Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 256 of 378
Found at i:76743664 original size:86 final size:85
Alignment explanation
Indices: 76743516--76743674 Score: 221
Period size: 86 Copynumber: 1.9 Consensus size: 85
76743506 GATGAGACTA
* * * ** *
76743516 CATGTAAGATCATGTTTGGGACATTGGTATCGGTATATGATTACATGTAAGACCATCTCTGGGAC
1 CATGTAAGACCATGTCTGGGACATTGGCATCAATATATGATAACATGTAAGACCATCTCTGGGAC
76743581 ATTGGCATTATCATATAATTT
66 A-TGGCATTATCATATAATTT
*
76743602 CATGTAAGACCATGTCTGGGACATTGGCATCAATATGTGATAACATGTAAGACCATAC-CTGGGA
1 CATGTAAGACCATGTCTGGGACATTGGCATCAATATATGATAACATGTAAGACCAT-CTCTGGGA
*
76743666 TATGGCATT
65 CATGGCATT
76743675 TGTATGAGCT
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
85 7 0.11
86 56 0.88
87 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (85 bp):
CATGTAAGACCATGTCTGGGACATTGGCATCAATATATGATAACATGTAAGACCATCTCTGGGAC
ATGGCATTATCATATAATTT
Found at i:76757252 original size:50 final size:50
Alignment explanation
Indices: 76757178--76757275 Score: 160
Period size: 50 Copynumber: 2.0 Consensus size: 50
76757168 TACACATGAA
* *
76757178 AAAGGAAAGGTATGTGTTCAAATGAACTATGTCATGAAGTTATAAAAAAG
1 AAAGGAAAGGTATGTATTCAAATGAACTATGTCATGAAATTATAAAAAAG
* *
76757228 AAAGGAAAGGTATGTATTCCAATGAACTATGTCATGAAATTATGAAAA
1 AAAGGAAAGGTATGTATTCAAATGAACTATGTCATGAAATTATAAAAA
76757276 GGATTAAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.46, C:0.07, G:0.20, T:0.27
Consensus pattern (50 bp):
AAAGGAAAGGTATGTATTCAAATGAACTATGTCATGAAATTATAAAAAAG
Found at i:76759740 original size:27 final size:27
Alignment explanation
Indices: 76759700--76759753 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
76759690 TGTCATGTGA
* *
76759700 AATTGAATGGTAAATTATTGTTACATG
1 AATTGAATGGTAAATTACTATTACATG
*
76759727 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGTAAATTACTATTACATG
76759754 GGTTGTATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.39, C:0.06, G:0.15, T:0.41
Consensus pattern (27 bp):
AATTGAATGGTAAATTACTATTACATG
Found at i:76762930 original size:6 final size:6
Alignment explanation
Indices: 76762919--76763089 Score: 342
Period size: 6 Copynumber: 28.5 Consensus size: 6
76762909 ACTGTGTTAC
76762919 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
76762967 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
76763015 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
76763063 ATGTAT ATGTAT ATGTAT ATGTAT ATG
1 ATGTAT ATGTAT ATGTAT ATGTAT ATG
76763090 AGAGTCGAGT
Statistics
Matches: 165, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 165 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
ATGTAT
Found at i:76763946 original size:15 final size:15
Alignment explanation
Indices: 76763926--76763968 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
76763916 TATTGTAATT
*
76763926 TGGATTTCCTTATCA
1 TGGATTTCTTTATCA
*
76763941 TGGATTTCTTTATCT
1 TGGATTTCTTTATCA
*
76763956 TGAATTTCTTTAT
1 TGGATTTCTTTAT
76763969 TCTGGGCTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.19, C:0.14, G:0.12, T:0.56
Consensus pattern (15 bp):
TGGATTTCTTTATCA
Found at i:76766448 original size:27 final size:27
Alignment explanation
Indices: 76766415--76766468 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
76766405 TGTCATGTGA
* *
76766415 AATTGAATGGTAAATTATTGTTACATG
1 AATTGAATGGTAAATTACTATTACATG
*
76766442 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGTAAATTACTATTACATG
76766469 GGTTGTATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.39, C:0.06, G:0.15, T:0.41
Consensus pattern (27 bp):
AATTGAATGGTAAATTACTATTACATG
Found at i:76776583 original size:42 final size:42
Alignment explanation
Indices: 76776469--76776592 Score: 108
Period size: 42 Copynumber: 2.9 Consensus size: 42
76776459 CTGAGATGTC
* * * * * *
76776469 GTGTAAGACCATGTCTGGGGCACAGGCCTCGAT-TTGAGATTTAA
1 GTGTAAGACCATGTCTAGGACAGAGGCATCGATACT--GATTT-T
**
76776513 GTGTAAGACCATGTCTAGGACATCGGCATC-ATATCTGATTTT
1 GTGTAAGACCATGTCTAGGACAGAGGCATCGATA-CTGATTTT
* *
76776555 GTGTAAGACCCTGTCTGGGACAGAGGCATCGATACTGA
1 GTGTAAGACCATGTCTAGGACAGAGGCATCGATACTGA
76776593 ATTACATGTA
Statistics
Matches: 66, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
42 30 0.45
43 10 0.15
44 25 0.38
45 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.27
Consensus pattern (42 bp):
GTGTAAGACCATGTCTAGGACAGAGGCATCGATACTGATTTT
Found at i:76790767 original size:66 final size:68
Alignment explanation
Indices: 76790691--76790877 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
76790681 TAGTACCACT
*
76790691 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
76790753 CACG
65 CACG
76790757 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
76790822 ATCACG
63 ATCACG
76790828 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
76790878 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:76790802 original size:71 final size:71
Alignment explanation
Indices: 76790714--76790877 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
76790704 CGATTTGTCT
76790714 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
76790779 CTTTCA
66 CTTTCA
76790785 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
76790850 CTTTCA
66 CTTTCA
76790856 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
76790878 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:76790915 original size:71 final size:70
Alignment explanation
Indices: 76790714--76790911 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
76790704 CGATTTGTCT
* * *
76790714 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
76790779 CTTTCA
65 CTTTCA
* * *
76790785 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
76790850 CTTTCA
65 CTTTCA
* *
76790856 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
76790912 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:76798336 original size:66 final size:68
Alignment explanation
Indices: 76798260--76798446 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
76798250 TAGTACCACT
*
76798260 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
76798322 CACG
65 CACG
76798326 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
76798391 ATCACG
63 ATCACG
76798397 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
76798447 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:76798371 original size:71 final size:71
Alignment explanation
Indices: 76798283--76798446 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
76798273 CGATTTGTCT
76798283 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
76798348 CTTTCA
66 CTTTCA
76798354 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
76798419 CTTTCA
66 CTTTCA
76798425 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
76798447 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:76798484 original size:71 final size:70
Alignment explanation
Indices: 76798283--76798480 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
76798273 CGATTTGTCT
* * *
76798283 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
76798348 CTTTCA
65 CTTTCA
* * *
76798354 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
76798419 CTTTCA
65 CTTTCA
* *
76798425 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
76798481 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:76807782 original size:40 final size:40
Alignment explanation
Indices: 76807704--76807926 Score: 283
Period size: 40 Copynumber: 5.5 Consensus size: 40
76807694 ACCCAAGTAT
* *
76807704 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
76807743 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
76807783 CTTCGGGACTTAGCTCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
76807823 CTTCGGGACTTAGCCCGGGT-TAG-CAACTACTCGCACAAATAC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
76807865 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
76807905 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
76807927 CATCCGAATA
Statistics
Matches: 160, Mismatches: 16, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
38 1 0.01
39 18 0.11
40 106 0.66
41 1 0.01
42 28 0.17
43 6 0.04
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:76807899 original size:82 final size:80
Alignment explanation
Indices: 76807704--76807926 Score: 290
Period size: 82 Copynumber: 2.8 Consensus size: 80
76807694 ACCCAAGTAT
* * * *
76807704 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
** *
76807768 CACTAGCATGAATGC
66 CACTAGCACAAATAC
* * *
76807783 CTTCGGGACTTAGCTCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGT-TAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
76807846 CAACTACTCGCACAAATAC
66 C-ACTA---GCACAAATAC
*
76807865 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
76807927 CATCCGAATA
Statistics
Matches: 124, Mismatches: 14, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
78 1 0.01
79 19 0.15
80 40 0.32
82 63 0.51
83 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATAC
Found at i:76810417 original size:30 final size:30
Alignment explanation
Indices: 76810355--76810417 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
76810345 ACTTATTTTA
**
76810355 TTGTTAATTTCATTATTATTTTAAAGGTAT
1 TTGTTAATTTCATTATTATTTTAAAGACAT
* *
76810385 TTGTTAATTTTATTATTATTTTAGAGACAT
1 TTGTTAATTTCATTATTATTTTAAAGACAT
76810415 TTG
1 TTG
76810418 CTTGTTAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.29, C:0.03, G:0.11, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTCATTATTATTTTAAAGACAT
Found at i:76812668 original size:26 final size:26
Alignment explanation
Indices: 76812634--76812692 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
76812624 TATGGACAGC
*
76812634 CAACGGGAGACGCTGAATATGACGTA
1 CAACTGGAGACGCTGAATATGACGTA
76812660 CAACTGGAGACGCTGAATATGACGTA
1 CAACTGGAGACGCTGAATATGACGTA
76812686 CAACTGG
1 CAACTGG
76812693 GTCAGGAAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.34, C:0.20, G:0.29, T:0.17
Consensus pattern (26 bp):
CAACTGGAGACGCTGAATATGACGTA
Found at i:76815988 original size:24 final size:24
Alignment explanation
Indices: 76815956--76816003 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
76815946 AATGATTCCT
76815956 CCAAAAGGATAGTTAGCTCAACCA
1 CCAAAAGGATAGTTAGCTCAACCA
76815980 CCAAAAGGATAGTTAGCTCAACCA
1 CCAAAAGGATAGTTAGCTCAACCA
76816004 ACATCATTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.25, G:0.17, T:0.17
Consensus pattern (24 bp):
CCAAAAGGATAGTTAGCTCAACCA
Found at i:76816404 original size:56 final size:58
Alignment explanation
Indices: 76816339--76816472 Score: 150
Period size: 59 Copynumber: 2.3 Consensus size: 58
76816329 TTTAATTCAT
* * *
76816339 ATAATAATTATATTAAGA-AT-GTTATCAA-AATT-GTATTTTTTATTAAATTATATTTA
1 ATAATAATTATATTAAAATATGGTTA--AATAATTAGTATTTTTTAATAAAATATATTTA
* * *
76816395 ATAATAATTATGTTAAAATATGGTTAAATTATTTATTATTTTTTAATAAAATATATTTA
1 ATAATAATTATATTAAAATATGGTTAAA-TAATTAGTATTTTTTAATAAAATATATTTA
*
76816454 ATAATAATTTTATTAAAAT
1 ATAATAATTATATTAAAAT
76816473 TTAATAACAA
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
56 18 0.28
57 2 0.03
58 7 0.11
59 38 0.58
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.50
Consensus pattern (58 bp):
ATAATAATTATATTAAAATATGGTTAAATAATTAGTATTTTTTAATAAAATATATTTA
Found at i:76816623 original size:44 final size:45
Alignment explanation
Indices: 76816567--76816659 Score: 120
Period size: 44 Copynumber: 2.1 Consensus size: 45
76816557 TACAACATCT
*
76816567 ATTCTATTCAACCAAACACA-AGAATT-CT-ATTACAGCTCTATTCC
1 ATTCCATTCAACCAAACA-ATA-AATTACTGATTACAGCTCTATTCC
*
76816611 ATTCCATTCAACCAAATAATTAAATTACTGATTACAGCTCTATTCC
1 ATTCCATTCAACCAAACAA-TAAATTACTGATTACAGCTCTATTCC
76816657 ATT
1 ATT
76816660 ACAGCTCTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
43 1 0.02
44 20 0.47
45 3 0.07
46 19 0.44
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.34
Consensus pattern (45 bp):
ATTCCATTCAACCAAACAATAAATTACTGATTACAGCTCTATTCC
Found at i:76816662 original size:16 final size:16
Alignment explanation
Indices: 76816641--76816710 Score: 113
Period size: 16 Copynumber: 4.4 Consensus size: 16
76816631 TAAATTACTG
76816641 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
76816657 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
* *
76816673 ATTATAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
76816689 ATTACAGCCCTATTCC
1 ATTACAGCTCTATTCC
76816705 ATTACA
1 ATTACA
76816711 ATGAACCAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.29, C:0.29, G:0.06, T:0.37
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:76820186 original size:24 final size:22
Alignment explanation
Indices: 76820156--76820203 Score: 60
Period size: 24 Copynumber: 2.1 Consensus size: 22
76820146 ATATTTAGTC
76820156 ATATAATAAATTATTATATAATAA
1 ATATAATAAATTATT-T-TAATAA
**
76820180 ATATAATTTATTATTTTAATAA
1 ATATAATAAATTATTTTAATAA
76820202 AT
1 AT
76820204 TATTTAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 8 0.36
23 1 0.05
24 13 0.59
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATATAATAAATTATTTTAATAA
Found at i:76820190 original size:21 final size:22
Alignment explanation
Indices: 76820161--76820203 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
76820151 TAGTCATATA
76820161 ATAAATTATTA-TATAATAAAT
1 ATAAATTATTATTATAATAAAT
* *
76820182 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTATTATAATAAAT
76820204 TATTTAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
ATAAATTATTATTATAATAAAT
Found at i:76820214 original size:20 final size:22
Alignment explanation
Indices: 76820174--76820215 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
76820164 AATTATTATA
*
76820174 TAATAAATATAATTTATTATTT
1 TAATAAATATAATTTAATATTT
76820196 TAATAAAT-T-ATTTAATATTT
1 TAATAAATATAATTTAATATTT
76820216 CAATTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 1 0.05
22 8 0.42
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TAATAAATATAATTTAATATTT
Found at i:76820255 original size:15 final size:16
Alignment explanation
Indices: 76820228--76820258 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
76820218 ATTTTATTTT
76820228 AATAATAAATTTTAAA
1 AATAATAAATTTTAAA
76820244 AATAAT-AATTTTAAA
1 AATAATAAATTTTAAA
76820259 TAATTTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAATAAATTTTAAA
Found at i:76820316 original size:15 final size:15
Alignment explanation
Indices: 76820282--76820352 Score: 65
Period size: 15 Copynumber: 4.6 Consensus size: 15
76820272 ATATTACTGA
76820282 AAATA-TTTAAT-AT
1 AAATATTTTAATAAT
*
76820295 TAATATTTTAATAAT
1 AAATATTTTAATAAT
*
76820310 AAATATTTATTACAATTAT
1 AAATA-TT-TT--AATAAT
*
76820329 AAATATATTAATAAT
1 AAATATTTTAATAAT
76820344 AAATATTTT
1 AAATATTTT
76820353 GTATTATAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
13 4 0.09
14 6 0.13
15 19 0.41
16 2 0.04
17 4 0.09
18 1 0.02
19 10 0.22
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (15 bp):
AAATATTTTAATAAT
Found at i:76822881 original size:23 final size:23
Alignment explanation
Indices: 76822855--76822901 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
76822845 CAGTTTCCCT
76822855 TCTTTTCTGATTCTCTCGCTTTC
1 TCTTTTCTGATTCTCTCGCTTTC
76822878 TCTTTTCTGATTCTCTCGCTTTC
1 TCTTTTCTGATTCTCTCGCTTTC
76822901 T
1 T
76822902 TCCTTCCTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.04, C:0.30, G:0.09, T:0.57
Consensus pattern (23 bp):
TCTTTTCTGATTCTCTCGCTTTC
Found at i:76823803 original size:45 final size:45
Alignment explanation
Indices: 76823752--76823841 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
76823742 AAGGGTTTGA
76823752 GTATGATCTTTATAGTTATTCTCATGGAATTGAGAGGCTTTCTTT
1 GTATGATCTTTATAGTTATTCTCATGGAATTGAGAGGCTTTCTTT
76823797 GTATGATCTTTATAGTTATTCTCATGGAATTGAGAGGCTTTCTTT
1 GTATGATCTTTATAGTTATTCTCATGGAATTGAGAGGCTTTCTTT
76823842 TGGTGTTATC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.22, C:0.11, G:0.20, T:0.47
Consensus pattern (45 bp):
GTATGATCTTTATAGTTATTCTCATGGAATTGAGAGGCTTTCTTT
Found at i:76826889 original size:12 final size:13
Alignment explanation
Indices: 76826864--76826897 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
76826854 TTTTCTGAGG
76826864 TAAAAATAATTAT
1 TAAAAATAATTAT
*
76826877 TAAAAGTAA-TAT
1 TAAAAATAATTAT
76826889 TAAAAATAA
1 TAAAAATAA
76826898 ATCATACAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (13 bp):
TAAAAATAATTAT
Found at i:76827126 original size:2 final size:2
Alignment explanation
Indices: 76827119--76827143 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
76827109 TATGCATAAT
76827119 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
76827144 GTAAGTCTTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:76829368 original size:22 final size:22
Alignment explanation
Indices: 76829343--76829396 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
76829333 CATCCATCCT
*
76829343 CTACACACCACTCCGTCCAGCC
1 CTACACACCACTCCGTCCAACC
76829365 CTACACACCACTCCGTCCAACC
1 CTACACACCACTCCGTCCAACC
76829387 CTACACACCA
1 CTACACACCA
76829397 TGTGGGGATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.28, C:0.54, G:0.06, T:0.13
Consensus pattern (22 bp):
CTACACACCACTCCGTCCAACC
Found at i:76839777 original size:8 final size:8
Alignment explanation
Indices: 76839766--76839791 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
76839756 CAAAAAATTC
76839766 AAAATAAT
1 AAAATAAT
76839774 AAAATAAT
1 AAAATAAT
76839782 AAAATAAT
1 AAAATAAT
76839790 AA
1 AA
76839792 GAGCTAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AAAATAAT
Found at i:76844708 original size:16 final size:16
Alignment explanation
Indices: 76844687--76844718 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
76844677 TGTTACGGTG
76844687 TTGTGTTCTTGAATTC
1 TTGTGTTCTTGAATTC
76844703 TTGTGTTCTTGAATTC
1 TTGTGTTCTTGAATTC
76844719 CAAGGCAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.12, G:0.19, T:0.56
Consensus pattern (16 bp):
TTGTGTTCTTGAATTC
Found at i:76846700 original size:48 final size:48
Alignment explanation
Indices: 76846648--76846917 Score: 269
Period size: 48 Copynumber: 5.6 Consensus size: 48
76846638 TATGTGTGCT
*
76846648 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCACGATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCC
* * * * * * * *
76846696 AGTGTAAGACCATGTTTGGAACATGGTATCGGCGATGTTGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCC
** * * * *
76846744 AGTGTAAGACCATGT-TGGGACATGGCATC-AACATTGATATGTGCGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CGATATGAGAGCC
76846791 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGA-TATGAGAGCC
* * * * **
76846839 AGTGTAAGACCATGTCTGGGACATGGCATCCG-CATTGAGACGAGAGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CGATATGAGAGCC
* * *
76846887 AATGTAAGACCATGTTTGGAACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
76846918 ACAATTCACC
Statistics
Matches: 182, Mismatches: 34, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
46 1 0.01
47 39 0.21
48 139 0.76
49 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCC
Found at i:76846815 original size:95 final size:96
Alignment explanation
Indices: 76846645--76846917 Score: 293
Period size: 95 Copynumber: 2.9 Consensus size: 96
76846635 TGATATGTGT
* **
76846645 GCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCACGATATGAGAGCCAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGAACACGATATGAGAGCCAGTGTAAGACCATG
* * * ** *
76846710 TTTGGAACATGGTATCGGCGATGTTGTGAGA
66 TCTGGAACATGGCATCGGCCACATTATGAGA
* * * *
76846741 GCTAGTGTAAGACCATGT-TGGGACATGGCATC-AACATTGATATGTGCGCTAGTGTAAGACCAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGAACA-CGATATGAGAGCCAGTGTAAGACCAT
*
76846804 GTCTGGGACATGGCATCGGCCACATTATGAGA
65 GTCTGGAACATGGCATCGGCCACATTATGAGA
* * * * ** *
76846836 GCCAGTGTAAGACCATGTCTGGGACATGGCATCCG--CATTGAGACGAGAGTTAATGTAAGACCA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCAT-CGAACA-CGATATGAGAGCCAGTGTAAGACCA
*
76846899 TGTTTGGAACATGGCATCG
64 TGTCTGGAACATGGCATCG
76846918 ACAATTCACC
Statistics
Matches: 150, Mismatches: 23, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
94 2 0.01
95 77 0.51
96 70 0.47
97 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (96 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGAACACGATATGAGAGCCAGTGTAAGACCATG
TCTGGAACATGGCATCGGCCACATTATGAGA
Found at i:76846817 original size:143 final size:144
Alignment explanation
Indices: 76846635--76846916 Score: 410
Period size: 143 Copynumber: 2.0 Consensus size: 144
76846625 GACATTTGGG
* *
76846635 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCACGA-TATGAGAGCCAGT
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC-ATTATGAGAGCCAGT
* * * * * *
76846699 GTAAGACCATGTTTGGAACATGGTATCGGCGA-TGTTG-TGAGAGCTAGTGTAAGACCATG-TTG
65 GTAAGACCATGTCTGGAACATGGCATCCGC-ATTG-AGACGAGAGCTAATGTAAGACCATGTTTG
*
76846761 GGACATGGCATCAACAT
128 GAACATGGCATCAACAT
76846778 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTG
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTG
* *
76846843 TAAGACCATGTCTGGGACATGGCATCCGCATTGAGACGAGAGTTAATGTAAGACCATGTTTGGAA
66 TAAGACCATGTCTGGAACATGGCATCCGCATTGAGACGAGAGCTAATGTAAGACCATGTTTGGAA
76846908 CATGGCATC
131 CATGGCATC
76846917 GACAATTCAC
Statistics
Matches: 124, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
142 3 0.02
143 107 0.86
144 14 0.11
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (144 bp):
TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTG
TAAGACCATGTCTGGAACATGGCATCCGCATTGAGACGAGAGCTAATGTAAGACCATGTTTGGAA
CATGGCATCAACAT
Found at i:76853429 original size:40 final size:40
Alignment explanation
Indices: 76853382--76853566 Score: 226
Period size: 40 Copynumber: 4.6 Consensus size: 40
76853372 CTCACACAAG
* *
76853382 GCCTTCGGGTCTTAGCCCGGATATGGTCGCTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
*
76853422 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
* * ** *
76853462 GCCTTCGGGTTTTGGCCCGGATATAGTAACTCGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
* * * ** *
76853502 GCCTTCGGATCTTAGTCCGGATATAATCATTTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-GCTAGCACAAAT
*
76853543 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
76853567 CATTTGAATA
Statistics
Matches: 122, Mismatches: 22, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
40 93 0.76
41 29 0.24
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:76853480 original size:80 final size:81
Alignment explanation
Indices: 76853346--76853566 Score: 231
Period size: 80 Copynumber: 2.8 Consensus size: 81
76853336 ACCCAAGTAT
* *
76853346 CTTCGGGAT-TTAG-CCGGATATAACCA-CT--CACACAAGGCCTTCGGGTCTTAGCCCGGATAT
1 CTTC-GGATCTTAGCCCGGATATAATCAGCTAGCACA-AAAGCCTTCGGGTCTTAGCCCGGATAT
* ** *
76853406 GGTCGCTAGCATAAATGC
64 AGTAACTAGCACAAATGC
* * * *
76853424 CTTCGGGA-CTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTTTTGGCCCGGATATA
1 CTTC-GGATCTTAGCCCGGATATAATCAGCTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATA
*
76853487 GTAACTCGCACAAATGC
65 GTAACTAGCACAAATGC
* ** *
76853504 CTTCGGATCTTAGTCCGGATATAATCATTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGATCTTAGCCCGGATATAATCAGCTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATAT
76853567 CATTTGAATA
Statistics
Matches: 118, Mismatches: 18, Indels: 11
0.80 0.12 0.07
Matches are distributed among these distances:
78 12 0.10
79 15 0.13
80 57 0.48
81 34 0.29
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.26
Consensus pattern (81 bp):
CTTCGGATCTTAGCCCGGATATAATCAGCTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAG
TAACTAGCACAAATGC
Found at i:76869537 original size:39 final size:39
Alignment explanation
Indices: 76869478--76869625 Score: 193
Period size: 39 Copynumber: 4.0 Consensus size: 39
76869468 CAAGACACTA
* * *
76869478 GAAATGTATCCGGGCCAAAGTCCCACAGGCTTTGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
*
76869517 GAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
*
76869556 GAAATGTATCCGGGCTAAAGTCCCGCAAGCTTCGTGC--
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
*
76869593 ----T-TATCCGGGCTAAAGTCCCGCAGGCTTTGTGCT
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCT
76869626 AGTAATATAA
Statistics
Matches: 100, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
32 29 0.29
33 1 0.01
39 70 0.70
ACGTcount: A:0.21, C:0.26, G:0.28, T:0.25
Consensus pattern (39 bp):
GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
Found at i:76869603 original size:32 final size:32
Alignment explanation
Indices: 76869562--76869625 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
76869552 GCTGGAAATG
76869562 TATCCGGGCTAAAGTCCCGCAAGCTTCGTGCT
1 TATCCGGGCTAAAGTCCCGCAAGCTTCGTGCT
* *
76869594 TATCCGGGCTAAAGTCCCGCAGGCTTTGTGCT
1 TATCCGGGCTAAAGTCCCGCAAGCTTCGTGCT
76869626 AGTAATATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.17, C:0.30, G:0.27, T:0.27
Consensus pattern (32 bp):
TATCCGGGCTAAAGTCCCGCAAGCTTCGTGCT
Found at i:76873333 original size:28 final size:28
Alignment explanation
Indices: 76873300--76873371 Score: 110
Period size: 28 Copynumber: 2.6 Consensus size: 28
76873290 TTTGAATCAT
*
76873300 TCAATATTTTGCACACTAAGTGTCATTC
1 TCAATATTTCGCACACTAAGTGTCATTC
*
76873328 TCAATATCTCGCACACTAAGTGTCATTC
1 TCAATATTTCGCACACTAAGTGTCATTC
*
76873356 T-AATATTTCGTACACT
1 TCAATATTTCGCACACT
76873372 GAGTACCATA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 13 0.32
28 27 0.68
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.38
Consensus pattern (28 bp):
TCAATATTTCGCACACTAAGTGTCATTC
Found at i:76876906 original size:28 final size:28
Alignment explanation
Indices: 76876841--76876939 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
76876831 CATGAGATTG
* * *
76876841 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTATATA
*
76876870 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAGATTATATA
* *
76876898 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTAGATTATAT-A
76876926 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
76876940 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 45 0.71
29 17 0.27
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAGATTATATA
Found at i:76887745 original size:29 final size:29
Alignment explanation
Indices: 76887712--76887814 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 29
76887702 CCTCCGAACT
** * * *
76887712 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
76887741 TGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
76887770 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
76887799 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
76887815 ATCTCGTCAC
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 65 1.00
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:76893893 original size:49 final size:48
Alignment explanation
Indices: 76893588--76893947 Score: 201
Period size: 46 Copynumber: 7.6 Consensus size: 48
76893578 TTTGTGTGCC
* *
76893588 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCACATT-AT-GA-GAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAG--AC-TTGATCGATGAGCT
* *
76893634 AGTGTAAGACCATGTTTGGGACATGGCATC-GACATTGAGACGA-GAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGAC-TTGA-TCGATGAGCT
* * * *
76893682 AGAT-TAAGA-CATGTCTGAGACAT-ACATC-GACCTCGA--GATGCAAGCC
1 AG-TGTAAGACCATGTCTGGGACATGGCATCAGA-CTTGATCGATG--AGCT
* * * *
76893728 AGTGTAAGA-CATATCTGGGACAT-GCATC-GGCTACGA--GATGTG-T
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGACT-TGATCGATGAGCT
*
76893771 CAGTGTAAGACCATGTCTGGGACATGGCATCGACACGGATATG-T-GA-GAGCT
1 -AGTGTAAGACCATGTCTGGGACATGGCATC-AGAC---T-TGATCGATGAGCT
* * * *
76893822 AGTGTAAGACCATGTCTAGGACATGACATCAGCCTTGATTTCGAT-AGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGACTTGA--TCGATGAGCT
* * *
76893871 AGTGTAAGACCATGTCCGGGACACGGCAT-TGACTTGATCGATGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGACTTGATCGATGAGCT
*
76893918 AGTGTAAGACTATGTCTGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
76893948 GGCATTATAC
Statistics
Matches: 251, Mismatches: 34, Indels: 56
0.74 0.10 0.16
Matches are distributed among these distances:
43 2 0.01
44 11 0.04
45 23 0.09
46 64 0.25
47 55 0.22
48 27 0.11
49 33 0.13
50 30 0.12
51 6 0.02
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGACTTGATCGATGAGCT
Found at i:76895860 original size:48 final size:47
Alignment explanation
Indices: 76895808--76896034 Score: 149
Period size: 48 Copynumber: 4.7 Consensus size: 47
76895798 CCACGATATA
*
76895808 AGAGCTAGTGTAAGACCATGTTTGGAATATGGCATCGACAATGTTGTG
1 AGAGCTAGTGTAAGACCATGTTTGG-ACATGGCATCGACAATGTTGTG
* * * * * *
76895856 AGAGCCAGTGTAAGATCATGTCTAGGACATGGCGTC-AGCATTGAATGTG
1 AGAGCTAGTGTAAGACCATGT-TTGGACATGGCATCGA-CAATG-TTGTG
* * * **
76895905 -CA-CTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACATTGTG
1 AGAGCTAGTGTAAGACCATGTTT-GGACATGGCATCGACAATGTTGTG
* * * * * * *
76895951 AGAG-TCAGTGTAAGACCATATCTGGGACATGCCATCGGCATTG-AGACG
1 AGAGCT-AGTGTAAGACCATGT-TTGGACATGGCATCGACAATGTTG-TG
* *
76895999 AGAGCTCGTGTAAGACCATGTCTGGGACATGGCATC
1 AGAGCTAGTGTAAGACCATGT-TTGGACATGGCATC
76896035 AGCAAATTAC
Statistics
Matches: 137, Mismatches: 31, Indels: 22
0.72 0.16 0.12
Matches are distributed among these distances:
46 5 0.04
47 31 0.23
48 92 0.67
49 9 0.07
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (47 bp):
AGAGCTAGTGTAAGACCATGTTTGGACATGGCATCGACAATGTTGTG
Found at i:76895936 original size:95 final size:96
Alignment explanation
Indices: 76895808--76896034 Score: 278
Period size: 95 Copynumber: 2.4 Consensus size: 96
76895798 CCACGATATA
* * ** *
76895808 AGAGCTAGTGTAAGACCATGTTTGGAATATGGCATCGACAATGTTGTGAGAGCCAGTGTAAGATC
1 AGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGACAACATTGTGAGAGCCAGTGTAAGACC
* * * *
76895873 ATGTCTAGGACATGGCGTCAGCATTGA-ATG
66 ATATCTAGGACATGCCATCAGCATTGAGACG
* * * *
76895903 TGCA-CTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACATTGTGAGAGTCAGTGTAAGAC
1 AG-AGCTAGTGTAAGACCATGTTTGGGACATGGCATCGACAACATTGTGAGAGCCAGTGTAAGAC
* *
76895967 CATATCTGGGACATGCCATCGGCATTGAGACG
65 CATATCTAGGACATGCCATCAGCATTGAGACG
* *
76895999 AGAGCTCGTGTAAGACCATGTCTGGGACATGGCATC
1 AGAGCTAGTGTAAGACCATGTTTGGGACATGGCATC
76896035 AGCAAATTAC
Statistics
Matches: 111, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
95 77 0.69
96 34 0.31
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (96 bp):
AGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGACAACATTGTGAGAGCCAGTGTAAGACC
ATATCTAGGACATGCCATCAGCATTGAGACG
Found at i:76913302 original size:25 final size:25
Alignment explanation
Indices: 76913274--76913393 Score: 177
Period size: 25 Copynumber: 4.8 Consensus size: 25
76913264 CTCTTTTAAT
*
76913274 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
76913299 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
76913324 AACTAGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
76913349 AACTGGGGCAAAGCCCTTTCCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
76913374 AACTGGGGCAAAACCCTTTT
1 AACTGGGGCAAAGCCCTTTT
76913394 AGCACTTCCT
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 88 1.00
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:76913628 original size:27 final size:27
Alignment explanation
Indices: 76913598--76913661 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
76913588 GGGGCAAAAT
76913598 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCCACAAGGGTATCTC
* * *
76913625 GGTAATTCTACCCCACAGGGGTATTTC
1 GGTAATTTTACCCCACAAGGGTATCTC
76913652 GGT-ATTTTAC
1 GGTAATTTTAC
76913662 AAATCGAGAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
26 6 0.18
27 27 0.82
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.33
Consensus pattern (27 bp):
GGTAATTTTACCCCACAAGGGTATCTC
Found at i:76913710 original size:27 final size:27
Alignment explanation
Indices: 76913643--76913835 Score: 167
Period size: 27 Copynumber: 7.2 Consensus size: 27
76913633 TACCCCACAG
* *
76913643 GGGTATTTCGGT-ATTTTACAAATCGA
1 GGGTATTTTGGTAATTTTACAAATCAA
* *** *
76913669 GAGTATTTCAATAATTTCACAAATCAA
1 GGGTATTTTGGTAATTTTACAAATCAA
** *
76913696 GGGTATTTTGGTAATTTTACAAGCCAG
1 GGGTATTTTGGTAATTTTACAAATCAA
*
76913723 GGGTATTTTGGTAATTTTACAAA-CTA
1 GGGTATTTTGGTAATTTTACAAATCAA
**
76913749 GGGATATTTTGGTAATTTTACTGATCGAA
1 GGG-TATTTTGGTAATTTTACAAATC-AA
** *
76913778 -GGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAATCAA
** **
76913804 GGGTATTTTAATAATTTTGTAAATCAA
1 GGGTATTTTGGTAATTTTACAAATCAA
76913831 GGGTA
1 GGGTA
76913836 AAACGGTAAT
Statistics
Matches: 135, Mismatches: 27, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
26 15 0.11
27 116 0.86
28 3 0.02
29 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCAA
Found at i:76914064 original size:27 final size:27
Alignment explanation
Indices: 76913815--76914051 Score: 348
Period size: 27 Copynumber: 8.8 Consensus size: 27
76913805 GGTATTTTAA
* * *
76913815 TAATTTTGTAAATCAAGGGTAAAACGG
1 TAATTCTGTAAATCGAGGGTAAAATGG
* *
76913842 TAATTCTGTAAATTGATGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAATGG
**
76913869 TAATTCTGTAAATCGAGGGTAAAACAG
1 TAATTCTGTAAATCGAGGGTAAAATGG
76913896 TAATTCTGTAAATCGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAATGG
* *
76913923 TAATTCTGTAAATCGAGAGTAAAACGG
1 TAATTCTGTAAATCGAGGGTAAAATGG
*
76913950 TAATTCTATAAATCGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAATGG
*
76913977 TAATTCTATAAATCGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAATGG
* *
76914004 TAACTCTGTAAATCGAGGATAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAATGG
*
76914031 TAATTTTGTAAATCGAGGGTA
1 TAATTCTGTAAATCGAGGGTA
76914052 CTTTGGTAAT
Statistics
Matches: 188, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 188 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (27 bp):
TAATTCTGTAAATCGAGGGTAAAATGG
Found at i:76914280 original size:17 final size:17
Alignment explanation
Indices: 76914260--76914303 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
76914250 AACTTATCCA
76914260 ATTGGGCCCATAGGCCC
1 ATTGGGCCCATAGGCCC
*
76914277 ATTGGGCCCGTAGGCCC
1 ATTGGGCCCATAGGCCC
76914294 ATTGGGCCCA
1 ATTGGGCCCA
76914304 CATGGCCCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.16, C:0.34, G:0.32, T:0.18
Consensus pattern (17 bp):
ATTGGGCCCATAGGCCC
Found at i:76918918 original size:37 final size:37
Alignment explanation
Indices: 76918875--76918949 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
76918865 CATATCCTAG
76918875 ACCTCATAATGATCATAAAATAATTATTTTAACATCA
1 ACCTCATAATGATCATAAAATAATTATTTTAACATCA
76918912 ACCTCATAATGATCATAAAATAATTATTTTAACATCA
1 ACCTCATAATGATCATAAAATAATTATTTTAACATCA
76918949 A
1 A
76918950 ATTTGTGGTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.47, C:0.16, G:0.03, T:0.35
Consensus pattern (37 bp):
ACCTCATAATGATCATAAAATAATTATTTTAACATCA
Found at i:76921066 original size:46 final size:46
Alignment explanation
Indices: 76921016--76921188 Score: 186
Period size: 46 Copynumber: 3.7 Consensus size: 46
76921006 TGTTTGGGCA
*
76921016 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*** * * ** *
76921062 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* * * *
76921109 TCCGAGCTTGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
76921155 TCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
76921189 CGGGCGGGTT
Statistics
Matches: 100, Mismatches: 24, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
46 67 0.67
47 33 0.33
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:76921171 original size:93 final size:93
Alignment explanation
Indices: 76921012--76921183 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
76921002 AGGATGTTTG
* *
76921012 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCATTGAG
76921077 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * * *
76921105 GGCATCCGAGCTTGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGTCCGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCATTGAG
76921170 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
76921184 ACTTACGGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:76924892 original size:49 final size:49
Alignment explanation
Indices: 76924835--76925066 Score: 302
Period size: 49 Copynumber: 4.7 Consensus size: 49
76924825 CTTATACGCA
*
76924835 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
* ** * *
76924884 TAGTAGCCTGCACTTTGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * * *
76924934 TAGTAGCCTGCACTTAATACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACG
* * * *
76924985 TAGTAGCCTGCATTTAGTACTACACATGCGACCAATTATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
76925034 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
76925067 TCACAATAGA
Statistics
Matches: 153, Mismatches: 27, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 71 0.46
50 46 0.30
51 36 0.24
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:76929722 original size:46 final size:46
Alignment explanation
Indices: 76929670--76929800 Score: 226
Period size: 46 Copynumber: 2.8 Consensus size: 46
76929660 GATATTTGGG
*
76929670 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
*
76929716 CGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* *
76929762 CACCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
76929801 GCGGGTTACA
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
Found at i:76931498 original size:28 final size:28
Alignment explanation
Indices: 76931433--76931531 Score: 128
Period size: 28 Copynumber: 3.5 Consensus size: 28
76931423 CATGAGATTG
* * *
76931433 GCACTAAGTGTGCGGGTTCAAGTTGTATA
1 GCACTAAGTGTGCGAGTTCGA-TTATATA
*
76931462 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTCGATTATATA
*
76931490 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTCGATTATAT-A
76931518 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
76931532 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 44 0.70
29 18 0.29
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTCGATTATATA
Found at i:76936620 original size:43 final size:42
Alignment explanation
Indices: 76936563--76936726 Score: 165
Period size: 43 Copynumber: 3.8 Consensus size: 42
76936553 AATGCCAACA
76936563 TCCCAGACGTGGTCTTACA-TATAATCAAATATCGATGCCACTG
1 TCCCAGACGTGGTCTTACACTA-AATCAAATATCGATGCCA-TG
* *
76936606 TCCCAGACAG-GGTCTTACACGAAATCAAATA-CGATGTCGATG
1 TCCCAGAC-GTGGTCTTACACTAAATCAAATATCGATG-CCATG
* * * *
76936648 TACCAGACATAGTCTTACACGTAAATCTCAA-ATCGATGCCAATG
1 TCCCAGACGTGGTCTTACAC-TAAATC-AAATATCGATGCC-ATG
* *
76936692 TCCCAGACGTGGTCTTACACGAAATCACATATCGA
1 TCCCAGACGTGGTCTTACACTAAATCAAATATCGA
76936727 AATTCTATGT
Statistics
Matches: 98, Mismatches: 14, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
42 24 0.24
43 45 0.46
44 29 0.30
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (42 bp):
TCCCAGACGTGGTCTTACACTAAATCAAATATCGATGCCATG
Found at i:76937736 original size:17 final size:16
Alignment explanation
Indices: 76937714--76937745 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
76937704 TAATAAGCCA
76937714 TAACAAATAGACACACT
1 TAACAAATAGA-ACACT
76937731 TAACAAATAGAACAC
1 TAACAAATAGAACAC
76937746 ATCTTTTGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.56, C:0.22, G:0.06, T:0.16
Consensus pattern (16 bp):
TAACAAATAGAACACT
Found at i:76940673 original size:25 final size:25
Alignment explanation
Indices: 76940582--76940673 Score: 80
Period size: 25 Copynumber: 3.7 Consensus size: 25
76940572 TCCTCTACAT
* * *
76940582 GTATGCTCA-TACGAGCTGTGAATCA
1 GTATGCTCACT-CGAGCTATAAATCG
* * *
76940607 GTATGCTCACTAGAGCCATAGATCG
1 GTATGCTCACTCGAGCTATAAATCG
* *
76940632 GTATGCTC-TTACGAGCTATAAATTG
1 GTATGCTCACT-CGAGCTATAAATCG
76940657 GTATGCTCACTCGAGCT
1 GTATGCTCACTCGAGCT
76940674 GTGGGTTGAA
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
24 1 0.02
25 49 0.94
26 2 0.04
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (25 bp):
GTATGCTCACTCGAGCTATAAATCG
Found at i:76945234 original size:20 final size:21
Alignment explanation
Indices: 76945204--76945244 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
76945194 ACTAAAATGT
76945204 AAAATTATGAAATTTGATGAA
1 AAAATTATGAAATTTGATGAA
* *
76945225 AAAATT-TGAATTTTTATGAA
1 AAAATTATGAAATTTGATGAA
76945245 TACATGTGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.39
Consensus pattern (21 bp):
AAAATTATGAAATTTGATGAA
Found at i:76945828 original size:25 final size:25
Alignment explanation
Indices: 76945799--76945849 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
76945789 AAAAAGGATT
*
76945799 AGCCTGGACTAGTAATCCTAATTAA
1 AGCCTGGACTAGTAATCCCAATTAA
76945824 AGCCTGGACTAGTAATCCCAATTAA
1 AGCCTGGACTAGTAATCCCAATTAA
76945849 A
1 A
76945850 CTCTTTTGAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.25
Consensus pattern (25 bp):
AGCCTGGACTAGTAATCCCAATTAA
Found at i:76947086 original size:21 final size:22
Alignment explanation
Indices: 76947062--76947108 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
76947052 TAGCATAAGT
76947062 GTGTCCC-AGGACCATACAGGC
1 GTGTCCCTAGGACCATACAGGC
*
76947083 GTGTCCCTTGGACCATACAGGC
1 GTGTCCCTAGGACCATACAGGC
76947105 GTGT
1 GTGT
76947109 GAGCCCTGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.19, C:0.30, G:0.30, T:0.21
Consensus pattern (22 bp):
GTGTCCCTAGGACCATACAGGC
Found at i:76951040 original size:50 final size:48
Alignment explanation
Indices: 76950928--76951148 Score: 188
Period size: 46 Copynumber: 4.6 Consensus size: 48
76950918 GACGAGAGCT
** * * **
76950928 AGTGTAAGACCATGTCTGGGACATGGCATTGGCTATGAGATGT---GTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCCGC-ACGATATGTAAAGCC
* *
76950974 AGTGTAAGACCTTGTCTAGGACATGGCATCCGCACGGATATGTAAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCCGCAC-GATATGTAA-AGCC
* * * *
76951024 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAT-TGCAATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCCG-CACGATATGTAA-AGCC
* *
76951073 AGTGTAAGACCATGTCTGGGACATTGCAT-CG-AC-TTGATGTATAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCCGCACGAT-ATGTA-AAGCC
76951120 AGTGTAAGACCATGTCTTGGG-CATGGCAT
1 AGTGTAAGACCATGTC-TGGGACATGGCAT
76951149 TAGCATCCTA
Statistics
Matches: 143, Mismatches: 22, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
45 2 0.01
46 36 0.25
47 29 0.20
48 6 0.04
49 35 0.24
50 33 0.23
51 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCCGCACGATATGTAAAGCC
Found at i:76951088 original size:49 final size:47
Alignment explanation
Indices: 76950928--76951148 Score: 191
Period size: 49 Copynumber: 4.6 Consensus size: 47
76950918 GACGAGAGCT
* ** **
76950928 AGTGTAAGACCATGTCTGGGACATGGCATTGG-CT-ATGAGATGTGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTGATGA-ATAAGCC
* * * * *
76950974 AGTGTAAGACCTTGTCTAGGACATGGCATCCGCACGGATATGTAA-GAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTG--ATG-AATAAGCC
*
76951024 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATTGCAAT-AGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-GA-TG-AATAAGCC
* * * *
76951073 AGTGTAAGACCATGTCTGGGACATTGCATCGACTTGATGTATAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTGATGAATAAGCC
76951120 AGTGTAAGACCATGTCTTGGG-CATGGCAT
1 AGTGTAAGACCATGTC-TGGGACATGGCAT
76951149 TAGCATCCTA
Statistics
Matches: 144, Mismatches: 20, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
46 30 0.21
47 28 0.19
48 8 0.06
49 40 0.28
50 33 0.23
51 4 0.03
52 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTGATGAATAAGCC
Found at i:76951113 original size:96 final size:96
Alignment explanation
Indices: 76950922--76951148 Score: 254
Period size: 96 Copynumber: 2.4 Consensus size: 96
76950912 CATTGAGACG
* * * * *
76950922 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCTATGAGATGTGTTAGTGTAAGACCTT
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTATGAGATGAGTCAGTGTAAGACCAT
76950987 GTCTAGGACATGGCATCCGCACGGATATGTA-
66 GTCTAGGACATGGCATCCGCACGGA-ATGTAT
76951018 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATTGCA-AT-AGTCAGTGTAAG
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CT--A-TG-AGATGAGTCAGTGTAAG
* * *
76951081 ACCATGTCTGGGACATTGCAT-CG-ACTTG-ATGTAT
61 ACCATGTCTAGGACATGGCATCCGCAC-GGAATGTAT
76951115 A-AGCCAGTGTAAGACCATGTCTTGGG-CATGGCAT
1 AGAGCCAGTGTAAGACCATGTC-TGGGACATGGCAT
76951149 TAGCATCCTA
Statistics
Matches: 115, Mismatches: 8, Indels: 16
0.83 0.06 0.12
Matches are distributed among these distances:
96 69 0.60
97 9 0.08
98 3 0.03
99 29 0.25
100 4 0.03
101 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (96 bp):
AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTATGAGATGAGTCAGTGTAAGACCAT
GTCTAGGACATGGCATCCGCACGGAATGTAT
Found at i:76957409 original size:39 final size:40
Alignment explanation
Indices: 76957275--76957413 Score: 140
Period size: 40 Copynumber: 3.5 Consensus size: 40
76957265 GGATATAACG
* * * *
76957275 ACTCGCTCAAATGCCTTCGGGAC-GAAGCCCGG-TTATAGTG
1 ACTCGCACGAATGCCTTCGGGACTTAA-CCCGGATT-TAGTA
* *
76957315 ACTCGCACGAATGCCTTCGGGACTTAACCTGGGTTTAGTA
1 ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTA
* * * *
76957355 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTA
*
76957394 ACTCGCACGACTGCCTTCGG
1 ACTCGCACGAATGCCTTCGG
76957414 ATCCTAGTCC
Statistics
Matches: 83, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
39 31 0.37
40 48 0.58
41 4 0.05
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (40 bp):
ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTA
Found at i:76965310 original size:20 final size:21
Alignment explanation
Indices: 76965244--76965312 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
76965234 TCACTTCGTT
76965244 TCTTTTTGTCCAAGTTACTTC
1 TCTTTTTGTCCAAGTTACTTC
*
76965265 TCTTTTTGTCCAAGTTGCTTC
1 TCTTTTTGTCCAAGTTACTTC
* * *
76965286 TCTTTTTGTCTAACTCACTTC
1 TCTTTTTGTCCAAGTTACTTC
76965307 -CTTTTT
1 TCTTTTT
76965313 TCTTTGTGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.14
21 37 0.86
ACGTcount: A:0.12, C:0.25, G:0.09, T:0.55
Consensus pattern (21 bp):
TCTTTTTGTCCAAGTTACTTC
Found at i:76967709 original size:18 final size:18
Alignment explanation
Indices: 76967676--76967751 Score: 104
Period size: 18 Copynumber: 4.4 Consensus size: 18
76967666 AAGTTTTTCT
76967676 TATTGATGATA-T--CGA
1 TATTGATGATAGTGACGA
76967691 TATTGATGATAGTGACGA
1 TATTGATGATAGTGACGA
* *
76967709 TATTGATGCTAGTGACGC
1 TATTGATGATAGTGACGA
*
76967727 TATTGATGATAGTGACGC
1 TATTGATGATAGTGACGA
76967745 TATTGAT
1 TATTGAT
76967752 CGTGACCTTG
Statistics
Matches: 55, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.20
16 1 0.02
18 43 0.78
ACGTcount: A:0.29, C:0.09, G:0.25, T:0.37
Consensus pattern (18 bp):
TATTGATGATAGTGACGA
Found at i:76976087 original size:24 final size:25
Alignment explanation
Indices: 76976045--76976097 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
76976035 TTTTCTTTCT
76976045 ATATTATTAATATTATTT-ATTTAA
1 ATATTATTAATATTATTTAATTTAA
*
76976069 ATATTATTAATA-TATTTTAATTTAT
1 ATATTATTAATATTA-TTTAATTTAA
76976094 ATAT
1 ATAT
76976098 ATTTAAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 2 0.08
24 15 0.58
25 9 0.35
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (25 bp):
ATATTATTAATATTATTTAATTTAA
Found at i:76976100 original size:24 final size:23
Alignment explanation
Indices: 76976044--76976113 Score: 65
Period size: 24 Copynumber: 3.0 Consensus size: 23
76976034 ATTTTCTTTC
76976044 TATAT-TATTAATATTATTTATT
1 TATATATATTAATATTATTTATT
*
76976066 TAAATATTATTAATA-TATTTTAATT
1 TATATA-TATTAATATTA-TTT-ATT
*
76976091 TATATATATTTAA-ATTATATATT
1 TATATATA-TTAATATTATTTATT
76976114 GAAATGATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
22 4 0.10
23 5 0.13
24 16 0.41
25 14 0.36
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
TATATATATTAATATTATTTATT
Found at i:76976108 original size:15 final size:14
Alignment explanation
Indices: 76976078--76976113 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
76976068 AATATTATTA
*
76976078 ATATATTTTAATTT
1 ATATATTTTAAATT
76976092 ATATATATTTAAATT
1 ATATAT-TTTAAATT
76976107 ATATATT
1 ATATATT
76976114 GAAATGATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
ATATATTTTAAATT
Found at i:76976325 original size:21 final size:21
Alignment explanation
Indices: 76976285--76976323 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
76976275 AAATCATGGA
76976285 TAAATCCAAGCGACTCTTTCT
1 TAAATCCAAGCGACTCTTTCT
76976306 TAAATCCAAGCGA-TCTTT
1 TAAATCCAAGCGACTCTTT
76976324 TCGTAGGCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (21 bp):
TAAATCCAAGCGACTCTTTCT
Found at i:76994231 original size:43 final size:43
Alignment explanation
Indices: 76994184--76994296 Score: 122
Period size: 42 Copynumber: 2.7 Consensus size: 43
76994174 CCTCGATTGA
**
76994184 GATTTACGTATAAGACCATGTCTGGGACATCGGCATC-ATATCT
1 GATTTACGTATAAGACCATGTCTGGGACAGAGGCATCTATAT-T
* * *
76994227 GATTT-CGTATAAGACCCTGTCCGGGATAGAGGCATCTATATT
1 GATTTACGTATAAGACCATGTCTGGGACAGAGGCATCTATATT
* * * *
76994269 GAATTACATGTAAGACCATGGCTGGGAC
1 GATTTACGTATAAGACCATGTCTGGGAC
76994297 GTTGGTGTTG
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
42 31 0.55
43 25 0.45
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.28
Consensus pattern (43 bp):
GATTTACGTATAAGACCATGTCTGGGACAGAGGCATCTATATT
Found at i:76997703 original size:28 final size:28
Alignment explanation
Indices: 76997663--76997718 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
76997653 GGGGTGCTCT
76997663 GGTTTTATTTGTGAAAAAGAAAGATGGC
1 GGTTTTATTTGTGAAAAAGAAAGATGGC
76997691 GGTTTTATTTGTGAAAAAGAAAGATGGC
1 GGTTTTATTTGTGAAAAAGAAAGATGGC
76997719 ACAATAAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.04, G:0.29, T:0.32
Consensus pattern (28 bp):
GGTTTTATTTGTGAAAAAGAAAGATGGC
Found at i:77000056 original size:27 final size:28
Alignment explanation
Indices: 76999999--77000068 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
76999989 AAACTTGTAC
*
76999999 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
77000027 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
77000054 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
77000069 GACACACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:77005425 original size:39 final size:40
Alignment explanation
Indices: 77005382--77005587 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 40
77005372 CGGAATACAA
*
77005382 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAG-
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* * * *
77005421 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* *
77005461 CCGGATTTAACAACTTGCACGAATG-CTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* ** * *
77005500 CCGGATGTAGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACGAAT-GCCTTCGGGTCTTAGC
** * ** * *
77005540 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
77005580 CCGGATAT
1 CCGGATAT
77005588 CATTCAATTG
Statistics
Matches: 140, Mismatches: 23, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
38 3 0.02
39 63 0.45
40 71 0.51
41 3 0.02
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:77005504 original size:79 final size:80
Alignment explanation
Indices: 77005382--77005586 Score: 222
Period size: 79 Copynumber: 2.6 Consensus size: 80
77005372 CGGAATACAA
* * *
77005382 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAG-CCGGATAGAA-CGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAAGC-ACTAGCAC-AAT
*
77005445 -GCCTTCGGGTATTAGC
64 GGCCTTCGGGTATTAAC
* *
77005461 CCGGATTTAACAACTTGCACGAATG-CTTCGGGTCTTAGCCCGGAT-GTAGTCACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAAG-CACTAGCACAATG
*
77005524 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
77005540 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
77005587 TCATTCAATT
Statistics
Matches: 106, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
78 18 0.17
79 68 0.64
80 20 0.19
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAAGCACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:77013418 original size:40 final size:39
Alignment explanation
Indices: 77013373--77013573 Score: 173
Period size: 40 Copynumber: 5.2 Consensus size: 39
77013363 CGGAATACAA
*
77013373 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *
77013413 CCGGATAGAACGACTTGCACAAATGCCTTC-GG-----GC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
77013447 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** *
77013487 CCGGATGTAGTCACTAGCAC-AATGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
77013526 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
77013566 CCGGATAT
1 CCGGATAT
77013574 CATTCAATTG
Statistics
Matches: 133, Mismatches: 20, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
34 28 0.21
35 2 0.02
39 37 0.28
40 66 0.50
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:77013463 original size:34 final size:34
Alignment explanation
Indices: 77013411--77013479 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 34
77013401 TCGGGTCTTA
*
77013411 GCCCGGATAGAACGACTTGCACAAATGCCTTCGG
1 GCCCGGATAGAACAACTTGCACAAATGCCTTCGG
** *
77013445 GCCCGGATTTAACAACTTGCACGAATGCCTTCGG
1 GCCCGGATAGAACAACTTGCACAAATGCCTTCGG
77013479 G
1 G
77013480 TCTTAGCCCG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.25, C:0.29, G:0.26, T:0.20
Consensus pattern (34 bp):
GCCCGGATAGAACAACTTGCACAAATGCCTTCGG
Found at i:77013507 original size:74 final size:73
Alignment explanation
Indices: 77013373--77013518 Score: 206
Period size: 74 Copynumber: 2.0 Consensus size: 73
77013363 CGGAATACAA
* *
77013373 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATG
1 CCGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
77013438 CCTTCGGGC
65 CCTTCGGGC
* * *
77013447 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GTCACTAGCACAAT
1 CCGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACG--ACTAGCACAAT
77013510 GCCTTCGGG
64 GCCTTCGGG
77013519 TCTTAACCCG
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
72 1 0.02
73 14 0.22
74 50 0.77
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.23
Consensus pattern (73 bp):
CCGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGC
CTTCGGGC
Found at i:77021408 original size:40 final size:39
Alignment explanation
Indices: 77021363--77021569 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
77021353 CGGAATACAA
*
77021363 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
77021403 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
77021443 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** *
77021483 CCGGATGTAGTCACTAGCAC-AATGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
77021522 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
77021562 CCGGATAT
1 CCGGATAT
77021570 CATTCAATTG
Statistics
Matches: 143, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
39 35 0.24
40 108 0.76
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:77021503 original size:80 final size:80
Alignment explanation
Indices: 77021363--77021567 Score: 245
Period size: 79 Copynumber: 2.6 Consensus size: 80
77021353 CGGAATACAA
* * *
77021363 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCAC-AAT
*
77021427 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* *
77021443 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAT
*
77021506 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
77021522 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
77021568 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
79 55 0.51
80 49 0.45
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAATG
CCTTCGGGTATTAAC
Found at i:77029430 original size:40 final size:39
Alignment explanation
Indices: 77029385--77029592 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 39
77029375 CGGAATACAA
*
77029385 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
77029425 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
77029465 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** *
77029505 CCGGATGTAGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
77029545 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
77029585 CCGGATAT
1 CCGGATAT
77029593 CATTCAATTG
Statistics
Matches: 143, Mismatches: 22, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
39 4 0.03
40 136 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:77029525 original size:80 final size:81
Alignment explanation
Indices: 77029385--77029590 Score: 240
Period size: 80 Copynumber: 2.6 Consensus size: 81
77029375 CGGAATACAA
* * *
77029385 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCAC-AAT
*
77029449 -GCCTTCGGGTATTAGC
65 GGCCTTCGGGTATTAAC
* *
77029465 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAT
*
77029528 GGCCTTCGGGTCTTAAC
65 GGCCTTCGGGTATTAAC
** * ** * *
77029545 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
77029591 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
79 3 0.03
80 101 0.94
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAATG
GCCTTCGGGTATTAAC
Found at i:77035216 original size:27 final size:28
Alignment explanation
Indices: 77035159--77035228 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
77035149 AAAATTGTAC
*
77035159 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
77035187 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
77035214 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
77035229 GACACACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:77039213 original size:49 final size:49
Alignment explanation
Indices: 77039144--77039314 Score: 193
Period size: 49 Copynumber: 3.4 Consensus size: 49
77039134 GTCACGTGTA
*
77039144 TAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATTGGTTGCATGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTTGCATGTG
* * * * * *
77039193 TAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGAT-CACGTGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTG-GTTGCA--TGTG
* * * *
77039244 TAGTACTAAGTGCAGGCTACAACGTGTA-CGAGATTATTTGTCGCATGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTACCG-GATAATTGGTTGCATGTG
77039293 TAGTACTAAGTGCAGGCTACTA
1 TAGTACTAAGTGCAGGCTACTA
77039315 TGCGTACCAG
Statistics
Matches: 99, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
49 60 0.61
50 4 0.04
51 35 0.35
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (49 bp):
TAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTTGCATGTG
Found at i:77039253 original size:51 final size:49
Alignment explanation
Indices: 77039134--77039327 Score: 192
Period size: 49 Copynumber: 3.9 Consensus size: 49
77039124 CTATTGTGAG
* * * *
77039134 GTCACGTGTATAGTACTAAGTGTAGGCTACTACGTGTACCGGATAAT-T
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATGT
** * * * *
77039182 GGTTGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 -GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-TGT
* * * * *
77039233 GATCACGTGTGTAGTACTAAGTGCAGGCTACAACGTGTACGAGATTATTT
1 G-TCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATGT
* * *
77039283 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
77039328 GCTTCGGCTA
Statistics
Matches: 115, Mismatches: 27, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
49 74 0.64
50 5 0.04
51 36 0.31
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (49 bp):
GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATGT
Found at i:77039308 original size:100 final size:100
Alignment explanation
Indices: 77039135--77039322 Score: 306
Period size: 100 Copynumber: 1.9 Consensus size: 100
77039125 TATTGTGAGG
* * *
77039135 TCACGTGTATAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATTGGTTGCATGTGTAGTACT
1 TCACGTGTATAGTACTAAGTGCAGGCTACAACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
77039200 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
66 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
* * *
77039235 TCACGTGTGTAGTACTAAGTGCAGGCTACAACGTGTA-CGAGATTATTTGTCGCATGTGTAGTAC
1 TCACGTGTATAGTACTAAGTGCAGGCTACAACGTGTACCG-GATAATTGGTCGCATGTGTAGTAC
77039299 TAAGTGCAGGCTACTATGCGTACC
65 TAAGTGCAGGCTACTATGCGTACC
77039323 AGATAGCTTC
Statistics
Matches: 81, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
99 2 0.02
100 79 0.98
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (100 bp):
TCACGTGTATAGTACTAAGTGCAGGCTACAACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
Found at i:77049984 original size:43 final size:43
Alignment explanation
Indices: 77049937--77050039 Score: 104
Period size: 42 Copynumber: 2.4 Consensus size: 43
77049927 CCTCGACTAA
*
77049937 GATTTACATATAAGACCATGTCCGGGACATCA-GCATCG-TATCT
1 GATTTACATATAAGACCATGTCCGAGACA-CAGGCATCGATAT-T
* * * *
77049980 GATTT-CGTATAAGACCCTTTCCGAGACAGAGGCATCGATATT
1 GATTTACATATAAGACCATGTCCGAGACACAGGCATCGATATT
* *
77050022 GAATTACATGTAAGACCA
1 GATTTACATATAAGACCA
77050040 CGTCTGGAAC
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
41 1 0.02
42 30 0.62
43 17 0.35
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.27
Consensus pattern (43 bp):
GATTTACATATAAGACCATGTCCGAGACACAGGCATCGATATT
Found at i:77055060 original size:46 final size:48
Alignment explanation
Indices: 77054990--77055209 Score: 177
Period size: 46 Copynumber: 4.6 Consensus size: 48
77054980 GGTTATTTGT
* * *
77054990 GAGCCAATGTAACACCATGTCTGGGACATGCATTGGCCTCGAGATGTA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGATGTA
* *
77055038 -AGCCAGTGTAAGA-CATGTCTGGGACATGCATCAG-CTAAGAGATGT-
1 GAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCT-CGAGATGTA
* * * *
77055083 --GTCAGTGTAAGACCATGCCTGGGACATGGCATCGGCAC-GGATATGTGA
1 GAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGC-CTCGAGATGT-A
* * * * **
77055131 GAGCTAGTGTAAAACCATGTCTGGGACATAGCTTTGGCCTCGATTTCG-A
1 GAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGAGAT-GTA
* *
77055180 TAGTCAGTGTAAGACCATGTCTGGGACATG
1 GAGCCAGTGTAAGACCATGTCTGGGACATG
77055210 GAATCGACTT
Statistics
Matches: 138, Mismatches: 23, Indels: 22
0.75 0.13 0.12
Matches are distributed among these distances:
44 11 0.08
45 15 0.11
46 38 0.28
47 11 0.08
48 2 0.01
49 27 0.20
50 33 0.24
51 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGATGTA
Found at i:77062134 original size:47 final size:48
Alignment explanation
Indices: 77061968--77062323 Score: 271
Period size: 47 Copynumber: 7.5 Consensus size: 48
77061958 TGTGTTAGTC
* * ** *
77061968 TAAGA-CATGTCTGGAACAT-GCATCGGCCAC-ATTATGACAGCCAGTA
1 TAAGACCATGTCTGGGACATGGCATCGGCCTCGA-TATGTGAGCCAGTG
* * * * ** *** *
77062014 TAAGACCATGTCTGGGACATAGTATCGGCATTGGGACCAGAGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGTGAGCCAGTG
** *
77062062 TAAGACCATGTCTAAGACATAGCATCGGCCTCGATATGTGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGTGAGCCAGTG
* * * *
77062110 TAAGA-CATGTCTGGGACATGGCATCGG-CTATGAGATGT--GTCAATG
1 TAAGACCATGTCTGGGACATGGCATCGGCCT-CGATATGTGAGCCAGTG
* * * * *
77062155 TAAGACCATGTCTGGGACATCGCATCCGCATGGATATGTAAGAGTCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGT--GAGCCAGTG
* * *
77062205 TAAGACCATGTCTGGGACATGGCATCGGCCTCAAT-TGCGATAGTCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGTG--AGCCAGTG
* * * * *
77062254 CAAGACCATGTCTGGGACATGGCATC-GACTTGATGTATGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGTGAGCCAGTG
*
77062301 TAAGACCATGTCTGGGCCATGGC
1 TAAGACCATGTCTGGGACATGGC
77062324 TGTGACAGCC
Statistics
Matches: 246, Mismatches: 51, Indels: 25
0.76 0.16 0.08
Matches are distributed among these distances:
45 10 0.04
46 33 0.13
47 68 0.28
48 62 0.25
49 37 0.15
50 36 0.15
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGTGAGCCAGTG
Found at i:77062290 original size:96 final size:95
Alignment explanation
Indices: 77062006--77062323 Score: 276
Period size: 96 Copynumber: 3.3 Consensus size: 95
77061996 ACATTATGAC
* * * * * * *
77062006 AGCCAGTATAAGACCATGTCTGGGACATAGTATCGGC-ATTGGGACCAGAG-CTAGTGTAAGACC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTA-TGAGA--TGAGTC-AATGCAAGACC
** * * * *
77062069 ATGTCTAAGACATAGCATCGGCCTCGATATGT--G
62 ATGTCTGGGACATCGCATCCGCATGGA-ATGTAAG
* *
77062102 AGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGCTATGAGATGTGTCAATGTAAGACCATGT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTATGAGATGAGTCAATGCAAGACCATGT
77062166 CTGGGACATCGCATCCGCATGGATATGTAAG
66 CTGGGACATCGCATCCGCATGGA-ATGTAAG
* * *
77062197 AGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATTGCGAT-AGTCAGTGCAAGACC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CT--A-TGAGATGAGTCAATGCAAGACC
* * *
77062261 ATGTCTGGGACATGGCAT-CG-ACTTG-ATGTATG
62 ATGTCTGGGACATCGCATCCGCA-TGGAATGTAAG
*
77062293 AGCCAGTGTAAGACCATGTCTGGGCCATGGC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGC
77062324 TGTGACAGCC
Statistics
Matches: 189, Mismatches: 23, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
93 38 0.20
94 1 0.01
95 38 0.20
96 70 0.37
97 3 0.02
98 4 0.02
99 30 0.16
100 5 0.03
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.24
Consensus pattern (95 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTATGAGATGAGTCAATGCAAGACCATGT
CTGGGACATCGCATCCGCATGGAATGTAAG
Found at i:77064812 original size:47 final size:47
Alignment explanation
Indices: 77064783--77065183 Score: 597
Period size: 47 Copynumber: 8.6 Consensus size: 47
77064773 ATATATGAGC
* *
77064783 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGC
1 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATATGTGTGA
*
77064830 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGA
1 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATATGTGTGA
* * * *
77064877 TAAGACCGAATGGCCAATGTGATGAATGTGAACATGTATATATGTGA
1 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATATGTGTGA
* * * *
77064924 TAAGGCCAAATGGAAAATGTGATGAATGTGAACATGCATTTGTGTGC
1 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATATGTGTGA
* * *
77064971 TAAGGCC-AATGGAAAATGTGATGAATGTGAACATGCATTTGTGTGC
1 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATATGTGTGA
* *
77065017 TAAGGCTGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGA
1 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATATGTGTGA
* * * *
77065064 TAAGACCGAATGGCCAATGTGATGAATGTGAACATGTATATATGTGA
1 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATATGTGTGA
*
77065111 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
1 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATATGTGTGA
*
77065158 TAAGGCCGAATGGCCAATGTGATGAA
1 TAAGGCCGAATGGCAAATGTGATGAA
77065184 CGTGGAAGTG
Statistics
Matches: 327, Mismatches: 26, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
46 45 0.14
47 282 0.86
ACGTcount: A:0.33, C:0.11, G:0.28, T:0.27
Consensus pattern (47 bp):
TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATATGTGTGA
Found at i:77064828 original size:25 final size:25
Alignment explanation
Indices: 77064800--77064877 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 25
77064790 GAATGGCAAA
77064800 TGTGATGAATGTGAACATGCATTTG
1 TGTGATGAATGTGAACATGCATTTG
* * * **
77064825 TGTGCT-AAGGCCG-A-ATGGCAAATG
1 TGTGATGAATG-TGAACAT-GCATTTG
77064849 T--GATGAATGTGAACATGCATTTG
1 TGTGATGAATGTGAACATGCATTTG
77064872 TGTGAT
1 TGTGAT
77064878 AAGACCGAAT
Statistics
Matches: 36, Mismatches: 10, Indels: 14
0.60 0.17 0.23
Matches are distributed among these distances:
22 3 0.08
23 12 0.33
24 12 0.33
25 9 0.25
ACGTcount: A:0.28, C:0.10, G:0.29, T:0.32
Consensus pattern (25 bp):
TGTGATGAATGTGAACATGCATTTG
Found at i:77065062 original size:25 final size:25
Alignment explanation
Indices: 77064987--77065064 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
77064977 CAATGGAAAA
77064987 TGTGATGAATGTGAACATGCATTTG
1 TGTGATGAATGTGAACATGCATTTG
* * **
77065012 TGTGCT-AAGGCTG-A-ATGGCA--AA
1 TGTGATGAATG-TGAACAT-GCATTTG
77065034 TGTGATGAATGTGAACATGCATTTG
1 TGTGATGAATGTGAACATGCATTTG
77065059 TGTGAT
1 TGTGAT
77065065 AAGACCGAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 14
0.63 0.13 0.23
Matches are distributed among these distances:
22 7 0.18
23 9 0.24
24 9 0.24
25 13 0.34
ACGTcount: A:0.28, C:0.09, G:0.29, T:0.33
Consensus pattern (25 bp):
TGTGATGAATGTGAACATGCATTTG
Found at i:77065068 original size:187 final size:188
Alignment explanation
Indices: 77064752--77065183 Score: 731
Period size: 187 Copynumber: 2.3 Consensus size: 188
77064742 TTAGGATTTT
* ** * * *
77064752 ATGTGATGGATGTGAATGTGTATATATGAGCTAAGGCCGAATGGCAAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATGTGTGCTAAGGCCGAATGGCAAATGTGATGAATGTGAACA
77064817 TGCATTTGTGTGCTAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGATAAGA
66 TGCATTTGTGTGCTAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGATAAGA
77064882 CCGAATGGCCAATGTGATGAATGTGAACATGTATATATGTGATAAGGCCAAATGGAAA
131 CCGAATGGCCAATGTGATGAATGTGAACATGTATATATGTGATAAGGCCAAATGGAAA
* *
77064940 ATGTGATGAATGTGAACATGCATTTGTGTGCTAAGGCC-AATGGAAAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATGTGTGCTAAGGCCGAATGGCAAATGTGATGAATGTGAACA
*
77065004 TGCATTTGTGTGCTAAGGCTGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGATAAGA
66 TGCATTTGTGTGCTAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGATAAGA
* **
77065069 CCGAATGGCCAATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
131 CCGAATGGCCAATGTGATGAATGTGAACATGTATATATGTGATAAGGCCAAATGGAAA
* *
77065127 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAA
1 ATGTGATGAATGTGAACATGCATATGTGTGCTAAGGCCGAATGGCAAATGTGATGAA
77065184 CGTGGAAGTG
Statistics
Matches: 227, Mismatches: 16, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
187 180 0.79
188 47 0.21
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.28
Consensus pattern (188 bp):
ATGTGATGAATGTGAACATGCATATGTGTGCTAAGGCCGAATGGCAAATGTGATGAATGTGAACA
TGCATTTGTGTGCTAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGATAAGA
CCGAATGGCCAATGTGATGAATGTGAACATGTATATATGTGATAAGGCCAAATGGAAA
Found at i:77065133 original size:22 final size:22
Alignment explanation
Indices: 77065105--77065180 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
77065095 ACATGTATAT
77065105 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* *
77065127 ATGTGATGAATG-TGAACAT-G-CA
1 ATGTGAT-AAGGCCG-A-ATGGCCA
77065149 TATGTGTGATAAGGCCGAATGGCCA
1 -A--TGTGATAAGGCCGAATGGCCA
77065174 ATGTGAT
1 ATGTGAT
77065181 GAACGTGGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 16 0.39
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:77065213 original size:47 final size:47
Alignment explanation
Indices: 77064752--77065217 Score: 540
Period size: 47 Copynumber: 9.9 Consensus size: 47
77064742 TTAGGATTTT
* ** * * *
77064752 ATGTGATGGATGTGAATGTGTATATATGAGCTAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * * * *
77064799 ATGTGATGAATGTGAACATGCATTTGTGTGCTAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * * *
77064846 ATGTGATGAATGTGAACATGCATTTGTGTGATAAGACCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* **
77064893 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCAAATGGAAA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * * * **
77064940 ATGTGATGAATGTGAACATGCATTTGTGTGCTAAGGCC-AATGGAAA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * * * * *
77064986 ATGTGATGAATGTGAACATGCATTTGTGTGCTAAGGCTGAATGGCAA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * * *
77065033 ATGTGATGAATGTGAACATGCATTTGTGTGATAAGACCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
77065080 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* *
77065127 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * ** *
77065174 ATGTGATGAACGTGGAA-GTGTATATATGTGGGAAAGCCGAATGG
1 ATGTGATGAATGT-GAACATGTATATATGTGATAAGGCCGAATGG
77065218 TTAATGCGAA
Statistics
Matches: 377, Mismatches: 40, Indels: 4
0.90 0.10 0.01
Matches are distributed among these distances:
46 45 0.12
47 329 0.87
48 3 0.01
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
Found at i:77065256 original size:46 final size:45
Alignment explanation
Indices: 77065197--77065286 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 45
77065187 GGAAGTGTAT
* *
77065197 ATATGTGGGAAAGCCGAATGGTTAATGCGA-AATGTGTATGAGATGG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAGAA--TGTATGAGATGG
* *
77065243 ATATGTGGTAAAGCCAAATGGCTAATGTGAGAATGTATGAGATG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAGAATGTATGAGATG
77065287 TGTATATATA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
45 11 0.28
46 26 0.67
47 2 0.05
ACGTcount: A:0.34, C:0.07, G:0.32, T:0.27
Consensus pattern (45 bp):
ATATGTGGGAAAGCCAAATGGCTAATGCGAGAATGTATGAGATGG
Found at i:77065272 original size:187 final size:186
Alignment explanation
Indices: 77064783--77065278 Score: 572
Period size: 187 Copynumber: 2.7 Consensus size: 186
77064773 ATATATGAGC
* * * * * *
77064783 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGCTAAGGCCGAATGGCAAAT
1 TAAGGCC-AATGGAAAATGTGATGAACGTGAACATGCATATATGTGCGAAAGCCGAATGGCAAAT
* * *
77064848 GTGATGAATGTGAACATGCATTTGTGTGATAAGACCGAATGGCCAATGTGATGAATGTGAACATG
65 GCGA-GAATGTGAACATGCATATGTGTGATAAGACCAAATGGCCAATGTGATGAATGTGAACATG
* *
77064913 TATATATGTGATAAGGCCAAATGGAAAATGTGATGAATGTGAACATGCATTTGTGTGC
129 TATATATGTGATAAGGCCAAATGGAAAATGTGATGAATGTGAACATGCATATGTGTGA
* * * * * *
77064971 TAAGGCCAATGGAAAATGTGATGAATGTGAACATGCATTTGTGTGCTAAGGCTGAATGGCAAATG
1 TAAGGCCAATGGAAAATGTGATGAACGTGAACATGCATATATGTGCGAAAGCCGAATGGCAAATG
* * *
77065036 TGATGAATGTGAACATGCATTTGTGTGATAAGACCGAATGGCCAATGTGATGAATGTGAACATGT
66 CGA-GAATGTGAACATGCATATGTGTGATAAGACCAAATGGCCAATGTGATGAATGTGAACATGT
* **
77065101 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
130 ATATATGTGATAAGGCCAAATGGAAAATGTGATGAATGTGAACATGCATATGTGTGA
** * * * **
77065158 TAAGGCCGAATGGCCAATGTGATGAACGTGGAA-GTGTATATATGTGGGAAAGCCGAATGGTTAA
1 TAAGGCC-AATGGAAAATGTGATGAACGT-GAACATGCATATATGTGCGAAAGCCGAATGGCAAA
* * *
77065222 TGCGA-AATGTGTATGAGATGGATATGTG-G-TAA-AGCCAAATGGCTAATGTGA-GAATGT
64 TGCGAGAATGTG-A--ACATGCATATGTGTGATAAGA-CCAAATGGCCAATGTGATGAATGT
77065279 ATGAGATGTG
Statistics
Matches: 276, Mismatches: 26, Indels: 14
0.87 0.08 0.04
Matches are distributed among these distances:
186 13 0.05
187 199 0.72
188 51 0.18
189 13 0.05
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.27
Consensus pattern (186 bp):
TAAGGCCAATGGAAAATGTGATGAACGTGAACATGCATATATGTGCGAAAGCCGAATGGCAAATG
CGAGAATGTGAACATGCATATGTGTGATAAGACCAAATGGCCAATGTGATGAATGTGAACATGTA
TATATGTGATAAGGCCAAATGGAAAATGTGATGAATGTGAACATGCATATGTGTGA
Found at i:77066825 original size:40 final size:40
Alignment explanation
Indices: 77066725--77067000 Score: 459
Period size: 40 Copynumber: 7.0 Consensus size: 40
77066715 AAGTTCAGTA
* *
77066725 TGATATATCCAGGCTAAGTCCAGAAGAGCATTCGTGCTAG
1 TGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
77066765 TGATA-ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
1 TGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
77066804 TGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
1 TGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
77066844 TGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
1 TGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
*
77066884 TGATATATCAGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
1 TGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
* * *
77066924 TGATGTATCCGGGCTAAGTCCCGAAAAGCATTCGTGCTCG
1 TGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
*
77066964 TGATATATCCGGGCTAA-ACCTCGAAG-GCATTCGTGCT
1 TGATATATCCGGGCTAAGTCC-CGAAGAGCATTCGTGCT
77067001 GGAATCATGA
Statistics
Matches: 224, Mismatches: 10, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
39 50 0.22
40 174 0.78
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
Found at i:77067075 original size:29 final size:28
Alignment explanation
Indices: 77067040--77067168 Score: 118
Period size: 29 Copynumber: 4.5 Consensus size: 28
77067030 CTTCAACCGA
* *
77067040 GCACTATGTGTGCCAGATCAGTAGTTGAG
1 GCACTATGTGTGCGAGATC-GTAATTGAG
* * *
77067069 GCACTATGTGTGCGAGTTCTTCAATCGA-
1 GCACTATGTGTGCGAGATCGT-AATTGAG
*
77067097 GCACTATGTGTGCGAGATTGGTAATTGAG
1 GCACTATGTGTGCGAGA-TCGTAATTGAG
* * *
77067126 GCACTATGTGTGCGAGTTCTTTAATCGA-
1 GCACTATGTGTGCGAGATC-GTAATTGAG
*
77067154 GTACTATGTGTGCGA
1 GCACTATGTGTGCGA
77067169 AATCAGTTAG
Statistics
Matches: 82, Mismatches: 14, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
28 37 0.45
29 45 0.55
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTATGTGTGCGAGATCGTAATTGAG
Found at i:77067098 original size:57 final size:57
Alignment explanation
Indices: 77067008--77067175 Score: 246
Period size: 57 Copynumber: 2.9 Consensus size: 57
77066998 GCTGGAATCA
* * * * *
77067008 TGAGGCACTGTGTGTGCAAGTTCTTCAACCGAGCACTATGTGTGCCAGATCAGTAGT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGTAAT
**
77067065 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATTGGTAAT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGTAAT
* * *
77067122 TGAGGCACTATGTGTGCGAGTTCTTTAATCGAGTACTATGTGTGCGAAATCAGT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGT
77067176 TAGTGGGCAC
Statistics
Matches: 99, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 99 1.00
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (57 bp):
TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGTAAT
Found at i:77067109 original size:28 final size:27
Alignment explanation
Indices: 77067012--77067168 Score: 143
Period size: 28 Copynumber: 5.6 Consensus size: 27
77067002 GAATCATGAG
* * *
77067012 GCACTGTGTGTGCAAGTTCTTCAACCGA
1 GCACTATGTGTGCGAGTTCTT-AATCGA
* * * * *
77067040 GCACTATGTGTGCCAGATCAGTAGTTGA
1 GCACTATGTGTGCGAGTTC-TTAATCGA
77067068 GGCACTATGTGTGCGAGTTCTTCAATCGA
1 -GCACTATGTGTGCGAGTTCTT-AATCGA
** *
77067097 GCACTATGTGTGCGAGATTGGTAATTGA
1 GCACTATGTGTGCGAG-TTCTTAATCGA
77067125 GGCACTATGTGTGCGAGTTCTTTAATCGA
1 -GCACTATGTGTGCGAGTTC-TTAATCGA
*
77067154 GTACTATGTGTGCGA
1 GCACTATGTGTGCGA
77067169 AATCAGTTAG
Statistics
Matches: 104, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
28 57 0.55
29 47 0.45
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (27 bp):
GCACTATGTGTGCGAGTTCTTAATCGA
Found at i:77067905 original size:2 final size:2
Alignment explanation
Indices: 77067893--77067923 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
77067883 AAGTTACATG
*
77067893 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
77067924 TTTTTCATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:77068336 original size:14 final size:14
Alignment explanation
Indices: 77068317--77068343 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
77068307 GAGAGAGTTA
77068317 CCGGTAAGATTTTG
1 CCGGTAAGATTTTG
77068331 CCGGTAAGATTTT
1 CCGGTAAGATTTT
77068344 CGGGGACGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.15, G:0.26, T:0.37
Consensus pattern (14 bp):
CCGGTAAGATTTTG
Found at i:77073907 original size:23 final size:22
Alignment explanation
Indices: 77073881--77073948 Score: 57
Period size: 23 Copynumber: 3.0 Consensus size: 22
77073871 ATGTGGCATT
77073881 TTCTGTTATGCCTTTGTGGTGTA
1 TTCTGTTA-GCCTTTGTGGTGTA
* * **
77073904 TTCT-ATAGTCTTTGTGGCATA
1 TTCTGTTAGCCTTTGTGGTGTA
* *
77073925 TTATGTGAAGCCTTTGTGGTGTA
1 TTCTGT-TAGCCTTTGTGGTGTA
77073948 T
1 T
77073949 CCCATAACGC
Statistics
Matches: 33, Mismatches: 10, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
21 14 0.42
22 2 0.06
23 17 0.52
ACGTcount: A:0.15, C:0.12, G:0.25, T:0.49
Consensus pattern (22 bp):
TTCTGTTAGCCTTTGTGGTGTA
Found at i:77075900 original size:15 final size:15
Alignment explanation
Indices: 77075880--77075932 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
77075870 AAAATAAAAT
*
77075880 AAATTATTATATTTA
1 AAATTATAATATTTA
*
77075895 AAATTAAAATATTTA
1 AAATTATAATATTTA
* *
77075910 TAACTTATAAAATTTA
1 -AAATTATAATATTTA
77075926 AAATTAT
1 AAATTAT
77075933 TTGAATCCGT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
15 19 0.61
16 12 0.39
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
AAATTATAATATTTA
Found at i:77083300 original size:46 final size:46
Alignment explanation
Indices: 77083233--77083404 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
77083223 AACCTGCCCC
*
77083233 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
77083279 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * *
77083327 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
77083372 TAGGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
77083405 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 1 0.01
46 60 0.56
47 28 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:77083345 original size:93 final size:93
Alignment explanation
Indices: 77083238--77083408 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
77083228 GCCCCTAAGT
* *
77083238 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
77083303 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
77083331 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
77083396 CGAGTTCGGATGC
66 CGAGTTCGGATGC
77083409 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:77086304 original size:7 final size:7
Alignment explanation
Indices: 77086292--77086324 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
77086282 GTCGCTATAT
77086292 ATTTTGA
1 ATTTTGA
77086299 ATTTTGA
1 ATTTTGA
77086306 ATTTTGA
1 ATTTTGA
77086313 ATTTTGA
1 ATTTTGA
77086320 ATTTT
1 ATTTT
77086325 AATACAGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.61
Consensus pattern (7 bp):
ATTTTGA
Found at i:77091889 original size:43 final size:43
Alignment explanation
Indices: 77091807--77091890 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
77091797 TGTGATTCCA
* *
77091807 ATATGTGTTTACAAGTAAGACCCTGTCTGGGGCAGTGGCATCG
1 ATATGTGATTACAAGTAAGACCCTGTCTGGGACAGTGGCATCG
*
77091850 ATATGTGATTACATGTAAGACCAC-GTCTGGGAC-GTTGGCAT
1 ATATGTGATTACAAGTAAGACC-CTGTCTGGGACAG-TGGCAT
77091891 TGTATGATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 1 0.03
43 34 0.94
44 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.29
Consensus pattern (43 bp):
ATATGTGATTACAAGTAAGACCCTGTCTGGGACAGTGGCATCG
Found at i:77093198 original size:2 final size:2
Alignment explanation
Indices: 77093191--77093226 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
77093181 GTTGGGCATC
77093191 AT AT AT AT AT 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 AT AT
77093227 GCTTTACAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:77094497 original size:188 final size:188
Alignment explanation
Indices: 77094180--77094555 Score: 743
Period size: 188 Copynumber: 2.0 Consensus size: 188
77094170 CAGTGTATGT
77094180 CACACAAGGTAAGAGTGAAGAAAATAGGTATGTAGAGGGCACAAAAGAGTAAAAAGGGGGTTATT
1 CACACAAGGTAAGAGTGAAGAAAATAGGTATGTAGAGGGCACAAAAGAGTAAAAAGGGGGTTATT
77094245 GAGGGAATGTTGACCATGTAAACAAGGGAAGAATCTTCCCAAGCATGACAACCATGTGTTGGAAG
66 GAGGGAATGTTGACCATGTAAACAAGGGAAGAATCTTCCCAAGCATGACAACCATGTGTTGGAAG
*
77094310 ACAAGGGCATTTAACTCATGAAAAATTCACAAAAAAATTAATTATAAAAGTGGTGATA
131 ACAAGGGCATTTAAATCATGAAAAATTCACAAAAAAATTAATTATAAAAGTGGTGATA
77094368 CACACAAGGTAAGAGTGAAGAAAATAGGTATGTAGAGGGCACAAAAGAGTAAAAAGGGGGTTATT
1 CACACAAGGTAAGAGTGAAGAAAATAGGTATGTAGAGGGCACAAAAGAGTAAAAAGGGGGTTATT
77094433 GAGGGAATGTTGACCATGTAAACAAGGGAAGAATCTTCCCAAGCATGACAACCATGTGTTGGAAG
66 GAGGGAATGTTGACCATGTAAACAAGGGAAGAATCTTCCCAAGCATGACAACCATGTGTTGGAAG
77094498 ACAAGGGCATTTAAATCATGAAAAATTCACAAAAAAATTAATTATAAAAGTGGTGATA
131 ACAAGGGCATTTAAATCATGAAAAATTCACAAAAAAATTAATTATAAAAGTGGTGATA
77094556 AGGAGACTTG
Statistics
Matches: 187, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
188 187 1.00
ACGTcount: A:0.43, C:0.11, G:0.24, T:0.21
Consensus pattern (188 bp):
CACACAAGGTAAGAGTGAAGAAAATAGGTATGTAGAGGGCACAAAAGAGTAAAAAGGGGGTTATT
GAGGGAATGTTGACCATGTAAACAAGGGAAGAATCTTCCCAAGCATGACAACCATGTGTTGGAAG
ACAAGGGCATTTAAATCATGAAAAATTCACAAAAAAATTAATTATAAAAGTGGTGATA
Found at i:77097675 original size:21 final size:21
Alignment explanation
Indices: 77097632--77097729 Score: 83
Period size: 21 Copynumber: 4.7 Consensus size: 21
77097622 AATGGGCTGC
* * *
77097632 CCACATAGGCATGTGTTCACT
1 CCACATAGGCGTGTGTGCCCT
*
77097653 CCACATGGGCGTGTGTGCCCT
1 CCACATAGGCGTGTGTGCCCT
*
77097674 CC-CA-ACGGGCATGTGTGCCCT
1 CCACATA--GGCGTGTGTGCCCT
* *
77097695 CCACACAGGCGTGTGTGGCCT
1 CCACATAGGCGTGTGTGCCCT
* *
77097716 TCAAATAGGCGTGT
1 CCACATAGGCGTGT
77097730 AGACTGCCAC
Statistics
Matches: 62, Mismatches: 11, Indels: 8
0.77 0.14 0.10
Matches are distributed among these distances:
20 2 0.03
21 57 0.92
22 2 0.03
23 1 0.02
ACGTcount: A:0.17, C:0.31, G:0.29, T:0.23
Consensus pattern (21 bp):
CCACATAGGCGTGTGTGCCCT
Found at i:77101683 original size:44 final size:44
Alignment explanation
Indices: 77101621--77102299 Score: 210
Period size: 44 Copynumber: 15.1 Consensus size: 44
77101611 TGCTTAGGGG
77101621 GATAAGATCTACAATCTTCAGTCTGCTCCCTTGCTACCTCAGGAA
1 GATAAGA-CTACAATCTTCAGTCTGCTCCCTTGCTACCTCAGGAA
** * *
77101666 GATAAGACTACAATCTTCAACCTGCTCTCTTACTACCTCA--AA
1 GATAAGACTACAATCTTCAGTCTGCTCCCTTGCTACCTCAGGAA
* **** ** * * *
77101708 GATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAA
1 GATAAGACTACAATCTTCAGTCTGCTCCCTTGCTACCTCAGGAA
* * * * * * *
77101752 GATAAGATTCGCCATTTTCAATCT--ACCCTACTGCTATCTC--GAA
1 GATAAGACT-ACAATCTTCAGTCTGCTCCCT--TGCTACCTCAGGAA
* * *
77101795 GATATAAAATCTACAATCTTCAGTTTGGTCCCTTGCTACCTCAGGAA
1 G--ATAAGA-CTACAATCTTCAGTCTGCTCCCTTGCTACCTCAGGAA
* * *
77101842 GATAAGACTACAATCATCAGCCTGCTTCCTTGCTACCTCA-GAGA
1 GATAAGACTACAATCTTCAGTCTGCTCCCTTGCTACCTCAGGA-A
* ** * * *
77101886 GATAAGACT--GATGGCTAAAATCTGCTCCCCTGCTACCTCGGGAA
1 GATAAGACTACAAT--CTTCAGTCTGCTCCCTTGCTACCTCAGGAA
* * * * * * *
77101930 GATAAGATTTGTCATTTTTTA-TCTG-TCCCACTGCTATCTCGAGG-A
1 GATAAGA-CT-ACAATCTTCAGTCTGCTCCC-TTGCTACCTC-AGGAA
* * ** *
77101975 GACAAAATCTACAATCTTCAACCTGCTCCCTTGCTACCTCATGAA
1 GATAAGA-CTACAATCTTCAGTCTGCTCCCTTGCTACCTCAGGAA
** * ** **
77102020 GATAAGACTACAATCTTCCTCAAGAAGATAAGACTACAAT-CTTTCTCAGGAA
1 GATAAGACTACAATC-T--TC----AG-TCTG-CTCCCTTGCTACCTCAGGAA
* * * * **
77102072 GATAAGACTACAATC-TCTAGCCTTCTCCTTTACTACCTCAAAAA
1 GATAAGACTACAATCTTC-AGTCTGCTCCCTTGCTACCTCAGGAA
* * * * * * * * *
77102116 GATAAGGCT--AGTGGTTAAAATTTGCTCCCCTGCTACATCGGGAA
1 GATAAGACTACAAT-CTT-CAGTCTGCTCCCTTGCTACCTCAGGAA
* * * ** * *
77102160 GATAAGATTTGCCAT-TTTTGATCTGCTCCAC-TGCTATCTGGAGG-A
1 GATAAGA-CTACAATCTTCAG-TCTGCTCC-CTTGCTACCT-CAGGAA
* * * *
77102205 GACAAAATCTACAATCTTTAGTCTGCTCCCTCGCTACCTCAGGAA
1 GATAAGA-CTACAATCTTCAGTCTGCTCCCTTGCTACCTCAGGAA
*
77102250 GATAAGACTACAATCTTCAGCCTGCTCCCTTGCTACCTCA-GAGA
1 GATAAGACTACAATCTTCAGTCTGCTCCCTTGCTACCTCAGGA-A
77102294 GATAAG
1 GATAAG
77102300 GTTGGTGGCT
Statistics
Matches: 449, Mismatches: 137, Indels: 97
0.66 0.20 0.14
Matches are distributed among these distances:
42 34 0.08
43 15 0.03
44 201 0.45
45 139 0.31
46 16 0.04
47 11 0.02
48 3 0.01
51 1 0.00
52 25 0.06
53 4 0.01
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (44 bp):
GATAAGACTACAATCTTCAGTCTGCTCCCTTGCTACCTCAGGAA
Found at i:77101834 original size:176 final size:178
Alignment explanation
Indices: 77101621--77102037 Score: 610
Period size: 178 Copynumber: 2.4 Consensus size: 178
77101611 TGCTTAGGGG
*
77101621 GATAAGATCTACAATCTTCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAA
1 GATAAAATCTACAATCTTCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAA
*
77101686 CCTGC-TCTCTTACTACCTCA-A-AGATAAGGCT-AGTGGCTAAAATCTGCTCCCCTGCTACCTC
66 CCTGCTTC-CTTACTACCTCAGAGAGATAAGACTGA-TGGCTAAAATCTGCTCCCCTGCTACCTC
77101747 GGGAAGATAAGATTCGCCATTTTCAATCT-ACCCTACTGCTATCTCGAAGA
129 GGGAAGATAAGATTCGCCATTTTCAATCTGACCC-ACTGCTATCTCGAAGA
* * * * *
77101797 TATAAAATCTACAATCTTCAGTTTGGTCCCTTGCTACCTCAGGAAGATAAGACTACAATCATCAG
1 GATAAAATCTACAATCTTCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAA
*
77101862 CCTGCTTCCTTGCTACCTCAGAGAGATAAGACTGATGGCTAAAATCTGCTCCCCTGCTACCTCGG
66 CCTGCTTCCTTACTACCTCAGAGAGATAAGACTGATGGCTAAAATCTGCTCCCCTGCTACCTCGG
* * ** * *
77101927 GAAGATAAGATTTGTCATTTTTTATCTGTCCCACTGCTATCTCGAGGA
131 GAAGATAAGATTCGCCATTTTCAATCTGACCCACTGCTATCTCGAAGA
* ** *
77101975 GACAAAATCTACAATCTTCAACCTGCTCCCTTGCTACCTCATGAAGATAAGACTACAATCTTC
1 GATAAAATCTACAATCTTCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGACTACAATCTTC
77102038 CTCAAGAAGA
Statistics
Matches: 214, Mismatches: 22, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
176 75 0.35
177 3 0.01
178 132 0.62
179 4 0.02
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (178 bp):
GATAAAATCTACAATCTTCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAA
CCTGCTTCCTTACTACCTCAGAGAGATAAGACTGATGGCTAAAATCTGCTCCCCTGCTACCTCGG
GAAGATAAGATTCGCCATTTTCAATCTGACCCACTGCTATCTCGAAGA
Found at i:77102047 original size:26 final size:26
Alignment explanation
Indices: 77102011--77102087 Score: 127
Period size: 26 Copynumber: 3.0 Consensus size: 26
77102001 TCCCTTGCTA
*
77102011 CCTCATGAAGATAAGACTACAATCTT
1 CCTCAAGAAGATAAGACTACAATCTT
77102037 CCTCAAGAAGATAAGACTACAATCTT
1 CCTCAAGAAGATAAGACTACAATCTT
* *
77102063 TCTCAGGAAGATAAGACTACAATCT
1 CCTCAAGAAGATAAGACTACAATCT
77102088 CTAGCCTTCT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.40, C:0.22, G:0.13, T:0.25
Consensus pattern (26 bp):
CCTCAAGAAGATAAGACTACAATCTT
Found at i:77102110 original size:230 final size:230
Alignment explanation
Indices: 77101834--77102267 Score: 660
Period size: 230 Copynumber: 1.9 Consensus size: 230
77101824 CCCTTGCTAC
* * *
77101834 CTCAGGAAGATAAGACTACAATCATCAGCCTGCTTCCTTGCTACCTCAGAGAGATAAGACT-GAT
1 CTCAGGAAGATAAGACTACAATCATCAGCCTGCTTCCTTACTACCTCAAAAAGATAAGACTAG-T
* * *
77101898 GGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGATTTGTCATTTTTTATCTG-TCCCACT
65 GGCTAAAATCTGCTCCCCTGCTACATCGGGAAGATAAGATTTGCCATTTTTGATCTGCT-CCACT
* *
77101962 GCTATCTCGAGGAGACAAAATCTACAATCTTCAACCTGCTCCCTTGCTACCTCATGAAGATAAGA
129 GCTATCTCGAGGAGACAAAATCTACAATCTTCAACCTGCTCCCTCGCTACCTCAGGAAGATAAGA
77102027 CTACAATCTTCCTCAAGAAGATAAGACTACAATCTTT
194 CTACAATCTTCCTCAAGAAGATAAGACTACAATCTTT
* *
77102064 CTCAGGAAGATAAGACTACAATC-TCTAGCCTTC-TCCTTTACTACCTCAAAAAGATAAGGCTAG
1 CTCAGGAAGATAAGACTACAATCATC-AGCCTGCTTCC-TTACTACCTCAAAAAGATAAGACTAG
* *
77102127 TGGTTAAAATTTGCTCCCCTGCTACATCGGGAAGATAAGATTTGCCATTTTTGATCTGCTCCACT
64 TGGCTAAAATCTGCTCCCCTGCTACATCGGGAAGATAAGATTTGCCATTTTTGATCTGCTCCACT
* * **
77102192 GCTATCTGGAGGAGACAAAATCTACAATCTTTAGTCTGCTCCCTCGCTACCTCAGGAAGATAAGA
129 GCTATCTCGAGGAGACAAAATCTACAATCTTCAACCTGCTCCCTCGCTACCTCAGGAAGATAAGA
77102257 CTACAATCTTC
194 CTACAATCTTC
77102268 AGCCTGCTCC
Statistics
Matches: 184, Mismatches: 16, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
229 5 0.03
230 177 0.96
231 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (230 bp):
CTCAGGAAGATAAGACTACAATCATCAGCCTGCTTCCTTACTACCTCAAAAAGATAAGACTAGTG
GCTAAAATCTGCTCCCCTGCTACATCGGGAAGATAAGATTTGCCATTTTTGATCTGCTCCACTGC
TATCTCGAGGAGACAAAATCTACAATCTTCAACCTGCTCCCTCGCTACCTCAGGAAGATAAGACT
ACAATCTTCCTCAAGAAGATAAGACTACAATCTTT
Done.