Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 115 of 425
Found at i:34139548 original size:24 final size:24
Alignment explanation
Indices: 34139501--34139550 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
34139491 TTATTTTCTT
*
34139501 ACATATATTATATTTTATTATATA
1 ACATATATTATATTATATTATATA
*
34139525 ACATTTATTATATATATATTTATATA
1 ACATATATTATAT-TATA-TTATATA
34139551 TTATCTATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 12 0.55
25 3 0.14
26 7 0.32
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (24 bp):
ACATATATTATATTATATTATATA
Found at i:34139553 original size:33 final size:32
Alignment explanation
Indices: 34139516--34139581 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 32
34139506 TATTATATTT
* *
34139516 TATTATATAACATTTATTATATATATATTTATA
1 TATTATATAACATATAATATATATAT-TTTATA
* * *
34139549 TATTATCTATCATATAATATATATGTTTTATA
1 TATTATATAACATATAATATATATATTTTATA
34139581 T
1 T
34139582 TACTCATTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
32 7 0.25
33 21 0.75
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.55
Consensus pattern (32 bp):
TATTATATAACATATAATATATATATTTTATA
Found at i:34156370 original size:27 final size:27
Alignment explanation
Indices: 34156280--34156357 Score: 113
Period size: 27 Copynumber: 2.9 Consensus size: 27
34156270 AAGCATAATC
*
34156280 ATCATTTTAC-CATACAGGGGTATTACG
1 ATCATTTTACAC-TACAAGGGTATTACG
*
34156307 ATCATTTTACACTACAAGGGCATTACG
1 ATCATTTTACACTACAAGGGTATTACG
*
34156334 GTCATTTTACACTACAAGGGTATT
1 ATCATTTTACACTACAAGGGTATT
34156358 TCGAAAATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 45 0.98
28 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (27 bp):
ATCATTTTACACTACAAGGGTATTACG
Found at i:34158798 original size:29 final size:29
Alignment explanation
Indices: 34158765--34158954 Score: 231
Period size: 29 Copynumber: 6.6 Consensus size: 29
34158755 GTGACGAGAT
34158765 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
34158794 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
34158823 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
34158852 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
34158881 CGGCACTGGGTGTGCGAGCTCGAAGGCTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * *
34158910 TGGCACTATGTGTGCGGGCT-TAAATCGA-A
1 TGGCACTAAGTGTGCGTGCTGGAAAT--ATA
34158939 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
34158955 AAATCGAGTA
Statistics
Matches: 138, Mismatches: 21, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.01
29 136 0.99
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:34166046 original size:29 final size:29
Alignment explanation
Indices: 34166013--34166202 Score: 231
Period size: 29 Copynumber: 6.6 Consensus size: 29
34166003 GAGACGAGAT
34166013 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
34166042 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
34166071 TGGCACTAAGTGTGTGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
34166100 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
34166129 CGGCACTGGGTGTGCGAGCTCGAAGGCTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * *
34166158 TGGCACTATGTGTGCGGGCT-TAAATCGA-A
1 TGGCACTAAGTGTGCGTGCTGGAAAT--ATA
34166187 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
34166203 AAATCGAGTA
Statistics
Matches: 138, Mismatches: 21, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.01
29 136 0.99
ACGTcount: A:0.25, C:0.16, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:34171143 original size:30 final size:30
Alignment explanation
Indices: 34171109--34171169 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
34171099 TCCTTAACTC
34171109 AAACTTTTGCAAAATTACAATTTTTCCCCT
1 AAACTTTTGCAAAATTACAATTTTTCCCCT
* * *
34171139 AAACTTTTGCATATTTACACTTTTTCCCCT
1 AAACTTTTGCAAAATTACAATTTTTCCCCT
34171169 A
1 A
34171170 GGCTCGAGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.25, G:0.03, T:0.43
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTTCCCCT
Found at i:34175710 original size:20 final size:20
Alignment explanation
Indices: 34175685--34175726 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
34175675 TTGCCGATGC
34175685 TTTGAGTAGAAAGTCGTTGT
1 TTTGAGTAGAAAGTCGTTGT
34175705 TTTGAGTAGAAAGTCGTTGT
1 TTTGAGTAGAAAGTCGTTGT
34175725 TT
1 TT
34175727 GCTTTGAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.24, C:0.05, G:0.29, T:0.43
Consensus pattern (20 bp):
TTTGAGTAGAAAGTCGTTGT
Found at i:34178173 original size:46 final size:47
Alignment explanation
Indices: 34178120--34178295 Score: 236
Period size: 46 Copynumber: 3.8 Consensus size: 47
34178110 TATTTGGGCA
34178120 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGCG
* * * * *
34178166 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGAAGCG
34178213 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-CG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGCG
*
34178259 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
34178296 GCGGGTTACA
Statistics
Matches: 113, Mismatches: 10, Indels: 14
0.82 0.07 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.59
47 34 0.30
48 2 0.02
50 4 0.04
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGCG
Found at i:34178275 original size:93 final size:93
Alignment explanation
Indices: 34178116--34178287 Score: 319
Period size: 93 Copynumber: 1.8 Consensus size: 93
34178106 GGGATATTTG
34178116 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAGCGTCCGAACTCGTTGAG
34178181 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
34178209 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-CGTCCGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AAGCGTCCGAACTCGTTGA
34178273 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
34178288 ACTTATGGGC
Statistics
Matches: 77, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
93 75 0.97
94 2 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAGCGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:34192561 original size:40 final size:40
Alignment explanation
Indices: 34192483--34192649 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
34192473 CGGAATACAA
* * * *
34192483 CCGGATATAACCACACGCAC-GATGCCTTCGGGTCTTAGC
1 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
34192522 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
* * *
34192562 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGC
1 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
* * * *
34192602 CCGGATA-AA-GTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACG--ACTCGCACAAATGCCTTCGGGTATTAGC
34192642 CCGGATAT
1 CCGGATAT
34192650 CATTCAATTG
Statistics
Matches: 111, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
39 20 0.18
40 91 0.82
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
Found at i:34192601 original size:80 final size:78
Alignment explanation
Indices: 34192483--34192649 Score: 219
Period size: 80 Copynumber: 2.1 Consensus size: 78
34192473 CGGAATACAA
* * *
34192483 CCGGATATAACCACACGCACGATGCCTTCGGGTCTTAGCCCGGATATAA-CGACTCGCACAAATG
1 CCGGATATAACAACACGCACGATGCCTTCGGGTATTAGCCCGGATA-AAGC-ACTAGCACAAATG
*
34192547 CCTTCGGGTATTAGC
64 CCTTCGGGTATTAAC
** *
34192562 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGCCCGGATAAAGTCACTAGCACAATTG
1 CCGGATATAACAACACGCACG-ATGCCTTCGGGTATTAGCCCGGATAAAG-CACTAGCACAAATG
*
34192627 CCTTCGGGTCTTAAC
64 CCTTCGGGTATTAAC
34192642 CCGGATAT
1 CCGGATAT
34192650 CATTCAATTG
Statistics
Matches: 77, Mismatches: 8, Indels: 5
0.86 0.09 0.06
Matches are distributed among these distances:
79 20 0.26
80 56 0.73
81 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (78 bp):
CCGGATATAACAACACGCACGATGCCTTCGGGTATTAGCCCGGATAAAGCACTAGCACAAATGCC
TTCGGGTATTAAC
Found at i:34196067 original size:71 final size:71
Alignment explanation
Indices: 34195981--34196144 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
34195971 CGATTTGTCT
34195981 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
34196046 CTTTCA
66 CTTTCA
34196052 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
34196117 CTTTCA
66 CTTTCA
34196123 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
34196145 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:34196182 original size:71 final size:70
Alignment explanation
Indices: 34195981--34196178 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
34195971 CGATTTGTCT
* * * *
34195981 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
34196046 CTTTCA
65 CTTTCA
* * * *
34196052 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
34196117 CTTTCA
65 CTTTCA
* *
34196123 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
34196179 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:34201341 original size:71 final size:71
Alignment explanation
Indices: 34201255--34201418 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
34201245 CGATTTGTCT
34201255 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
34201320 CTTTCA
66 CTTTCA
34201326 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
34201391 CTTTCA
66 CTTTCA
34201397 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
34201419 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:34201456 original size:71 final size:70
Alignment explanation
Indices: 34201255--34201452 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
34201245 CGATTTGTCT
* * * *
34201255 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
34201320 CTTTCA
65 CTTTCA
* * * *
34201326 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
34201391 CTTTCA
65 CTTTCA
* *
34201397 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
34201453 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:34208534 original size:40 final size:40
Alignment explanation
Indices: 34208489--34208656 Score: 198
Period size: 40 Copynumber: 4.2 Consensus size: 40
34208479 CGGAATACAA
*
34208489 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* * *
34208529 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* **
34208569 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* * *
34208609 CCGGATA-AAGTCACTA-GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CCAC-ACGCACGAA-TGCCTTCGGGTATTAGC
34208649 CCGGATAT
1 CCGGATAT
34208657 CATTCAATTG
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
39 4 0.04
40 108 0.96
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
Found at i:34208629 original size:80 final size:80
Alignment explanation
Indices: 34208489--34208656 Score: 232
Period size: 80 Copynumber: 2.1 Consensus size: 80
34208479 CGGAATACAA
* * *
34208489 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACGACTAGCACAAATG
*
34208554 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
** *
34208569 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGCCCGGATA-AA-GTCACTAGCACAAT
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACG--ACTAGCACAAA
*
34208632 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
34208649 CCGGATAT
1 CCGGATAT
34208657 CATTCAATTG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
78 1 0.01
79 2 0.03
80 75 0.96
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (80 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:34213429 original size:11 final size:10
Alignment explanation
Indices: 34213397--34213451 Score: 60
Period size: 11 Copynumber: 5.5 Consensus size: 10
34213387 CATGAGATTT
34213397 TGATAT-ACA
1 TGATATGACA
*
34213406 TGATTTGACA
1 TGATATGACA
34213416 TGATATGCACA
1 TGATATG-ACA
*
34213427 TGATATG-TA
1 TGATATGACA
34213436 TGATATGCACA
1 TGATATG-ACA
34213447 TGATA
1 TGATA
34213452 AATTCATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
9 13 0.34
10 9 0.24
11 16 0.42
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (10 bp):
TGATATGACA
Found at i:34213602 original size:24 final size:25
Alignment explanation
Indices: 34213495--34213589 Score: 181
Period size: 25 Copynumber: 3.8 Consensus size: 25
34213485 GATGAAGTGC
*
34213495 AAAAGGGCTTTGCCCCAATTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
34213520 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
34213545 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
34213570 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
34213590 ATTGAAAGAG
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
25 69 1.00
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:34213844 original size:31 final size:31
Alignment explanation
Indices: 34213809--34213892 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
34213799 CGTTTACAGT
34213809 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* *
34213840 AAAGGCTTCGGCCCAGTGACATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
34213871 AAAGGCTTCTGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
34213893 CTGAGATTGA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 4 0.08
31 45 0.92
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:34221434 original size:11 final size:11
Alignment explanation
Indices: 34221418--34221476 Score: 72
Period size: 11 Copynumber: 5.7 Consensus size: 11
34221408 ACAAGATTTG
34221418 ACATGATATGC
1 ACATGATATGC
34221429 ACATGATATG-
1 ACATGATATGC
*
34221439 -TATGATATGC
1 ACATGATATGC
*
34221449 ACATGATATGT
1 ACATGATATGC
34221460 A-AT-ATATGC
1 ACATGATATGC
34221469 ACATGATA
1 ACATGATA
34221477 AATTCATATA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
9 14 0.35
10 4 0.10
11 22 0.55
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (11 bp):
ACATGATATGC
Found at i:34221445 original size:20 final size:21
Alignment explanation
Indices: 34221420--34221476 Score: 100
Period size: 20 Copynumber: 2.8 Consensus size: 21
34221410 AAGATTTGAC
34221420 ATGATATGCACATGATATGT-
1 ATGATATGCACATGATATGTA
34221440 ATGATATGCACATGATATGTA
1 ATGATATGCACATGATATGTA
34221461 AT-ATATGCACATGATA
1 ATGATATGCACATGATA
34221477 AATTCATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
20 34 0.94
21 2 0.06
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.33
Consensus pattern (21 bp):
ATGATATGCACATGATATGTA
Found at i:34221606 original size:24 final size:25
Alignment explanation
Indices: 34221524--34221593 Score: 140
Period size: 25 Copynumber: 2.8 Consensus size: 25
34221514 GAGGAAGTGC
34221524 AAAAGGGCTTTGCCCCAGTTTATCG
1 AAAAGGGCTTTGCCCCAGTTTATCG
34221549 AAAAGGGCTTTGCCCCAGTTTATCG
1 AAAAGGGCTTTGCCCCAGTTTATCG
34221574 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
34221594 ATTAAAAGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCG
Found at i:34221848 original size:31 final size:31
Alignment explanation
Indices: 34221813--34221896 Score: 100
Period size: 31 Copynumber: 2.7 Consensus size: 31
34221803 CGTTTACAGT
34221813 AAAGGATTCAGGCCAGTGATATGAATAATGA
1 AAAGGATTCAGGCCAGTGATATGAATAATGA
* * *
34221844 AAAGGCTTC-GGCCCAGTGACATGAATAATGT
1 AAAGGATTCAGG-CCAGTGATATGAATAATGA
* *
34221875 AAAGGTTTCAGCCCAGT-ATATG
1 AAAGGATTCAGGCCAGTGATATG
34221897 CTGAGATTGA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
30 6 0.13
31 38 0.84
32 1 0.02
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (31 bp):
AAAGGATTCAGGCCAGTGATATGAATAATGA
Found at i:34223221 original size:38 final size:38
Alignment explanation
Indices: 34223170--34223245 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
34223160 AAAAAGACAC
34223170 CATTTTAGGGCTTAAGCA-TGCAGCTAACTTGGGTAAGT
1 CATTTTAGGGCTTAAGCATTG-AGCTAACTTGGGTAAGT
34223208 CATTTTAGGGCTTAAGCATTGAGCTAACTTGGGTAAGT
1 CATTTTAGGGCTTAAGCATTGAGCTAACTTGGGTAAGT
34223246 GCATGTAAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
38 35 0.95
39 2 0.05
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.33
Consensus pattern (38 bp):
CATTTTAGGGCTTAAGCATTGAGCTAACTTGGGTAAGT
Found at i:34227789 original size:56 final size:56
Alignment explanation
Indices: 34227702--34227837 Score: 191
Period size: 56 Copynumber: 2.4 Consensus size: 56
34227692 ATCATGGCAT
* * *
34227702 CGATATATGTGTGCGAGAAAGACCATATTTAATACGTTGGCATCGATATGTGAATC
1 CGATATATGTGTGCGAGTAAGACCACATTTAATACATTGGCATCGATATGTGAATC
** * * * *
34227758 CGATATATGTGTATGAGTAAGACCACGTTTAATGCATTGGCATCGATATGTGACTT
1 CGATATATGTGTGCGAGTAAGACCACATTTAATACATTGGCATCGATATGTGAATC
34227814 CGATATATGTGTGCGAGTAAGACC
1 CGATATATGTGTGCGAGTAAGACC
34227838 CTATCTGGGA
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
56 69 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (56 bp):
CGATATATGTGTGCGAGTAAGACCACATTTAATACATTGGCATCGATATGTGAATC
Found at i:34227855 original size:56 final size:55
Alignment explanation
Indices: 34227701--34227866 Score: 167
Period size: 56 Copynumber: 3.0 Consensus size: 55
34227691 GATCATGGCA
* * *
34227701 TCGATATATGTGTGCGAGAAAGACCATATTTAATAC-GTTGGCATCGATATGTGAAT
1 TCGATATATGTGTGCGAGTAAGACCCTA-TTAAGACAG-TGGCATCGATATGTGAAT
* ** * *
34227757 CCGATATATGTGTATGAGTAAGACCACGT-TTAATG-CATTGGCATCGATATGTGACT
1 TCGATATATGTGTGCGAGTAAGACC-C-TATTAA-GACAGTGGCATCGATATGTGAAT
**
34227813 TCGATATATGTGTGCGAGTAAGACCCTATCTGGGACAGTGGCATCGATATGTGA
1 TCGATATATGTGTGCGAGTAAGACCCTAT-TAAGACAGTGGCATCGATATGTGA
34227867 TTACATGTAA
Statistics
Matches: 89, Mismatches: 14, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
54 1 0.01
55 3 0.03
56 84 0.94
58 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (55 bp):
TCGATATATGTGTGCGAGTAAGACCCTATTAAGACAGTGGCATCGATATGTGAAT
Found at i:34234369 original size:56 final size:56
Alignment explanation
Indices: 34234281--34234473 Score: 305
Period size: 56 Copynumber: 3.4 Consensus size: 56
34234271 GACCATGGCA
* *
34234281 TCGATATTTGTGTGCGAGTAAGACCACCTTTAATACATTGGCATCGATATGTGATT
1 TCGATATATGTGTGCGAGTAAGACCACGTTTAATACATTGGCATCGATATGTGATT
* *
34234337 TTGATATATGTGTGCGAGCAAGACCACGTTTAATACATTGGCATCGATATGTGATT
1 TCGATATATGTGTGCGAGTAAGACCACGTTTAATACATTGGCATCGATATGTGATT
* * * *
34234393 TCGATATATGTGTGTGAGTAAGACTACGTTTAATACGTTGGCATCGATATGTGACT
1 TCGATATATGTGTGCGAGTAAGACCACGTTTAATACATTGGCATCGATATGTGATT
*
34234449 TCGATATATGTCTGCGAGTAAGACC
1 TCGATATATGTGTGCGAGTAAGACC
34234474 CTATCAGGGA
Statistics
Matches: 124, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 124 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.34
Consensus pattern (56 bp):
TCGATATATGTGTGCGAGTAAGACCACGTTTAATACATTGGCATCGATATGTGATT
Found at i:34234491 original size:56 final size:54
Alignment explanation
Indices: 34234281--34234504 Score: 252
Period size: 56 Copynumber: 4.0 Consensus size: 54
34234271 GACCATGGCA
* *
34234281 TCGATATTTGTGTGCGAGTAAGACCACCTTTAATACATTGGCATCGATATGTGATT
1 TCGATATATGTGTGCGAGTAAGA-C-CCTTTAATACAGTGGCATCGATATGTGATT
* * *
34234337 TTGATATATGTGTGCGAGCAAGACCACGTTTAATACATTGGCATCGATATGTGATT
1 TCGATATATGTGTGCGAGTAAGACC-C-TTTAATACAGTGGCATCGATATGTGATT
* * *
34234393 TCGATATATGTGTGTGAGTAAGACTACGTTTAATAC-GTTGGCATCGATATGTGACT
1 TCGATATATGTGTGCGAGTAAGAC--CCTTTAATACAG-TGGCATCGATATGTGATT
* * **
34234449 TCGATATATGTCTGCGAGTAAGACCCTATCAGGGACAGTGGCATCGATATGTGATT
1 TCGATATATGTGTGCGAGTAAGACCCT-TTA-ATACAGTGGCATCGATATGTGATT
34234505 ACGTGTAAGA
Statistics
Matches: 144, Mismatches: 16, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
54 3 0.02
55 4 0.03
56 135 0.94
57 1 0.01
58 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.33
Consensus pattern (54 bp):
TCGATATATGTGTGCGAGTAAGACCCTTTAATACAGTGGCATCGATATGTGATT
Found at i:34234491 original size:112 final size:112
Alignment explanation
Indices: 34234281--34234504 Score: 299
Period size: 112 Copynumber: 2.0 Consensus size: 112
34234271 GACCATGGCA
* * *
34234281 TCGATATTTGTGTGCGAGTAAGACCACCTTTAATACATTGGCATCGATATGTGATTTTGATATAT
1 TCGATATATGTGTGCGAGTAAGACCACCTTTAATACATTGGCATCGATATGTGACTTCGATATAT
* * * *
34234346 GTGTGCGAGCAAGACCACGTTTAATACATTGGCATCGATATGTGATT
66 GTCTGCGAGCAAGACCACGTTCAAGACAGTGGCATCGATATGTGATT
* * * *
34234393 TCGATATATGTGTGTGAGTAAGACTACGTTTAATACGTTGGCATCGATATGTGACTTCGATATAT
1 TCGATATATGTGTGCGAGTAAGACCACCTTTAATACATTGGCATCGATATGTGACTTCGATATAT
* *
34234458 GTCTGCGAGTAAGACC-C-TATCAGGGACAGTGGCATCGATATGTGATT
66 GTCTGCGAGCAAGACCACGT-TCA-AGACAGTGGCATCGATATGTGATT
34234505 ACGTGTAAGA
Statistics
Matches: 97, Mismatches: 13, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
110 1 0.01
111 3 0.03
112 93 0.96
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.33
Consensus pattern (112 bp):
TCGATATATGTGTGCGAGTAAGACCACCTTTAATACATTGGCATCGATATGTGACTTCGATATAT
GTCTGCGAGCAAGACCACGTTCAAGACAGTGGCATCGATATGTGATT
Found at i:34237744 original size:47 final size:47
Alignment explanation
Indices: 34237672--34237925 Score: 373
Period size: 47 Copynumber: 5.3 Consensus size: 47
34237662 CCCTTCGGGA
* * * * * * *
34237672 CTTATCACATTTATACACTTCCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
34237719 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34237766 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34237813 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34237862 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34237911 CTTATCACATATATA
1 CTTATCACATATATA
34237926 TATCTCATAC
Statistics
Matches: 194, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
47 99 0.51
49 95 0.49
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:34237750 original size:25 final size:25
Alignment explanation
Indices: 34237722--34237800 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 25
34237712 ACTCGGCCCT
*
34237722 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACATTCACATTC
** * *
34237747 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACATTC-ACATTC
*
34237769 ATCACATATATACACCTTCACATTC
1 ATCACATATATACACATTCACATTC
34237794 ATCACAT
1 ATCACAT
34237801 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACATTCACATTC
Found at i:34237846 original size:49 final size:49
Alignment explanation
Indices: 34237672--34237927 Score: 380
Period size: 49 Copynumber: 5.3 Consensus size: 49
34237662 CCCTTCGGGA
* * * * * *
34237672 CTTATCACAT-T-TATACACTTCCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
34237719 CCTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34237766 CTTATCAC--ATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34237813 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34237862 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34237911 CTTATCACATATATATA
1 CTTATCACATATATATA
34237928 TCTCATACAT
Statistics
Matches: 195, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.01
47 90 0.46
49 104 0.53
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:34248462 original size:30 final size:30
Alignment explanation
Indices: 34248422--34248481 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
34248412 TTCCCGAGCC
*
34248422 TAGGGACAAAAGTGTAATTATGCAAAAGTT
1 TAGGGACAAAAATGTAATTATGCAAAAGTT
* * *
34248452 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGACAAAAATGTAATTATGCAAAAGTT
34248482 CGTATTAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.28
Consensus pattern (30 bp):
TAGGGACAAAAATGTAATTATGCAAAAGTT
Found at i:34263137 original size:38 final size:38
Alignment explanation
Indices: 34263040--34263147 Score: 144
Period size: 38 Copynumber: 2.8 Consensus size: 38
34263030 GGCTTAAAGA
** * *
34263040 CCCGCAGGCTTTGTGCTGGTAAAATATCCAGGTTAAAT
1 CCCGCAGGCTTTGTGCTGGTATTATATCCGGGATAAAT
*
34263078 CTCGCAGGCTTTGTGCTGGTATTATATCCGGGATAAAT
1 CCCGCAGGCTTTGTGCTGGTATTATATCCGGGATAAAT
* * *
34263116 CCCGCAGGCCTAGTGCTGGTATTATATTCGGG
1 CCCGCAGGCTTTGTGCTGGTATTATATCCGGG
34263148 CCTTCGTGCC
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 61 1.00
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (38 bp):
CCCGCAGGCTTTGTGCTGGTATTATATCCGGGATAAAT
Found at i:34263348 original size:43 final size:43
Alignment explanation
Indices: 34263140--34263337 Score: 351
Period size: 43 Copynumber: 4.6 Consensus size: 43
34263130 GCTGGTATTA
*
34263140 TATTCGGGCCTTCGTGCCTAGCAAGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
34263183 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
34263226 TATTCAGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
34263269 TATTCGGGCCTTCGTGCCTAGCAGTCTTCGTGCCGGTTATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
34263312 TATTCGGGCCTTCATGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
34263338 GTAATGCCGG
Statistics
Matches: 148, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 148 1.00
ACGTcount: A:0.11, C:0.26, G:0.32, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:34269361 original size:14 final size:14
Alignment explanation
Indices: 34269342--34269370 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
34269332 CACTTATTCT
34269342 CATCTTTGACATAC
1 CATCTTTGACATAC
34269356 CATCTTTGACATAC
1 CATCTTTGACATAC
34269370 C
1 C
34269371 CGTGAACCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.31, G:0.07, T:0.34
Consensus pattern (14 bp):
CATCTTTGACATAC
Found at i:34272245 original size:39 final size:39
Alignment explanation
Indices: 34272201--34272326 Score: 198
Period size: 39 Copynumber: 3.2 Consensus size: 39
34272191 TCTTTAACCT
** *
34272201 GGATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGTCC
1 GGATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCC
* *
34272240 AGATATTTTTCCAGCATATAGCCTTCGGACCTCATGTCC
1 GGATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCC
34272279 GGATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCC
1 GGATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCC
*
34272318 GGGTATTTT
1 GGATATTTT
34272327 CAATCTCATA
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 79 1.00
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.32
Consensus pattern (39 bp):
GGATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCC
Found at i:34275346 original size:39 final size:39
Alignment explanation
Indices: 34275292--34275446 Score: 256
Period size: 39 Copynumber: 3.9 Consensus size: 39
34275282 GAATGTTCGG
34275292 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
34275331 GTGATATCTGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
34275370 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* * *
34275409 GTGATATCCGGGTTAAGTCCCGAAGGCATTTATGCGAG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAG
34275447 CTACTATAAC
Statistics
Matches: 108, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 91 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:34277982 original size:48 final size:48
Alignment explanation
Indices: 34277911--34278008 Score: 178
Period size: 48 Copynumber: 2.0 Consensus size: 48
34277901 ATCAGAGTAA
*
34277911 AAATTGGGTTCCAAAGTCAATTATGAAGAAGGTTTTAGCACGCTTACG
1 AAATTGGGTTCCAAAGCCAATTATGAAGAAGGTTTTAGCACGCTTACG
*
34277959 AAATTGGGTTCCAAAGCCAATTATGAAGAAGGTTTTAGCACGCTTGCG
1 AAATTGGGTTCCAAAGCCAATTATGAAGAAGGTTTTAGCACGCTTACG
34278007 AA
1 AA
34278009 GTCCAAATTT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (48 bp):
AAATTGGGTTCCAAAGCCAATTATGAAGAAGGTTTTAGCACGCTTACG
Found at i:34278305 original size:42 final size:43
Alignment explanation
Indices: 34278258--34278345 Score: 119
Period size: 44 Copynumber: 2.0 Consensus size: 43
34278248 GTTGAAATAA
34278258 AATAGAAGTTGTGATAAATT-T-ATTTAAAAATAATT-GCAATTT
1 AATAGAAGTTGTGAT-AATTATAATTTAAAAATAATTAG-AATTT
*
34278300 AATAGAAGTTGTGGTAATTATACATTTAAAAATAATTAGAATTT
1 AATAGAAGTTGTGATAATTATA-ATTTAAAAATAATTAGAATTT
34278344 AA
1 AA
34278346 ATTATAATTA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
41 4 0.10
42 15 0.37
44 21 0.51
45 1 0.02
ACGTcount: A:0.47, C:0.02, G:0.12, T:0.39
Consensus pattern (43 bp):
AATAGAAGTTGTGATAATTATAATTTAAAAATAATTAGAATTT
Found at i:34278337 original size:18 final size:18
Alignment explanation
Indices: 34278314--34278356 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
34278304 GAAGTTGTGG
34278314 TAATTATACATTTAAA-AA
1 TAATTATA-ATTTAAATAA
* *
34278332 TAATTAGAATTTAAATTA
1 TAATTATAATTTAAATAA
34278350 TAATTAT
1 TAATTAT
34278357 TAGTTAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (18 bp):
TAATTATAATTTAAATAA
Found at i:34284527 original size:45 final size:45
Alignment explanation
Indices: 34284441--34284600 Score: 236
Period size: 45 Copynumber: 3.6 Consensus size: 45
34284431 GCATTTCACT
* * *
34284441 TGCTAGGCTCGAA-GCCCG-ATA-TCATTTCACCGACATTATAGCC
1 TGCTAGGCTCAAAGGCCCGAATAGT-ATCTCACCGACATCATAGCC
*
34284484 TGCTAGGCTCGAAGGCCCGAATAGTATCTCACCGACATCATAGCC
1 TGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGACATCATAGCC
*
34284529 TGCTAGGCTCAAAGGCCCGAATAGTATCTAACCGACATCATAGCC
1 TGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGACATCATAGCC
34284574 TGCTAGGCTCAAAAGGCCCGAATAGTA
1 TGCTAGGCTC-AAAGGCCCGAATAGTA
34284601 ACGTAGAATA
Statistics
Matches: 109, Mismatches: 4, Indels: 5
0.92 0.03 0.04
Matches are distributed among these distances:
43 13 0.12
44 5 0.05
45 74 0.68
46 17 0.16
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
TGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGACATCATAGCC
Found at i:34286729 original size:28 final size:28
Alignment explanation
Indices: 34286697--34286795 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
34286687 GCAATAAGCC
*
34286697 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
34286725 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
34286753 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
34286782 CGCACACTTAGTGC
1 CGCACACTTAGTGC
34286796 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:34291905 original size:39 final size:40
Alignment explanation
Indices: 34291817--34291993 Score: 252
Period size: 40 Copynumber: 4.5 Consensus size: 40
34291807 CGGATGATAA
*
34291817 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
34291857 CCGGGCTAAGTCCCAAAGGAATTTGTGCGA-TTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
34291896 CCGGGCTAAGTCCTGAAGGCATTTGCGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
34291936 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
34291976 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
34291994 TACTTGGTTT
Statistics
Matches: 123, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
39 51 0.41
40 72 0.59
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:34291948 original size:79 final size:80
Alignment explanation
Indices: 34291817--34291993 Score: 259
Period size: 79 Copynumber: 2.2 Consensus size: 80
34291807 CGGATGATAA
* * *
34291817 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCAAAGGAATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTATAACCGGGCTAAGTCCCAAAGGAATTTG
* *
34291882 TGCGATTA-CTATAT
66 AGCGAGTAGCTATAT
* * *
34291896 CCGGGCTAAGTCCTGAAGGCATTTGCGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTATAACCGGGCTAAGTCCCAAAGGAATTTG
34291961 AGCGAGTAGCTATAT
66 AGCGAGTAGCTATAT
*
34291976 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
34291994 TACTTGGTTT
Statistics
Matches: 87, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
79 79 0.91
80 8 0.09
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTATAACCGGGCTAAGTCCCAAAGGAATTTG
AGCGAGTAGCTATAT
Found at i:34299136 original size:40 final size:40
Alignment explanation
Indices: 34299081--34299258 Score: 288
Period size: 40 Copynumber: 4.5 Consensus size: 40
34299071 CGGATGATAA
*
34299081 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
34299121 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
34299161 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
34299201 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
34299241 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
34299259 TACTTGGTTT
Statistics
Matches: 131, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 17 0.13
40 114 0.87
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:34304821 original size:28 final size:27
Alignment explanation
Indices: 34304755--34304824 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
34304745 ATAGTGAGTC
*
34304755 CGCACACTTAGTGCTATATAATCAGCT
1 CGCACACTTAGTGCTATATAATCAACT
* *
34304782 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATC-AACT
34304810 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34304825 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:34312779 original size:28 final size:27
Alignment explanation
Indices: 34312713--34312782 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
34312703 ATAGTGAGTC
*
34312713 CGCACACTTAGTGCTATATAATCAGCT
1 CGCACACTTAGTGCTATATAATCAACT
* *
34312740 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATC-AACT
34312768 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34312783 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:34312855 original size:42 final size:42
Alignment explanation
Indices: 34312791--34312897 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
34312781 CTGTACAAAT
*
34312791 TTTAAACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
*
34312833 TTTATACCCGCACATTTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
34312875 TTTATACCCGCACACTTAGTGCC
1 TTTATACCCGCACACTTAGTGCC
34312898 GAGACCAATA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.22, C:0.33, G:0.14, T:0.31
Consensus pattern (42 bp):
TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
Found at i:34316917 original size:31 final size:31
Alignment explanation
Indices: 34316879--34317027 Score: 176
Period size: 31 Copynumber: 4.8 Consensus size: 31
34316869 ACAAATGGCA
34316879 AGTGAAAAGTGGTAGCTTCGACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGACTACCTGATC
* *
34316910 AGTGAAAAGTGGTAGCTTTTG-CTACTTGATC
1 AGTGAAAAGTGGTAGC-TTCGACTACCTGATC
* * *
34316941 AGTGAAAAATGGTAGCTCCAACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGACTACCTGATC
* * *
34316972 AGTTAAAAATGGTAGC-TCCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGA-CTACCTGATC
* *
34317003 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGACTAC
34317028 AAGTGACAAG
Statistics
Matches: 99, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
30 3 0.03
31 91 0.92
32 5 0.05
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.28
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGACTACCTGATC
Found at i:34317131 original size:47 final size:46
Alignment explanation
Indices: 34317045--34317200 Score: 150
Period size: 47 Copynumber: 3.3 Consensus size: 46
34317035 AAGTGATTTC
* * * *
34317045 CGTATAAGACCATATCTGGGATATGACATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
* * *
34317091 CTGTATAAGACCATATCTGGGATATGGCATTAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
* * * * * *
34317138 CGTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTA
1 CGTATAAGACCATATCTGGGATATGGCATC-A-GTGAGATATATGA-TA
*
34317187 CGTGTAAGACCATA
1 CGTATAAGACCATA
34317201 GTTGGGCTAT
Statistics
Matches: 92, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
46 26 0.28
47 40 0.43
48 11 0.12
49 15 0.16
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
Found at i:34317163 original size:46 final size:47
Alignment explanation
Indices: 34317096--34317220 Score: 155
Period size: 49 Copynumber: 2.6 Consensus size: 47
34317086 TGCTACTGTA
* *
34317096 TAAGACCATATCTGGGATATGGCAT-TAGTGAGATATGTGATT-CGTG
1 TAAGACCATAGCTGGGCTATGGCATATA-TGAGATATGTGATTACGTG
*
34317142 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGCTATGGCAT--ATATGAGATATGTGATTACGTG
* *
34317191 TAAGACCATAGTTGGGCTATGACATGATAT
1 TAAGACCATAGCTGGGCTATGGCAT-ATAT
34317221 ATGAAGATGT
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
46 23 0.33
48 18 0.26
49 29 0.41
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (47 bp):
TAAGACCATAGCTGGGCTATGGCATATATGAGATATGTGATTACGTG
Found at i:34317231 original size:49 final size:48
Alignment explanation
Indices: 34317130--34317231 Score: 143
Period size: 49 Copynumber: 2.1 Consensus size: 48
34317120 TTAGTGAGAT
* * *
34317130 ATGTGATTCGTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGAT
1 ATGTGATTCGTGTAAGACCATAGCTGGGCTATGACATCGATATATGAG
*
34317178 ATGTGATTACGTGTAAGACCATAGTTGGGCTATGACAT-GATATATGAAG
1 ATGTGATT-CGTGTAAGACCATAGCTGGGCTATGACATCGATATATG-AG
34317227 ATGTG
1 ATGTG
34317232 TAAGACCATA
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
48 15 0.31
49 33 0.69
ACGTcount: A:0.28, C:0.12, G:0.28, T:0.31
Consensus pattern (48 bp):
ATGTGATTCGTGTAAGACCATAGCTGGGCTATGACATCGATATATGAG
Found at i:34331137 original size:16 final size:16
Alignment explanation
Indices: 34331116--34331146 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34331106 TATTTATATT
*
34331116 GAAATTTTATTAATAG
1 GAAATTTAATTAATAG
34331132 GAAATTTAATTAATA
1 GAAATTTAATTAATA
34331147 ATAATTTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (16 bp):
GAAATTTAATTAATAG
Found at i:34335295 original size:40 final size:40
Alignment explanation
Indices: 34335247--34335469 Score: 347
Period size: 40 Copynumber: 5.6 Consensus size: 40
34335237 CTACTCACTC
* * * *
34335247 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGGATGTAATAACTCGCACA
* * *
34335287 AATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATGTAATAACTCGCACA
* * *
34335327 AATGCCCTCGGGACTTACCCCGGATGTAATAACTCACACA
1 AATGCCTTCGGGACTTAGCCCGGATGTAATAACTCGCACA
*
34335367 AATGCCTACGGGACTTAGCCCGGATGTAATAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATGTAATAACTCGCACA
34335407 AATGCCTTCGGGACTTAGCCCGGATGTAATAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATGTAATAACTCGCACA
34335447 AATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
34335470 TTATCATCCG
Statistics
Matches: 169, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 169 1.00
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATGTAATAACTCGCACA
Found at i:34335349 original size:80 final size:79
Alignment explanation
Indices: 34335213--34335469 Score: 347
Period size: 80 Copynumber: 3.2 Consensus size: 79
34335203 AAGCCAAGTA
* * * * * * *
34335213 CCTTCGGGATTTA-ACCGGATATAGCTACTCACTC-AATGCCTTCGGGACATAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAA
*
34335276 TAACTCGCACCAATG
65 TAACTCGCACAAATG
* *
34335291 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATGCCCTCGGGACTTACCCCGGATGTAA
1 CCTTCGGGACTTAGCCCGGATATAGTA-CTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAA
*
34335356 TAACTCACACAAATG
65 TAACTCGCACAAATG
* * *
34335371 CCTACGGGACTTAGCCCGGATGTAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAA
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAA
34335436 TAACTCGCACAAATG
65 TAACTCGCACAAATG
34335451 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
34335470 TTATCATCCG
Statistics
Matches: 157, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
78 14 0.09
79 15 0.10
80 127 0.81
81 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.22
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAAT
AACTCGCACAAATG
Found at i:34342593 original size:33 final size:33
Alignment explanation
Indices: 34342551--34342616 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
34342541 AGAGAAAGAA
34342551 AAACCACTAAGGTGCAGAGAAAATAGAAGAGGT
1 AAACCACTAAGGTGCAGAGAAAATAGAAGAGGT
34342584 AAACCACTAAGGTGCAGAGAAAATAGAAGAGGT
1 AAACCACTAAGGTGCAGAGAAAATAGAAGAGGT
34342617 TGGCTACAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.48, C:0.12, G:0.27, T:0.12
Consensus pattern (33 bp):
AAACCACTAAGGTGCAGAGAAAATAGAAGAGGT
Found at i:34349131 original size:12 final size:12
Alignment explanation
Indices: 34349125--34349155 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
34349115 ACTCCTTAAT
34349125 TCTCTCCCTAAA
1 TCTCTCCCTAAA
34349137 TCTCTCCCTAAA
1 TCTCTCCCTAAA
34349149 TCTCTCC
1 TCTCTCC
34349156 TCTTCTCCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.19, C:0.45, G:0.00, T:0.35
Consensus pattern (12 bp):
TCTCTCCCTAAA
Found at i:34351371 original size:39 final size:39
Alignment explanation
Indices: 34351317--34351521 Score: 270
Period size: 39 Copynumber: 5.2 Consensus size: 39
34351307 GATGTGTATG
*
34351317 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
1 AATGTGCGGATTGTGATATCCGGGCTAAGCCCGAAGGCA
*
34351356 AATGTACGGATTGTGATATCCGGGCTAAGCCCGAAGGCA
1 AATGTGCGGATTGTGATATCCGGGCTAAGCCCGAAGGCA
* *
34351395 AATGTGCGAATTGTGATATCCGGGCTAAGCCTGAAGGCA
1 AATGTGCGGATTGTGATATCCGGGCTAAGCCCGAAGGCA
* *
34351434 ATTGTGC-GAGTTATGATATCCGGGCTAAGCCCGAAGGCA
1 AATGTGCGGA-TTGTGATATCCGGGCTAAGCCCGAAGGCA
* * *
34351473 ATTGTGC-GAGTTGTGATACCCGGGTTAAGTCCCGAAGGCA
1 AATGTGCGGA-TTGTGATATCCGGGCTAAG-CCCGAAGGCA
**
34351513 TTTGTGCGG
1 AATGTGCGG
34351522 GTTACCACAA
Statistics
Matches: 150, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
38 1 0.01
39 132 0.88
40 16 0.11
41 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.23
Consensus pattern (39 bp):
AATGTGCGGATTGTGATATCCGGGCTAAGCCCGAAGGCA
Found at i:34351451 original size:78 final size:77
Alignment explanation
Indices: 34351317--34351521 Score: 302
Period size: 78 Copynumber: 2.6 Consensus size: 77
34351307 GATGTGTATG
* * *
34351317 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAATGTACGGATTGTGATATCCGGGCT
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGG-TTATGATATCCGGGCT
34351382 AAGCCCGAAGGCA
65 AAGCCCGAAGGCA
*
34351395 AATGTGCGAATTGTGATATCCGGGCTAAGCCTGAAGGCAATTGTGCGAGTTATGATATCCGGGCT
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCG-GTTATGATATCCGGGCT
34351460 AAGCCCGAAGGCA
65 AAGCCCGAAGGCA
* * * * *
34351473 ATTGTGCGAGTTGTGATACCCGGGTTAAGTCCCGAAGGCATTTGTGCGG
1 AATGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGG
34351522 GTTACCACAA
Statistics
Matches: 115, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
78 98 0.85
79 17 0.15
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.23
Consensus pattern (77 bp):
AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGGTTATGATATCCGGGCTA
AGCCCGAAGGCA
Found at i:34359542 original size:39 final size:39
Alignment explanation
Indices: 34359488--34359682 Score: 293
Period size: 39 Copynumber: 5.0 Consensus size: 39
34359478 GATGTGTATG
*
34359488 AATGTGCGAATTGTGATATCCGAGCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
34359527 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
*
34359566 AATGTGCGAATTGTGATATCCGGGCTAAGCTCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
* * *
34359605 ATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
* * * *
34359644 ATTGTGCGAGTTGTGATA-CCCGGTTAAGTCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCA
34359683 TTTGTGTGGG
Statistics
Matches: 146, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
38 8 0.05
39 138 0.95
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (39 bp):
AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
Found at i:34359706 original size:78 final size:78
Alignment explanation
Indices: 34359488--34359721 Score: 247
Period size: 78 Copynumber: 3.0 Consensus size: 78
34359478 GATGTGTATG
* * *** * *
34359488 AATGTGCGAATTGTGATAT-CCGAGCTAAGCCCGAAGGCAAATGTGCGAATTGTGATATCCGGGC
1 AATGTGCGAATTGTGATATCCCG-GCTAAGCCCGAAGGCAATTGTGCGAGTTACCACAACCGGGC
34359552 TAAGCCCGAAGGCA
65 TAAGCCCGAAGGCA
* * ** * *
34359566 AATGTGCGAATTGTGATATCCGGGCTAAGCTCGAAGGCAATTGTGCGAGTTATGATATCCGGGCT
1 AATGTGCGAATTGTGATATCCCGGCTAAGCCCGAAGGCAATTGTGCGAGTTACCACAACCGGGCT
34359631 AAGCCCGAAGGCA
66 AAGCCCGAAGGCA
* * * * * *
34359644 ATTGTGCGAGTTGTGATA-CCCGGTTAAGTCCCGAAGGCATTTGTGTGGGTTACCACAACCGGGC
1 AATGTGCGAATTGTGATATCCCGGCTAAG-CCCGAAGGCAATTGTGCGAGTTACCACAACCGGGC
*
34359708 TATGTCCCGAAGGC
65 TAAG-CCCGAAGGC
34359722 GTTTGAACGA
Statistics
Matches: 135, Mismatches: 18, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
77 8 0.06
78 116 0.86
79 11 0.08
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (78 bp):
AATGTGCGAATTGTGATATCCCGGCTAAGCCCGAAGGCAATTGTGCGAGTTACCACAACCGGGCT
AAGCCCGAAGGCA
Found at i:34359706 original size:117 final size:117
Alignment explanation
Indices: 34359490--34359709 Score: 271
Period size: 117 Copynumber: 1.9 Consensus size: 117
34359480 TGTGTATGAA
* *
34359490 TGTGCGAATTGTGATATCCGAGCTAAGCCCGAAGGCAAATGTGCGAATTGTGATATCCGGGCTAA
1 TGTGCGAATTATGATATCCGAGCTAAGCCCGAAGGCAAATGTGCGAATTGTGATATCCCGGCTAA
*** * *
34359555 GCCCGAAGGCAAATGTGCGAATTGTGATATCCGGGCTAAGCTCGAAGGCAAT
66 GCCCGAAGGCAAATGTGCGAATTACCACAACCGGGCTAAGCTCGAAGGCAAT
* * * * *
34359607 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATA-CCCGGTTAA
1 TGTGCGAATTATGATATCCGAGCTAAGCCCGAAGGCAAATGTGCGAATTGTGATATCCCGGCTAA
** * **
34359671 GTCCCGAAGGCATTTGTGTGGGTTACCACAACCGGGCTA
66 G-CCCGAAGGCAAATGTGCGAATTACCACAACCGGGCTA
34359710 TGTCCCGAAG
Statistics
Matches: 85, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
116 8 0.09
117 77 0.91
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.24
Consensus pattern (117 bp):
TGTGCGAATTATGATATCCGAGCTAAGCCCGAAGGCAAATGTGCGAATTGTGATATCCCGGCTAA
GCCCGAAGGCAAATGTGCGAATTACCACAACCGGGCTAAGCTCGAAGGCAAT
Found at i:34366818 original size:34 final size:34
Alignment explanation
Indices: 34366722--34366818 Score: 124
Period size: 34 Copynumber: 2.9 Consensus size: 34
34366712 TATAGTGTTG
* * **
34366722 ATCAGTCTGGGCCTAAGCCCAAACCAGTAGCAAT
1 ATCAGTGTGGGCCTTAGCCCAATTCAGTAGCAAT
* *
34366756 ATCAGTGTGGGCTTTAGCCC-ATTACAGTAGCAGT
1 ATCAGTGTGGGCCTTAGCCCAATT-CAGTAGCAAT
34366790 ATCAGTGTGGGCCTTAGCCCAATTCAGTA
1 ATCAGTGTGGGCCTTAGCCCAATTCAGTA
34366819 TAGAATCAGA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
33 1 0.02
34 50 0.93
35 3 0.06
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.25
Consensus pattern (34 bp):
ATCAGTGTGGGCCTTAGCCCAATTCAGTAGCAAT
Found at i:34370053 original size:12 final size:12
Alignment explanation
Indices: 34370036--34370061 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
34370026 TTATCCTATT
34370036 TTTATTTTTATG
1 TTTATTTTTATG
34370048 TTTATTTTTATG
1 TTTATTTTTATG
34370060 TT
1 TT
34370062 CATAGACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (12 bp):
TTTATTTTTATG
Found at i:34372787 original size:27 final size:27
Alignment explanation
Indices: 34372755--34372809 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
34372745 GAGCATTAAA
34372755 GTTGTTGGTATTGGTATTGCATGGTTT
1 GTTGTTGGTATTGGTATTGCATGGTTT
34372782 GTTGTTGGTATTGGTATTGCATGGTTT
1 GTTGTTGGTATTGGTATTGCATGGTTT
34372809 G
1 G
34372810 GACTTGGTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.11, C:0.04, G:0.35, T:0.51
Consensus pattern (27 bp):
GTTGTTGGTATTGGTATTGCATGGTTT
Found at i:34372816 original size:27 final size:27
Alignment explanation
Indices: 34372759--34372817 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
34372749 ATTAAAGTTG
***
34372759 TTGGTATTGGTATTGCATGGTTTGTTG
1 TTGGTATTGGTATTGCATGGTTTGGAC
34372786 TTGGTATTGGTATTGCATGGTTTGGAC
1 TTGGTATTGGTATTGCATGGTTTGGAC
34372813 TTGGT
1 TTGGT
34372818 TGAGATTGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.12, C:0.05, G:0.34, T:0.49
Consensus pattern (27 bp):
TTGGTATTGGTATTGCATGGTTTGGAC
Found at i:34375428 original size:44 final size:42
Alignment explanation
Indices: 34375378--34375471 Score: 136
Period size: 44 Copynumber: 2.2 Consensus size: 42
34375368 TGTGCTATCA
34375378 TGTAAGACCACGTCTGGGACATTGGCAT-GGACTTATGATTTATG
1 TGTAAGACCACGTCTGGGACATTGGCATCGGA-TT-TGATTT-TG
* *
34375422 TGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGATTTTG
1 TGTAAGACCACGTCTGGGACATTGGCATCGGATTTGATTTTG
34375464 TGTAAGAC
1 TGTAAGAC
34375472 TCTATTTGGG
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
42 10 0.21
43 6 0.13
44 29 0.62
45 2 0.04
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGGATTTGATTTTG
Found at i:34375726 original size:67 final size:67
Alignment explanation
Indices: 34375639--34375774 Score: 254
Period size: 67 Copynumber: 2.0 Consensus size: 67
34375629 CCGATTCTGG
* *
34375639 TACGTTTGAAATGTATACTATGTTTGAGAGCATAGGTAAGTATATGTACAAGTGATGATATGTGA
1 TACGTTTGAAATGTAGACTATGTTTGAGAGCAAAGGTAAGTATATGTACAAGTGATGATATGTGA
34375704 TA
66 TA
34375706 TACGTTTGAAATGTAGACTATGTTTGAGAGCAAAGGTAAGTATATGTACAAGTGATGATATGTGA
1 TACGTTTGAAATGTAGACTATGTTTGAGAGCAAAGGTAAGTATATGTACAAGTGATGATATGTGA
34375771 TA
66 TA
34375773 TA
1 TA
34375775 AGTATGAGAA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.35
Consensus pattern (67 bp):
TACGTTTGAAATGTAGACTATGTTTGAGAGCAAAGGTAAGTATATGTACAAGTGATGATATGTGA
TA
Found at i:34376342 original size:10 final size:10
Alignment explanation
Indices: 34376302--34376348 Score: 51
Period size: 11 Copynumber: 4.6 Consensus size: 10
34376292 TATTGAATAA
*
34376302 TATGCTTTGG
1 TATGATTTGG
34376312 TATGATTTTGG
1 TATGA-TTTGG
*
34376323 TTTAGATTTGG
1 TAT-GATTTGG
34376334 TATGATTTGG
1 TATGATTTGG
34376344 T-TGAT
1 TATGAT
34376349 AAATTGAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 4 0.12
10 12 0.38
11 14 0.44
12 2 0.06
ACGTcount: A:0.17, C:0.02, G:0.28, T:0.53
Consensus pattern (10 bp):
TATGATTTGG
Found at i:34382073 original size:56 final size:56
Alignment explanation
Indices: 34382013--34382149 Score: 238
Period size: 56 Copynumber: 2.4 Consensus size: 56
34382003 TCCTCGACAG
* * * *
34382013 GGTCTTACTCACACACATATATCGAAGTCACATATCGATGCCAACGTATTTAACGT
1 GGTCTTACTCGCACACATATATCGAAGTCACAAAGCGATGCCAACGTATTAAACGT
34382069 GGTCTTACTCGCACACATATATCGAAGTCACAAAGCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATATCGAAGTCACAAAGCGATGCCAACGTATTAAACGT
34382125 GGTCTTACTCGCACACATATATCGA
1 GGTCTTACTCGCACACATATATCGA
34382150 TGCCATGGTC
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 77 1.00
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGAAGTCACAAAGCGATGCCAACGTATTAAACGT
Found at i:34385285 original size:28 final size:28
Alignment explanation
Indices: 34385253--34385321 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
34385243 GCGTAGATCA
34385253 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
34385281 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
34385309 CGATA-TACCCCTA
1 CGAAATTACCCCTA
34385322 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:34387281 original size:16 final size:16
Alignment explanation
Indices: 34387260--34387294 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
34387250 CCCACATTTG
34387260 GGCTTTTCACCTTTTC
1 GGCTTTTCACCTTTTC
*
34387276 GGCTTTTCAGCTTTTC
1 GGCTTTTCACCTTTTC
34387292 GGC
1 GGC
34387295 CTTTGCCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.06, C:0.29, G:0.20, T:0.46
Consensus pattern (16 bp):
GGCTTTTCACCTTTTC
Found at i:34394870 original size:22 final size:22
Alignment explanation
Indices: 34394839--34394890 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
34394829 TATATAACCG
* *
34394839 AATATACATGAACTCA-TATATA
1 AATATTCATGAA-TCATTACATA
*
34394861 TATATTCATGAATCATTACATA
1 AATATTCATGAATCATTACATA
34394883 AATATTCA
1 AATATTCA
34394891 CATTAAATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 3 0.12
22 22 0.88
ACGTcount: A:0.46, C:0.13, G:0.04, T:0.37
Consensus pattern (22 bp):
AATATTCATGAATCATTACATA
Found at i:34395256 original size:56 final size:56
Alignment explanation
Indices: 34395188--34395323 Score: 200
Period size: 56 Copynumber: 2.4 Consensus size: 56
34395178 TCCTAGACAG
*** *
34395188 GGTCTTACTCACACACATATATCGGAGTCAAATATTGGTGCCAACGTATAAAACAT
1 GGTCTTACTCACACACATATATCGGAGTCAAATATCAATGCCAACATATAAAACAT
* * *
34395244 GGTCTTACTCACACACATATATCAGAGTCACATATCAATGCCAACATATAAAACGT
1 GGTCTTACTCACACACATATATCGGAGTCAAATATCAATGCCAACATATAAAACAT
*
34395300 GGTCTTACTCGCACACATATATCG
1 GGTCTTACTCACACACATATATCG
34395324 ATGCCACGGT
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 71 1.00
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.26
Consensus pattern (56 bp):
GGTCTTACTCACACACATATATCGGAGTCAAATATCAATGCCAACATATAAAACAT
Found at i:34395337 original size:31 final size:31
Alignment explanation
Indices: 34395300--34395385 Score: 136
Period size: 31 Copynumber: 2.7 Consensus size: 31
34395290 TATAAAACGT
34395300 GGTCTTACTCGCACACATATATCGATGCCAC
1 GGTCTTACTCGCACACATATATCGATGCCAC
34395331 GGTCTTACTCGCACACATATATCGATGCCAC
1 GGTCTTACTCGCACACATATATCGATGCCAC
* * *
34395362 TGTCTTACTCCCACATCACATATC
1 GGTCTTACTCGCACA-CATATATC
34395386 AGAATCCTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
31 44 0.86
32 7 0.14
ACGTcount: A:0.26, C:0.34, G:0.13, T:0.28
Consensus pattern (31 bp):
GGTCTTACTCGCACACATATATCGATGCCAC
Found at i:34397764 original size:25 final size:25
Alignment explanation
Indices: 34397736--34397785 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
34397726 TATAGTGAAT
*
34397736 TTCCAAAGTATAAATAGGGGATCCA
1 TTCCAAAGTATAAACAGGGGATCCA
*
34397761 TTCCAAAGTATGAACAGGGGATCCA
1 TTCCAAAGTATAAACAGGGGATCCA
34397786 GAAATTGCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (25 bp):
TTCCAAAGTATAAACAGGGGATCCA
Found at i:34400248 original size:29 final size:29
Alignment explanation
Indices: 34400114--34400244 Score: 163
Period size: 29 Copynumber: 4.5 Consensus size: 29
34400104 TGACGAGATT
* *
34400114 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAC
* *
34400143 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGTGCTGGAAAAATAC
*
34400172 GGCACTAAGTGTGCGTGCTAGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAAAATAC
* * **
34400201 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAAAATAC
**
34400230 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
34400245 AGCTCGAAGG
Statistics
Matches: 89, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 89 1.00
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAAAATAC
Found at i:34401906 original size:40 final size:40
Alignment explanation
Indices: 34401829--34402006 Score: 272
Period size: 40 Copynumber: 4.5 Consensus size: 40
34401819 AAACCAAGTA
* *
34401829 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
34401868 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
34401908 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
34401948 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
34401988 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
34402007 TTATCATCCG
Statistics
Matches: 130, Mismatches: 6, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
39 15 0.12
40 115 0.88
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:34410150 original size:40 final size:40
Alignment explanation
Indices: 34410069--34410284 Score: 325
Period size: 39 Copynumber: 5.5 Consensus size: 40
34410059 AAACCAAGTA
* *
34410069 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
34410108 CCTTCGGGACTTAGCCCGGTTATAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
34410148 CCTTCGGGACTTAG-CCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
34410187 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
34410227 CCTTCGGG-CTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
34410266 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
34410285 TTATCATCTG
Statistics
Matches: 164, Mismatches: 8, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
38 1 0.01
39 86 0.52
40 77 0.47
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:34410200 original size:79 final size:78
Alignment explanation
Indices: 34410069--34410288 Score: 336
Period size: 79 Copynumber: 2.8 Consensus size: 78
34410059 AAACCAAGTA
* *
34410069 CCTTCGGGATTTAGCCGGATATAGCTACTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAAT
1 CCTTCGGGACTTAGCCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAAT
34410134 AACTCGCACAAATG
65 AACTCGCACAAATG
* *
34410148 CCTTCGGGACTTAGCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
1 CCTTCGGGACTTAGCCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAAT
34410213 AACTCGCACAAATG
65 AACTCGCACAAATG
*
34410227 CCTTCGGG-CTTAGCCCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAG-CCGGATA-TAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
34410289 CATCTGAATA
Statistics
Matches: 131, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
78 7 0.05
79 124 0.95
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (78 bp):
CCTTCGGGACTTAGCCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAATA
ACTCGCACAAATG
Found at i:34415694 original size:40 final size:40
Alignment explanation
Indices: 34415645--34415754 Score: 157
Period size: 40 Copynumber: 2.8 Consensus size: 40
34415635 TAACTAAAAA
* * *
34415645 TCGGTTATATATGGCACTTAATGTGTGATTCGACATAGCT
1 TCGGCTATATATGGCACTTAGTGTGCGATTCGACATAGCT
*
34415685 TCGGCTATATATGGCACTTAGTGTACGATTCGACATAGCT
1 TCGGCTATATATGGCACTTAGTGTGCGATTCGACATAGCT
* * *
34415725 TTGTCTATATATGGAACTTAGTGTGCGATT
1 TCGGCTATATATGGCACTTAGTGTGCGATT
34415755 TAAGATAGAT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 62 1.00
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (40 bp):
TCGGCTATATATGGCACTTAGTGTGCGATTCGACATAGCT
Found at i:34426311 original size:2 final size:2
Alignment explanation
Indices: 34426306--34426339 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
34426296 GTGAAAGTCG
34426306 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
34426340 TCTAAAAGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:34426852 original size:39 final size:39
Alignment explanation
Indices: 34426779--34426904 Score: 180
Period size: 39 Copynumber: 3.2 Consensus size: 39
34426769 TTCAGTGATG
* *
34426779 TATATCCGGACTTAGTGTCCGCAGACTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * *
34426818 TATATCCGGACTCAGGGTCAGCAGGCTATATGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* *
34426857 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
34426896 TATGTCCGG
1 TATATCCGG
34426905 GCTAAAGTAC
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 76 1.00
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:34426918 original size:39 final size:38
Alignment explanation
Indices: 34426779--34426922 Score: 171
Period size: 39 Copynumber: 3.7 Consensus size: 38
34426769 TTCAGTGATG
* *
34426779 TATATCCGGACTTAGTGTCCGCAGACTATGTGCTGGAAT
1 TATATCCGGACTAAG-GTCCGCAGGCTATGTGCTGGAAT
* * *
34426818 TATATCCGGACTCAGGGTCAGCAGGCTATATGCTGGAAT
1 TATATCCGGACT-AAGGTCCGCAGGCTATGTGCTGGAAT
*
34426857 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAA
1 TATATCCGGAC-TAAGGTCCGCAGGCTATGTGCTGGAAT
* * *
34426896 TATGTCCGGGCTAAAGTACCGCAGGCT
1 TATATCCGGACTAAGGT-CCGCAGGCT
34426923 TCGAGTTGGT
Statistics
Matches: 90, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
38 5 0.06
39 83 0.92
40 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (38 bp):
TATATCCGGACTAAGGTCCGCAGGCTATGTGCTGGAAT
Found at i:34426938 original size:78 final size:78
Alignment explanation
Indices: 34426779--34426922 Score: 193
Period size: 78 Copynumber: 1.8 Consensus size: 78
34426769 TTCAGTGATG
* **
34426779 TATATCCGGACTTAGTGTCCGCAGACTATGTGCTGGAATTATATCCGGACTCAGGGTCAGCAGGC
1 TATATCCGGACTTAGTGTCCGCAGACTATGTGCTGGAAATATATCCGGACTCAAAGTCAGCAGGC
34426844 TATATGCTGGAAT
66 TATATGCTGGAAT
* * * *
34426857 TATATCCGGACTTAAG-GTCCGCAGGCTATGTGCTGGAAATATGTCCGGGCT-AAAGTACCGCAG
1 TATATCCGGACTT-AGTGTCCGCAGACTATGTGCTGGAAATATATCCGGACTCAAAGT-CAGCAG
34426920 GCT
64 GCT
34426923 TCGAGTTGGT
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
77 3 0.05
78 52 0.91
79 2 0.04
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (78 bp):
TATATCCGGACTTAGTGTCCGCAGACTATGTGCTGGAAATATATCCGGACTCAAAGTCAGCAGGC
TATATGCTGGAAT
Found at i:34433139 original size:2 final size:2
Alignment explanation
Indices: 34433134--34433159 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
34433124 TGTGAAATTC
34433134 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
34433160 TACATTCTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34433658 original size:39 final size:39
Alignment explanation
Indices: 34433603--34433708 Score: 149
Period size: 39 Copynumber: 2.7 Consensus size: 39
34433593 TTCAGTGATG
*
34433603 TATATCCGGACTTAGGGTCCGCAGGCTATGTACTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTACTCGAAT
* * * *
34433642 TATATTCGGACCTAGGGTCTGCAGGCTATGTGCTCGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTACTCGAAT
* *
34433681 TATATCCGGACTTAAGGTCCACAGGCTA
1 TATATCCGGACTTAGGGTCCGCAGGCTA
34433709 CATGCTGGAA
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 57 1.00
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTACTCGAAT
Found at i:34449145 original size:40 final size:40
Alignment explanation
Indices: 34449090--34449199 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
34449080 AGAATGGTAT
* *
34449090 CCGGGCTAAGTCCCGAAGGCTTTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * *
34449130 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * *
34449170 CCGGGTAAATTCCCGAAGGCAATTGTGCGA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGA
34449200 ATCACTATAA
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 61 1.00
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
Found at i:34457366 original size:41 final size:40
Alignment explanation
Indices: 34457279--34457458 Score: 191
Period size: 40 Copynumber: 4.5 Consensus size: 40
34457269 CGAATGGTAT
* * * *
34457279 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
34457320 TCGGGTTAAGTCCCGAAGGCATTTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCA-TTTGTGCGAGTTACTAAAA
* *
34457361 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * * *
34457401 CCGGGTAAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
34457441 CCGGG-CAATGTCCCGAAG
1 CCGGGTTAA-GTCCCGAAG
34457459 ACAATCGAGC
Statistics
Matches: 117, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
39 2 0.02
40 61 0.52
41 47 0.40
42 7 0.06
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:34459606 original size:32 final size:32
Alignment explanation
Indices: 34459565--34459649 Score: 116
Period size: 32 Copynumber: 2.7 Consensus size: 32
34459555 TATTAAAATC
* *
34459565 GGCTAGGCCCAACTGATACTGGTTCTGATATG
1 GGCTAGGCCCAACTGATACTGATGCTGATATG
* *
34459597 GGCTAGGCCCAACTGATATTGATGCTGATTTG
1 GGCTAGGCCCAACTGATACTGATGCTGATATG
* *
34459629 GGCTAGGCCCAATTGAGACTG
1 GGCTAGGCCCAACTGATACTG
34459650 TGATGGGTTG
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 46 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.27
Consensus pattern (32 bp):
GGCTAGGCCCAACTGATACTGATGCTGATATG
Found at i:34463363 original size:40 final size:40
Alignment explanation
Indices: 34463317--34463501 Score: 228
Period size: 40 Copynumber: 4.6 Consensus size: 40
34463307 CTTGCACAAG
*
34463317 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
34463357 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
34463397 GCCTTCGGGTCTTAGCCCGAATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* ** * *
34463437 GCCTTCGGATCTTAGTTCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
* *
34463478 GCCTTCGGGACTTAGCCCTGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
34463502 CATTCGAATA
Statistics
Matches: 120, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 92 0.77
41 27 0.22
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:34468289 original size:29 final size:27
Alignment explanation
Indices: 34468255--34468357 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
34468245 TACTCGATCA
*
34468255 CGCACACTTAGTGCCATGTGATTTAAGCC
1 CGCACACTTAGTGCCAT-T-ATTTAAGCT
* * *
34468284 CGCACACATAGTGCCATATAGTTCAAACT
1 CGCACACTTAGTGCCAT-TA-TTTAAGCT
*
34468313 CGCACACTTAGTGCCATACATTTCAAGCT
1 CGCACACTTAGTGCCAT-TATTT-AAGCT
*
34468342 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
34468358 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 59 0.95
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTTAAGCT
Found at i:34474335 original size:40 final size:40
Alignment explanation
Indices: 34474287--34474471 Score: 255
Period size: 40 Copynumber: 4.6 Consensus size: 40
34474277 CTTGCACAAG
*
34474287 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
34474327 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
34474367 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
34474407 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
34474448 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
34474472 CATTCGAATA
Statistics
Matches: 125, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 95 0.76
41 29 0.23
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:34483497 original size:25 final size:25
Alignment explanation
Indices: 34483469--34483538 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
34483459 CTCTTTTAAT
* *
34483469 AACTGGGGCAAAGTCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
34483494 AACTAGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
34483519 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
34483539 AGCACTTCCT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:34483590 original size:16 final size:16
Alignment explanation
Indices: 34483569--34483599 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34483559 AACCCAACCC
*
34483569 ATGCAACATGTCATGT
1 ATGCAAAATGTCATGT
34483585 ATGCAAAATGTCATG
1 ATGCAAAATGTCATG
34483600 CCCATATTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (16 bp):
ATGCAAAATGTCATGT
Found at i:34484494 original size:27 final size:27
Alignment explanation
Indices: 34484441--34484649 Score: 111
Period size: 27 Copynumber: 7.7 Consensus size: 27
34484431 TTTCATCCTA
* * * * *
34484441 CAAGGGTGTTTTGGTAAATGTACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
*
34484468 CAAGGGTATTTTAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* * *
34484495 CAATGGTATTTCTA-TAAATTTTAAAAAGT
1 CAAGGGTATTT-TAGT-AATTTTATAAA-C
* * * *
34484524 TAAGGGTATTTCT-GT-ATTGTGTAAAT
1 CAAGGGTATTT-TAGTAATTTTATAAAC
* * * *
34484550 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAC
** * * *
34484577 TGAGGGTATTTCAATAATTTCATAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* *
34484604 C-AGTGGTATTTTGGTAATTTTACAAAC
1 CAAG-GGTATTTTAGTAATTTTATAAAC
* *
34484631 TAAGGGTATTTTGGTAATT
1 CAAGGGTATTTTAGTAATT
34484650 CTACCCTATA
Statistics
Matches: 138, Mismatches: 36, Indels: 16
0.73 0.19 0.08
Matches are distributed among these distances:
25 1 0.01
26 14 0.10
27 98 0.71
28 13 0.09
29 12 0.09
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTATAAAC
Found at i:34484649 original size:54 final size:53
Alignment explanation
Indices: 34484449--34484649 Score: 183
Period size: 54 Copynumber: 3.7 Consensus size: 53
34484439 TACAAGGGTG
* * * *
34484449 TTTTGGTAAATGTACAAACCAAGGGTATTTTAGTAATTTTGTAAACCAATGGTA
1 TTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAA-TTTGTAAACCAGTGGTA
* * * * *
34484503 TTTCT-ATAAATTTTAAAAAGTTAAGGGTATTTCT-GT-ATTGTGTAAATCAGGGGTA
1 TTT-TGGT-AATTTTACAAA-CTAAGGGTATTT-TAGTAATT-TGTAAACCAGTGGTA
* * * * *
34484558 TTTTGGTAATTTTACAAATTGAGGGTATTTCAATAATTTCATAAACCAGTGGTA
1 TTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAATTT-GTAAACCAGTGGTA
*
34484612 TTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATT
1 TTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAATT
34484650 CTACCCTATA
Statistics
Matches: 116, Mismatches: 22, Indels: 18
0.74 0.14 0.12
Matches are distributed among these distances:
53 13 0.11
54 64 0.55
55 26 0.22
56 12 0.10
57 1 0.01
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.41
Consensus pattern (53 bp):
TTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAATTTGTAAACCAGTGGTA
Found at i:34484719 original size:27 final size:27
Alignment explanation
Indices: 34484686--34484772 Score: 129
Period size: 27 Copynumber: 3.2 Consensus size: 27
34484676 TTCACAGTCG
** *
34484686 AGGGTAAAATGGTAATTTTGTAAATCA
1 AGGGTAAAACAGTAATTCTGTAAATCA
34484713 AGGGTAAAACAGTAATTCTGTAAATCA
1 AGGGTAAAACAGTAATTCTGTAAATCA
* *
34484740 AGGGTAAAACAGTAATTCTATAAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCA
34484767 AGGGTA
1 AGGGTA
34484773 CTTTGGTAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.43, C:0.08, G:0.22, T:0.28
Consensus pattern (27 bp):
AGGGTAAAACAGTAATTCTGTAAATCA
Found at i:34487196 original size:30 final size:31
Alignment explanation
Indices: 34487115--34487197 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
34487105 TCAGTCTCGA
*
34487115 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTAGGCCGAAGCCTTTTCATAAAT
*
34487145 CATATCATTAGGCCGAAGCCTTTTCATAAAT
1 CATATCACTAGGCCGAAGCCTTTTCATAAAT
*
34487176 CATATCACT-GGCCAAAGCCTTT
1 CATATCACTAGGCCGAAGCCTTT
34487198 ACTGTAAGTG
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 17 0.35
31 31 0.65
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.30
Consensus pattern (31 bp):
CATATCACTAGGCCGAAGCCTTTTCATAAAT
Found at i:34488395 original size:27 final size:27
Alignment explanation
Indices: 34488357--34488454 Score: 92
Period size: 27 Copynumber: 3.6 Consensus size: 27
34488347 GGTAAATTAC
34488357 AAACCAAGGGTATTTC-AGTAATTTTGT
1 AAACCAAGGGTATTTCTA-TAATTTTGT
*
34488384 AAACCAATGGTATTTCTATAATTTT-T
1 AAACCAAGGGTATTTCTATAATTTTGT
* * *
34488410 AGAAAGTCAAGGGTATTTCTGTAATTATGT
1 --AAA-CCAAGGGTATTTCTATAATTTTGT
* *
34488440 AAATCAGGGGTATTT
1 AAACCAAGGGTATTT
34488455 TGGTAATTTT
Statistics
Matches: 60, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
26 1 0.02
27 33 0.55
28 7 0.12
29 18 0.30
30 1 0.02
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:34488460 original size:27 final size:26
Alignment explanation
Indices: 34488440--34488543 Score: 104
Period size: 27 Copynumber: 3.9 Consensus size: 26
34488430 GTAATTATGT
*
34488440 AAATCAGGGGTATTTTGGTAATTTTAT
1 AAATCAGGGGTATTTTGGTAA-TTTAC
* * *
34488467 AAGT-TGAGGGTATTTCGGTAATTTCAC
1 AAATCAG-GGGTATTTTGGTAATTT-AC
*
34488494 AAATCAGTGGTATTTTGGTAATTTCAC
1 AAATCAGGGGTATTTTGGTAATTT-AC
34488521 AAA-CTAGGGGTATTTTGGTAATT
1 AAATC-AGGGGTATTTTGGTAATT
34488544 CTACCCTATA
Statistics
Matches: 64, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
26 5 0.08
27 58 0.91
28 1 0.02
ACGTcount: A:0.29, C:0.08, G:0.23, T:0.40
Consensus pattern (26 bp):
AAATCAGGGGTATTTTGGTAATTTAC
Found at i:34488462 original size:56 final size:54
Alignment explanation
Indices: 34488361--34488517 Score: 156
Period size: 54 Copynumber: 2.9 Consensus size: 54
34488351 AATTACAAAC
* * *
34488361 CAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCT-ATAATTTTTAGAAAGT
1 CAAGGGTATTTCAGTAA-TTTGTAAATCAGTGGTATTT-TGGTAATTTTTA-AAAGT
* * *
34488417 CAAGGGTATTTCTGTAATTATGTAAATCAGGGGTATTTTGGTAA-TTTTATAAGT
1 CAAGGGTATTTCAGTAATT-TGTAAATCAGTGGTATTTTGGTAATTTTTAAAAGT
** * **
34488471 TGAGGGTATTTCGGTAATTTCACAAATCAGTGGTATTTTGGTAATTT
1 CAAGGGTATTTCAGTAATTT-GTAAATCAGTGGTATTTTGGTAATTT
34488518 CACAAACTAG
Statistics
Matches: 85, Mismatches: 12, Indels: 9
0.80 0.11 0.08
Matches are distributed among these distances:
53 1 0.01
54 40 0.47
55 10 0.12
56 34 0.40
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (54 bp):
CAAGGGTATTTCAGTAATTTGTAAATCAGTGGTATTTTGGTAATTTTTAAAAGT
Found at i:34488532 original size:54 final size:54
Alignment explanation
Indices: 34488440--34488543 Score: 138
Period size: 54 Copynumber: 1.9 Consensus size: 54
34488430 GTAATTATGT
* * * *
34488440 AAATCAGGGGTATTTTGGTAATTTTATAAGTTGAGGGTATTTCGGTAATTTCAC
1 AAATCAGGGGTATTTTGGTAATTTCAAAACTAGAGGGTATTTCGGTAATTTCAC
* *
34488494 AAATCAGTGGTATTTTGGTAATTTCACAAACTAG-GGGTATTTTGGTAATT
1 AAATCAGGGGTATTTTGGTAATTTCA-AAACTAGAGGGTATTTCGGTAATT
34488544 CTACCCTATA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
54 39 0.91
55 4 0.09
ACGTcount: A:0.29, C:0.08, G:0.23, T:0.40
Consensus pattern (54 bp):
AAATCAGGGGTATTTTGGTAATTTCAAAACTAGAGGGTATTTCGGTAATTTCAC
Found at i:34488582 original size:26 final size:26
Alignment explanation
Indices: 34488416--34488584 Score: 103
Period size: 27 Copynumber: 6.3 Consensus size: 26
34488406 TTTTAGAAAG
* *
34488416 TCAAGGGTATTTCTGTAATTATGTA-AA
1 TCAAGGGTATTTCGGTAATT-T-CACAA
* * * *
34488443 TCAGGGGTATTTTGGTAATTTTATAA
1 TCAAGGGTATTTCGGTAATTTCACAA
**
34488469 GTTGAGGGTATTTCGGTAATTTCACAAA
1 -TCAAGGGTATTTCGGTAATTTCAC-AA
*
34488497 TC-AGTGGTATTTTGGTAATTTCACAA
1 TCAAG-GGTATTTCGGTAATTTCACAA
* * * **
34488523 ACTAGGGGTATTTTGGTAA-TTCTACCC
1 TC-AAGGGTATTTCGGTAATTTC-ACAA
*
34488550 T-ATAGGGTATTTCAGTAATTTCACAA
1 TCA-AGGGTATTTCGGTAATTTCACAA
34488576 TCAAGGGTA
1 TCAAGGGTA
34488585 AAACAGTAAT
Statistics
Matches: 111, Mismatches: 21, Indels: 21
0.73 0.14 0.14
Matches are distributed among these distances:
25 3 0.03
26 32 0.29
27 73 0.66
28 3 0.03
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (26 bp):
TCAAGGGTATTTCGGTAATTTCACAA
Found at i:34488591 original size:26 final size:25
Alignment explanation
Indices: 34488562--34488649 Score: 95
Period size: 26 Copynumber: 3.4 Consensus size: 25
34488552 TAGGGTATTT
34488562 CAGTAATTTCACAATCAAGGGTAAAA
1 CAGTAATTTCA-AATCAAGGGTAAAA
* * *
34488588 CAGTAATTTGTAAATCGATGGTAAAA
1 CAGTAATTT-CAAATCAAGGGTAAAA
*
34488614 CAGTAATTCTATAAATCAAGGGTAAAA
1 CAGTAATT-T-CAAATCAAGGGTAAAA
*
34488641 TAGTAATTT
1 CAGTAATTT
34488650 TATAAATCAA
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
26 30 0.57
27 23 0.43
ACGTcount: A:0.44, C:0.10, G:0.16, T:0.30
Consensus pattern (25 bp):
CAGTAATTTCAAATCAAGGGTAAAA
Found at i:34488637 original size:27 final size:26
Alignment explanation
Indices: 34488574--34488664 Score: 119
Period size: 27 Copynumber: 3.4 Consensus size: 26
34488564 GTAATTTCAC
*
34488574 AATCAAGGGTAAAACAGTAATTTGTA
1 AATCAAGGGTAAAACAGTAATTTATA
* *
34488600 AATCGATGGTAAAACAGTAATTCTATA
1 AATCAAGGGTAAAACAGTAATT-TATA
*
34488627 AATCAAGGGTAAAATAGTAATTTTATA
1 AATCAAGGGTAAAACAGTAA-TTTATA
*
34488654 AATCAATGGTA
1 AATCAAGGGTA
34488665 CTTTGGTAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
26 20 0.36
27 34 0.61
28 2 0.04
ACGTcount: A:0.46, C:0.08, G:0.16, T:0.30
Consensus pattern (26 bp):
AATCAAGGGTAAAACAGTAATTTATA
Found at i:34492917 original size:15 final size:15
Alignment explanation
Indices: 34492899--34492927 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
34492889 TCATATTCGA
34492899 CCATAATATATATAG
1 CCATAATATATATAG
34492914 CCATAATATATATA
1 CCATAATATATATA
34492928 AATTCATACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.14, G:0.03, T:0.34
Consensus pattern (15 bp):
CCATAATATATATAG
Found at i:34496105 original size:41 final size:41
Alignment explanation
Indices: 34496048--34496267 Score: 354
Period size: 41 Copynumber: 5.3 Consensus size: 41
34496038 ACATAAAATT
*
34496048 TGCTAGGC-ATAAAGCCT-AGTATAATACACCGGCACAGAGCC
1 TGCTAGGCAAT-AAGCCTGA-TATAATACACCGGCACAAAGCC
*
34496089 TGCTAGGCAATAAGCCTGATATAATACACCGGCATATAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGC--ACAAAGCC
34496132 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
*
34496173 TGCTAGGCAATAAGCCTGATTTAATACACCGGCACAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
*
34496214 TGCTAGGCAATAAGCCTGATTTAATACACCGGCACAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
34496255 TGCTAGGCAATAA
1 TGCTAGGCAATAA
34496268 AGCCCGAATA
Statistics
Matches: 171, Mismatches: 4, Indels: 8
0.93 0.02 0.04
Matches are distributed among these distances:
41 129 0.75
42 3 0.02
43 39 0.23
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.19
Consensus pattern (41 bp):
TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
Found at i:34496181 original size:84 final size:82
Alignment explanation
Indices: 34496048--34496267 Score: 354
Period size: 84 Copynumber: 2.7 Consensus size: 82
34496038 ACATAAAATT
*
34496048 TGCTAGGC-ATAAAGCCT-AGTATAATACACCGGCACAGAGCCTGCTAGGCAATAAGCCTGATAT
1 TGCTAGGCAAT-AAGCCTGA-TATAATACACCGGCACAAAGCCTGCTAGGCAATAAGCCTGATAT
*
34496111 AATACACCGGCATATAAAGCC
64 AATACACCGGC--ACAAAGCC
*
34496132 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCCTGCTAGGCAATAAGCCTGATTTAA
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCCTGCTAGGCAATAAGCCTGATATAA
34496197 TACACCGGCACAAAGCC
66 TACACCGGCACAAAGCC
*
34496214 TGCTAGGCAATAAGCCTGATTTAATACACCGGCACAAAGCCTGCTAGGCAATAA
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCCTGCTAGGCAATAA
34496268 AGCCCGAATA
Statistics
Matches: 130, Mismatches: 4, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
82 60 0.46
84 67 0.52
85 3 0.02
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.19
Consensus pattern (82 bp):
TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCCTGCTAGGCAATAAGCCTGATATAA
TACACCGGCACAAAGCC
Found at i:34497759 original size:43 final size:42
Alignment explanation
Indices: 34497688--34497854 Score: 180
Period size: 43 Copynumber: 3.9 Consensus size: 42
34497678 CAGAAAGCTC
* ** *
34497688 ATACAATGCCAACGTCCCAGACGTGGTCTTACTTGTAATCAA
1 ATACGATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAA
*
34497730 ATATCGATGCC-ACTGTCCCAGACAG-GGTCTTCCACGAAATCAA
1 ATA-CGATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAAATCAA
34497773 ATACGATGCCAACGTCCCAGACGTGGTCTTACAC-ATAAGTCATA
1 ATACGATGCCAACGTCCCAGACGTGGTCTTACACGA-AA-TCA-A
* *
34497817 AGT-TGATGCCAACGTCCCAGACGTGGTCTTACAAGAAA
1 A-TACGATGCCAACGTCCCAGACGTGGTCTTACACGAAA
34497855 ACACATATCG
Statistics
Matches: 107, Mismatches: 8, Indels: 18
0.80 0.06 0.14
Matches are distributed among these distances:
41 2 0.02
42 32 0.30
43 37 0.35
44 34 0.32
45 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (42 bp):
ATACGATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAA
Found at i:34501526 original size:120 final size:120
Alignment explanation
Indices: 34501313--34501535 Score: 360
Period size: 120 Copynumber: 1.9 Consensus size: 120
34501303 TGGATGATAA
* *
34501313 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTGG
*
34501378 TGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTGCTATAT
66 TGCGAGGTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTGCTATAT
*
34501433 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTA-TATCCGGGCTAAGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAG-TGACTAGT-TCCGGGCTAAGTCCCGAAGGCATT
**
34501496 GGTGCGAGGTACTATATCCGGGCTTTGTCCCGAAGGCATT
64 GGTGCGAGGTACTATATCCGGGCTAAGTCCCGAAGGCATT
34501536 CGAGCGAGTA
Statistics
Matches: 95, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
119 1 0.01
120 92 0.97
121 2 0.02
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.26
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTGG
TGCGAGGTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTGCTATAT
Found at i:34501552 original size:40 final size:40
Alignment explanation
Indices: 34501313--34501556 Score: 325
Period size: 40 Copynumber: 6.1 Consensus size: 40
34501303 TGGATGATAA
* *
34501313 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGT-GACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAG-CTA-TAT
34501353 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATAT
* *
34501393 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATAT
*
34501433 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATAT
*
34501473 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGGTA-CTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTAGCTATAT
** * * *
34501513 CCGGGCTTTGTCCCGAAGGCATTCGAGCGAGTAGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATAT
34501553 CCGG
1 CCGG
34501557 TTAAATCTCG
Statistics
Matches: 186, Mismatches: 12, Indels: 12
0.89 0.06 0.06
Matches are distributed among these distances:
39 5 0.03
40 178 0.96
41 3 0.02
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATAT
Found at i:34501954 original size:6 final size:6
Alignment explanation
Indices: 34501945--34501978 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
34501935 ACTCGGGATT
34501945 GTCGAA GTCGAA GTCGAA GTCGAA GTCGAA GTCG
1 GTCGAA GTCGAA GTCGAA GTCGAA GTCGAA GTCG
34501979 TCCACACTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.29, C:0.18, G:0.35, T:0.18
Consensus pattern (6 bp):
GTCGAA
Found at i:34509817 original size:27 final size:27
Alignment explanation
Indices: 34509575--34509807 Score: 294
Period size: 27 Copynumber: 8.6 Consensus size: 27
34509565 AAAGTACTCC
*
34509575 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
*
34509602 C-AGTTTATAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACTGTTTTACCCT
** * *
34509629 CGATTTGTAAAATTACCGTTTTACCC-
1 CGATTTACAGAATTACTGTTTTACCCT
* * *
34509655 CTAATTTACATAATTACCGTTTTACCCT
1 C-GATTTACAGAATTACTGTTTTACCCT
*
34509683 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACTGTTTTACCCT
34509710 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
34509737 C-AGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACTGTTTTACCCT
*
34509764 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
*
34509791 CGATTTACAAAATTACT
1 CGATTTACAGAATTACT
34509808 AAAATACCCT
Statistics
Matches: 182, Mismatches: 16, Indels: 16
0.85 0.07 0.07
Matches are distributed among these distances:
26 4 0.02
27 174 0.96
28 4 0.02
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACTGTTTTACCCT
Found at i:34509817 original size:81 final size:82
Alignment explanation
Indices: 34509577--34509807 Score: 342
Period size: 81 Copynumber: 2.8 Consensus size: 82
34509567 AGTACTCCCG
* **
34509577 ATTTACAGAATTACCGTTTTACCCTCAGTTTATAGAATTACTGTTTTACCCTCGATTTGTAAAAT
1 ATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTGTTTTACCCTCGATTTACAAAAT
*
34509642 TACCGTTTTACCC-CTA
66 TACTGTTTTACCCTCTA
* * *
34509658 ATTTACATAATTACCGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCGATTTACAGAAT
1 ATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTGTTTTACCCTCGATTTACAAAAT
34509723 TACTGTTTTACCCTC-A
66 TACTGTTTTACCCTCTA
* * *
34509739 GTTTACAGAATTACTGTTTTACCCT-TGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAA
1 ATTTACAGAATTACCGTTTTACCCTCAG-TTTACAGAATTACTGTTTTACCCTCGATTTACAAAA
34509803 TTACT
65 TTACT
34509808 AAAATACCCT
Statistics
Matches: 135, Mismatches: 13, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
80 1 0.01
81 133 0.99
82 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (82 bp):
ATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTGTTTTACCCTCGATTTACAAAAT
TACTGTTTTACCCTCTA
Found at i:34509843 original size:81 final size:81
Alignment explanation
Indices: 34509686--34509844 Score: 176
Period size: 81 Copynumber: 2.0 Consensus size: 81
34509676 TTACCCTCAG
* ****
34509686 TTTACAGAATTACTATTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCAGTTTACAGAATT
1 TTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACTAAAATACCCTCAGTTTACAGAATT
* ***
34509751 ACTGTTTTACCCTTGA
66 ACCGCAATACCCTTGA
* ** **
34509767 TTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTT-GTGAAAT
1 TTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACTAAAATACCCTCAGTTTACAG-AAT
34509831 TACCGCAATACCCT
65 TACCGCAATACCCT
34509845 CAATTTGTAA
Statistics
Matches: 63, Mismatches: 14, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
80 1 0.02
81 62 0.98
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.39
Consensus pattern (81 bp):
TTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACTAAAATACCCTCAGTTTACAGAATT
ACCGCAATACCCTTGA
Found at i:34511131 original size:9 final size:9
Alignment explanation
Indices: 34511119--34511175 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
34511109 TTTGATAAAC
34511119 ATGATATGT
1 ATGATATGT
*
34511128 ATGATATGCAC
1 ATGATATG--T
*
34511139 ATGACATGT
1 ATGATATGT
*
34511148 ATGATATGCAC
1 ATGATATG--T
34511159 ATGATATGT
1 ATGATATGT
34511168 ATGATATG
1 ATGATATG
34511176 CCTAAAAGAG
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:34511142 original size:20 final size:20
Alignment explanation
Indices: 34511117--34511176 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
34511107 ATTTTGATAA
34511117 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
34511137 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
34511157 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
34511177 CTAAAAGAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Done.