Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 185 of 356
Found at i:59883598 original size:21 final size:21
Alignment explanation
Indices: 59883551--59883603 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
59883541 AATAAAGAAT
* *
59883551 TAAATCAAATTCAAAATAACT
1 TAAATTAAATTCAAAATAACA
59883572 TAAATTAAATTCAAAATAACA
1 TAAATTAAATTCAAAATAACA
59883593 TAAATTGAAAT
1 TAAATT-AAAT
59883604 ACTTTAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 25 0.86
22 4 0.14
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.30
Consensus pattern (21 bp):
TAAATTAAATTCAAAATAACA
Found at i:59896243 original size:40 final size:39
Alignment explanation
Indices: 59896192--59896379 Score: 245
Period size: 40 Copynumber: 4.7 Consensus size: 39
59896182 AGCTACTGCT
59896192 CAAATGCCTTCGGGACTTAGCCCAGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GTTATAGTAACTCGCA
* *
59896232 CAAATGCCTTCGGGACTTAACCCGGATATAGT-ACTTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GTTATAGTAAC-TCGCA
59896272 CAAATGCCTTCGGGACTTAGCCCGTATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGT-TATAGTAACTCGCA
** * * *
59896312 CAAATGCCTTCGGGACTT-GCCCGGAACTAGTCACTAGCG
1 CAAATGCCTTCGGGACTTAGCCCGTTA-TAGTAACTCGCA
59896351 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCC-GTTAT
59896380 CATCCAAATA
Statistics
Matches: 130, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
38 1 0.01
39 35 0.27
40 90 0.69
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGTTATAGTAACTCGCA
Found at i:59896291 original size:80 final size:76
Alignment explanation
Indices: 59896160--59896379 Score: 289
Period size: 80 Copynumber: 2.8 Consensus size: 76
59896150 CAACCAAGTA
** * *
59896160 CCTTCGGGGTTTAGCCGGATATAGCTACTGCTCAAATGCCTTCGGGACTTAGCCCAGTTATAGTA
1 CCTTCGGGACTTACCCGGATATAG-TACTGCACAAATGCCTTCGGGACTTAGCCC-GTTATAGTA
59896225 ACTCGCACAAATG
64 ACTCGCACAAATG
59896238 CCTTCGGGACTTAACCCGGATATAGTACTTCGCACAAATGCCTTCGGGACTTAGCCCGTATATAG
1 CCTTCGGGACTT-ACCCGGATATAGTAC-T-GCACAAATGCCTTCGGGACTTAGCCCGT-TATAG
59896303 TAACTCGCACAAATG
62 TAACTCGCACAAATG
* *
59896318 CCTTCGGGACTTGCCCGGA-ACTAGTCACTAGCGCAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTACCCGGATA-TAGT-ACT-GCACAAATGCCTTCGGGACTTAGCCC-GTTAT
59896380 CATCCAAATA
Statistics
Matches: 128, Mismatches: 7, Indels: 13
0.86 0.05 0.09
Matches are distributed among these distances:
78 14 0.11
79 53 0.41
80 61 0.48
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (76 bp):
CCTTCGGGACTTACCCGGATATAGTACTGCACAAATGCCTTCGGGACTTAGCCCGTTATAGTAAC
TCGCACAAATG
Found at i:59903322 original size:40 final size:40
Alignment explanation
Indices: 59903222--59903446 Score: 242
Period size: 40 Copynumber: 5.7 Consensus size: 40
59903212 GCTCCTCGTT
* * * *
59903222 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
59903262 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
59903301 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
59903341 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
59903381 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
59903422 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
59903447 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.66
41 15 0.09
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:59903455 original size:41 final size:41
Alignment explanation
Indices: 59903378--59903455 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
59903368 TTTGTATCTC
* * *
59903378 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
59903419 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
59903456 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:59910585 original size:40 final size:39
Alignment explanation
Indices: 59910487--59910709 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
59910477 TCCTCGTTCA
* * * *
59910487 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
59910526 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
59910565 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
59910605 AAAGGCCTTCAGGG-CTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTC-GGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
59910645 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
59910686 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
59910710 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 19, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.01
39 38 0.24
40 102 0.65
41 15 0.10
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:59910718 original size:41 final size:41
Alignment explanation
Indices: 59910641--59910718 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
59910631 TTTGTATCTC
* * *
59910641 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
59910682 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
59910719 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:59914785 original size:40 final size:40
Alignment explanation
Indices: 59914702--59914917 Score: 264
Period size: 40 Copynumber: 5.5 Consensus size: 40
59914692 CAACCAAGTA
** *
59914702 CCTTCGGGGTTTAG-CCGGATATAGCT-ACT-GCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
59914740 CCTTCGGGACTTAGCCCAGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
59914780 CCTTCGGGACTTAACCCGGATATAGT-ACTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAAC-TCGCACAAATG
*
59914820 CCTTCAGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
59914860 CCTTCGGGACTT-GCCCAGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
59914899 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
59914918 TTATCATCCA
Statistics
Matches: 155, Mismatches: 16, Indels: 12
0.85 0.09 0.07
Matches are distributed among these distances:
38 14 0.09
39 46 0.30
40 93 0.60
41 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:59927079 original size:13 final size:13
Alignment explanation
Indices: 59927061--59927090 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
59927051 TTTAAGCTAA
59927061 ACTTCTCAAAAGC
1 ACTTCTCAAAAGC
*
59927074 ACTTCTCAAAGGC
1 ACTTCTCAAAAGC
59927087 ACTT
1 ACTT
59927091 TTTCACAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.30, G:0.10, T:0.27
Consensus pattern (13 bp):
ACTTCTCAAAAGC
Found at i:59933304 original size:14 final size:14
Alignment explanation
Indices: 59933281--59933313 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
59933271 TAGGGTATAA
*
59933281 GTTAATGTAAGTAT
1 GTTAACGTAAGTAT
59933295 GTTAACGTAAGTAT
1 GTTAACGTAAGTAT
59933309 GTTAA
1 GTTAA
59933314 GTCTATGGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.36, C:0.03, G:0.21, T:0.39
Consensus pattern (14 bp):
GTTAACGTAAGTAT
Found at i:59941554 original size:69 final size:69
Alignment explanation
Indices: 59941441--59941940 Score: 396
Period size: 69 Copynumber: 7.3 Consensus size: 69
59941431 ATTCTTCACT
* * * * * * * *
59941441 TGCAAACATTGTTTTTATAGCTGGGAGGTTT-ATGCTCGCTAACTGTTTCGGAAGTTGTGGCTTT
1 TGCAAACCTTGATTTTACAGCTGGGAGCTTTGCT-CTCGCTAACTGTTTCGGAGGTTGCGGCTCT
*
59941505 TTGCC
65 TCGCC
* * * * * ***
59941510 TACAAACCTTGATTTTATAGCTGGGAGATTTGCTATCACTAACTGTTT-GGAGGTTGCAATTCTT
1 TGCAAACCTTGATTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTCGGAGGTTGCGGCTCTT
59941574 CGCC
66 CGCC
** * * * * ** *
59941578 TGTGAACCTTGATTTTATAACTGGGAGTTTTGCTCTCGCTAACTATTTTAGAGGTTGCAGCTCTT
1 TGCAAACCTTGATTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTCGGAGGTTGCGGCTCTT
59941643 CGCC
66 CGCC
* * * * *
59941647 TGCGAACCTTAATTTTACCGCTGGGAGCTTTGCTCTCACTAACTGTTTTGGAGGTTGCGGCTCTT
1 TGCAAACCTTGATTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTCGGAGGTTGCGGCTCTT
59941712 CGCC
66 CGCC
* ** * * *
59941716 TGCGAACCTT-ATTTTTACAGCTGGGAGCTTTGCTCTTTCTAACTGTTTCGAAGGTTGCGACCCT
1 TGCAAACCTTGA-TTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTCGGAGGTTGCGGCTCT
*
59941780 TCACC
65 TCGCC
* * * * * * **
59941785 TACAAAGCTTGATTTTACAGCTGGGTGCTTTGCTCTCGCTAACTATTTTGGAGGTTACAACTCTT
1 TGCAAACCTTGATTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTCGGAGGTTGCGGCTCTT
*
59941850 CACC
66 CGCC
* * * ** * * * ** *
59941854 TGCGAACCTTTATTTTACAGTTGGGAATTTTGCTCTTGTTAACTATTTTAGAGG-TACGGGCTCT
1 TGCAAACCTTGATTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTCGGAGGTTGC-GGCTCT
59941918 TCGCC
65 TCGCC
** *
59941923 TGTGAACCTAGATTTTAC
1 TGCAAACCTTGATTTTAC
59941941 CAAAGATAGT
Statistics
Matches: 354, Mismatches: 72, Indels: 10
0.81 0.17 0.02
Matches are distributed among these distances:
68 57 0.16
69 295 0.83
70 2 0.01
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.38
Consensus pattern (69 bp):
TGCAAACCTTGATTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTCGGAGGTTGCGGCTCTT
CGCC
Found at i:59941771 original size:138 final size:137
Alignment explanation
Indices: 59941452--59941897 Score: 467
Period size: 138 Copynumber: 3.2 Consensus size: 137
59941442 GCAAACATTG
* * * *
59941452 TTTTTATAGCTGGGAGGTTTATGCTC--GCTAACTGTTTCGGAA-GTTGTGGCTTTTTGCCTACA
1 TTTTTACAGCTGGGA-GTTT-TGCTCTTGCTAACTGTTTC-GAAGGTTG-CGCTCTTCGCCTACA
* * * *
59941514 AACCTTGATTTTATAGCTGGGAGATTTGCTATCACTAACTG-TTTGGAGGTTGCAATTCTTCGCC
62 AACCTTGATTTTACAGCTGGGAGCTTTGCTCTCACTAACTGTTTTGGAGGTTGCAACTCTTCGCC
*
59941578 TGTGAACCTTGA
127 TGCGAACCTT-A
* * * * *
59941590 TTTTATA-A-CTGGGAGTTTTGCTCTCGCTAACTATTT-TAGAGGTTGCAGCTCTTCGCCTGCGA
1 TTTT-TACAGCTGGGAGTTTTGCTCTTGCTAACTGTTTCGA-AGGTTGC-GCTCTTCGCCTACAA
* * **
59941652 ACCTTAATTTTACCGCTGGGAGCTTTGCTCTCACTAACTGTTTTGGAGGTTGCGGCTCTTCGCCT
63 ACCTTGATTTTACAGCTGGGAGCTTTGCTCTCACTAACTGTTTTGGAGGTTGCAACTCTTCGCCT
59941717 GCGAACCTTA
128 GCGAACCTTA
* * * * *
59941727 TTTTTACAGCTGGGAGCTTTGCTCTTTCTAACTGTTTCGAAGGTTGCGACCCTTCACCTACAAAG
1 TTTTTACAGCTGGGAGTTTTGCTCTTGCTAACTGTTTCGAAGGTTGCG-CTCTTCGCCTACAAAC
* * * * *
59941792 CTTGATTTTACAGCTGGGTGCTTTGCTCTCGCTAACTATTTTGGAGGTTACAACTCTTCACCTGC
65 CTTGATTTTACAGCTGGGAGCTTTGCTCTCACTAACTGTTTTGGAGGTTGCAACTCTTCGCCTGC
59941857 GAACCTT-
130 GAACCTTA
* * *
59941864 TATTTTACAGTTGGGAATTTTGCTCTTGTTAACT
1 T-TTTTACAGCTGGGAGTTTTGCTCTTGCTAACT
59941898 ATTTTAGAGG
Statistics
Matches: 256, Mismatches: 40, Indels: 24
0.80 0.12 0.08
Matches are distributed among these distances:
135 6 0.02
136 7 0.03
137 74 0.29
138 166 0.65
139 3 0.01
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.38
Consensus pattern (137 bp):
TTTTTACAGCTGGGAGTTTTGCTCTTGCTAACTGTTTCGAAGGTTGCGCTCTTCGCCTACAAACC
TTGATTTTACAGCTGGGAGCTTTGCTCTCACTAACTGTTTTGGAGGTTGCAACTCTTCGCCTGCG
AACCTTA
Found at i:59941832 original size:207 final size:206
Alignment explanation
Indices: 59941479--59941940 Score: 505
Period size: 207 Copynumber: 2.2 Consensus size: 206
59941469 TTTATGCTCG
* * * * * * * *
59941479 CTAACTGTTTCGGAAGTTGTGGCTTTTTGCCTACAAACCTTGATTTTATAGCTGGGAGATTTGCT
1 CTAACTGTTTTGGAGGTTGCGGCTCTTCGCCTGCGAACCTTGATTTTACAGCTGGGAGATTTGCT
* ** * *** * *
59941544 ATCACTAACTGTTTGGAGGTTGCAATTCTTCGCCTGTGAACCTTGATTTTATAACTGGGAGTTTT
66 ATCACTAACTGTTTGAAGGTTGCAACCCTTCACCTACAAACCTTGATTTTACAACTGGGAGCTTT
* * * * *
59941609 GCTCTCGCTAACTATTTTAGAGGTTGCAGCTCTTCGCCTGCGAACCTTAATTTTACCGCTGGGAG
131 GCTCTCGCTAACTATTTTAGAGGTTACAACTCTTCACCTGCGAACCTTAATTTTACAGCTGGGAA
59941674 CTTTGCTCTCA
196 CTTTGCTCTCA
*
59941685 CTAACTGTTTTGGAGGTTGCGGCTCTTCGCCTGCGAACCTT-ATTTTTACAGCTGGGAGCTTTGC
1 CTAACTGTTTTGGAGGTTGCGGCTCTTCGCCTGCGAACCTTGA-TTTTACAGCTGGGAGATTTGC
* ** * * * *
59941749 TCTTTCTAACTGTTTCGAAGGTTGCGACCCTTCACCTACAAAGCTTGATTTTACAGCTGGGTGCT
65 TATCACTAACTGTTT-GAAGGTTGCAACCCTTCACCTACAAACCTTGATTTTACAACTGGGAGCT
* * *
59941814 TTGCTCTCGCTAACTATTTTGGAGGTTACAACTCTTCACCTGCGAACCTTTATTTTACAGTTGGG
129 TTGCTCTCGCTAACTATTTTAGAGGTTACAACTCTTCACCTGCGAACCTTAATTTTACAGCTGGG
* **
59941879 AATTTTGCTCTTG
194 AACTTTGCTCTCA
* * * * * *
59941892 TTAACTATTTTAGAGG-TACGGGCTCTTCGCCTGTGAACCTAGATTTTAC
1 CTAACTGTTTTGGAGGTTGC-GGCTCTTCGCCTGCGAACCTTGATTTTAC
59941941 CAAAGATAGT
Statistics
Matches: 210, Mismatches: 42, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
205 1 0.00
206 67 0.32
207 141 0.67
208 1 0.00
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.38
Consensus pattern (206 bp):
CTAACTGTTTTGGAGGTTGCGGCTCTTCGCCTGCGAACCTTGATTTTACAGCTGGGAGATTTGCT
ATCACTAACTGTTTGAAGGTTGCAACCCTTCACCTACAAACCTTGATTTTACAACTGGGAGCTTT
GCTCTCGCTAACTATTTTAGAGGTTACAACTCTTCACCTGCGAACCTTAATTTTACAGCTGGGAA
CTTTGCTCTCA
Found at i:59941937 original size:138 final size:137
Alignment explanation
Indices: 59941514--59941940 Score: 450
Period size: 138 Copynumber: 3.1 Consensus size: 137
59941504 TTTGCCTACA
* * * * * *
59941514 AACCTTGATTTTATAGCTGGGAGATTTGCTATCACTAACTGTTTGGAGGTTGCAATTCTTCGCCT
1 AACCTAGATTTTACAGCTGGGAGCTTTGCTCTCACTAACTTTTTGGAGGTTGCAACTCTTCGCCT
* * * * * * *
59941579 GTGAACCTTGATTTTATAACTGGGAGTTTTGCTCTCGCTAACTATTTTAGAGGTTGCAGCTCTTC
66 GCGAACCTTTATTTTACAGCTGGGAGTTTTGCTCTTGTTAACTATTTTAGAGGTTGCGGCTCTTC
59941644 GCCTGCG
131 GCCTGCG
* **
59941651 AACCTTA-ATTTTACCGCTGGGAGCTTTGCTCTCACTAACTGTTTTGGAGGTTGCGGCTCTTCGC
1 AACC-TAGATTTTACAGCTGGGAGCTTTGCTCTCACTAACT-TTTTGGAGGTTGCAACTCTTCGC
* * * *
59941715 CTGCGAACC-TTATTTTTACAGCTGGGAGCTTTGCTCTT-TCTAACT-GTTTCGAAGGTTGCGAC
64 CTGCGAACCTTTA-TTTTACAGCTGGGAGTTTTGCTCTTGT-TAACTATTTTAG-AGGTTGCGGC
* * * *
59941777 CCTTCACCTACA
126 TCTTCGCCTGCG
* * * * * *
59941789 AAGCTTGATTTTACAGCTGGGTGCTTTGCTCTCGCTAACTATTTTGGAGGTTACAACTCTTCACC
1 AACCTAGATTTTACAGCTGGGAGCTTTGCTCTCACTAACT-TTTTGGAGGTTGCAACTCTTCGCC
* * *
59941854 TGCGAACCTTTATTTTACAGTTGGGAATTTTGCTCTTGTTAACTATTTTAGAGG-TACGGGCTCT
65 TGCGAACCTTTATTTTACAGCTGGGAGTTTTGCTCTTGTTAACTATTTTAGAGGTTGC-GGCTCT
*
59941918 TCGCCTGTG
129 TCGCCTGCG
59941927 AACCTAGATTTTAC
1 AACCTAGATTTTAC
59941941 CAAAGATAGT
Statistics
Matches: 232, Mismatches: 48, Indels: 19
0.78 0.16 0.06
Matches are distributed among these distances:
137 42 0.18
138 182 0.78
139 8 0.03
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.37
Consensus pattern (137 bp):
AACCTAGATTTTACAGCTGGGAGCTTTGCTCTCACTAACTTTTTGGAGGTTGCAACTCTTCGCCT
GCGAACCTTTATTTTACAGCTGGGAGTTTTGCTCTTGTTAACTATTTTAGAGGTTGCGGCTCTTC
GCCTGCG
Found at i:59949157 original size:30 final size:30
Alignment explanation
Indices: 59949123--59949182 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
59949113 CATGTCGACT
59949123 AAATTGTAGTACACATCTATTATATTGATA
1 AAATTGTAGTACACATCTATTATATTGATA
59949153 AAATTGTAGTACACATCTATTATATTGATA
1 AAATTGTAGTACACATCTATTATATTGATA
59949183 GCTTAGGTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (30 bp):
AAATTGTAGTACACATCTATTATATTGATA
Found at i:59952485 original size:10 final size:10
Alignment explanation
Indices: 59952470--59952515 Score: 67
Period size: 10 Copynumber: 4.6 Consensus size: 10
59952460 CTCAGCCACC
59952470 ATCTTTATTT
1 ATCTTTATTT
*
59952480 ATCTTTAATT
1 ATCTTTATTT
59952490 ATCTTTATTT
1 ATCTTTATTT
59952500 AT-TTGTATTT
1 ATCTT-TATTT
59952510 ATCTTT
1 ATCTTT
59952516 TAGAGTTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 2 0.06
10 28 0.88
11 2 0.06
ACGTcount: A:0.22, C:0.09, G:0.02, T:0.67
Consensus pattern (10 bp):
ATCTTTATTT
Found at i:59960900 original size:41 final size:41
Alignment explanation
Indices: 59960701--59960911 Score: 246
Period size: 41 Copynumber: 5.2 Consensus size: 41
59960691 GTTTGCAACA
* **
59960701 AAACGCCA-TAAAAAACTGAGCAATAGC-GTGTTTTTATTCC
1 AAACGCCACT-AAAAACTGAGCAATAGCGGCGTTTTTGGTCC
*
59960741 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
* * **
59960782 AAACGCCACTAAAAACTGAGCTATAGGGGCACTTTTGGTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
* * * * *
59960823 AAACGCCGCTAAAAATTGAGCTATAACGGCGCTTTTGGTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
* * * *
59960864 AAACGCCACTAAAAACTAAGCAATAGCAGCGTTTTTGTTAC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
59960905 AAACGCC
1 AAACGCC
59960912 GTAAAAAGTT
Statistics
Matches: 146, Mismatches: 23, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
40 25 0.17
41 121 0.83
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (41 bp):
AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
Found at i:59960900 original size:82 final size:81
Alignment explanation
Indices: 59960701--59960934 Score: 276
Period size: 82 Copynumber: 2.9 Consensus size: 81
59960691 GTTTGCAACA
* * * * *
59960701 AAACGCCA-TAAAAAACTGAGCAATAGCGTGTTTTTATTCCAAACGCCACTAAAAACTGAGCAAT
1 AAACGCCACT-AAAAACTGAGCAATAGCGCGTTTTTGTTCCAAACGCCGCTAAAAATTGAGCTAT
59960765 AGCGGCGTTTCTGGTCC
65 AGCGGCGTTTCTGGTCC
* * ** *
59960782 AAACGCCACTAAAAACTGAGCTATAGGGGCACTTTTGGTCCAAACGCCGCTAAAAATTGAGCTAT
1 AAACGCCACTAAAAACTGAGCAATA-GCGCGTTTTTGTTCCAAACGCCGCTAAAAATTGAGCTAT
*
59960847 AACGGCGCTTT-TGGTCC
65 AGCGGCG-TTTCTGGTCC
* * *
59960864 AAACGCCACTAAAAACTAAGCAATAGCAGCGTTTTTGTTACAAACGCCG-TAAAAAGTTGATCTA
1 AAACGCCACTAAAAACTGAGCAATAGC-GCGTTTTTGTTCCAAACGCCGCTAAAAA-TTGAGCTA
59960928 TAGCGGC
64 TAGCGGC
59960935 ATTTTTTTAT
Statistics
Matches: 128, Mismatches: 20, Indels: 9
0.82 0.13 0.06
Matches are distributed among these distances:
81 29 0.23
82 96 0.75
83 3 0.02
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (81 bp):
AAACGCCACTAAAAACTGAGCAATAGCGCGTTTTTGTTCCAAACGCCGCTAAAAATTGAGCTATA
GCGGCGTTTCTGGTCC
Found at i:59960929 original size:123 final size:124
Alignment explanation
Indices: 59960738--59960967 Score: 313
Period size: 123 Copynumber: 1.9 Consensus size: 124
59960728 GTGTTTTTAT
* * *
59960738 TCCAAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCCAAACGCCACTAAAAACTGAGC
1 TCCAAACGCCACTAAAAACTAAGCAATAGCAGCGTTTCTGGTACAAACGCCACTAAAAACTGAGC
* *
59960803 TATAGGGGCA-CTTTTGGTCCAAACGCCGCTAAAAA-TTGAGCTATAACGGCGCTTTTGG
66 TATAGCGGCATCTTTTGATCCAAACGCCGC-AAAAAGTTGAGCTATAACGGCGCTTTTGG
* * * * *
59960861 TCCAAACGCCACTAAAAACTAAGCAATAGCAGCGTTTTTGTTACAAACGCC-GTAAAAAGTTGAT
1 TCCAAACGCCACTAAAAACTAAGCAATAGCAGCGTTTCTGGTACAAACGCCACTAAAAA-CTGAG
* *
59960925 CTATAGCGGCATTTTTTTATCCAAACGCCGCAAAAAGTTGAGC
65 CTATAGCGGCATCTTTTGATCCAAACGCCGCAAAAAGTTGAGC
59960968 AGGCATTTTC
Statistics
Matches: 92, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
122 6 0.07
123 64 0.70
124 22 0.24
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (124 bp):
TCCAAACGCCACTAAAAACTAAGCAATAGCAGCGTTTCTGGTACAAACGCCACTAAAAACTGAGC
TATAGCGGCATCTTTTGATCCAAACGCCGCAAAAAGTTGAGCTATAACGGCGCTTTTGG
Found at i:59960931 original size:41 final size:41
Alignment explanation
Indices: 59960886--59960965 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 41
59960876 AAACTAAGCA
* *
59960886 ATAGCAGCGTTTTTGTTA-CAAACGCCGTAAAAAGTTGATCT
1 ATAGCAGCATTTTT-TTACCAAACGCCGCAAAAAGTTGATCT
*
59960927 ATAGCGGCATTTTTTTATCCAAACGCCGCAAAAAGTTGA
1 ATAGCAGCATTTTTTTA-CCAAACGCCGCAAAAAGTTGA
59960966 GCAGGCATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
40 3 0.09
41 12 0.35
42 19 0.56
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (41 bp):
ATAGCAGCATTTTTTTACCAAACGCCGCAAAAAGTTGATCT
Found at i:59961535 original size:21 final size:21
Alignment explanation
Indices: 59961510--59961550 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
59961500 TTAAGTGTAT
59961510 GGTTTAGGGTTT-GTTATTTTG
1 GGTTTAGGGTTTAGTT-TTTTG
*
59961531 GGTTTGGGGTTTAGTTTTTT
1 GGTTTAGGGTTTAGTTTTTT
59961551 AAATTCTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.07, C:0.00, G:0.34, T:0.59
Consensus pattern (21 bp):
GGTTTAGGGTTTAGTTTTTTG
Found at i:59961744 original size:20 final size:20
Alignment explanation
Indices: 59961719--59961802 Score: 71
Period size: 20 Copynumber: 4.0 Consensus size: 20
59961709 AGGGTGCGTG
*
59961719 GAATTTGGGTTTATGGTTTA
1 GAATTTGGGTTTAAGGTTTA
* *
59961739 GAATTTAGGTTTAAAGTTTA
1 GAATTTGGGTTTAAGGTTTA
* *
59961759 GAGTATTGGATTTAAGGTTTA
1 GAAT-TTGGGTTTAAGGTTTA
*
59961780 G-TTTATAGGGTTTAAGGGTTTA
1 GAATT-T-GGGTTTAA-GGTTTA
59961802 G
1 G
59961803 TCTATAAGGT
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
19 1 0.02
20 22 0.43
21 21 0.41
22 7 0.14
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (20 bp):
GAATTTGGGTTTAAGGTTTA
Found at i:59961793 original size:21 final size:21
Alignment explanation
Indices: 59961725--59961815 Score: 71
Period size: 21 Copynumber: 4.3 Consensus size: 21
59961715 CGTGGAATTT
*
59961725 GGGTTTATGGTTTAGAATT-TA
1 GGGTTTAAGGTTTAG-ATTATA
* * *
59961746 -GGTTTAAAGTTTAGAGTATT
1 GGGTTTAAGGTTTAGATTATA
* *
59961766 GGATTTAAGGTTTAGTTTATA
1 GGGTTTAAGGTTTAGATTATA
59961787 GGGTTTAAGGGTTTAG-TCTATA
1 GGGTTTAA-GGTTTAGAT-TATA
*
59961809 AGGTTTA
1 GGGTTTA
59961816 GGGTATTTGG
Statistics
Matches: 55, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
19 2 0.04
20 13 0.24
21 23 0.42
22 17 0.31
ACGTcount: A:0.26, C:0.01, G:0.27, T:0.45
Consensus pattern (21 bp):
GGGTTTAAGGTTTAGATTATA
Found at i:59961811 original size:36 final size:35
Alignment explanation
Indices: 59961771--59961850 Score: 106
Period size: 36 Copynumber: 2.3 Consensus size: 35
59961761 GTATTGGATT
**
59961771 TAAGGTTTAGTTTATAGGGTTTAAGGGTTTAGTCTA
1 TAAGGTTTAGGGTATAGGGTTTAA-GGTTTAGTCTA
**
59961807 TAAGGTTTAGGGTATTTGGTTTAAGGTTTAGTCTA
1 TAAGGTTTAGGGTATAGGGTTTAAGGTTTAGTCTA
*
59961842 TATGGTTTA
1 TAAGGTTTA
59961851 AGATTTAGGG
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
35 19 0.49
36 20 0.51
ACGTcount: A:0.24, C:0.03, G:0.28, T:0.46
Consensus pattern (35 bp):
TAAGGTTTAGGGTATAGGGTTTAAGGTTTAGTCTA
Found at i:59961831 original size:21 final size:21
Alignment explanation
Indices: 59961807--59961897 Score: 92
Period size: 21 Copynumber: 4.3 Consensus size: 21
59961797 GTTTAGTCTA
59961807 TAAGGTTTAGGGTATTTGGTT
1 TAAGGTTTAGGGTATTTGGTT
** *
59961828 TAAGGTTTAGTCTATATGGTT
1 TAAGGTTTAGGGTATTTGGTT
* *
59961849 TAAGATTTAGGGTATTGGGTT
1 TAAGGTTTAGGGTATTTGGTT
* * **
59961870 TAGGGATTAGTTTATTTGGTT
1 TAAGGTTTAGGGTATTTGGTT
*
59961891 TAGGGTT
1 TAAGGTT
59961898 AAGTCTATAA
Statistics
Matches: 55, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 55 1.00
ACGTcount: A:0.21, C:0.01, G:0.31, T:0.47
Consensus pattern (21 bp):
TAAGGTTTAGGGTATTTGGTT
Found at i:59961859 original size:42 final size:42
Alignment explanation
Indices: 59961807--59961892 Score: 118
Period size: 42 Copynumber: 2.0 Consensus size: 42
59961797 GTTTAGTCTA
* * *
59961807 TAAGGTTTAGGGTATTTGGTTTAAGGTTTAGTCTATATGGTT
1 TAAGATTTAGGGTATTGGGTTTAAGGATTAGTCTATATGGTT
* * *
59961849 TAAGATTTAGGGTATTGGGTTTAGGGATTAGTTTATTTGGTT
1 TAAGATTTAGGGTATTGGGTTTAAGGATTAGTCTATATGGTT
59961891 TA
1 TA
59961893 GGGTTAAGTC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.22, C:0.01, G:0.29, T:0.48
Consensus pattern (42 bp):
TAAGATTTAGGGTATTGGGTTTAAGGATTAGTCTATATGGTT
Found at i:59962380 original size:94 final size:94
Alignment explanation
Indices: 59962218--59962401 Score: 262
Period size: 94 Copynumber: 2.0 Consensus size: 94
59962208 GCGCTTATTA
* * *
59962218 AAAAATGCCTCTAAAAATATGAGAAATTGAATGAAAATGGCGTCGTTTTAAGTGGCGGGGTAGTG
1 AAAAATGACGCTAAAAATATGAGAAATTGAATGAAAATGACGTCGTTTTAAGTGGCGGGGTAGTG
* *
59962283 GAATTAGCGGCGTTAGGTTATAAACGCCG
66 GAATTAGCGACGCTAGGTTATAAACGCCG
* * * * *
59962312 AAAAATGACGCTAAAAATATGAGACATTGAATTAAAATTACGTTGTTTTAAGTGGCGGGGT-TTA
1 AAAAATGACGCTAAAAATATGAGAAATTGAATGAAAATGACGTCGTTTTAAGTGGCGGGGTAGT-
59962376 GGAATTAGCGACGCTAGGTTATAAAC
65 GGAATTAGCGACGCTAGGTTATAAAC
59962402 ACCGCAATAG
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
93 1 0.01
94 78 0.99
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.27
Consensus pattern (94 bp):
AAAAATGACGCTAAAAATATGAGAAATTGAATGAAAATGACGTCGTTTTAAGTGGCGGGGTAGTG
GAATTAGCGACGCTAGGTTATAAACGCCG
Found at i:59962905 original size:16 final size:16
Alignment explanation
Indices: 59962884--59962918 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
59962874 GAAATGCAAA
*
59962884 TTTCTGTTGTTAAGGC
1 TTTCTGTTGTTAAGCC
59962900 TTTCTGTTGTTAAGCC
1 TTTCTGTTGTTAAGCC
59962916 TTT
1 TTT
59962919 GATTTGTTTA
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:0.11, C:0.14, G:0.20, T:0.54
Consensus pattern (16 bp):
TTTCTGTTGTTAAGCC
Found at i:59964154 original size:23 final size:24
Alignment explanation
Indices: 59964127--59964179 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
59964117 CTATGTTATA
59964127 ATATTTGTAACTAAAATTAATATT
1 ATATTTGTAACTAAAATTAATATT
***
59964151 -TATTTTGTTTTTAAAATTAATATT
1 ATA-TTTGTAACTAAAATTAATATT
59964175 ATATT
1 ATATT
59964180 ATAAAACACT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
23 2 0.08
24 20 0.83
25 2 0.08
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.55
Consensus pattern (24 bp):
ATATTTGTAACTAAAATTAATATT
Found at i:59965120 original size:19 final size:19
Alignment explanation
Indices: 59965092--59965130 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
59965082 AAATAAATTT
59965092 AATTCATAAAAATATATATA
1 AATTCATAAAAATAT-TATA
*
59965112 AATTC-TAAACATATTATA
1 AATTCATAAAAATATTATA
59965130 A
1 A
59965131 CCAAAACAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 8 0.44
20 5 0.28
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (19 bp):
AATTCATAAAAATATTATA
Found at i:59965255 original size:9 final size:9
Alignment explanation
Indices: 59965237--59965410 Score: 183
Period size: 9 Copynumber: 19.6 Consensus size: 9
59965227 GTTTAAATTT
59965237 CATAACTTA
1 CATAACTTA
*
59965246 CATAATTTA
1 CATAACTTA
59965255 CATAACTTA
1 CATAACTTA
59965264 CATAA--TA
1 CATAACTTA
* *
59965271 TATAA-ATA
1 CATAACTTA
* * *
59965279 TATATCATA
1 CATAACTTA
59965288 TCATAACTTA
1 -CATAACTTA
*
59965298 CATAACTCA
1 CATAACTTA
* *
59965307 CACAACATA
1 CATAACTTA
59965316 CATAACTTA
1 CATAACTTA
*
59965325 CATAACTCA
1 CATAACTTA
* *
59965334 CATACCTCA
1 CATAACTTA
59965343 CATAACTTA
1 CATAACTTA
*
59965352 CATAACTCA
1 CATAACTTA
59965361 CATAACTTA
1 CATAACTTA
*
59965370 CATAATTTA
1 CATAACTTA
*
59965379 CATAACTCA
1 CATAACTTA
59965388 CATAACTTA
1 CATAACTTA
59965397 CATAACTTA
1 CATAACTTA
59965406 CATAA
1 CATAA
59965411 TACATAAATA
Statistics
Matches: 139, Mismatches: 23, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
7 6 0.04
8 6 0.04
9 121 0.87
10 6 0.04
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (9 bp):
CATAACTTA
Found at i:59965267 original size:27 final size:27
Alignment explanation
Indices: 59965237--59965417 Score: 210
Period size: 27 Copynumber: 6.9 Consensus size: 27
59965227 GTTTAAATTT
* *
59965237 CATAACTTACATAATTTACATAACTTA
1 CATAACTTACATAACTCACATAACTTA
* * * * *
59965264 CATAA--TATATAAAT-ATATATCATA
1 CATAACTTACATAACTCACATAACTTA
* *
59965288 TCATAACTTACATAACTCACACAACATA
1 -CATAACTTACATAACTCACATAACTTA
* *
59965316 CATAACTTACATAACTCACATACCTCA
1 CATAACTTACATAACTCACATAACTTA
59965343 CATAACTTACATAACTCACATAACTTA
1 CATAACTTACATAACTCACATAACTTA
*
59965370 CATAATTTACATAACTCACATAACTTA
1 CATAACTTACATAACTCACATAACTTA
59965397 CATAACTTACATAA-T-ACATAA
1 CATAACTTACATAACTCACATAA
59965418 ATAGATATCA
Statistics
Matches: 132, Mismatches: 18, Indels: 10
0.82 0.11 0.06
Matches are distributed among these distances:
24 7 0.05
25 18 0.14
26 1 0.01
27 99 0.75
28 7 0.05
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (27 bp):
CATAACTTACATAACTCACATAACTTA
Found at i:59965436 original size:31 final size:31
Alignment explanation
Indices: 59965398--59965461 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
59965388 CATAACTTAC
59965398 ATAACTTACATAATACATAAATAGATATCAT
1 ATAACTTACATAATACATAAATAGATATCAT
59965429 ATAACTTACATAATACATAAATAGATATCAT
1 ATAACTTACATAATACATAAATAGATATCAT
59965460 AT
1 AT
59965462 CATATCATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.52, C:0.12, G:0.03, T:0.33
Consensus pattern (31 bp):
ATAACTTACATAATACATAAATAGATATCAT
Found at i:59965463 original size:5 final size:5
Alignment explanation
Indices: 59965453--59965490 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
59965443 ACATAAATAG
59965453 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATA
1 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATA
59965491 ATTTACATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATC
Found at i:59968768 original size:44 final size:46
Alignment explanation
Indices: 59968715--59968934 Score: 179
Period size: 47 Copynumber: 4.8 Consensus size: 46
59968705 TACGCGTGCT
* *
59968715 GATGCATGTCCCAGACATGTCTTACACTAGCACAACTCT-TA-GCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACATCTCTCTAGGCC
* * * *
59968759 GATGCATGTCCCAGACAAGTCTTACTCTGGCTATC-TCTGTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC-A-CATCTCTCTAGGCC
* * *
59968806 GATGCATGGCCCAAACATGTCTTACACTGGCAC-TCATCTCTATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACATC-TCTCTAGGCC
* *
59968852 GATGCCATGTCCCAGACGTGGTCTTACACT-G-AC-TCTAATACCGT-GGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCACATCT-CT--C-TAGGCC
*
59968900 GAAGCATGTCCCAGACACT-TCTTACACTGGCACAT
1 GATGCATGTCCCAGACA-TGTCTTACACTGGCACAT
59968935 AAATCACCCA
Statistics
Matches: 141, Mismatches: 20, Indels: 25
0.76 0.11 0.13
Matches are distributed among these distances:
44 28 0.20
45 8 0.06
46 28 0.20
47 55 0.39
48 20 0.14
49 2 0.01
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCACATCTCTCTAGGCC
Found at i:59968907 original size:94 final size:92
Alignment explanation
Indices: 59968665--59968932 Score: 269
Period size: 94 Copynumber: 2.9 Consensus size: 92
59968655 TTATATTGCT
* *
59968665 GATGCCATGTCCCAGACATGGTCTTACACTGGTTCTCATATACGCGT-GCTGATGCATGTCCCAG
1 GATGCCATGTCCCAGAC-TGGTCTTACACTGGCTCT-A-ATAC-CGTGGCCGATGCATGTCCCAG
*
59968729 ACATGTCTTACACTAGCA-CAACTCTTAGCC
62 ACATGTCTTACACTGGCACCAACTCTTAGCC
** * * ** * * *
59968759 GATG-CATGTCCCAGACAAGTCTTACTCTGGCTATCT-CTGTCGAGGCCGATGCATGGCCCAAAC
1 GATGCCATGTCCCAGACTGGTCTTACACTGGC--TCTAATACCGTGGCCGATGCATGTCCCAGAC
*
59968822 ATGTCTTACACTGGCACTCATCTC-TATGCC
64 ATGTCTTACACTGGCAC-CAACTCTTA-GCC
* *
59968852 GATGCCATGTCCCAGACGTGGTCTTACACTGACTCTAATACCGTGGCCGAAGCATGTCCCAGACA
1 GATGCCATGTCCCAGAC-TGGTCTTACACTGGCTCTAATACCGTGGCCGATGCATGTCCCAGACA
59968917 CT-TCTTACACTGGCAC
65 -TGTCTTACACTGGCAC
59968933 ATAAATCACC
Statistics
Matches: 140, Mismatches: 24, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
90 2 0.01
91 32 0.23
92 13 0.09
93 27 0.19
94 54 0.39
95 12 0.09
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (92 bp):
GATGCCATGTCCCAGACTGGTCTTACACTGGCTCTAATACCGTGGCCGATGCATGTCCCAGACAT
GTCTTACACTGGCACCAACTCTTAGCC
Found at i:59983854 original size:13 final size:14
Alignment explanation
Indices: 59983838--59983866 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
59983828 TTTTAAATAT
59983838 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
59983851 TTATAATGGTTTAA
1 TTATAATGGTTTAA
59983865 TT
1 TT
59983867 CATCATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:59984285 original size:21 final size:21
Alignment explanation
Indices: 59984241--59984285 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
59984231 ACTTAGAGCG
* * *
59984241 GAGGTAGCAGCGAGGGAAGCA
1 GAGGTAACAACGAGGGAAACA
*
59984262 GAGGTAACAACGAGGGAAATA
1 GAGGTAACAACGAGGGAAACA
59984283 GAG
1 GAG
59984286 CAGAGCAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.11, G:0.42, T:0.07
Consensus pattern (21 bp):
GAGGTAACAACGAGGGAAACA
Found at i:59984668 original size:43 final size:43
Alignment explanation
Indices: 59984594--59984822 Score: 296
Period size: 43 Copynumber: 5.3 Consensus size: 43
59984584 CAACGGTACT
* * *
59984594 TTTAGCTGCGTTTGTGACAAAAAGCGCCGCTAAAGGACATGTTC
1 TTTAGCGGCGTTTGTGGC-AAAAGCGCCGCTAAAGGTCATGTTC
* * ** * *
59984638 TTCAGCGGTGTTTGTGGTGAAAGCGTCGCTAAAGGTCATGTTT
1 TTTAGCGGCGTTTGTGGCAAAAGCGCCGCTAAAGGTCATGTTC
* * *
59984681 TTTAGCAGCGTTTGTGGAAAAAGCGCCACTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGGCAAAAGCGCCGCTAAAGGTCATGTTC
*
59984724 TTTAGCGGCGTTTGTGGCAAAAGCGCCTCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGGCAAAAGCGCCGCTAAAGGTCATGTTC
* *
59984767 TTTAGCGTCGTTTGTGGCAAAAGTGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGGCAAAAGCGCCGCTAAAGGTCATGTTC
* *
59984810 TTTGGTGGCGTTT
1 TTTAGCGGCGTTT
59984823 ATTTGAACGC
Statistics
Matches: 159, Mismatches: 26, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
43 146 0.92
44 13 0.08
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGCAAAAGCGCCGCTAAAGGTCATGTTC
Found at i:59985834 original size:99 final size:99
Alignment explanation
Indices: 59985664--59985843 Score: 265
Period size: 99 Copynumber: 1.8 Consensus size: 99
59985654 TTTAGGAATG
* * * **
59985664 TGTTGGGCTGAGTAACCGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTTGATA
1 TGTTGGGCTGAGTAACCGGGTAAGGTGCTTGGCTATCATCTCTCTTCGCATCAAAAGGTTCAATA
*
59985729 TGTTCTTAAG-AAAAATATAATATATTAAGTGTA
66 TATTCTTAAGCAAAAATATAATATATTAAGTGTA
*
59985762 TGTTGGGCTGAAG-AACCGGGGTAAGGTGCTTGGCTATCATCTCTCTTCGCATTAAAAGGTTCAA
1 TGTTGGGCTG-AGTAACC-GGGTAAGGTGCTTGGCTATCATCTCTCTTCGCATCAAAAGGTTCAA
59985826 TATATTCTTAAGCAAAAA
64 TATATTCTTAAGCAAAAA
59985844 GAAAAAGAAA
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
98 14 0.19
99 53 0.74
100 5 0.07
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (99 bp):
TGTTGGGCTGAGTAACCGGGTAAGGTGCTTGGCTATCATCTCTCTTCGCATCAAAAGGTTCAATA
TATTCTTAAGCAAAAATATAATATATTAAGTGTA
Found at i:59985850 original size:6 final size:6
Alignment explanation
Indices: 59985839--59985871 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
59985829 ATTCTTAAGC
59985839 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
59985872 TGTATTAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:59986509 original size:10 final size:10
Alignment explanation
Indices: 59986494--59986542 Score: 73
Period size: 10 Copynumber: 4.9 Consensus size: 10
59986484 AATTTTAACT
59986494 TTTATCTTTA
1 TTTATCTTTA
59986504 TTTATCTTTA
1 TTTATCTTTA
*
59986514 ATTATCTTTA
1 TTTATCTTTA
59986524 TTTAT-TTGTA
1 TTTATCTT-TA
59986534 TTTATCTTT
1 TTTATCTTT
59986543 TAGAATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.20, C:0.08, G:0.02, T:0.69
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:59990947 original size:3 final size:3
Alignment explanation
Indices: 59990939--59990968 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
59990929 GAGGTAATAG
*
59990939 CTT CTT CTT CTT CTT CTT CTT CTT TTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
59990969 TACATTTAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
CTT
Found at i:59992785 original size:30 final size:30
Alignment explanation
Indices: 59992751--59992812 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
59992741 TCTTATTTTA
59992751 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
* *
59992781 TTGTTAATTTTGTTATTATTTTAGAGGTAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
59992811 TT
1 TT
59992813 TCTTGTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.24, C:0.02, G:0.15, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:59992948 original size:11 final size:11
Alignment explanation
Indices: 59992934--59992964 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
59992924 TATATATATT
59992934 TAAAAATTATA
1 TAAAAATTATA
*
59992945 TAAAAATAATA
1 TAAAAATTATA
59992956 TAAAAATTA
1 TAAAAATTA
59992965 ATACGAGTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:60005638 original size:47 final size:47
Alignment explanation
Indices: 60005586--60005895 Score: 478
Period size: 47 Copynumber: 6.6 Consensus size: 47
60005576 GATAATTGTG
* *
60005586 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
60005633 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
60005680 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
60005729 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
60005776 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
60005823 ATGTGAAAGTGTATATATGTGA-CAGAGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAG-GCCTAATGGCCGATGTGATGA
*
60005870 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
60005896 TCCCGAAGGG
Statistics
Matches: 244, Mismatches: 15, Indels: 7
0.92 0.06 0.03
Matches are distributed among these distances:
46 2 0.01
47 194 0.80
48 2 0.01
49 46 0.19
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:60005656 original size:96 final size:93
Alignment explanation
Indices: 60005573--60005844 Score: 365
Period size: 96 Copynumber: 2.9 Consensus size: 93
60005563 TGAAGTATAT
60005573 TTGGATAATTG-TG-ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
1 TTGGAT-ATTGATGAATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
60005636 TGAAAGTGTATATATGTGATAAGGCCG-AA
65 TGAAAGTGTATATATGTGATAAGG-CGTAA
* *
60005665 TGGCCGAT-GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 TTG--GATATTGATGAATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
60005729 ATGTGAAAGTGTATATATGTGATAAGGCCTAA
62 ATGTGAAAGTGTATATATGTGATAAGGCGTAA
* * * * *
60005761 TAGCCGAT-GTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAAT
1 TTG--GATATTGATGAATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
60005825 GTGAAAGTGTATATATGTGA
64 GTGAAAGTGTATATATGTGA
60005845 CAGAGCCGAG
Statistics
Matches: 166, Mismatches: 7, Indels: 12
0.90 0.04 0.06
Matches are distributed among these distances:
92 4 0.02
93 2 0.01
94 67 0.40
95 5 0.03
96 88 0.53
ACGTcount: A:0.32, C:0.07, G:0.29, T:0.31
Consensus pattern (93 bp):
TTGGATATTGATGAATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
GAAAGTGTATATATGTGATAAGGCGTAA
Found at i:60005744 original size:143 final size:141
Alignment explanation
Indices: 60005586--60005895 Score: 478
Period size: 143 Copynumber: 2.2 Consensus size: 141
60005576 GATAATTGTG
* * *
60005586 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
*
60005651 GTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG-GCCTAAT
66 GTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA-AAGAGCCGAAT
* *
60005715 GGCCGATGTGATGA
128 GGCCAACGTGATGA
60005729 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * *
60005794 GTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGAGCCGAGTGGC
66 GTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAAAGAGCCGAATGGC
*
60005859 CAACGTGATGG
131 CAACGTGATGA
*
60005870 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
60005896 TCCCGAAGGG
Statistics
Matches: 154, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
140 2 0.01
141 52 0.34
143 100 0.65
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (141 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAAAGAGCCGAATGGC
CAACGTGATGA
Found at i:60008793 original size:21 final size:21
Alignment explanation
Indices: 60008776--60008836 Score: 113
Period size: 21 Copynumber: 2.9 Consensus size: 21
60008766 GACACACACT
60008776 CGTGTAGAAGGGCAACACGTC
1 CGTGTAGAAGGGCAACACGTC
*
60008797 CGTGTAAAAGGGCAACACGTC
1 CGTGTAGAAGGGCAACACGTC
60008818 CGTGTAGAAGGGCAACACG
1 CGTGTAGAAGGGCAACACG
60008837 CCCTTGTGGC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.31, C:0.23, G:0.33, T:0.13
Consensus pattern (21 bp):
CGTGTAGAAGGGCAACACGTC
Found at i:60012881 original size:17 final size:18
Alignment explanation
Indices: 60012861--60012905 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 18
60012851 TTACTTTAGC
60012861 CATTTTTATTTTT-ATTT
1 CATTTTTATTTTTGATTT
*
60012878 CA-TTTTATTTTTGTTTT
1 CATTTTTATTTTTGATTT
*
60012895 AATTTTTATTT
1 CATTTTTATTT
60012906 ACTAACTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 10 0.42
17 6 0.25
18 8 0.33
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (18 bp):
CATTTTTATTTTTGATTT
Found at i:60021378 original size:6 final size:6
Alignment explanation
Indices: 60021367--60021438 Score: 81
Period size: 6 Copynumber: 11.5 Consensus size: 6
60021357 CCATTTATCA
* * *
60021367 TTTATT TTTATT TTTAAT TTTACTT TCTTATT TTTCTT TTTATT TCTATT
1 TTTATT TTTATT TTTATT TTTA-TT T-TTATT TTTATT TTTATT TTTATT
*
60021417 TTTATG TTTATT TTTATGT TTT
1 TTTATT TTTATT TTTAT-T TTT
60021439 TAGACTTCTT
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
6 43 0.78
7 9 0.16
8 3 0.05
ACGTcount: A:0.15, C:0.06, G:0.03, T:0.76
Consensus pattern (6 bp):
TTTATT
Found at i:60037696 original size:123 final size:128
Alignment explanation
Indices: 60037564--60037807 Score: 338
Period size: 134 Copynumber: 1.9 Consensus size: 128
60037554 TAAAACTTAA
60037564 AAACCCTCTC-TT-TTTTT-TTCA-A-GTTCACTTAGCGCAAAATAAACAAGAAAATCTCAAGGA
1 AAACCCTCTCTTTATTTTTATTCATACGTTCACTTAGCGCAAAATAAACAAGAAAATCTCAAGGA
*
60037624 TCGCCACATGTATGTGTGAACCATAGTGTTAATCAGGAGCTT-AGGATTTTTAAAAAATAATAG
66 TCGCCACATGTATGTGTGAACCATAGCGTTAATCAGGAGCTTGA-GATTTTTAAAAAATAATAG
* *
60037687 AAACCCTCTCTTTATTTTTCAAGTTCACTTATCTTTCACTTAGCGCAAAATAAACGAGAAAATCT
1 AAACCCTCTCTTTATTTTT--A-TTCA--TA-CGTTCACTTAGCGCAAAATAAACAAGAAAATCT
* *
60037752 CAGGGATCGCCACATGTATGTGTGAACCATTGCGTTAATCAGGAGCTTGAGATTTT
60 CAAGGATCGCCACATGTATGTGTGAACCATAGCGTTAATCAGGAGCTTGAGATTTT
60037808 ATCTTAAGTT
Statistics
Matches: 104, Mismatches: 5, Indels: 13
0.85 0.04 0.11
Matches are distributed among these distances:
123 10 0.10
124 2 0.02
125 5 0.05
129 4 0.04
132 1 0.01
134 81 0.78
135 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (128 bp):
AAACCCTCTCTTTATTTTTATTCATACGTTCACTTAGCGCAAAATAAACAAGAAAATCTCAAGGA
TCGCCACATGTATGTGTGAACCATAGCGTTAATCAGGAGCTTGAGATTTTTAAAAAATAATAG
Found at i:60044160 original size:24 final size:24
Alignment explanation
Indices: 60044099--60044160 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
60044089 ACCGATTTGT
*
60044099 AGCTCGTATGAGCTTACCGTTACTC
1 AGCTCGTATGAGCTTACCATTAC-C
*
60044124 ATCTCGTATGAGCTTACCAATTA-C
1 AGCTCGTATGAGCTTACC-ATTACC
*
60044148 AGCTCGTAAGAGC
1 AGCTCGTATGAGC
60044161 ATCCCGATTC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 12 0.38
25 17 0.53
26 3 0.09
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (24 bp):
AGCTCGTATGAGCTTACCATTACC
Found at i:60046292 original size:24 final size:24
Alignment explanation
Indices: 60046260--60046308 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
60046250 AAGATATGAA
60046260 ATGTTCAAAATTCTATTTGTTTGT
1 ATGTTCAAAATTCTATTTGTTTGT
60046284 ATGTTCAAAATTCTATTTGTTTGT
1 ATGTTCAAAATTCTATTTGTTTGT
60046308 A
1 A
60046309 CTGTAAACTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.08, G:0.12, T:0.53
Consensus pattern (24 bp):
ATGTTCAAAATTCTATTTGTTTGT
Found at i:60047918 original size:20 final size:21
Alignment explanation
Indices: 60047863--60047919 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
60047853 ACACCACACT
* *
60047863 AGAGGCATCATAAATGCATAAC
1 AGAGGCACCA-AAGTGCATAAC
**
60047885 AGAGGCACGGAAGTGCA-AAC
1 AGAGGCACCAAAGTGCATAAC
60047905 AGAGGCACCAAAGTG
1 AGAGGCACCAAAGTG
60047920 AAATCCCATA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
20 16 0.55
21 6 0.21
22 7 0.24
ACGTcount: A:0.42, C:0.19, G:0.28, T:0.11
Consensus pattern (21 bp):
AGAGGCACCAAAGTGCATAAC
Found at i:60051770 original size:93 final size:93
Alignment explanation
Indices: 60051611--60051781 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
60051601 ATTCCTAAGT
*
60051611 GAACTCGGACTCAACTCAAAGAGCTCAGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAAAGAGCTCAGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
60051676 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
60051704 GAACTCGGACTCAACTCAACA-AGTTC-GGACATTTGCATCCATAAGTGAACTCGGACTCAACTC
1 GAACTCGGACTCAACTCAA-AGAGCTCAGG-CATTCGCATCCATAAATGAACTCGGACTCAACTC
60051767 AACGAGTTCGGATGC
64 AACGAGTTCGGATGC
60051782 TCAACCATCC
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
92 2 0.03
93 69 0.96
94 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAAAGAGCTCAGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:60051775 original size:46 final size:46
Alignment explanation
Indices: 60051606--60051778 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
60051596 AACCCATTCC
* * * *
60051606 TAAGTGAACTCGGACTCAACTCAAAGAGCTCAGG-CGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTTGCATCCA
* * *
60051652 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* * *
60051700 TCA-CGAACTCGGACTCAACTCAACAAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
60051745 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
60051779 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 4 0.04
46 56 0.54
47 28 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:60051797 original size:46 final size:45
Alignment explanation
Indices: 60051656--60051797 Score: 123
Period size: 46 Copynumber: 3.1 Consensus size: 45
60051646 CATCCATAAA
60051656 TGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-AG
* * * * *
60051703 CGAACTCGGACTCAACTCAACAAGTTCGGACAT-TTGCATCCAT-AAG
1 TGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCTAG
60051749 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAG
60051795 TGA
1 TGA
60051798 CATGTCACTT
Statistics
Matches: 76, Mismatches: 10, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 32 0.42
47 30 0.39
49 3 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAG
Found at i:60055314 original size:48 final size:48
Alignment explanation
Indices: 60055234--60055350 Score: 171
Period size: 48 Copynumber: 2.4 Consensus size: 48
60055224 TATCTCGGAT
* * *
60055234 ATGGTCTTACATGGGATCACATATCGAGGCCAATGCCATGTCCCAGAC
1 ATGGTCTTACATGGGATCACAGATCAACGCCAATGCCATGTCCCAGAC
** *
60055282 ATGGTCTTACATGGGATCGTAGGTCAACGCCAATGCCATGTCCCAGAC
1 ATGGTCTTACATGGGATCACAGATCAACGCCAATGCCATGTCCCAGAC
*
60055330 ATTGTCTTACATGGGATCACA
1 ATGGTCTTACATGGGATCACA
60055351 TATCGATACC
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 60 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (48 bp):
ATGGTCTTACATGGGATCACAGATCAACGCCAATGCCATGTCCCAGAC
Found at i:60062556 original size:46 final size:46
Alignment explanation
Indices: 60062489--60062617 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
60062479 TGTAACCCGC
* * *
60062489 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
60062535 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
60062581 CCATAAATGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
60062618 TGCTCAACCA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:60071238 original size:13 final size:14
Alignment explanation
Indices: 60071220--60071250 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
60071210 CTCTGGATTT
60071220 AAAAAAT-AAAATA
1 AAAAAATAAAAATA
60071233 AAAAAATAAAAATA
1 AAAAAATAAAAATA
60071247 AAAA
1 AAAA
60071251 GAGAGAAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAAAATAAAAATA
Found at i:60073256 original size:29 final size:29
Alignment explanation
Indices: 60073214--60073273 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
60073204 AAAGCTATAC
60073214 TTAGTTTACAATTTCTTTAAATTTCTTAT
1 TTAGTTTACAATTTCTTTAAATTTCTTAT
60073243 TTAGTTTACAATTTCTTTAAATTTCTTAT
1 TTAGTTTACAATTTCTTTAAATTTCTTAT
60073272 TT
1 TT
60073274 CATATTTGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.27, C:0.10, G:0.03, T:0.60
Consensus pattern (29 bp):
TTAGTTTACAATTTCTTTAAATTTCTTAT
Found at i:60073345 original size:20 final size:21
Alignment explanation
Indices: 60073310--60073361 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 21
60073300 ACACACTTAT
60073310 ATTAT-TTATATTTTTT-AAA
1 ATTATATTATATTTTTTAAAA
60073329 ATTATATTAT-TTATTTTACAAA
1 ATTATATTATATT-TTTTA-AAA
60073351 ATTATTATTAT
1 ATTA-TATTAT
60073362 GATAAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
19 7 0.25
20 8 0.29
22 7 0.25
23 6 0.21
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTATATTATATTTTTTAAAA
Found at i:60073351 original size:22 final size:23
Alignment explanation
Indices: 60073306--60073361 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
60073296 CATTACACAC
**
60073306 TTATATTATTTATATTTTTTAAAA
1 TTATATTA-TTATATTTTACAAAA
60073330 TTATATTATT-TATTTTACAAAA
1 TTATATTATTATATTTTACAAAA
60073352 TTATTATTAT
1 TTA-TATTAT
60073362 GATAAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 13 0.45
23 8 0.28
24 8 0.28
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (23 bp):
TTATATTATTATATTTTACAAAA
Found at i:60074265 original size:14 final size:15
Alignment explanation
Indices: 60074248--60074276 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
60074238 CTTTTTTGCC
60074248 ATAAAT-TTTTATAA
1 ATAAATATTTTATAA
60074262 ATAAATATTTTATAA
1 ATAAATATTTTATAA
60074277 TACTTTTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATAAATATTTTATAA
Found at i:60085100 original size:17 final size:17
Alignment explanation
Indices: 60085065--60085103 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
60085055 TCAAGACAAG
**
60085065 TATTAAATTAATTTTAA
1 TATTAAATTAATTAAAA
*
60085082 TATTAAATTTATTAAAA
1 TATTAAATTAATTAAAA
60085099 TATTA
1 TATTA
60085104 TTATTTTTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TATTAAATTAATTAAAA
Found at i:60088353 original size:43 final size:43
Alignment explanation
Indices: 60088294--60088436 Score: 148
Period size: 43 Copynumber: 3.3 Consensus size: 43
60088284 GCGCCGCAAA
*
60088294 AAACGCCGCTAAAGACCATGACCTTTAGTAG-CACTTTTCTTGC
1 AAACGCCGCTAAAGACCATGACCTTTAG-AGACACTTTTCTCGC
* * *
60088337 AAACGCTGCTAAAGACCATGACCTTTAGCGACGCTTTTCTCGC
1 AAACGCCGCTAAAGACCATGACCTTTAGAGACACTTTTCTCGC
* * * * * *
60088380 AAACGCCGCTATATAACA-AACCTTTAGTGACACCTTTT-TCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGAGACA-CTTTTCTCGC
*
60088422 AAACTCCGCTAAAGA
1 AAACGCCGCTAAAGA
60088437 ATATAAACTT
Statistics
Matches: 83, Mismatches: 15, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
42 27 0.33
43 56 0.67
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGAGACACTTTTCTCGC
Found at i:60088469 original size:20 final size:20
Alignment explanation
Indices: 60088446--60088483 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
60088436 AATATAAACT
60088446 TTAAAAAATATATATTTTAA
1 TTAAAAAATATATATTTTAA
* *
60088466 TTAAATAATATTTATTTT
1 TTAAAAAATATATATTTT
60088484 CTATGATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TTAAAAAATATATATTTTAA
Found at i:60091153 original size:27 final size:22
Alignment explanation
Indices: 60091114--60091180 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
60091104 AATCAAGGAG
60091114 TAAACATAAACTCAACTCAAAA
1 TAAACATAAACTCAACTCAAAA
60091136 TAAACATAAACTCAACTCAAAA
1 TAAACATAAACTCAACTCAAAA
60091158 TAAACATAAACTCAACTCAAAA
1 TAAACATAAACTCAACTCAAAA
60091180 T
1 T
60091181 CACAATTCTG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.58, C:0.22, G:0.00, T:0.19
Consensus pattern (22 bp):
TAAACATAAACTCAACTCAAAA
Found at i:60092742 original size:8 final size:8
Alignment explanation
Indices: 60092731--60092813 Score: 66
Period size: 7 Copynumber: 10.4 Consensus size: 8
60092721 TAAGTTTTTT
60092731 ATTTTTAA
1 ATTTTTAA
60092739 ATTTTTAA
1 ATTTTTAA
*
60092747 ATTTTT-T
1 ATTTTTAA
*
60092754 ATTTTT-T
1 ATTTTTAA
*
60092761 ATTTTT-T
1 ATTTTTAA
60092768 ATTTTTAA
1 ATTTTTAA
60092776 A-TTTTAA
1 ATTTTTAA
*
60092783 TTTTTTTGAA
1 -ATTTTT-AA
60092793 GATTTTTATA
1 -ATTTTTA-A
60092803 ATTTTTAA
1 ATTTTTAA
60092811 ATT
1 ATT
60092814 AACATATAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
7 26 0.40
8 19 0.29
9 12 0.18
10 8 0.12
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (8 bp):
ATTTTTAA
Found at i:60092766 original size:23 final size:23
Alignment explanation
Indices: 60092714--60092813 Score: 78
Period size: 23 Copynumber: 4.2 Consensus size: 23
60092704 ATTAAATATC
* *
60092714 AAATTTCTAAGTTTTTTATTTTT
1 AAATTTTTAAATTTTTTATTTTT
60092737 AAATTTTTAAATTTTTTATTTTT
1 AAATTTTTAAATTTTTTATTTTT
* * * *
60092760 -TATTTTT-TATTTTTAAATTTT
1 AAATTTTTAAATTTTTTATTTTT
*
60092781 AATTTTTTTGAAGATTTTTATAATTTTT
1 AA-ATTTTT-AA-ATTTTT-T-ATTTTT
60092809 AAATT
1 AAATT
60092814 AACATATAAA
Statistics
Matches: 58, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
21 11 0.19
22 6 0.10
23 26 0.45
26 6 0.10
27 2 0.03
28 7 0.12
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.67
Consensus pattern (23 bp):
AAATTTTTAAATTTTTTATTTTT
Found at i:60094003 original size:7 final size:7
Alignment explanation
Indices: 60093982--60094055 Score: 58
Period size: 7 Copynumber: 10.4 Consensus size: 7
60093972 TATAGTCTCC
*
60093982 AAACCTT
1 AAACCAT
*
60093989 AAATCAT
1 AAACCAT
*
60093996 AAAACAT
1 AAACCAT
60094003 AAACCAT
1 AAACCAT
60094010 AAACCAT
1 AAACCAT
**
60094017 AAACCCC
1 AAACCAT
* *
60094024 AACCCTT
1 AAACCAT
60094031 AAACCCAT
1 AAA-CCAT
*
60094039 AATCCAT
1 AAACCAT
*
60094046 AAACCTT
1 AAACCAT
60094053 AAA
1 AAA
60094056 ATAGTTTAGA
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
7 47 0.90
8 5 0.10
ACGTcount: A:0.51, C:0.30, G:0.00, T:0.19
Consensus pattern (7 bp):
AAACCAT
Found at i:60094006 original size:21 final size:21
Alignment explanation
Indices: 60093982--60094055 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
60093972 TATAGTCTCC
* *
60093982 AAACCTTAAATCATAAAACAT
1 AAACCTTAAACCATAAACCAT
* **
60094003 AAACCATAAACCATAAACCCC
1 AAACCTTAAACCATAAACCAT
* *
60094024 AACCCTTAAACCCATAATCCAT
1 AAACCTTAAA-CCATAAACCAT
60094046 AAACCTTAAA
1 AAACCTTAAA
60094056 ATAGTTTAGA
Statistics
Matches: 41, Mismatches: 11, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
21 24 0.59
22 17 0.41
ACGTcount: A:0.51, C:0.30, G:0.00, T:0.19
Consensus pattern (21 bp):
AAACCTTAAACCATAAACCAT
Found at i:60094234 original size:95 final size:95
Alignment explanation
Indices: 60094070--60094247 Score: 241
Period size: 95 Copynumber: 1.9 Consensus size: 95
60094060 TTTAGATCTA
* *
60094070 TAGCGGCGTTTTCAAAAAAGCGCCGCTAAAACTCAACCTATTGCGGCGTTTTCCACAAAGCGCCG
1 TAGCGGCGTTTTCAAAAAAGCGCCGCTAAAACTCAACATATAGCGGCGTTTTCCACAAAGCGCCG
60094135 CTAATGCCACTGAAGCTCTGCTTAATCTTT
66 CTAATGCCACTGAAGCTCTGCTTAATCTTT
*** ** * *
60094165 TAGCGGCGTTTTCAAAAAAGCGCCGCTAATGGTTGACATATAGCGGCGTTTT-TATGAAAGCGCC
1 TAGCGGCGTTTTCAAAAAAGCGCCGCTAAAACTCAACATATAGCGGCGTTTTCCA-CAAAGCGCC
* *
60094229 TCTAATGCCATTGAAGCTC
65 GCTAATGCCACTGAAGCTC
60094248 AAAATAAACG
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
94 1 0.01
95 70 0.99
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.27
Consensus pattern (95 bp):
TAGCGGCGTTTTCAAAAAAGCGCCGCTAAAACTCAACATATAGCGGCGTTTTCCACAAAGCGCCG
CTAATGCCACTGAAGCTCTGCTTAATCTTT
Found at i:60102987 original size:21 final size:22
Alignment explanation
Indices: 60102969--60103010 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
60102959 TTTTATTTTC
60102969 AATAAAAAT-ATTAAAATTTAT
1 AATAAAAATAATTAAAATTTAT
*
60102990 AATAAAACTAATTAAAATTTA
1 AATAAAAATAATTAAAATTTA
60103011 AAATTTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (22 bp):
AATAAAAATAATTAAAATTTAT
Found at i:60110239 original size:20 final size:20
Alignment explanation
Indices: 60110196--60110244 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
60110186 AGGACCCAAT
* *
60110196 AAATCAATTTGATTAAAATT
1 AAATCAAATTGATTAAAATA
**
60110216 AAATCAAATTGATTGGAATA
1 AAATCAAATTGATTAAAATA
*
60110236 AAATAAAAT
1 AAATCAAAT
60110245 AAGATAAATG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.55, C:0.04, G:0.08, T:0.33
Consensus pattern (20 bp):
AAATCAAATTGATTAAAATA
Found at i:60112112 original size:15 final size:15
Alignment explanation
Indices: 60112090--60112121 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
60112080 AAAGCTGTAG
60112090 AATTAAAAAT-ACTA
1 AATTAAAAATGACTA
60112104 AATTAAAAATGACTA
1 AATTAAAAATGACTA
60112119 AAT
1 AAT
60112122 GGCTTCAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.62, C:0.06, G:0.03, T:0.28
Consensus pattern (15 bp):
AATTAAAAATGACTA
Found at i:60116065 original size:12 final size:12
Alignment explanation
Indices: 60116050--60116077 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
60116040 TAGTTATTAT
60116050 TATAATATAATA
1 TATAATATAATA
60116062 TATAATATAATA
1 TATAATATAATA
60116074 TATA
1 TATA
60116078 TTTTATACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TATAATATAATA
Found at i:60136054 original size:31 final size:31
Alignment explanation
Indices: 60135979--60136055 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
60135969 CCCAGAATTT
* *
60135979 CACACACTCATATGGTTCACCCGTGTAGGCC
1 CACACACTCGTGTGGTTCACCCGTGTAGGCC
* *
60136010 CACACACTCGTGTGGTTCACCTGTGTGGGCC
1 CACACACTCGTGTGGTTCACCCGTGTAGGCC
* *
60136041 TACACACTTGTGTGG
1 CACACACTCGTGTGG
60136056 CCCATACGGC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.18, C:0.31, G:0.25, T:0.26
Consensus pattern (31 bp):
CACACACTCGTGTGGTTCACCCGTGTAGGCC
Found at i:60137774 original size:31 final size:31
Alignment explanation
Indices: 60137736--60137798 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
60137726 TTCATCCAGG
* *
60137736 TAAGCCTTGTTTTTCTTCCATTCTTCAACTT
1 TAAGCCTTATTTTTCTTCCATCCTTCAACTT
60137767 TAAGCCTTATTTTTCTTCCATCCTTCAACTT
1 TAAGCCTTATTTTTCTTCCATCCTTCAACTT
60137798 T
1 T
60137799 TTCCATCTCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.17, C:0.27, G:0.05, T:0.51
Consensus pattern (31 bp):
TAAGCCTTATTTTTCTTCCATCCTTCAACTT
Found at i:60141889 original size:18 final size:18
Alignment explanation
Indices: 60141866--60141926 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
60141856 CCTCTTTTAA
60141866 ATGTAAATTTATTAATAT
1 ATGTAAATTTATTAATAT
***
60141884 ATGTAAAAACAATTTAA-A-
1 ATGT-AAATTTA-TTAATAT
*
60141902 ATATAAATTTATTAATAT
1 ATGTAAATTTATTAATAT
60141920 ATGTAAA
1 ATGTAAA
60141927 AATAACTTTT
Statistics
Matches: 31, Mismatches: 8, Indels: 8
0.66 0.17 0.17
Matches are distributed among these distances:
16 4 0.13
17 5 0.16
18 13 0.42
19 5 0.16
20 4 0.13
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.41
Consensus pattern (18 bp):
ATGTAAATTTATTAATAT
Found at i:60142047 original size:19 final size:19
Alignment explanation
Indices: 60142002--60142039 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
60141992 CATCCAAACA
60142002 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
60142021 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
60142040 TCTAAAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (19 bp):
CCAGAAAAGTAAATCATTT
Found at i:60148347 original size:21 final size:21
Alignment explanation
Indices: 60148299--60148347 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
60148289 AATTGCGTTT
60148299 TGAAAAAGTTATGGAAAGTTA
1 TGAAAAAGTTATGGAAAGTTA
* * *
60148320 TGGAAAAGTTGT-GAAATTTGA
1 TGAAAAAGTTATGGAAAGTT-A
60148341 TGAAAAA
1 TGAAAAA
60148348 TTTTGATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.47, C:0.00, G:0.24, T:0.29
Consensus pattern (21 bp):
TGAAAAAGTTATGGAAAGTTA
Found at i:60157727 original size:11 final size:11
Alignment explanation
Indices: 60157713--60157753 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
60157703 TATTTTCTCC
60157713 CTATTTTGCTA
1 CTATTTTGCTA
*
60157724 CTATTTTACTA
1 CTATTTTGCTA
* *
60157735 TTATTTTTCTA
1 CTATTTTGCTA
60157746 CTATTTTG
1 CTATTTTG
60157754 TTGTTATTGT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.20, C:0.15, G:0.05, T:0.61
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:60157794 original size:36 final size:36
Alignment explanation
Indices: 60157747--60157831 Score: 152
Period size: 36 Copynumber: 2.4 Consensus size: 36
60157737 ATTTTTCTAC
*
60157747 TATTTTGTTGTTATTGTTTGGATATTGCATAAAACT
1 TATTTTATTGTTATTGTTTGGATATTGCATAAAACT
*
60157783 TATTTTATTGTTATTGTTTGGATATTGTATAAAACT
1 TATTTTATTGTTATTGTTTGGATATTGCATAAAACT
60157819 TATTTTATTGTTA
1 TATTTTATTGTTA
60157832 ATTTTGTTAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 47 1.00
ACGTcount: A:0.26, C:0.04, G:0.14, T:0.56
Consensus pattern (36 bp):
TATTTTATTGTTATTGTTTGGATATTGCATAAAACT
Found at i:60159852 original size:17 final size:16
Alignment explanation
Indices: 60159807--60159857 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
60159797 TAAAATTTGA
60159807 ATTTAA-TTTCTAATTT
1 ATTTAATTTTC-AATTT
*
60159823 AATTTTATTTTCAATTT
1 -ATTTAATTTTCAATTT
60159840 ATTTAATTGTTC-ATTT
1 ATTTAATT-TTCAATTT
60159856 AT
1 AT
60159858 GCTATCTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 13 0.43
17 13 0.43
18 4 0.13
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (16 bp):
ATTTAATTTTCAATTT
Found at i:60166263 original size:49 final size:49
Alignment explanation
Indices: 60166202--60166297 Score: 165
Period size: 49 Copynumber: 2.0 Consensus size: 49
60166192 CTCCGAATGC
*
60166202 CGAGCCTAGTCTTAATTTTGAGGTTTACCTAAAAAGTTAGACACTATGT
1 CGAGCCTAGTCTTAATTTTGAGGTTTACCTAAAAAGTTAAACACTATGT
* *
60166251 CGAGCCTGGTCTTAATTTTGAGGTTTACCTGAAAAGTTAAACACTAT
1 CGAGCCTAGTCTTAATTTTGAGGTTTACCTAAAAAGTTAAACACTAT
60166298 TGGGGGATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (49 bp):
CGAGCCTAGTCTTAATTTTGAGGTTTACCTAAAAAGTTAAACACTATGT
Found at i:60169483 original size:18 final size:18
Alignment explanation
Indices: 60169452--60169500 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
60169442 GAAATATTGT
* *
60169452 AATTAGATTATTTCATGAA
1 AATT-GATTGTTTCATAAA
60169471 AATTGATTGTTTCATAAA
1 AATTGATTGTTTCATAAA
60169489 AATTGATTGTTT
1 AATTGATTGTTT
60169501 ACTTTGCTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.37, C:0.04, G:0.12, T:0.47
Consensus pattern (18 bp):
AATTGATTGTTTCATAAA
Found at i:60171231 original size:17 final size:17
Alignment explanation
Indices: 60171203--60171243 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
60171193 CTATTTACAA
60171203 AATTTGAATTTGATTTCT
1 AATTT-AATTTGATTTCT
60171221 AATTTAATTTGATTTCT
1 AATTTAATTTGATTTCT
*
60171238 GATTTA
1 AATTTA
60171244 TTTAATTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.29, C:0.05, G:0.10, T:0.56
Consensus pattern (17 bp):
AATTTAATTTGATTTCT
Found at i:60172591 original size:19 final size:19
Alignment explanation
Indices: 60172549--60172599 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
60172539 TATTATAGAT
* *
60172549 ATAATTAACTTAATTAAAC
1 ATAATTAAATTAATAAAAC
*
60172568 ATAATTAAATTAATAAAAT
1 ATAATTAAATTAATAAAAC
*
60172587 TTAATTTAAATTA
1 ATAA-TTAAATTA
60172600 TGTCATTAGC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 19 0.70
20 8 0.30
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (19 bp):
ATAATTAAATTAATAAAAC
Found at i:60174655 original size:27 final size:27
Alignment explanation
Indices: 60174624--60174801 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
60174614 TAAATTGTAC
60174624 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
60174651 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
60174677 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
60174705 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
60174733 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
60174760 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
60174787 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
60174802 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:60174738 original size:82 final size:81
Alignment explanation
Indices: 60174625--60174780 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
60174615 AAATTGTACA
* *
60174625 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
60174689 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
60174706 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
60174771 TGCGAGTTGA
65 TGCGAATTGA
60174781 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:60174792 original size:82 final size:81
Alignment explanation
Indices: 60174621--60174801 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
60174611 GATTAAATTG
* *
60174621 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
60174686 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
60174702 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
60174766 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
60174784 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
60174802 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:60176876 original size:40 final size:39
Alignment explanation
Indices: 60176839--60177056 Score: 215
Period size: 40 Copynumber: 5.5 Consensus size: 39
60176829 ATATCCGGAC
60176839 TAAGATCCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAA-TCCGGGT
* *
60176879 TAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * * *
60176919 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAACCCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * **
60176959 TAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * * * *
60176999 TATGTCCCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGC
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
*
60177038 TATGTCCCGAAGGCATTTG
1 TAAGT-CCGAAGGCATTTG
60177057 AACGAGGAGC
Statistics
Matches: 157, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
39 33 0.21
40 121 0.77
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
Found at i:60177074 original size:79 final size:80
Alignment explanation
Indices: 60176845--60177089 Score: 228
Period size: 80 Copynumber: 3.1 Consensus size: 80
60176835 GGACTAAGAT
* * * * * * * ** *
60176845 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGA-GATAC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-GC
60176908 TAAATCCGGGTTAAGTC
64 TAAATCCGGGTTAAGTC
* * * ** ** *
60176925 CCGAAGGCATTCGTGCGAGTTATTAAACCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
60176990 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
60177005 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
60177069 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
60177083 CCGAAGG
1 CCGAAGG
60177090 TACGTGATTT
Statistics
Matches: 137, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
78 14 0.10
79 46 0.34
80 74 0.54
81 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:60184445 original size:40 final size:39
Alignment explanation
Indices: 60184408--60184625 Score: 215
Period size: 40 Copynumber: 5.5 Consensus size: 39
60184398 ATATCCGGAC
60184408 TAAGATCCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAA-TCCGGGT
* *
60184448 TAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * * *
60184488 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAACCCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * **
60184528 TAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * * * *
60184568 TATGTCCCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGC
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
*
60184607 TATGTCCCGAAGGCATTTG
1 TAAGT-CCGAAGGCATTTG
60184626 AACGAGGAGC
Statistics
Matches: 157, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
39 33 0.21
40 121 0.77
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
Found at i:60184643 original size:79 final size:80
Alignment explanation
Indices: 60184414--60184654 Score: 220
Period size: 80 Copynumber: 3.0 Consensus size: 80
60184404 GGACTAAGAT
* * * * * * * ** *
60184414 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGA-GATAC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-GC
60184477 TAAATCCGGGTTAAGTC
64 TAAATCCGGGTTAAGTC
* * * ** ** *
60184494 CCGAAGGCATTCGTGCGAGTTATTAAACCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
60184559 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
60184574 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
60184638 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
60184652 CCG
1 CCG
60184655 GAGGTACGTG
Statistics
Matches: 133, Mismatches: 26, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
78 10 0.08
79 46 0.35
80 74 0.56
81 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:60198217 original size:20 final size:20
Alignment explanation
Indices: 60198188--60198226 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
60198178 AAGGTTGTGG
*
60198188 TTAATGTGGTTATGATTTGC
1 TTAATATGGTTATGATTTGC
60198208 TTAATATGGTTATGATTTG
1 TTAATATGGTTATGATTTG
60198227 TTATAGTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.03, G:0.23, T:0.51
Consensus pattern (20 bp):
TTAATATGGTTATGATTTGC
Found at i:60201008 original size:43 final size:43
Alignment explanation
Indices: 60200959--60201064 Score: 124
Period size: 43 Copynumber: 2.5 Consensus size: 43
60200949 TAATACCACA
* * *
60200959 TCTGGGACATTGTCATCGATTTGAGATATCGTGTAAGAC-CGTG
1 TCTGGGACACTGGCATCGATTAGAGATATCGTGTAAGACTC-TG
* *
60201002 TCTGGGACACTGGCATTGATTAGAGATTTCGTGTAAGACTCTG
1 TCTGGGACACTGGCATCGATTAGAGATATCGTGTAAGACTCTG
* * *
60201045 TCTGAGATAGTGGCATCGAT
1 TCTGGGACACTGGCATCGAT
60201065 ATGTGATTAC
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 52 0.98
44 1 0.02
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (43 bp):
TCTGGGACACTGGCATCGATTAGAGATATCGTGTAAGACTCTG
Found at i:60210720 original size:42 final size:42
Alignment explanation
Indices: 60210674--60210791 Score: 159
Period size: 42 Copynumber: 2.8 Consensus size: 42
60210664 TGATAGATCA
* * *
60210674 TGTATCAGTGAAGCTCCCCACGAGAGCTTATGTGATAAGTTG
1 TGTATCAGTGAAGCTCCCCACGAGAGCTTAAGTGACAAGCTG
* *
60210716 TGTATCAATGAAGCTCTCCACGAGAGCTTAAGTGACAAGCTG
1 TGTATCAGTGAAGCTCCCCACGAGAGCTTAAGTGACAAGCTG
*
60210758 TGTATCAGTGAAGCT-CCCATGCA-AGCTTAAGTGA
1 TGTATCAGTGAAGCTCCCCACG-AGAGCTTAAGTGA
60210792 TTACGCTCCT
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
41 15 0.22
42 52 0.78
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (42 bp):
TGTATCAGTGAAGCTCCCCACGAGAGCTTAAGTGACAAGCTG
Found at i:60226008 original size:34 final size:34
Alignment explanation
Indices: 60225965--60226034 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
60225955 CCTTTACAAT
60225965 AAACCAAGTCATACAATTATACTTTTAAACATTA
1 AAACCAAGTCATACAATTATACTTTTAAACATTA
*
60225999 AAACCAAGTCATATAATTATACTTTTAAACATTA
1 AAACCAAGTCATACAATTATACTTTTAAACATTA
60226033 AA
1 AA
60226035 TAACATTGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.49, C:0.16, G:0.03, T:0.33
Consensus pattern (34 bp):
AAACCAAGTCATACAATTATACTTTTAAACATTA
Found at i:60227646 original size:24 final size:24
Alignment explanation
Indices: 60227619--60227667 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
60227609 ATTTTACAAA
60227619 AGAAGGTTTGTAGAAAAAATTGAG
1 AGAAGGTTTGTAGAAAAAATTGAG
60227643 AGAAGGTTTGTAGAAAAAATTGAG
1 AGAAGGTTTGTAGAAAAAATTGAG
60227667 A
1 A
60227668 AAAAAATAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.47, C:0.00, G:0.29, T:0.24
Consensus pattern (24 bp):
AGAAGGTTTGTAGAAAAAATTGAG
Found at i:60236033 original size:46 final size:45
Alignment explanation
Indices: 60235964--60236136 Score: 181
Period size: 46 Copynumber: 3.8 Consensus size: 45
60235954 GTAATCCGCC
*
60235964 CCTAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCTAAGTGAACTCAGACTCAACTCAACGAGTTCGGGCATTCGCAT
* *
60236009 CCATAAGTGAACTCAGACTCAACTCAACAAGTTCGGATGCCTAGTT-ACAT
1 CC-TAAGTGAACTCAGACTCAACTCAACGAGTTCGG--G-C-A-TTCGCAT
* * **
60236059 -CTCA-TGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCTAAGTGAACTCAGACTCAACTCAACGAGTTCGGGCATTCGCAT
* *
60236102 CTGTAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 C-CTAAGTGAACTCAGACTCAACTCAACGAGTTCG
60236137 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 11, Indels: 19
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 4 0.04
46 59 0.55
47 26 0.24
48 3 0.03
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (45 bp):
CCTAAGTGAACTCAGACTCAACTCAACGAGTTCGGGCATTCGCAT
Found at i:60236078 original size:93 final size:92
Alignment explanation
Indices: 60235970--60236140 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 92
60235960 CGCCCCTAAG
**
60235970 TGAACTCAGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 TGAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
60236035 ACAAGTTCGGATGCCTAGTTACATCTCA
66 ACAAGTTC-GATGCCTAGTTACATCTCA
* * ** *
60236063 TGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCTGTAAGTGAACTCGGACTCAACTCA
1 TGAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
60236128 ACGAGTTCGATGC
66 ACAAGTTCGATGC
60236141 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
92 5 0.07
93 65 0.93
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (92 bp):
TGAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACAAGTTCGATGCCTAGTTACATCTCA
Found at i:60241259 original size:27 final size:27
Alignment explanation
Indices: 60241203--60241299 Score: 140
Period size: 27 Copynumber: 3.6 Consensus size: 27
60241193 TAAATTGTAC
*
60241203 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGATTATGT
*
60241231 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* *
60241258 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
60241285 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
60241300 GACTCAATAT
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
27 47 0.75
28 16 0.25
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:60244635 original size:39 final size:40
Alignment explanation
Indices: 60244478--60244702 Score: 273
Period size: 40 Copynumber: 5.7 Consensus size: 40
60244468 GGTCCTCGTT
* * *
60244478 CAAATGCCTTCGGGACATAGCCCCG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
60244518 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
60244558 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
60244598 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
60244637 CAAATGCCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATG-CCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCA
60244679 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
60244703 CAGCATTCAA
Statistics
Matches: 165, Mismatches: 13, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
39 45 0.27
40 96 0.58
41 17 0.10
42 7 0.04
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:60266010 original size:37 final size:37
Alignment explanation
Indices: 60265960--60266038 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
60265950 TTATTACGAA
* ** *
60265960 GTCTTACCCGGACATAATCTTCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
60265997 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
60266034 GTCTT
1 GTCTT
60266039 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:60266231 original size:49 final size:49
Alignment explanation
Indices: 60266157--60266640 Score: 763
Period size: 49 Copynumber: 10.1 Consensus size: 49
60266147 CCCTTCGGGA
* * * * *
60266157 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
60266204 CCTGTCACATATATATACACTTCCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60266253 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60266300 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60266349 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60266398 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60266447 CTTATCTC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60266494 CTTATCACATATATATACACTTCCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60266543 CTTATCTC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
60266590 CCTATCAC--GTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60266637 CTTA
1 CTTA
60266641 CTATCATTTC
Statistics
Matches: 409, Mismatches: 22, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
47 185 0.45
48 1 0.00
49 223 0.55
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:60266321 original size:96 final size:96
Alignment explanation
Indices: 60266157--60266640 Score: 801
Period size: 96 Copynumber: 5.0 Consensus size: 96
60266147 CCCTTCGGGA
* * * * * * *
60266157 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
*
60266222 ACTTCCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
60266253 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
60266318 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
60266349 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAT
60266414 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
* *
60266447 CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
*
60266512 ACTTCCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
60266543 CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC--GTATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
60266606 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
60266637 CTTA
1 CTTA
60266641 CTATCATTTC
Statistics
Matches: 368, Mismatches: 18, Indels: 6
0.94 0.05 0.02
Matches are distributed among these distances:
94 41 0.11
96 234 0.64
98 93 0.25
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:60270153 original size:40 final size:40
Alignment explanation
Indices: 60270096--60270358 Score: 291
Period size: 40 Copynumber: 6.6 Consensus size: 40
60270086 CCAGCATGAT
* * *
60270096 TGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
60270136 TGCTCTTCGGAACTTAGCCCGGATACATCGCTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
60270176 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
60270216 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * * * *
60270256 TGCTCTTCGGGACTTAGCCCGGATTTAGTAATTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAA
* **
60270297 TGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGGA-CTTAGCCCGGATA-CATCAC-TAGCACGAA
*
60270337 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
60270359 CATCATTCGA
Statistics
Matches: 192, Mismatches: 26, Indels: 10
0.84 0.11 0.04
Matches are distributed among these distances:
39 3 0.02
40 170 0.89
41 19 0.10
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:60270182 original size:80 final size:80
Alignment explanation
Indices: 60270083--60270358 Score: 324
Period size: 80 Copynumber: 3.5 Consensus size: 80
60270073 CGAATACACG
* * * *
60270083 TCACCAGCATGATTGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAA
60270148 CTTAGCCCGGATACA
66 CTTAGCCCGGATACA
* * * * *
60270163 TCGCTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTTGGGA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAA
60270228 CTTAGCCCGGATACA
66 CTTAGCCCGGATACA
* * * * *
60270243 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTTAGTAATTCGCACCAATGC-CTTCGGA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACGAATGCTCTTCGGA
* * **
60270307 TCTTAGTCCGGATATGG
65 ACTTAGCCCGGATA-CA
* *
60270324 TCACTTAGCA-CAAAGC-CTTCGGGACTTAGCCCGGA
1 TCAC-TAGCATGAATGCTCTTCGGGACTTAGCCCGGA
60270359 CATCATTCGA
Statistics
Matches: 168, Mismatches: 25, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
80 144 0.86
81 19 0.11
82 5 0.03
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (80 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAA
CTTAGCCCGGATACA
Found at i:60270702 original size:29 final size:29
Alignment explanation
Indices: 60270663--60270741 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
60270653 CTTAATAATC
*
60270663 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
60270693 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
60270722 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
60270742 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:60272685 original size:37 final size:37
Alignment explanation
Indices: 60272635--60272713 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
60272625 TTATTACGAA
* ** *
60272635 GTCTTACCCGGACATAATCTTCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
60272672 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
60272709 GTCTT
1 GTCTT
60272714 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:60272906 original size:49 final size:49
Alignment explanation
Indices: 60272834--60273265 Score: 691
Period size: 49 Copynumber: 9.0 Consensus size: 49
60272824 CTTCGGGACT
* * * * *
60272834 TATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* * *
60272881 TGTCACATATATATACACTTCCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
60272930 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
60272977 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
60273026 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
60273075 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
60273124 TATCACATATATATACACTTCCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
60273173 TATCTC--ATATATACATTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
60273220 TATCAC--GTATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
60273266 TTACTATCAT
Statistics
Matches: 361, Mismatches: 20, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
47 133 0.37
48 1 0.00
49 227 0.63
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (49 bp):
TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
Found at i:60279627 original size:32 final size:33
Alignment explanation
Indices: 60279583--60279646 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
60279573 TTCTTCTTGA
* *
60279583 CATTCCAACTCCTGTCTAGCAA-CCAACACTCC
1 CATTCCAACTCCTGTCCAGCAATCAAACACTCC
*
60279615 CATTCCAGCTCCTGTCCAGCAATCAAACACTC
1 CATTCCAACTCCTGTCCAGCAATCAAACACTC
60279647 TCACTCAGAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 20 0.71
33 8 0.29
ACGTcount: A:0.28, C:0.42, G:0.08, T:0.22
Consensus pattern (33 bp):
CATTCCAACTCCTGTCCAGCAATCAAACACTCC
Found at i:60282220 original size:12 final size:12
Alignment explanation
Indices: 60282203--60282239 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
60282193 ATACAGAAAG
*
60282203 AGATGCAGGAAC
1 AGATGCAAGAAC
*
60282215 AGATGCAAGCAC
1 AGATGCAAGAAC
60282227 AGATGCAAGAAC
1 AGATGCAAGAAC
60282239 A
1 A
60282240 ATTGGCCAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.46, C:0.19, G:0.27, T:0.08
Consensus pattern (12 bp):
AGATGCAAGAAC
Found at i:60290015 original size:64 final size:64
Alignment explanation
Indices: 60289914--60290040 Score: 211
Period size: 64 Copynumber: 2.0 Consensus size: 64
60289904 CATTCATAAT
* *
60289914 ACATCTAGTTAGGAGCACTTGATTTATTTTGATCATAGCATCCTAATTATTTGACATAAGCATC
1 ACATCTAGCTAGGAGCACTTGATTTATTTCGATCATAGCATCCTAATTATTTGACATAAGCATC
*
60289978 ACATCTAGCTAGGAGCACTTGGA-TTATTTCGATCATAGCATCCTAATTATTTGGCATAAGCAT
1 ACATCTAGCTAGGAGCACTT-GATTTATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
60290041 AGATACATGA
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
64 57 0.97
65 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (64 bp):
ACATCTAGCTAGGAGCACTTGATTTATTTCGATCATAGCATCCTAATTATTTGACATAAGCATC
Found at i:60290279 original size:45 final size:45
Alignment explanation
Indices: 60290230--60290317 Score: 124
Period size: 45 Copynumber: 2.0 Consensus size: 45
60290220 AAGCAGACTA
*
60290230 AAAATTACAGA-TCTTATCTCCATGTATCAGCTATGGAGCAGATCG
1 AAAA-TACAGAGTCTTATCTCCATGTATCAGCTATGGAACAGATCG
** *
60290275 AAAATGGAGAGTCTTATCTCCATGTATCGGCTATGGAACAGAT
1 AAAATACAGAGTCTTATCTCCATGTATCAGCTATGGAACAGAT
60290318 TTCAACCACC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
44 4 0.11
45 34 0.89
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (45 bp):
AAAATACAGAGTCTTATCTCCATGTATCAGCTATGGAACAGATCG
Found at i:60290395 original size:45 final size:45
Alignment explanation
Indices: 60290331--60290441 Score: 186
Period size: 45 Copynumber: 2.5 Consensus size: 45
60290321 AACCACCACC
* *
60290331 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGTAAGT
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGATAGCAAGT
*
60290376 CTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGT
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGATAGCAAGT
*
60290421 CTTATCTTCCTAAAGTTGCAG
1 CTTATCTCCCTAAAGTTGCAG
60290442 GAAGTAGACT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 62 1.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (45 bp):
CTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGATAGCAAGT
Found at i:60290606 original size:223 final size:221
Alignment explanation
Indices: 60290154--60290829 Score: 684
Period size: 223 Copynumber: 3.0 Consensus size: 221
60290144 GATTAAAAAC
* * * *
60290154 CTTATCTCCCTGAAGCTGTAGTGGAGCAGGTTGAAG-TGACAAGTCTTATCTTCTTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCA-GATGAAGATGACAAGTCTTATCTTCCTGAAGTTGCA
* * * *
60290218 GGAAGCAGACTAAAAATTACAGATCTTATCTCCATGTATCAGCTATGGAGCAGATCGAAAATGGA
65 GGAAGCAGACTGAAAGTTATAGATCTTATCTCCATGTATCAGCTATGGAGCAGATCGAAAATGGC
* * * * *
60290283 GAGTCTTATCTCCATGTATCGGCTATGGAACAGATTTCAACCACCACCCTTATCTCCCTGAAGTT
130 GAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTCAGCCACTACTCTTATCTTCCTGAAGTT
* *
60290348 GCAGTGGAGCAGACT-AAAGATAGTAAG-T
195 GCAG-GAAGCAGACTGAAA-AT-TTAAGAT
* *
60290376 CTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGAT-AGCAAGTCTTATCTTCCTAAAGTTGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TGAAGATGA-CAAGTCTTATCTTCCTGAAGTTGC
* *
60290440 AGGAAGTAGACTGAAAGTTATAGATCTTATCTCCATGTATCGGCTATGGAGCAGATC-AGAAATG
64 AGGAAGCAGACTGAAAGTTATAGATCTTATCTCCATGTATCAGCTATGGAGCAGATCGA-AAATG
* * * *
60290504 GCGAGTCTTATCTCTATGTATCGGCTATGGAGCAGATTTTAGCCACTAGTCTTATCTTCTTGAAG
128 GCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTCAGCCACTACTCTTATCTTCCTGAAG
60290569 TTGCAGGAAGCAGACTGAAAATTTATAGAT
193 TTGCAGGAAGCAGACTGAAAATTTA-AGAT
* * * * * * *
60290599 TTTATCTCCATGTA-TCGGCTA-TGGAGTAGATCGAAAATGACAAGTCTTATCTCCCTGAAGTTG
1 CTTATCTCCCTGAAGT-TGC-AGTGGAGCAGAT-GAAGATGACAAGTCTTATCTTCCTGAAGTTG
* * * *
60290662 CAGTGGAGCAGACTG-AAG--ATAGCAAGTCTTATTTTCC-TGAAGT-TGC-A-GGAAGCAGA-C
63 CAG-GAAGCAGACTGAAAGTTATAG--A-TCTTA-TCTCCATGTA-TCAGCTATGG-AGCAGATC
** * * * *
60290719 TGAAAATTAC-AGATCTTATCTCCATGTATCAGCTATGGAGCAGATCTCAGCTACTATTCTTATC
121 -GAAAATGGCGAG-TCTTATCTCCATGTATCGGCTATGGAGCAGATTTCAGCCACTACTCTTATC
60290783 TTCCTGAAGTTGCAGGAAGCAGACTGAAAA-TTACAGAT
184 TTCCTGAAGTTGCAGGAAGCAGACTGAAAATTTA-AGAT
60290821 CTTATCTCC
1 CTTATCTCC
60290830 ATGTAACGGC
Statistics
Matches: 385, Mismatches: 48, Indels: 42
0.81 0.10 0.09
Matches are distributed among these distances:
221 7 0.02
222 67 0.17
223 284 0.74
224 22 0.06
225 5 0.01
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (221 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATGAAGATGACAAGTCTTATCTTCCTGAAGTTGCAG
GAAGCAGACTGAAAGTTATAGATCTTATCTCCATGTATCAGCTATGGAGCAGATCGAAAATGGCG
AGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTCAGCCACTACTCTTATCTTCCTGAAGTTG
CAGGAAGCAGACTGAAAATTTAAGAT
Done.