Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 106 of 208
Found at i:35277250 original size:20 final size:21
Alignment explanation
Indices: 35277192--35277259 Score: 93
Period size: 21 Copynumber: 3.3 Consensus size: 21
35277182 CAACAACTTA
* * *
35277192 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCTGCAGCAAGAG
*
35277213 AAGCAGAGGCTACAGCAAGAG
1 AAGCAGAGGCTGCAGCAAGAG
35277234 AAGCAGA-GCTGCAGCAAGAG
1 AAGCAGAGGCTGCAGCAAGAG
35277254 AAGCAG
1 AAGCAG
35277260 CGAGAGAAGC
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 18 0.43
21 24 0.57
ACGTcount: A:0.38, C:0.19, G:0.40, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCAAGAG
Found at i:35277273 original size:12 final size:12
Alignment explanation
Indices: 35277244--35277283 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
35277234 AAGCAGAGCT
*
35277244 GCAGCAAGAGAA
1 GCAGCGAGAGAA
35277256 GCAGCGAGAGAA
1 GCAGCGAGAGAA
**
35277268 GCAGCGTTAGAA
1 GCAGCGAGAGAA
35277280 GCAG
1 GCAG
35277284 AGGTTCAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.40, C:0.17, G:0.38, T:0.05
Consensus pattern (12 bp):
GCAGCGAGAGAA
Found at i:35277819 original size:43 final size:43
Alignment explanation
Indices: 35277717--35277840 Score: 155
Period size: 42 Copynumber: 2.9 Consensus size: 43
35277707 GTTTGTGAAA
* * *
35277717 TAAGCACCGCTAAAGAACACTACTTTTAGCGGCATTTTTGACC
1 TAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTGACC
* *
35277760 -AAGCGCCGCTATAGAACATTACTTTTAGCGGCGTTTTCT-TCC
1 TAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTT-TGACC
*
35277802 TAAGCGCCGCTAAAGAACATGA-TCTTTAGCGGCGTTTTT
1 TAAGCGCCGCTAAAGAACATTACT-TTTAGCGGCGTTTTT
35277841 TTCTGTAAGC
Statistics
Matches: 71, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
42 37 0.52
43 34 0.48
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (43 bp):
TAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTGACC
Found at i:35280852 original size:53 final size:53
Alignment explanation
Indices: 35280776--35280956 Score: 203
Period size: 53 Copynumber: 3.7 Consensus size: 53
35280766 TTAGATTTTG
35280776 TTAC-AACAATTAATACAATTAACAATTAATAATTTGATATAATTTGATAATT
1 TTACTAACAATTAATACAATTAACAATTAATAATTTGATATAATTTGATAATT
* * *
35280828 TTACTAACAATTAATACAATTAACAATTAATAATTT--TACTAA---AAAAATG
1 TTACTAACAATTAATACAATTAACAATTAATAATTTGATA-TAATTTGATAATT
*
35280877 TTAGTAACAA-T--T--AA-T---AATTAATAATTTGATATAATTTGATAATT
1 TTACTAACAATTAATACAATTAACAATTAATAATTTGATATAATTTGATAATT
*
35280921 TTAGTAACAATTAATACAATTAACAATTAATAATTT
1 TTACTAACAATTAATACAATTAACAATTAATAATTT
35280957 TACTAGTAAA
Statistics
Matches: 106, Mismatches: 7, Indels: 31
0.74 0.05 0.22
Matches are distributed among these distances:
40 12 0.11
41 3 0.03
42 2 0.02
43 1 0.01
44 16 0.15
45 1 0.01
46 1 0.01
47 1 0.01
48 1 0.01
49 15 0.14
50 1 0.01
51 2 0.02
52 7 0.07
53 43 0.41
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.40
Consensus pattern (53 bp):
TTACTAACAATTAATACAATTAACAATTAATAATTTGATATAATTTGATAATT
Found at i:35280898 original size:93 final size:93
Alignment explanation
Indices: 35280790--35280973 Score: 332
Period size: 93 Copynumber: 2.0 Consensus size: 93
35280780 AACAATTAAT
35280790 ACAATTAACAATTAATAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAAT
1 ACAATTAACAATTAATAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAAT
35280855 TAATAATTTTACTAAAAAAATGTTAGTA
66 TAATAATTTTACTAAAAAAATGTTAGTA
* *
35280883 ACAATTAATAATTAATAATTTGATATAATTTGATAATTTTAGTAACAATTAATACAATTAACAAT
1 ACAATTAACAATTAATAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAAT
**
35280948 TAATAATTTTACTAGTAAAATGTTAG
66 TAATAATTTTACTAAAAAAATGTTAG
35280974 ATTTTACAAA
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 87 1.00
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.40
Consensus pattern (93 bp):
ACAATTAACAATTAATAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAAT
TAATAATTTTACTAAAAAAATGTTAGTA
Found at i:35281438 original size:21 final size:23
Alignment explanation
Indices: 35281414--35281455 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
35281404 TAGAAATTAA
35281414 ATTATA-A-ATTATTTTTTATAC
1 ATTATACATATTATTTTTTATAC
*
35281435 ATTATACATTTTATTTTTTAT
1 ATTATACATATTATTTTTTAT
35281456 TTTTTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 1 0.06
23 11 0.61
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (23 bp):
ATTATACATATTATTTTTTATAC
Found at i:35281781 original size:43 final size:41
Alignment explanation
Indices: 35281716--35281852 Score: 161
Period size: 42 Copynumber: 3.2 Consensus size: 41
35281706 AAAGGCATTT
*
35281716 GCGGCGCTTGGGAAAAAACGCCGCT-AAAGATCATGTTCTTTA
1 GCGGCGCTTAGGAAAAAACGCCGCTAAAAG-T-ATGTTCTTTA
*
35281758 GCGGCGCTTAGGAAGAAAACGCCGCTAAAAGTAATGTTCTGTA
1 GCGGCGCTTAGGAA-AAAACGCCGCTAAAAGT-ATGTTCTTTA
* *
35281801 GCGGCGCTT-GGTCAAAAATGCCGCTAAAAGTAGTGTTCTTTA
1 GCGGCGCTTAGG-AAAAAACGCCGCTAAAAGTA-TGTTCTTTA
*
35281843 GCGGTGCTTA
1 GCGGCGCTTA
35281853 TTTCACAAAC
Statistics
Matches: 83, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
41 1 0.01
42 47 0.57
43 31 0.37
44 4 0.05
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (41 bp):
GCGGCGCTTAGGAAAAAACGCCGCTAAAAGTATGTTCTTTA
Found at i:35282325 original size:21 final size:21
Alignment explanation
Indices: 35282299--35282366 Score: 91
Period size: 21 Copynumber: 3.2 Consensus size: 21
35282289 CTTCTATCGT
*
35282299 TGCTTCTCTCGCTGCGGCCTC
1 TGCTTCTCTCGCTGCAGCCTC
* *
35282320 TGCTTCTTTCGCTGTAGCCTC
1 TGCTTCTCTCGCTGCAGCCTC
* *
35282341 TGCTTCCCTCGCTGCCGCCTC
1 TGCTTCTCTCGCTGCAGCCTC
35282362 TGCTT
1 TGCTT
35282367 TAAGTTGTTG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.01, C:0.41, G:0.21, T:0.37
Consensus pattern (21 bp):
TGCTTCTCTCGCTGCAGCCTC
Found at i:35287859 original size:16 final size:16
Alignment explanation
Indices: 35287848--35287916 Score: 84
Period size: 16 Copynumber: 4.1 Consensus size: 16
35287838 AGTTATGAAG
35287848 GTTATGTATTATGTAA
1 GTTATGTATTATGTAA
*
35287864 GTTGTGTATTATGTAA
1 GTTATGTATTATGTAA
35287880 GTTATGTAAGTTATGTAA
1 GTTATGT-A-TTATGTAA
**
35287898 GTTAAATATTTATGTAA
1 GTTATGTA-TTATGTAA
35287915 GT
1 GT
35287917 CCGACAACTT
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
16 21 0.46
17 12 0.26
18 13 0.28
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (16 bp):
GTTATGTATTATGTAA
Found at i:35287871 original size:9 final size:9
Alignment explanation
Indices: 35287838--35287901 Score: 75
Period size: 9 Copynumber: 7.6 Consensus size: 9
35287828 AGTATATATG
35287838 AGTTATG-A
1 AGTTATGTA
35287846 AGGTTATGT-
1 A-GTTATGTA
35287855 A-TTATGTA
1 AGTTATGTA
*
35287863 AGTTGTGT-
1 AGTTATGTA
35287871 A-TTATGTA
1 AGTTATGTA
35287879 AGTTATGTA
1 AGTTATGTA
35287888 AGTTATGTA
1 AGTTATGTA
35287897 AGTTA
1 AGTTA
35287902 AATATTTATG
Statistics
Matches: 48, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
7 11 0.23
8 4 0.08
9 33 0.69
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.45
Consensus pattern (9 bp):
AGTTATGTA
Found at i:35288001 original size:9 final size:9
Alignment explanation
Indices: 35287975--35288069 Score: 90
Period size: 9 Copynumber: 10.6 Consensus size: 9
35287965 TATCATATTA
35287975 ATGTAAGTT
1 ATGTAAGTT
35287984 ATGT-A-TT
1 ATGTAAGTT
*
35287991 ATATAAGTT
1 ATGTAAGTT
*
35288000 ATTTAAGTT
1 ATGTAAGTT
35288009 ATGTAAGTT
1 ATGTAAGTT
*
35288018 GTGTAAGTT
1 ATGTAAGTT
*
35288027 ATGTATACTATT
1 ATGTA-A--GTT
35288039 AATGTAAGTT
1 -ATGTAAGTT
35288049 ATGT-A-TT
1 ATGTAAGTT
35288056 ATGTAAGTT
1 ATGTAAGTT
35288065 ATGTA
1 ATGTA
35288070 TAATATTAAT
Statistics
Matches: 71, Mismatches: 7, Indels: 16
0.76 0.07 0.17
Matches are distributed among these distances:
7 11 0.15
8 4 0.06
9 45 0.63
10 3 0.04
12 3 0.04
13 5 0.07
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.47
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:35288015 original size:18 final size:18
Alignment explanation
Indices: 35287975--35288069 Score: 90
Period size: 16 Copynumber: 5.3 Consensus size: 18
35287965 TATCATATTA
35287975 ATGTAAGTTATGT-A-TT
1 ATGTAAGTTATGTAAGTT
* *
35287991 ATATAAGTTATTTAAGTT
1 ATGTAAGTTATGTAAGTT
*
35288009 ATGTAAGTTGTGTAAGTT
1 ATGTAAGTTATGTAAGTT
*
35288027 ATGTATACTATTAATGTAAGTT
1 ATGTA-A--GTT-ATGTAAGTT
35288049 ATGT-A-TTATGTAAGTT
1 ATGTAAGTTATGTAAGTT
35288065 ATGTA
1 ATGTA
35288070 TAATATTAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 13
0.76 0.08 0.15
Matches are distributed among these distances:
16 24 0.37
17 3 0.05
18 22 0.34
19 1 0.02
20 1 0.02
21 2 0.03
22 12 0.18
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.47
Consensus pattern (18 bp):
ATGTAAGTTATGTAAGTT
Found at i:35288047 original size:22 final size:21
Alignment explanation
Indices: 35287953--35288101 Score: 107
Period size: 22 Copynumber: 7.1 Consensus size: 21
35287943 TAATTTAGTT
* *
35287953 ATGTACGTTACGTATCATATTA
1 ATGTAAGTTATGTAT-ATATTA
*
35287975 ATGTAAGTTATGTATTATATAAGTT
1 ATGTAAGTTATGTA-TATAT---TA
* *
35288000 ATTTAAGTTATGTA-A-GTT-
1 ATGTAAGTTATGTATATATTA
*
35288018 GTGTAAGTTATGTATACTATTA
1 ATGTAAGTTATGTATA-TATTA
35288040 ATGTAAGTTATG----TATT-
1 ATGTAAGTTATGTATATATTA
35288056 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTAT-ATATTA
*
35288078 ATGTAAGTTATGTATTATGTTA
1 ATGTAAGTTATGTA-TATATTA
35288100 AT
1 AT
35288102 ATTTAGAAAA
Statistics
Matches: 102, Mismatches: 10, Indels: 30
0.72 0.07 0.21
Matches are distributed among these distances:
16 12 0.12
17 4 0.04
18 12 0.12
19 2 0.02
21 6 0.06
22 49 0.48
23 3 0.03
25 14 0.14
ACGTcount: A:0.34, C:0.03, G:0.16, T:0.47
Consensus pattern (21 bp):
ATGTAAGTTATGTATATATTA
Found at i:35288067 original size:38 final size:38
Alignment explanation
Indices: 35287970--35288097 Score: 159
Period size: 38 Copynumber: 3.2 Consensus size: 38
35287960 TTACGTATCA
*
35287970 TATTAATGTAAGTTATGTATTATATAAGTT-ATTTAAGTTATG
1 TATT-ATGTAAGTTATGTA-TA-AT-A-TTAATGTAAGTTATG
* *
35288012 TAAGTTGTGTAAGTTATGTATACTATTAATGTAAGTTATG
1 T-A-TTATGTAAGTTATGTATAATATTAATGTAAGTTATG
35288052 TATTATGTAAGTTATGTATAATATTAATGTAAGTTATG
1 TATTATGTAAGTTATGTATAATATTAATGTAAGTTATG
35288090 TATTATGT
1 TATTATGT
35288098 TAATATTTAG
Statistics
Matches: 78, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
38 42 0.54
39 3 0.04
40 13 0.17
41 1 0.01
42 3 0.04
43 14 0.18
44 2 0.03
ACGTcount: A:0.34, C:0.01, G:0.16, T:0.48
Consensus pattern (38 bp):
TATTATGTAAGTTATGTATAATATTAATGTAAGTTATG
Found at i:35288927 original size:16 final size:16
Alignment explanation
Indices: 35288906--35288936 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
35288896 TATGGAACCA
35288906 TATTAAATAATACTAG
1 TATTAAATAATACTAG
35288922 TATTAAATAATACTA
1 TATTAAATAATACTA
35288937 TTTGCATTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (16 bp):
TATTAAATAATACTAG
Found at i:35289431 original size:26 final size:26
Alignment explanation
Indices: 35289402--35289459 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
35289392 TTAGATTTAT
*
35289402 ATTATTTTATAAGCTATAGAGTAAGA
1 ATTATTTGATAAGCTATAGAGTAAGA
*
35289428 ATTATTTGATAAGCTATAGAGTGAGA
1 ATTATTTGATAAGCTATAGAGTAAGA
35289454 ATTATT
1 ATTATT
35289460 ATGCAACGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.40, C:0.03, G:0.17, T:0.40
Consensus pattern (26 bp):
ATTATTTGATAAGCTATAGAGTAAGA
Found at i:35290571 original size:13 final size:13
Alignment explanation
Indices: 35290555--35290588 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
35290545 GGGGATTTTT
35290555 GGGGAAAATTTGG
1 GGGGAAAATTTGG
**
35290568 GGGGAATTTTTGG
1 GGGGAAAATTTGG
35290581 GGGGAAAA
1 GGGGAAAA
35290589 GTGATTTGTC
Statistics
Matches: 17, Mismatches: 4, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.47, T:0.24
Consensus pattern (13 bp):
GGGGAAAATTTGG
Found at i:35291366 original size:19 final size:20
Alignment explanation
Indices: 35291339--35291379 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
35291329 AAAATTTTAA
35291339 TTAAATAAT-TATTAAAA-TT
1 TTAAATAATAT-TTAAAAGTT
*
35291358 TTAAGTAATATTTAAAAGTT
1 TTAAATAATATTTAAAAGTT
35291378 TT
1 TT
35291380 TGATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (20 bp):
TTAAATAATATTTAAAAGTT
Found at i:35292114 original size:7 final size:7
Alignment explanation
Indices: 35292102--35292214 Score: 109
Period size: 7 Copynumber: 15.3 Consensus size: 7
35292092 ACCCTTGACA
35292102 CCCTAAC
1 CCCTAAC
35292109 CCCTAAC
1 CCCTAAC
35292116 CCCTAAC
1 CCCTAAC
35292123 CCCTAAC
1 CCCTAAC
35292130 CCCTAAC
1 CCCTAAC
35292137 CCCTAAATC
1 CCCT-AA-C
*
35292146 CCTCTAAA
1 CC-CTAAC
35292154 CCCTAAC
1 CCCTAAC
* *
35292161 CTCTTAAAT
1 C-CCT-AAC
*
35292170 CACTAAC
1 CCCTAAC
*
35292177 CCTTAAC
1 CCCTAAC
35292184 CCCTAAC
1 CCCTAAC
*
35292191 CCCTAAAT
1 CCCT-AAC
*
35292199 TCCTAAC
1 CCCTAAC
35292206 CCCTAAC
1 CCCTAAC
35292213 CC
1 CC
35292215 TTAAACCTTA
Statistics
Matches: 86, Mismatches: 14, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
7 64 0.74
8 12 0.14
9 8 0.09
10 2 0.02
ACGTcount: A:0.31, C:0.49, G:0.00, T:0.20
Consensus pattern (7 bp):
CCCTAAC
Found at i:35292184 original size:54 final size:51
Alignment explanation
Indices: 35292101--35292219 Score: 150
Period size: 54 Copynumber: 2.3 Consensus size: 51
35292091 TACCCTTGAC
* * *
35292101 ACCCTAACCCCT-AACCCCTAACCCCTAACCCCTAACCCCTAAATCCCTCTAA
1 ACCCTAACCCTTAAATCACTAACCCCTAACCCCTAACCCCTAAAT-CC-CTAA
* *
35292153 ACCCTAACCTCTTAAATCACTAACCCTTAACCCCTAACCCCTAAATTCCTAA
1 ACCCTAACC-CTTAAATCACTAACCCCTAACCCCTAACCCCTAAATCCCTAA
*
35292205 CCCCTAACCCTTAAA
1 ACCCTAACCCTTAAA
35292220 CCTTAATCCC
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
51 6 0.10
52 21 0.36
53 3 0.05
54 29 0.49
ACGTcount: A:0.33, C:0.46, G:0.00, T:0.21
Consensus pattern (51 bp):
ACCCTAACCCTTAAATCACTAACCCCTAACCCCTAACCCCTAAATCCCTAA
Found at i:35297064 original size:42 final size:44
Alignment explanation
Indices: 35297006--35297091 Score: 142
Period size: 42 Copynumber: 2.0 Consensus size: 44
35296996 TTTAGCAAAT
35297006 TTTGAAGACTAATGTAAAAAAAATTAGTA-TG-AAAATTGTAAAA
1 TTTGAAGACTAATGTAAAAAAAATTAGTATTGTAAAATT-TAAAA
35297049 TTTGAAGA-TAATGTAAAAAAAATTAGTATTGTAAAATTTAAAA
1 TTTGAAGACTAATGTAAAAAAAATTAGTATTGTAAAATTTAAAA
35297092 AACACACACA
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
42 20 0.49
43 15 0.37
44 6 0.15
ACGTcount: A:0.53, C:0.01, G:0.13, T:0.33
Consensus pattern (44 bp):
TTTGAAGACTAATGTAAAAAAAATTAGTATTGTAAAATTTAAAA
Found at i:35302326 original size:39 final size:36
Alignment explanation
Indices: 35302255--35302328 Score: 103
Period size: 39 Copynumber: 2.0 Consensus size: 36
35302245 TCCCTTATTC
*
35302255 TTTTTTTAATGAAAAAGAATTACATGACACAACCTT
1 TTTTTTTAATGAAAAAGAATTACAAGACACAACCTT
*
35302291 TTTTTTTATGATGAAAAAGAAATTATAAGACACAACCT
1 TTTTTTTA--ATGAAAAAG-AATTACAAGACACAACCT
35302329 ACATAGGTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
36 8 0.24
38 9 0.27
39 16 0.48
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.35
Consensus pattern (36 bp):
TTTTTTTAATGAAAAAGAATTACAAGACACAACCTT
Found at i:35310926 original size:50 final size:50
Alignment explanation
Indices: 35310871--35311065 Score: 273
Period size: 50 Copynumber: 3.9 Consensus size: 50
35310861 CATTGAGATT
*
35310871 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
* * *
35310921 ATGAGAGGTCTCATGTAAGACCATGCCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
* ** * *
35310971 ATGAAAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGAA
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
** * *
35311021 ATGAGAAATCCCATGTAAGACCATGTCTAGGATATGGCATTGGCA
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
35311066 GTATAGAAAA
Statistics
Matches: 127, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 127 1.00
ACGTcount: A:0.27, C:0.22, G:0.31, T:0.20
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
Found at i:35311005 original size:100 final size:103
Alignment explanation
Indices: 35310822--35311065 Score: 305
Period size: 100 Copynumber: 2.4 Consensus size: 103
35310812 AGGGAATGAG
* * * *
35310822 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGACATCATTGAGATTATGAGAGGTCCCATGT
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCA-CGAG--TATGAAAGGTCCCACGT
* * * *
35310887 AAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAG
63 AAGACCATGTCTGGGACATGGCATGGGCACCGAAATGAGAA
* * * * *
35310928 GTCTCATGTAAGACCATGCCTGGGACATGGCGTTGGCA-C-CGAG-ATGAAAGGTCCCCCGTAAG
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCACGAGTATGAAAGGTCCCACGTAAG
35310990 ACCATGTCTGGGACATGGCATGGGCACCGAAATGAGAA
66 ACCATGTCTGGGACATGGCATGGGCACCGAAATGAGAA
* *
35311028 ATCCCATGTAAGACCATGTCTAGGATATGGCATTGGCA
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
35311066 GTATAGAAAA
Statistics
Matches: 119, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
100 82 0.69
103 3 0.03
105 1 0.01
106 33 0.28
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (103 bp):
ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCACGAGTATGAAAGGTCCCACGTAAG
ACCATGTCTGGGACATGGCATGGGCACCGAAATGAGAA
Found at i:35321401 original size:21 final size:21
Alignment explanation
Indices: 35321372--35321422 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
35321362 TTCGACACTT
* *
35321372 AGTATGATCTATGATAAGATA
1 AGTAAGATCTATAATAAGATA
* *
35321393 AGTACGATCTATAATATGATA
1 AGTAAGATCTATAATAAGATA
35321414 AGTAAGATC
1 AGTAAGATC
35321423 CATATTTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.43, C:0.08, G:0.18, T:0.31
Consensus pattern (21 bp):
AGTAAGATCTATAATAAGATA
Found at i:35333119 original size:40 final size:40
Alignment explanation
Indices: 35333015--35333122 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 40
35333005 TGTGTGCTTA
* *
35333015 TCTTATTAGCACTACGGTGCTCCTGATAGTACCTTCGTAC
1 TCTTGTTAGCACTACAGTGCTCCTGATAGTACCTTCGTAC
* * ** *
35333055 TCCTGTTAGCATTATTGTGCTCCTGATAGTA-CTTATGTAC
1 TCTTGTTAGCACTACAGTGCTCCTGATAGTACCTT-CGTAC
* *
35333095 TCTTGTTAGCACGACAGTGTTCCTGATA
1 TCTTGTTAGCACTACAGTGCTCCTGATA
35333123 TCATGTTCAT
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
39 3 0.05
40 52 0.95
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.38
Consensus pattern (40 bp):
TCTTGTTAGCACTACAGTGCTCCTGATAGTACCTTCGTAC
Found at i:35338638 original size:17 final size:16
Alignment explanation
Indices: 35338604--35338652 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 16
35338594 AAAACCTGCA
35338604 GTTTTTTTTATTTGTTGT
1 GTTTTTTTT-TTT-TTGT
35338622 -TTTTATTGTTTTTTTGT
1 GTTTT-TT-TTTTTTTGT
35338639 GTTTTTTTTTTTTT
1 GTTTTTTTTTTTTT
35338653 ACTATTTTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
16 7 0.25
17 10 0.36
18 9 0.32
19 2 0.07
ACGTcount: A:0.04, C:0.00, G:0.12, T:0.84
Consensus pattern (16 bp):
GTTTTTTTTTTTTTGT
Found at i:35338899 original size:13 final size:13
Alignment explanation
Indices: 35338874--35338911 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
35338864 TTATATTTTT
35338874 TAAAAAATT-ATA
1 TAAAAAATTAATA
*
35338886 TAAAAATTTAATA
1 TAAAAAATTAATA
35338899 TAAAAAATTAATA
1 TAAAAAATTAATA
35338912 CGGGTCGGGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 8 0.35
13 15 0.65
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
TAAAAAATTAATA
Found at i:35339556 original size:35 final size:35
Alignment explanation
Indices: 35339517--35339617 Score: 125
Period size: 35 Copynumber: 2.9 Consensus size: 35
35339507 GACAAAAGTG
* *
35339517 ACCTTAAAGAGGTTGAGGTAGACCCGTCTAA-GACA
1 ACCTTAAAAAGGTTGAGGTAGACACGTCTAAGGA-A
* *
35339552 ACCTTAAAAAGGTTG-GGATATACTCGTCTAAGGAA
1 ACCTTAAAAAGGTTGAGG-TAGACACGTCTAAGGAA
*
35339587 ACCTTAAAAAGGTTGAGATAGACACGTCTAA
1 ACCTTAAAAAGGTTGAGGTAGACACGTCTAA
35339618 TAGGGTAGAC
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
34 2 0.04
35 52 0.91
36 3 0.05
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.23
Consensus pattern (35 bp):
ACCTTAAAAAGGTTGAGGTAGACACGTCTAAGGAA
Found at i:35341773 original size:16 final size:16
Alignment explanation
Indices: 35341754--35341796 Score: 86
Period size: 16 Copynumber: 2.7 Consensus size: 16
35341744 CCAAAATGAA
35341754 AGTGACCAAAAAGTTG
1 AGTGACCAAAAAGTTG
35341770 AGTGACCAAAAAGTTG
1 AGTGACCAAAAAGTTG
35341786 AGTGACCAAAA
1 AGTGACCAAAA
35341797 TAAAAGTGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.47, C:0.14, G:0.23, T:0.16
Consensus pattern (16 bp):
AGTGACCAAAAAGTTG
Found at i:35343086 original size:20 final size:20
Alignment explanation
Indices: 35343058--35343113 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
35343048 ATTATAAAAT
*
35343058 AATTCAAAATAATTTTTAAA
1 AATTTAAAATAATTTTTAAA
*
35343078 AATTTAAAAT-ATTTATAAA
1 AATTTAAAATAATTTTTAAA
*
35343097 AA-TTACAATATATTTTT
1 AATTTAAAATA-ATTTTT
35343114 TTAAAATAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
18 6 0.20
19 10 0.33
20 14 0.47
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.45
Consensus pattern (20 bp):
AATTTAAAATAATTTTTAAA
Found at i:35343096 original size:19 final size:20
Alignment explanation
Indices: 35343058--35343100 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
35343048 ATTATAAAAT
*
35343058 AATTCAAAATAATTTTTAAA
1 AATTCAAAATAATTTATAAA
*
35343078 AATTTAAAAT-ATTTATAAA
1 AATTCAAAATAATTTATAAA
35343097 AATT
1 AATT
35343101 ACAATATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (20 bp):
AATTCAAAATAATTTATAAA
Found at i:35343360 original size:21 final size:21
Alignment explanation
Indices: 35343336--35343393 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
35343326 ATTTCACTCG
*
35343336 ATTCGACTCGACTCGAATTTC
1 ATTCCACTCGACTCGAATTTC
* *
35343357 ATTCTACTCGACTCAAATTTC
1 ATTCCACTCGACTCGAATTTC
35343378 ATTCCACTCGACTCGA
1 ATTCCACTCGACTCGA
35343394 TTTGAAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.26, C:0.31, G:0.10, T:0.33
Consensus pattern (21 bp):
ATTCCACTCGACTCGAATTTC
Found at i:35344335 original size:23 final size:20
Alignment explanation
Indices: 35344278--35344322 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
35344268 TTTCTCTCCA
35344278 CTTTTCAATCGATTGTTTCT
1 CTTTTCAATCGATTGTTTCT
* *
35344298 CTTTTCAATTGATTGCTTCT
1 CTTTTCAATCGATTGTTTCT
35344318 CTTTT
1 CTTTT
35344323 TTTTAATCGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.13, C:0.20, G:0.09, T:0.58
Consensus pattern (20 bp):
CTTTTCAATCGATTGTTTCT
Found at i:35349797 original size:13 final size:13
Alignment explanation
Indices: 35349779--35349809 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
35349769 TCACACGGCT
35349779 TGTGACACAGACG
1 TGTGACACAGACG
*
35349792 TGTGACACAGCCG
1 TGTGACACAGACG
35349805 TGTGA
1 TGTGA
35349810 GGCACACGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.26, C:0.23, G:0.32, T:0.19
Consensus pattern (13 bp):
TGTGACACAGACG
Found at i:35353428 original size:21 final size:21
Alignment explanation
Indices: 35353395--35353443 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
35353385 ACACTCTCTA
* *
35353395 AACTGCTCTTGCAGACTCC-AG
1 AACTGTTCCTGCA-ACTCCGAG
*
35353416 AATTGTTCCTGCAACTCCGAG
1 AACTGTTCCTGCAACTCCGAG
35353437 AACTGTT
1 AACTGTT
35353444 GAGAGCTGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (21 bp):
AACTGTTCCTGCAACTCCGAG
Found at i:35355140 original size:10 final size:9
Alignment explanation
Indices: 35355125--35355163 Score: 51
Period size: 10 Copynumber: 4.1 Consensus size: 9
35355115 AAACTAAACT
35355125 AATTATATAA
1 AATTATA-AA
35355135 AATTATAAA
1 AATTATAAA
35355144 AACTTATAAA
1 AA-TTATAAA
*
35355154 AATTCTAAA
1 AATTATAAA
35355163 A
1 A
35355164 CAATTCTAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
9 11 0.41
10 16 0.59
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (9 bp):
AATTATAAA
Found at i:35355164 original size:18 final size:20
Alignment explanation
Indices: 35355127--35355163 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
35355117 ACTAAACTAA
35355127 TTATATAAAATTATAAAAAC
1 TTATATAAAATTATAAAAAC
*
35355147 TTATA-AAAATTCTAAAA
1 TTATATAAAATTATAAAA
35355164 CAATTCTAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.35
Consensus pattern (20 bp):
TTATATAAAATTATAAAAAC
Found at i:35355701 original size:22 final size:23
Alignment explanation
Indices: 35355675--35355723 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
35355665 AATTTGATAA
35355675 TTTATTCGAATTTTTAT-A-AATT
1 TTTATT-GAATTTTTATAATAATT
*
35355697 TTTA-TGAATTTTTTTAATAATT
1 TTTATTGAATTTTTATAATAATT
35355719 TTTAT
1 TTTAT
35355724 AAGTTTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 9 0.39
21 2 0.09
22 12 0.52
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (23 bp):
TTTATTGAATTTTTATAATAATT
Found at i:35355709 original size:11 final size:10
Alignment explanation
Indices: 35355683--35355736 Score: 54
Period size: 10 Copynumber: 5.2 Consensus size: 10
35355673 AATTTATTCG
35355683 AATTTTTATA
1 AATTTTTATA
*
35355693 AATTTTTATG
1 AATTTTTATA
*
35355703 AATTTTTTTAA
1 AATTTTTAT-A
35355714 TAATTTTTATA
1 -AATTTTTATA
* *
35355725 AGTTTATATA
1 AATTTTTATA
35355735 AA
1 AA
35355737 AATTTAAATA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
10 26 0.74
11 1 0.03
12 8 0.23
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (10 bp):
AATTTTTATA
Found at i:35355740 original size:22 final size:22
Alignment explanation
Indices: 35355692--35355741 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
35355682 GAATTTTTAT
* *
35355692 AAATTTTTATGAATTTTTTTAA
1 AAATTTTTATGAATTTATATAA
*
35355714 TAATTTTTAT-AAGTTTATATAA
1 AAATTTTTATGAA-TTTATATAA
35355736 AAATTT
1 AAATTT
35355742 AAATATTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (22 bp):
AAATTTTTATGAATTTATATAA
Found at i:35355743 original size:30 final size:32
Alignment explanation
Indices: 35355722--35355785 Score: 85
Period size: 35 Copynumber: 1.9 Consensus size: 32
35355712 AATAATTTTT
35355722 ATAAG-TTTATATAAAAATTTAAATATTATTA
1 ATAAGTTTTATATAAAAATTTAAATATTATTA
*
35355753 ATATGTTTTATATAAAAAACTTATAAATATTAT
1 ATAAGTTTTATAT-AAAAA-TT-TAAATATTAT
35355786 AAAAACCTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 4 0.14
32 7 0.25
33 5 0.18
34 2 0.07
35 10 0.36
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (32 bp):
ATAAGTTTTATATAAAAATTTAAATATTATTA
Found at i:35355827 original size:20 final size:20
Alignment explanation
Indices: 35355763--35355827 Score: 73
Period size: 19 Copynumber: 3.3 Consensus size: 20
35355753 ATATGTTTTA
*
35355763 TATAAAAAACTTATAAATAT
1 TATAATAAACTTATAAATAT
*
35355783 TATAA-AAACCTAT-AATGAT
1 TATAATAAACTTATAAAT-AT
35355802 TATAATAAA-TTATAAATAT
1 TATAATAAACTTATAAATAT
35355821 ATATAAT
1 -TATAAT
35355828 TTTTTATGGA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
18 3 0.08
19 19 0.49
20 17 0.44
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.37
Consensus pattern (20 bp):
TATAATAAACTTATAAATAT
Found at i:35361284 original size:9 final size:9
Alignment explanation
Indices: 35361270--35361354 Score: 116
Period size: 9 Copynumber: 9.4 Consensus size: 9
35361260 TTTGGTTAAA
35361270 AATTAACCG
1 AATTAACCG
35361279 AATTAACCG
1 AATTAACCG
*
35361288 AATTACCCG
1 AATTAACCG
35361297 AATTAACCG
1 AATTAACCG
* * *
35361306 GATTACCCA
1 AATTAACCG
*
35361315 AATTAACCA
1 AATTAACCG
*
35361324 AATTACCCG
1 AATTAACCG
35361333 AATTAACCG
1 AATTAACCG
35361342 AATTAACCG
1 AATTAACCG
35361351 AATT
1 AATT
35361355 GAATCACTAC
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 66 1.00
ACGTcount: A:0.42, C:0.25, G:0.09, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:35361480 original size:18 final size:18
Alignment explanation
Indices: 35361457--35361510 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
35361447 AATTTTTATG
35361457 ATTGGGTTGGGTTGGATA
1 ATTGGGTTGGGTTGGATA
*
35361475 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGGATA
* *
35361493 CTTGGGTTTGGATTGGAT
1 ATTGGG-TTGGGTTGGAT
35361511 TTAGGTGAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
18 22 0.71
19 9 0.29
ACGTcount: A:0.17, C:0.02, G:0.41, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGGATA
Found at i:35369248 original size:22 final size:20
Alignment explanation
Indices: 35369215--35369260 Score: 65
Period size: 22 Copynumber: 2.2 Consensus size: 20
35369205 CTTTCAGTTC
35369215 TTTTATTTTTTTATTTCATT
1 TTTTATTTTTTTATTTCATT
*
35369235 TTTTATTATATTTTATTTTATT
1 TTTTATT-T-TTTTATTTCATT
35369257 TTTT
1 TTTT
35369261 TAGTTTCTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.30
21 1 0.04
22 15 0.65
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTATTTTTTTATTTCATT
Found at i:35370291 original size:20 final size:20
Alignment explanation
Indices: 35370237--35370292 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
35370227 TTTATATTTT
*
35370237 CATATAGTTTTTATATACATA
1 CATATA-TTTTTATACACATA
* *
35370258 CATGT-TCTTATATACACATA
1 CATATAT-TTTTATACACATA
35370278 CATATATTTTTATAC
1 CATATATTTTTATAC
35370293 TTTATAATTC
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
19 1 0.04
20 22 0.79
21 5 0.18
ACGTcount: A:0.36, C:0.14, G:0.04, T:0.46
Consensus pattern (20 bp):
CATATATTTTTATACACATA
Found at i:35375351 original size:9 final size:9
Alignment explanation
Indices: 35375339--35375393 Score: 76
Period size: 9 Copynumber: 6.0 Consensus size: 9
35375329 CAATAAAATT
35375339 AAAAAAAAG
1 AAAAAAAAG
35375348 AAAAAAAA-
1 AAAAAAAAG
35375356 AAGAAAAAAG
1 AA-AAAAAAG
*
35375366 AAAAAGAAG
1 AAAAAAAAG
35375375 AAAAAAAAG
1 AAAAAAAAG
35375384 AAAGAAAAAG
1 AAA-AAAAAG
35375394 GAGAGGCCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
8 2 0.05
9 31 0.76
10 8 0.20
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:35375357 original size:13 final size:13
Alignment explanation
Indices: 35375339--35375392 Score: 65
Period size: 13 Copynumber: 4.1 Consensus size: 13
35375329 CAATAAAATT
35375339 AAAAAAAAGAAAA
1 AAAAAAAAGAAAA
35375352 AAAAAAGAA-AAAA
1 AAAAAA-AAGAAAA
*
35375365 GAAAAAGAAGAAAA
1 -AAAAAAAAGAAAA
*
35375379 AAAAGAAAGAAAA
1 AAAAAAAAGAAAA
35375392 A
1 A
35375393 GGAGAGGCCA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
13 24 0.69
14 11 0.31
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAAAA
Found at i:35376892 original size:49 final size:50
Alignment explanation
Indices: 35376765--35376963 Score: 188
Period size: 51 Copynumber: 4.0 Consensus size: 50
35376755 ATTGCAGTCA
* * * * * ** *
35376765 AAAAGATTGAAGCCACAACGGCAAATCTTACTCTCTCAGGCGGTGCAGTGG
1 AAAAGATTGAAGCCACAACGGCGAATCTTCCT-TCCCCGACATTGCAATGG
* * *
35376816 AACAGATTGAAGCCACAACGGCAAATC-TCGCTTCCCCGACATTGCAAT-T
1 AAAAGATTGAAGCCACAACGGCGAATCTTC-CTTCCCCGACATTGCAATGG
* * * *
35376865 AAAAGATTGAGGCCACAACGGCGAATCTTACCTTCCCAGGCGA-TGCAGTGG
1 AAAAGATTGAAGCCACAACGGCGAATCTT-CCTTCCCCGAC-ATTGCAATGG
* *
35376916 AATAGATTGAAGCTACAACGGCGAATCTTCCTTCCCCGACATTGCAAT
1 AAAAGATTGAAGCCACAACGGCGAATCTTCCTTCCCCGACATTGCAAT
35376964 CTCATTTTCT
Statistics
Matches: 120, Mismatches: 22, Indels: 13
0.77 0.14 0.08
Matches are distributed among these distances:
49 25 0.21
50 39 0.32
51 56 0.47
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.21
Consensus pattern (50 bp):
AAAAGATTGAAGCCACAACGGCGAATCTTCCTTCCCCGACATTGCAATGG
Found at i:35376943 original size:100 final size:100
Alignment explanation
Indices: 35376765--35376963 Score: 303
Period size: 100 Copynumber: 2.0 Consensus size: 100
35376755 ATTGCAGTCA
* *
35376765 AAAAGATTGAAGCCACAACGGCAAATCTTACTCTCTCAGGCGGTGCAGTGGAACAGATTGAAGCC
1 AAAAGATTGAAGCCACAACGGCAAATCTTACTCTCCCAGGCGATGCAGTGGAACAGATTGAAGCC
35376830 ACAACGGCAAATC-TCGCTTCCCCGACATTGCAATT
66 ACAACGGCAAATCTTC-CTTCCCCGACATTGCAATT
* * *
35376865 AAAAGATTGAGGCCACAACGGCGAATCTTAC-CTTCCCAGGCGATGCAGTGGAATAGATTGAAGC
1 AAAAGATTGAAGCCACAACGGCAAATCTTACTC-TCCCAGGCGATGCAGTGGAACAGATTGAAGC
* *
35376929 TACAACGGCGAATCTTCCTTCCCCGACATTGCAAT
65 CACAACGGCAAATCTTCCTTCCCCGACATTGCAAT
35376964 CTCATTTTCT
Statistics
Matches: 90, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
99 1 0.01
100 87 0.97
101 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.21
Consensus pattern (100 bp):
AAAAGATTGAAGCCACAACGGCAAATCTTACTCTCCCAGGCGATGCAGTGGAACAGATTGAAGCC
ACAACGGCAAATCTTCCTTCCCCGACATTGCAATT
Found at i:35377047 original size:50 final size:49
Alignment explanation
Indices: 35376980--35377349 Score: 242
Period size: 50 Copynumber: 7.4 Consensus size: 49
35376970 TTCTTAGCGG
* * * *
35376980 TGCAGTGGAAA-ATATTGAAGCTACGATGGCGAATCTCGCTTCCTCGACAT
1 TGCAGT-GAAATAGATTGAAGCTACAACGGCGAATCTCACTTCC-CGACAT
* * * * *
35377030 TGCAGTCAAATAGATTGAAGCTACAACAGCGAACCTCACTTCCCTGGCAA
1 TGCAGTGAAATAGATTGAAGCTACAACGGCGAATCTCACTTCCC-GACAT
* * * * *
35377080 TGTAATGGAACAGATTGAAGCTACAACGGCGAATCTCGCTTCCCTGACAT
1 TGCAGTGAAATAGATTGAAGCTACAACGGCGAATCTCACTTCCC-GACAT
* * * * * * * *
35377130 TGCAATTTAAA-AGATTGAAGCCACAACGGTGAATCTTACTTCCTAGGCAG
1 TGC-AGTGAAATAGATTGAAGCTACAACGGCGAATCTCACTTCC-CGACAT
* * * *
35377180 TGCAGTGGAACAGATTGAAGCTACGACGGCGAATCTCGCTTCCCTGACAT
1 TGCAGTGAAATAGATTGAAGCTACAACGGCGAATCTCACTTCCC-GACAT
* * * * * * * * **
35377230 TGCAATTTAAA-AGATTGAGGCCACAACGACAAATCTTACTTTCCCAAGCGG
1 TGC-AGTGAAATAGATTGAAGCTACAACGGCGAATCTCAC-TTCCCGA-CAT
* * * *
35377281 TGCAGTGGAATAGATTGAAGCTACGATGGCGAATCTTACTTCCCCGACAT
1 TGCAGTGAAATAGATTGAAGCTACAACGGCGAATCTCACTT-CCCGACAT
* *
35377331 TACAGTTAAATAGATTGAA
1 TGCAGTGAAATAGATTGAA
35377350 TAAGCCATTC
Statistics
Matches: 240, Mismatches: 69, Indels: 22
0.73 0.21 0.07
Matches are distributed among these distances:
49 8 0.03
50 189 0.79
51 43 0.18
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (49 bp):
TGCAGTGAAATAGATTGAAGCTACAACGGCGAATCTCACTTCCCGACAT
Found at i:35377097 original size:172 final size:172
Alignment explanation
Indices: 35376804--35377135 Score: 452
Period size: 172 Copynumber: 1.9 Consensus size: 172
35376794 ACTCTCTCAG
* *
35376804 GCGGTGCAGTGGAACAGATTGAAGCCACAACGGCAAATCTCGCTTCCCCGACATTGCAATTAAAA
1 GCGGTGCAGTGGAAAAGATTGAAGCCACAACGGCAAATCTCGCTTCCCCGACATTGCAATCAAAA
* * * * * * *
35376869 GATTGAGGCCACAACGGCGAATCTTACCTTCCCAGGCGATGCAGTGGAATAGATTGAAGCTACAA
66 GATTGAAGCCACAACAGCGAACCTCACCTTCCCAGGCAATGCAATGGAACAGATTGAAGCTACAA
35376934 CGGCGAATCTTC-CTTCCCCGACATTGCAATCTCATTTTCTTA
131 CGGCGAATC-TCGCTTCCCCGACATTGCAATCTCATTTTCTTA
* * * * * * *
35376976 GCGGTGCAGTGGAAAATATTGAAGCTACGATGGCGAATCTCGCTTCCTCGACATTGCAGTCAAAT
1 GCGGTGCAGTGGAAAAGATTGAAGCCACAACGGCAAATCTCGCTTCCCCGACATTGCAATCAAA-
* * *
35377041 AGATTGAAGCTACAACAGCGAACCTCA-CTTCCCTGGCAATGTAATGGAACAGATTGAAGCTACA
65 AGATTGAAGCCACAACAGCGAACCTCACCTTCCCAGGCAATGCAATGGAACAGATTGAAGCTACA
*
35377105 ACGGCGAATCTCGCTTCCCTGACATTGCAAT
130 ACGGCGAATCTCGCTTCCCCGACATTGCAAT
35377136 TTAAAAGATT
Statistics
Matches: 138, Mismatches: 20, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
171 2 0.01
172 114 0.83
173 22 0.16
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (172 bp):
GCGGTGCAGTGGAAAAGATTGAAGCCACAACGGCAAATCTCGCTTCCCCGACATTGCAATCAAAA
GATTGAAGCCACAACAGCGAACCTCACCTTCCCAGGCAATGCAATGGAACAGATTGAAGCTACAA
CGGCGAATCTCGCTTCCCCGACATTGCAATCTCATTTTCTTA
Found at i:35377171 original size:100 final size:100
Alignment explanation
Indices: 35376979--35377349 Score: 426
Period size: 100 Copynumber: 3.7 Consensus size: 100
35376969 TTTCTTAGCG
* * * *
35376979 GTGCAGTGGAAAATATTGAAGCTACGATGGCGAATCTCGCTT-CCTCGACATTGCAGTCAAATAG
1 GTGCAGTGGAACAGATTGAAGCTACGACGGCGAATCTCGCTTCCCT-GACATTGCAGTTAAATAG
* * * *
35377043 ATTGAAGCTACAACAGCGAACCTCACTTCCCTGGCA
65 ATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCA
* * * * *
35377079 ATGTAATGGAACAGATTGAAGCTACAACGGCGAATCTCGCTTCCCTGACATTGCAATTTAAA-AG
1 GTGCAGTGGAACAGATTGAAGCTACGACGGCGAATCTCGCTTCCCTGACATTGC-AGTTAAATAG
*
35377143 ATTGAAGCCACAACGGTGAATCTTACTT-CCTAGGCA
65 ATTGAAGCCACAACGGCGAATCTTACTTCCCT-GGCA
*
35377179 GTGCAGTGGAACAGATTGAAGCTACGACGGCGAATCTCGCTTCCCTGACATTGCAATTTAAA-AG
1 GTGCAGTGGAACAGATTGAAGCTACGACGGCGAATCTCGCTTCCCTGACATTGC-AGTTAAATAG
* * * ** *
35377243 ATTGAGGCCACAACGACAAATCTTACTTTCCCAAGCG
65 ATTGAAGCCACAACGGCGAATCTTAC-TTCCCTGGCA
* * ** * *
35377280 GTGCAGTGGAATAGATTGAAGCTACGATGGCGAATCTTACTTCCCCGACATTACAGTTAAATAGA
1 GTGCAGTGGAACAGATTGAAGCTACGACGGCGAATCTCGCTTCCCTGACATTGCAGTTAAATAGA
35377345 TTGAA
66 TTGAA
35377350 TAAGCCATTC
Statistics
Matches: 232, Mismatches: 33, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
99 3 0.01
100 160 0.69
101 67 0.29
102 2 0.01
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.24
Consensus pattern (100 bp):
GTGCAGTGGAACAGATTGAAGCTACGACGGCGAATCTCGCTTCCCTGACATTGCAGTTAAATAGA
TTGAAGCCACAACGGCGAATCTTACTTCCCTGGCA
Found at i:35377626 original size:44 final size:44
Alignment explanation
Indices: 35377361--35377741 Score: 140
Period size: 44 Copynumber: 8.8 Consensus size: 44
35377351 AAGCCATTCC
* *
35377361 TATCACCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACAACAGATCT
* * * ** ** * * *
35377405 TATCTCTCTAAAGTTGCAGTAGAGTAGA-T--CGCATCTAG-CCA
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACAAC-AGATCT
* * * * *
35377446 TATCTCCCTGAAGTTGCAGTGGAGTGGA-CAGAAGAAGCTA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACAA-C-AGATCT
** * ** *
35377490 TGCCTCCCTAAAGTTGCAGTGGAGCGGATTAAAATGA-TGAAT-T
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACAACAG-ATCT
* * * * ** * * * * *
35377533 CCATAC-CCCTGAAGTTGCTGCGAAGAAGATTGAAGCTACAAATCC
1 -TAT-CTCCCTGAAGTTGCAGTGGAGCGGATTAAAACAACAGATCT
35377578 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACAACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACAACAGATCT
* * ** *** * *
35377622 TATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATC--CAG-CCT
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACAACAGATCT
* * * *** *
35377663 TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTTACTA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACAAC-AGATCT
* *
35377707 TATCTCCCTAAAGTTACAGTGGAGCGGATTAAAAC
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAC
35377742 GATGAATCCA
Statistics
Matches: 236, Mismatches: 84, Indels: 34
0.67 0.24 0.10
Matches are distributed among these distances:
41 56 0.24
42 5 0.02
43 4 0.02
44 166 0.70
45 5 0.02
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACAACAGATCT
Found at i:35377717 original size:217 final size:217
Alignment explanation
Indices: 35377358--35377766 Score: 633
Period size: 217 Copynumber: 1.9 Consensus size: 217
35377348 AATAAGCCAT
*
35377358 TCCTATCACCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTAAAGTTGCA
1 TCCTATCACCCTGAAGTTGCAGTGGAGCGGATTAAAACAACAGATCTTATCTCTCTAAAGTTGCA
* * **
35377423 GTAGAGTAGATCGCATCTAGCCATATCTCCCTGAAGTTGCAGTGGAGTGGACAGAAGAAGCTAAT
66 GTAGAGTAGATCGCATCCAGCCATATCTCCCTGAAGTTACAGTGGAGCAGACAGAAGAAGCTAAT
* * *
35377488 CCTGCCTCCCTAAAGTTGCAGTGGAGCGGATTAAAATGATGAATTCC-ATACCCCTGAAGTTGCT
131 CCTACCTCCCTAAAGTTACAGTGGAGCGGATTAAAACGATGAA-TCCAATACCCCTGAAGTTGCT
35377552 GCGAAGAAGATTGAAGCTACAAA
195 GCGAAGAAGATTGAAGCTACAAA
* *
35377575 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACAACAGATCTTATCTCTCTGAAGTTGCA
1 TCCTATCACCCTGAAGTTGCAGTGGAGCGGATTAAAACAACAGATCTTATCTCTCTAAAGTTGCA
* ** *
35377640 GTAGAGTAGATCGCATCCAGCCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTTA-CTAA
66 GTAGAGTAGATCGCATCCAGCCATATCTCCCTGAAGTTACAGTGGAGCAGACAGAAG-AAGCTAA
* **
35377704 TCCTATCTCCCTAAAGTTACAGTGGAGCGGATTAAAACGATGAATCCAATACCTTTGAAGTTG
130 TCCTACCTCCCTAAAGTTACAGTGGAGCGGATTAAAACGATGAATCCAATACCCCTGAAGTTG
35377767 TAGAGGGTCG
Statistics
Matches: 173, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
216 3 0.02
217 169 0.98
218 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (217 bp):
TCCTATCACCCTGAAGTTGCAGTGGAGCGGATTAAAACAACAGATCTTATCTCTCTAAAGTTGCA
GTAGAGTAGATCGCATCCAGCCATATCTCCCTGAAGTTACAGTGGAGCAGACAGAAGAAGCTAAT
CCTACCTCCCTAAAGTTACAGTGGAGCGGATTAAAACGATGAATCCAATACCCCTGAAGTTGCTG
CGAAGAAGATTGAAGCTACAAA
Found at i:35378582 original size:5 final size:5
Alignment explanation
Indices: 35378574--35378600 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
35378564 TATTGTATTT
35378574 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
35378601 AGTTTCTACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:35379626 original size:20 final size:20
Alignment explanation
Indices: 35379572--35379627 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
35379562 TTTATATTTT
*
35379572 CATATAGTTTTTATATACATA
1 CATATA-TTTTTATACACATA
*
35379593 CATAT-TCTTATATACACATA
1 CATATAT-TTTTATACACATA
35379613 CATATATTTTTATAC
1 CATATATTTTTATAC
35379628 TTTATAATTC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 1 0.03
20 23 0.77
21 6 0.20
ACGTcount: A:0.38, C:0.14, G:0.02, T:0.46
Consensus pattern (20 bp):
CATATATTTTTATACACATA
Found at i:35381349 original size:3 final size:3
Alignment explanation
Indices: 35381341--35381372 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
35381331 GAAATGTGGA
35381341 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
35381373 ATATGATGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:35382807 original size:35 final size:35
Alignment explanation
Indices: 35382768--35382904 Score: 150
Period size: 35 Copynumber: 3.9 Consensus size: 35
35382758 CAGTTAAAGG
*
35382768 CAACCTTAAAAAGGTTGGAATAGACCCGTCTAAGA
1 CAACCTTAAAAAGGTTGGAATAGACACGTCTAAGA
* * *
35382803 CAACCTTAAAAAGGTTGAAATATACTCGTCTAAGA
1 CAACCTTAAAAAGGTTGGAATAGACACGTCTAAGA
* * * *
35382838 CAACCTTAAAAA-GTTAGAACAGACAAGTCTAAGG
1 CAACCTTAAAAAGGTTGGAATAGACACGTCTAAGA
* ** * *
35382872 CAACCTCAAAAAAATTGGGATAGACACATCTAA
1 CAACCTTAAAAAGGTTGGAATAGACACGTCTAA
35382905 TAGGGTAAAT
Statistics
Matches: 84, Mismatches: 17, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
34 26 0.31
35 58 0.69
ACGTcount: A:0.45, C:0.19, G:0.16, T:0.20
Consensus pattern (35 bp):
CAACCTTAAAAAGGTTGGAATAGACACGTCTAAGA
Found at i:35382904 original size:69 final size:70
Alignment explanation
Indices: 35382768--35382904 Score: 150
Period size: 69 Copynumber: 2.0 Consensus size: 70
35382758 CAGTTAAAGG
* * ** * ** * * *
35382768 CAACCTTAAAAAGGTTGGAATAGACCCGTCTAAGACAACCTTAAAAAGGTTGAAATATACTCGTC
1 CAACCTTAAAAAGGTTAGAACAGACAAGTCTAAGACAACCTCAAAAAAATTGAAATAGACACATC
35382833 TAAGA
66 TAAGA
* **
35382838 CAACCTTAAAAA-GTTAGAACAGACAAGTCTAAGGCAACCTCAAAAAAATTGGGATAGACACATC
1 CAACCTTAAAAAGGTTAGAACAGACAAGTCTAAGACAACCTCAAAAAAATTGAAATAGACACATC
35382902 TAA
66 TAA
35382905 TAGGGTAAAT
Statistics
Matches: 54, Mismatches: 13, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
69 42 0.78
70 12 0.22
ACGTcount: A:0.45, C:0.19, G:0.16, T:0.20
Consensus pattern (70 bp):
CAACCTTAAAAAGGTTAGAACAGACAAGTCTAAGACAACCTCAAAAAAATTGAAATAGACACATC
TAAGA
Found at i:35384211 original size:13 final size:13
Alignment explanation
Indices: 35384193--35384232 Score: 73
Period size: 13 Copynumber: 3.2 Consensus size: 13
35384183 ATCTTGTCTT
35384193 CCATCCCCCATCC
1 CCATCCCCCATCC
35384206 CCAT-CCCCATCC
1 CCATCCCCCATCC
35384218 CCATCCCCCATCC
1 CCATCCCCCATCC
35384231 CC
1 CC
35384233 CTAATCTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 12 0.46
13 14 0.54
ACGTcount: A:0.15, C:0.70, G:0.00, T:0.15
Consensus pattern (13 bp):
CCATCCCCCATCC
Found at i:35384233 original size:7 final size:6
Alignment explanation
Indices: 35384193--35384232 Score: 62
Period size: 6 Copynumber: 6.3 Consensus size: 6
35384183 ATCTTGTCTT
35384193 CCATCCC CCATCC CCATCC CCATCC CCATCCC CCATCC CC
1 CCAT-CC CCATCC CCATCC CCATCC CCAT-CC CCATCC CC
35384233 CTAATCTCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 22 0.69
7 10 0.31
ACGTcount: A:0.15, C:0.70, G:0.00, T:0.15
Consensus pattern (6 bp):
CCATCC
Found at i:35390092 original size:30 final size:30
Alignment explanation
Indices: 35390044--35390116 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 30
35390034 TCCTAATTGG
*
35390044 AAATTCTT-ATTAAGCCCTTAAAAGTTTT-A
1 AAATT-TTAATTAAACCCTTAAAAGTTTTGA
**
35390073 AAAGTTTTAATTAAACCCTTAAATTTTTTGA
1 AAA-TTTTAATTAAACCCTTAAAAGTTTTGA
35390104 AAATTTTAATTAA
1 AAATTTTAATTAA
35390117 GCCCCCTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
29 5 0.13
30 29 0.76
31 4 0.11
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (30 bp):
AAATTTTAATTAAACCCTTAAAAGTTTTGA
Found at i:35393015 original size:35 final size:36
Alignment explanation
Indices: 35392976--35393043 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 36
35392966 AATACGAGAA
* * *
35392976 ATTTTTTTTAAAACACG-AAGATTTTTGAAACAATT
1 ATTTTTTTAAAAACACGAAAAATTTTTAAAACAATT
35393011 ATTTTTTTAAAAACACGAAAAATTTTTAAAACA
1 ATTTTTTTAAAAACACGAAAAATTTTTAAAACA
35393044 CGAGAATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 16 0.55
36 13 0.45
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.40
Consensus pattern (36 bp):
ATTTTTTTAAAAACACGAAAAATTTTTAAAACAATT
Found at i:35393054 original size:35 final size:35
Alignment explanation
Indices: 35393015--35393305 Score: 225
Period size: 35 Copynumber: 8.3 Consensus size: 35
35393005 ACAATTATTT
35393015 TTTTAAAAACACGAAAAATTTTT-AAAACACGAGAA
1 TTTTAAAAACACG-AAAATTTTTGAAAACACGAGAA
* * * * *
35393050 TTTTAGAGACACGAAAATTCTTAAAAACACGAAAA
1 TTTTAAAAACACGAAAATTTTTGAAAACACGAGAA
* *
35393085 TTTTTGAAAACAC-AGAAATTTTT-AAAACACGGGAA
1 -TTTTAAAAACACGA-AAATTTTTGAAAACACGAGAA
* * *
35393120 TTTTTGAAAATATGAAAATTTTTG-AAACACCG-GAA
1 -TTTTAAAAACACGAAAATTTTTGAAAACA-CGAGAA
* ** *
35393155 TTTTGAAAACACGAGGATTTTTGAAAACACGAAGAT
1 TTTTAAAAACACGAAAATTTTTGAAAACACG-AGAA
* * * *
35393191 TTTTTAAAACACGGAAATTTTTGAAAATACGAAAA
1 TTTTAAAAACACGAAAATTTTTGAAAACACGAGAA
* * ** * *
35393226 TTTTTAAAACATGGGAATTTTTGAAAACATGAAAA
1 TTTTAAAAACACGAAAATTTTTGAAAACACGAGAA
** *
35393261 TTTTTGAAACAC-AGGAATTTTTGAAAACACGAGAA
1 TTTTAAAAACACGA-AAATTTTTGAAAACACGAGAA
35393296 TTTTGAAAAA
1 TTTT-AAAAA
35393306 TGGATTCTTT
Statistics
Matches: 210, Mismatches: 35, Indels: 21
0.79 0.13 0.08
Matches are distributed among these distances:
34 29 0.14
35 131 0.62
36 50 0.24
ACGTcount: A:0.47, C:0.10, G:0.14, T:0.30
Consensus pattern (35 bp):
TTTTAAAAACACGAAAATTTTTGAAAACACGAGAA
Found at i:35393074 original size:53 final size:53
Alignment explanation
Indices: 35393014--35393304 Score: 229
Period size: 53 Copynumber: 5.5 Consensus size: 53
35393004 AACAATTATT
*
35393014 TTTTTAAAAACACGAAAAATTTTTAAAACAC-GAGAATTTTAG-AGACACGAAAA
1 TTTTTAAAAACACG-AAAATTTTTAAAACACGGA-AATTTTAGAAAACACGAAAA
* * * **
35393067 TTCTTAAAAACACGAAAATTTTTGAAAACACAGAAATTTT-TAAAACACGGGAA
1 TTTTTAAAAACACGAAAATTTTT-AAAACACGGAAATTTTAGAAAACACGAAAA
* * * * **
35393120 TTTTTGAAAATATGAAAATTTTTGAAACACCGG-AATTTT-GAAAACACGAGGA
1 TTTTTAAAAACACGAAAATTTTTAAAACA-CGGAAATTTTAGAAAACACGAAAA
* * * *
35393172 TTTTTGAAAACACGAAGATTTTTTAAAACACGGAAATTTTTGAAAATACGAAAA
1 TTTTTAAAAACACGAA-AATTTTTAAAACACGGAAATTTTAGAAAACACGAAAA
* ** * * * *
35393226 TTTTT-AAAACATGGGAATTTTTGAAAACATGAAAATTTTTG-AAACAC-AGGAA
1 TTTTTAAAAACACGAAAATTTTT-AAAACACGGAAATTTTAGAAAACACGA-AAA
* * *
35393278 TTTTTGAAAACACGAGAATTTTGAAAA
1 TTTTTAAAAACACGAAAATTTTTAAAA
35393305 ATGGATTCTT
Statistics
Matches: 196, Mismatches: 32, Indels: 21
0.79 0.13 0.08
Matches are distributed among these distances:
51 1 0.01
52 69 0.35
53 109 0.56
54 17 0.09
ACGTcount: A:0.46, C:0.10, G:0.14, T:0.30
Consensus pattern (53 bp):
TTTTTAAAAACACGAAAATTTTTAAAACACGGAAATTTTAGAAAACACGAAAA
Found at i:35393305 original size:18 final size:17
Alignment explanation
Indices: 35393015--35393304 Score: 189
Period size: 18 Copynumber: 16.5 Consensus size: 17
35393005 ACAATTATTT
* *
35393015 TTTTAAAAACACGAAAAA
1 TTTTGAAAACACG-AGAA
*
35393033 TTTTTAAAACACGAGAA
1 TTTTGAAAACACGAGAA
* *
35393050 TTTT-AGAGACACGAAAA
1 TTTTGA-AAACACGAGAA
* *
35393067 TTCTTAAAAACACGAAAA
1 TT-TTGAAAACACGAGAA
35393085 TTTTTGAAAACAC-AGAAA
1 -TTTTGAAAACACGAG-AA
* *
35393103 TTTTTAAAACACGGGAA
1 TTTTGAAAACACGAGAA
* * *
35393120 TTTTTGAAAATATGAAAA
1 -TTTTGAAAACACGAGAA
35393138 TTTTTG-AAACACCG-GAA
1 -TTTTGAAAACA-CGAGAA
*
35393155 TTTTGAAAACACGAGGAT
1 TTTTGAAAACACGA-GAA
*
35393173 TTTTGAAAACACGAAGAT
1 TTTTGAAAACACG-AGAA
*
35393191 TTTTTAAAACACG-GAAA
1 TTTTGAAAACACGAG-AA
* *
35393208 TTTTTGAAAATACGAAAA
1 -TTTTGAAAACACGAGAA
* * *
35393226 TTTTTAAAACATGGGAA
1 TTTTGAAAACACGAGAA
* *
35393243 TTTTTGAAAACATGAAAA
1 -TTTTGAAAACACGAGAA
35393261 TTTTTG-AAACAC-AGGAA
1 -TTTTGAAAACACGA-GAA
35393278 TTTTTGAAAACACGAGAA
1 -TTTTGAAAACACGAGAA
35393296 TTTTGAAAA
1 TTTTGAAAA
35393305 ATGGATTCTT
Statistics
Matches: 220, Mismatches: 33, Indels: 39
0.75 0.11 0.13
Matches are distributed among these distances:
16 10 0.05
17 78 0.35
18 127 0.58
19 5 0.02
ACGTcount: A:0.47, C:0.10, G:0.14, T:0.30
Consensus pattern (17 bp):
TTTTGAAAACACGAGAA
Found at i:35393319 original size:123 final size:123
Alignment explanation
Indices: 35393031--35393304 Score: 394
Period size: 123 Copynumber: 2.2 Consensus size: 123
35393021 AAACACGAAA
* * * * *
35393031 AATTTTTAAAACACGA-GAATTTT-AGAGACACGAAAATTCTTAAAAACACGAAAATTTTTGAAA
1 AATTTTGAAAACACGAGGAATTTTGA-AAACACGAAGATTTTTTAAAACACGAAAATTTTTGAAA
* *
35393094 ACACAGAAATTTTTAAAACACGGGAATTTTTGAAAATATGAAAATTTTTGAAACACCGG
65 ACACAGAAATTTTTAAAACACGGGAATTTTTGAAAACATGAAAATTTTTGAAACACAGG
* *
35393153 AATTTTGAAAACACGAGGATTTTTGAAAACACGAAGATTTTTTAAAACACGGAAATTTTTGAAAA
1 AATTTTGAAAACACGAGGAATTTTGAAAACACGAAGATTTTTTAAAACACGAAAATTTTTGAAAA
* *
35393218 TAC-GAAAATTTTTAAAACATGGGAATTTTTGAAAACATGAAAATTTTTGAAACACAGG
66 CACAG-AAATTTTTAAAACACGGGAATTTTTGAAAACATGAAAATTTTTGAAACACAGG
35393276 AATTTTTGAAAACACGA-GAATTTTGAAAA
1 AA-TTTTGAAAACACGAGGAATTTTGAAAA
35393305 ATGGATTCTT
Statistics
Matches: 136, Mismatches: 12, Indels: 7
0.88 0.08 0.05
Matches are distributed among these distances:
122 16 0.12
123 105 0.77
124 15 0.11
ACGTcount: A:0.46, C:0.10, G:0.14, T:0.30
Consensus pattern (123 bp):
AATTTTGAAAACACGAGGAATTTTGAAAACACGAAGATTTTTTAAAACACGAAAATTTTTGAAAA
CACAGAAATTTTTAAAACACGGGAATTTTTGAAAACATGAAAATTTTTGAAACACAGG
Found at i:35393872 original size:28 final size:25
Alignment explanation
Indices: 35393839--35393902 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 25
35393829 GGCCTTTTTG
* *
35393839 TTTTTTGTTTTTGTTTTCTCTTTTTTCC
1 TTTTTT-TTTTT-CTTT-TCTTTTTCCC
35393867 TTTTTTCTTTTTCTTTTCTTTTTCCC
1 TTTTTT-TTTTTCTTTTCTTTTTCCC
35393893 TTTTTTTTTT
1 TTTTTTTTTT
35393903 GCAGATTGGG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
25 4 0.12
26 15 0.45
27 3 0.09
28 11 0.33
ACGTcount: A:0.00, C:0.16, G:0.03, T:0.81
Consensus pattern (25 bp):
TTTTTTTTTTTCTTTTCTTTTTCCC
Found at i:35393878 original size:34 final size:34
Alignment explanation
Indices: 35393831--35393898 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
35393821 ACAATTCGGG
* *
35393831 CCTTTTTGTTTTTTGTTTT-TGTTTTCTCTTTTTT
1 CCTTTTTGTTTTTTCTTTTCT-TTTTCCCTTTTTT
35393865 CCTTTTT-TCTTTTTCTTTTCTTTTTCCCTTTTTT
1 CCTTTTTGT-TTTTTCTTTTCTTTTTCCCTTTTTT
35393899 TTTTGCAGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 1 0.03
34 28 0.93
35 1 0.03
ACGTcount: A:0.00, C:0.18, G:0.04, T:0.78
Consensus pattern (34 bp):
CCTTTTTGTTTTTTCTTTTCTTTTTCCCTTTTTT
Found at i:35393975 original size:43 final size:43
Alignment explanation
Indices: 35393922--35394018 Score: 122
Period size: 43 Copynumber: 2.2 Consensus size: 43
35393912 GCCGCTAGGC
* * *
35393922 GCTGGGCTGGATGCTGGTCTGCTGCTAGAACGGGCCTGGGGCT
1 GCTGGACTGGATGCTGGCCTGCTGCTAGAACAGGCCTGGGGCT
* * * *
35393965 GCTGGACTGGATGTTGGCCTGCTGCTGGAACAGGTCTGGGGTT
1 GCTGGACTGGATGCTGGCCTGCTGCTAGAACAGGCCTGGGGCT
35394008 GCTGGAGCTGG
1 GCTGGA-CTGG
35394019 CCTGCTGGAG
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
43 42 0.91
44 4 0.09
ACGTcount: A:0.10, C:0.21, G:0.44, T:0.25
Consensus pattern (43 bp):
GCTGGACTGGATGCTGGCCTGCTGCTAGAACAGGCCTGGGGCT
Found at i:35394177 original size:18 final size:17
Alignment explanation
Indices: 35394152--35394208 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 17
35394142 GCTGCTGCTA
* *
35394152 TTTTTTTCTTCTTTTTT
1 TTTTTTTTTTCTTTTTC
35394169 TTCTTTTTCTTTCTTTTTC
1 TT-TTTTT-TTTCTTTTTC
*
35394188 TTTTTTCTTTCTATTTTC
1 TTTTTTTTTTCT-TTTTC
35394206 TTT
1 TTT
35394209 CTTCCCCTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
17 7 0.21
18 17 0.50
19 10 0.29
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTTTTTTCTTTTTC
Found at i:35394185 original size:28 final size:28
Alignment explanation
Indices: 35394154--35394211 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
35394144 TGCTGCTATT
*
35394154 TTTTTCTTCTTTTTTTTCT-TTTTCTTTC
1 TTTTTCTT-TTTTCTTTCTATTTTCTTTC
35394182 TTTTTCTTTTTTCTTTCTATTTTCTTTC
1 TTTTTCTTTTTTCTTTCTATTTTCTTTC
35394210 TT
1 TT
35394212 CCCCTTCTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
27 9 0.32
28 19 0.68
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (28 bp):
TTTTTCTTTTTTCTTTCTATTTTCTTTC
Found at i:35394198 original size:11 final size:11
Alignment explanation
Indices: 35394153--35394211 Score: 57
Period size: 11 Copynumber: 5.2 Consensus size: 11
35394143 CTGCTGCTAT
*
35394153 TTTTTTCTTCTT
1 TTTTTTCTT-TC
35394165 TTTTTTCTTT-
1 TTTTTTCTTTC
*
35394175 TTCTTTCTTTTTC
1 TT-TTT-TCTTTC
35394188 TTTTTTCTTTC
1 TTTTTTCTTTC
*
35394199 TATTTTCTTTC
1 TTTTTTCTTTC
35394210 TT
1 TT
35394212 CCCCTTCTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
10 2 0.05
11 20 0.50
12 16 0.40
13 2 0.05
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTTTCTTTC
Found at i:35394335 original size:21 final size:21
Alignment explanation
Indices: 35394319--35394356 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
35394309 CTCTTTTCTC
35394319 TTTT-CTTTCTCTCCTTTCCT
1 TTTTCCTTTCTCTCCTTTCCT
35394339 TTTTCCTTTCTCT-CTTTC
1 TTTTCCTTTCTCTCCTTTC
35394357 TTTCTTTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTTCCTTTCTCTCCTTTCCT
Found at i:35394342 original size:20 final size:20
Alignment explanation
Indices: 35394309--35394356 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
35394299 ATCTCCTCTC
*
35394309 CTCTTTTCTCTTTT-CTTTCT
1 CTCTTTCCT-TTTTCCTTTCT
35394329 CTCCTTTCCTTTTTCCTTTCT
1 CT-CTTTCCTTTTTCCTTTCT
35394350 CTCTTTC
1 CTCTTTC
35394357 TTTCTTTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 11 0.44
21 14 0.56
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (20 bp):
CTCTTTCCTTTTTCCTTTCT
Found at i:35394542 original size:22 final size:23
Alignment explanation
Indices: 35394514--35394556 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
35394504 ACCCTTTCGC
*
35394514 TGCTGTTTTCTT-GATTTTTTGT
1 TGCTGTTTTCTTAAATTTTTTGT
35394536 TGCTGTTTTCTTAAATTTTTT
1 TGCTGTTTTCTTAAATTTTTT
35394557 TCTTTTTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.09, C:0.09, G:0.14, T:0.67
Consensus pattern (23 bp):
TGCTGTTTTCTTAAATTTTTTGT
Found at i:35394843 original size:30 final size:30
Alignment explanation
Indices: 35394809--35394911 Score: 88
Period size: 30 Copynumber: 3.4 Consensus size: 30
35394799 AACATGGGGC
*
35394809 CAAAATGTAATTTCT-AGAAAGTTAAATGGT
1 CAAAATGTAATTT-TGAGAAAGTTAAAGGGT
*
35394839 CAAAATG-ATATTTTGAGAAAGTTAAGGGGT
1 CAAAATGTA-ATTTTGAGAAAGTTAAAGGGT
* * * *
35394869 TAAAATGTAAATAT-AGGAAAGTT-TAGGGTT
1 CAAAATGTAATTTTGA-GAAAGTTAAAGGG-T
35394899 CAAAATGTAATTT
1 CAAAATGTAATTT
35394912 AAAAAAAATT
Statistics
Matches: 58, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
29 6 0.10
30 51 0.88
31 1 0.02
ACGTcount: A:0.43, C:0.04, G:0.20, T:0.33
Consensus pattern (30 bp):
CAAAATGTAATTTTGAGAAAGTTAAAGGGT
Found at i:35395438 original size:90 final size:90
Alignment explanation
Indices: 35395285--35395449 Score: 231
Period size: 90 Copynumber: 1.8 Consensus size: 90
35395275 TGAGTTGACC
* * * * *
35395285 TTTGAAAAATAGATATTGAAAATACATCAGTGTGACTCGAGGCTCAACTCACCTCTCACATTATG
1 TTTGAAAAACAGAAATTGAAAATACATCAGCGTAACACGAGGCTCAACTCACCTCTCACATTATG
35395350 AGTTGATTTTTGTTTTCTTTTTTTT
66 AGTTGATTTTTGTTTTCTTTTTTTT
* * * * **
35395375 TTTGAAAAACATAAATTGAAAATACCTCAGCGTAACACGAGGTTCAACTCACTTCTCGTATTATG
1 TTTGAAAAACAGAAATTGAAAATACATCAGCGTAACACGAGGCTCAACTCACCTCTCACATTATG
35395440 AGTTGATTTT
66 AGTTGATTTT
35395450 CTTTTAAAAA
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
90 64 1.00
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (90 bp):
TTTGAAAAACAGAAATTGAAAATACATCAGCGTAACACGAGGCTCAACTCACCTCTCACATTATG
AGTTGATTTTTGTTTTCTTTTTTTT
Found at i:35395555 original size:88 final size:89
Alignment explanation
Indices: 35395446--35395616 Score: 274
Period size: 88 Copynumber: 1.9 Consensus size: 89
35395436 TATGAGTTGA
* *
35395446 TTTTCTTTTAAAAAAAGGAAATTAAAAATACCTCAGCGTAACCCGAGGCTCAACTCACCTCTCGC
1 TTTTCTTTTAAAAAAAGGAAATTAAAAATACCTCAACGTAACCCGAGGCTCAACCCACCTCTCGC
35395511 ATTATGAGTTGATTTTTTTCTTTC
66 ATTATGAGTTGATTTTTTTCTTTC
* * *
35395535 TTTT-TTTTGAAAAATA-GAAATTGAAAATACCTCAACGTGACCCGAGGCTCAACCCACCTCTCG
1 TTTTCTTTT-AAAAAAAGGAAATTAAAAATACCTCAACGTAACCCGAGGCTCAACCCACCTCTCG
35395598 CATTATGAGTTGATTTTTT
65 CATTATGAGTTGATTTTTT
35395617 GAAAAAACAG
Statistics
Matches: 76, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
88 66 0.87
89 10 0.13
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.35
Consensus pattern (89 bp):
TTTTCTTTTAAAAAAAGGAAATTAAAAATACCTCAACGTAACCCGAGGCTCAACCCACCTCTCGC
ATTATGAGTTGATTTTTTTCTTTC
Found at i:35395615 original size:75 final size:77
Alignment explanation
Indices: 35395537--35397972 Score: 2550
Period size: 79 Copynumber: 31.4 Consensus size: 77
35395527 TTTCTTTCTT
* * * *
35395537 TTTTTTGAAAAATAGAAA-TT-GA-AAATACCTCAACGTGACCCGAGGCTCAACCCACCTCTCGC
1 TTTTTTGAAAAACAGAAATTTAAAGAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGC
*
35395599 ATTATGAGTTGA
66 AATATGAGTTGA
* * * *
35395611 TTTTTTGAAAAAACAGAAA-TT-AA-AAATACCTCAGCGTAACCCGAGGTTCAACTCGCTTCTCG
1 TTTTTTG-AAAAACAGAAATTTAAAGAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCG
* *
35395673 TATTATGAGTTGA
65 CAATATGAGTTGA
* * *
35395686 CTTTTTTGAAAAAACAGAAA-TT-AA-AAATACTTCAACGTAACCCGAGGCTCAACTCACCTCTC
1 -TTTTTTG-AAAAACAGAAATTTAAAGAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTC
*
35395748 GCATTATGAGTTGA
64 GCAATATGAGTTGA
* * *
35395762 TTTTTTTTTTTGAAAAATAGAAA-TTGAAG--ATACCTCAGCGTGACCCGAGGCTCAACCCACCT
1 -----TTTTTTGAAAAACAGAAATTTAAAGAAATACCTCAGCGTGACCCGAGGCTCAACTCACCT
*
35395824 CTCGCATTATGAGTTGA
61 CTCGCAATATGAGTTGA
* * * *
35395841 TTTTTTTTGAAAAAATAGAAA-TT-AA-AAATACCTCAGCGTAACCCGAGGTTCAACTCACTTCT
1 --TTTTTTG-AAAAACAGAAATTTAAAGAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCT
* * *
35395903 CGTATTATGACTTGA
63 CGCAATATGAGTTGA
* * *
35395918 TTTTTTTGAAAAAAATGGAAA-TT-AA-AAATACCACAGCGTAACCCGAGGCTCAACTCACCTCT
1 -TTTTTTGAAAAACA--GAAATTTAAAGAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCT
*
35395980 CGCATTATGAGTTGA
63 CGCAATATGAGTTGA
** * * *
35395995 TTTTTTTTTTGAAAAACAGAAATCAAAAAAGAAATACCTCGGTGTGTGACCCGAAGCTCAACTCA
1 ----TTTTTTGAAAAACAGAAAT--TTAAAGAAATACCTC--AGCGTGACCCGAGGCTCAACTCA
* *
35396060 CCTTTCGCAATATGAGTTGG
58 CCTCTCGCAATATGAGTTGA
** * * * * *
35396080 TTTTTT-TTAAACAGAAATTTAAAAGAAATACATCGGCATGCGACCTGAGGCTCAACTCACCTAT
1 TTTTTTGAAAAACAGAAATTT-AAAGAAATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCT
35396144 CAG-AATATGAGTTGA
63 C-GCAATATGAGTTGA
* ** *
35396159 TTTTTTGAAAAGCA-AAAACTAAA-AAATACCTC-GACGTGACTCGAGGCTCAACTCACCTCTCG
1 TTTTTTGAAAAACAGAAATTTAAAGAAATACCTCAG-CGTGACCCGAGGCTCAACTCACCTCTCG
35396221 CAATATGAGTTGA
65 CAATATGAGTTGA
* * * *
35396234 -TTTTTGAAAAATAGAAATTT--A-AATTACCTCAGCGTACGACTCGAGGCTCAACTCACATCTC
1 TTTTTTGAAAAACAGAAATTTAAAGAAATACCTCAGCGT--GACCCGAGGCTCAACTCACCTCTC
35396295 GCAATATGAGTTGA
64 GCAATATGAGTTGA
* * *
35396309 -TTTTCGAAAAACAGAAATTT--A-AAATACCTCAGCGTGCGACCCGAGGCTAAACTCACCTCAC
1 TTTTTTGAAAAACAGAAATTTAAAGAAATACCTCAGCGT--GACCCGAGGCTCAACTCACCTCTC
35396370 GCAATATGAGTTGA
64 GCAATATGAGTTGA
*
35396384 -TTTTTGAAAAACATAAATTTAAAAGAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCT
1 TTTTTTGAAAAACAGAAATTT-AAAGAAATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCT
35396448 CGCAATATGAGTTGA
63 CGCAATATGAGTTGA
**
35396463 TTTTTTTTAAAACAGAAATTTAAAAGAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCT
1 TTTTTTGAAAAACAGAAATTT-AAAGAAATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCT
35396528 CGCAATATGAGTTGA
63 CGCAATATGAGTTGA
35396543 -TTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCT
1 TTTTTTGAAAAACAGAAATTT-AAAGAAATACCTCAGCGT--GACCCGAGGCTCAACTCACCTCT
35396607 CGCAATATGAGTTGA
63 CGCAATATGAGTTGA
*
35396622 TTTTTTTAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCT
1 TTTTTTGAAAAACAGAAATTT-AAAGAAATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCT
35396687 CGCAATATGAGTTGA
63 CGCAATATGAGTTGA
35396702 -TTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCT
1 TTTTTTGAAAAACAGAAATTT-AAAGAAATACCTCAGCGT--GACCCGAGGCTCAACTCACCTCT
*
35396766 CACAATATGAGTTGA
63 CGCAATATGAGTTGA
** * ** *
35396781 TTTTTTTTAAAACAGAAATTTAAAAGAAATACCTCAGCATGCAACTTGAGGCTCAACTCACCTAT
1 TTTTTTGAAAAACAGAAATTT-AAAGAAATACCTCAGCGTG--ACCCGAGGCTCAACTCACCTCT
35396846 CAG-AATATGAGTTGA
63 C-GCAATATGAGTTGA
* ** * * *
35396861 TTTTTTTGAAAAGCA-AAAACTGAA-AAATACCTC-GACGTGACTCAAGGCTCAACTCACCTCTC
1 -TTTTTTGAAAAACAGAAATTTAAAGAAATACCTCAG-CGTGACCCGAGGCTCAACTCACCTCTC
35396923 GCAATATGAGTTGA
64 GCAATATGAGTTGA
* *
35396937 -TTTTTGAAAAACAGAAATTT--A-AAATACCTCAGCGCAGGACCCGAGGCTCAACTCACATCTC
1 TTTTTTGAAAAACAGAAATTTAAAGAAATACCTCAGCG--TGACCCGAGGCTCAACTCACCTCTC
35396998 GCAATATGAGTTGA
64 GCAATATGAGTTGA
*
35397012 -TTTTTGAAAAACAGAAATTT--A-AAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCAC
1 TTTTTTGAAAAACAGAAATTTAAAGAAATACCTCAGCGT--GACCCGAGGCTCAACTCACCTCTC
35397073 GCAATATGAGTTGA
64 GCAATATGAGTTGA
* *
35397087 -TTTTTGAAAAACATAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTCT
1 TTTTTTGAAAAACAGAAATTT-AAAGAAATACCTCAGCGT--GACCCGAGGCTCAACTCACCTCT
35397151 CGCAATATGAGTTGA
63 CGCAATATGAGTTGA
**
35397166 TTTTTTTTTAAAACAGAAATTTAAAAGAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTC
1 -TTTTTTGAAAAACAGAAATTT-AAAGAAATACCTCAGC--GTGACCCGAGGCTCAACTCACCTC
35397231 TCGCAATATGAGTTGA
62 TCGCAATATGAGTTGA
*
35397247 -TTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACTTCT
1 TTTTTTGAAAAACAGAAATTT-AAAGAAATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCT
35397311 CGCAATATGAGTTGA
63 CGCAATATGAGTTGA
** * * *
35397326 -TTTTAAAAAAATATAAATTTAAAAGAAATACCTCAACGTGCGACCCGAGGCTCAACTCACCTCT
1 TTTTTTGAAAAACAGAAATTT-AAAGAAATACCTCAGCGT--GACCCGAGGCTCAACTCACCTCT
35397390 CGCAATATGAGTTGA
63 CGCAATATGAGTTGA
* *
35397405 TTTTTTAAAAAAAAATAGAAATTTAAAAGAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACC
1 TTTTTT---GAAAAACAGAAATTT-AAAGAAATACCTCAGC--GTGACCCGAGGCTCAACTCACC
35397470 TCTCGCAATATGAGTTGA
60 TCTCGCAATATGAGTTGA
* ** *
35397488 -TTTTTGAAAAACAAAAATTTAAAAGAAATGTCTCAGCATGTGACCCGAGGCTCAACTCACTTCT
1 TTTTTTGAAAAACAGAAATTT-AAAGAAATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCT
35397552 CGCAATATGAGTTGA
63 CGCAATATGAGTTGA
** * * *
35397567 -TTTTAAAAAAACATAAATTTAAAAGAAATACCTCAGCGTGTAACCTGAGGCTCAACTCACATCT
1 TTTTTTGAAAAACAGAAATTT-AAAGAAATACCTCAGCGTG--ACCCGAGGCTCAACTCACCTCT
35397631 CGCAATATGAGTTGA
63 CGCAATATGAGTTGA
** * * *
35397646 -TTTTCAAAAAACATAAATTT--A-AAATACCTCAGCGTGCGACCAGAGGCTCAACTCACCTCAC
1 TTTTTTGAAAAACAGAAATTTAAAGAAATACCTCAGCGT--GACCCGAGGCTCAACTCACCTCTC
35397707 GCAATATGAGTTGA
64 GCAATATGAGTTGA
* *
35397721 -TTTTTGAAAAACATAAATTTAAA-AGAATACCACAGCGTGCGACCCGAGGCTCAACTCACCTCT
1 TTTTTTGAAAAACAGAAATTTAAAGA-AATACCTCAGCGT--GACCCGAGGCTCAACTCACCTCT
35397784 CGCAATATGAGTTGA
63 CGCAATATGAGTTGA
**
35397799 TTTTTT-TTAAACAGAAATTTAAAAGAAATA---C--C-T----C-AGGCTCAACTCACCTCTCG
1 TTTTTTGAAAAACAGAAATTT-AAAGAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCG
35397852 CAATATGAGTTGA
65 CAATATGAGTTGA
* *
35397865 -TTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGTTCAACTCACTTCT
1 TTTTTTGAAAAACAGAAATTT-AAAGAAATACCTCAGCGT--GACCCGAGGCTCAACTCACCTCT
*
35397929 CGGAATATGAGTTGA
63 CGCAATATGAGTTGA
* * *
35397944 -TGTTTGCAAAAATAG-AATTTAAAAAAATA
1 TTTTTTG-AAAAACAGAAATTTAAAGAAATA
35397973 ATTCTTGAAG
Statistics
Matches: 2088, Mismatches: 172, Indels: 200
0.85 0.07 0.08
Matches are distributed among these distances:
65 5 0.00
66 54 0.03
67 1 0.00
69 1 0.00
71 1 0.00
72 1 0.00
73 25 0.01
74 34 0.02
75 419 0.20
76 123 0.06
77 135 0.06
78 92 0.04
79 710 0.34
80 272 0.13
81 90 0.04
82 9 0.00
83 78 0.04
85 38 0.02
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (77 bp):
TTTTTTGAAAAACAGAAATTTAAAGAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGC
AATATGAGTTGA
Found at i:35395636 original size:88 final size:88
Alignment explanation
Indices: 35395453--35395638 Score: 196
Period size: 88 Copynumber: 2.1 Consensus size: 88
35395443 TGATTTTCTT
* * *
35395453 TTAAAAAAAGGAAATTAAAAATACCTCAGCGTAACCCGAGGCTCAACTCACCTCTCGCATTATGA
1 TTAAAAATAGGAAATTAAAAATACCTCAACGTAACCCGAGGCTCAACCCACCTCTCGCATTATGA
***** *****
35395518 GTTGATTTTTTTCTTTCTTTTTT
66 GTTGATTTTTTAAAAACTAGAAA
* *
35395541 TTGAAAAATA-GAAATTGAAAATACCTCAACGTGACCCGAGGCTCAACCCACCTCTCGCATTATG
1 TT-AAAAATAGGAAATTAAAAATACCTCAACGTAACCCGAGGCTCAACCCACCTCTCGCATTATG
35395605 AGTTGATTTTTTGAAAAAAC-AGAAA
65 AGTTGATTTTTT--AAAAACTAGAAA
35395630 TTAAAAATA
1 TTAAAAATA
35395639 CCTCAGCGTA
Statistics
Matches: 80, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
88 71 0.89
89 8 0.10
90 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (88 bp):
TTAAAAATAGGAAATTAAAAATACCTCAACGTAACCCGAGGCTCAACCCACCTCTCGCATTATGA
GTTGATTTTTTAAAAACTAGAAA
Found at i:35396619 original size:159 final size:158
Alignment explanation
Indices: 35395559--35397972 Score: 2762
Period size: 159 Copynumber: 15.5 Consensus size: 158
35395549 TAGAAATTGA
* * *
35395559 AAATACCTCAAC--GTGACCCGAGGCTCAACCCACCTCTCGCATTATGAGTTGATTTTTTGAAAA
1 AAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTG-AAA
* * * * * *
35395622 AACAGAAA-TT--AA-AAATACCTCAGCGT--AACCCGAGGTTCAACTCGCTTCTCGTATTATGA
64 AACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGA
35395681 GTTGACTTTTTTGAAAAAACAGAAA-TT--AA-
129 GTTGA--TTTTTG-AAAAACAGAAATTTAAAAG
* * * *
35395710 AAATACTTCAAC--GTAACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTTTTT
1 AAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA------TTTTT
* * * *
35395773 GAAAAATAGAAA-TT-GAAG--ATACCTCAGCGT--GACCCGAGGCTCAACCCACCTCTCGCATT
60 GAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAAT
*
35395832 ATGAGTTGATTTTTTTTGAAAAAATAGAAA-TT--AA-
125 ATGAGTTGA---TTTTTG-AAAAACAGAAATTTAAAAG
* * * * * *
35395866 AAATACCTCAGC--GTAACCCGAGGTTCAACTCACTTCTCGTATTATGACTTGATTTTTTTGAAA
1 AAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAA
* * * *
35395929 AAAATGGAAA-TT--AA-AAATACCACAGCGT--AACCCGAGGCTCAACTCACCTCTCGCATTAT
64 AACA--GAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATAT
**
35395988 GAGTTGATTTTTTTTTTGAAAAACAGAAATCAAAAAAG
127 GAGTTGA-----TTTTTGAAAAACAGAAAT-TTAAAAG
* * * * * ***
35396026 AAATACCTCGGTGTGTGACCCGAAGCTCAACTCACCTTTCGCAATATGAGTTGGTTTTTTTTAAA
1 AAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
* * * * *
35396091 CAGAAATTTAAAAGAAATACATCGGCATGCGACCTGAGGCTCAACTCACCTATCAG-AATATGAG
66 CAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTC-GCAATATGAG
* **
35396155 TTGATTTTTTGAAAAGCA-AAAACT-AAA-
130 TTGA-TTTTTGAAAAACAGAAATTTAAAAG
*
35396182 AAATACCTC-GAC--GTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA
1 AAATACCTCAG-CGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA
* * * * *
35396244 ATAGAAATTT---A-AATTACCTCAGCGTACGACTCGAGGCTCAACTCACATCTCGCAATATGAG
65 ACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
*
35396305 TTGATTTTCGAAAAACAGAAATTT---A-
130 TTGATTTTTGAAAAACAGAAATTTAAAAG
* * *
35396330 AAATACCTCAGCGTGCGACCCGAGGCTAAACTCACCTCACGCAATATGAGTTGATTTTTGAAAAA
1 AAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
* *
35396395 CATAAATTTAAAAGAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGT
66 CAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGT
**
35396460 TGATTTTTTTTAAAACAGAAATTTAAAAG
131 TGA-TTTTTGAAAAACAGAAATTTAAAAG
35396489 AAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
1 AAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
35396554 CAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGT
66 CAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGT
*
35396619 TGATTTTTTTAAAAACAGAAATTTAAAAG
131 TGA-TTTTTGAAAAACAGAAATTTAAAAG
35396648 AAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
1 AAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
*
35396713 CAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCACAATATGAGT
66 CAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGT
**
35396778 TGATTTTTTTTAAAACAGAAATTTAAAAG
131 TGA-TTTTTGAAAAACAGAAATTTAAAAG
* ** ** *
35396807 AAATACCTCAGCATGCAACTTGAGGCTCAACTCACCTATCAG-AATATGAGTTGATTTTTTTGAA
1 AAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTC-GCAATATGAGTTGA--TTTTTGAA
* ** * * *
35396871 AAGCA-AAAACT-GAA-AAATACCTC-GACGT--GACTCAAGGCTCAACTCACCTCTCGCAATAT
63 AAACAGAAATTTAAAAGAAATACCTCAG-CGTGCGACCCGAGGCTCAACTCACCTCTCGCAATAT
35396930 GAGTTGATTTTTGAAAAACAGAAATTT---A-
127 GAGTTGATTTTTGAAAAACAGAAATTTAAAAG
* *
35396958 AAATACCTCAGCGCAG-GACCCGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTGAAAA
1 AAATACCTCAGCG-TGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA
*
35397022 ACAGAAATTT---A-AAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCACGCAATATGAG
65 ACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
*
35397083 TTGATTTTTGAAAAACATAAATTTAAAAG
130 TTGATTTTTGAAAAACAGAAATTTAAAAG
* * **
35397112 AAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTTAA
1 AAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAA
*
35397177 AACAGAAATTTAAAAGAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
64 AACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGA
35397242 GTTGATTTTTGAAAAACAGAAATTTAAAAG
129 GTTGATTTTTGAAAAACAGAAATTTAAAAG
* **
35397272 AAATACCTCAGCGTGTGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAAAAA
1 AAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
* * *
35397337 TATAAATTTAAAAGAAATACCTCAACGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGT
66 CAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGT
* *
35397402 TGATTTTTTAAAAAAAAATAGAAATTTAAAAG
131 TGA-TTTTT---GAAAAACAGAAATTTAAAAG
35397434 AAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
1 AAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
* ** * * *
35397499 CAAAAATTTAAAAGAAATGTCTCAGCATGTGACCCGAGGCTCAACTCACTTCTCGCAATATGAGT
66 CAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGT
** *
35397564 TGATTTTAAAAAAACATAAATTTAAAAG
131 TGATTTTTGAAAAACAGAAATTTAAAAG
* * * **
35397592 AAATACCTCAGCGTGTAACCTGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTCAAAAAA
1 AAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
* * *
35397657 CATAAATTT---A-AAATACCTCAGCGTGCGACCAGAGGCTCAACTCACCTCACGCAATATGAGT
66 CAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGT
*
35397718 TGATTTTTGAAAAACATAAATTTAAAAG
131 TGATTTTTGAAAAACAGAAATTTAAAAG
* * ***
35397746 -AATACCACAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAA
1 AAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
35397810 CAGAAATTTAAAAGAAATA---C--C-T------C-AGGCTCAACTCACCTCTCGCAATATGAGT
66 CAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGT
35397862 TGATTTTTGAAAAACAGAAATTTAAAAG
131 TGATTTTTGAAAAACAGAAATTTAAAAG
* * * * *
35397890 AAATACCTCAGCGTGCGACCCGAGGTTCAACTCACTTCTCGGAATATGAGTTGATGTTTGCAAAA
1 AAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAA
*
35397955 ATAG-AATTTAAAA-AAATA
65 ACAGAAATTTAAAAGAAATA
35397973 ATTCTTGAAG
Statistics
Matches: 1996, Mismatches: 193, Indels: 155
0.85 0.08 0.07
Matches are distributed among these distances:
144 60 0.03
145 62 0.03
146 5 0.00
148 24 0.01
149 26 0.01
150 160 0.08
151 94 0.05
152 17 0.01
153 68 0.03
154 275 0.14
155 103 0.05
156 149 0.07
157 9 0.00
158 175 0.09
159 371 0.19
160 166 0.08
161 18 0.01
162 181 0.09
164 32 0.02
165 1 0.00
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (158 bp):
AAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
CAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTGAAAAACAGAAATTTAAAAG
Found at i:35397848 original size:66 final size:66
Alignment explanation
Indices: 35397767--35397900 Score: 241
Period size: 66 Copynumber: 2.0 Consensus size: 66
35397757 GTGCGACCCG
***
35397767 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAACAGAAATTTAAAAGAAATACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACCT
35397832 C
66 C
35397833 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACCT
35397898 C
66 C
35397899 AG
1 AG
35397901 CGTGCGACCC
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.29
Consensus pattern (66 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACCT
C
Found at i:35397965 original size:145 final size:143
Alignment explanation
Indices: 35397689--35397972 Score: 435
Period size: 144 Copynumber: 2.0 Consensus size: 143
35397679 GTGCGACCAG
*
35397689 AGGCTCAACTCACCTCACGCAATATGAGTTGATTTTTGAAAAACATAAATTTAAAAGAATACCAC
1 AGGCTCAACTCACCTCACGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAATACCAC
****
35397754 AGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAACAGAAATTT
66 AGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGCAAAAACAGAAATTT
35397819 AAAAGAAATACCTC
131 AAAA-AAATACCTC
* *
35397833 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACCT
1 AGGCTCAACTCACCTCACGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAG-AATACCA
* * * *
35397898 CAGCGTGCGACCCGAGGTTCAACTCACTTCTCGGAATATGAGTTGATGTTTGCAAAAATAG-AAT
65 CAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT-TTTGCAAAAACAGAAAT
35397962 TTAAAAAAATA
129 TTAAAAAAATA
35397973 ATTCTTGAAG
Statistics
Matches: 127, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
144 60 0.47
145 59 0.46
146 8 0.06
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (143 bp):
AGGCTCAACTCACCTCACGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAATACCAC
AGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGCAAAAACAGAAATTT
AAAAAAATACCTC
Found at i:35398831 original size:18 final size:18
Alignment explanation
Indices: 35398817--35398887 Score: 65
Period size: 18 Copynumber: 3.8 Consensus size: 18
35398807 TGATTTTCAT
35398817 TTTTTTTTTGTTTTTCTA
1 TTTTTTTTTGTTTTTCTA
*
35398835 TTTTTTTTTGTTTCTTTCTG
1 TTTTTTTTTG-TT-TTTCTA
*
35398855 TTTTTTTCTATATTTTT-T-
1 TTTTTTT-T-TGTTTTTCTA
*
35398873 TGTTTTTTTGTTTTT
1 TTTTTTTTTGTTTTT
35398888 TTTGCATAAC
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
16 6 0.13
17 1 0.02
18 16 0.36
19 3 0.07
20 15 0.33
21 3 0.07
22 1 0.02
ACGTcount: A:0.04, C:0.06, G:0.07, T:0.83
Consensus pattern (18 bp):
TTTTTTTTTGTTTTTCTA
Found at i:35398837 original size:19 final size:20
Alignment explanation
Indices: 35398810--35398861 Score: 65
Period size: 18 Copynumber: 2.7 Consensus size: 20
35398800 TTTATCTTGA
35398810 TTTTC-ATTTTTTTTTTG-T
1 TTTTCTATTTTTTTTTTGTT
35398828 TTTTCTA-TTTTTTTTTGTT
1 TTTTCTATTTTTTTTTTGTT
*
35398847 TCTTTCTGTTTTTTT
1 T-TTTCTATTTTTTT
35398862 CTATATTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 15 0.52
19 3 0.10
20 5 0.17
21 6 0.21
ACGTcount: A:0.04, C:0.08, G:0.06, T:0.83
Consensus pattern (20 bp):
TTTTCTATTTTTTTTTTGTT
Found at i:35398842 original size:20 final size:20
Alignment explanation
Indices: 35398817--35398861 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
35398807 TGATTTTCAT
35398817 TTTTTTTTTG-TT-TTTCTA
1 TTTTTTTTTGTTTCTTTCTA
*
35398835 TTTTTTTTTGTTTCTTTCTG
1 TTTTTTTTTGTTTCTTTCTA
35398855 TTTTTTT
1 TTTTTTT
35398862 CTATATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 10 0.42
19 2 0.08
20 12 0.50
ACGTcount: A:0.02, C:0.07, G:0.07, T:0.84
Consensus pattern (20 bp):
TTTTTTTTTGTTTCTTTCTA
Found at i:35398863 original size:30 final size:28
Alignment explanation
Indices: 35398816--35398889 Score: 103
Period size: 30 Copynumber: 2.5 Consensus size: 28
35398806 TTGATTTTCA
* *
35398816 TTTTTTTTTTGTTTTTCTATTTTTTTTTG
1 TTTTTTTGTT-TTTTTCTATATTTTTTTG
35398845 TTTCTTTCTGTTTTTTTCTATATTTTTTTG
1 TTT-TTT-TGTTTTTTTCTATATTTTTTTG
35398875 TTTTTTTGTTTTTTT
1 TTTTTTTGTTTTTTT
35398890 TGCATAACAT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
28 9 0.22
29 6 0.15
30 23 0.56
31 3 0.07
ACGTcount: A:0.04, C:0.05, G:0.07, T:0.84
Consensus pattern (28 bp):
TTTTTTTGTTTTTTTCTATATTTTTTTG
Found at i:35398880 original size:7 final size:8
Alignment explanation
Indices: 35398819--35398889 Score: 52
Period size: 8 Copynumber: 7.9 Consensus size: 8
35398809 ATTTTCATTT
35398819 TTTTTTTG
1 TTTTTTTG
*
35398827 TTTTTCTATT
1 TTTTT-T-TG
35398837 TTTTTTTG
1 TTTTTTTG
35398845 TTTCTTTCTG
1 TTT-TTT-TG
*
35398855 TTTTTTTCTATA
1 --TTTTT-T-TG
35398867 TTTTTTTG
1 TTTTTTTG
35398875 TTTTTTTG
1 TTTTTTTG
35398883 TTTTTTT
1 TTTTTTT
35398890 TGCATAACAT
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
8 25 0.49
9 6 0.12
10 13 0.25
11 2 0.04
12 5 0.10
ACGTcount: A:0.04, C:0.06, G:0.07, T:0.83
Consensus pattern (8 bp):
TTTTTTTG
Found at i:35398890 original size:20 final size:20
Alignment explanation
Indices: 35398816--35398890 Score: 57
Period size: 20 Copynumber: 3.8 Consensus size: 20
35398806 TTGATTTTCA
*
35398816 TTTTTTTTTTG--TTTTTCT
1 TTTTTTTTTTGTTTTTTTGT
*
35398834 ATTTTTTTTTGTTTCTTTCTGT
1 TTTTTTTTTTGTTT-TTT-TGT
* * *
35398856 TTTTTTCTATATTTTTTTGT
1 TTTTTTTTTTGTTTTTTTGT
35398876 TTTTTTGTTTT-TTTT
1 TTTTTT-TTTTGTTTT
35398891 GCATAACATT
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
18 10 0.23
20 14 0.32
21 8 0.18
22 12 0.27
ACGTcount: A:0.04, C:0.05, G:0.07, T:0.84
Consensus pattern (20 bp):
TTTTTTTTTTGTTTTTTTGT
Found at i:35405590 original size:35 final size:36
Alignment explanation
Indices: 35405551--35405618 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 36
35405541 ATACGAGAAA
* * *
35405551 ATTTTTTTTAAAACACG-AAGATTTTTGAAACAATT
1 ATTTTTTTGAAAACACGAAAAATTTTTAAAACAATT
35405586 ATTTTTTTGAAAACACGAAAAATTTTTAAAACA
1 ATTTTTTTGAAAACACGAAAAATTTTTAAAACA
35405619 TGAGAATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 16 0.55
36 13 0.45
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (36 bp):
ATTTTTTTGAAAACACGAAAAATTTTTAAAACAATT
Found at i:35405611 original size:18 final size:17
Alignment explanation
Indices: 35405589--35405879 Score: 213
Period size: 18 Copynumber: 16.6 Consensus size: 17
35405579 AACAATTATT
35405589 TTTTTGAAAACACGAAAAA
1 TTTTTGAAAACACG--AAA
*
35405608 TTTTT-AAAACATGAGAA
1 TTTTTGAAAACACGA-AA
* *
35405625 TTTTAG-AGACACGAAAA
1 TTTTTGAAAACACG-AAA
* * *
35405642 TTCTTAAAAACAAGAAAA
1 TTTTTGAAAACACG-AAA
35405660 TTTTTG-AAACACGGAAA
1 TTTTTGAAAACAC-GAAA
*
35405677 TTTTT-AAAACACGGGAA
1 TTTTTGAAAACAC-GAAA
*
35405694 TTTTTGAAAACATGAAAA
1 TTTTTGAAAACACG-AAA
*
35405712 TTTTTG-AAACACTGGAA
1 TTTTTGAAAACAC-GAAA
*
35405729 -TTTTGAAAACACGAGGA
1 TTTTTGAAAACACGA-AA
*
35405746 TTTTTTAAAACACGAAGA
1 TTTTTGAAAACACGAA-A
35405764 TTTTTGAAAACACGGAAA
1 TTTTTGAAAACAC-GAAA
*
35405782 TTTTTGAAAATACGAAAA
1 TTTTTGAAAACACG-AAA
* *
35405800 TTTTT-AAAACATGGGAA
1 TTTTTGAAAACA-CGAAA
*
35405817 TTTTTGAAAACATGAAAA
1 TTTTTGAAAACACG-AAA
*
35405835 TTTTTG-AAACACTGGAAC
1 TTTTTGAAAACAC--GAAA
35405853 TTTTTGAAAACACGAGAA
1 TTTTTGAAAACACGA-AA
35405871 -TTTTGAAAA
1 TTTTTGAAAA
35405880 ATGGATTCTT
Statistics
Matches: 219, Mismatches: 31, Indels: 46
0.74 0.10 0.16
Matches are distributed among these distances:
16 7 0.03
17 89 0.41
18 108 0.49
19 15 0.07
ACGTcount: A:0.45, C:0.10, G:0.14, T:0.31
Consensus pattern (17 bp):
TTTTTGAAAACACGAAA
Found at i:35405679 original size:52 final size:53
Alignment explanation
Indices: 35405588--35405878 Score: 229
Period size: 52 Copynumber: 5.5 Consensus size: 53
35405578 AAACAATTAT
* * *
35405588 TTTTTTGAAAACACGAAAAATTTTTAAAACA-TGAGAATTTTAG-AGACACGAAAA
1 TTTTTT-AAAACACG-AAAATTTTTGAAACACGGA-AATTTTAGAAAACACGAAAA
* * * * **
35405642 TTCTTAAAAACAAGAAAATTTTTGAAACACGGAAATTTT-TAAAACACGGGAA
1 TTTTTTAAAACACGAAAATTTTTGAAACACGGAAATTTTAGAAAACACGAAAA
* * **
35405694 TTTTTGAAAACATGAAAATTTTTGAAACACTGG-AATTTT-GAAAACACGAGGA
1 TTTTTTAAAACACGAAAATTTTTGAAACAC-GGAAATTTTAGAAAACACGAAAA
* * *
35405746 TTTTTTAAAACACGAAGATTTTTGAAAACACGGAAATTTTTGAAAATACGAAAA
1 TTTTTTAAAACACGAAAATTTTTG-AAACACGGAAATTTTAGAAAACACGAAAA
* ** * * * * *
35405800 -TTTTTAAAACATGGGAATTTTTGAAAACATGAAAATTTTTG-AAACACTGGAAC
1 TTTTTTAAAACACGAAAATTTTTG-AAACACGGAAATTTTAGAAAACAC-GAAAA
* *
35405853 TTTTTGAAAACACGAGAA-TTTTGAAA
1 TTTTTTAAAACACGAAAATTTTTGAAA
35405879 AATGGATTCT
Statistics
Matches: 196, Mismatches: 33, Indels: 18
0.79 0.13 0.07
Matches are distributed among these distances:
52 102 0.52
53 66 0.34
54 28 0.14
ACGTcount: A:0.45, C:0.10, G:0.14, T:0.31
Consensus pattern (53 bp):
TTTTTTAAAACACGAAAATTTTTGAAACACGGAAATTTTAGAAAACACGAAAA
Found at i:35405892 original size:35 final size:35
Alignment explanation
Indices: 35405590--35405884 Score: 212
Period size: 35 Copynumber: 8.4 Consensus size: 35
35405580 ACAATTATTT
* * * *
35405590 TTTTGAAAACACGAAAAATTTTT-AAAACATGAGAA
1 TTTTGAAAACATG-GAAATTTTTGAAAACACGAAAA
* * * * * *
35405625 TTTT-AGAGACACGAAAATTCTTAAAAACAAGAAAA
1 TTTTGA-AAACATGGAAATTTTTGAAAACACGAAAA
* * *
35405660 TTTTTG-AAACACGGAAATTTTT-AAAACACGGGAAT
1 -TTTTGAAAACATGGAAATTTTTGAAAACAC-GAAAA
* *
35405695 TTTTGAAAACATGAAAATTTTTG-AAACACTG-GAA
1 TTTTGAAAACATGGAAATTTTTGAAAACAC-GAAAA
* * * *
35405729 TTTTGAAAACA-CGAGGATTTTTTAAAACACGAAGAT
1 TTTTGAAAACATGGA-AATTTTTGAAAACACGAA-AA
* *
35405765 TTTTGAAAACACGGAAATTTTTGAAAATACGAAAA
1 TTTTGAAAACATGGAAATTTTTGAAAACACGAAAA
* * *
35405800 TTTTTAAAACATGGGAATTTTTGAAAACATGAAAA
1 TTTTGAAAACATGGAAATTTTTGAAAACACGAAAA
* *
35405835 TTTTTG-AAACACTGGAACTTTTTGAAAACACGAGAA
1 -TTTTGAAAACA-TGGAAATTTTTGAAAACACGAAAA
35405871 TTTTGAAAA-ATGGA
1 TTTTGAAAACATGGA
35405885 TTCTTTTTTT
Statistics
Matches: 209, Mismatches: 36, Indels: 31
0.76 0.13 0.11
Matches are distributed among these distances:
33 1 0.00
34 43 0.21
35 105 0.50
36 58 0.28
37 2 0.01
ACGTcount: A:0.45, C:0.09, G:0.15, T:0.30
Consensus pattern (35 bp):
TTTTGAAAACATGGAAATTTTTGAAAACACGAAAA
Found at i:35405965 original size:17 final size:17
Alignment explanation
Indices: 35405911--35405965 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
35405901 ATTTTTAATT
35405911 TTTTTAAAACACGAATA
1 TTTTTAAAACACGAATA
* * * * *
35405928 TTTTTGAAATATGATTT
1 TTTTTAAAACACGAATA
*
35405945 TTTTTAAAACACGAAAA
1 TTTTTAAAACACGAATA
35405962 TTTT
1 TTTT
35405966 GAAACACGGC
Statistics
Matches: 27, Mismatches: 11, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.45
Consensus pattern (17 bp):
TTTTTAAAACACGAATA
Found at i:35406441 original size:8 final size:7
Alignment explanation
Indices: 35406416--35406461 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
35406406 CAATTCGGGC
35406416 CTTTTTT
1 CTTTTTT
*
35406423 -TCTTTT
1 CTTTTTT
*
35406429 CTTTTCT
1 CTTTTTT
35406436 CTTTTTT
1 CTTTTTT
35406443 CCTTTTTT
1 -CTTTTTT
35406451 C-TTTTT
1 CTTTTTT
35406457 CTTTT
1 CTTTT
35406462 CTTTTTCCCT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
6 11 0.34
7 14 0.44
8 7 0.22
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (7 bp):
CTTTTTT
Found at i:35406464 original size:26 final size:27
Alignment explanation
Indices: 35406418--35406476 Score: 86
Period size: 26 Copynumber: 2.2 Consensus size: 27
35406408 ATTCGGGCCT
*
35406418 TTTTTTCTTTTCTTTTCTCTTTTTTCC
1 TTTTTTCTTTTCTTTTCTCTTTTTCCC
35406445 TTTTTTCTTTT-TCTTT-TCTTTTTCCC
1 TTTTTTCTTTTCT-TTTCTCTTTTTCCC
35406471 TTTTTT
1 TTTTTT
35406477 TTACAGATTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 16 0.53
27 14 0.47
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (27 bp):
TTTTTTCTTTTCTTTTCTCTTTTTCCC
Found at i:35406478 original size:28 final size:28
Alignment explanation
Indices: 35406415--35406477 Score: 87
Period size: 27 Copynumber: 2.3 Consensus size: 28
35406405 GCAATTCGGG
*
35406415 CCTTTTTTTCTTTTCTTTTCTCTTTTTT
1 CCTTTTTTTCTTTTCTTTTCTCTTTTTC
35406443 CC-TTTTTTCTTTT-TCTTT-TCTTTTTC
1 CCTTTTTTTCTTTTCT-TTTCTCTTTTTC
35406469 CCTTTTTTT
1 CCTTTTTTT
35406478 TACAGATTGG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
26 10 0.31
27 20 0.62
28 2 0.06
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (28 bp):
CCTTTTTTTCTTTTCTTTTCTCTTTTTC
Found at i:35406554 original size:43 final size:43
Alignment explanation
Indices: 35406494--35406589 Score: 140
Period size: 43 Copynumber: 2.3 Consensus size: 43
35406484 TTGGGCCGCT
* * * *
35406494 GGGC-GCTGGGCTGGATGCTGGTCTGCTGCTGGAACGGGCCTG
1 GGGCTGCTGGACTAGATGCTGGCCTGCTGCTGGAACAGGCCTG
35406536 GGGCTGCTGGACTAGATGCTGGCCTGCTGCTGGAACAGGCCTG
1 GGGCTGCTGGACTAGATGCTGGCCTGCTGCTGGAACAGGCCTG
*
35406579 GGGTTGCTGGA
1 GGGCTGCTGGA
35406590 GCTGGCCTGC
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 4 0.08
43 44 0.92
ACGTcount: A:0.10, C:0.23, G:0.45, T:0.22
Consensus pattern (43 bp):
GGGCTGCTGGACTAGATGCTGGCCTGCTGCTGGAACAGGCCTG
Found at i:35406608 original size:43 final size:42
Alignment explanation
Indices: 35406518--35406611 Score: 100
Period size: 43 Copynumber: 2.2 Consensus size: 42
35406508 ATGCTGGTCT
* * *
35406518 GCTGCTGGAACGGGCCTGGGGCTGCTGGACTAGATGCTGGCCT
1 GCTGCTGGAACAGGCCTGGGGCTGCTGGACTAGATGCTAG-CA
* * *
35406561 GCTGCTGGAACAGGCCTGGGGTTGCTGGAGCTGGCCTGCTAG-A
1 GCTGCTGGAACAGGCCTGGGGCTGCTGGA-CTAG-ATGCTAGCA
35406604 GCTGCTGG
1 GCTGCTGG
35406612 GCGTTGGGCT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
43 35 0.81
44 3 0.07
45 5 0.12
ACGTcount: A:0.12, C:0.24, G:0.43, T:0.21
Consensus pattern (42 bp):
GCTGCTGGAACAGGCCTGGGGCTGCTGGACTAGATGCTAGCA
Found at i:35406755 original size:22 final size:21
Alignment explanation
Indices: 35406730--35406805 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 21
35406720 TGCTGCTGTT
*
35406730 TTTTTATTCTTTATTTTTTTTC
1 TTTTTCTTCTTT-TTTTTTTTC
*
35406752 TTTTTCTTCTATTTTTTCTTTC
1 TTTTTCTTCT-TTTTTTTTTTC
* *
35406774 TGTTTCTTTTTCTTTTTTCTTTC
1 TTTTTCTTCTT-TTTTTT-TTTC
35406797 TATTTTCTT
1 T-TTTTCTT
35406806 TCTTCCCCTT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
21 1 0.02
22 30 0.68
23 7 0.16
24 6 0.14
ACGTcount: A:0.05, C:0.14, G:0.01, T:0.79
Consensus pattern (21 bp):
TTTTTCTTCTTTTTTTTTTTC
Found at i:35406757 original size:6 final size:6
Alignment explanation
Indices: 35406736--35406806 Score: 51
Period size: 6 Copynumber: 12.0 Consensus size: 6
35406726 TGTTTTTTTA
* * *
35406736 TTCTTT ATTTTTT TTCTTT TTCTTCT AT-TTT TTC--T TTCTGT TTCTTT
1 TTCTTT -TTCTTT TTCTTT TTCTT-T TTCTTT TTCTTT TTCTTT TTCTTT
*
35406783 TTCTTT TT-TCT TTCTATT TTCTTT
1 TTCTTT TTCTTT TTCT-TT TTCTTT
35406807 CTTCCCCTTC
Statistics
Matches: 51, Mismatches: 7, Indels: 13
0.72 0.10 0.18
Matches are distributed among these distances:
4 4 0.08
5 6 0.12
6 29 0.57
7 12 0.24
ACGTcount: A:0.04, C:0.15, G:0.01, T:0.79
Consensus pattern (6 bp):
TTCTTT
Found at i:35406769 original size:12 final size:13
Alignment explanation
Indices: 35406752--35406802 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
35406742 ATTTTTTTTC
35406752 TTTTTC-TTCTAT
1 TTTTTCTTTCTAT
*
35406764 TTTTTCTTTCTGT
1 TTTTTCTTTCTAT
*
35406777 TTCTT-TTTC--T
1 TTTTTCTTTCTAT
35406787 TTTTTCTTTCTAT
1 TTTTTCTTTCTAT
35406800 TTT
1 TTT
35406803 CTTTCTTCCC
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
10 5 0.16
11 4 0.12
12 10 0.31
13 13 0.41
ACGTcount: A:0.04, C:0.16, G:0.02, T:0.78
Consensus pattern (13 bp):
TTTTTCTTTCTAT
Found at i:35406933 original size:21 final size:21
Alignment explanation
Indices: 35406917--35406954 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
35406907 CTCTTTTCTC
35406917 TTTT-CTTTCTCTCCTTTCCT
1 TTTTCCTTTCTCTCCTTTCCT
35406937 TTTTCCTTTCTCT-CTTTC
1 TTTTCCTTTCTCTCCTTTC
35406955 TTTCTTTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTTCCTTTCTCTCCTTTCCT
Found at i:35406940 original size:20 final size:20
Alignment explanation
Indices: 35406907--35406954 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
35406897 ATCTCCTCTC
*
35406907 CTCTTTTCTCTTTT-CTTTCT
1 CTCTTTCCT-TTTTCCTTTCT
35406927 CTCCTTTCCTTTTTCCTTTCT
1 CT-CTTTCCTTTTTCCTTTCT
35406948 CTCTTTC
1 CTCTTTC
35406955 TTTCTTTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 11 0.44
21 14 0.56
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (20 bp):
CTCTTTCCTTTTTCCTTTCT
Found at i:35407433 original size:30 final size:30
Alignment explanation
Indices: 35407394--35407531 Score: 100
Period size: 30 Copynumber: 4.6 Consensus size: 30
35407384 AGAAAAACAT
* *
35407394 GGGGCCAAAATGTAATTTTTAAAAAGTTAA
1 GGGGTCAAAATGTAATTTTGAAAAAGTTAA
* * *
35407424 GTGGTCAAAATGAAATTTTGAGAAAGTTAA
1 GGGGTCAAAATGTAATTTTGAAAAAGTTAA
* * * *
35407454 GGGGTCAATATGTAAATAT-AGAAAAGTTTA
1 GGGGTCAAAATGTAATTTTGA-AAAAGTTAA
* * * * *
35407484 TGGTTCAAAATG-AAATTTGAAAAAAATTTA
1 GGGGTCAAAATGTAATTTTG-AAAAAGTTAA
**
35407514 GGGGTCTGAATGTAATTT
1 GGGGTCAAAATGTAATTT
35407532 ATATTTTTTG
Statistics
Matches: 82, Mismatches: 22, Indels: 7
0.74 0.20 0.06
Matches are distributed among these distances:
29 6 0.07
30 71 0.87
31 5 0.06
ACGTcount: A:0.42, C:0.04, G:0.22, T:0.32
Consensus pattern (30 bp):
GGGGTCAAAATGTAATTTTGAAAAAGTTAA
Found at i:35411496 original size:3 final size:3
Alignment explanation
Indices: 35411488--35411522 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
35411478 AATAGGCTAA
35411488 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
35411523 AAGGGTCCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:35414217 original size:12 final size:12
Alignment explanation
Indices: 35414200--35414225 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
35414190 GAGAGATTTT
35414200 CTCCTAATTCTG
1 CTCCTAATTCTG
35414212 CTCCTAATTCTG
1 CTCCTAATTCTG
35414224 CT
1 CT
35414226 ACTATCAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.35, G:0.08, T:0.42
Consensus pattern (12 bp):
CTCCTAATTCTG
Found at i:35418564 original size:106 final size:106
Alignment explanation
Indices: 35418289--35418924 Score: 1004
Period size: 106 Copynumber: 6.0 Consensus size: 106
35418279 TGGATTTAGA
* * * *
35418289 TTTAATAGGATATTTGGCTATTTGGCCGAACAAGAAATCGAAACCCATCACGTTAGGGCACATTC
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACAAGAAATCGAAACCCAGCACGTTAGGGCACGTTC
*
35418354 TCTCGAATTTCCAAACGCAAAATATTGCCTTACTTTGAGAG
66 TCTCGAATTTCCAAACGCAAAATATTGCCTTACTTTGAAAG
* * *
35418395 TTTAAAAGTGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCTAGCACATTAGGGCACGTT
1 TTTAAAAG-GATATTTGGCTATTTGGTCGAACAAGAAATCGAAACCCAGCACGTTAGGGCACGTT
* * *
35418460 TTCTCGAATTTTCAAACGCAAAATATTGCCTTACTTTGAAAT
65 CTCTCGAATTTCCAAACGCAAAATATTGCCTTACTTTGAAAG
* *
35418502 TTTAAAAGGATATTTGGCTATTTGGTCGAACAAAAAATCGAAACCCAACACGTTAGGGCACGTTC
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACAAGAAATCGAAACCCAGCACGTTAGGGCACGTTC
*
35418567 TCTTGAATTTCCAAACGCAAAATATTGCCTTACTTTGAAAG
66 TCTCGAATTTCCAAACGCAAAATATTGCCTTACTTTGAAAG
* * * *
35418608 TTTAAAAGGATATTTAGCTATTTGGTCGAACAAGAAATTGAAACCCAGCACGTTAGGACACGTTT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACAAGAAATCGAAACCCAGCACGTTAGGGCACGTTC
* *
35418673 TCTCAAATTTCCAAACGCAAAATATTGCCTTACTTTGAAAT
66 TCTCGAATTTCCAAACGCAAAATATTGCCTTACTTTGAAAG
* * *
35418714 TTTGAAAGGATATTCGGCTATTTGGTCGAA-AGAGAAATCGAAACCCAGCATGTTAGGGCACGTT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACA-AGAAATCGAAACCCAGCACGTTAGGGCACGTT
* *
35418778 CTCTCGAATTTCTAAAAGCAAAATATTGCCTTACTTTGAAAG
65 CTCTCGAATTTCCAAACGCAAAATATTGCCTTACTTTGAAAG
* *
35418820 TTTAAAAGGATATTTGGCTATTTGGTCGAACAAGAAATCGAAACCCAGCACGTTAGGGTACGTTT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACAAGAAATCGAAACCCAGCACGTTAGGGCACGTTC
35418885 TCTCGAATTTCCAAACGCAAAATATTGCCTTACTTTGAAA
66 TCTCGAATTTCCAAACGCAAAATATTGCCTTACTTTGAAA
35418925 TTTTTTGAAT
Statistics
Matches: 480, Mismatches: 47, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
105 1 0.00
106 382 0.80
107 97 0.20
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (106 bp):
TTTAAAAGGATATTTGGCTATTTGGTCGAACAAGAAATCGAAACCCAGCACGTTAGGGCACGTTC
TCTCGAATTTCCAAACGCAAAATATTGCCTTACTTTGAAAG
Found at i:35421153 original size:132 final size:130
Alignment explanation
Indices: 35421004--35421310 Score: 443
Period size: 132 Copynumber: 2.3 Consensus size: 130
35420994 GGAAGACAAT
* * *
35421004 ATCTACATTCTCCAACCTACTCCACTGCTGCTCAAGGAGATAAGACCAGTGGCTTAAATCTGCTT
1 ATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGACCAGTGGCTTAAATCTGC-T
* * * *
35421069 CCCTACTACCTTGGGAAGATAAGATTTGTCGTCTTCAATCTGCTCCACTACTGCTTAAGGAGATA
65 CCCCACTACCTTGGAAAGATAAGATTTGCCGTCTTCAATCTGCCCCACTACTGCTT-AGGAGATA
35421134 AG
129 AG
* * **
35421136 ATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGTGGCTTAAATCTGCTC
1 ATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGACCAGTGGCTTAAATCTGCTC
* *
35421201 CCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCCCCACTACTGCTTAGGAGATAAG
66 CCCACTACCTTGGAAAGATAAGATTTGCCGTCTTCAATCTGCCCCACTACTGCTTAGGAGATAAG
* ** *
35421266 ATCTAAAATCTTCAACCTACTCCACTTATGCTTAGGGAGATAAGA
1 ATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGA
35421311 TCTACAATCT
Statistics
Matches: 156, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
130 49 0.31
131 51 0.33
132 56 0.36
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (130 bp):
ATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGACCAGTGGCTTAAATCTGCTC
CCCACTACCTTGGAAAGATAAGATTTGCCGTCTTCAATCTGCCCCACTACTGCTTAGGAGATAAG
Found at i:35421220 original size:87 final size:87
Alignment explanation
Indices: 35421129--35421398 Score: 260
Period size: 87 Copynumber: 3.1 Consensus size: 87
35421119 CTGCTTAAGG
35421129 AGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGTGGCTTAAA
1 AGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGTGGCTTAAA
*
35421194 TCTGCTCCCCACTATCTTGGAA
66 TCTACTCCCCACTATCTTGGAA
* * ** * * * * * * * * ***** *
35421216 AGATAAGATTTGCCGTCTTCGATCTGCCCCACTACTGCTTA-GGAGATAAGATCTAAAATCTTCA
1 AGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGACAAG-GCTGGTGGCTTAA
* *
35421280 ACCTACT--CCACTTATGCTTAGG-G
65 ATCTACTCCCCAC-TAT-CTT-GGAA
* *
35421303 AGATAAGATCTACAATCTTCAACCTACTCCACTGCTACTCAGGGAGACAAGGCTGGTGGCCTAAA
1 AGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGTGGCTTAAA
*
35421368 TCTACTCCACACTATCTTGGAA
66 TCTACTCCCCACTATCTTGGAA
35421390 AGATAAGAT
1 AGATAAGAT
35421399 TTGCCGTCTT
Statistics
Matches: 131, Mismatches: 44, Indels: 16
0.69 0.23 0.08
Matches are distributed among these distances:
85 4 0.03
86 13 0.10
87 98 0.75
88 13 0.10
89 3 0.02
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (87 bp):
AGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGTGGCTTAAA
TCTACTCCCCACTATCTTGGAA
Found at i:35421383 original size:174 final size:175
Alignment explanation
Indices: 35421100--35421480 Score: 631
Period size: 174 Copynumber: 2.2 Consensus size: 175
35421090 AGATTTGTCG
* * *
35421100 TCTTCAATCTGCTCCACTACTGCTTAAGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCT
1 TCTTCAACCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCT
* * * *
35421165 GCTCAGGGAGACAAGGCTGGTGGCTTAAATCTGCTCCCCACTATCTTGGAAAGATAAGATTTGCC
66 ACTCAGGGAGACAAGGCTGGTGGCCTAAATCTACTCCACACTATCTTGGAAAGATAAGATTTGCC
*
35421230 GTCTTCGATCTGCCCCACTACTGCTTA-GGAGATAAGATCTAAAA
131 GTCTTCGATCTGCCCCACTACTGCTTAGGGAGATAAGATATAAAA
35421274 TCTTCAACCTACTCCACTTA-TGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGC
1 TCTTCAACCTACTCCAC-TACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGC
35421338 TACTCAGGGAGACAAGGCTGGTGGCCTAAATCTACTCCACACTATCTTGGAAAGATAAGATTTGC
65 TACTCAGGGAGACAAGGCTGGTGGCCTAAATCTACTCCACACTATCTTGGAAAGATAAGATTTGC
* * *
35421403 CGTCTTCGATCTGCTCTACTACTGCTTAGGGAGATAAGATATATAA
130 CGTCTTCGATCTGCCCCACTACTGCTTAGGGAGATAAGATATAAAA
*
35421449 TCTTCAACCTACTCCACTACTGCTCAGGGAGA
1 TCTTCAACCTACTCCACTACTGCTTAGGGAGA
35421481 CAAGGCTGGT
Statistics
Matches: 192, Mismatches: 12, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
174 147 0.77
175 45 0.23
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (175 bp):
TCTTCAACCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCT
ACTCAGGGAGACAAGGCTGGTGGCCTAAATCTACTCCACACTATCTTGGAAAGATAAGATTTGCC
GTCTTCGATCTGCCCCACTACTGCTTAGGGAGATAAGATATAAAA
Found at i:35421409 original size:87 final size:87
Alignment explanation
Indices: 35421144--35421436 Score: 259
Period size: 87 Copynumber: 3.4 Consensus size: 87
35421134 AGATCTACAA
* *
35421144 TCTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGTGGCTTAAATCTGCTCCCCACTAT
1 TCTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGTGGCTTAAATCTACTCCACACTAT
35421209 CTTGGAAAGATAAGATTTGCCG
66 CTTGGAAAGATAAGATTTGCCG
* * * * * * * * ***** * * *
35421231 TCTTCGATCTGCCCCACTACTGCTTA-GGAGATAAGATCTAAAATCTTCAACCTACTCCAC-TTA
1 TCTTCAACCTACTCCACTGCTGCTCAGGGAGACAAG-GCTGGTGGCTTAAATCTACTCCACACTA
* * * **
35421294 TGCTTAGG-GAGATAAGATCTACAA
65 T-CTT-GGAAAGATAAGATTTGCCG
* *
35421318 TCTTCAACCTACTCCACTGCTACTCAGGGAGACAAGGCTGGTGGCCTAAATCTACTCCACACTAT
1 TCTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGTGGCTTAAATCTACTCCACACTAT
35421383 CTTGGAAAGATAAGATTTGCCG
66 CTTGGAAAGATAAGATTTGCCG
* * * * * *
35421405 TCTTCGATCTGCTCTACTACTGCTTAGGGAGA
1 TCTTCAACCTACTCCACTGCTGCTCAGGGAGA
35421437 TAAGATATAT
Statistics
Matches: 147, Mismatches: 53, Indels: 12
0.69 0.25 0.06
Matches are distributed among these distances:
86 13 0.09
87 121 0.82
88 13 0.09
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.28
Consensus pattern (87 bp):
TCTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGTGGCTTAAATCTACTCCACACTAT
CTTGGAAAGATAAGATTTGCCG
Found at i:35421462 original size:305 final size:307
Alignment explanation
Indices: 35421004--35421615 Score: 926
Period size: 305 Copynumber: 2.0 Consensus size: 307
35420994 GGAAGACAAT
* * * * *
35421004 ATCTACATTCTCCAACCTACTCCACTGCTGCTCAAGGAGATAAGACCAGTGGCTTAAATCTGCTT
1 ATCTACAATCTCCAACCTACTCCACTGCTACTCAAGGAGACAAGACCAGTGGCCTAAATCTACTT
* *
35421069 CCCTACTACCTTGGGAAGATAAGATTTGTCGTCTTCAATCTGCTCCACTACTGCTTAAGGAGATA
66 CCCTACTACCTTGGAAAGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAAGGAGATA
* * *
35421134 AGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGTGGCTTAAATCTGC
131 AGATATACAATCTTCAACCTACTCCACTACTGCTCAGGGAGACAAGGCTGGTGACTTAAATCTGC
35421199 TCCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCCCCACTACTGCTT-AGGAGAT
196 TCCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCCCCACTACTGCTTAAGGAGAT
* *
35421263 AAGATCTAAAATCTTCAACCTACTCCACT-TATGCTTAGGGAGATAAG
261 AAGATCTAAAATCTTCAACATACTCCACTGT-TGCTCAGGGAGATAAG
* * * **
35421310 ATCTACAATCTTCAACCTACTCCACTGCTACTCAGGGAGACAAGGCTGGTGGCCTAAATCTAC-T
1 ATCTACAATCTCCAACCTACTCCACTGCTACTCAAGGAGACAAGACCAGTGGCCTAAATCTACTT
* * * *
35421374 CCAC-ACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCTACTACTGCTTAGGGAGAT
66 CC-CTACTACCTTGGAAAGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAAGGAGAT
* *
35421438 AAGATATATAATCTTCAACCTACTCCACTACTGCTCAGGGAGACAAGGCTGGTGACTTAAATCTT
130 AAGATATACAATCTTCAACCTACTCCACTACTGCTCAGGGAGACAAGGCTGGTGACTTAAATCTG
* *
35421503 CTCCCCACTATCTTGGAAAGATAAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAAGGAGA
195 CTCCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCCCCACTACTGCTTAAGGAGA
* * *
35421568 TAATATCTACAATCTTCAATATACTCCACTGTTGCTCAGGGAGATAAG
260 TAAGATCTAAAATCTTCAACATACTCCACTGTTGCTCAGGGAGATAAG
35421616 GATTGGTGGC
Statistics
Matches: 275, Mismatches: 28, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
305 173 0.63
306 101 0.37
307 1 0.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.29
Consensus pattern (307 bp):
ATCTACAATCTCCAACCTACTCCACTGCTACTCAAGGAGACAAGACCAGTGGCCTAAATCTACTT
CCCTACTACCTTGGAAAGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAAGGAGATA
AGATATACAATCTTCAACCTACTCCACTACTGCTCAGGGAGACAAGGCTGGTGACTTAAATCTGC
TCCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCCCCACTACTGCTTAAGGAGAT
AAGATCTAAAATCTTCAACATACTCCACTGTTGCTCAGGGAGATAAG
Found at i:35421499 original size:131 final size:131
Alignment explanation
Indices: 35421285--35421743 Score: 611
Period size: 131 Copynumber: 3.5 Consensus size: 131
35421275 CTTCAACCTA
*
35421285 CTCCACTTA-TGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTACTCAGGGAG
1 CTCCAC-TACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAG
*
35421349 ACAAGGCTGGTGGCCTAAATCTACTCCACACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATC
65 ACAAGGCTGGTGGCTTAAATCTACTCCACACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATC
35421414 TG
130 TG
* * * *
35421416 CTCTACTACTGCTTAGGGAGATAAGATATATAATCTTCAACCTACTCCACTACTGCTCAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGA
* * * *
35421481 CAAGGCTGGTGACTTAAATCTTCTCCCCACTATCTTGGAAAGATAAGATTTGTCGTCTTCGATCT
66 CAAGGCTGGTGGCTTAAATCTACTCCACACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCT
35421546 G
131 G
* * ** *
35421547 CTCCACTACTGCTTAAGGAGATAATATCTACAATCTTCAATATACTCCACTGTTGCTCAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGA
* * * * ** * *
35421612 TAAGGATTGGTGGCTTAAATCTGCTTCCTACTAC-AT-TAGG-AAGATAAGATTCACCATTTTCG
66 CAAGG-CTGGTGGCTTAAATCTAC-TCC-AC-ACTATCTTGGAAAGATAAGATTTGCCGTCTTCG
*
35421674 ATCTA
127 ATCTG
* *
35421679 CTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAACCTACCCCACTGCTGCTCAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGA
35421744 TAATGATTGA
Statistics
Matches: 285, Mismatches: 38, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
130 2 0.01
131 178 0.62
132 94 0.33
133 6 0.02
134 3 0.01
135 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (131 bp):
CTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGA
CAAGGCTGGTGGCTTAAATCTACTCCACACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCT
G
Found at i:35421729 original size:44 final size:44
Alignment explanation
Indices: 35421100--35421746 Score: 234
Period size: 44 Copynumber: 14.8 Consensus size: 44
35421090 AGATTTGTCG
* * * *
35421100 TCTTCAATCTGCTCCACTACTGCTTAAGGAGATAAGATCTACAA
1 TCTTCAACCTACTCCACTACTGCTTAGGGAGATAAGATCTGCAA
* * * * ***
35421144 TCTTCAACCTACTCCACTGCTGCTCAGGGAGACAAG-GCTGGTG
1 TCTTCAACCTACTCCACTACTGCTTAGGGAGATAAGATCTGCAA
* * * * * * **
35421187 GCTTAAATCTGCTCCCCACTA-T-CTT-GGAAAGATAAGATTTGCCG
1 TCTTCAACCTACT--CCACTACTGCTTAGG-GAGATAAGATCTGCAA
* * * * **
35421231 TCTTCGATCTGCCCCACTACTGCTTA-GGAGATAAGATCTAAAA
1 TCTTCAACCTACTCCACTACTGCTTAGGGAGATAAGATCTGCAA
*
35421274 TCTTCAACCTACTCCACTTA-TGCTTAGGGAGATAAGATCTACAA
1 TCTTCAACCTACTCCAC-TACTGCTTAGGGAGATAAGATCTGCAA
* * * * * ***
35421318 TCTTCAACCTACTCCACTGCTACTCAGGGAGACAAG-GCTGGTG
1 TCTTCAACCTACTCCACTACTGCTTAGGGAGATAAGATCTGCAA
* * * * * * * **
35421361 GCCTAAATCTACTCCAC-ACTATCTT-GGAAAGATAAGATTTGCCG
1 TCTTCAACCTACTCCACTACT-GCTTAGG-GAGATAAGATCTGCAA
* * * * * **
35421405 TCTTCGATCTGCTCTACTACTGCTTAGGGAGATAAGATATATAA
1 TCTTCAACCTACTCCACTACTGCTTAGGGAGATAAGATCTGCAA
* * * **
35421449 TCTTCAACCTACTCCACTACTGCTCAGGGAGACAAG-GCTGGTGA
1 TCTTCAACCTACTCCACTACTGCTTAGGGAGATAAGATCT-GCAA
* * * * * *
35421493 -CTTAAATCTTCTCCCCACTA-T-CTT-GGAAAGATAAGATTTGTC-G
1 TCTTCAACCTACT--CCACTACTGCTTAGG-GAGATAAGATCTG-CAA
* * * * * *
35421536 TCTTCGATCTGCTCCACTACTGCTTAAGGAGATAATATCTACAA
1 TCTTCAACCTACTCCACTACTGCTTAGGGAGATAAGATCTGCAA
** ** * ***
35421580 TCTTCAATATACTCCACTGTTGCTCAGGGAGATAAGGAT-TGGTG
1 TCTTCAACCTACTCCACTACTGCTTAGGGAGATAA-GATCTGCAA
* * * * * * *
35421624 GCTTAAATCTGCTTC-CTACTACATTAGGAAGATAAGAT-T-CACCA
1 TCTTCAACCTACTCCACTACTGC-TTAGGGAGATAAGATCTGCA--A
* * *
35421668 TTTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGCAA
1 TCTTCAACCTACTCCACTACTGCTTAGGGAGATAAGATCTGCAA
* * *
35421712 TCTTCAACCTACCCCACTGCTGCTCAGGGAGATAA
1 TCTTCAACCTACTCCACTACTGCTTAGGGAGATAA
35421747 TGATTGATAT
Statistics
Matches: 429, Mismatches: 141, Indels: 66
0.67 0.22 0.10
Matches are distributed among these distances:
42 20 0.05
43 102 0.24
44 279 0.65
45 26 0.06
46 2 0.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (44 bp):
TCTTCAACCTACTCCACTACTGCTTAGGGAGATAAGATCTGCAA
Found at i:35422404 original size:97 final size:97
Alignment explanation
Indices: 35422238--35422428 Score: 285
Period size: 97 Copynumber: 2.0 Consensus size: 97
35422228 GAAAAATGCT
* *
35422238 TGAAAAAGATTATCAAAATAGACAAGATGAAATTTTGTTGAGAACTAAACTCGAAATGAATAAAT
1 TGAAAAAGATTATCAAAATAGACAAGATGAAATTTTATTGAGAACTAAACTCAAAATGAATAAAT
*
35422303 TAATCAAGATAGCAAATTTTGCTGAGATAAGA
66 TAATCAAGATAGCAAATTTTGCTAAGATAAGA
* * * ** *
35422335 TGAAAAAGATTATCACAATGGATAAGATTCAATTTTATTGAGAGC-AAAGCTCAAAATGAATAAA
1 TGAAAAAGATTATCAAAATAGACAAGATGAAATTTTATTGAGAACTAAA-CTCAAAATGAATAAA
35422399 TTAATCAAGATAGCAAATTTTGCTAAGATA
65 TTAATCAAGATAGCAAATTTTGCTAAGATA
35422429 CAAAATGAAT
Statistics
Matches: 84, Mismatches: 9, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
96 3 0.04
97 81 0.96
ACGTcount: A:0.48, C:0.09, G:0.16, T:0.28
Consensus pattern (97 bp):
TGAAAAAGATTATCAAAATAGACAAGATGAAATTTTATTGAGAACTAAACTCAAAATGAATAAAT
TAATCAAGATAGCAAATTTTGCTAAGATAAGA
Found at i:35422418 original size:49 final size:47
Alignment explanation
Indices: 35422260--35422420 Score: 116
Period size: 49 Copynumber: 3.3 Consensus size: 47
35422250 TCAAAATAGA
*
35422260 CAAGATG-AAATTTTGTTGAGAACTAAA-CTCGAAATGAATAAATTAAT
1 CAAGATGCAAATTTTGTTGAG-AC-AAAGCTCAAAATGAATAAATTAAT
* * * * * **
35422307 CAAGATAGCAAATTTTGCTGAGA-TAAGATGAAAAAGATTATCACAATGGAT
1 CAAGAT-GCAAATTTTGTTGAGACAAAGCTCAAAATGA--AT-A-AATTAAT
* *
35422358 -AAGATTC-AATTTTATTGAGAGCAAAGCTCAAAATGAATAAATTAAT
1 CAAGATGCAAATTTTGTTGAGA-CAAAGCTCAAAATGAATAAATTAAT
35422404 CAAGATAGCAAATTTTG
1 CAAGAT-GCAAATTTTG
35422421 CTAAGATACA
Statistics
Matches: 83, Mismatches: 19, Indels: 22
0.67 0.15 0.18
Matches are distributed among these distances:
46 7 0.08
47 18 0.22
48 16 0.19
49 21 0.25
50 16 0.19
51 5 0.06
ACGTcount: A:0.46, C:0.09, G:0.16, T:0.29
Consensus pattern (47 bp):
CAAGATGCAAATTTTGTTGAGACAAAGCTCAAAATGAATAAATTAAT
Done.