
Indices: 2321313--2321885 Score: 620
Period size: 166 Copynumber: 3.5 Consensus size: 165
2321303 GGTTTCTTGG
* * * * * * * *
2321313 AAAAGAGGATTTTCGAAGAAAAAAATTCAAAACTCATGAAAATGAATTTATTTTTTTAAAATTGA
1 AAAAGA-GAATTTC-AAGAAAAAAATTCAAAATTTATGGAAATGAA-TGAATTTTTAAAAACTGA
* * * **
2321378 TTTAATATGAAATAAATAATAATATTTGATAAATTTTAAAAATAAAGAACTAAGATAAATTTTCT
63 ATTAATATGAAATAAATAATAATATTTGATAAATTTTAAAAATAAA-AACCAAGAAAAATCCTCT
* * * * *
2321443 CGAAAAATTTTACAAAGTAAAAAACTCTGTGTTTCGGAA
127 CAAAAAAATTTACAAAGTAAAAAACTCCGTATTTCGAAA
*
2321482 AAAAG-GAAATTTCAAGAAAAAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAACTGAAT
1 AAAAGAG-AATTTCAAGAAAAAAATTCAAAATTTATGGAAATGAATGAATTTTTAAAAACTGAAT
* *
2321546 TACTATGAAATAAATAATAATATTTGATAAATTTTAAAAATTTAAAACCAAGAAAAATCCTCTCA
65 TAATATGAAATAAATAATAATATTTGATAAATTTTAAAAA-TAAAAACCAAGAAAAATCCTCTCA
** *
2321611 AAAAAATTTACGGAGTAGAAAACTCCGTATTTCGAAA
129 AAAAAATTTACAAAGTAAAAAACTCCGTATTTCGAAA
* * **
2321648 AAAAGAGAATTTCAA-AGAAAAATTTAAAATTTATGGAAATGAATGAATTTTTAAAAACAAAATT
1 AAAAGAGAATTTCAAGAAAAAAATTCAAAATTTATGGAAATGAATGAATTTTTAAAAACTGAATT
* * *
2321712 AATATGAAATAAATAATAATATTTGATAAATTTTAAAAATCAAAAA-AAAGAAAAATCCCCT-TA
66 AATATGAAATAAATAATAATATTTGATAAATTTTAAAAAT-AAAAACCAAGAAAAATCCTCTCAA
** * * *
2321775 AAAAATTTACGGAGTAGAAATCTCCGTATGTC-AGAA
130 AAAAATTTACAAAGTAAAAAACTCCGTATTTCGA-AA
* * * * * * *
2321811 AAAGGAGAATTTTAGGGAAAAAATAT-AAAATTCATGGAAATGAAAGAATTTTTGAAAAA-TGAT
1 AAAAGAGAATTTCAAGAAAAAAAT-TCAAAATTTATGGAAATGAATGAATTTTT-AAAAACTGAA
2321874 TTAATATGAAAT
64 TTAATATGAAAT
2321886 TTAAAAATTA
Statistics
Matches: 351, Mismatches: 45, Indels: 21
0.84 0.11 0.05
Matches are distributed among these distances:
162 1 0.00
163 45 0.13
164 58 0.17
165 92 0.26
166 112 0.32
167 33 0.09
168 5 0.01
169 5 0.01
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.30
Consensus pattern (165 bp):
AAAAGAGAATTTCAAGAAAAAAATTCAAAATTTATGGAAATGAATGAATTTTTAAAAACTGAATT
AATATGAAATAAATAATAATATTTGATAAATTTTAAAAATAAAAACCAAGAAAAATCCTCTCAAA
AAAATTTACAAAGTAAAAAACTCCGTATTTCGAAA
Found at i:2323128 original size:60 final size:58
Alignment explanation
Indices: 2323049--2323490 Score: 319
Period size: 60 Copynumber: 7.5 Consensus size: 58
2323039 AATCAAGTGA
* * * * *
2323049 GGTAAGATTTCATCAAGTATCGTAAAATGAAGAAACACTTGACCAAATATAGTCCAACAG
1 GGTAAGATTTGATCGAGTATAGTCAAATGAAGAAA-ACTTGACCAAATATAGT-CAAGAG
* ** * * * *
2323109 GGTAAGATTTGATCGAGTATAGTCAAATGAGGACAGTCTTGACCGAATACAGTTAAAAAG
1 GGTAAGATTTGATCGAGTATAGTCAAATGAAGA-AAACTTGACCAAATATAG-TCAAGAG
* * *
2323169 GGTAAAATTTGA-CTGAGTATAGTCAAATGAGGAAAGACTTGATCAAATATAGTCAAGAG
1 GGTAAGATTTGATC-GAGTATAGTCAAATGAAGAAA-ACTTGACCAAATATAGTCAAGAG
* * * * * * * * *
2323228 GAGTAAGATTTTACCAAATATAGTCAAAT-AAGGATAAACTTTATCGAATACAATCAAGAGG
1 G-GTAAGATTTGATCGAGTATAGTCAAATGAA-GA-AAACTTGACCAAATATAGTCAAGA-G
* *
2323289 GGTAAAATTTGATCGAGTACAGTCAAAT-AAGGATAAACTTGACCAAATATAGTCAAGAGG
1 GGTAAGATTTGATCGAGTATAGTCAAATGAA-GA-AAACTTGACCAAATATAGTCAAGA-G
* * * *
2323349 GGTAAGATTTGACCGAG--TA--C-AA-GAA-AAAAATTGATCGAATATAGTCAAGAGG
1 GGTAAGATTTGATCGAGTATAGTCAAATGAAGAAAACTTGACCAAATATAGTCAAGA-G
* * * * * *
2323401 GGTAAAATTTGACCGAGTATAGTCAAATGAGGATAAACTTGATCGAATATAGTCAAAAG
1 GGTAAGATTTGATCGAGTATAGTCAAATGAAGA-AAACTTGACCAAATATAGTCAAGAG
* * *
2323460 GGATAAGATTTGACCAAGTACAGTCAAATGA
1 GG-TAAGATTTGATCGAGTATAGTCAAATGA
2323491 GGAAGGTCTT
Statistics
Matches: 311, Mismatches: 52, Indels: 38
0.78 0.13 0.09
Matches are distributed among these distances:
52 39 0.13
53 1 0.00
54 2 0.01
55 4 0.01
56 2 0.01
57 2 0.01
58 3 0.01
59 13 0.04
60 238 0.77
61 7 0.02
ACGTcount: A:0.43, C:0.12, G:0.21, T:0.24
Consensus pattern (58 bp):
GGTAAGATTTGATCGAGTATAGTCAAATGAAGAAAACTTGACCAAATATAGTCAAGAG
Found at i:2323250 original size:120 final size:118
Alignment explanation
Indices: 2323085--2323518 Score: 438
Period size: 120 Copynumber: 3.7 Consensus size: 118
2323075 ATGAAGAAAC
* * *
2323085 ACTTGACCAAATATAGTCCAACAGGGTAAGATTTGATCGAGTATAGTCAAATGAGGACAGTCTTG
1 ACTTGACCAAATATAGT-CAAGAGGGTAAGATTTGACCAAGTATAGTCAAATGAGGA-AGTCTTG
* * *
2323150 ACCGAATACAGTTAAAAAGGGTAAAATTTGACTGAGTATAGTCAAATGAGGA-AA
64 ACCGAATACAGTCAAGAGGGGTAAAATTTGACTGAGTATAGTCAAATGAGGATAA
* * * * **
2323204 GACTTGATCAAATATAGTCAAGAGGAGTAAGATTTTACCAAATATAGTCAAATAAGGATAAACTT
1 -ACTTGACCAAATATAGTCAAGAGG-GTAAGATTTGACCAAGTATAGTCAAATGAGGA-AGTCTT
* * * * *
2323269 TATCGAATACAATCAAGAGGGGTAAAATTTGA-TCGAGTACAGTCAAATAAGGATAA
63 GACCGAATACAGTCAAGAGGGGTAAAATTTGACT-GAGTATAGTCAAATGAGGATAA
* * *
2323325 ACTTGACCAAATATAGTCAAGAGGGGTAAGATTTGACCGAGTACAAG--AAA--A--AA--ATTG
1 ACTTGACCAAATATAGTCAAGA-GGGTAAGATTTGACCAAGTA-TAGTCAAATGAGGAAGTCTTG
* * *
2323382 ATCGAATATAGTCAAGAGGGGTAAAATTTGACCGAGTATAGTCAAATGAGGATAA
64 ACCGAATACAGTCAAGAGGGGTAAAATTTGACTGAGTATAGTCAAATGAGGATAA
* * * *
2323437 ACTTGATCGAATATAGTCAAAAGGGATAAGATTTGACCAAGTACAGTCAAATGAGGAAGGTCTTG
1 ACTTGACCAAATATAGTCAAGAGGG-TAAGATTTGACCAAGTATAGTCAAATGAGGAA-GTCTTG
* * *
2323502 ACTGATTACAGTAAAGA
64 ACCGAATACAGTCAAGA
2323519 AATGACGGTT
Statistics
Matches: 257, Mismatches: 41, Indels: 32
0.78 0.12 0.10
Matches are distributed among these distances:
111 5 0.02
112 86 0.33
113 3 0.01
114 1 0.00
115 2 0.01
117 3 0.01
119 10 0.04
120 141 0.55
121 6 0.02
ACGTcount: A:0.42, C:0.12, G:0.22, T:0.24
Consensus pattern (118 bp):
ACTTGACCAAATATAGTCAAGAGGGTAAGATTTGACCAAGTATAGTCAAATGAGGAAGTCTTGAC
CGAATACAGTCAAGAGGGGTAAAATTTGACTGAGTATAGTCAAATGAGGATAA
Found at i:2323361 original size:30 final size:30
Alignment explanation
Indices: 2323087--2323474 Score: 137
Period size: 30 Copynumber: 13.2 Consensus size: 30
2323077 GAAGAAACAC
* *
2323087 TTGACCAAATATAGTCCAACA-GGGTAAGAT
1 TTGACCGAATATAGT-CAAGAGGGGTAAGAT
* * *
2323117 TTGATCGAGTATAGTCAA-ATGAGG-ACAG-T
1 TTGACCGAATATAGTCAAGA-GGGGTA-AGAT
* * * * *
2323146 CTTGACCGAATACAGTTAAAAAGGGTAAAAT
1 -TTGACCGAATATAGTCAAGAGGGGTAAGAT
* * * * *
2323177 TTGACTGAGTATAGTCAA-ATGAGGAAAGAC
1 TTGACCGAATATAGTCAAGA-GGGGTAAGAT
* * *
2323207 TTGATCAAATATAGTCAAGAGGAGTAAGAT
1 TTGACCGAATATAGTCAAGAGGGGTAAGAT
* * * * *
2323237 TTTACCAAATATAGTCAAATAAGGATAA-ACT
1 TTGACCGAATATAGTC-AAGAGGGGTAAGA-T
* * * *
2323268 TT-ATCGAATACAATCAAGAGGGGTAAAAT
1 TTGACCGAATATAGTCAAGAGGGGTAAGAT
* * * * * * *
2323297 TTGATCGAGTACAGTCAAATAAGGATAA-AC
1 TTGACCGAATATAGTC-AAGAGGGGTAAGAT
*
2323327 TTGACCAAATATAGTCAAGAGGGGTAAGAT
1 TTGACCGAATATAGTCAAGAGGGGTAAGAT
* * * *
2323357 TTGACCG-A-GTA--CAAGA----AAAAAA
1 TTGACCGAATATAGTCAAGAGGGGTAAGAT
* *
2323379 TTGATCGAATATAGTCAAGAGGGGTAAAAT
1 TTGACCGAATATAGTCAAGAGGGGTAAGAT
* * *
2323409 TTGACCGAGTATAGTCAA-ATGAGGATAA-AC
1 TTGACCGAATATAGTCAAGA-G-GGGTAAGAT
* * *
2323439 TTGATCGAATATAGTCAAAAGGGATAAGAT
1 TTGACCGAATATAGTCAAGAGGGGTAAGAT
2323469 TTGACC
1 TTGACC
2323475 AAGTACAGTC
Statistics
Matches: 259, Mismatches: 72, Indels: 54
0.67 0.19 0.14
Matches are distributed among these distances:
22 9 0.03
23 1 0.00
24 2 0.01
26 10 0.04
28 3 0.01
29 33 0.13
30 173 0.67
31 28 0.11
ACGTcount: A:0.42, C:0.11, G:0.22, T:0.24
Consensus pattern (30 bp):
TTGACCGAATATAGTCAAGAGGGGTAAGAT
Found at i:2323467 original size:112 final size:112
Alignment explanation
Indices: 2323270--2323481 Score: 334
Period size: 112 Copynumber: 1.9 Consensus size: 112
2323260 GATAAACTTT
*
2323270 ATCGAATACAATCAAGAGGGGTAAAATTTGATCGAGTACAGTCAAATAAGGATAAACTTGACCAA
1 ATCGAATACAATCAAGAGGGGTAAAATTTGACCGAGTACAGTCAAATAAGGATAAACTTGACCAA
* * *
2323335 ATATAGTCAAGAGGGGTAAGATTTGACCGAGTACAAGAAAAAAATTG
66 ATATAGTCAAAAGGGATAAGATTTGACCAAGTACAAGAAAAAAATTG
* * * * * *
2323382 ATCGAATATAGTCAAGAGGGGTAAAATTTGACCGAGTATAGTCAAATGAGGATAAACTTGATCGA
1 ATCGAATACAATCAAGAGGGGTAAAATTTGACCGAGTACAGTCAAATAAGGATAAACTTGACCAA
2323447 ATATAGTCAAAAGGGATAAGATTTGACCAAGTACA
66 ATATAGTCAAAAGGGATAAGATTTGACCAAGTACA
2323482 GTCAAATGAG
Statistics
Matches: 90, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
112 90 1.00
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.23
Consensus pattern (112 bp):
ATCGAATACAATCAAGAGGGGTAAAATTTGACCGAGTACAGTCAAATAAGGATAAACTTGACCAA
ATATAGTCAAAAGGGATAAGATTTGACCAAGTACAAGAAAAAAATTG
Found at i:2323485 original size:30 final size:29
Alignment explanation
Indices: 2323388--2323487 Score: 94
Period size: 30 Copynumber: 3.3 Consensus size: 29
2323378 ATTGATCGAA
* * *
2323388 TATAGTCAAGAGGGGTAAAATTTGACCGAG
1 TATAGTCAAAAGGGAT-AAATTTGACCAAG
* * *
2323418 TATAGTCAAATGAGGATAAACTTGATCGAA-
1 TATAGTCAAAAG-GGATAAATTTGA-CCAAG
2323448 TATAGTCAAAAGGGATAAGATTTGACCAAG
1 TATAGTCAAAAGGGATAA-ATTTGACCAAG
*
2323478 TACAGTCAAA
1 TATAGTCAAA
2323488 TGAGGAAGGT
Statistics
Matches: 56, Mismatches: 10, Indels: 8
0.76 0.14 0.11
Matches are distributed among these distances:
29 9 0.16
30 42 0.75
31 5 0.09
ACGTcount: A:0.42, C:0.11, G:0.23, T:0.24
Consensus pattern (29 bp):
TATAGTCAAAAGGGATAAATTTGACCAAG
Found at i:2328752 original size:21 final size:19
Alignment explanation
Indices: 2328727--2328782 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
2328717 CGATTCTGGA
*
2328727 TGTATCGATACATTTTGAAAT
1 TGTATCGATACATTTT--AAG
*
2328748 TGTATCGATACATTCCTAAG
1 TGTATCGATACATT-TTAAG
2328768 TGTATCGATACATTT
1 TGTATCGATACATTT
2328783 GAAGGGTAGC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 16 0.52
21 14 0.45
22 1 0.03
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.41
Consensus pattern (19 bp):
TGTATCGATACATTTTAAG
Found at i:2331336 original size:19 final size:18
Alignment explanation
Indices: 2331308--2331376 Score: 63
Period size: 20 Copynumber: 3.8 Consensus size: 18
2331298 ATATCGAGAA
*
2331308 TGTATTGATACATTAAAAT
1 TGTATCGATACATT-AAAT
*
2331327 TGTATCGATACAGT--A-
1 TGTATCGATACATTAAAT
*
2331342 TGTATCGATACATCAAGCAT
1 TGTATCGATACATTAA--AT
2331362 TGTATCGATACATTA
1 TGTATCGATACATTA
2331377 TGAAAAAATC
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
15 12 0.30
16 1 0.03
19 13 0.32
20 14 0.35
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.36
Consensus pattern (18 bp):
TGTATCGATACATTAAAT
Found at i:2331371 original size:35 final size:34
Alignment explanation
Indices: 2331307--2331378 Score: 99
Period size: 35 Copynumber: 2.1 Consensus size: 34
2331297 AATATCGAGA
* *
2331307 ATGTATTGATACATTAAAATTGTATCGATACAGT
1 ATGTATCGATACATCAAAATTGTATCGATACAGT
* *
2331341 ATGTATCGATACATCAAGCATTGTATCGATACATT
1 ATGTATCGATACATCAA-AATTGTATCGATACAGT
2331376 ATG
1 ATG
2331379 AAAAAATCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
34 15 0.45
35 18 0.55
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (34 bp):
ATGTATCGATACATCAAAATTGTATCGATACAGT
Found at i:2337444 original size:20 final size:20
Alignment explanation
Indices: 2337374--2337428 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
2337364 CATTCACATA
* *
2337374 ATGTATCGATGCATTGCAAGT
1 ATGTATCGATACATTACAA-T
2337395 -TGTATCGATACATTACAAT
1 ATGTATCGATACATTACAAT
2337414 ATGTATCGATACATT
1 ATGTATCGATACATT
2337429 TTCATGTGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTACAAT
Found at i:2340105 original size:156 final size:154
Alignment explanation
Indices: 2339806--2340189 Score: 466
Period size: 156 Copynumber: 2.5 Consensus size: 154
2339796 GTTAAATTCA
* ** * *
2339806 AAAAAATTATGAAAATGCCTTTAAGGGATACCTTTGACATAAAAGTACCCGATACCCTTAAAGGA
1 AAAAAATTACGAAAATGCCCCTAAGGGATA-CTTTGACGTAAAAGTACCCGATACCCCTAAAGGA
** ** * *
2339871 CCAAAAAAGGATTTTAAAAGGGATGAACCTATCCTAAATACCTACCTTCGGCATAAAAGCGGACC
65 CTTAAAAAGGATGATAAAAGGAATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCGGACC
*
2339936 CGATGACAACCTAGGAATTAGTTCT
130 AGATGACAACCTAGGAATTAGTTCT
* * *
2339961 AAAGAATTACGAAAATGCCCCTAAGGGATACTTTCGACGTTAAAGTACCCGATACCCCTAAAAGA
1 AAAAAATTACGAAAATGCCCCTAAGGGATACTTT-GACGTAAAAGTACCCGATACCCCTAAAGGA
* * * * * *
2340026 CTTAAAAAGGATGATAGGATGGAATGGACCTATCCTAAATGCCCACCTTTGGCATAAAAGTGGAC
65 CTTAAAAAGGATGATA-AAAGGAATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCGGAC
*
2340091 CA-AGTGACAACCTAGGAGTTAGTTCT
129 CAGA-TGACAACCTAGGAATTAGTTCT
* * * *
2340117 AAAAAATTACGAAAATGCCCCT-AGAGGATTCCTTTAACGTAAAAGTACCCGGTATCCCTAAAGG
1 AAAAAATTACGAAAATGCCCCTAAG-GGA-TACTTTGACGTAAAAGTACCCGATACCCCTAAAGG
2340181 ACTTAAAAA
64 ACTTAAAAA
2340190 AAAGTATGGA
Statistics
Matches: 195, Mismatches: 29, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
154 4 0.02
155 67 0.34
156 119 0.61
157 5 0.03
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (154 bp):
AAAAAATTACGAAAATGCCCCTAAGGGATACTTTGACGTAAAAGTACCCGATACCCCTAAAGGAC
TTAAAAAGGATGATAAAAGGAATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCGGACCA
GATGACAACCTAGGAATTAGTTCT
Found at i:2340784 original size:167 final size:166
Alignment explanation
Indices: 2340462--2340861 Score: 538
Period size: 167 Copynumber: 2.4 Consensus size: 166
2340452 GGAACTCCGG
* * * * *
2340462 AAAGAGACGAAAAGTTTTTGAAATTTTTTATGCCCCTACGGACTCCCATGGGAATA-ATAAAGAT
1 AAAGATACGAAAAGTTTTTGAAATCTTTTATACCCCTACGGACCCCCATAGGAATATA-AAAGA-
** *
2340526 TTAAAAGGAAAGATTTAAAACTTATCTTGGTTATGAAAGCGTTGATTTAATTTAATTTTATTTAT
64 TTAAAA-GAAAGATTTAAAACTTATCTTAATTATGAAAGCGTTAATTTAATTTAATTTTATTTAT
*
2340591 TTTCGAAAAATACCATTTCGTACCTTAATGGAAGCCTGA
128 TTTCGAAAAATACCATTTCGTACCTTAATGGAAGCCTAA
2340630 AAAGATACGAAAAGTTTTTGAAATCTTTTATACCCCTACGGACCCCCATAGGAATATAAAAGATT
1 AAAGATACGAAAAGTTTTTGAAATCTTTTATACCCCTACGGACCCCCATAGGAATATAAAAGATT
* * * * * *
2340695 AAAA-AATGA-TTAATATTTAT-TTCAATTATGAAAGTGTTAATTTTATTTTATTTATTTATTTA
66 AAAAGAAAGATTTAAAACTTATCTT-AATTATGAAAGCGTTAA-TTTAATTTA-AT-TTTATTTA
2340757 TTTTCGAAAAATACCATTTCGTACCTTAATGGAAGCCTAA
127 TTTTCGAAAAATACCATTTCGTACCTTAATGGAAGCCTAA
* * **
2340797 AAAGATATGAAAAGTTTTTGAAATCTTTTATACACCTACGGATGCCCATAGGAATATAAAAGATT
1 AAAGATACGAAAAGTTTTTGAAATCTTTTATACCCCTACGGACCCCCATAGGAATATAAAAGATT
2340862 TTAAAAATAA
Statistics
Matches: 208, Mismatches: 19, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
163 2 0.01
164 22 0.11
165 12 0.06
166 1 0.00
167 114 0.55
168 56 0.27
169 1 0.00
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (166 bp):
AAAGATACGAAAAGTTTTTGAAATCTTTTATACCCCTACGGACCCCCATAGGAATATAAAAGATT
AAAAGAAAGATTTAAAACTTATCTTAATTATGAAAGCGTTAATTTAATTTAATTTTATTTATTTT
CGAAAAATACCATTTCGTACCTTAATGGAAGCCTAA
Found at i:2341589 original size:19 final size:18
Alignment explanation
Indices: 2341560--2341631 Score: 66
Period size: 19 Copynumber: 4.2 Consensus size: 18
2341550 TCAATACATT
2341560 ATGCT-TTGTATCGATAC
1 ATGCTATTGTATCGATAC
2341577 ATGCTTATTGTATCGATAC
1 ATGC-TATTGTATCGATAC
2341596 A----A-TGTATCGATAC
1 ATGCTATTGTATCGATAC
*
2341609 ATACTCAATTGTATCGATAC
1 ATGCT--ATTGTATCGATAC
2341629 ATG
1 ATG
2341632 AAACTGGCAA
Statistics
Matches: 45, Mismatches: 1, Indels: 15
0.74 0.02 0.25
Matches are distributed among these distances:
13 12 0.27
14 1 0.02
17 4 0.09
18 1 0.02
19 14 0.31
20 13 0.29
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.38
Consensus pattern (18 bp):
ATGCTATTGTATCGATAC
Found at i:2341603 original size:13 final size:13
Alignment explanation
Indices: 2341585--2341609 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2341575 ACATGCTTAT
2341585 TGTATCGATACAA
1 TGTATCGATACAA
2341598 TGTATCGATACA
1 TGTATCGATACA
2341610 TACTCAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2341607 original size:32 final size:33
Alignment explanation
Indices: 2341566--2341629 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
2341556 CATTATGCTT
* *
2341566 TGTATCGATACATGCT-TATTGTATCGATACAA
1 TGTATCGATACATACTCAATTGTATCGATACAA
2341598 TGTATCGATACATACTCAATTGTATCGATACA
1 TGTATCGATACATACTCAATTGTATCGATACA
2341630 TGAAACTGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATACTCAATTGTATCGATACAA
Found at i:2341694 original size:13 final size:13
Alignment explanation
Indices: 2341676--2341705 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2341666 GATACATGGG
2341676 ACATTGTATCGAT
1 ACATTGTATCGAT
*
2341689 ACATTGTATTGAT
1 ACATTGTATCGAT
2341702 ACAT
1 ACAT
2341706 GGTAAAAAGT
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:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:2351748 original size:19 final size:20
Alignment explanation
Indices: 2351724--2351774 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
2351714 TAATACATTA
* *
2351724 TATCGATACATGCT-TATTG
1 TATCGATACATGCTCAACTG
*
2351743 TATCGATACATACTCAACTG
1 TATCGATACATGCTCAACTG
2351763 TATCGATACATG
1 TATCGATACATG
2351775 AAACTGGCAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
TATCGATACATGCTCAACTG
Found at i:2353409 original size:21 final size:20
Alignment explanation
Indices: 2353370--2353410 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
2353360 GATTAGCCAT
*
2353370 TAAAATATAATATAAATAAA
1 TAAAATATAATAAAAATAAA
*
2353390 TAAAATAATTATAAAAATAAA
1 TAAAAT-ATAATAAAAATAAA
2353411 AAAGCTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (20 bp):
TAAAATATAATAAAAATAAA
Found at i:2354244 original size:153 final size:158
Alignment explanation
Indices: 2353623--2354271 Score: 578
Period size: 153 Copynumber: 4.1 Consensus size: 158
2353613 GAATTTCAAT
* * * * **
2353623 AATTTTAAACT-AAGAAAAATC-CCCTCAAAAAAAATTATGGAGAAGAAAACTCGGT-TTCTC-G
1 AATTTTAAAATAAAGAAAAATCTTCCT--AAAAAATTTACGGAGAAGAAAACTCCATATT-TCGG
* * * * *
2353684 -AAAAAAGAGGATTGTCAAAGAAAAAATTCAAAACTCAT-GACAATGAATTAATTTTTTAAAACT
63 AAAAAAAGAGAATT-TCAAAGAAAAAATTCAAAATTTATGGA-AATGAATGAATTTTTGAAAACT
* * * * *
2353747 GATTTACTATGAAATAAATAATCATATTTTATG
126 GAATTAATATAAAATAAATAATAATATTTGATG
* * * * ** *
2353780 AATTTTAAAAATAAAAAACTAAGAAAAATCTCCCGAAAAAATTTATGGAGTAGAAAACTCTGTGT
1 AATTTT-AAAAT-----A--AAGAAAAATCTTCCTAAAAAATTTACGGAGAAGAAAACTCCATAT
*
2353845 TTC--AAGAAAAAGGAAAATTTC-AAGAAAAAATTCAAAATTTATGGAAATGAATGAATTTTTGA
58 TTCGGAA-AAAAA-GAGAATTTCAAAGAAAAAATTCAAAATTTATGGAAATGAATGAATTTTTGA
*
2353907 AAACTGAATTAATTTAAAAT--A-AATAATATTTGATG
121 AAACTGAATTAATATAAAATAAATAATAATATTTGATG
* * *
2353942 AATTTTAAAAATAAAAAACCAAGAAAAATCTTCCTGAAAAAATTTACGGAGTAGAAAATTTCATA
1 AATTTT-AAAAT-----A--AAGAAAAATCTTCCT-AAAAAATTTACGGAGAAGAAAACTCCATA
* * * *
2354007 TTTCGGAAAAAAAGAGAATTTCAAGGAAAAAATACAAATTTTATGGAAATGAATAAATTTTTGAA
57 TTTCGGAAAAAAAGAGAATTTCAAAGAAAAAATTCAAAATTTATGGAAATGAATGAATTTTTGAA
* *
2354072 AACTAAATTAATATTAAATAAATAATAATATTTGATG
122 AACTGAATTAATATAAAATAAATAATAATATTTGATG
* *
2354109 AA-TTTAAAAT-AA-AAAAATCCTT-CT-AAAAATTTACGGAGAAGAAAACTCCATATTT-TGAG
1 AATTTTAAAATAAAGAAAAAT-CTTCCTAAAAAATTTACGGAGAAGAAAACTCCATATTTCGGAA
** * * *
2354168 AAAGGGAGAATTTCAAAGTAAAAATTCAAAATTCATGGAAATGATTGAATTTTTGAAAACTGAAT
65 AAAAAGAGAATTTCAAAGAAAAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAACTGAAT
2354233 TAATATAAAATAAATAATAATATTTGATG
130 TAATATAAAATAAATAATAATATTTGATG
2354262 AATTTTAAAA
1 AATTTTAAAA
2354272 ATTAAAAACC
Statistics
Matches: 418, Mismatches: 50, Indels: 51
0.81 0.10 0.10
Matches are distributed among these distances:
153 87 0.21
154 35 0.08
156 8 0.02
157 11 0.03
158 4 0.01
162 44 0.11
163 36 0.09
164 59 0.14
165 85 0.20
166 25 0.06
167 24 0.06
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.30
Consensus pattern (158 bp):
AATTTTAAAATAAAGAAAAATCTTCCTAAAAAATTTACGGAGAAGAAAACTCCATATTTCGGAAA
AAAAGAGAATTTCAAAGAAAAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAACTGAATT
AATATAAAATAAATAATAATATTTGATG
Found at i:2356282 original size:56 final size:56
Alignment explanation
Indices: 2356156--2356314 Score: 228
Period size: 56 Copynumber: 2.8 Consensus size: 56
2356146 CCAAAAACCT
*
2356156 AATGTCATTAGCCTTGAATCAACACATTGGCACTTGTCAAACCATCTCCTTCTAAGCCC
1 AATGTCATTGGCCTTGAATCAACACATTGGCACTTGTC-AA--ATCTCCTTCTAAGCCC
* * * *
2356215 GATGTCATTGGCCTTGAATCAACATATTGGCACTTGGCAAATCTCCTTTTAAGCCC
1 AATGTCATTGGCCTTGAATCAACACATTGGCACTTGTCAAATCTCCTTCTAAGCCC
* *
2356271 AATGTCATTGGCTTTGAATCAACACATTGGCATTTGTCAAATCT
1 AATGTCATTGGCCTTGAATCAACACATTGGCACTTGTCAAATCT
2356315 TTTTTCTCGA
Statistics
Matches: 90, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
56 54 0.60
58 2 0.02
59 34 0.38
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (56 bp):
AATGTCATTGGCCTTGAATCAACACATTGGCACTTGTCAAATCTCCTTCTAAGCCC
Found at i:2357300 original size:20 final size:21
Alignment explanation
Indices: 2357258--2357329 Score: 85
Period size: 21 Copynumber: 3.5 Consensus size: 21
2357248 TATCAATTTA
* *
2357258 TATCGATACAATAAG-GTAATG
1 TATCGATAC-ATATGTGAAATG
2357279 TATCGATACATATGTG-AATG
1 TATCGATACATATGTGAAATG
* *
2357299 TATCGATACATGTTTGAAATG
1 TATCGATACATATGTGAAATG
2357320 TATCGATACA
1 TATCGATACA
2357330 AGACCATGTA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
20 22 0.48
21 24 0.52
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (21 bp):
TATCGATACATATGTGAAATG
Found at i:2357462 original size:52 final size:52
Alignment explanation
Indices: 2357365--2357504 Score: 163
Period size: 52 Copynumber: 2.7 Consensus size: 52
2357355 TCTAGAAAGA
** * * *
2357365 AAATGTATTGATACATTTTTCTTTGTATTAATACATTTTAAGTTTTTAACAC
1 AAATGTATCAATACATTTTTCATTGTATCAATACATTCTAAGTTTTTAACAC
* * ** * *
2357417 AAATGTATCAATACATTTTTCATTGTATCGATACCTTCTGGGTTTTTGACCC
1 AAATGTATCAATACATTTTTCATTGTATCAATACATTCTAAGTTTTTAACAC
* *
2357469 AAATGTATCAATACATTTTTTAATGTATCAATACAT
1 AAATGTATCAATACATTTTTCATTGTATCAATACAT
2357505 GCAAGCAATT
Statistics
Matches: 73, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.45
Consensus pattern (52 bp):
AAATGTATCAATACATTTTTCATTGTATCAATACATTCTAAGTTTTTAACAC
Found at i:2359787 original size:27 final size:29
Alignment explanation
Indices: 2359738--2359796 Score: 79
Period size: 27 Copynumber: 2.1 Consensus size: 29
2359728 CTCTCATCAA
2359738 AACTCATTTGTTATCAATAGGGATACCCC
1 AACTCATTTGTTATCAATAGGGATACCCC
*
2359767 AACTCCATTT-TT-TCAA-AGGGATACTCC
1 AACT-CATTTGTTATCAATAGGGATACCCC
2359794 AAC
1 AAC
2359797 CTTACTTTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 13 0.46
28 4 0.14
29 6 0.21
30 5 0.18
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.31
Consensus pattern (29 bp):
AACTCATTTGTTATCAATAGGGATACCCC
Found at i:2360930 original size:124 final size:124
Alignment explanation
Indices: 2360710--2360963 Score: 481
Period size: 124 Copynumber: 2.0 Consensus size: 124
2360700 GCGAAATTGG
2360710 ACTTTTAGATTGTTAGGGCATTTTAGCAAATTCAAATTCATTTCCCATCACCCTTCGTGGAGGCA
1 ACTTTTAGATTGTTAGGGCATTTTAGCAAATTCAAATTCATTTCCCATCACCCTTCGTGGAGGCA
2360775 AGGTGTTCGGGATGCAAAAAGTATAGAAAAGTCACATTTTTACCTAGATGTGTCGATAC
66 AGGTGTTCGGGATGCAAAAAGTATAGAAAAGTCACATTTTTACCTAGATGTGTCGATAC
* *
2360834 ACTTTTAGATTGTTAGGGCATTTTAGCAAATTCAAATTCATTTCCCATCACCCTTTGTGGAGGTA
1 ACTTTTAGATTGTTAGGGCATTTTAGCAAATTCAAATTCATTTCCCATCACCCTTCGTGGAGGCA
2360899 AGGTGTTCGGGATGCAAAAAGTATAGAAAAGTCACATTTTTACCTAGATGTGTCGATAC
66 AGGTGTTCGGGATGCAAAAAGTATAGAAAAGTCACATTTTTACCTAGATGTGTCGATAC
*
2360958 ATTTTT
1 ACTTTT
2360964 CAATGTATCG
Statistics
Matches: 127, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
124 127 1.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.34
Consensus pattern (124 bp):
ACTTTTAGATTGTTAGGGCATTTTAGCAAATTCAAATTCATTTCCCATCACCCTTCGTGGAGGCA
AGGTGTTCGGGATGCAAAAAGTATAGAAAAGTCACATTTTTACCTAGATGTGTCGATAC
Found at i:2360974 original size:20 final size:20
Alignment explanation
Indices: 2360946--2361002 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
2360936 TTTTACCTAG
*
2360946 ATGTGTCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
2360966 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
2360986 AAGTATCAATACATTTT
1 ATGTATCGATACATTTT
2361003 GCCTTTTTAC
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:2361042 original size:20 final size:20
Alignment explanation
Indices: 2361017--2361073 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
2361007 TTTTACCTAG
*
2361017 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTCTTCA
2361037 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
* *
2361057 ATATATTGATACATTCT
1 ATGTATCGATACATTCT
2361074 GTCTTTTTAC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.32, C:0.16, G:0.09, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:2361069 original size:71 final size:71
Alignment explanation
Indices: 2360935--2361121 Score: 236
Period size: 71 Copynumber: 2.6 Consensus size: 71
2360925 AAAAGTCACA
* *
2360935 TTTTTACCTAGATGTGTCGATACATTTTTCAATGTATCGATACATGTATGAAAGTATCAATACAT
1 TTTTTACCTAGATGTATCGATACATTTTTCAATGTATCGATACATGTATCAAAGTATCAATACAT
*
2361000 TTTGCC
66 TCTGCC
* **
2361006 TTTTTACCTAGATGTATCGATACATTTTTCAATGTATCGATACAT-TCTTCAATA-TATTGATAC
1 TTTTTACCTAGATGTATCGATACATTTTTCAATGTATCGATACATGT-ATCAA-AGTATCAATAC
*
2361069 ATTCTGTC
64 ATTCTGCC
* **
2361077 TTTTTACCCAGATGTATCGATACATTGAAT-AATGTATCGATACAT
1 TTTTTACCTAGATGTATCGATACATT-TTTCAATGTATCGATACAT
2361122 CTTATTAAAA
Statistics
Matches: 103, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
70 1 0.01
71 100 0.97
72 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (71 bp):
TTTTTACCTAGATGTATCGATACATTTTTCAATGTATCGATACATGTATCAAAGTATCAATACAT
TCTGCC
Found at i:2361995 original size:19 final size:18
Alignment explanation
Indices: 2361970--2362034 Score: 77
Period size: 19 Copynumber: 3.8 Consensus size: 18
2361960 ATTTCAACGA
2361970 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
2361988 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
2362004 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
2362020 TTTTGTATCGATACA
1 -TTTGTATCGATACA
2362035 ATATATCGCT
Statistics
Matches: 40, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.28
15 2 0.05
17 2 0.05
18 1 0.03
19 24 0.60
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:2362008 original size:32 final size:32
Alignment explanation
Indices: 2361972--2362047 Score: 125
Period size: 32 Copynumber: 2.4 Consensus size: 32
2361962 TTCAACGATT
2361972 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
2362004 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
2362036 TATATCGCTACA
1 TGTATCGATACA
2362048 AAGCTACTGC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:2362009 original size:13 final size:13
Alignment explanation
Indices: 2361991--2362015 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2361981 ACATAAGTGT
2361991 TGTATCGATACAA
1 TGTATCGATACAA
2362004 TGTATCGATACA
1 TGTATCGATACA
2362016 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2362105 original size:13 final size:13
Alignment explanation
Indices: 2362087--2362111 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2362077 ATTACTCAAA
2362087 TGTATCGATACAT
1 TGTATCGATACAT
2362100 TGTATCGATACA
1 TGTATCGATACA
2362112 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2362249 original size:52 final size:52
Alignment explanation
Indices: 2362120--2362251 Score: 201
Period size: 52 Copynumber: 2.5 Consensus size: 52
2362110 CACTGATCTT
* *
2362120 TGTATCGATACATGCGGGCAAATTTGCAAAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTTCAAAGATGTATCGATACACTATAAAA
* * ** *
2362172 TGTATCAATACATGTAGGCAAATTTTCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTTCAAAGATGTATCGATACACTATAAAA
2362224 TGTATCGATACATGCAGGCAAATTTTCA
1 TGTATCGATACATGCAGGCAAATTTTCA
2362252 TATTTCGGGA
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTTCAAAGATGTATCGATACACTATAAAA
Found at i:2369175 original size:15 final size:15
Alignment explanation
Indices: 2369157--2369193 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
2369147 AGTCAAAAGT
*
2369157 AAACACAAAAAAACA
1 AAACAAAAAAAAACA
2369172 AAACAAAAAAAAACA
1 AAACAAAAAAAAACA
2369187 AAA-AAAA
1 AAACAAAA
2369194 GGTGCAAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 4 0.19
15 17 0.81
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (15 bp):
AAACAAAAAAAAACA
Found at i:2369538 original size:10 final size:10
Alignment explanation
Indices: 2369523--2369547 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2369513 TCACAAAAAA
2369523 AAAAACAAAC
1 AAAAACAAAC
2369533 AAAAACAAAC
1 AAAAACAAAC
2369543 AAAAA
1 AAAAA
2369548 AAAGGAAAAA
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:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAACAAAC
Found at i:2370536 original size:32 final size:31
Alignment explanation
Indices: 2370495--2370615 Score: 165
Period size: 32 Copynumber: 3.9 Consensus size: 31
2370485 TTCAAATACC
2370495 TTCTTAAAGTCCACGACTCAGTGGCATCCTT
1 TTCTTAAAGTCCACGACTCAGTGGCATCCTT
2370526 TTCTTCAAAGTCCACGACTCAGTGGCAAT--TT
1 TTCTT-AAAGTCCACGACTCAGTGGC-ATCCTT
* *
2370557 GTCTTAAAGTCCATGACTCAGTGGCATCCTT
1 TTCTTAAAGTCCACGACTCAGTGGCATCCTT
* *
2370588 TTCTTCAAAATCCATGACTCAGTGGCAT
1 TTCTT-AAAGTCCACGACTCAGTGGCAT
2370616 TTCGTCTCAA
Statistics
Matches: 81, Mismatches: 4, Indels: 9
0.86 0.04 0.10
Matches are distributed among these distances:
29 2 0.02
30 19 0.23
31 17 0.21
32 41 0.51
33 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (31 bp):
TTCTTAAAGTCCACGACTCAGTGGCATCCTT
Found at i:2370568 original size:30 final size:30
Alignment explanation
Indices: 2370496--2370649 Score: 150
Period size: 32 Copynumber: 5.0 Consensus size: 30
2370486 TCAAATACCT
*
2370496 TCTTAAAGTCCACGACTCAGTGGCATCCTTT
1 TCTTAAAGTCCACGACTCAGTGGCAT-CTTG
2370527 TCTTCAAAGTCCACGACTCAGTGGCAAT-TTG
1 TCTT-AAAGTCCACGACTCAGTGGC-ATCTTG
* *
2370558 TCTTAAAGTCCATGACTCAGTGGCATCCTTT
1 TCTTAAAGTCCACGACTCAGTGGCAT-CTTG
* *
2370589 TCTTCAAAATCCATGACTCAGTGGCAT-TTCG
1 TCTT-AAAGTCCACGACTCAGTGGCATCTT-G
* * * *
2370620 TCTCAAAGCCCACAACTCCGTGGCACTCTT
1 TCTTAAAGTCCACGACTCAGTGGCA-TCTT
2370650 TTTCCCTTTT
Statistics
Matches: 104, Mismatches: 11, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
29 2 0.02
30 37 0.36
31 20 0.19
32 43 0.41
33 2 0.02
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (30 bp):
TCTTAAAGTCCACGACTCAGTGGCATCTTG
Found at i:2370593 original size:62 final size:62
Alignment explanation
Indices: 2370496--2370653 Score: 219
Period size: 62 Copynumber: 2.5 Consensus size: 62
2370486 TCAAATACCT
*
2370496 TCTTAAAGTCCACGACTCAGTGGCATCCTTTTCTTCAAAGTCCACGACTCAGTGGCAATTT-G
1 TCTTAAAGTCCACGACTCAGTGGCATCCTTTTCTTCAAAATCCACGACTCAGTGGC-ATTTCG
* *
2370558 TCTTAAAGTCCATGACTCAGTGGCATCCTTTTCTTCAAAATCCATGACTCAGTGGCATTTCG
1 TCTTAAAGTCCACGACTCAGTGGCATCCTTTTCTTCAAAATCCACGACTCAGTGGCATTTCG
* * * * *
2370620 TCTCAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 TCTTAAAGTCCACGACTCAGTGGCA-TCCTTTTC
2370654 CCTTTTAAAG
Statistics
Matches: 85, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
61 4 0.05
62 74 0.87
63 7 0.08
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.32
Consensus pattern (62 bp):
TCTTAAAGTCCACGACTCAGTGGCATCCTTTTCTTCAAAATCCACGACTCAGTGGCATTTCG
Found at i:2370680 original size:36 final size:35
Alignment explanation
Indices: 2370624--2370818 Score: 205
Period size: 36 Copynumber: 5.8 Consensus size: 35
2370614 ATTTCGTCTC
*
2370624 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGTCCACAACTCCGTGGCACTCTTTTT-CCTTTT
* * *
2370660 AAAGTCCACAACCCCATGGCACT-TTGTTCCTTTT
1 AAAGTCCACAACTCCGTGGCACTCTTTTTCCTTTT
*
2370694 -AAGTCCACGACTCCGTGGCAC-C---TT-CTTTT
1 AAAGTCCACAACTCCGTGGCACTCTTTTTCCTTTT
*
2370723 CAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 -AAAGTCCACAACTCCGTGGCACTCTTTTT-CCTTTT
*
2370760 AAAGTCCACAACTTCGTGGCACT-TTGTTT-CTTTT
1 AAAGTCCACAACTCCGTGGCACTCTT-TTTCCTTTT
*
2370794 -AAGTCCACAACTTCGTGGCA-TCTTT
1 AAAGTCCACAACTCCGTGGCACTCTTT
2370819 CACCCTTTTC
Statistics
Matches: 137, Mismatches: 11, Indels: 26
0.79 0.06 0.15
Matches are distributed among these distances:
29 5 0.04
30 2 0.01
31 19 0.14
32 3 0.02
33 40 0.29
34 11 0.08
35 8 0.06
36 44 0.32
37 5 0.04
ACGTcount: A:0.21, C:0.32, G:0.13, T:0.34
Consensus pattern (35 bp):
AAAGTCCACAACTCCGTGGCACTCTTTTTCCTTTT
Found at i:2370713 original size:33 final size:33
Alignment explanation
Indices: 2370629--2370818 Score: 186
Period size: 33 Copynumber: 5.6 Consensus size: 33
2370619 GTCTCAAAGC
*
2370629 CCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGT
1 CCACAACTCCGTGGCACT-TTGTT-CCTTTT-AAGT
* *
2370665 CCACAACCCCATGGCACTTTGTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTTTGTTCCTTTTAAGT
* * * ** *
2370698 CCACGACTCCGTGGCACCTTCTT--TTCAAAGC
1 CCACAACTCCGTGGCACTTTGTTCCTTTTAAGT
*
2370729 CCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGT
1 CCACAACTCCGTGGCACT-TTGTT-CCTTTT-AAGT
* *
2370765 CCACAACTTCGTGGCACTTTGTTTCTTTTAAGT
1 CCACAACTCCGTGGCACTTTGTTCCTTTTAAGT
*
2370798 CCACAACTTCGTGGCATCTTT
1 CCACAACTCCGTGGCA-CTTT
2370819 CACCCTTTTC
Statistics
Matches: 128, Mismatches: 20, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
31 21 0.16
32 4 0.03
33 42 0.33
34 15 0.12
35 10 0.08
36 36 0.28
ACGTcount: A:0.19, C:0.33, G:0.13, T:0.35
Consensus pattern (33 bp):
CCACAACTCCGTGGCACTTTGTTCCTTTTAAGT
Found at i:2370736 original size:100 final size:100
Alignment explanation
Indices: 2370622--2370813 Score: 330
Period size: 100 Copynumber: 1.9 Consensus size: 100
2370612 GCATTTCGTC
2370622 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACCCCATGGCACTTTGT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACCCCATGGCACTTTGT
*
2370687 TCCTTTTAAGTCCACGACTCCGTGGCACCTTCTTT
66 TCCTTTTAAGTCCACAACTCCGTGGCACCTTCTTT
** *
2370722 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACTTCGTGGCACTTTGT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACCCCATGGCACTTTGT
* *
2370787 TTCTTTTAAGTCCACAACTTCGTGGCA
66 TCCTTTTAAGTCCACAACTCCGTGGCA
2370814 TCTTTCACCC
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 86 1.00
ACGTcount: A:0.21, C:0.33, G:0.14, T:0.33
Consensus pattern (100 bp):
TCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACCCCATGGCACTTTGT
TCCTTTTAAGTCCACAACTCCGTGGCACCTTCTTT
Found at i:2370744 original size:64 final size:66
Alignment explanation
Indices: 2370655--2370781 Score: 170
Period size: 64 Copynumber: 2.0 Consensus size: 66
2370645 CTCTTTTTCC
* *
2370655 CTTTTAAAGTCCACAACCCCATGGCACT-TTGTT-CCTTTT-AAGTCCACGACTCCGTGGCACCT
1 CTTTTAAAGCCCACAACCCCATGGCACTCTTGTTCCCTTTTAAAGTCCACAACTCCGTGGCACCT
2370717 T
66 T
* * * *
2370718 CTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACTTCGTGGCAC
1 CTTTT-AAAGCCCACAACCCCATGGCACTCTTGTTCCCTTTTAAAGTCCACAACTCCGTGGCAC
2370782 TTTGTTTCTT
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
63 5 0.09
64 20 0.37
65 4 0.07
66 6 0.11
67 19 0.35
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.31
Consensus pattern (66 bp):
CTTTTAAAGCCCACAACCCCATGGCACTCTTGTTCCCTTTTAAAGTCCACAACTCCGTGGCACCT
T
Found at i:2370934 original size:33 final size:33
Alignment explanation
Indices: 2370824--2371144 Score: 402
Period size: 33 Copynumber: 9.9 Consensus size: 33
2370814 TCTTTCACCC
* *
2370824 TTTT-CAAAGCCAACACAAGTTGGTGGCAACC-
1 TTTTCCAAAGCCCACACAAGTCGGTGGCAACCT
*** * *
2370855 CCCTCCAAAGCCCACACAAGTCAGTGGCAACCC
1 TTTTCCAAAGCCCACACAAGTCGGTGGCAACCT
*
2370888 TTTT-CAAAGCCCACACAAGTTGGTGGCAACCT
1 TTTTCCAAAGCCCACACAAGTCGGTGGCAACCT
*
2370920 TTTTCCAAAGCCCACACAAGTCGGTGGCAACCC
1 TTTTCCAAAGCCCACACAAGTCGGTGGCAACCT
* * *
2370953 TTCT-CAAAGCCCACACAAGTTGGTGGCAACCC
1 TTTTCCAAAGCCCACACAAGTCGGTGGCAACCT
* *
2370985 TTCT-CAAAGCCCACACAAGTTGGTGGCAACCT
1 TTTTCCAAAGCCCACACAAGTCGGTGGCAACCT
*
2371017 TTTTCTAAAGCCCACACAAGTCGGTGGCAA-CT
1 TTTTCCAAAGCCCACACAAGTCGGTGGCAACCT
*
2371049 TTCTTCAAAAGCCCACACAAGTCGGTGGCAACCT
1 TT-TTCCAAAGCCCACACAAGTCGGTGGCAACCT
* *
2371083 TCTTCAAAAGCCCACACAAGTCGGTGGCAACCT
1 TTTTCCAAAGCCCACACAAGTCGGTGGCAACCT
* * *
2371116 TCTTCAAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAAAGCCCACACAAGTCGGTGGCA
2371145 TCTTCCTTTA
Statistics
Matches: 261, Mismatches: 23, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
31 1 0.00
32 118 0.45
33 139 0.53
34 3 0.01
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.20
Consensus pattern (33 bp):
TTTTCCAAAGCCCACACAAGTCGGTGGCAACCT
Found at i:2370937 original size:97 final size:97
Alignment explanation
Indices: 2370824--2371144 Score: 459
Period size: 97 Copynumber: 3.3 Consensus size: 97
2370814 TCTTTCACCC
* * * *
2370824 TTTT-CAAAGCCAACACAAGTTGGTGGCAACCCCCTCCAAAGCCCACACAAGTCAGTGGCAACCC
1 TTTTCCAAAGCCCACACAAGTCGGTGGCAACCCCTTCCAAAGCCCACACAAGTCGGTGGCAACCC
2370888 TTTTCAAAGCCCACACAAGTTGGTGGCAACCT
66 TTTTCAAAGCCCACACAAGTTGGTGGCAACCT
*
2370920 TTTTCCAAAGCCCACACAAGTCGGTGGCAA-CCCTTCTCAAAGCCCACACAAGTTGGTGGCAACC
1 TTTTCCAAAGCCCACACAAGTCGGTGGCAACCCCTTC-CAAAGCCCACACAAGTCGGTGGCAACC
*
2370984 CTTCTCAAAGCCCACACAAGTTGGTGGCAACCT
65 CTTTTCAAAGCCCACACAAGTTGGTGGCAACCT
* ** *
2371017 TTTTCTAAAGCCCACACAAGTCGGTGGCAACTTTCTTCAAAAGCCCACACAAGTCGGTGGCAA-C
1 TTTTCCAAAGCCCACACAAGTCGGTGGCAAC-CCCTTCCAAAGCCCACACAAGTCGGTGGCAACC
*
2371081 CTTCTTCAAAAGCCCACACAAGTCGGTGGCAACCT
65 CTT-TTC-AAAGCCCACACAAGTTGGTGGCAACCT
* * *
2371116 TCTTCAAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAAAGCCCACACAAGTCGGTGGCA
2371145 TCTTCCTTTA
Statistics
Matches: 203, Mismatches: 16, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
96 9 0.04
97 113 0.56
98 25 0.12
99 56 0.28
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.20
Consensus pattern (97 bp):
TTTTCCAAAGCCCACACAAGTCGGTGGCAACCCCTTCCAAAGCCCACACAAGTCGGTGGCAACCC
TTTTCAAAGCCCACACAAGTTGGTGGCAACCT
Found at i:2371311 original size:92 final size:92
Alignment explanation
Indices: 2371149--2371799 Score: 1142
Period size: 92 Copynumber: 7.0 Consensus size: 92
2371139 GTGGCATCTT
*
2371149 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CTATCATCTTTAAGTCCAATG
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT-TCATCTTTAAGTCCAATG
2371213 TAGCTGGCCTTGAATCAGCACATTGGCA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
**
2371241 CCTCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
2371306 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
*
2371333 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
*
2371398 AGCTGGCCTTGAATCAGTACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
**
2371425 CCTCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
*
2371490 AGCTAGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
2371517 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
2371582 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
2371609 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
*
2371674 AGCTGGCCTTGAATCAGCATATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* *
2371701 CCTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--T-TCATCTTTAAGTCCAA
* *
2371766 TGTCGCTGGCCTTGAATCAGCACATCGGCA
63 TGTAGCTGGCCTTGAATCAGCACATTGGCA
2371796 CCTT
1 CCTT
2371800 CATCTTTAAA
Statistics
Matches: 534, Mismatches: 21, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
92 484 0.91
93 2 0.00
94 1 0.00
95 47 0.09
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (92 bp):
CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCA
Found at i:2371780 original size:52 final size:49
Alignment explanation
Indices: 2371150--2371844 Score: 798
Period size: 49 Copynumber: 14.9 Consensus size: 49
2371140 TGGCATCTTC
* * *
2371150 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CTATCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCT-TCAT
*
2371199 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TC--
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
* *
2371245 C---AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
*
2371291 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
* * *
2371334 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
* *
2371383 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGTACATTGGCACC-TC--
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
* *
2371429 C---AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
* *
2371475 CTTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGGCA----C--
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
* *
2371518 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
*
2371567 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
* *
2371610 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
* *
2371659 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCA----C--
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
* * * *
2371702 CTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCAT
*
2371754 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATCGGCACCTTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
** * * *
2371803 CTTTAAACCCAATGTCGTTGGCTTTTAATCAGCACATTGGCA
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
2371845 TTCTTCTCTT
Statistics
Matches: 554, Mismatches: 52, Indels: 80
0.81 0.08 0.12
Matches are distributed among these distances:
43 227 0.41
44 4 0.01
45 4 0.01
46 4 0.01
47 2 0.00
48 3 0.01
49 268 0.48
50 3 0.01
52 39 0.07
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (49 bp):
CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
Found at i:2371940 original size:55 final size:52
Alignment explanation
Indices: 2371799--2371940 Score: 115
Period size: 52 Copynumber: 2.7 Consensus size: 52
2371789 ATCGGCACCT
* * * *
2371799 TCATCTTTAAACCCAATGTCGTTGGCTTTTAATCAGCACATTGGCATTCTTC
1 TCATCTTTAAACCCAATATCGTTGGCTGTAAATCAGCACATTGACATTCTTC
* ** * * * * * *
2371851 TCTTCTTTAAGTCTAATGA-CGCTGACCGTAAATCAGCGCATTGACATCCTTTTTC
1 TCATCTTTAAACCCAAT-ATCGTTGGCTGTAAATCAGCACATTGACA---TTCTTC
*
2371906 TCATCTTTAAACCCAATATCGTTGGCTGTGAATCA
1 TCATCTTTAAACCCAATATCGTTGGCTGTAAATCA
2371941 ACGTATTGGT
Statistics
Matches: 64, Mismatches: 21, Indels: 7
0.70 0.23 0.08
Matches are distributed among these distances:
52 33 0.52
54 1 0.02
55 30 0.47
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.37
Consensus pattern (52 bp):
TCATCTTTAAACCCAATATCGTTGGCTGTAAATCAGCACATTGACATTCTTC
Found at i:2372634 original size:13 final size:13
Alignment explanation
Indices: 2372616--2372705 Score: 54
Period size: 13 Copynumber: 6.0 Consensus size: 13
2372606 CATAAAGTGT
2372616 TGTATCGATACAA
1 TGTATCGATACAA
2372629 TGTATCGATACATAAA
1 TGTATCGATAC---AA
2372645 TGTTGTATCGATACAA
1 ---TGTATCGATACAA
*
2372661 TGTATCTATACATAA
1 TGTATCGATAC--AA
2372676 GTTTTGTATCGATACAA
1 ----TGTATCGATACAA
*
2372693 TGTATCGCTACAA
1 TGTATCGATACAA
2372706 AGCTACTGCC
Statistics
Matches: 62, Mismatches: 3, Indels: 24
0.70 0.03 0.27
Matches are distributed among these distances:
13 33 0.53
15 2 0.03
16 4 0.06
17 2 0.03
19 21 0.34
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2372654 original size:32 final size:32
Alignment explanation
Indices: 2372596--2372704 Score: 173
Period size: 32 Copynumber: 3.4 Consensus size: 32
2372586 TTCAACGATT
2372596 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAA-TGTTGTATCGATACAA
2372629 TGTATCGATACATAAATGTTGTATCGATACAA
1 TGTATCGATACATAAATGTTGTATCGATACAA
* * *
2372661 TGTATCTATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAATGTTGTATCGATACAA
*
2372693 TGTATCGCTACA
1 TGTATCGATACA
2372705 AAGCTACTGC
Statistics
Matches: 71, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
32 55 0.77
33 16 0.23
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAATGTTGTATCGATACAA
Found at i:2372762 original size:13 final size:13
Alignment explanation
Indices: 2372744--2372768 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2372734 ATTACTCAAA
2372744 TGTATCGATACAT
1 TGTATCGATACAT
2372757 TGTATCGATACA
1 TGTATCGATACA
2372769 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2372821 original size:52 final size:52
Alignment explanation
Indices: 2372777--2372905 Score: 249
Period size: 52 Copynumber: 2.5 Consensus size: 52
2372767 CACTGATCTT
2372777 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
2372829 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
2372881 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
2372906 TCATATTTTG
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 76 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:2377077 original size:10 final size:11
Alignment explanation
Indices: 2377062--2377090 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
2377052 CTACTAGATG
2377062 ATTTTTCAAA-
1 ATTTTTCAAAC
2377072 ATTTTTCAAAC
1 ATTTTTCAAAC
2377083 ATTTTTCA
1 ATTTTTCA
2377091 TAAAAACATC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.52
Consensus pattern (11 bp):
ATTTTTCAAAC
Found at i:2392458 original size:19 final size:19
Alignment explanation
Indices: 2392415--2392487 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
2392405 CACACCCAGA
*
2392415 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGT-T-CAT
2392435 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
**
2392454 TGTATCGATACATGGACAAT
1 TGTATCGATACATGTTC-AT
2392474 TGTATCGATACATG
1 TGTATCGATACATG
2392488 AAACTGGTAG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
19 17 0.35
20 30 0.62
21 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Found at i:2398714 original size:20 final size:20
Alignment explanation
Indices: 2398689--2398762 Score: 130
Period size: 20 Copynumber: 3.7 Consensus size: 20
2398679 TTTACCTAGA
2398689 TGTATCGATACATTGTTCAT
1 TGTATCGATACATTGTTCAT
2398709 TGTATCGATACATTGTTCAT
1 TGTATCGATACATTGTTCAT
**
2398729 TGTATCGATACATAATTCAT
1 TGTATCGATACATTGTTCAT
2398749 TGTATCGATACATT
1 TGTATCGATACATT
2398763 CTGGGTTTAC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATTGTTCAT
Found at i:2398749 original size:90 final size:89
Alignment explanation
Indices: 2398638--2398811 Score: 278
Period size: 89 Copynumber: 1.9 Consensus size: 89
2398628 TTTTCATAAT
* * * *
2398638 TTGTATTGATACATTATTCATTGTGTCGATACATTCTGGGTTTTACCTAGATGTATCGATACATT
1 TTGTATCGATACATAATTCATTGTATCGATACATTCTGGG-TTTACCCAGATGTATCGATACATT
*
2398703 GTT-CATTGTATCGATACATTGTTCA
65 -TTACAATGTATCGATACATTGTTCA
2398728 TTGTATCGATACATAATTCATTGTATCGATACATTCTGGGTTTACCCAGATGTATCGATACATTT
1 TTGTATCGATACATAATTCATTGTATCGATACATTCTGGGTTTACCCAGATGTATCGATACATTT
2398793 TACAATGTATCGATACATT
66 TACAATGTATCGATACATT
2398812 CAAGCATTTT
Statistics
Matches: 78, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
88 2 0.03
89 39 0.50
90 37 0.47
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.42
Consensus pattern (89 bp):
TTGTATCGATACATAATTCATTGTATCGATACATTCTGGGTTTACCCAGATGTATCGATACATTT
TACAATGTATCGATACATTGTTCA
Found at i:2401191 original size:28 final size:28
Alignment explanation
Indices: 2401155--2401230 Score: 102
Period size: 28 Copynumber: 2.8 Consensus size: 28
2401145 ATTTTTCACA
**
2401155 ATCGGGGATACTCCAACCTTGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
2401183 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
*
2401211 --CAAGGGATACTCCAACCCCG
1 ATC-GGGGATACTCCAACCCCG
2401231 GCTTTATTTC
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 1 0.02
27 17 0.39
28 26 0.59
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATTTC
Found at i:2401272 original size:78 final size:79
Alignment explanation
Indices: 2401183--2401362 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 79
2401173 TTGTTATTTC
* * *
2401183 ATCGGGGATACTCCAACCCCGTTATTTCCA-AGGGATACTCCAACCCCGGCTTTATTTCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCACAGGGATACTCCAACCCCAGCCTTATTTCTAAAAC
*
2401247 ATTGATTT-CTCACA
66 ACTGATTTAC-CACA
* ** * * *
2401261 ATCGGGGATACTCCAACTCCGTTATTTTTACAGGGATACTCCAACCTCAGCCTTATTTCTATAGC
1 ATCGGGGATACTCCAACCCCGTTATTTCCACAGGGATACTCCAACCCCAGCCTTATTTCTAAAAC
*
2401326 ACTGATTTACCATA
66 ACTGATTTACCACA
* *
2401340 ATCGGGGATACTCTAGCCCCGTT
1 ATCGGGGATACTCCAACCCCGTT
2401363 GTTATCCCCA
Statistics
Matches: 86, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
78 27 0.31
79 58 0.67
80 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.31
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTCCACAGGGATACTCCAACCCCAGCCTTATTTCTAAAAC
ACTGATTTACCACA
Found at i:2401297 original size:106 final size:106
Alignment explanation
Indices: 2401109--2401306 Score: 274
Period size: 106 Copynumber: 1.9 Consensus size: 106
2401099 TTCATCTCGA
* * *
2401109 GGATACTCCAACTCCGATTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAACCT
1 GGATACTCCAACCCCGACTTTATTTCTAAAACATCAATTTCTCACAATCGGGGATACTCCAACCT
* *
2401174 TGTTATTTCATCGGGGATACTCCAACCCCGTTATTTCCAAG
66 CGTTATTTCATCAGGGATACTCCAACCCCGTTATTTCCAAG
* * **
2401215 GGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAA-CT
1 GGATACTCCAACCCCGACTTTATTTCTAAAACATCAATTTCTCACAATCGGGGATACTCCAACCT
*
2401279 CCGTTATTT-TTACAGGGATACTCCAACC
66 -CGTTATTTCAT-CAGGGATACTCCAACC
2401307 TCAGCCTTAT
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
105 3 0.04
106 77 0.96
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (106 bp):
GGATACTCCAACCCCGACTTTATTTCTAAAACATCAATTTCTCACAATCGGGGATACTCCAACCT
CGTTATTTCATCAGGGATACTCCAACCCCGTTATTTCCAAG
Found at i:2403442 original size:4 final size:4
Alignment explanation
Indices: 2403433--2403471 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
2403423 TTTTGAGGTG
2403433 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
2403472 GTTTGTTTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:2413766 original size:16 final size:16
Alignment explanation
Indices: 2413747--2413801 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
2413737 TTTAAAAAAC
2413747 AAAAAAAACAAAACAA
1 AAAAAAAACAAAACAA
* **
2413763 AAAAAAAAC-ACAGTA
1 AAAAAAAACAAAACAA
*
2413778 AGAAAAAACAAAACAA
1 AAAAAAAACAAAACAA
2413794 AGAAAAAA
1 A-AAAAAA
2413802 GAGAGAAAAA
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
15 11 0.38
16 13 0.45
17 5 0.17
ACGTcount: A:0.82, C:0.11, G:0.05, T:0.02
Consensus pattern (16 bp):
AAAAAAAACAAAACAA
Found at i:2414942 original size:55 final size:55
Alignment explanation
Indices: 2414877--2415047 Score: 209
Period size: 55 Copynumber: 3.0 Consensus size: 55
2414867 CCTTTCACCC
2414877 TTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTT
1 TTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTT
* ** * **
2414932 TTCAGTCCTCAAAGAGCATGATGCCTTTCAAAGCCCACACAAGCTGGTGGCA-CC
1 TTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTT
* *
2414986 TTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTCAAAGCCTACACAAGTTGGTGGCATTT
1 TTCAGTCCTCAAAGAGCAGGA---C---ACCTTTCAAAGCCCACACAAGTTGGTGGCATTT
2415047 T
1 T
2415048 CCAATCTTTA
Statistics
Matches: 96, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
54 20 0.21
55 48 0.50
60 27 0.28
61 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (55 bp):
TTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTT
Found at i:2414960 original size:93 final size:93
Alignment explanation
Indices: 2414773--2414949 Score: 273
Period size: 93 Copynumber: 1.9 Consensus size: 93
2414763 CTAAACTTTC
** * * *
2414773 TCCTTTCACTTTTTAGTCCTCAAAGAGCAGGACGCCTTTCGAAGCCCACACAAGTTGGTGGCACC
1 TCCTTTCACCCTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACC
2414838 TTCAATCCTCAAAGAGCAGGACACTCTT
66 TTCAATCCTCAAAGAGCAGGACACTCTT
*
2414866 TCCTTTCACCCTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATT
1 TCCTTTCACCCTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-C
* *
2414931 TTTCAGTCCTCAAAGAGCA
65 CTTCAATCCTCAAAGAGCA
2414950 TGATGCCTTT
Statistics
Matches: 75, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
93 58 0.77
94 17 0.23
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.25
Consensus pattern (93 bp):
TCCTTTCACCCTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACC
TTCAATCCTCAAAGAGCAGGACACTCTT
Found at i:2414961 original size:26 final size:26
Alignment explanation
Indices: 2414931--2415013 Score: 62
Period size: 26 Copynumber: 3.1 Consensus size: 26
2414921 TGGTGGCATT
2414931 TTTCAGTCCTCAAAGAGCATGATGCC
1 TTTCAGTCCTCAAAGAGCATGATGCC
* * * *
2414957 TTTCAAAGCCCACACA-AGC-TGGTGGCAC
1 TTTC--AGTCCTCAAAGAGCATGAT-GC-C
* *
2414985 CTTCAGTCCTCAAAGAGCAGGATGCC
1 TTTCAGTCCTCAAAGAGCATGATGCC
2415011 TTT
1 TTT
2415014 TCCTTTCAAA
Statistics
Matches: 40, Mismatches: 11, Indels: 12
0.63 0.17 0.19
Matches are distributed among these distances:
26 17 0.43
27 10 0.25
28 13 0.32
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (26 bp):
TTTCAGTCCTCAAAGAGCATGATGCC
Found at i:2415086 original size:61 final size:60
Alignment explanation
Indices: 2414900--2415104 Score: 235
Period size: 61 Copynumber: 3.5 Consensus size: 60
2414890 GAGCAGGACA
*
2414900 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCATGATG------
1 CCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGCAGGATGCTTTCT
* **
2414955 CCTTTCAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTT-T
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCAGTCCTCAAAGAGCAGGATG-CTTTCT
* * * * *
2415015 CCTTTCAAAGCCTACACAAGTTGGTGGCATTTTCCAATCTTTAAAGAGGAGGATGCTTTCT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTT-CAGTCCTCAAAGAGCAGGATGCTTTCT
* *
2415076 CCTTGCAAAGCCCATACAAGTTGGTGGCA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCA
2415105 CCATCTAGTC
Statistics
Matches: 127, Mismatches: 15, Indels: 10
0.84 0.10 0.07
Matches are distributed among these distances:
54 22 0.17
55 28 0.22
60 33 0.26
61 44 0.35
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.27
Consensus pattern (60 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCAGTCCTCAAAGAGCAGGATGCTTTCT
Found at i:2415746 original size:20 final size:20
Alignment explanation
Indices: 2415721--2415794 Score: 105
Period size: 20 Copynumber: 3.7 Consensus size: 20
2415711 TTTACCCAGA
2415721 TGTATCGATACATTGTTCAT
1 TGTATCGATACATTGTTCAT
2415741 TGTATCGATACATTGTTCAT
1 TGTATCGATACATTGTTCAT
* *
2415761 TGTATCAATACATT-TTACAA
1 TGTATCGATACATTGTT-CAT
*
2415781 TGTGTCGATACATT
1 TGTATCGATACATT
2415795 CAGGCATTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
19 2 0.04
20 47 0.96
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATTGTTCAT
Found at i:2418177 original size:28 final size:28
Alignment explanation
Indices: 2418141--2418196 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
2418131 ATTTTTCACA
2418141 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
2418169 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
2418197 CGAGGAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.21, C:0.32, G:0.18, T:0.29
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATTTC
Found at i:2418252 original size:79 final size:78
Alignment explanation
Indices: 2418169--2418349 Score: 204
Period size: 79 Copynumber: 2.3 Consensus size: 78
2418159 CCGTTATTTC
* * *
2418169 ATCGGGGATACTCCAACCCCGTTATTTCCGA-GGAAATATTCTAACCCCGGCTTTATTTCTAAAA
1 ATCGGGGATACTCCAACCCCGTTATTTCC-ACGGAAATACTCCAACCCCGGCCTTATTTCTAAAA
* **
2418233 TATTGATTTCTCACA-
65 CACCGATTT-TC-CAT
* * * * * *
2418248 ATCGGGGACACTCCAACCCCATTATTTTCACGGAGATACTCCAACCCTGGCCTTATTTCTAAAGC
1 ATCGGGGATACTCCAACCCCGTTATTTCCACGGAAATACTCCAACCCCGGCCTTATTTCTAAAAC
2418313 ACCGATTTTCCAT
66 ACCGATTTTCCAT
2418326 ATTCGGGGATACTCCAACCCCGTT
1 A-TCGGGGATACTCCAACCCCGTT
2418350 GTTATCCCTA
Statistics
Matches: 85, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
77 2 0.02
78 4 0.05
79 79 0.93
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.30
Consensus pattern (78 bp):
ATCGGGGATACTCCAACCCCGTTATTTCCACGGAAATACTCCAACCCCGGCCTTATTTCTAAAAC
ACCGATTTTCCAT
Found at i:2419671 original size:13 final size:13
Alignment explanation
Indices: 2419653--2419678 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2419643 ACAATATTCT
2419653 TTGTATCGATACA
1 TTGTATCGATACA
2419666 TTGTATCGATACA
1 TTGTATCGATACA
2419679 AGGGTTACTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2421600 original size:52 final size:53
Alignment explanation
Indices: 2421522--2421627 Score: 171
Period size: 53 Copynumber: 2.0 Consensus size: 53
2421512 TTGTTTTGAA
*
2421522 AATAAATTTTTATCAAGGAGGAG-AAAATCTTTTTAACCGATTATCAAGGGGG
1 AATAAACTTTTATCAAGGAGGAGAAAAATCTTTTTAACCGATTATCAAGGGGG
*
2421574 AATAAACTTTTATCAAAGGA-GAGAAAAATCTTTTTAACTGATTATCAAGGGGG
1 AATAAACTTTTATC-AAGGAGGAGAAAAATCTTTTTAACCGATTATCAAGGGGG
2421627 A
1 A
2421628 GAAAAATTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
52 16 0.32
53 34 0.68
ACGTcount: A:0.41, C:0.09, G:0.20, T:0.30
Consensus pattern (53 bp):
AATAAACTTTTATCAAGGAGGAGAAAAATCTTTTTAACCGATTATCAAGGGGG
Found at i:2421653 original size:53 final size:51
Alignment explanation
Indices: 2421525--2421653 Score: 161
Period size: 53 Copynumber: 2.4 Consensus size: 51
2421515 TTTTGAAAAT
* *
2421525 AAATTTTTATCAAGGAGGAGAAAATCTTTTTAACCGATTATCAAGGGGGAAT
1 AAATTTTTATCAAAGAGGA-AAAATCTTTTTAACCGATTATCAAGGGGGAAA
* *
2421577 AAACTTTTATCAAAGGAGAGAAAAATCTTTTTAACTGATTATCAAGGGGGAGAA
1 AAATTTTTATCAAA-GAG-GAAAAATCTTTTTAACCGATTATCAAGGGGGA-AA
2421631 AAATTTTTTTATCAAAG-GGAAAA
1 AAA--TTTTTATCAAAGAGGAAAA
2421654 TTTTTTGAGA
Statistics
Matches: 67, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
52 12 0.18
53 37 0.55
54 7 0.10
55 1 0.01
56 10 0.15
ACGTcount: A:0.42, C:0.09, G:0.19, T:0.30
Consensus pattern (51 bp):
AAATTTTTATCAAAGAGGAAAAATCTTTTTAACCGATTATCAAGGGGGAAA
Found at i:2422246 original size:13 final size:13
Alignment explanation
Indices: 2422228--2422252 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2422218 CATTATGCTT
2422228 TGTATCGATACAA
1 TGTATCGATACAA
2422241 TGTATCGATACA
1 TGTATCGATACA
2422253 TGTTCATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2422250 original size:33 final size:32
Alignment explanation
Indices: 2422208--2422271 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
2422198 CACACCCAGG
*
2422208 TGTATCGATACAT-TATGCTTTGTATCGATACAA
1 TGTATCGATACATGT-T-CATTGTATCGATACAA
2422241 TGTATCGATACATGTTCATTGTATCGATACA
1 TGTATCGATACATGTTCATTGTATCGATACA
2422272 TGAAACTGGC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 14 0.48
33 14 0.48
34 1 0.03
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATGTTCATTGTATCGATACAA
Found at i:2422341 original size:13 final size:13
Alignment explanation
Indices: 2422323--2422347 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2422313 CATGGCACAT
2422323 TGTATTGATACAA
1 TGTATTGATACAA
2422336 TGTATTGATACA
1 TGTATTGATACA
2422348 TGATGAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (13 bp):
TGTATTGATACAA
Found at i:2423348 original size:29 final size:29
Alignment explanation
Indices: 2423325--2423408 Score: 141
Period size: 29 Copynumber: 2.9 Consensus size: 29
2423315 ATTGACCCTT
*
2423325 AAACTTTTCAAAATTACACTTTGATCTCA
1 AAACTTTTCAAAATTACACTTTGACCTCA
*
2423354 AAACTTTTCAAAATTACACTTTGACCTCG
1 AAACTTTTCAAAATTACACTTTGACCTCA
*
2423383 AAACTTTTCAAAATTACATTTTGACC
1 AAACTTTTCAAAATTACACTTTGACC
2423409 CTAAAATGGC
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.37, C:0.21, G:0.05, T:0.37
Consensus pattern (29 bp):
AAACTTTTCAAAATTACACTTTGACCTCA
Done.