Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 290 of 345
Found at i:86954766 original size:27 final size:27
Alignment explanation
Indices: 86954697--86954770 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 27
86954687 AGTATGGCTG
* *
86954697 CCAGA-ACAGATATTGTGACAGAGTCA
1 CCAGATACAGATATTGTGGCAGAGCCA
86954723 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGATACAGATATTGTGGCAGAGCCA
86954750 CCAGAATA-A-ATATTTGTGGCA
1 CCAG-ATACAGATA-TTGTGGCA
86954771 TATCCATCAG
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
26 8 0.19
27 32 0.74
28 3 0.07
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (27 bp):
CCAGATACAGATATTGTGGCAGAGCCA
Found at i:86955407 original size:27 final size:27
Alignment explanation
Indices: 86955370--86955751 Score: 432
Period size: 27 Copynumber: 14.2 Consensus size: 27
86955360 GGCAAAAAGG
* * * *
86955370 GTAATTTTACCCCATAAGGGTATCTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* * *
86955397 ATAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
*
86955424 GTATTTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
86955451 GTAATTCTA-CTTACAGGGGTATTTC-
1 GTAATTCTACCCTACAAGGGTATTTCA
*
86955476 GATATTTCTACCCTACAAGGGTATTTCA
1 G-TAATTCTACCCTACAAGGGTATTTCA
*
86955504 GTAATTCTA-CCTACAGGGGTATTTC-
1 GTAATTCTACCCTACAAGGGTATTTCA
* * *
86955529 GATATTTCTACCCTACAAGGGCATTTCG
1 G-TAATTCTACCCTACAAGGGTATTTCA
* * * *
86955557 GTATTTCTATCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
86955584 GTATTTCTACCCTGCAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
86955611 GTAATTCTACCCTACAGGGGTATTTC-
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
86955637 GATAATTCTACCTTACAGGGGTATTTCA
1 G-TAATTCTACCCTACAAGGGTATTTCA
** * *
86955665 GTAATTCTACATTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
86955692 GTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
86955719 GTAATTCTACCCTACAATGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
86955746 GTAATT
1 GTAATT
86955752 TTATAAATCG
Statistics
Matches: 306, Mismatches: 41, Indels: 16
0.84 0.11 0.04
Matches are distributed among these distances:
25 2 0.01
26 44 0.14
27 257 0.84
28 3 0.01
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:86955443 original size:54 final size:54
Alignment explanation
Indices: 86955385--86955748 Score: 543
Period size: 54 Copynumber: 6.8 Consensus size: 54
86955375 TTTACCCCAT
* *
86955385 AAGGGTATCTCAATAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTAC
1 AAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTAC
* *
86955439 AAGGGTATTTCAGTAATTCTA-CTTACAGGGGTATTTCGATATTTCTACCCTAC
1 AAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTAC
*
86955492 AAGGGTATTTCAGTAATTCTA-CCTACAGGGGTATTTCGATATTTCTACCCTAC
1 AAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTAC
* * * * *
86955545 AAGGGCATTTCGGTATTTCTATCCTACAGGGGTATTTCGGTATTTCTACCCTGC
1 AAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTAC
* * *
86955599 AAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCTTAC
1 AAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTAC
* ** *
86955653 AGGGGTATTTCAGTAATTCTACATTACAGGGGTATTTCGGTAATTCTACCCTAC
1 AAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTAC
**
86955707 AAGGGTATTTCAGTAATTCTACCCTACAATGGTATTTCGGTA
1 AAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTA
86955749 ATTTTATAAA
Statistics
Matches: 281, Mismatches: 28, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
53 100 0.36
54 181 0.64
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (54 bp):
AAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTAC
Found at i:86955766 original size:54 final size:54
Alignment explanation
Indices: 86955386--86955823 Score: 243
Period size: 54 Copynumber: 8.2 Consensus size: 54
86955376 TTACCCCATA
* * * * * *** *
86955386 AGGGTATCTCAATAATTCTACCCTACAGGGGTATTTCGGTATTTCTA-CCCTACA
1 AGGGTATTTCAGTAATTCTACACTACAAGGGTATTTCGGTAATTCTATAAAT-CG
* * * * *** *
86955440 AGGGTATTTCAGTAATTCTAC-TTACAGGGGTATTTCGATATTTCTA-CCCTACA
1 AGGGTATTTCAGTAATTCTACACTACAAGGGTATTTCGGTAATTCTATAAAT-CG
* * * *** *
86955493 AGGGTATTTCAGTAATTCTAC-CTACAGGGGTATTTCGATATTTCTA-CCCTACA
1 AGGGTATTTCAGTAATTCTACACTACAAGGGTATTTCGGTAATTCTATAAAT-CG
* * * * * *** *
86955546 AGGGCATTTCGGTATTTCTATC-CTACAGGGGTATTTCGGTATTTCTA-CCCTGCA
1 AGGGTATTTCAGTAATTCTA-CACTACAAGGGTATTTCGGTAATTCTATAAAT-CG
* * * *
86955600 AGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCT-TA-C-
1 AGGGTATTTCAGTAATTCTACACTACAAGGGTATTTCGGTAATTCTA--TAAATCG
* * *** *
86955653 AGGGGTATTTCAGTAATTCTACATTACAGGGGTATTTCGGTAATTCTA-CCCTACA
1 A-GGGTATTTCAGTAATTCTACACTACAAGGGTATTTCGGTAATTCTATAAAT-CG
* * *
86955708 AGGGTATTTCAGTAATTCTACCCTACAATGGTATTTCGGTAATTTTATAAATCG
1 AGGGTATTTCAGTAATTCTACACTACAAGGGTATTTCGGTAATTCTATAAATCG
* * * * *
86955762 AGGGTATTTCAGTAATTTTACAAT-CAACGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTCTACACTACAAGGGTATTTCGGTAATTCTATAAATCG
*
86955815 AGGATATTT
1 AGGGTATTT
86955824 GGGTAATTTT
Statistics
Matches: 336, Mismatches: 37, Indels: 23
0.85 0.09 0.06
Matches are distributed among these distances:
53 136 0.40
54 198 0.59
55 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.37
Consensus pattern (54 bp):
AGGGTATTTCAGTAATTCTACACTACAAGGGTATTTCGGTAATTCTATAAATCG
Found at i:86955767 original size:27 final size:27
Alignment explanation
Indices: 86955737--86955965 Score: 216
Period size: 27 Copynumber: 8.6 Consensus size: 27
86955727 ACCCTACAAT
86955737 GGTATTTCGGTAATTTTATAAATCGAG
1 GGTATTTCGGTAATTTTATAAATCGAG
* * * *
86955764 GGTATTTCAGTAATTTTA-CAATCAAC
1 GGTATTTCGGTAATTTTATAAATCGAG
*
86955790 GGTATTTCGGTAATTTTACAAATCGAG
1 GGTATTTCGGTAATTTTATAAATCGAG
* * * *
86955817 GATATTTGGGTAATTTTATAAACCGGG
1 GGTATTTCGGTAATTTTATAAATCGAG
* *
86955844 GGTACTTT-GGTAATTTTACAAGTCGAG
1 GGTA-TTTCGGTAATTTTATAAATCGAG
** *
86955871 GGTATTTTAGTAATTTTAT-AATCGAC
1 GGTATTTCGGTAATTTTATAAATCGAG
* * *
86955897 GGTATTTCAGTAATTTTATAAACCGGG
1 GGTATTTCGGTAATTTTATAAATCGAG
* * *
86955924 GGTACTTT-GGTAATTTTACAACT-GGG
1 GGTA-TTTCGGTAATTTTATAAATCGAG
*
86955950 GGTATTTCAGTAATTT
1 GGTATTTCGGTAATTT
86955966 GGTAGACTAA
Statistics
Matches: 165, Mismatches: 31, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
25 3 0.02
26 62 0.38
27 94 0.57
28 6 0.04
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (27 bp):
GGTATTTCGGTAATTTTATAAATCGAG
Found at i:86955767 original size:81 final size:80
Alignment explanation
Indices: 86955370--86955804 Score: 409
Period size: 81 Copynumber: 5.4 Consensus size: 80
86955360 GGCAAAAAGG
* * * * *
86955370 GTAATTTTACCCCATAAGGGTATCTCAATAATTCTACCCTACAGGGGTATTTCGGT-ATTTCTAC
1 GTAATTCTACCCTACAAGGGTATTTC-GTAATTCTACCCTACAGGGGTATTTCGGTAATTT-TAC
*
86955434 CCTACAAGGGTATTTCA
64 CATACAAGGGTATTTCA
* * * * * *
86955451 GTAATTCTA-CTTACAGGGGTATTTCGATATTTCTACCCTACAAGGGTATTTCAGTAATTCTACC
1 GTAATTCTACCCTACAAGGGTATTTCG-TAATTCTACCCTACAGGGGTATTTCGGTAATTTTACC
*
86955515 -TACAGGGGTATTTC-
65 ATACAAGGGTATTTCA
* * * *
86955529 GATATTTCTACCCTACAAGGGCATTTCGGTATTTCTATCCTACAGGGGTATTTCGGT-ATTTCTA
1 G-TAATTCTACCCTACAAGGGTATTTC-GTAATTCTACCCTACAGGGGTATTTCGGTAATTT-TA
* *
86955593 CCCTGCAAGGGTATTTCA
63 CCATACAAGGGTATTTCA
* * * *
86955611 GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCTTACAGGGGTATTTCAGTAATTCTA-C
1 GTAATTCTACCCTACAAGGGTATTTCG-TAATTCTACCCTACAGGGGTATTTCGGTAATTTTACC
* *
86955675 ATTACAGGGGTATTTCG
65 A-TACAAGGGTATTTCA
** *
86955692 GTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAATGGTATTTCGGTAATTTTA-T
1 GTAATTCTACCCTACAAGGGTATTTC-GTAATTCTACCCTACAGGGGTATTTCGGTAATTTTACC
* *
86955756 AAATCGAGGGTATTTCA
65 ATA-CAAGGGTATTTCA
* ** *
86955773 GTAATTTTACAAT-CAACGGTATTTCGGTAATT
1 GTAATTCTACCCTACAAGGGTATTTC-GTAATT
86955805 TTACAAATCG
Statistics
Matches: 291, Mismatches: 50, Indels: 27
0.79 0.14 0.07
Matches are distributed among these distances:
78 1 0.00
79 23 0.08
80 102 0.35
81 160 0.55
82 5 0.02
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (80 bp):
GTAATTCTACCCTACAAGGGTATTTCGTAATTCTACCCTACAGGGGTATTTCGGTAATTTTACCA
TACAAGGGTATTTCA
Found at i:86955829 original size:80 final size:80
Alignment explanation
Indices: 86955737--86955944 Score: 278
Period size: 80 Copynumber: 2.6 Consensus size: 80
86955727 ACCCTACAAT
* * * *
86955737 GGTATTTCGGTAATTTTATAAATCGAGGGTA-TTTCAGTAATTTTACAA-TCAACGGTATTTCGG
1 GGTATTTCGGTAATTTTATAAACCGGGGGTACTTT-GGTAATTTTACAAGTCAACGGTATTTCAG
86955800 TAATTTTACAAATCGA-
65 TAATTTTA-AAATCGAC
* * * *
86955816 GGATATTTGGGTAATTTTATAAACCGGGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTTAG
1 GG-TATTTCGGTAATTTTATAAACCGGGGGTACTTTGGTAATTTTACAAGTCAACGGTATTTCAG
*
86955881 TAATTTTATAATCGAC
65 TAATTTTAAAATCGAC
*
86955897 GGTATTTCAGTAATTTTATAAACCGGGGGTACTTTGGTAATTTTACAA
1 GGTATTTCGGTAATTTTATAAACCGGGGGTACTTTGGTAATTTTACAA
86955945 CTGGGGGTAT
Statistics
Matches: 114, Mismatches: 11, Indels: 7
0.86 0.08 0.05
Matches are distributed among these distances:
79 2 0.02
80 88 0.77
81 24 0.21
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (80 bp):
GGTATTTCGGTAATTTTATAAACCGGGGGTACTTTGGTAATTTTACAAGTCAACGGTATTTCAGT
AATTTTAAAATCGAC
Found at i:86955965 original size:53 final size:53
Alignment explanation
Indices: 86955655--86955944 Score: 228
Period size: 54 Copynumber: 5.4 Consensus size: 53
86955645 TACCTTACAG
* * * * ** *
86955655 GGGTATTTCAGTAATTCTACATTAC-AGGGGTATTTCGGTAATTCTAC-CCTACAA
1 GGGTATTTCAGTAATTTTACAAT-CGA-CGGTATTTCGGTAATTTTACAAAT-CGA
* ** * * *
86955709 GGGTATTTCAGTAATTCTACCCTACAATGGTATTTCGGTAATTTTATAAATCGA
1 GGGTATTTCAGTAATTTTACAAT-CGACGGTATTTCGGTAATTTTACAAATCGA
*
86955763 GGGTATTTCAGTAATTTTACAATCAACGGTATTTCGGTAATTTTACAAATCGA
1 GGGTATTTCAGTAATTTTACAATCGACGGTATTTCGGTAATTTTACAAATCGA
* ** * * ** *
86955816 GGATATTTGGGTAATTTTATAAACCGGGGGTACTTT-GGTAATTTTACAAGTCGA
1 GGGTATTTCAGTAATTTTA-CAATCGACGGTA-TTTCGGTAATTTTACAAATCGA
* * * * * *
86955870 GGGTATTTTAGTAATTTTATAATCGACGGTATTTCAGTAATTTTATAAACCGG
1 GGGTATTTCAGTAATTTTACAATCGACGGTATTTCGGTAATTTTACAAATCGA
*
86955923 GGGTACTTT-GGTAATTTTACAA
1 GGGTA-TTTCAGTAATTTTACAA
86955945 CTGGGGGTAT
Statistics
Matches: 194, Mismatches: 36, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
52 3 0.02
53 81 0.42
54 105 0.54
55 5 0.03
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.38
Consensus pattern (53 bp):
GGGTATTTCAGTAATTTTACAATCGACGGTATTTCGGTAATTTTACAAATCGA
Found at i:86957997 original size:40 final size:40
Alignment explanation
Indices: 86957953--86958084 Score: 192
Period size: 40 Copynumber: 3.3 Consensus size: 40
86957943 ATTATTTGTC
* * * *
86957953 GCACTTAGTGTGTGATTCAATATAGCTTCAGCTATATATG
1 GCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATATG
86957993 GCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATATG
1 GCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATATG
* * * *
86958033 GCACTTAGTGTGCAATTTGAGATAGCTTCGGCTATGTATG
1 GCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATATG
86958073 GCACTTAGTGTG
1 GCACTTAGTGTG
86958085 TGAGACATCA
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 84 1.00
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (40 bp):
GCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATATG
Found at i:86965605 original size:40 final size:40
Alignment explanation
Indices: 86965499--86965628 Score: 120
Period size: 40 Copynumber: 3.2 Consensus size: 40
86965489 TATTTGTGGT
* * *
86965499 ACTTAGTGTGCGATAC-AATATAGCTTCGACTATATATGAC
1 ACTTAGTGTGCGAT-CTAACATAGCTTTGGCTATATATGAC
* * * * *
86965539 ATTTAGTGTGCGATTTGACATTGCTTTGGCTATATATGGC
1 ACTTAGTGTGCGATCTAACATAGCTTTGGCTATATATGAC
* * *
86965579 ACTTAGTGTGCGATCTAAGATAGCTTTAGCTATGTATAGA-
1 ACTTAGTGTGCGATCTAACATAGCTTTGGCTATATAT-GAC
*
86965619 ACTTTGTGTG
1 ACTTAGTGTG
86965629 TGAGATATCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
40 70 0.99
41 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (40 bp):
ACTTAGTGTGCGATCTAACATAGCTTTGGCTATATATGAC
Found at i:86965738 original size:16 final size:16
Alignment explanation
Indices: 86965684--86965738 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
86965674 GTTTGGTTCA
*
86965684 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGAG
* * *
86965700 TTGTAATTGAATAAAG
1 CTGTAATGGAATAGAG
* *
86965716 CTATAATGGAATAGTG
1 CTGTAATGGAATAGAG
86965732 CTGTAAT
1 CTGTAAT
86965739 AAGTAATTCA
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.36, C:0.05, G:0.25, T:0.33
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:86967209 original size:71 final size:71
Alignment explanation
Indices: 86967125--86967288 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
86967115 CGATTTGTCT
86967125 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
86967190 CTTTCA
66 CTTTCA
86967196 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
86967261 CTTTCA
66 CTTTCA
86967267 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
86967289 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:86967326 original size:71 final size:70
Alignment explanation
Indices: 86967125--86967322 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
86967115 CGATTTGTCT
* * * *
86967125 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
86967190 CTTTCA
65 CTTTCA
* * * *
86967196 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
86967261 CTTTCA
65 CTTTCA
* *
86967267 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
86967323 TACAGGGTAT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:86971143 original size:40 final size:40
Alignment explanation
Indices: 86971015--86971165 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
86971005 TATAACATGT
* * *
86971015 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-CA
** *
86971055 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* **
86971095 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* * *
86971135 GCATAATTGTCTTCGGG-GTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
86971166 CATTCAATTT
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 14 0.15
40 77 0.83
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
Found at i:86979020 original size:40 final size:41
Alignment explanation
Indices: 86978975--86979064 Score: 123
Period size: 40 Copynumber: 2.2 Consensus size: 41
86978965 CGGAATATAA
* *
86978975 CCGGATATAAG-CA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAGCCACT-AGCACAAATGCCTTCGGGTCTTAAC
*
86979015 CCGGATAT-AGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
86979055 CCGGATATAA
1 CCGGATATAA
86979065 TTTCCAGCAT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
39 2 0.05
40 40 0.91
41 2 0.05
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (41 bp):
CCGGATATAAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:86979079 original size:40 final size:40
Alignment explanation
Indices: 86978991--86979101 Score: 125
Period size: 40 Copynumber: 2.8 Consensus size: 40
86978981 ATAAGCATGT
* * *
86978991 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACCACCA
* ***
86979031 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACCACCA
* * *
86979071 GCATAATTGTCTTCGGG-GTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
86979102 CATTCAATTT
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
39 12 0.20
40 48 0.80
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACCACCA
Found at i:86982621 original size:28 final size:28
Alignment explanation
Indices: 86982589--86982643 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
86982579 GGGTATATCG
86982589 GTAATTTTGCTCTTTAGGGGTAATTTCA
1 GTAATTTTGCTCTTTAGGGGTAATTTCA
86982617 GTAATTTTGCTCTTTAGGGGTAATTTC
1 GTAATTTTGCTCTTTAGGGGTAATTTC
86982644 GTGATCTACG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.20, C:0.11, G:0.22, T:0.47
Consensus pattern (28 bp):
GTAATTTTGCTCTTTAGGGGTAATTTCA
Found at i:86984495 original size:19 final size:18
Alignment explanation
Indices: 86984458--86984501 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
86984448 ATACATACAG
86984458 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
86984475 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
86984494 TACTAATT
1 TAATAATT
86984502 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:86987534 original size:48 final size:48
Alignment explanation
Indices: 86987473--86987568 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
86987463 ATGTCAGTGT
*
86987473 ATGCCTTGAACACTTTCATTTAATAGTAACATTGACATTCATACATGC
1 ATGCCTTGAACACTTTCATTTAATAGTAACACTGACATTCATACATGC
*
86987521 ATGCCTTGCACACTTTCATTTAATAGTAACACTGACATTCATACATGC
1 ATGCCTTGAACACTTTCATTTAATAGTAACACTGACATTCATACATGC
86987569 TTTTAGTAAC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.32, C:0.23, G:0.10, T:0.34
Consensus pattern (48 bp):
ATGCCTTGAACACTTTCATTTAATAGTAACACTGACATTCATACATGC
Found at i:86992743 original size:93 final size:92
Alignment explanation
Indices: 86992577--86992745 Score: 225
Period size: 93 Copynumber: 1.8 Consensus size: 92
86992567 CATCTAAGTA
* * *
86992577 GATGCCATGTCCCAGATAGGTCTTACACTAGCTCTTGCTTATCTGTGTCGATGCCATGTCCCAGA
1 GATGCCATGTCCCAGATAGGTCTTACACTAGC-CTTGCTTATCTGGGCCAATGCCATGTCCCAGA
* *
86992642 TAGTTCTTACATTGACACACCTCAAGCC
65 CAGGTCTTACATTGACACACCTCAAGCC
* *
86992670 GATGCCGTGTCTCAGATAGGTCTTACACTAG-CTTGCATATAT-TGAGGCCAATGCCATGTCCCA
1 GATGCCATGTCCCAGATAGGTCTTACACTAGCCTTGC-T-TATCTG-GGCCAATGCCATGTCCCA
86992733 GACAGGTCTTACA
63 GACAGGTCTTACA
86992746 CAGGCTCTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
91 5 0.08
92 3 0.05
93 58 0.88
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (92 bp):
GATGCCATGTCCCAGATAGGTCTTACACTAGCCTTGCTTATCTGGGCCAATGCCATGTCCCAGAC
AGGTCTTACATTGACACACCTCAAGCC
Found at i:86992744 original size:49 final size:49
Alignment explanation
Indices: 86992663--86992799 Score: 154
Period size: 49 Copynumber: 2.8 Consensus size: 49
86992653 TTGACACACC
* * * *
86992663 TCAA-GCCGATGCCGTGTCTCAGATAGGTCTTACACTAGCT-TGCATATA
1 TCAAGGCCAATGCCATGTCCCAGACAGGTCTTACACTAGCTCT-CATATA
** *
86992711 TTGAGGCCAATGCCATGTCCCAGACAGGTCTTACAC-AGGCTCTCATCTA
1 TCAAGGCCAATGCCATGTCCCAGACAGGTCTTACACTA-GCTCTCATATA
* *
86992760 TCAATGCTAATGCCATGTCCCAGACAGGTCTTACACTAGC
1 TCAAGGCCAATGCCATGTCCCAGACAGGTCTTACACTAGC
86992800 ACGCACATCA
Statistics
Matches: 74, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
48 3 0.04
49 69 0.93
50 2 0.03
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (49 bp):
TCAAGGCCAATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATATA
Found at i:86992966 original size:14 final size:14
Alignment explanation
Indices: 86992949--86992978 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
86992939 TAAATACAAA
86992949 TAAATTACATTATT
1 TAAATTACATTATT
86992963 TAAATTACATTATT
1 TAAATTACATTATT
86992977 TA
1 TA
86992979 CGTACAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (14 bp):
TAAATTACATTATT
Found at i:87006753 original size:24 final size:24
Alignment explanation
Indices: 87006708--87006753 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
87006698 TTTCTTATGT
*
87006708 GGAGAAATAAGGAAGATGAGAGAA
1 GGAGAAATAAGGAAAATGAGAGAA
87006732 GGAGAAATAAGGAGAAAT-AGAG
1 GGAGAAATAAGGA-AAATGAGAG
87006754 TGAAATAGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.54, C:0.00, G:0.37, T:0.09
Consensus pattern (24 bp):
GGAGAAATAAGGAAAATGAGAGAA
Found at i:87009807 original size:40 final size:40
Alignment explanation
Indices: 87009762--87009929 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
87009752 CGGAATATAA
87009762 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
87009802 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
87009842 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
87009882 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
87009922 CCGGATAT
1 CCGGATAT
87009930 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:87017762 original size:40 final size:40
Alignment explanation
Indices: 87017717--87017884 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
87017707 CGGAATATAA
87017717 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
87017757 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
87017797 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
87017837 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
87017877 CCGGATAT
1 CCGGATAT
87017885 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:87020897 original size:40 final size:40
Alignment explanation
Indices: 87020852--87021018 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
87020842 CGGAATATAA
87020852 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
87020892 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
87020932 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
87020972 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
87021011 CCGGATAT
1 CCGGATAT
87021019 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:87028886 original size:40 final size:40
Alignment explanation
Indices: 87028841--87029007 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
87028831 CGGAATATAA
87028841 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
87028881 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
87028921 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
87028961 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
87029000 CCGGATAT
1 CCGGATAT
87029008 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:87030932 original size:46 final size:46
Alignment explanation
Indices: 87030857--87031056 Score: 192
Period size: 46 Copynumber: 4.3 Consensus size: 46
87030847 TCATATCATG
*
87030857 GTCTTACACT-GACTATCATCTCATA-GCCGATGCATGTCCCAGACAT
1 GTCTTACACTAG-CTATCGTCTCA-AGGCCGATGCATGTCCCAGACAT
* * **
87030903 GTCTTACACTGGATTAT-GTCTTGAGGCCGATGCATGTCCCAGACAT
1 GTCTTACACTAG-CTATCGTCTCAAGGCCGATGCATGTCCCAGACAT
* *
87030949 GTCTTACACTAGCTATCGTCTCAATGCCGATGCCATGTCCTAGACAT
1 GTCTTACACTAGCTATCGTCTCAAGGCCGATG-CATGTCCCAGACAT
* * * ** * *
87030996 GGTCTTACACTAGCTCTCATAAT-GTGGCTGATGCATGTCCCAGATAT
1 -GTCTTACACTAGCTATCGT-CTCAAGGCCGATGCATGTCCCAGACAT
87031043 GTCTTACACTAGCT
1 GTCTTACACTAGCT
87031057 CACAAACAAA
Statistics
Matches: 129, Mismatches: 19, Indels: 12
0.81 0.12 0.08
Matches are distributed among these distances:
45 4 0.03
46 71 0.55
47 30 0.23
48 23 0.18
49 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.30
Consensus pattern (46 bp):
GTCTTACACTAGCTATCGTCTCAAGGCCGATGCATGTCCCAGACAT
Found at i:87032701 original size:30 final size:30
Alignment explanation
Indices: 87032646--87032805 Score: 213
Period size: 29 Copynumber: 5.5 Consensus size: 30
87032636 ATAGTGAATC
87032646 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
87032675 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
87032705 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
* *
87032734 CGCACACTTAGTGCTGTATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
87032762 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
87032792 CGCACACTTAGTGC
1 CGCACACTTAGTGC
87032806 CAATCTTGTC
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 23 0.19
29 47 0.39
30 47 0.39
31 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:87032738 original size:59 final size:57
Alignment explanation
Indices: 87032646--87032805 Score: 214
Period size: 59 Copynumber: 2.8 Consensus size: 57
87032636 ATAGTGAATC
*
87032646 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
*
87032705 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTGTATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
87032762 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
87032806 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 21 0.23
59 49 0.53
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:87034680 original size:30 final size:30
Alignment explanation
Indices: 87034635--87034692 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
87034625 AAATTCACAT
* * *
87034635 CTTTGGTAAATTGACCATTTTGCCCCTAAA
1 CTTTGGCAAAATGACCATTTTACCCCTAAA
87034665 CTTTGGCAAAATGACCATTTTACCCCTA
1 CTTTGGCAAAATGACCATTTTACCCCTA
87034693 TGCTCGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.34
Consensus pattern (30 bp):
CTTTGGCAAAATGACCATTTTACCCCTAAA
Found at i:87035826 original size:121 final size:121
Alignment explanation
Indices: 87035567--87035827 Score: 386
Period size: 121 Copynumber: 2.2 Consensus size: 121
87035557 ACTCAGATAA
* * *
87035567 TCAAATTACTTGTGTGATTTATTGATGAACCCCTACAGGTGAGACCCTTAATGTTTGTATACTTT
1 TCAAATTACTTGCGTGAATTATTGATGAACCCCTACAGGTGAGACCCTTAATGTTTGTATACTTC
87035632 ATAATATACTACTTAAATGTTTGTGGTCAAAAGTGGTAAGTCAATTATTCATCATG
66 ATAATATACTACTTAAATGTTTGTGGTCAAAAGTGGTAAGTCAATTATTCATCATG
* *
87035688 TCAAATTACTTGTGTGAATTATTGAT-AGACCCCTACATGTGAGACCCTTAATGTTTGTATACTT
1 TCAAATTACTTGCGTGAATTATTGATGA-ACCCCTACAGGTGAGACCCTTAATGTTTGTATACTT
* *
87035752 CGTAATATACTAAACTTAGATGTTTGTGGTCAAAAGTGGT-AGTCAATTATTCATCATG
65 CATAATATACT--ACTTAAATGTTTGTGGTCAAAAGTGGTAAGTCAATTATTCATCATG
*
87035810 TTAAAGTTA-TT-CGTGAAT
1 TCAAA-TTACTTGCGTGAAT
87035828 ATGAAATACC
Statistics
Matches: 129, Mismatches: 7, Indels: 8
0.90 0.05 0.06
Matches are distributed among these distances:
120 1 0.01
121 75 0.58
122 24 0.19
123 29 0.22
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.39
Consensus pattern (121 bp):
TCAAATTACTTGCGTGAATTATTGATGAACCCCTACAGGTGAGACCCTTAATGTTTGTATACTTC
ATAATATACTACTTAAATGTTTGTGGTCAAAAGTGGTAAGTCAATTATTCATCATG
Found at i:87040181 original size:6 final size:6
Alignment explanation
Indices: 87040141--87040179 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
87040131 AGAATACACC
* * *
87040141 GTAACA GTAACA GTAACA GTAACA TTAGCA GTAGCA GTA
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GTA
87040180 GCGGTACACA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.44, C:0.15, G:0.21, T:0.21
Consensus pattern (6 bp):
GTAACA
Found at i:87042064 original size:35 final size:35
Alignment explanation
Indices: 87042018--87042091 Score: 139
Period size: 35 Copynumber: 2.1 Consensus size: 35
87042008 GGCTAGTTAC
87042018 AACCATTGGATTATCATGCCAACATTAGCCAAATT
1 AACCATTGGATTATCATGCCAACATTAGCCAAATT
*
87042053 AACCATTGGATTATCATGCCAACATTGGCCAAATT
1 AACCATTGGATTATCATGCCAACATTAGCCAAATT
87042088 AACC
1 AACC
87042092 TATACATGCC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.27
Consensus pattern (35 bp):
AACCATTGGATTATCATGCCAACATTAGCCAAATT
Found at i:87043037 original size:26 final size:27
Alignment explanation
Indices: 87043008--87043067 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 27
87042998 ACAAAGAACT
*
87043008 TTTAATTAG-GAACCTCACGAAGAGTC
1 TTTAATTAGAGAACCTCACGAAGAGCC
* *
87043034 TTTAAAT-GAGAATCTCACGAAGAGCC
1 TTTAATTAGAGAACCTCACGAAGAGCC
*
87043060 ATTAATTA
1 TTTAATTA
87043068 TGAGCTCCGG
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
25 1 0.04
26 26 0.96
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (27 bp):
TTTAATTAGAGAACCTCACGAAGAGCC
Found at i:87043517 original size:20 final size:20
Alignment explanation
Indices: 87043473--87043518 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
87043463 ATTCAACTAC
87043473 ACAATTCACATATACAATAT
1 ACAATTCACATATACAATAT
*
87043493 TCAATTCAATCATATA-AATA-
1 ACAATTC-A-CATATACAATAT
87043513 ACAATT
1 ACAATT
87043519 TAGTTACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 11 0.50
21 5 0.23
22 6 0.27
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (20 bp):
ACAATTCACATATACAATAT
Found at i:87051375 original size:43 final size:43
Alignment explanation
Indices: 87051307--87051691 Score: 479
Period size: 43 Copynumber: 9.0 Consensus size: 43
87051297 ATTTTGTACA
* * * *
87051307 ATGCCAATGTCCCTGACGTGGTCTTACATGTAATCTCATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* * * *
87051350 ATGTC-ACTGTCCCAGACAG-GGTCTTACTCTTAAACACATATCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAATCACATATCG
**** *
87051393 ATGCCAACGTTTTGGACGTGGTCTTACACGAAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
*
87051436 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
*
87051479 ATG-CAATGTCCCAGACGTGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* * * *
87051521 ATGCTAACGTCCTAGACGTGATCTTACACGTAATCACATATTG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* *
87051564 ATGCCAACATCCCAGACGTGGTCTAACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* *
87051607 ATGCCAACATCCCAGACATGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* * * * *
87051650 ATTCCAACATCCCAAATGTGGTCTTACAAGTAATCACATATC
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATC
87051692 AATGTCTCAT
Statistics
Matches: 294, Mismatches: 43, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
42 42 0.14
43 249 0.85
44 3 0.01
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
Found at i:87051601 original size:171 final size:172
Alignment explanation
Indices: 87051310--87051696 Score: 510
Period size: 171 Copynumber: 2.3 Consensus size: 172
87051300 TTGTACAATG
* * * * *
87051310 CCAATGTCCCTGACGTGGTCTTACATGTAATCTCATATCGATGTCACTGTCCCAGACAGGGTCTT
1 CCAATGTCCCAGACGTGGTCTTACAAGTAATCACATATCGATGTAACTGTCCCAGACAGGATCTT
* * * **** *
87051375 ACTCTTAAACACATATCGATGCCAACGTTTTGGACGTGGTCTTACACGAAATCACATATCGATGC
66 ACACGTAAACACATATCGATGCCAACATCCCAGACGTGGTCTAACACGAAATCACATATCGATGC
*
87051440 CAACGTCCCAGACATGGTCTTACACGTAATCACATATCGA-T
131 CAACATCCCAGACATGGTCTTACACGTAATCACATATCGATT
* * *
87051481 GCAATGTCCCAGACGTGGTCTTACACGTAATCACATATCGATGCTAAC-GTCCTAGAC-GTGATC
1 CCAATGTCCCAGACGTGGTCTTACAAGTAATCACATATCGATG-TAACTGTCCCAGACAG-GATC
* * *
87051544 TTACACGTAATCACATATTGATGCCAACATCCCAGACGTGGTCTAACACGTAATCACATATCGAT
64 TTACACGTAAACACATATCGATGCCAACATCCCAGACGTGGTCTAACACGAAATCACATATCGAT
87051609 GCCAACATCCCAGACATGGTCTTACACGTAATCACATATCGATT
129 GCCAACATCCCAGACATGGTCTTACACGTAATCACATATCGATT
** * * *
87051653 CCAACATCCCAAATGTGGTCTTACAAGTAATCACATATCAATGT
1 CCAATGTCCCAGACGTGGTCTTACAAGTAATCACATATCGATGT
87051697 CTCATATACA
Statistics
Matches: 187, Mismatches: 26, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
170 1 0.01
171 146 0.78
172 40 0.21
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (172 bp):
CCAATGTCCCAGACGTGGTCTTACAAGTAATCACATATCGATGTAACTGTCCCAGACAGGATCTT
ACACGTAAACACATATCGATGCCAACATCCCAGACGTGGTCTAACACGAAATCACATATCGATGC
CAACATCCCAGACATGGTCTTACACGTAATCACATATCGATT
Found at i:87053583 original size:40 final size:39
Alignment explanation
Indices: 87053538--87053745 Score: 236
Period size: 40 Copynumber: 5.2 Consensus size: 39
87053528 CGGATTACAA
*
87053538 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *
87053578 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
87053618 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
87053658 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * *
87053698 CCGGATATAATTACTAGCACAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
87053738 CCGGATAT
1 CCGGATAT
87053746 CATTCAATTG
Statistics
Matches: 145, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
39 1 0.01
40 144 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:87053678 original size:80 final size:80
Alignment explanation
Indices: 87053538--87053745 Score: 265
Period size: 80 Copynumber: 2.6 Consensus size: 80
87053528 CGGATTACAA
* * *
87053538 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
*
87053603 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* * * *
87053618 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATA-ACGACTAGCACAAAT
*
87053682 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * * * *
87053698 CCGGATATAATTACTAGCACAAATGTCTTCGGGACTTAGCCCGGATAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAT
87053746 CATTCAATTG
Statistics
Matches: 110, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
80 109 0.99
81 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:87061589 original size:40 final size:39
Alignment explanation
Indices: 87061544--87061751 Score: 227
Period size: 40 Copynumber: 5.2 Consensus size: 39
87061534 CGGAATACAA
*
87061544 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *
87061584 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
87061624 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
87061664 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
87061704 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
87061744 CCGGATAT
1 CCGGATAT
87061752 CATTCAATTG
Statistics
Matches: 144, Mismatches: 23, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
39 1 0.01
40 143 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:87061684 original size:80 final size:80
Alignment explanation
Indices: 87061544--87061751 Score: 256
Period size: 80 Copynumber: 2.6 Consensus size: 80
87061534 CGGAATACAA
* * *
87061544 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
*
87061609 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* * * *
87061624 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATA-ACGACTAGCACAAAT
*
87061688 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
87061704 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAT
87061752 CATTCAATTG
Statistics
Matches: 109, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
80 108 0.99
81 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:87063679 original size:15 final size:15
Alignment explanation
Indices: 87063656--87063686 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
87063646 TCAAAAATTC
87063656 CAATACAAAACATAT
1 CAATACAAAACATAT
*
87063671 CAATCCAAAACATAT
1 CAATACAAAACATAT
87063686 C
1 C
87063687 TTTCATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (15 bp):
CAATACAAAACATAT
Found at i:87065406 original size:14 final size:13
Alignment explanation
Indices: 87065355--87065399 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
87065345 TCTATTTTCA
*
87065355 TTTCCAATTTCATC
1 TTTCC-ATTTCATT
*
87065369 TTTCCATTTTATT
1 TTTCCATTTCATT
87065382 TTTCCATTTCATT
1 TTTCCATTTCATT
87065395 TTTCC
1 TTTCC
87065400 CTATTCACAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
13 23 0.82
14 5 0.18
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTCCATTTCATT
Found at i:87066753 original size:11 final size:11
Alignment explanation
Indices: 87066733--87066766 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
87066723 GAGTTACTTG
87066733 ATTATAATTTA
1 ATTATAATTTA
* *
87066744 CTTATGATTTA
1 ATTATAATTTA
87066755 ATTATAATTTA
1 ATTATAATTTA
87066766 A
1 A
87066767 CTTTTTAAAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (11 bp):
ATTATAATTTA
Found at i:87070047 original size:19 final size:19
Alignment explanation
Indices: 87070025--87070091 Score: 55
Period size: 19 Copynumber: 3.3 Consensus size: 19
87070015 TGATCTGAAC
87070025 TCATTGAGTTGGTCTGAGT
1 TCATTGAGTTGGTCTGAGT
* *
87070044 TCA-TGATATATGTGACATCTGAGC
1 TCATTGA-GT-TG-G---TCTGAGT
87070068 TCATTGAGTTGGTCTGAGT
1 TCATTGAGTTGGTCTGAGT
87070087 TCATT
1 TCATT
87070092 ATGTTTATGA
Statistics
Matches: 37, Mismatches: 4, Indels: 14
0.67 0.07 0.25
Matches are distributed among these distances:
18 3 0.08
19 15 0.41
20 2 0.05
21 1 0.03
22 1 0.03
23 2 0.05
24 10 0.27
25 3 0.08
ACGTcount: A:0.21, C:0.13, G:0.25, T:0.40
Consensus pattern (19 bp):
TCATTGAGTTGGTCTGAGT
Found at i:87079181 original size:30 final size:31
Alignment explanation
Indices: 87079147--87079209 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
87079137 CCTTTTCATG
87079147 TTTCATA-TTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
87079177 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
87079208 TT
1 TT
87079210 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 7 0.23
31 23 0.77
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:87079452 original size:24 final size:24
Alignment explanation
Indices: 87079401--87079543 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
87079391 GCTTTATCAT
*
87079401 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
87079426 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
87079450 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
87079473 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
87079497 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
87079521 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
87079544 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:87079480 original size:47 final size:48
Alignment explanation
Indices: 87079401--87079542 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
87079391 GCTTTATCAT
* *
87079401 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
87079450 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
87079497 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
87079543 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:87079501 original size:71 final size:72
Alignment explanation
Indices: 87079400--87079543 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
87079390 TGCTTTATCA
*
87079400 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
87079465 GCCCTTT
66 GCCCTTT
* * **
87079472 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
87079535 AGCCCTTT
65 AGCCCTTT
87079543 T
1 T
87079544 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:87079618 original size:20 final size:20
Alignment explanation
Indices: 87079593--87079653 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
87079583 TTATGATTAC
87079593 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
87079613 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
87079633 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
87079653 A
1 A
87079654 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:87083732 original size:43 final size:43
Alignment explanation
Indices: 87083646--87083732 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
87083636 AATTTATATG
* *
87083646 ATCTGAACTCATTGAGTTGGTCTGAGTTCATGATATATGTGAC
1 ATCTGAACTCATTGAGTTGATCTGAGTTCATGATATATATGAC
* * *
87083689 ATCTGAGCTCATTGAGTTGATCTGAGTTCATGATGTTTATGAC
1 ATCTGAACTCATTGAGTTGATCTGAGTTCATGATATATATGAC
87083732 A
1 A
87083733 CATGTAATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.38
Consensus pattern (43 bp):
ATCTGAACTCATTGAGTTGATCTGAGTTCATGATATATATGAC
Found at i:87091291 original size:13 final size:14
Alignment explanation
Indices: 87091273--87091301 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
87091263 CGCTTTCATG
87091273 TGCTTCAT-CTTAT
1 TGCTTCATACTTAT
87091286 TGCTTCATACTTAT
1 TGCTTCATACTTAT
87091300 TG
1 TG
87091302 ACCTGAACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.17, C:0.21, G:0.10, T:0.52
Consensus pattern (14 bp):
TGCTTCATACTTAT
Found at i:87094452 original size:38 final size:38
Alignment explanation
Indices: 87094410--87094485 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
87094400 AAAATAAAAG
87094410 TAAAAATCTAAAGTAGTTGATTAGTTAAATATACAATA
1 TAAAAATCTAAAGTAGTTGATTAGTTAAATATACAATA
87094448 TAAAAATCTAAAGTAGTTGATTAGTTAAATATACAATA
1 TAAAAATCTAAAGTAGTTGATTAGTTAAATATACAATA
87094486 ATTTACAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.50, C:0.05, G:0.11, T:0.34
Consensus pattern (38 bp):
TAAAAATCTAAAGTAGTTGATTAGTTAAATATACAATA
Found at i:87098395 original size:44 final size:43
Alignment explanation
Indices: 87098297--87098403 Score: 112
Period size: 44 Copynumber: 2.5 Consensus size: 43
87098287 GTGTTCGATG
*
87098297 AAGATTCGGCTA-AT-TATGTGCACTTATTGTACGAAATCAAA
1 AAGATTCGGCTATATATATGTGCACTTAGTGTACGAAATCAAA
* * * * *
87098338 ATAGCTTCAGCTATATATATTTGCACTTAGTGTGC-AAGATCGAGA
1 A-AGATTCGGCTATATATATGTGCACTTAGTGTACGAA-ATC-AAA
87098383 AAGATTCGGCTATATATATGT
1 AAGATTCGGCTATATATATGT
87098404 ATATTGGCAC
Statistics
Matches: 52, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
41 1 0.02
42 9 0.17
43 4 0.08
44 35 0.67
45 3 0.06
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.34
Consensus pattern (43 bp):
AAGATTCGGCTATATATATGTGCACTTAGTGTACGAAATCAAA
Found at i:87102056 original size:19 final size:19
Alignment explanation
Indices: 87102020--87102059 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
87102010 AAAAATTAAT
87102020 ATTAACTAAATACAAATGA
1 ATTAACTAAATACAAATGA
*
87102039 ATTAATCTAAATGC-AATGA
1 ATTAA-CTAAATACAAATGA
87102058 AT
1 AT
87102060 GAGATGAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.53, C:0.10, G:0.07, T:0.30
Consensus pattern (19 bp):
ATTAACTAAATACAAATGA
Found at i:87111402 original size:47 final size:47
Alignment explanation
Indices: 87111334--87111595 Score: 179
Period size: 47 Copynumber: 5.6 Consensus size: 47
87111324 TTTGTGCACT
*
87111334 AGTGTAAGACATGTCTAGGACAT-GCATCGCCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGCCCACATTATGAGAGCC
* * * *
87111380 AGTGTAAGACCATGTCTGGGACATGGCATTG---GCATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGCCCACATT---ATGAGAGCC
* * * *
87111428 AGTGCAAGACATGTCTGGGACAT-GCATCGGCCTC-TTAATGTA-AGCT
1 AGTGTAAGACATGTCTGGGACATGGCATCGCCCACATT-ATG-AGAGCC
* * * * * * *
87111474 AGTGTAAGATATGTCTAGGACAT-GCATCGACTACATGAT--GTGTC
1 AGTGTAAGACATGTCTGGGACATGGCATCGCCCACATTATGAGAGCC
* ** *
87111518 AGTGTAAGACCATGTCTGGGACATGGCATCAACTTA-ACT-TGAGAGCC
1 AGTGTAAGA-CATGTCTGGGACATGGCATC-GCCCACATTATGAGAGCC
87111565 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGA-CATGTCTGGGACATGGCATCG
87111596 GTATTATACC
Statistics
Matches: 170, Mismatches: 30, Indels: 32
0.73 0.13 0.14
Matches are distributed among these distances:
44 10 0.06
45 17 0.10
46 56 0.33
47 64 0.38
48 22 0.13
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGCCCACATTATGAGAGCC
Found at i:87111495 original size:46 final size:46
Alignment explanation
Indices: 87111332--87111502 Score: 177
Period size: 46 Copynumber: 3.7 Consensus size: 46
87111322 CTTTTGTGCA
* *
87111332 CTAGTGTAAGACATGTCTAGGACATGCATCGCCCACATT-ATGAGAG
1 CTAGTGTAAGACATGTCTAGGACATGCATCGGCCTC-TTAATGAGAG
* * * * * *
87111378 CCAGTGTAAGACCATGTCTGGGACATGGCATTGGCAT-TGAGACGAGAG
1 CTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTCTTA-ATGAGAG
* *
87111426 CTAGTGCAAGACATGTCTGGGACATGCATCGGCCTCTTAATGTA-AG
1 CTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCTTAATG-AGAG
*
87111472 CTAGTGTAAGATATGTCTAGGACATGCATCG
1 CTAGTGTAAGACATGTCTAGGACATGCATCG
87111503 ACTACATGAT
Statistics
Matches: 102, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
46 51 0.50
47 30 0.29
48 21 0.21
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (46 bp):
CTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCTTAATGAGAG
Found at i:87115741 original size:21 final size:20
Alignment explanation
Indices: 87115712--87115750 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
87115702 AACACATTGG
*
87115712 GAGAACGAATATTATCCTAAA
1 GAGAACGAAGA-TATCCTAAA
*
87115733 GAGATCGAAGATATCCTA
1 GAGAACGAAGATATCCTA
87115751 TGAGGGTAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.44, C:0.15, G:0.18, T:0.23
Consensus pattern (20 bp):
GAGAACGAAGATATCCTAAA
Found at i:87117406 original size:23 final size:23
Alignment explanation
Indices: 87117363--87117406 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
87117353 TTGCTTTTGT
*
87117363 TTTTCTTAGGCTTTCTCTTTTTC
1 TTTTCTTAGGCTTTCTATTTTTC
*
87117386 TTTTC-TAGGGTTTCATATTTT
1 TTTTCTTAGGCTTTC-TATTTT
87117407 CTATCTTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.09, C:0.16, G:0.11, T:0.64
Consensus pattern (23 bp):
TTTTCTTAGGCTTTCTATTTTTC
Found at i:87119022 original size:177 final size:177
Alignment explanation
Indices: 87118726--87119082 Score: 585
Period size: 177 Copynumber: 2.0 Consensus size: 177
87118716 TGATAGTCTC
*
87118726 ACTTCGGAATAGGATCTTTAGATGAAGCGAATATAAAATAAACTTAGTAAAAGCTGAAAACTAAT
1 ACTTCGGAATAGGATCTTTAGATGAAGCGAATATAAAATAAACGTAGTAAAAGCTGAAAACTAAT
**
87118791 AAAAACCTAAAGAATAAGTTTTTTCTCCCTAAATTTGAGTGTTTAATGTGTTGTTCTAAGCTCTT
66 AAAAACCTAAAGAATAAGTTTTTTCTCCCTAAATTTGAGTGTTTAATGTGTTGTTCTAAAATCTT
* *
87118856 ATTTATATATTACATGTATTATGGCCTAATTAGGTCAAGTAAATATG
131 ATTTATATATTACATGTATTATGACCTAATTAGGTCAAGTAAATAGG
* *
87118903 ACTTCGGAATAGGATTTTTCA-ATTAAGCGAATATAAAATAAACGTAGTAAAAGCTGAAAACTAA
1 ACTTCGGAATAGGATCTTT-AGATGAAGCGAATATAAAATAAACGTAGTAAAAGCTGAAAACTAA
* *
87118967 TAAAAACCTAAAGAAT-ATTTTTTGTCTCCCTAAATTT-ATGTGTTTAATGTGTTGTTTTAAAAT
65 TAAAAACCTAAAGAATAAGTTTTT-TCTCCCTAAATTTGA-GTGTTTAATGTGTTGTTCTAAAAT
87119030 CTTATTTATATATTACATGTATTATGACCTAATTAGGTCAAGTAAATAGG
128 CTTATTTATATATTACATGTATTATGACCTAATTAGGTCAAGTAAATAGG
87119080 ACT
1 ACT
87119083 AAGCATGTTA
Statistics
Matches: 168, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
176 7 0.04
177 160 0.95
178 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.36
Consensus pattern (177 bp):
ACTTCGGAATAGGATCTTTAGATGAAGCGAATATAAAATAAACGTAGTAAAAGCTGAAAACTAAT
AAAAACCTAAAGAATAAGTTTTTTCTCCCTAAATTTGAGTGTTTAATGTGTTGTTCTAAAATCTT
ATTTATATATTACATGTATTATGACCTAATTAGGTCAAGTAAATAGG
Found at i:87120952 original size:7 final size:7
Alignment explanation
Indices: 87120940--87120964 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
87120930 AAGAAATTTG
87120940 ATAATAA
1 ATAATAA
87120947 ATAATAA
1 ATAATAA
87120954 ATAATAA
1 ATAATAA
87120961 ATAA
1 ATAA
87120965 ATGACGATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
ATAATAA
Found at i:87124133 original size:22 final size:21
Alignment explanation
Indices: 87124097--87124137 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
87124087 ATTAGATTAA
87124097 AATTAAAATTAATAATATTATG
1 AATTAAAATTAATAA-ATTATG
* *
87124119 AATTAATATTCATAAATTA
1 AATTAAAATTAATAAATTA
87124138 GACCATCTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (21 bp):
AATTAAAATTAATAAATTATG
Found at i:87132510 original size:28 final size:28
Alignment explanation
Indices: 87132469--87132523 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
87132459 CATATACTAG
* *
87132469 AAATTTTATTTCACGCGTATGCATGTGA
1 AAATTTTATCTCACACGTATGCATGTGA
*
87132497 AAATTTTATCTCACACTTATGCATGTG
1 AAATTTTATCTCACACGTATGCATGTG
87132524 GAAACTACGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (28 bp):
AAATTTTATCTCACACGTATGCATGTGA
Found at i:87135700 original size:13 final size:12
Alignment explanation
Indices: 87135683--87135712 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
87135673 ATAGTTAAAA
87135683 AAAATATTTTTG
1 AAAATATTTTTG
87135695 AGAAATATTTTTG
1 A-AAATATTTTTG
87135708 AAAAT
1 AAAAT
87135713 TTTGAAAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.43
Consensus pattern (12 bp):
AAAATATTTTTG
Found at i:87136250 original size:12 final size:13
Alignment explanation
Indices: 87136222--87136256 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
87136212 TCAAAATCAT
*
87136222 TTTTTCAAAGTAC
1 TTTTTAAAAGTAC
*
87136235 TTTTTAAAAGTAT
1 TTTTTAAAAGTAC
87136248 TTTTTAAAA
1 TTTTTAAAA
87136257 ATAATGTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.51
Consensus pattern (13 bp):
TTTTTAAAAGTAC
Found at i:87136955 original size:21 final size:19
Alignment explanation
Indices: 87136920--87136959 Score: 62
Period size: 21 Copynumber: 2.0 Consensus size: 19
87136910 AGAATATATA
87136920 AATTATATTTTAAATATTT
1 AATTATATTTTAAATATTT
87136939 AATTATAATTATTAAATATTT
1 AATTAT-ATT-TTAAATATTT
87136960 GTAATTAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.32
20 3 0.16
21 10 0.53
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
AATTATATTTTAAATATTT
Found at i:87136955 original size:33 final size:30
Alignment explanation
Indices: 87136882--87136959 Score: 88
Period size: 33 Copynumber: 2.5 Consensus size: 30
87136872 TTTAAGCAAT
87136882 GAATATT-AATTATTTATAAAATTTAATTA
1 GAATATTAAATTATTTATAAAATTTAATTA
*
87136911 GAATATATAAATTATATTTTAAATATTTAATTA
1 GAATAT-TAAATTAT-TTATAAA-ATTTAATTA
*
87136944 TAATTATTAAA-TATTT
1 GAA-TATTAAATTATTT
87136960 GTAATTAGAT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
29 6 0.14
30 1 0.02
31 8 0.19
32 9 0.21
33 15 0.36
34 3 0.07
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (30 bp):
GAATATTAAATTATTTATAAAATTTAATTA
Found at i:87138807 original size:30 final size:30
Alignment explanation
Indices: 87138771--87138838 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 30
87138761 TACCAACTAG
* *
87138771 GTTCTCCTTTTGGTTTCACCTAGGCATATA
1 GTTCTCCTTTCGATTTCACCTAGGCATATA
*
87138801 GTTCTCCTTTCGATTTCATCTAGGCATATA
1 GTTCTCCTTTCGATTTCACCTAGGCATATA
*
87138831 GATCTCCT
1 GTTCTCCT
87138839 CTTAGTCTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.18, C:0.25, G:0.15, T:0.43
Consensus pattern (30 bp):
GTTCTCCTTTCGATTTCACCTAGGCATATA
Found at i:87141498 original size:40 final size:40
Alignment explanation
Indices: 87141454--87141639 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
87141444 GCTACTCGTT
* * *
87141454 CAAATACCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
87141494 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
87141534 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * *
87141574 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
87141615 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
87141640 CATCATTCGA
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 3 0.02
40 116 0.88
41 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:87143598 original size:51 final size:51
Alignment explanation
Indices: 87143522--87143690 Score: 196
Period size: 51 Copynumber: 3.3 Consensus size: 51
87143512 ATTGAACATT
* *
87143522 TCTCACATGGTCTTACACCTTATATCATATATGTAGATACCATGAAGCCTC
1 TCTCACATGGTCTTATACCTCATATCATATATGTAGATACCATGAAGCCTC
* * * * *
87143573 TCTCACATGGTTTTATACCTCATATCATATTTGTGGATGCCATGCAGCCTC
1 TCTCACATGGTCTTATACCTCATATCATATATGTAGATACCATGAAGCCTC
* * ** * *
87143624 TCTCACATGGTCTTATACCTCATA-CGATATCTGTGGATGTCATGGAGCCTT
1 TCTCACATGGTCTTATACCTCATATC-ATATATGTAGATACCATGAAGCCTC
*
87143675 TCTTACATGGTCTTAT
1 TCTCACATGGTCTTAT
87143691 GCTTTATTTT
Statistics
Matches: 104, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
50 1 0.01
51 103 0.99
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (51 bp):
TCTCACATGGTCTTATACCTCATATCATATATGTAGATACCATGAAGCCTC
Found at i:87144213 original size:20 final size:20
Alignment explanation
Indices: 87144188--87144228 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
87144178 AAGCAGGGCC
87144188 TTACACTCACGCCCTACTAT
1 TTACACTCACGCCCTACTAT
87144208 TTACACTCACGCCCTACTAT
1 TTACACTCACGCCCTACTAT
87144228 T
1 T
87144229 CTTACACCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.39, G:0.05, T:0.32
Consensus pattern (20 bp):
TTACACTCACGCCCTACTAT
Found at i:87146643 original size:40 final size:40
Alignment explanation
Indices: 87146588--87146797 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
87146578 AACATTGGAA
87146588 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
87146628 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
87146668 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
87146708 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
87146747 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
87146788 CTATATCCGG
1 ATATATCCGG
87146798 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:87149723 original size:49 final size:49
Alignment explanation
Indices: 87149666--87149795 Score: 163
Period size: 49 Copynumber: 2.7 Consensus size: 49
87149656 GTTGTGTGTT
* * *
87149666 AGTGTAAGACCTGTCTAGGACATGGCATCGACAC-CGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATAAAAGCC
* * **
87149715 AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATAAAATTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATAAAAGCC
**
87149764 AGTGTAAGACCTGTCTGGGACACAGCATCGAC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC
87149796 TTTAATGTAC
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
48 1 0.01
49 69 0.99
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATAAAAGCC
Found at i:87149781 original size:142 final size:138
Alignment explanation
Indices: 87149528--87149785 Score: 322
Period size: 141 Copynumber: 1.8 Consensus size: 138
87149518 TATGTGAGCC
* * ** * *
87149528 AGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACGAGAGCTAGTATAAGACATGTTTGGG
1 AGTGTAAGACATGTCTAGGACATGCATCGACACCGAGACGAGAGCCAGTATAAGACATGTCTGGG
*
87149593 ACATGCATCGGCCTCAGGATATACAAGCTAGTGTAAGACCTATCTGGGACATGGCTTCAGCTTGT
66 ACATGCATCGGCCTCAGGATATAAAAGCTAGTGTAAGACCTATCTGGGACATGGCTTCAGCTTGT
87149658 TGTGTGTT
131 TGTGTGTT
* * * *
87149666 AGTGTAAGACCTGTCTAGGACATGGCATCGACACCGATAGATGAGAGCCAGTGTAAGACCTGTCT
1 AGTGTAAGACATGTCTAGGACAT-GCATCGACACCG--AGACGAGAGCCAGTATAAGACATGTCT
** *
87149731 GGGACATGGCATCGGCCTC--GATATATAAAATTCAGTGTAAGACCTGTCTGGGACA
63 GGGACAT-GCATCGGCCTCAGGATATA-AAAGCT-AGTGTAAGACCTATCTGGGACA
87149786 CAGCATCGAC
Statistics
Matches: 100, Mismatches: 14, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
138 21 0.21
139 9 0.09
140 6 0.06
141 32 0.32
142 32 0.32
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (138 bp):
AGTGTAAGACATGTCTAGGACATGCATCGACACCGAGACGAGAGCCAGTATAAGACATGTCTGGG
ACATGCATCGGCCTCAGGATATAAAAGCTAGTGTAAGACCTATCTGGGACATGGCTTCAGCTTGT
TGTGTGTT
Found at i:87153891 original size:40 final size:40
Alignment explanation
Indices: 87153832--87154039 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
87153822 CAATTGAATG
* * * *
87153832 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
87153872 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* **
87153912 ACATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
87153952 AAATCCGGGCTAATACCCGAAGGCATTTGCGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
87153992 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
87154032 ATATCCGG
1 ATATCCGG
87154040 TTGTATTCCA
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:87156557 original size:12 final size:12
Alignment explanation
Indices: 87156528--87156557 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
87156518 AATAGTCTAA
87156528 TATTTTAATATT
1 TATTTTAATATT
87156540 TA-TTTAATATT
1 TATTTTAATATT
87156551 TATTTTA
1 TATTTTA
87156558 TAGTATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TATTTTAATATT
Found at i:87156659 original size:62 final size:59
Alignment explanation
Indices: 87156593--87156709 Score: 180
Period size: 62 Copynumber: 1.9 Consensus size: 59
87156583 AGTAATTATC
* * *
87156593 TTAATATTAAATTTAATTTAATATTTATCTTGTAGATAAATATTCTATTATTTTAATAAGAT
1 TTAATATTAAATTTAATCTAATATTTATC-T-T-GATAAATATTATATTAATTTAATAAGAT
87156655 TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
1 TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
87156710 TTAAAGTGAT
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
59 22 0.42
60 1 0.02
61 1 0.02
62 28 0.54
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.51
Consensus pattern (59 bp):
TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATAAGAT
Found at i:87162295 original size:40 final size:40
Alignment explanation
Indices: 87162236--87162354 Score: 148
Period size: 40 Copynumber: 3.0 Consensus size: 40
87162226 TACATAGTCG
*
87162236 AAGCTATCTCAAATCGCACACTAAGTGCCATATATAGCCA
1 AAGCTATCTCGAATCGCACACTAAGTGCCATATATAGCCA
* * * **
87162276 AAGCTTTCTCGAATTGCACACTAAGTGCCATATGTAGCTG
1 AAGCTATCTCGAATCGCACACTAAGTGCCATATATAGCCA
* * * *
87162316 AAGCTATGTTGAATCGCACACTAAGTGCCACAAATAGCC
1 AAGCTATCTCGAATCGCACACTAAGTGCCATATATAGCC
87162355 GATTTGTAGT
Statistics
Matches: 65, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 65 1.00
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (40 bp):
AAGCTATCTCGAATCGCACACTAAGTGCCATATATAGCCA
Found at i:87173448 original size:16 final size:16
Alignment explanation
Indices: 87173406--87173448 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
87173396 GTTGCCAACC
87173406 TTTCAGCTTTTTAGCA
1 TTTCAGCTTTTTAGCA
* * *
87173422 TTTCGGGTTTTTGGCA
1 TTTCAGCTTTTTAGCA
*
87173438 TTTCATCTTTT
1 TTTCAGCTTTT
87173449 GTCGATCTAC
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.12, C:0.16, G:0.16, T:0.56
Consensus pattern (16 bp):
TTTCAGCTTTTTAGCA
Found at i:87174603 original size:7 final size:7
Alignment explanation
Indices: 87174591--87174630 Score: 80
Period size: 7 Copynumber: 5.7 Consensus size: 7
87174581 TTTTATGAAA
87174591 CCCAAAG
1 CCCAAAG
87174598 CCCAAAG
1 CCCAAAG
87174605 CCCAAAG
1 CCCAAAG
87174612 CCCAAAG
1 CCCAAAG
87174619 CCCAAAG
1 CCCAAAG
87174626 CCCAA
1 CCCAA
87174631 TTCATCTAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.42, C:0.45, G:0.12, T:0.00
Consensus pattern (7 bp):
CCCAAAG
Found at i:87181488 original size:19 final size:19
Alignment explanation
Indices: 87181464--87181502 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
87181454 TTATCTTAAC
*
87181464 AGTATTTTATTAGTTTACT
1 AGTATTTTATTAATTTACT
87181483 AGTATTTTATTAATTTACT
1 AGTATTTTATTAATTTACT
87181502 A
1 A
87181503 TTAAAGTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.31, C:0.05, G:0.08, T:0.56
Consensus pattern (19 bp):
AGTATTTTATTAATTTACT
Found at i:87184667 original size:25 final size:26
Alignment explanation
Indices: 87184638--87184686 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
87184628 CAACAAAAAT
*
87184638 AAAATCTATTCTAAAAAT-AAAAGGG
1 AAAATCTAATCTAAAAATGAAAAGGG
*
87184663 AAAATCTAATCTTAAAATGAAAAG
1 AAAATCTAATCTAAAAATGAAAAG
87184687 AAAAGAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.57, C:0.08, G:0.10, T:0.24
Consensus pattern (26 bp):
AAAATCTAATCTAAAAATGAAAAGGG
Found at i:87187776 original size:78 final size:81
Alignment explanation
Indices: 87187660--87187841 Score: 239
Period size: 78 Copynumber: 2.3 Consensus size: 81
87187650 TACTCGTTCA
* *
87187660 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
87187723 ATTTAGTAAC-TCGCAC
65 ATATAGTAACTTAGCAC
* **
87187739 AATGCCTTCAGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
87187802 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
87187818 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
87187842 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
77 3 0.03
78 48 0.54
79 27 0.30
80 11 0.12
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:87187841 original size:40 final size:40
Alignment explanation
Indices: 87187658--87187841 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
87187648 GCTACTCGTT
* *
87187658 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
87187698 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
87187738 C-AATGCCTTCAGG-CTTAGCCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * *
87187776 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
87187817 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
87187842 CATCATTCGA
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
38 25 0.20
39 20 0.16
40 69 0.55
41 12 0.10
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:87195791 original size:78 final size:81
Alignment explanation
Indices: 87195671--87195852 Score: 248
Period size: 78 Copynumber: 2.3 Consensus size: 81
87195661 TACTCGTTCA
* *
87195671 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
87195734 ATTTAGTAAC-TCGCAC
65 ATATAGTAACTTAGCAC
**
87195750 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
87195813 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
87195829 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
87195853 CATCATTCGA
Statistics
Matches: 91, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
77 3 0.03
78 48 0.53
79 29 0.32
80 11 0.12
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:87195852 original size:40 final size:40
Alignment explanation
Indices: 87195650--87195852 Score: 247
Period size: 40 Copynumber: 5.1 Consensus size: 40
87195640 CGGAATTTAA
** *
87195650 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
87195690 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
87195730 CCGGATTTAGTAACTCGCAC-AATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
87195768 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
87195808 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
87195848 CCGGA
1 CCGGA
87195853 CATCATTCGA
Statistics
Matches: 142, Mismatches: 13, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
38 25 0.18
39 22 0.15
40 83 0.58
41 12 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:87197861 original size:2 final size:2
Alignment explanation
Indices: 87197854--87197878 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
87197844 TCATGTGGAA
87197854 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
87197879 GTGTTTGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:87207913 original size:2 final size:2
Alignment explanation
Indices: 87207902--87207932 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
87207892 ATGTAAGCCC
87207902 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
87207933 GGCATTGGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:87211134 original size:40 final size:40
Alignment explanation
Indices: 87211090--87211277 Score: 281
Period size: 40 Copynumber: 4.7 Consensus size: 40
87211080 GCTACTTGCT
87211090 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
87211130 CAAATGCCTTTGGGACTTAGCCCGATTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
87211170 CAAATGCCTTCGGGACTTAGCCCGGTTACAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*** * *
87211210 CAAATGCCTTCGGG-CTTAGCCC-AAAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
87211249 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
87211278 CATCCGAATA
Statistics
Matches: 131, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
38 1 0.01
39 31 0.24
40 98 0.75
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:87214627 original size:20 final size:20
Alignment explanation
Indices: 87214604--87214641 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
87214594 CACATCCAAA
*
87214604 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
87214624 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
87214642 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:87222529 original size:20 final size:20
Alignment explanation
Indices: 87222506--87222543 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
87222496 CACATCCAAA
*
87222506 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
87222526 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
87222544 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:87229846 original size:40 final size:40
Alignment explanation
Indices: 87229802--87229988 Score: 324
Period size: 40 Copynumber: 4.7 Consensus size: 40
87229792 GCTACTTGCT
87229802 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
87229842 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
87229882 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
** * *
87229922 CAAATGCCTTCGGG-CTTAGCCCGAAT-TAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
87229960 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
87229989 CATCCGAATA
Statistics
Matches: 139, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
38 24 0.17
39 20 0.14
40 95 0.68
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:87238561 original size:9 final size:10
Alignment explanation
Indices: 87238534--87238560 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
87238524 ATATTGAGTG
87238534 TTATTTTTAA
1 TTATTTTTAA
87238544 TTATTTTTAA
1 TTATTTTTAA
87238554 TTATTTT
1 TTATTTT
87238561 ATGGGTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
TTATTTTTAA
Found at i:87238803 original size:2 final size:2
Alignment explanation
Indices: 87238791--87238845 Score: 83
Period size: 2 Copynumber: 27.5 Consensus size: 2
87238781 TAAACTGATT
* * *
87238791 TA TA TA AA TA TA TG TG TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
87238833 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
87238846 GTTTTTAACT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (2 bp):
TA
Found at i:87239315 original size:48 final size:50
Alignment explanation
Indices: 87239250--87239368 Score: 134
Period size: 50 Copynumber: 2.4 Consensus size: 50
87239240 GTAGATGGAA
* * *
87239250 GACTAAAATGATAAAACAAGTATC-C-AAATGAGTTGATAGAAGCTTGAT
1 GACTGAAATAATAAAACAAGTATCTCTAAATGAGTTGATAGAAGCCTGAT
* * * * * *
87239298 GATTGAGATAATAAAACAAGTCTCTCTACATGATTTGATGGAAGCCTGAT
1 GACTGAAATAATAAAACAAGTATCTCTAAATGAGTTGATAGAAGCCTGAT
*
87239348 GACTGAAATGATAAAACAAGT
1 GACTGAAATAATAAAACAAGT
87239369 TTGTTTGCAA
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
48 19 0.33
49 1 0.02
50 37 0.65
ACGTcount: A:0.43, C:0.12, G:0.19, T:0.26
Consensus pattern (50 bp):
GACTGAAATAATAAAACAAGTATCTCTAAATGAGTTGATAGAAGCCTGAT
Found at i:87252362 original size:35 final size:35
Alignment explanation
Indices: 87252323--87252433 Score: 109
Period size: 35 Copynumber: 3.2 Consensus size: 35
87252313 CAAGGTAACT
* *
87252323 TCACATATAACTGAATATACAAGTTTAATATAAGC
1 TCACATATAACTAAATATACAAGTTCAATATAAGC
* * *
87252358 TCACATTTAA-TCAAATGCT-CAAGTTCAATATAACC
1 TCACATATAACT-AAAT-ATACAAGTTCAATATAAGC
** * *
87252393 TCACATGCAGCCAAATATACAAGTTCAATATAAGC
1 TCACATATAACTAAATATACAAGTTCAATATAAGC
87252428 TCACAT
1 TCACAT
87252434 GTACTTACCT
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
34 2 0.03
35 58 0.95
36 1 0.02
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (35 bp):
TCACATATAACTAAATATACAAGTTCAATATAAGC
Found at i:87252434 original size:35 final size:35
Alignment explanation
Indices: 87252336--87252434 Score: 119
Period size: 35 Copynumber: 2.8 Consensus size: 35
87252326 CATATAACTG
* ** *
87252336 AATATACAAGTTTAATATAAGCTCACATTTAATCA
1 AATATACAAGTTCAATATAAGCTCACATGCAACCA
* * *
87252371 AATGCT-CAAGTTCAATATAACCTCACATGCAGCCA
1 AAT-ATACAAGTTCAATATAAGCTCACATGCAACCA
87252406 AATATACAAGTTCAATATAAGCTCACATG
1 AATATACAAGTTCAATATAAGCTCACATG
87252435 TACTTACCTA
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
34 1 0.02
35 51 0.96
36 1 0.02
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.28
Consensus pattern (35 bp):
AATATACAAGTTCAATATAAGCTCACATGCAACCA
Found at i:87254030 original size:27 final size:26
Alignment explanation
Indices: 87254000--87254065 Score: 62
Period size: 27 Copynumber: 2.5 Consensus size: 26
87253990 AAAATCATCT
87254000 CTTTCAAAAACCAAGGTTTAGA-AAAAA
1 CTTTCAAAAACCAA--TTTAGAGAAAAA
** *
87254027 CTTTTGAAAACTCAATTTTGAGAAAAA
1 CTTTCAAAAAC-CAATTTAGAGAAAAA
*
87254054 TTTTCAAAAACC
1 CTTTCAAAAACC
87254066 CATTCCACAA
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
26 6 0.19
27 22 0.71
28 3 0.10
ACGTcount: A:0.47, C:0.15, G:0.09, T:0.29
Consensus pattern (26 bp):
CTTTCAAAAACCAATTTAGAGAAAAA
Found at i:87256771 original size:84 final size:84
Alignment explanation
Indices: 87256627--87256795 Score: 302
Period size: 84 Copynumber: 2.0 Consensus size: 84
87256617 CTTTTACCAA
* * *
87256627 GTCTACAACTACTCTATAGAATTCGAATCCACCACAAAGACTTGCCACCCAAGTAGCAAAGTAAA
1 GTCTAAAACTACTCCATAGAATTCGAATCCACCACAAAGACTTGCCACCCAAGTAACAAAGTAAA
87256692 ATCCTCTTGCTTACGGTGG
66 ATCCTCTTGCTTACGGTGG
*
87256711 GTCTAAAACTACTCCATAGAGTTCGAATCCACCACAAAGACTTGCCACCCAAGTAACAAAGTAAA
1 GTCTAAAACTACTCCATAGAATTCGAATCCACCACAAAGACTTGCCACCCAAGTAACAAAGTAAA
87256776 ATCCTCTTGCTTACGGTGG
66 ATCCTCTTGCTTACGGTGG
87256795 G
1 G
87256796 ATTCGAACTT
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 81 1.00
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (84 bp):
GTCTAAAACTACTCCATAGAATTCGAATCCACCACAAAGACTTGCCACCCAAGTAACAAAGTAAA
ATCCTCTTGCTTACGGTGG
Found at i:87258759 original size:436 final size:435
Alignment explanation
Indices: 87257931--87258771 Score: 1432
Period size: 436 Copynumber: 1.9 Consensus size: 435
87257921 ATCAATTAAG
* *
87257931 AGCTTATTAAGAGATAGGGAATTGAGGCACTCGATATCCAGATTCAGTAGACGGGTCGGGTATGG
1 AGCTTACTAAGAGATAGGGAATTGAGGCACTCGATATCCAGATTCAGTAGACGGGTCGAGTATGG
87257996 GGTGGTACACATATAACCATTTCTTTACAATTTAGTCTATATCTCACCCTATTTTACCAAATTGT
66 GGTGGTACACATATAACCATTTCTTTACAATTTAGTCTATATCTCACCCTATTTTACCAAATTGT
* * *
87258061 AAACAATTTAAATTACACTTACACACAAACAAATTCATAATTCAAACATATATACATTATATTAC
131 AAAAAATTCAAATTACACTTACACACAAACAAATTCATAATTCAAACATATATACATTACATTAC
* *
87258126 ATATAACTACACCATATGATCTTACATGATTAAATGAGCAAACAAGTTGAATCGCCAGGACTAAT
196 ATATAACTACACCATATGAACTTACATGATTAAATGAGCAAACAAGTTGAATCGCCAAGACTAAT
* * *
87258191 CGGTAATTTTTTATTTTTCCTAGTTATCCTCGATCCAGTTTAATTCTTGATCTATACAATAATTC
261 CGGTAATTTTGTATTTTCCCCAGTTATCCTCGATCCAGTTTAATTCTTGATCTATACAATAATTC
* * **
87258256 ATTTCAATTTATCTATTCCAAATAACTTATACCATCCTATTATATGCATATGTTAATTCAATTTC
326 ATTTCAATTTATCAATTCAAAATAACTTATACCATAATATTATATGCATATGTTAATTCAATTTC
87258321 ATCTTTATAATGCCTCATATTCATTTCAATTTATCATTTCCAAAT
391 ATCTTTATAATGCCTCATATTCATTTCAATTTATCATTTCCAAAT
* *
87258366 AGCTTACTAAGAGATTTGGGAATTGTGGCACTCGATATCC-GAATTCAGTAGACGGGTCGAGTAT
1 AGCTTACTAAGAGA-TAGGGAATTGAGGCACTCGATATCCAG-ATTCAGTAGACGGGTCGAGTAT
*
87258430 GGGGTGGTACACATATAACCATTTCTTTACAATTTAGTCTATATCTCACCCTATTTTATCAAATT
64 GGGGTGGTACACATATAACCATTTCTTTACAATTTAGTCTATATCTCACCCTATTTTACCAAATT
87258495 GTAAAAAATTCAAATTACACTTACACACAAACAAATTCATAATTCAAACATATATACATTACATT
129 GTAAAAAATTCAAATTACACTTACACACAAACAAATTCATAATTCAAACATATATACATTACATT
*
87258560 ACATATAACTACACCATATGAACTTACATGATTAAATGAGCAAACAAGTTGGATCGCCAAGACTA
194 ACATATAACTACACCATATGAACTTACATGATTAAATGAGCAAACAAGTTGAATCGCCAAGACTA
* * * *
87258625 ATCGGTAATTTTGTCTTTTCCCCAGTTATCCTCGGTTCAGTTTAATTCTTGATCTATACAATATT
259 ATCGGTAATTTTGTATTTTCCCCAGTTATCCTCGATCCAGTTTAATTCTTGATCTATACAATAAT
* * *
87258690 TCATTTTAATTTATCAATTTAAAATAACTTATATCATAATATTATATGCATATGTTAATTCAATT
324 TCATTTCAATTTATCAATTCAAAATAACTTATACCATAATATTATATGCATATGTTAATTCAATT
87258755 TCATCTTTATAATGCCT
389 TCATCTTTATAATGCCT
87258772 TTTAAAGTTT
Statistics
Matches: 379, Mismatches: 25, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
435 14 0.04
436 365 0.96
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.37
Consensus pattern (435 bp):
AGCTTACTAAGAGATAGGGAATTGAGGCACTCGATATCCAGATTCAGTAGACGGGTCGAGTATGG
GGTGGTACACATATAACCATTTCTTTACAATTTAGTCTATATCTCACCCTATTTTACCAAATTGT
AAAAAATTCAAATTACACTTACACACAAACAAATTCATAATTCAAACATATATACATTACATTAC
ATATAACTACACCATATGAACTTACATGATTAAATGAGCAAACAAGTTGAATCGCCAAGACTAAT
CGGTAATTTTGTATTTTCCCCAGTTATCCTCGATCCAGTTTAATTCTTGATCTATACAATAATTC
ATTTCAATTTATCAATTCAAAATAACTTATACCATAATATTATATGCATATGTTAATTCAATTTC
ATCTTTATAATGCCTCATATTCATTTCAATTTATCATTTCCAAAT
Found at i:87261816 original size:40 final size:39
Alignment explanation
Indices: 87261761--87261923 Score: 186
Period size: 40 Copynumber: 4.1 Consensus size: 39
87261751 TGAATGATAC
* * *
87261761 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTG-TTATAT
*
87261801 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGTTATAT
* * *
87261841 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGT-TACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGT--TATAT
* *
87261881 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGTTATAT
87261920 CCGG
1 CCGG
87261924 TTAAATCCGA
Statistics
Matches: 105, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
38 1 0.01
39 10 0.10
40 88 0.84
41 6 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGTTATAT
Found at i:87266566 original size:40 final size:40
Alignment explanation
Indices: 87266521--87266687 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
87266511 CGGAATATAA
87266521 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
87266561 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
87266601 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
87266641 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
87266680 CCGGATAT
1 CCGGATAT
87266688 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:87270760 original size:40 final size:40
Alignment explanation
Indices: 87270716--87270816 Score: 202
Period size: 40 Copynumber: 2.5 Consensus size: 40
87270706 ATCCATAAAN
87270716 CCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATG
1 CCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATG
87270756 CCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATG
1 CCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATG
87270796 CCTTCGGGTCTTAGCCCGGAT
1 CCTTCGGGTCTTAGCCCGGAT
87270817 TATTTCCAAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 61 1.00
ACGTcount: A:0.20, C:0.31, G:0.24, T:0.26
Consensus pattern (40 bp):
CCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATG
Found at i:87278706 original size:40 final size:40
Alignment explanation
Indices: 87278623--87278832 Score: 296
Period size: 40 Copynumber: 5.2 Consensus size: 40
87278613 CGGGATTTAA
* * * * *
87278623 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * * *
87278663 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTCAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
87278703 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
87278743 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
87278783 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
87278823 CCGGATATAT
1 CCGGATATAT
87278833 TTCCAATGTT
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 1 0.01
40 150 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:87286233 original size:28 final size:28
Alignment explanation
Indices: 87286191--87286260 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
87286181 TTTTAAAACC
*
87286191 TTAGGGGT-ATATCGGTAATTTTGCTCT
1 TTAGGGGTAATTTCGGTAATTTTGCTCT
*
87286218 TTAGGGGTAATTTCGGTAGTTTTGCTCT
1 TTAGGGGTAATTTCGGTAATTTTGCTCT
87286246 TTAGGGGTAATTTCG
1 TTAGGGGTAATTTCG
87286261 TGATCTACGC
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.17, C:0.10, G:0.29, T:0.44
Consensus pattern (28 bp):
TTAGGGGTAATTTCGGTAATTTTGCTCT
Found at i:87288117 original size:19 final size:18
Alignment explanation
Indices: 87288080--87288123 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
87288070 ATACATACAG
87288080 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
87288097 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
87288116 TACTAATT
1 TAATAATT
87288124 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:87288848 original size:40 final size:40
Alignment explanation
Indices: 87288783--87288897 Score: 135
Period size: 40 Copynumber: 2.9 Consensus size: 40
87288773 TTATGTTTTT
* *
87288783 CACTTAGTGTGCATTTTCAGATAGCTTTGGCTATATAAAG
1 CACTTAGTGTGCAATTTGAGATAGCTTTGGCTATATAAAG
* ***
87288823 CACTTAGTGTGCAATTTG-GAGTAGCTTCGGCTATATGTGG
1 CACTTAGTGTGCAATTTGAGA-TAGCTTTGGCTATATAAAG
87288863 CACTTAGTGTGCGAGA-TTGAGATAGCTTTGGCTAT
1 CACTTAGTGTGC-A-ATTTGAGATAGCTTTGGCTAT
87288898 TTGATGTACT
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
39 2 0.03
40 43 0.67
41 16 0.25
42 3 0.05
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.36
Consensus pattern (40 bp):
CACTTAGTGTGCAATTTGAGATAGCTTTGGCTATATAAAG
Found at i:87288909 original size:41 final size:40
Alignment explanation
Indices: 87288783--87288914 Score: 126
Period size: 40 Copynumber: 3.3 Consensus size: 40
87288773 TTATGTTTTT
** * * *
87288783 CACTTAGTGTGCATTTTCAGATAGCTTTGGCTATATAAAG
1 CACTTAGTGTGCAGATTGAGATAGCTTTGGCTATATGATG
*
87288823 CACTTAGTGTGCA-ATTTG-GAGTAGCTTCGGCTATATG-TGG
1 CACTTAGTGTGCAGA-TTGAGA-TAGCTTTGGCTATATGAT-G
*
87288863 CACTTAGTGTGCGAGATTGAGATAGCTTTGGCTATTTGATG
1 CACTTAGTGTGC-AGATTGAGATAGCTTTGGCTATATGATG
* *
87288904 TACTTAATGTG
1 CACTTAGTGTG
87288915 TGAGATTATA
Statistics
Matches: 76, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
39 2 0.03
40 42 0.55
41 28 0.37
42 4 0.05
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.37
Consensus pattern (40 bp):
CACTTAGTGTGCAGATTGAGATAGCTTTGGCTATATGATG
Found at i:87304699 original size:40 final size:40
Alignment explanation
Indices: 87304637--87304853 Score: 269
Period size: 40 Copynumber: 5.5 Consensus size: 40
87304627 AAGCCAAGTA
* * *
87304637 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACGAATG
*
87304676 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
* *
87304716 CCTTCGGCACTTAGCCCGGATATAGTAACTCGGACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
* *
87304756 CCTTCGGGACTTAGGCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
* * * * * *
87304796 CCTTCGGAACTTATCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACGAATG
87304836 CCTTCGGGACTTAGCCCG
1 CCTTCGGGACTTAGCCCG
87304854 ATTATCATCC
Statistics
Matches: 156, Mismatches: 19, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
39 13 0.08
40 143 0.92
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
Found at i:87309962 original size:40 final size:40
Alignment explanation
Indices: 87309890--87310019 Score: 138
Period size: 40 Copynumber: 3.3 Consensus size: 40
87309880 ACTATGTTTT
* *
87309890 GCACTTAGTGCGCG-TTT-GAGATAGCTTTGGCTATATAAA
1 GCACTTAGTGTGCGATTTGGAG-TAGCTTTGGCTATATGAA
* **
87309929 GCACTTAGTGTGCGATTTGGAGTAGCTTCGGCTATATGTG
1 GCACTTAGTGTGCGATTTGGAGTAGCTTTGGCTATATGAA
** * * * *
87309969 GCACTTAGTGTGCGAGATGAAATAGCTTTGGCTATGTGAT
1 GCACTTAGTGTGCGATTTGGAGTAGCTTTGGCTATATGAA
87310009 GCACTTAGTGT
1 GCACTTAGTGT
87310020 CCTAGATTAT
Statistics
Matches: 76, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
39 13 0.17
40 60 0.79
41 3 0.04
ACGTcount: A:0.22, C:0.15, G:0.29, T:0.34
Consensus pattern (40 bp):
GCACTTAGTGTGCGATTTGGAGTAGCTTTGGCTATATGAA
Found at i:87315491 original size:40 final size:39
Alignment explanation
Indices: 87315368--87315563 Score: 184
Period size: 40 Copynumber: 4.9 Consensus size: 39
87315358 AGTCCTGACT
* *
87315368 TTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGCA
1 TTTGTGCTA-GTGACTATATCCGG-CTAAGACCCGAAGGCA
* *
87315409 TTCGTGCGAGTTG-CTATATCCGGGCTAAGACCCGAAGGCA
1 TTTGTGCTAG-TGACTATATCC-GGCTAAGACCCGAAGGCA
* *
87315449 TTTGTGCTAGCGACTATATCCGGTCTAAGTCCCGAAGGCA
1 TTTGTGCTAGTGACTATATCCGG-CTAAGACCCGAAGGCA
* * *
87315489 TTTATGCTAGTGACCATATCCAGGCTAAGACCCAAAGGC-
1 TTTGTGCTAGTGACTATATCC-GGCTAAGACCCGAAGGCA
* * *
87315528 CTTGTGCAAGT-AGTTATATCCGGCTAA-ATCCCGAAG
1 TTTGTGCTAGTGA-CTATATCCGGCTAAGA-CCCGAAG
87315564 ATTACTTGAG
Statistics
Matches: 129, Mismatches: 19, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
37 1 0.01
38 13 0.10
39 17 0.13
40 85 0.66
41 13 0.10
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (39 bp):
TTTGTGCTAGTGACTATATCCGGCTAAGACCCGAAGGCA
Found at i:87317489 original size:37 final size:37
Alignment explanation
Indices: 87317410--87317492 Score: 112
Period size: 37 Copynumber: 2.2 Consensus size: 37
87317400 AACCTTTAGT
* * * *
87317410 TCGGGGCTTACCCGGACAAAATCTCCACCCGTGGTCA
1 TCGGGTCTTACCCGAACAAAATCTCCACACGTAGTCA
* *
87317447 TCGGGTCTTACCCGAACATAATCTCCACATGTAGTCA
1 TCGGGTCTTACCCGAACAAAATCTCCACACGTAGTCA
87317484 TCGGGTCTT
1 TCGGGTCTT
87317493 TAGAGCTTGG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.25
Consensus pattern (37 bp):
TCGGGTCTTACCCGAACAAAATCTCCACACGTAGTCA
Found at i:87317679 original size:47 final size:47
Alignment explanation
Indices: 87317610--87317803 Score: 307
Period size: 47 Copynumber: 4.1 Consensus size: 47
87317600 CCCTTCGGGA
* * * *
87317610 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
87317657 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
87317704 CTTATCACATATATGCACTTTCACATTCATCACATGGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
87317751 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
87317798 CTTATC
1 CTTATC
87317804 TCGTGTAACA
Statistics
Matches: 137, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 137 1.00
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:87317688 original size:25 final size:25
Alignment explanation
Indices: 87317660--87317738 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
87317650 ACTCGGCCTT
*
87317660 ATCACATATATACACTTTCACATTC
1 ATCACATATATGCACTTTCACATTC
* * * *
87317685 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCACTTTC-ACATTC
87317707 ATCACATATATGCACTTTCACATTC
1 ATCACATATATGCACTTTCACATTC
87317732 ATCACAT
1 ATCACAT
87317739 GGGCCATTAG
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.12
24 6 0.15
25 18 0.45
ACGTcount: A:0.30, C:0.29, G:0.06, T:0.34
Consensus pattern (25 bp):
ATCACATATATGCACTTTCACATTC
Found at i:87317829 original size:66 final size:66
Alignment explanation
Indices: 87317750--87317883 Score: 259
Period size: 66 Copynumber: 2.0 Consensus size: 66
87317740 GGCCATTAGG
*
87317750 CCTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCGTGTAACAC
1 CCTTGTCACATATATACACTTTCACACTCATCACATCGGCCATTAGGCCTTATCTCGTGTAACAC
87317815 C
66 C
87317816 CCTTGTCACATATATACACTTTCACACTCATCACATCGGCCATTAGGCCTTATCTCGTGTAACAC
1 CCTTGTCACATATATACACTTTCACACTCATCACATCGGCCATTAGGCCTTATCTCGTGTAACAC
87317881 C
66 C
87317882 CC
1 CC
87317884 GTACCCGAGT
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.25, C:0.34, G:0.10, T:0.31
Consensus pattern (66 bp):
CCTTGTCACATATATACACTTTCACACTCATCACATCGGCCATTAGGCCTTATCTCGTGTAACAC
C
Found at i:87319299 original size:40 final size:39
Alignment explanation
Indices: 87319254--87319401 Score: 136
Period size: 40 Copynumber: 3.7 Consensus size: 39
87319244 ATAACCACAA
* * *** *
87319254 GCACAATTGCCTTCGGGTCTTAACCTGGATTTGGTAACTT
1 GCACAA-TGCCTTCGGGTCTTAACCCGGATATAACAACTC
*
87319294 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCAC-AATGCCTTCGGGTCTTAACCCGGATATAACAACTC
* *
87319334 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTA
1 GCAC-AATGCCTTCGGGTCTTAACCCGGATATAA-CAACTC
* * *
87319374 GCATAAATGCCTTCGGGACTTAGCCCGG
1 GCA-CAATGCCTTCGGGTCTTAACCCGG
87319402 GTATCATTCA
Statistics
Matches: 94, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
40 91 0.97
41 3 0.03
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAACCCGGATATAACAACTC
Found at i:87321330 original size:47 final size:47
Alignment explanation
Indices: 87321261--87321595 Score: 589
Period size: 47 Copynumber: 7.1 Consensus size: 47
87321251 TCACATCTCG
* * *
87321261 TATATGCACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
*
87321308 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACA
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
87321355 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
* *
87321402 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTCTCACT
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
87321449 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
*
87321496 TATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
* *
87321543 TATATGCACTTTCACATTCATCACATCGGCCATTGGGCCTTATCACA
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
87321590 TATATA
1 TATATA
87321596 TATCTCATAC
Statistics
Matches: 276, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 276 1.00
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
Found at i:87325368 original size:111 final size:111
Alignment explanation
Indices: 87325174--87325397 Score: 430
Period size: 111 Copynumber: 2.0 Consensus size: 111
87325164 TGATTATCAG
*
87325174 TGCTCCCAATTCCCGTTTTTAATGTTCATTACATTTTTGAAGTTGTCATCAACCGATTTAGCCAT
1 TGCTCCCAATTCCCGTTTTTAATGTTCATTACATTTTTGAAGTTGTCATCAACCGATATAGCCAT
87325239 TTCTACCATTATTTTGAGTTAGGGTTCATGTATGAAATTTTCCCCA
66 TTCTACCATTATTTTGAGTTAGGGTTCATGTATGAAATTTTCCCCA
87325285 TGCTCCCAATTCCCGTTTTTAATGTTCATTACATTTTTGAAGTTGTCATCAACCGATATAGCCAT
1 TGCTCCCAATTCCCGTTTTTAATGTTCATTACATTTTTGAAGTTGTCATCAACCGATATAGCCAT
*
87325350 TTCTACCATTATTTTGAGTTAGGGTTCATGTATGAAATTTTTCCCA
66 TTCTACCATTATTTTGAGTTAGGGTTCATGTATGAAATTTTCCCCA
87325396 TG
1 TG
87325398 TGTGACATGG
Statistics
Matches: 111, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
111 111 1.00
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.42
Consensus pattern (111 bp):
TGCTCCCAATTCCCGTTTTTAATGTTCATTACATTTTTGAAGTTGTCATCAACCGATATAGCCAT
TTCTACCATTATTTTGAGTTAGGGTTCATGTATGAAATTTTCCCCA
Found at i:87326150 original size:21 final size:21
Alignment explanation
Indices: 87326121--87326195 Score: 53
Period size: 21 Copynumber: 3.4 Consensus size: 21
87326111 CTATGTGACA
*
87326121 TGAACTCATTGAGTTGTGGTC
1 TGAATTCATTGAGTTGTGGTC
* *
87326142 TGATTTCA-TGATATATGTGGCATC
1 TGAATTCATTGA-GT-TGTGG--TC
* *
87326166 TGAACTCATTGAGTTATGGTC
1 TGAATTCATTGAGTTGTGGTC
*
87326187 TGAGTTCAT
1 TGAATTCAT
87326196 GATGTATATG
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
20 3 0.08
21 16 0.40
22 5 0.12
23 4 0.10
24 9 0.22
25 3 0.08
ACGTcount: A:0.23, C:0.13, G:0.24, T:0.40
Consensus pattern (21 bp):
TGAATTCATTGAGTTGTGGTC
Done.