Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr7
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: 21614486
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1093914 characters in sequence are not A, C, G, or T
File 6 of 54
Found at i:2630030 original size:288 final size:288
Alignment explanation
Indices: 2629519--2630290 Score: 914
Period size: 288 Copynumber: 2.7 Consensus size: 288
2629509 TTGTGGGTTC
* * * * **
2629519 AAAATTGCCCTAATCTGAAGGATTTGCCCGACTGGATACTCAATCTCACTTCCCTTAGAAGTCTT
1 AAAATTGCCCTAATCTGAGGGCTTTGCCAGACTGGATACTCAATCTCACTTCCCTTAAAACACTT
**** * * * * * *
2629584 CAAATCAATGAGTGCCTTGAATTACAGTCCATTCCAGAAGGGACGCCTCAGCTTACATCTTTAGA
66 CAAATTTGGGAGTGCCTTGAATTACAGTACATGCCAAAAGGGACACATCAGCTTACATCTTTAAA
* * * * *
2629649 AGAATTATCTGTTCAGAATTGTCATAATTTGAGGGCTTTGCCAGAGTGGATACTCAATCTCACTT
131 AGAATTATCTGTACAGAAATGCCATAATCTGAGGGCTTTGCCAGACTGGATACTCAATCTCACTT
**
2629714 CCCTTAAAACACTTCGAATTTGGGAGTGCCTTGAATTACAGTACATGCCAAAAGGGACACATCAG
196 CCCTTAAAACACTTCGAATTCAGGAGTGCCTTGAATTACAGTACATGCCAAAAGGGACACATCAG
* *
2629779 CTTACCTCTTTAAAAGAATTGTTCGTAGG
261 CTTACCTCTTTAAAAGAATTGTCCAT-GG
* *
2629808 GAAA-TGCCCTAATCTGAGGGCTTTGCCAGATTGGATACTCAATCTCACTTCCCTTAAAACACTT
1 AAAATTGCCCTAATCTGAGGGCTTTGCCAGACTGGATACTCAATCTCACTTCCCTTAAAACACTT
* *
2629872 CGAATTTGGGAGTGCCTTGAATTACAGTACATGCCAAAAGGGACACATCAGCTTACTTCTTTAAA
66 CAAATTTGGGAGTGCCTTGAATTACAGTACATGCCAAAAGGGACACATCAGCTTACATCTTTAAA
* ** * *
2629937 AGAATTGT-TAGTAGGGAAATGCCCTAATCTGAGGGCTTTGCCTGACTGGATACTCAATCTCACT
131 AGAATTATCT-GTACAGAAATGCCATAATCTGAGGGCTTTGCCAGACTGGATACTCAATCTCACT
* *
2630001 TCCCTTACAAA-ACTTC-ATATTCAGGAGTGCCTTGAATTACAGTACATGCCAGAAGGGACGCAT
195 TCCCTTA-AAACACTTCGA-ATTCAGGAGTGCCTTGAATTACAGTACATGCCAAAAGGGACACAT
* *
2630064 CAGCTTACCTCTTTGAAAGAATTGTCCATTG
258 CAGCTTACCTCTTTAAAAGAATTGTCCATGG
* * * * *
2630095 AAAATTGCCCTCATCTTAGGGCTTTGCCTGACTGGATACTCAATCTCACTTCTCTTGAAACACTT
1 AAAATTGCCCTAATCTGAGGGCTTTGCCAGACTGGATACTCAATCTCACTTCCCTTAAAACACTT
* * ** ** *
2630160 CAAATTTGGAATTGCCTTGAATTACAGTACATGCCAGTAGGGATTTC-TCGGCTTACAT-TCTTA
66 CAAATTTGGGAGTGCCTTGAATTACAGTACATGCCAAAAGGGA-CACATCAGCTTACATCT-TTA
* * * ** * *
2630223 GAAGAATTATATG--CTG-ACCGCCATAATTTGAGGGCTTTGCAAGACTGGATACTCAATCTCAC
129 AAAGAATTATCTGTACAGAAATGCCATAATCTGAGGGCTTTGCCAGACTGGATACTCAATCTCAC
2630285 TTCCCT
194 TTCCCT
2630291 CAAAGATCTT
Statistics
Matches: 412, Mismatches: 64, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
285 46 0.11
286 1 0.00
287 7 0.02
288 350 0.85
289 8 0.02
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (288 bp):
AAAATTGCCCTAATCTGAGGGCTTTGCCAGACTGGATACTCAATCTCACTTCCCTTAAAACACTT
CAAATTTGGGAGTGCCTTGAATTACAGTACATGCCAAAAGGGACACATCAGCTTACATCTTTAAA
AGAATTATCTGTACAGAAATGCCATAATCTGAGGGCTTTGCCAGACTGGATACTCAATCTCACTT
CCCTTAAAACACTTCGAATTCAGGAGTGCCTTGAATTACAGTACATGCCAAAAGGGACACATCAG
CTTACCTCTTTAAAAGAATTGTCCATGG
Found at i:2636358 original size:144 final size:143
Alignment explanation
Indices: 2636110--2636879 Score: 797
Period size: 144 Copynumber: 5.4 Consensus size: 143
2636100 ATGGGTTGAA
* * ** ** *
2636110 AATTGCCCTAATTTGAGGGCTTTGCCCGACTGGATACTCAATCTCACTTCCCTTAGCAGTCTTCG
1 AATTGCCATAATTTGAGGGCTTTGCCAGACTGGATACTCAATCTCACTTCCCTTAAAACACTTCA
* ** * * * *
2636175 AATTAAGGAGTGCCTTGAATTACAGTC-CATTTCGGAAGGGACGCCTCAGCTTACATCTTTAGAA
66 AATTTAGGAGTGCCTTGAATTACAG-CACATGCCAGAAGGGACGCATCAGCTTACCTCTTTAAAA
* *
2636239 GAATTATCTGTTCAG
130 GAATTGTCCGTT-AG
* *
2636254 AATTGTCATAATTTGAGGGCTTTGCCAGAGTGGATACTCAATCTCACTTCCCTTAAAACACTTCA
1 AATTGCCATAATTTGAGGGCTTTGCCAGACTGGATACTCAATCTCACTTCCCTTAAAACACTTCA
* * * *
2636319 AATTTGGGGGTGCGTTGAATTACAGCACATGCCAAAAGGGACGCATCAGCTTACCTCTTTAAAAG
66 AATTTAGGAGTGCCTTGAATTACAGCACATGCCAGAAGGGACGCATCAGCTTACCTCTTTAAAAG
* *
2636384 AATTGT-GGGTAGGG
131 AATTGTCCGTTA--G
* * * * *
2636398 AAATGCCTTAATCTGAGGGCTTTGCCA-AGCTGGATACTTAATCTCACTTCCCTTAAAACACTTG
1 AATTGCCATAATTTGAGGGCTTTGCCAGA-CTGGATACTCAATCTCACTTCCCTTAAAACACTTC
* *
2636462 GAATTTAGGAGTGCCTTGAATTACAGTACATGCCAGAAGGGACGCATCAGCTTACCTCTTTAAAA
65 AAATTTAGGAGTGCCTTGAATTACAGCACATGCCAGAAGGGACGCATCAGCTTACCTCTTTAAAA
2636527 GAATTGTCCG-TAGG
130 GAATTGTCCGTTA-G
* * *
2636541 CAATTGCCCTAATTTGAGGGCTTTGCCGGATTGGATACTCAATCTCACTTCCCTTACAAAC-CTT
1 -AATTGCCATAATTTGAGGGCTTTGCCAGACTGGATACTCAATCTCACTTCCCTTA-AAACACTT
* * * * * *
2636605 CTAATTAAGGGGTGCTTTGAATTACAGTC-CACGCCAAAAGGGACGCATCAGCTTACCTCTTTAA
64 CAAATTTAGGAGTGCCTTGAATTACAG-CACATGCCAGAAGGGACGCATCAGCTTACCTCTTTAA
* *
2636669 AAGAATTGTCCATTGAA
128 AAGAATTGTCCGTT-AG
* * * * *
2636686 AATTGCCCTCATCTT-AGGGCTTTGCCTGACTGGATACTCAATCTCACTTCTCTTGAAACACTTC
1 AATTGCCATAAT-TTGAGGGCTTTGCCAGACTGGATACTCAATCTCACTTCCCTTAAAACACTTC
* * ** * * *
2636750 AAATTT-GGAATTGCCTTGAATTACAGTACATGCCAGAAGGGACGCATTGGCTTGCATCTTTAGA
65 AAATTTAGG-AGTGCCTTGAATTACAGCACATGCCAGAAGGGACGCATCAGCTTACCTCTTTAAA
* *
2636814 AGAATTAAT-TGTT--
129 AGAATT-GTCCGTTAG
* * * *
2636827 TACTGCCATAATTTGAGGGCTTTTCCAGACTGGATACTTGAATCTCACTTCCC
1 AATTGCCATAATTTGAGGGCTTTGCCAGACTGGATAC-TCAATCTCACTTCCC
2636880 CAAAGATCTT
Statistics
Matches: 526, Mismatches: 82, Indels: 38
0.81 0.13 0.06
Matches are distributed among these distances:
140 2 0.00
141 28 0.05
142 14 0.03
143 12 0.02
144 459 0.87
145 10 0.02
146 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (143 bp):
AATTGCCATAATTTGAGGGCTTTGCCAGACTGGATACTCAATCTCACTTCCCTTAAAACACTTCA
AATTTAGGAGTGCCTTGAATTACAGCACATGCCAGAAGGGACGCATCAGCTTACCTCTTTAAAAG
AATTGTCCGTTAG
Found at i:2636643 original size:288 final size:288
Alignment explanation
Indices: 2636107--2636879 Score: 947
Period size: 288 Copynumber: 2.7 Consensus size: 288
2636097 ATTATGGGTT
* * ** **
2636107 GAAAATTGCCCTAATTTGAGGGCTTTGCCCGACTGGATACTCAATCTCACTTCCCTTAGCAGTCT
1 GAAAATTGCCCTAATCTGAGGGCTTTGCCAGACTGGATACTCAATCTCACTTCCCTTAAAACACT
* * ** * *
2636172 TCGAATTAAGGAGTGCCTTGAATTACAGTCCATTTCGGAAGGGACGCCTCAGCTTACATCTTTAG
66 TCGAATTTAGGAGTGCCTTGAATTACAGTACATGCCAGAAGGGACGCATCAGCTTACATCTTTAG
* *
2636237 AAGAATTATCTGTTCAGAATTGTCATAATTTGAGGGCTTTGCCAGAGTGGATACTCAATCTCACT
131 AAGAATTATCCGTTCAGAATTGCCATAATTTGAGGGCTTTGCCAGAGTGGATACTCAATCTCACT
** *
2636302 TCCCTTAAAACACTTCAAATTTGGGGGTGCGTTGAATTACAGCACATGCCAAAAGGGACGCATCA
196 TCCCTTAAAACACTTCAAATTAAGGGGTGCGTTGAATTACAGCACACGCCAAAAGGGACGCATCA
***
2636367 GCTTACCTCTTTAAAAGAATTGTGGGTAG
261 GCTTACCTCTTTAAAAGAATTGTCCAT-G
* * *
2636396 GGAAA-TGCCTTAATCTGAGGGCTTTGCCA-AGCTGGATACTTAATCTCACTTCCCTTAAAACAC
1 GAAAATTGCCCTAATCTGAGGGCTTTGCCAGA-CTGGATACTCAATCTCACTTCCCTTAAAACAC
* *
2636459 TTGGAATTTAGGAGTGCCTTGAATTACAGTACATGCCAGAAGGGACGCATCAGCTTACCTCTTTA
65 TTCGAATTTAGGAGTGCCTTGAATTACAGTACATGCCAGAAGGGACGCATCAGCTTACATCTTTA
* * * * *
2636524 AAAGAATTGTCCG-T-AGGCAATTGCCCTAATTTGAGGGCTTTGCCGGATTGGATACTCAATCTC
130 GAAGAATTATCCGTTCA-G-AATTGCCATAATTTGAGGGCTTTGCCAGAGTGGATACTCAATCTC
* *
2636587 ACTTCCCTTACAAAC-CTTCTAATTAAGGGGTGCTTTGAATTACAGTC-CACGCCAAAAGGGACG
193 ACTTCCCTTA-AAACACTTCAAATTAAGGGGTGCGTTGAATTACAG-CACACGCCAAAAGGGACG
*
2636650 CATCAGCTTACCTCTTTAAAAGAATTGTCCATT
256 CATCAGCTTACCTCTTTAAAAGAATTGTCCATG
* * * * *
2636683 GAAAATTGCCCTCATCTTAGGGCTTTGCCTGACTGGATACTCAATCTCACTTCTCTTGAAACACT
1 GAAAATTGCCCTAATCTGAGGGCTTTGCCAGACTGGATACTCAATCTCACTTCCCTTAAAACACT
* * ** *
2636748 TCAAATTT-GGAATTGCCTTGAATTACAGTACATGCCAGAAGGGACGCATTGGCTTGCATCTTTA
66 TCGAATTTAGG-AGTGCCTTGAATTACAGTACATGCCAGAAGGGACGCATCAGCTTACATCTTTA
* * * * * *
2636812 GAAGAATTAAT-TGTT---TACTGCCATAATTTGAGGGCTTTTCCAGACTGGATACTTGAATCTC
130 GAAGAATT-ATCCGTTCAGAATTGCCATAATTTGAGGGCTTTGCCAGAGTGGATAC-TCAATCTC
2636873 ACTTCCC
193 ACTTCCC
2636880 CAAAGATCTT
Statistics
Matches: 415, Mismatches: 58, Indels: 25
0.83 0.12 0.05
Matches are distributed among these distances:
285 31 0.07
286 15 0.04
287 9 0.02
288 348 0.84
289 12 0.03
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (288 bp):
GAAAATTGCCCTAATCTGAGGGCTTTGCCAGACTGGATACTCAATCTCACTTCCCTTAAAACACT
TCGAATTTAGGAGTGCCTTGAATTACAGTACATGCCAGAAGGGACGCATCAGCTTACATCTTTAG
AAGAATTATCCGTTCAGAATTGCCATAATTTGAGGGCTTTGCCAGAGTGGATACTCAATCTCACT
TCCCTTAAAACACTTCAAATTAAGGGGTGCGTTGAATTACAGCACACGCCAAAAGGGACGCATCA
GCTTACCTCTTTAAAAGAATTGTCCATG
Found at i:2672113 original size:11 final size:11
Alignment explanation
Indices: 2672050--2672114 Score: 51
Period size: 11 Copynumber: 5.6 Consensus size: 11
2672040 AAGACAATAC
2672050 ATTTTTAAAAT
1 ATTTTTAAAAT
*
2672061 ATGTTATTAAAAA
1 AT-TT-TTAAAAT
*
2672074 AATTTTAATAAT
1 ATTTTTAA-AAT
**
2672086 ATTTTT-TTAT
1 ATTTTTAAAAT
2672096 ATTTTTTAAAAT
1 A-TTTTTAAAAT
2672108 ATTTTTA
1 ATTTTTA
2672115 TAGATCTAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
10 3 0.07
11 17 0.41
12 14 0.34
13 7 0.17
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (11 bp):
ATTTTTAAAAT
Found at i:2673849 original size:24 final size:25
Alignment explanation
Indices: 2673814--2673872 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 25
2673804 GTCAATTTAT
* *
2673814 TTTTTAT-TTTTTTTAA-AAAATTA
1 TTTTTATAATTTTATAATAAAATTA
2673837 TTTTTATAATTTTATAATAAAATTA
1 TTTTTATAATTTTATAATAAAATTA
2673862 -TTTTATAATTT
1 TTTTTATAATTT
2673873 AATTTATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
23 7 0.22
24 18 0.56
25 7 0.22
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (25 bp):
TTTTTATAATTTTATAATAAAATTA
Found at i:2673881 original size:25 final size:26
Alignment explanation
Indices: 2673825--2673882 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 26
2673815 TTTTATTTTT
* *
2673825 TTTAAAAAATTATTTTTATAATTTTA
1 TTTATAAAATTATTTTTATAATTTAA
*
2673851 -TAATAAAATTA-TTTTATAATTTAA
1 TTTATAAAATTATTTTTATAATTTAA
2673875 TTTATAAA
1 TTTATAAA
2673883 TTAAATATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
TTTATAAAATTATTTTTATAATTTAA
Found at i:2673975 original size:22 final size:22
Alignment explanation
Indices: 2673946--2674015 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 22
2673936 TAATATTATT
2673946 AATAATTAAATTATTAATTTTA
1 AATAATTAAATTATTAATTTTA
* *
2673968 TATAATTAAATATATAAAATTATTA
1 AATAATTAAAT-TAT-TAATT-TTA
*
2673993 AATTAATTAAAATTATTTATTTT
1 AA-TAATT-AAATTATTAATTTT
2674016 TTTTAACTCA
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
22 10 0.26
23 3 0.08
24 6 0.16
25 7 0.18
26 8 0.21
27 4 0.11
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AATAATTAAATTATTAATTTTA
Found at i:2673995 original size:8 final size:8
Alignment explanation
Indices: 2673882--2674009 Score: 63
Period size: 8 Copynumber: 16.4 Consensus size: 8
2673872 TAATTTATAA
2673882 ATTAAA-T
1 ATTAAATT
*
2673889 ATT-AATA
1 ATTAAATT
2673896 ATTAAATT
1 ATTAAATT
* *
2673904 ATAAAAAT
1 ATTAAATT
*
2673912 ATTAAAAT
1 ATTAAATT
*
2673920 A-TAAA-N
1 ATTAAATT
* *
2673926 ATAAAATA
1 ATTAAATT
*
2673934 AATAATATT
1 ATTAA-ATT
*
2673943 ATT-AATA
1 ATTAAATT
2673950 ATTAAATT
1 ATTAAATT
2673958 ATT-AATT
1 ATTAAATT
* *
2673965 -TTATATA
1 ATTAAATT
2673972 ATTAAATAT
1 ATTAAAT-T
*
2673981 ATAAAATT
1 ATTAAATT
2673989 ATTAAATT
1 ATTAAATT
2673997 AATTAAAATT
1 -ATT-AAATT
2674007 ATT
1 ATT
2674010 TATTTTTTTT
Statistics
Matches: 90, Mismatches: 20, Indels: 20
0.69 0.15 0.15
Matches are distributed among these distances:
6 5 0.06
7 24 0.27
8 40 0.44
9 16 0.18
10 5 0.06
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (8 bp):
ATTAAATT
Found at i:2675426 original size:13 final size:13
Alignment explanation
Indices: 2675408--2675432 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2675398 GTTTAACTCT
2675408 AACAAAAAAAAAA
1 AACAAAAAAAAAA
2675421 AACAAAAAAAAA
1 AACAAAAAAAAA
2675433 GTTAATCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (13 bp):
AACAAAAAAAAAA
Found at i:2676644 original size:121 final size:121
Alignment explanation
Indices: 2676495--2676736 Score: 407
Period size: 121 Copynumber: 2.0 Consensus size: 121
2676485 AAATAAATGA
* *
2676495 CAAAAAAGTGAAATGACAAATTAATTAAAAATGAGTAAAA-GATTAGGGTAAAAATAAATAAATA
1 CAAAAAAGTGAAATGACAAATTAATTAAAAAAGAG-AAAATGACTAGGGTAAAAATAAATAAATA
2676559 AATGATAAAATTGTATTAAAACTAAAGAGATCTATTTCATTATTTAGAATATTATAT
65 AATGATAAAATTGTATTAAAACTAAAGAGATCTATTTCATTATTTAGAATATTATAT
* *
2676616 NCAAAAAAGTGAAATGA-TAATTAATTAAAAAAGAGAAAATGACTAGGGTAAAAATAAATGAATA
1 -CAAAAAAGTGAAATGACAAATTAATTAAAAAAGAGAAAATGACTAGGGTAAAAATAAATAAATA
*
2676680 AATGGTAAAATTGTATTAAAACTAAAGAGATCTATTTCATTATTTAGAATATTATAT
65 AATGATAAAATTGTATTAAAACTAAAGAGATCTATTTCATTATTTAGAATATTATAT
2676737 ATATACATTT
Statistics
Matches: 114, Mismatches: 5, Indels: 3
0.93 0.04 0.02
Matches are distributed among these distances:
120 4 0.04
121 94 0.82
122 16 0.14
ACGTcount: A:0.53, C:0.04, G:0.12, T:0.30
Consensus pattern (121 bp):
CAAAAAAGTGAAATGACAAATTAATTAAAAAAGAGAAAATGACTAGGGTAAAAATAAATAAATAA
ATGATAAAATTGTATTAAAACTAAAGAGATCTATTTCATTATTTAGAATATTATAT
Found at i:2680451 original size:141 final size:141
Alignment explanation
Indices: 2680189--2680455 Score: 313
Period size: 141 Copynumber: 1.9 Consensus size: 141
2680179 NGTAGGCAAT
* * *
2680189 TGCCCTAATTTGAGGGCTTTACCTGACTGGATACTCAATCTCACTTCCCTTAAAACACTTGAAAT
1 TGCCATAATTTGAGGGCTTTACCAGACTGGATACTCAATCTCACTTCCCTCAAAACACTTGAAAT
* * * * ** * **
2680254 TAACGGGTGCCTTGAATTACAGTACATGCCAGAAGGGACGCATTGGCTTGCATCTTTAGAAGAAT
66 TAACGAGTGCCTTCAATCACAGTACATGCAAGAAGGGACGCAAAGCCTCACATCTTTAGAAGAAT
2680319 TAATTGTTTAC
131 TAATTGTTTAC
* * *
2680330 TGCCATAATTTGAGGGCTTTGCCAGACTGGATACTCAATCTCACTTCCCTCAAAGAC-CTTTATA
1 TGCCATAATTTGAGGGCTTTACCAGACTGGATACTCAATCTCACTTCCCTCAAA-ACACTTGAAA
* * * * * *
2680394 -TATGCGAGTGCCTTCAATCACCGTACTTGCAAGGAGGGATGCAAAGCCTCACCTCTTTAGAA
65 TTA-ACGAGTGCCTTCAATCACAGTACATGCAAGAAGGGACGCAAAGCCTCACATCTTTAGAA
2680456 CGATTGATGG
Statistics
Matches: 103, Mismatches: 21, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
140 2 0.02
141 99 0.96
142 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (141 bp):
TGCCATAATTTGAGGGCTTTACCAGACTGGATACTCAATCTCACTTCCCTCAAAACACTTGAAAT
TAACGAGTGCCTTCAATCACAGTACATGCAAGAAGGGACGCAAAGCCTCACATCTTTAGAAGAAT
TAATTGTTTAC
Found at i:2695972 original size:69 final size:68
Alignment explanation
Indices: 2695842--2695975 Score: 162
Period size: 69 Copynumber: 1.9 Consensus size: 68
2695832 AATTGTCGAG
* * * *
2695842 ACCTGCCACCCTTGGATCATTTTTCATCTCTCAAGTCTCTCAGTCTTTATCGTTCCAATGCTTTA
1 ACCTGCCACCCTTGGATCATCTTTCATCTCTCAAGTCTCTCACTCTTGACCGTT-CAATGCTTTA
2695907 AAAC
65 AAAC
* * **
2695911 ACCTGCCATCCTTGGATCATCTTTCATCTCTCGAGTCTCTTTCTCTTGACCAGTT-AGATGCTTT
1 ACCTGCCACCCTTGGATCATCTTTCATCTCTCAAGTCTCTCACTCTTGACC-GTTCA-ATGCTTT
2695975 A
64 A
2695976 GAATACGTGG
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
68 1 0.02
69 51 0.93
70 3 0.05
ACGTcount: A:0.19, C:0.30, G:0.12, T:0.39
Consensus pattern (68 bp):
ACCTGCCACCCTTGGATCATCTTTCATCTCTCAAGTCTCTCACTCTTGACCGTTCAATGCTTTAA
AAC
Found at i:2696764 original size:144 final size:144
Alignment explanation
Indices: 2696525--2696868 Score: 480
Period size: 144 Copynumber: 2.4 Consensus size: 144
2696515 AGACTTGCTG
* * *
2696525 GTTGAAAATTGCTCTAATCTGAGGGCTTTGCCGGATTGGATACTCAATCTCACTTCCCTTGAAAC
1 GTTGAAAATTGCCCTAATTTGAGGGCTTTGCCGGATTGGATACTCAATCTCACTTCCCTTAAAAC
* *
2696590 ACTTCAAATTTGGAACTGCCTTGAATTACAGCACATGCCA-AGAGGGACGCATCAGCTTACCTCT
66 ACTTCAAATTTGGAACTGCCTCGAATTACAGCACATGCCAGA-AGGGACGCATCAGCTTACATCT
*
2696654 TTAAAAAAATTATCC
130 TTAAAAAAATTATAC
*
2696669 GTTGAAAATTGCCCTAATTTGAGGGCTTTGCCGGATTGGATACTCAAACTCACTTCCCTTAAAAC
1 GTTGAAAATTGCCCTAATTTGAGGGCTTTGCCGGATTGGATACTCAATCTCACTTCCCTTAAAAC
* * * *
2696734 ACTTCAAATTTGGAAGTGCCTCGAATTACAGTACATGCCAGAAGGGACGCCTCGGCTTACATCTT
66 ACTTCAAATTTGGAACTGCCTCGAATTACAGCACATGCCAGAAGGGACGCATCAGCTTACATCTT
* *
2696799 TAGAAAAATTATAT
131 TAAAAAAATTATAC
* * * * * *
2696813 GTTG---ACTGCCATAATTTGAGGGCTTTTCCAGACTGGATACTTAATCTCACTTCCCT
1 GTTGAAAATTGCCCTAATTTGAGGGCTTTGCCGGATTGGATACTCAATCTCACTTCCCT
2696869 CAAAGACCTT
Statistics
Matches: 179, Mismatches: 20, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
141 45 0.25
144 133 0.74
145 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (144 bp):
GTTGAAAATTGCCCTAATTTGAGGGCTTTGCCGGATTGGATACTCAATCTCACTTCCCTTAAAAC
ACTTCAAATTTGGAACTGCCTCGAATTACAGCACATGCCAGAAGGGACGCATCAGCTTACATCTT
TAAAAAAATTATAC
Found at i:2696918 original size:141 final size:142
Alignment explanation
Indices: 2696539--2696921 Score: 389
Period size: 144 Copynumber: 2.7 Consensus size: 142
2696529 AAAATTGCTC
* * * * ** *
2696539 TAATCTGAGGGCTTTGCCGGATTGGATACTCAATCTCACTTCCCTTGAAACACTTCAAATTTGGA
1 TAATTTGAGGGCTTTGCCAGACTGGATACTCAAACTCACTTCCCTCAAAACACTTCAAATATGGA
* * * * * *
2696604 ACTGCCTTGAATTACAGCACATGCCAAG-AGGGACGCATCAGCTTACCTCTTTAAAAAAATTATC
66 AGTGCCTCGAATCACAGTACATG-CAAGAAGGGACGCATCAGCTTACATCTTTAAAAAAATTATA
* *
2696668 CGTTGAAAATTGCCC
130 CGTTG--AACTGCCA
* * * *
2696683 TAATTTGAGGGCTTTGCCGGATTGGATACTCAAACTCACTTCCCTTAAAACACTTCAAATTTGGA
1 TAATTTGAGGGCTTTGCCAGACTGGATACTCAAACTCACTTCCCTCAAAACACTTCAAATATGGA
* * * * * *
2696748 AGTGCCTCGAATTACAGTACATGCCAGAAGGGACGCCTCGGCTTACATCTTTAGAAAAATTATAT
66 AGTGCCTCGAATCACAGTACATGCAAGAAGGGACGCATCAGCTTACATCTTTAAAAAAATTATAC
2696813 GTTG-ACTGCCA
131 GTTGAACTGCCA
* * * * *
2696824 TAATTTGAGGGCTTTTCCAGACTGGATACTTAATCTCACTTCCCTCAAAGAC-CTTTACATATGT
1 TAATTTGAGGGCTTTGCCAGACTGGATACTCAAACTCACTTCCCTCAAA-ACACTTCAAATATG-
* *
2696888 G-AGTGCCTTC-AATCACCGTACTTGCAAGAAGGGA
64 GAAGTGCC-TCGAATCACAGTACATGCAAGAAGGGA
2696922 TGCAAAGCCT
Statistics
Matches: 207, Mismatches: 28, Indels: 11
0.84 0.11 0.04
Matches are distributed among these distances:
141 82 0.40
142 5 0.02
143 3 0.01
144 117 0.57
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.29
Consensus pattern (142 bp):
TAATTTGAGGGCTTTGCCAGACTGGATACTCAAACTCACTTCCCTCAAAACACTTCAAATATGGA
AGTGCCTCGAATCACAGTACATGCAAGAAGGGACGCATCAGCTTACATCTTTAAAAAAATTATAC
GTTGAACTGCCA
Found at i:2713596 original size:89 final size:91
Alignment explanation
Indices: 2713431--2713612 Score: 332
Period size: 89 Copynumber: 2.0 Consensus size: 91
2713421 ATTTGGTTTT
2713431 TTTTTATATATTTTATAGTCTTTACTAGGTTTTTTCTTTTTTTTTTCAATTGGAGGAGGGGATTT
1 TTTTTATATATTTTATAGTCTTTACTAGGTTTTTTC-TTTTTTTTTCAATTGGAGGAGGGGATTT
*
2713496 GAACCCTTCTCTTTAGACAAGAGATCA
65 GAACCATTCTCTTTAGACAAGAGATCA
2713523 TTTTT-TATATTTTATAGTCTTTACTAGGTTTTTTC-TTTTTTTTCAATTGGAGGAGGGGATTTG
1 TTTTTATATATTTTATAGTCTTTACTAGGTTTTTTCTTTTTTTTTCAATTGGAGGAGGGGATTTG
2713586 AACCATTCTCTTTAGACAAGAGATCA
66 AACCATTCTCTTTAGACAAGAGATCA
2713612 T
1 T
2713613 GCAACAACCA
Statistics
Matches: 89, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
89 54 0.61
91 30 0.34
92 5 0.06
ACGTcount: A:0.23, C:0.12, G:0.16, T:0.49
Consensus pattern (91 bp):
TTTTTATATATTTTATAGTCTTTACTAGGTTTTTTCTTTTTTTTTCAATTGGAGGAGGGGATTTG
AACCATTCTCTTTAGACAAGAGATCA
Found at i:2714655 original size:24 final size:23
Alignment explanation
Indices: 2714628--2714672 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
2714618 ATCTAGTTAG
2714628 ATTAGAATAACAATTCCTAATTCT
1 ATTAGAATAA-AATTCCTAATTCT
* *
2714652 ATTAGGATAAGATTCCTAATT
1 ATTAGAATAAAATTCCTAATT
2714673 AAATTAGGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
ATTAGAATAAAATTCCTAATTCT
Found at i:2714670 original size:23 final size:23
Alignment explanation
Indices: 2714640--2714685 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
2714630 TAGAATAACA
**
2714640 ATTCCTAATTCTATTAGGATAAG
1 ATTCCTAATTAAATTAGGATAAG
2714663 ATTCCTAATTAAATTAGGATAAG
1 ATTCCTAATTAAATTAGGATAAG
2714686 GTTATTGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (23 bp):
ATTCCTAATTAAATTAGGATAAG
Found at i:2719878 original size:23 final size:23
Alignment explanation
Indices: 2719852--2719897 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
2719842 TGGAATAACA
*
2719852 ATTCCTAATTCTATTAGGATAAG
1 ATTCCTAATTATATTAGGATAAG
2719875 ATTCCTAATTATATTAGGATAAG
1 ATTCCTAATTATATTAGGATAAG
2719898 GTTATTGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (23 bp):
ATTCCTAATTATATTAGGATAAG
Found at i:2726488 original size:144 final size:144
Alignment explanation
Indices: 2726255--2726592 Score: 456
Period size: 144 Copynumber: 2.4 Consensus size: 144
2726245 GTGTGTTAAA
* * *
2726255 AATTGCCATAATCTGAGGGCTTTTCCGGATTGGATACTCAATCTCACTTCCCTTAAAACACTTGA
1 AATTGCCATAATATGAGGGCTTTACCGGACTGGATACTCAATCTCACTTCCCTTAAAACACTTGA
* *
2726320 AATTTGGGGGTGCATTGAATTACAGTACATGCCAGAAGGGACGCATCAGCTTACCTCTTTAAATA
66 AATTTGGGAGTGCATTGAATTACAGTACATGCCAGAAGGGACGCATCAGCTTACATCTTTAAATA
2726385 AATTGTCCGTAGGC
131 AATTGTCCGTAGGC
* *
2726399 AATTGCCCTAATATGAGGGCTTTACCTGACTGGATACTCAATCTCACTTCCCTTAAAACACTTGA
1 AATTGCCATAATATGAGGGCTTTACCGGACTGGATACTCAATCTCACTTCCCTTAAAACACTTGA
* * *
2726464 AATTTGGGAGTGCCTTGAATTACAGTACATGCCAGAAGGGACGCCTCGGCTTACATCTTTAGAAG
66 AATTTGGGAGTGCATTGAATTACAGTACATGCCAGAAGGGACGCATCAGCTTACATCTTT---A-
* *
2726529 AATTAATTGT--TTA--C
127 AATAAATTGTCCGTAGGC
* * *
2726543 ---TGCCATAATTTGAGGGCTTTGCCAGACTGGATACTCAATCTCACTTCCCT
1 AATTGCCATAATATGAGGGCTTTACCGGACTGGATACTCAATCTCACTTCCCT
2726593 CAAAGACCTT
Statistics
Matches: 174, Mismatches: 16, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
141 46 0.26
144 116 0.67
146 2 0.01
147 1 0.01
148 9 0.05
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (144 bp):
AATTGCCATAATATGAGGGCTTTACCGGACTGGATACTCAATCTCACTTCCCTTAAAACACTTGA
AATTTGGGAGTGCATTGAATTACAGTACATGCCAGAAGGGACGCATCAGCTTACATCTTTAAATA
AATTGTCCGTAGGC
Found at i:2732658 original size:144 final size:144
Alignment explanation
Indices: 2732393--2732772 Score: 374
Period size: 144 Copynumber: 2.7 Consensus size: 144
2732383 ATAGTATTAA
* * * * * * *
2732393 AAGGGACGCATCAGCTTATCTCTTTAGAAGTATTGTTCATAGAGAACTGTCCTAATTTGAGGGCT
1 AAGGGACGCATCAGCTTACCTCTTTAGAAGAATTGTCCATAAACAACTGCCCTAATCTGAGGGCT
*
2732458 TTGCCAGACTGGATACTCAATCTCACTTCCCTTACAAAACTTCAAATTCAGAAGTGCCTTGAATT
66 TTGCCAGACTGGATACTCAATCTCACTTCCCTTACAAAACTTCAAATTCAGAAGTGCCTTCAATT
2732523 ACAATACACGCCAG
131 ACAATACACGCCAG
* *
2732537 AAGGGACGCATCAGCTTACCTCTTTAAAAGAATTGTCCATAAACAATTGCCCTAATCTGAGGGCT
1 AAGGGACGCATCAGCTTACCTCTTTAGAAGAATTGTCCATAAACAACTGCCCTAATCTGAGGGCT
*** * * * * ** * *
2732602 TTGTTTGACTGGATGCTCAATCTCACTTCTCTTTA-AACACTTCGAATTTGGGAGTGCTTTCAAT
66 TTGCCAGACTGGATACTCAATCTCACTTC-CCTTACAAAACTTCAAATTCAGAAGTGCCTTCAAT
* * *
2732666 TACATTAGATGCCAG
130 TACAATACACGCCAG
* * * * **** * * *
2732681 AAGGGACATC-TCGGCTTACATCTTTAGAAGAATTAT--AT-GTTTATTGCCATAATTTGAGGGC
1 AAGGGAC-GCATCAGCTTACCTCTTTAGAAGAATTGTCCATAAACAACTGCCCTAATCTGAGGGC
**
2732742 TTTGCCAGACTAAATACTCAATCTCACTTCC
65 TTTGCCAGACTGGATACTCAATCTCACTTCC
2732773 TTCAAAGACC
Statistics
Matches: 193, Mismatches: 41, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
140 1 0.01
141 41 0.21
142 2 0.01
144 144 0.75
145 5 0.03
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (144 bp):
AAGGGACGCATCAGCTTACCTCTTTAGAAGAATTGTCCATAAACAACTGCCCTAATCTGAGGGCT
TTGCCAGACTGGATACTCAATCTCACTTCCCTTACAAAACTTCAAATTCAGAAGTGCCTTCAATT
ACAATACACGCCAG
Found at i:2736092 original size:80 final size:80
Alignment explanation
Indices: 2735959--2736119 Score: 313
Period size: 80 Copynumber: 2.0 Consensus size: 80
2735949 GCCATTAATT
2735959 ATAAATATTTTGTTTTAATAAAACATGAAAAGTAAATAATACTCAATCATACTCTATATTATATA
1 ATAAATATTTTGTTTTAATAAAACATGAAAAGTAAATAATACTCAATCATACTCTATATTATATA
*
2736024 ACTCGAGATAAGCCA
66 ACTCGACATAAGCCA
2736039 ATAAATATTTTGTTTTAATAAAACATGAAAAGTAAATAATACTCAATCATACTCTATATTATATA
1 ATAAATATTTTGTTTTAATAAAACATGAAAAGTAAATAATACTCAATCATACTCTATATTATATA
2736104 ACTCGACATAAGCCA
66 ACTCGACATAAGCCA
2736119 A
1 A
2736120 GGATCCATAA
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 80 1.00
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.34
Consensus pattern (80 bp):
ATAAATATTTTGTTTTAATAAAACATGAAAAGTAAATAATACTCAATCATACTCTATATTATATA
ACTCGACATAAGCCA
Found at i:2742063 original size:21 final size:21
Alignment explanation
Indices: 2742038--2742077 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2742028 AGTTTTTTAA
2742038 AATAAAT-ATTAGAAGAAATTT
1 AATAAATAATTA-AAGAAATTT
*
2742059 AATAACTAATTAAAGAAAT
1 AATAAATAATTAAAGAAAT
2742078 ATCATGGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (21 bp):
AATAAATAATTAAAGAAATTT
Found at i:2749796 original size:225 final size:228
Alignment explanation
Indices: 2749354--2749809 Score: 632
Period size: 225 Copynumber: 2.0 Consensus size: 228
2749344 TTTATTTTCC
* * *
2749354 TTCATTTTCCCACTTTTCTTTTAACTCAAAGAACAAAAGCATCTCGGTTGTCTAACTCTGCAAAA
1 TTCATTTTCCCACTTTTCTTTTAACTCAAAGAACAAAAACATCTCGCTTGTCTAACCCTGCAAAA
* * * *
2749419 AAAAAAAAAAAAGAACAGTTCTCTTAAATTGCTTTTGTTTGATCCTTGTTAACTACTTTTCCTTT
66 AAAAAAAAAAAAGAACAG-TCTCTTAAATTACTTTCGTTCGATCCTTCTTAACTACTTTTCCTTT
* ** *
2749484 CCTTAATTTTGGTTTCCCCATCTACGGAGTTGGTGTAGTAATTTCATCTCAATTGAGGTAAGCTT
130 CCTTAATTTTGGTTTCCCCATCTACAGAGTTGGTAAAGTAATTCCATCTCAATTGAGGTAAGCTT
*
2749549 CAATAAAACATATTATATTCTCCATATTT-ATTT
195 CAATAAAACATATTAGATTCTCCATATTTAATTT
* * * *
2749582 TTCATTTTCCCACTTTTCTTTTAACTCCAAGAATAAAAACATCTCTCTTGTTTAACCCTGCAAAA
1 TTCATTTTCCCACTTTTCTTTTAACTCAAAGAACAAAAACATCTCGCTTGTCTAACCCTGCAAAA
* * * **
2749647 AAAAAAAAAACAGTTA-A-TCTCTTAAATTACTTTCGTTCGATCCTTCTTAGCTACTTTTTGTTT
66 AAAAAAAAAAAAG-AACAGTCTCTTAAATTACTTTCGTTCGATCCTTCTTAACTACTTTTCCTTT
* * * *
2749710 CCTTAATTTTGG-TTCCCGATCTCCAGAGTTGGTAAAGTAATTCCATTTCATTTGAGGTAAGCTT
130 CCTTAATTTTGGTTTCCCCATCTACAGAGTTGGTAAAGTAATTCCATCTCAATTGAGGTAAGCTT
*
2749774 CAATTAAACATATTAGATTCTCCATATTTAATTT
195 CAATAAAACATATTAGATTCTCCATATTTAATTT
2749808 TT
1 TT
2749810 TTATATACTC
Statistics
Matches: 200, Mismatches: 26, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
225 71 0.35
226 57 0.28
228 71 0.35
229 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.10, T:0.41
Consensus pattern (228 bp):
TTCATTTTCCCACTTTTCTTTTAACTCAAAGAACAAAAACATCTCGCTTGTCTAACCCTGCAAAA
AAAAAAAAAAAAGAACAGTCTCTTAAATTACTTTCGTTCGATCCTTCTTAACTACTTTTCCTTTC
CTTAATTTTGGTTTCCCCATCTACAGAGTTGGTAAAGTAATTCCATCTCAATTGAGGTAAGCTTC
AATAAAACATATTAGATTCTCCATATTTAATTT
Found at i:2763119 original size:89 final size:90
Alignment explanation
Indices: 2763014--2763193 Score: 328
Period size: 89 Copynumber: 2.0 Consensus size: 90
2763004 ATTTGGTTTT
2763014 TTTTTATATATTTTATAGTCTTTACTAGG-TTTTTCTTTTTTTTTCAATTGGAGGAGGGGATTTG
1 TTTTTATATATTTTATAGTCTTTACTAGGTTTTTTC-TTTTTTTTCAATTGGAGGAGGGGATTTG
*
2763078 AACCCTTCTCTTTAGACAAGAGATCA
65 AACCATTCTCTTTAGACAAGAGATCA
2763104 TTTTT-TATATTTTATAGTCTTTACTAGGTTTTTTCTTTTTTTTCAATTGGAGGAGGGGATTTGA
1 TTTTTATATATTTTATAGTCTTTACTAGGTTTTTTCTTTTTTTTCAATTGGAGGAGGGGATTTGA
2763168 ACCATTCTCTTTAGACAAGAGATCA
66 ACCATTCTCTTTAGACAAGAGATCA
2763193 T
1 T
2763194 GCAACAACCA
Statistics
Matches: 88, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
89 77 0.88
90 11 0.12
ACGTcount: A:0.23, C:0.12, G:0.17, T:0.48
Consensus pattern (90 bp):
TTTTTATATATTTTATAGTCTTTACTAGGTTTTTTCTTTTTTTTCAATTGGAGGAGGGGATTTGA
ACCATTCTCTTTAGACAAGAGATCA
Found at i:2765731 original size:21 final size:21
Alignment explanation
Indices: 2765706--2765745 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2765696 AGGTCTTTAA
2765706 AATAAAT-ATTAGAAGAAATTT
1 AATAAATAATTA-AAGAAATTT
*
2765727 AATAACTAATTAAAGAAAT
1 AATAAATAATTAAAGAAAT
2765746 ATCATGGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (21 bp):
AATAAATAATTAAAGAAATTT
Found at i:2792819 original size:12 final size:12
Alignment explanation
Indices: 2792802--2792826 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2792792 ACATGTTGTT
2792802 CGATTTCGTGTC
1 CGATTTCGTGTC
2792814 CGATTTCGTGTC
1 CGATTTCGTGTC
2792826 C
1 C
2792827 AATATTGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.28, G:0.24, T:0.40
Consensus pattern (12 bp):
CGATTTCGTGTC
Found at i:2795377 original size:69 final size:69
Alignment explanation
Indices: 2795233--2795382 Score: 173
Period size: 69 Copynumber: 2.2 Consensus size: 69
2795223 TTACCGTTCC
** * *
2795233 AATGCTTTTA-AACACCTGCCAACTTTGGATCATCTTTCATCTCTTGAGTCTCTTTCTCTTACAG
1 AATGC-TTTAGAACACCTGCCAACTTTGGATCATCTTTCATCTCTAAAGTATCTTTCACTTACAG
2795297 GGTTA
65 GGTTA
** *
2795302 CGTGCTTTAGAACACCTGCC-ACTCTTGGATCATCTTTCATCTCTAAAGTATCTTGT-ACTT-GA
1 AATGCTTTAGAACACCTGCCAACT-TTGGATCATCTTTCATCTCTAAAGTATCTT-TCACTTACA
2795364 GGAGTTA
64 GG-GTTA
2795371 AATGCTTTAGAA
1 AATGCTTTAGAA
2795383 TATGTGGCAG
Statistics
Matches: 68, Mismatches: 9, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
68 10 0.15
69 57 0.84
70 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (69 bp):
AATGCTTTAGAACACCTGCCAACTTTGGATCATCTTTCATCTCTAAAGTATCTTTCACTTACAGG
GTTA
Found at i:2796141 original size:144 final size:144
Alignment explanation
Indices: 2795913--2796674 Score: 805
Period size: 144 Copynumber: 5.3 Consensus size: 144
2795903 AAAATTACCC
* * * *
2795913 TAATCTGATGGCTTTGTC-GAACTGGATACTCAATCTTACCTCCCTT-GAAACACTTCGAATT-A
1 TAATCTGAGGGCTTTGCCAG-ACTGGATACTCAATCTCACTTCCCTTAG-AACACTTCGAATTGA
* * * * *
2795975 GGGGGTGCCTTGAATTACAGTACATGCCAGAAGGGACCCCTCAGCTTACATCTTTAGAAGAATT-
64 -GGAGTGCCTTGAATTACAGTACATGCCAGAAGGGACACATCAGCTTACCTCTTTAAAAGAATTG
** * *
2796039 ATCAGTTCAGAACTGTCT
128 ATC-GTAGAGAAATGCCT
* ** *
2796057 TAATCTG-GTGGCTTTGCCTGACTGGATACTCAATCTCACTTCCCTTAGAAGTCTTCAAATTGAG
1 TAATCTGAG-GGCTTTGCCAGACTGGATACTCAATCTCACTTCCCTTAGAACACTTCGAATTGAG
* * * *
2796121 GAGTGCCTTGATTTACAGTACATACCAGAAGGGACGCATCAGCTTACCTCTTTAAAAGAATTGTT
65 GAGTGCCTTGAATTACAGTACATGCCAGAAGGGACACATCAGCTTACCTCTTTAAAAGAATTGAT
* *
2796186 CGTAGGGAAATGCCC
130 CGTAGAGAAATGCCT
* *
2796201 TAATCTGAGGGCTTTGCCAGACTGGATACTCAATCTCACTTCCCTTAAAACACTTCGAATTCAAG
1 TAATCTGAGGGCTTTGCCAGACTGGATACTCAATCTCACTTCCCTTAGAACACTTCGAATT-GAG
* * * * *
2796266 G-GTGCATTGAATTACAGTACATGCCAAAAGGGACGCATCAACTTGCCTCTTTAAAAGAATT-AT
65 GAGTGCCTTGAATTACAGTACATGCCAGAAGGGACACATCAGCTTACCTCTTTAAAAGAATTGA-
2796329 TCGTAGAGAAATGCCT
129 TCGTAGAGAAATGCCT
*
2796345 TAATCTGAGGGCTTTGCCAGACTGGATACTCAATCTCACTTCCCTT-GAAACACTTCGAATTCAG
1 TAATCTGAGGGCTTTGCCAGACTGGATACTCAATCTCACTTCCCTTAG-AACACTTCGAATTGAG
* * * * *
2796409 GGGTGCCTTAAATTACAATATATGCCAGAAGGGACACATCAGCTTACCTCTTTAAAA-AGATTGT
65 GAGTGCCTTGAATTACAGTACATGCCAGAAGGGACACATCAGCTTACCTCTTTAAAAGA-ATTGA
* * * *
2796473 TCGTAAACAATTGCCC
129 TCGTAGAGAAATGCCT
* * * *
2796489 TAATTTGAGGGCTTTGCCTGACTGGATACTCAATCTCACTTCCCTTAAAACACTTCAAATTTG-G
1 TAATCTGAGGGCTTTGCCAGACTGGATACTCAATCTCACTTCCCTTAGAACACTTCGAA-TTGAG
* * * * *
2796553 GAGTGCTTTCAATTACAGTACATGCCAGAAGGGACACCTCAGCTT-CCATCTTTAGAAGAATTAA
65 GAGTGCCTTGAATTACAGTACATGCCAGAAGGGACACATCAGCTTACC-TCTTTAAAAGAATTGA
*** * *
2796617 T--T-GTTTACTGTCT
129 TCGTAGAGAAATGCCT
* * * *
2796630 TAATTTGAAGGCTTTGCAAGACTGGATACTGAATCTCACTTCCCT
1 TAATCTGAGGGCTTTGCCAGACTGGATACTCAATCTCACTTCCCT
2796675 CAAAGATCTT
Statistics
Matches: 526, Mismatches: 76, Indels: 35
0.83 0.12 0.05
Matches are distributed among these distances:
141 45 0.09
142 1 0.00
143 6 0.01
144 462 0.88
145 12 0.02
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.30
Consensus pattern (144 bp):
TAATCTGAGGGCTTTGCCAGACTGGATACTCAATCTCACTTCCCTTAGAACACTTCGAATTGAGG
AGTGCCTTGAATTACAGTACATGCCAGAAGGGACACATCAGCTTACCTCTTTAAAAGAATTGATC
GTAGAGAAATGCCT
Found at i:2796417 original size:288 final size:283
Alignment explanation
Indices: 2795910--2796674 Score: 939
Period size: 288 Copynumber: 2.7 Consensus size: 283
2795900 TCAAAAATTA
* * * * *
2795910 CCCTAATCTGATGGCTTTGTCGAACTGGATACTCAATCTTACCTCCCTTGAAACACTTCGAATTA
1 CCCTAATCTGAGGGCTTTGCCG-ACTGGATACTCAATCTCACTTCCCTTAAAACACTTCGAATTA
* * *
2795975 GGGGGTGCCTTGAATTACAGTACATGCCAGAAGGGACCCCTCAGCTTACATCTTTAGAAGAATTA
65 -GGGGTGCATTGAATTACAGTACATGCCAGAAGGGACACCTCAGCTT-CCTCTTTAGAAGAATTA
*
2796040 -TCAGTTCAGAACTGTCTTAATCTG-GTGGCTTTGCCTGACTGGATACTCAATCTCACTTCCCTT
128 TTC-G-T-AGAACTGTCTTAATCTGAG-GGCTTTGCCAGACTGGATACTCAATCTCACTTCCCTT
** * * * * *
2796103 AGAAGTCTTCAAATTGAGGAGTGCCTTGATTTACAGTACATACCAGAAGGGACGCATCAGCTTAC
189 AGAACACTTCAAATTCAGGAGTGCCTTAAATTACAATACATACCAGAAGGGACACATCAGCTTAC
***
2796168 CTCTTT-AAAAGAATTGTTCGTAGGGAAATG
254 CTCTTTAAAAAG-ATTGTTCGTAAACAAATG
2796198 CCCTAATCTGAGGGCTTTGCCAGACTGGATACTCAATCTCACTTCCCTTAAAACACTTCGAATTC
1 CCCTAATCTGAGGGCTTTGCC-GACTGGATACTCAATCTCACTTCCCTTAAAACACTTCGAATT-
* * * * * *
2796263 AAGGGTGCATTGAATTACAGTACATGCCAAAAGGGACGCATCAACTTGCCTCTTTAAAAGAATTA
64 AGGGGTGCATTGAATTACAGTACATGCCAGAAGGGACACCTCAGCTT-CCTCTTTAGAAGAATTA
* *
2796328 TTCGTAGAGAAATGCCTTAATCTGAGGGCTTTGCCAGACTGGATACTCAATCTCACTTCCCTT-G
128 TTCGT--AGAACTGTCTTAATCTGAGGGCTTTGCCAGACTGGATACTCAATCTCACTTCCCTTAG
* * * *
2796392 AAACACTTCGAATTCAGGGGTGCCTTAAATTACAATATATGCCAGAAGGGACACATCAGCTTACC
191 -AACACTTCAAATTCAGGAGTGCCTTAAATTACAATACATACCAGAAGGGACACATCAGCTTACC
*
2796457 TCTTTAAAAAGATTGTTCGTAAACAATTG
255 TCTTTAAAAAGATTGTTCGTAAACAAATG
* * *
2796486 CCCTAATTTGAGGGCTTTGCCTGACTGGATACTCAATCTCACTTCCCTTAAAACACTTCAAATTT
1 CCCTAATCTGAGGGCTTTGCC-GACTGGATACTCAATCTCACTTCCCTTAAAACACTTCGAATTA
* *
2796551 GGGAGTGCTTTCAATTACAGTACATGCCAGAAGGGACACCTCAGCTTCCATCTTTAGAAGAATTA
65 GGG-GTGCATTGAATTACAGTACATGCCAGAAGGGACACCTCAGCTTCC-TCTTTAGAAGAATT-
** * * * *
2796616 ATT-GT-TTACTGTCTTAATTTGAAGGCTTTGCAAGACTGGATACTGAATCTCACTTCCCT
127 ATTCGTAGAACTGTCTTAATCTGAGGGCTTTGCCAGACTGGATACTCAATCTCACTTCCCT
2796675 CAAAGATCTT
Statistics
Matches: 414, Mismatches: 53, Indels: 23
0.84 0.11 0.05
Matches are distributed among these distances:
285 46 0.11
287 6 0.01
288 349 0.84
289 13 0.03
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (283 bp):
CCCTAATCTGAGGGCTTTGCCGACTGGATACTCAATCTCACTTCCCTTAAAACACTTCGAATTAG
GGGTGCATTGAATTACAGTACATGCCAGAAGGGACACCTCAGCTTCCTCTTTAGAAGAATTATTC
GTAGAACTGTCTTAATCTGAGGGCTTTGCCAGACTGGATACTCAATCTCACTTCCCTTAGAACAC
TTCAAATTCAGGAGTGCCTTAAATTACAATACATACCAGAAGGGACACATCAGCTTACCTCTTTA
AAAAGATTGTTCGTAAACAAATG
Found at i:2800662 original size:49 final size:48
Alignment explanation
Indices: 2800605--2800701 Score: 167
Period size: 49 Copynumber: 2.0 Consensus size: 48
2800595 CATTTTATTT
2800605 CGAAGTCTTGTCTTTCTCAATATAAACAACTAAAAAATTAATGTAGTC
1 CGAAGTCTTGTCTTTCTCAATATAAACAACTAAAAAATTAATGTAGTC
**
2800653 NCGAAGTCTTGTCTTTCTCAATATAAATGACTAAAAAATTAATGTAGTC
1 -CGAAGTCTTGTCTTTCTCAATATAAACAACTAAAAAATTAATGTAGTC
2800702 AACACCCAGT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.34
Consensus pattern (48 bp):
CGAAGTCTTGTCTTTCTCAATATAAACAACTAAAAAATTAATGTAGTC
Found at i:2802866 original size:3 final size:3
Alignment explanation
Indices: 2802858--2802886 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
2802848 CCTACCAATA
2802858 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2802887 ATATTCGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:2811952 original size:155 final size:155
Alignment explanation
Indices: 2811662--2811959 Score: 524
Period size: 155 Copynumber: 1.9 Consensus size: 155
2811652 TTGATGCAGG
** *
2811662 TGGTTGTTTATTTTCGTTGGGCTGATGCAGCTTGCGGTATTGATTTTCATTGCTATGATGCAGCT
1 TGGTTGTTTATTTTCACTGGGCTGATGCAGCTTGCCGTATTGATTTTCATTGCTATGATGCAGCT
* *
2811727 TGCCGTCCCTTGCTTTGTGTTGAAGTCTATTATGCTATTAATGAAACTCAACATGATTACTACAT
66 TGCCGTCCCTTGCTTTGTGTTGAAGCCTATTATGCAATTAATGAAACTCAACATGATTACTACAT
*
2811792 TTGGTTTTGATGCGGGTTGTTGTTT
131 ATGGTTTTGATGCGGGTTGTTGTTT
2811817 TGGTTGTTTATTTTCACTGGGCTGATGCAGCTTGCCGTATTGATTTTCATTGCTATGATGCAGCT
1 TGGTTGTTTATTTTCACTGGGCTGATGCAGCTTGCCGTATTGATTTTCATTGCTATGATGCAGCT
* *
2811882 TGCCGTCCCTTGCTTTGTGTTGATGCCTATTATGCAATTAATGAAACTCAACATGATTACTGCAT
66 TGCCGTCCCTTGCTTTGTGTTGAAGCCTATTATGCAATTAATGAAACTCAACATGATTACTACAT
2811947 ATGGTTTTGATGC
131 ATGGTTTTGATGC
2811960 AGATGGTTGC
Statistics
Matches: 135, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
155 135 1.00
ACGTcount: A:0.18, C:0.16, G:0.23, T:0.42
Consensus pattern (155 bp):
TGGTTGTTTATTTTCACTGGGCTGATGCAGCTTGCCGTATTGATTTTCATTGCTATGATGCAGCT
TGCCGTCCCTTGCTTTGTGTTGAAGCCTATTATGCAATTAATGAAACTCAACATGATTACTACAT
ATGGTTTTGATGCGGGTTGTTGTTT
Found at i:2812019 original size:34 final size:34
Alignment explanation
Indices: 2811981--2812060 Score: 160
Period size: 34 Copynumber: 2.4 Consensus size: 34
2811971 TTGGTAGGTG
2811981 TGATGCAGCTTGTGGTATTGATTTTCCCTTGCTA
1 TGATGCAGCTTGTGGTATTGATTTTCCCTTGCTA
2812015 TGATGCAGCTTGTGGTATTGATTTTCCCTTGCTA
1 TGATGCAGCTTGTGGTATTGATTTTCCCTTGCTA
2812049 TGATGCAGCTTG
1 TGATGCAGCTTG
2812061 GCGCCCCTTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.15, C:0.17, G:0.25, T:0.42
Consensus pattern (34 bp):
TGATGCAGCTTGTGGTATTGATTTTCCCTTGCTA
Found at i:2812297 original size:2 final size:2
Alignment explanation
Indices: 2812286--2812328 Score: 65
Period size: 2 Copynumber: 23.0 Consensus size: 2
2812276 ATATTATTAT
2812286 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA -A T- TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2812325 TA TA
1 TA TA
2812329 AAGTCTTATC
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
1 3 0.08
2 35 0.92
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2812329 original size:14 final size:13
Alignment explanation
Indices: 2812286--2812329 Score: 72
Period size: 14 Copynumber: 3.4 Consensus size: 13
2812276 ATATTATTAT
2812286 TATAATATATATA
1 TATAATATATATA
2812299 TAT-ATATATATA
1 TATAATATATATA
2812311 TATAATTATATATA
1 TATAA-TATATATA
2812325 TATAA
1 TATAA
2812330 AGTCTTATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
12 12 0.41
13 4 0.14
14 13 0.45
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TATAATATATATA
Found at i:2812924 original size:23 final size:22
Alignment explanation
Indices: 2812871--2812912 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
2812861 ATAAATGAAA
*
2812871 AATTAAAAAATAATTAAAAATT
1 AATTATAAAATAATTAAAAATT
*
2812893 AATTATAAAA-AATTATAAAT
1 AATTATAAAATAATTAAAAAT
2812913 ATATATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
AATTATAAAATAATTAAAAATT
Found at i:2813428 original size:2 final size:2
Alignment explanation
Indices: 2813421--2813446 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2813411 TCATTCTAAA
2813421 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
2813447 ATATATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:2820547 original size:31 final size:31
Alignment explanation
Indices: 2820476--2820560 Score: 88
Period size: 31 Copynumber: 2.8 Consensus size: 31
2820466 AATAATCTTT
**
2820476 TATATTTTTATTTT-GTTC-AATCAA-TTTTA
1 TATATTTTTATTTTAAATCAAAT-AAGTTTTA
2820505 TATATTTTTATTTTAAATCAAATAAGTTTT-
1 TATATTTTTATTTTAAATCAAATAAGTTTTA
* *
2820535 TATACTTTTTATTTTTAATCGAATAA
1 TATA-TTTTTATTTTAAATCAAATAA
2820561 ATATTTAATT
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
29 14 0.29
30 8 0.17
31 26 0.54
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.58
Consensus pattern (31 bp):
TATATTTTTATTTTAAATCAAATAAGTTTTA
Found at i:2820692 original size:18 final size:20
Alignment explanation
Indices: 2820651--2820696 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
2820641 TGTGACATAC
*
2820651 TGATATATCATAATTAATCA
1 TGATATAACATAATTAATCA
*
2820671 TGATATAACAT-ATTAAT-T
1 TGATATAACATAATTAATCA
2820689 TGATATAA
1 TGATATAA
2820697 TAATATAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 8 0.33
19 6 0.25
20 10 0.42
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.41
Consensus pattern (20 bp):
TGATATAACATAATTAATCA
Found at i:2836347 original size:109 final size:109
Alignment explanation
Indices: 2836156--2836373 Score: 391
Period size: 109 Copynumber: 2.0 Consensus size: 109
2836146 CAATGATTTT
2836156 ATAGAACTGTTTGTTCATGGATTTGACTTTTTCAGATCTTAGAAAATTAAGTTGATAATAAACCT
1 ATAGAACTGTTTGTTCATGGATTTGACTTTTTCAGATCTTAGAAAATTAAGTTGATAATAAACCT
*
2836221 TAAGGAGGGATTCTTATGAAACATTTAGATGGATATTTCCTTTG
66 TAAGGACGGATTCTTATGAAACATTTAGATGGATATTTCCTTTG
* * * *
2836265 ATAGAACTGTTTTTTTATGGATTTGTCTTTTTCAGATCTTAGAAAATTAAGTTGATAATAAATCT
1 ATAGAACTGTTTGTTCATGGATTTGACTTTTTCAGATCTTAGAAAATTAAGTTGATAATAAACCT
2836330 TAAGGACGGATTCTTATGAAACATTTAGATGGATATTTCCTTTG
66 TAAGGACGGATTCTTATGAAACATTTAGATGGATATTTCCTTTG
2836374 TGTTAACTTA
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
109 104 1.00
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (109 bp):
ATAGAACTGTTTGTTCATGGATTTGACTTTTTCAGATCTTAGAAAATTAAGTTGATAATAAACCT
TAAGGACGGATTCTTATGAAACATTTAGATGGATATTTCCTTTG
Found at i:2845509 original size:23 final size:25
Alignment explanation
Indices: 2845463--2845509 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
2845453 CAAAAAAAAA
* *
2845463 ATAAAACAAATAATAAATTTGTAAT
1 ATAAAAAAAATAATAAATTAGTAAT
2845488 ATAAAAAAAATAA-AAA-TAGTAA
1 ATAAAAAAAATAATAAATTAGTAA
2845510 CATTTGGCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 3 0.15
25 12 0.60
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (25 bp):
ATAAAAAAAATAATAAATTAGTAAT
Found at i:2856717 original size:25 final size:24
Alignment explanation
Indices: 2856669--2856717 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
2856659 AGAGAGGGTT
* *
2856669 TATGTTTTATACATTGTCAGTTAC
1 TATGTTTTATACATTATCACTTAC
*
2856693 TATGATTTTATACATTATGACTTAC
1 TATG-TTTTATACATTATCACTTAC
2856718 CCATATAGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.29, C:0.12, G:0.10, T:0.49
Consensus pattern (24 bp):
TATGTTTTATACATTATCACTTAC
Found at i:2860712 original size:57 final size:57
Alignment explanation
Indices: 2860624--2860735 Score: 199
Period size: 57 Copynumber: 2.0 Consensus size: 57
2860614 CTAAAACTTT
2860624 AAGCCAAATCAATAAATTATTTCTCGTAATACTTCCCTTCACTTACAAAATTCATGG
1 AAGCCAAATCAATAAATTATTTCTCGTAATACTTCCCTTCACTTACAAAATTCATGG
*
2860681 AAGCCAAATCAATAAATTATTTC-CTGTAATACTTTCCTTCACTTACAAAATTCAT
1 AAGCCAAATCAATAAATTATTTCTC-GTAATACTTCCCTTCACTTACAAAATTCAT
2860736 ATAAACTTAC
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
56 1 0.02
57 52 0.98
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.35
Consensus pattern (57 bp):
AAGCCAAATCAATAAATTATTTCTCGTAATACTTCCCTTCACTTACAAAATTCATGG
Found at i:2879238 original size:28 final size:28
Alignment explanation
Indices: 2879198--2879263 Score: 132
Period size: 28 Copynumber: 2.4 Consensus size: 28
2879188 AGAAGATGGA
2879198 CAGGCAATGCCGATGCCCTGGTCTAAAG
1 CAGGCAATGCCGATGCCCTGGTCTAAAG
2879226 CAGGCAATGCCGATGCCCTGGTCTAAAG
1 CAGGCAATGCCGATGCCCTGGTCTAAAG
2879254 CAGGCAATGC
1 CAGGCAATGC
2879264 AGCAACAGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.17
Consensus pattern (28 bp):
CAGGCAATGCCGATGCCCTGGTCTAAAG
Found at i:2880574 original size:27 final size:27
Alignment explanation
Indices: 2880544--2880615 Score: 67
Period size: 29 Copynumber: 2.6 Consensus size: 27
2880534 TTCTCGAGTA
**
2880544 AAAAGTAATAGAAAAAATGTATACGTG
1 AAAAGTAATAGAAAAAAACTATACGTG
2880571 AAAAGGTACA-AGAGAAAAAACTATACGTG
1 AAAA-GTA-ATAGA-AAAAAACTATACGTG
2880600 AACAAGT-ATAAGAAAA
1 AA-AAGTAAT-AGAAAA
2880616 GAAGCTGCAC
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
27 5 0.14
28 9 0.24
29 21 0.57
30 2 0.05
ACGTcount: A:0.58, C:0.07, G:0.18, T:0.17
Consensus pattern (27 bp):
AAAAGTAATAGAAAAAAACTATACGTG
Found at i:2880612 original size:29 final size:29
Alignment explanation
Indices: 2880553--2880644 Score: 80
Period size: 29 Copynumber: 3.1 Consensus size: 29
2880543 AAAAAGTAAT
* *
2880553 AGAAAAAATGTATACGTGAA-AAGGTACAAG
1 AGAAAAAA-CTATACGTGAACAA-GTATAAG
2880583 AGAAAAAACTATACGTGAACAAGTATAAG
1 AGAAAAAACTATACGTGAACAAGTATAAG
* ** * *
2880612 A-AAAGAAGCTGCACGAGAACAAGTATAAC
1 AGAAA-AAACTATACGTGAACAAGTATAAG
2880641 AGAA
1 AGAA
2880645 GAATATGTAT
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
28 3 0.06
29 37 0.71
30 12 0.23
ACGTcount: A:0.54, C:0.11, G:0.21, T:0.14
Consensus pattern (29 bp):
AGAAAAAACTATACGTGAACAAGTATAAG
Found at i:2882992 original size:228 final size:226
Alignment explanation
Indices: 2882587--2883699 Score: 1034
Period size: 228 Copynumber: 4.9 Consensus size: 226
2882577 GACAAGATGA
* * * * * * * ** *
2882587 AGGGTGGACTCCTTCTGGATATTGTAGTCAGCCAGAGTGCGACCATCCTCCAA-CTGCTTGCCAG
1 AGGGTTGACTCCTTCTGGATATTATAATCTGCAAGGGTCCTCCCATCCT-CAAGCTG-TTTCCAG
* * * * * *
2882651 CAAAGATCAACCTCTGCTGGTCTGGAGGAATCCCCTCCTTGTCCTGAATCTTTGCTTTCACATTG
64 CAAAAATCAACCTCTGTTGGTCTGGTGGGATACCCTCCTTGTCCTGAATCTTAGCTTTCACATTG
* * * * * *
2882716 TCAATCGTGTCTGAGCTCTCAACCTCCAGGGTGATGGTTTTCCCAGTCAAGGTCTTCACAAATAT
129 TCAATGGTGTCAGAGCTCTCCACCTCCAAGGTGATGGTTTTCCCAGT-AAGGTTTTCACAAAAAT
* * * * *
2882781 CTGCATCCCTCCTCTCAGGCGCAAAACCAAATGC
193 CTGCATCCCACCACGCAGTCGCAAAACCAAATGG
* * * *
2882815 AGGGTTGACTCCTTTTGGATGTTATAGTCTGCAAGTGTCCTCCCATCCTCAAGCTGCTTTCCAGC
1 AGGGTTGACTCCTTCTGGATATTATAATCTGCAAGGGTCCTCCCATCCTCAAGCTG-TTTCCAGC
* * * * * * *
2882880 AAAAATCAACCTCTGTTGGTCAGGTGGGATACCCTCCTTATCTTGGATCTTGGCTTTAACGTTGT
65 AAAAATCAACCTCTGTTGGTCTGGTGGGATACCCTCCTTGTCCTGAATCTTAGCTTTCACATTGT
* * *
2882945 CAATTGTGTCAGAGCTCTCCACCTCCAAAGTGATGGTTTTACCAGTCAAGGTTTTCACAAAAATC
130 CAATGGTGTCAGAGCTCTCCACCTCCAAGGTGATGGTTTTCCCAGT-AAGGTTTTCACAAAAATC
* * ** *
2883010 TGCATTCCACCACGCAGACGCAGCACCAAGTGG
194 TGCATCCCACCACGCAGTCGCAAAACCAAATGG
* * * *
2883043 AGGGTTGACTCCTTTTGGATATTGTAATCTGCAAGCGTCCTCCCATCCTCCAA-CTGTTTGCCGG
1 AGGGTTGACTCCTTCTGGATATTATAATCTGCAAGGGTCCTCCCATCCT-CAAGCTGTTT-CCAG
* * * * * * *
2883107 CAAATATCAGCCTCTGTTGATCTGGAGGGATACCTTCCTTGTCCTGGATCTTAGCTTTTACATTG
64 CAAAAATCAACCTCTGTTGGTCTGGTGGGATACCCTCCTTGTCCTGAATCTTAGCTTTCACATTG
* * * * * * * *
2883172 TCAATGGTATCAGAACTCTCAACTTCCAAGGTAATAGTCTTT-CCAGTGAGAGTCTTCACAAAAA
129 TCAATGGTGTCAGAGCTCTCCACCTCCAAGGTGATGGT-TTTCCCAGTAAG-GTTTTCACAAAAA
* * * *
2883236 TTTGCATGCCACCACGGAGTCGCAACACCAAATGG
192 TCTGCATCCCACCACGCAGTCGCAAAACCAAATGG
* * * * * *
2883271 AGGGTTGACTCCTTCTGAATGTTATAGTCTGCAAGGGTTCTGCCATCTTCAAGCTGTTTTCCAGC
1 AGGGTTGACTCCTTCTGGATATTATAATCTGCAAGGGTCCTCCCATCCTCAAGCTG-TTTCCAGC
* * * * *
2883336 AAAAATTAACCTCTGCTGGTCTGGTGGGATACCCTCCTTGTCCTGAATCTTGGCCTTCACATTAT
65 AAAAATCAACCTCTGTTGGTCTGGTGGGATACCCTCCTTGTCCTGAATCTTAGCTTTCACATTGT
* * * * * * *
2883401 CGATGGTATCCGAACTCTCCACCTCCAAAGTGATGGTTTTCCCAGTGAGAGTTTTCACAAATATC
130 CAATGGTGTCAGAGCTCTCCACCTCCAAGGTGATGGTTTTCCCAGTAAG-GTTTTCACAAAAATC
* * ** *
2883466 TGCATGCCACCCCTAAGTCG-AAGAA-CAAGGTGG
194 TGCATCCCACCACGCAGTCGCAA-AACCAA-ATGG
* * * * ** *
2883499 AGGGTGGACTCCTTCTGGATATTGTAATCAGCAAGGGTGCGGCCATCCTCTAGCTGTTTACCAGC
1 AGGGTTGACTCCTTCTGGATATTATAATCTGCAAGGGTCCTCCCATCCTCAAGCTGTTT-CCAGC
* * *
2883564 AAAGAT-AAGCCTCTGTTGGTCTGGTGGGAT-CCCTTCCTTGTCTTGAATCTTAGCTTTGACATT
65 AAAAATCAA-CCTCTGTTGGTCTGGTGGGATACCC-TCCTTGTCCTGAATCTTAGCTTTCACATT
* * * * * * * *
2883627 ATCAATAGTGTCAGAGCTTTCCACCTCGAGGGTGATGGTCTTGCCAGTAAGGGTTTTCACAAAGA
128 GTCAATGGTGTCAGAGCTCTCCACCTCCAAGGTGATGGTTTTCCCAGTAA-GGTTTTCACAAAAA
2883692 TCTGCATC
192 TCTGCATC
2883700 TGTTGTCAAT
Statistics
Matches: 732, Mismatches: 139, Indels: 28
0.81 0.15 0.03
Matches are distributed among these distances:
227 27 0.04
228 695 0.95
229 10 0.01
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (226 bp):
AGGGTTGACTCCTTCTGGATATTATAATCTGCAAGGGTCCTCCCATCCTCAAGCTGTTTCCAGCA
AAAATCAACCTCTGTTGGTCTGGTGGGATACCCTCCTTGTCCTGAATCTTAGCTTTCACATTGTC
AATGGTGTCAGAGCTCTCCACCTCCAAGGTGATGGTTTTCCCAGTAAGGTTTTCACAAAAATCTG
CATCCCACCACGCAGTCGCAAAACCAAATGG
Found at i:2883421 original size:456 final size:456
Alignment explanation
Indices: 2882560--2883699 Score: 1309
Period size: 456 Copynumber: 2.5 Consensus size: 456
2882550 AACTTAGAAA
* * * * * * *
2882560 CCACCACGGAGGCGAAGGACAAGATGAAGGGTGGACTCCTTCTGGATATTGTAGTCAGCCAGAGT
1 CCACCACGAAGACGAAGAACAAGGTGGAGGGTGGACTCCTTCTGGATATTGTAATCAGCAAGAGT
* * * * *
2882625 GCGACCATCCTCCAACTGCTTGCCAGCAAAGATCAACCTCTGCTGGTCTGGAGGAATCCCCTCCT
66 GCGACCATCCTCCAACTGTTTGCCAGCAAAGATCAGCCTCTGTTGGTCTGGAGGGATCCCTTCCT
* * * * * * *
2882690 TGTCCTGAATCTTTGCTTTCACATTGTCAATCGTGTCTGAGCTCTCAACCTCCAGGGTGATGGTT
131 TGTCCTGAATCTTAGCTTTCACATTGTCAATAGTGTCAGAACTCTCAACCTCCAAGGTAATAGTT
* * * *
2882755 TTCCCAGTCAAGGTCTTCACAAATATCTGCATCCCTCCTCTCAGGCGCAAAACCAAATGCAGGGT
196 TTCCCAGTCAAGGTCTTCACAAAAATCTGCATCCCACCACGCAGGCGCAAAACCAAATGCAGGGT
* * *
2882820 TGACTCCTTTTGGATGTTATAGTCTGCAAGTGTCCTCCCATCCTCAAGCTGCTTTCCAGCAAAAA
261 TGACTCCTTCTGAATGTTATAGTCTGCAAGGGTCCTCCCATCCTCAAGCTGCTTTCCAGCAAAAA
* * * * * * *
2882885 TCAACCTCTGTTGGTCAGGTGGGATACCCTCCTTATCTTGGATCTTGGCTTTAACGTTGTCAATT
326 TCAACCTCTGCTGGTCAGGTGGGATACCCTCCTTATCCTGAATCTTGGCCTTAACATTATCAATG
* *
2882950 GTGTCAGAGCTCTCCACCTCCAAAGTGATGGTTTTACCAGTCAAG-GTTTTCACAAAAATCTGCA
391 GTATCAGAACTCTCCACCTCCAAAGTGATGGTTTTACCAGT-AAGAGTTTTCACAAAAATCTGCA
*
2883014 TT
455 TG
* * * * * * *
2883016 CCACCACGCAGACGCAGCACCAA-GTGGAGGGTTGACTCCTTTTGGATATTGTAATCTGCAAGCG
1 CCACCACGAAGACGAAG-AACAAGGTGGAGGGTGGACTCCTTCTGGATATTGTAATCAGCAAGAG
* ** * * * *
2883080 TCCTCCCATCCTCCAACTGTTTGCCGGCAAATATCAGCCTCTGTTGATCTGGAGGGATACCTTCC
65 TGCGACCATCCTCCAACTGTTTGCCAGCAAAGATCAGCCTCTGTTGGTCTGGAGGGATCCCTTCC
* * * * *
2883145 TTGTCCTGGATCTTAGCTTTTACATTGTCAATGGTATCAGAACTCTCAACTTCCAAGGTAATAGT
130 TTGTCCTGAATCTTAGCTTTCACATTGTCAATAGTGTCAGAACTCTCAACCTCCAAGGTAATAGT
* * * * * * *
2883210 CTTT-CCAGT-GAGAGTCTTCACAAAAATTTGCATGCCACCACGGAGTCGCAACACCAAATGGAG
195 -TTTCCCAGTCAAG-GTCTTCACAAAAATCTGCATCCCACCACGCAGGCGCAAAACCAAATGCAG
* * * *
2883273 GGTTGACTCCTTCTGAATGTTATAGTCTGCAAGGGTTCTGCCATCTTCAAGCTGTTTTCCAGCAA
258 GGTTGACTCCTTCTGAATGTTATAGTCTGCAAGGGTCCTCCCATCCTCAAGCTGCTTTCCAGCAA
* * * * *
2883338 AAATTAACCTCTGCTGGTCTGGTGGGATACCCTCCTTGTCCTGAATCTTGGCCTTCACATTATCG
323 AAATCAACCTCTGCTGGTCAGGTGGGATACCCTCCTTATCCTGAATCTTGGCCTTAACATTATCA
* * * *
2883403 ATGGTATCCGAACTCTCCACCTCCAAAGTGATGGTTTTCCCAGTGAGAGTTTTCACAAATATCTG
388 ATGGTATCAGAACTCTCCACCTCCAAAGTGATGGTTTTACCAGTAAGAGTTTTCACAAAAATCTG
2883468 CATG
453 CATG
* * * *
2883472 CCACCCCTAAGTCGAAGAACAAGGTGGAGGGTGGACTCCTTCTGGATATTGTAATCAGCAAGGGT
1 CCACCACGAAGACGAAGAACAAGGTGGAGGGTGGACTCCTTCTGGATATTGTAATCAGCAAGAGT
* * * * * *
2883537 GCGGCCATCCTCTAGCTGTTTACCAGCAAAGATAAGCCTCTGTTGGTCTGGTGGGATCCCTTCCT
66 GCGACCATCCTCCAACTGTTTGCCAGCAAAGATCAGCCTCTGTTGGTCTGGAGGGATCCCTTCCT
* * * * * * * * * * *
2883602 TGTCTTGAATCTTAGCTTTGACATTATCAATAGTGTCAGAGCTTTCCACCTCGAGGGTGATGGTC
131 TGTCCTGAATCTTAGCTTTCACATTGTCAATAGTGTCAGAACTCTCAACCTCCAAGGTAATAGTT
* * *
2883667 TTGCCAGT-AAGGGTTTTCACAAAGATCTGCATC
196 TTCCCAGTCAA-GGTCTTCACAAAAATCTGCATC
2883700 TGTTGTCAAT
Statistics
Matches: 562, Mismatches: 115, Indels: 14
0.81 0.17 0.02
Matches are distributed among these distances:
455 10 0.02
456 545 0.97
457 7 0.01
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (456 bp):
CCACCACGAAGACGAAGAACAAGGTGGAGGGTGGACTCCTTCTGGATATTGTAATCAGCAAGAGT
GCGACCATCCTCCAACTGTTTGCCAGCAAAGATCAGCCTCTGTTGGTCTGGAGGGATCCCTTCCT
TGTCCTGAATCTTAGCTTTCACATTGTCAATAGTGTCAGAACTCTCAACCTCCAAGGTAATAGTT
TTCCCAGTCAAGGTCTTCACAAAAATCTGCATCCCACCACGCAGGCGCAAAACCAAATGCAGGGT
TGACTCCTTCTGAATGTTATAGTCTGCAAGGGTCCTCCCATCCTCAAGCTGCTTTCCAGCAAAAA
TCAACCTCTGCTGGTCAGGTGGGATACCCTCCTTATCCTGAATCTTGGCCTTAACATTATCAATG
GTATCAGAACTCTCCACCTCCAAAGTGATGGTTTTACCAGTAAGAGTTTTCACAAAAATCTGCAT
G
Found at i:2884231 original size:208 final size:207
Alignment explanation
Indices: 2883872--2884279 Score: 701
Period size: 208 Copynumber: 2.0 Consensus size: 207
2883862 ATTAAAACAT
*
2883872 TTTGCCATCCATATTTATCAACAATAACACAAACATCATAATACATAAATCATCATGCAAGCAGA
1 TTTGCCATCCATATTTATCAACAATAACACAAACATCATAATACATAAATCATCATGCAAACAGA
* *
2883937 ATCGAAACCAATATTAACCAATCAAATAACATCAACAACAACCTTCAATTTGGGCCAATTACCTC
66 ATCGAAACCAATATTAACCAATCAAATAACATCAACAACAACCTTCAATTTAGGCCAATCACCTC
* *
2884002 ACTTTTTAATACACCAATAAATCAAACCTAAAAACGAACTAAAAAGAA-AGAAAATTTTCAATGA
131 ACTTTTTAATACACAAATAAATCAAACATAAAAACGAACTAAAAA-AATA-AAAATTTTCAATGA
2884066 AATCCTAAAATAAA
194 AATCCTAAAATAAA
*
2884080 TTTGCCATCCATATTTATCAACAATAACACAAACATCATAATACATAAATCATCATGCAAACATA
1 TTTGCCATCCATATTTATCAACAATAACACAAACATCATAATACATAAATCATCATGCAAACAGA
* * *
2884145 ATCGAAATCAATATTAACCAATCAAATAACGTTAACAACAACCTTCAATTTAGGCCAATCACCTC
66 ATCGAAACCAATATTAACCAATCAAATAACATCAACAACAACCTTCAATTTAGGCCAATCACCTC
*
2884210 GCTTTTTAATACACAAATAAATCAAACATAAAAACGAACTAAAAAAATAAAAATTTTCAATGAAA
131 ACTTTTTAATACACAAATAAATCAAACATAAAAACGAACTAAAAAAATAAAAATTTTCAATGAAA
2884275 TCCTA
196 TCCTA
2884280 GAATCAAGAT
Statistics
Matches: 189, Mismatches: 10, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
207 23 0.12
208 166 0.88
ACGTcount: A:0.49, C:0.21, G:0.05, T:0.25
Consensus pattern (207 bp):
TTTGCCATCCATATTTATCAACAATAACACAAACATCATAATACATAAATCATCATGCAAACAGA
ATCGAAACCAATATTAACCAATCAAATAACATCAACAACAACCTTCAATTTAGGCCAATCACCTC
ACTTTTTAATACACAAATAAATCAAACATAAAAACGAACTAAAAAAATAAAAATTTTCAATGAAA
TCCTAAAATAAA
Found at i:2888988 original size:182 final size:181
Alignment explanation
Indices: 2888681--2889042 Score: 715
Period size: 182 Copynumber: 2.0 Consensus size: 181
2888671 TCCTCTTCTC
2888681 TCTGACTTTTCTTTGTATTAAGAAACACAATGGTCTTTGTCCTAAGAACCATGTAGGATTAAGGA
1 TCTGACTTTTCTTTGTATTAAGAAACACAATGGTCTTTGTCCTAAGAACCATGTAGGATTAAGGA
2888746 AATATGAATGGTTTTTTTTCATTTTCAACTCAACAAGTCTTTTTTTTTTTGCCAATAATTACTCA
66 AATATGAATGGTTTTTTTTCATTTTCAACTCAACAAGTCTTTTTTTTTTTGCCAATAATTACTCA
2888811 CCTTTGTTAGACTGGTGAACAATGAAACAAGATTTGTTTAAAGCAAAAAAA
131 CCTTTGTTAGACTGGTGAACAATGAAACAAGATTTGTTTAAAGCAAAAAAA
2888862 NTCTGACTTTTCTTTGTATTAAGAAACACAATGGTCTTTGTCCTAAGAACCATGTAGGATTAAGG
1 -TCTGACTTTTCTTTGTATTAAGAAACACAATGGTCTTTGTCCTAAGAACCATGTAGGATTAAGG
2888927 AAATATGAATGGTTTTTTTTCATTTTCAACTCAACAAGTCTTTTTTTTTTTGCCAATAATTACTC
65 AAATATGAATGGTTTTTTTTCATTTTCAACTCAACAAGTCTTTTTTTTTTTGCCAATAATTACTC
2888992 ACCTTTGTTAGACTGGTGAACAATGAAACAAGATTTGTTTAAAGCAAAAAA
130 ACCTTTGTTAGACTGGTGAACAATGAAACAAGATTTGTTTAAAGCAAAAAA
2889043 CCTCTATATT
Statistics
Matches: 180, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
182 180 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.38
Consensus pattern (181 bp):
TCTGACTTTTCTTTGTATTAAGAAACACAATGGTCTTTGTCCTAAGAACCATGTAGGATTAAGGA
AATATGAATGGTTTTTTTTCATTTTCAACTCAACAAGTCTTTTTTTTTTTGCCAATAATTACTCA
CCTTTGTTAGACTGGTGAACAATGAAACAAGATTTGTTTAAAGCAAAAAAA
Found at i:2892465 original size:31 final size:32
Alignment explanation
Indices: 2892414--2892479 Score: 116
Period size: 31 Copynumber: 2.1 Consensus size: 32
2892404 TATATATATG
2892414 TATATGTATATACACATACATATGTATATACA
1 TATATGTATATACACATACATATGTATATACA
*
2892446 TATATGT-TATATACATACATATGTATATACA
1 TATATGTATATACACATACATATGTATATACA
2892477 TAT
1 TAT
2892480 CAATGTCCTA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 26 0.79
32 7 0.21
ACGTcount: A:0.42, C:0.11, G:0.06, T:0.41
Consensus pattern (32 bp):
TATATGTATATACACATACATATGTATATACA
Found at i:2895982 original size:228 final size:227
Alignment explanation
Indices: 2895637--2896688 Score: 1024
Period size: 228 Copynumber: 4.6 Consensus size: 227
2895627 CAACTGCTTA
* * * * * * *
2895637 CCAGCAAAGATCAACCTCTGCTGGTCTGGAGGAATCCCCTCCTTGTCCTGAATCTTTGCTTTCAC
1 CCAGCAAAAATCAACCTCTGTTGGTCTGGTGGGATACCCTCCTTGTCCTGGATCTTGGCTTTCAC
* * * ** * *
2895702 ATTGTCAATTGTGTCTGAGCTCTCAACCTCCAGGGTGATGGTTTTCCCAGTCA-ATGTCTTGACA
66 ATTGTCAATGGTGTCAGAGCTCTCCACCTCCAAAGTGATGGTTTTCCCAGTCAGA-GTTTTCACA
* * * * * * * * *
2895766 AATATCTGCATCCCTCCTCTAAGGCGCAAGACCAAATGCAGGGTTGACTCCTTTTGGATGTTATA
130 AAAATCTGCATGCCACCACGAAGACGCAAGACCAAATGGAGGGTTGACTCCTTCTGGATATTATA
* *
2895831 GTCTGCAAGTGTCCTCCCATCTTCAAGCTGCTTT
195 ATCTGCAAGGGTCCTCCCATCTTCAAGCTG-TTT
* * * *
2895865 CCAGCAAAAATCAACCTCTGTTGGTCAGGTGGGATACCCTCCTTATCTTGGATCTTGGCTTTGAC
1 CCAGCAAAAATCAACCTCTGTTGGTCTGGTGGGATACCCTCCTTGTCCTGGATCTTGGCTTTCAC
* *
2895930 ATTGTCAATTGTGTCAGAGCTCTCCACCTCCAAAGTGATGGTTTTACCAGTCA-AGGTTTTCACA
66 ATTGTCAATGGTGTCAGAGCTCTCCACCTCCAAAGTGATGGTTTTCCCAGTCAGA-GTTTTCACA
* * * * *
2895994 AAAATCTGCATTCCACCACGCAGACGC-AGCACCAAGTGGAGGGTTGACTCCTTTTGGATATTGT
130 AAAATCTGCATGCCACCACGAAGACGCAAG-ACCAAATGGAGGGTTGACTCCTTCTGGATATTAT
* *
2896058 AATCTGCAAGCGTCCTCCCATCCTCCAA-CTGTTT
194 AATCTGCAAGGGTCCTCCCAT-CTTCAAGCTGTTT
* * * * * * * *
2896092 GCCGGCAAATATCAGCCTCTGTTGATCTGGAGGGATACCTTCCTTGTCCTGGATCTTAGCTTTTA
1 -CCAGCAAAAATCAACCTCTGTTGGTCTGGTGGGATACCCTCCTTGTCCTGGATCTTGGCTTTCA
* * * * * * * *
2896157 CATTGTCAATGGTATCAGAACTCTCAACTTCCAAGGTAATTGTCTTT-CCAGTGAGAGTTTTCAC
65 CATTGTCAATGGTGTCAGAGCTCTCCACCTCCAAAGTGATGGT-TTTCCCAGTCAGAGTTTTCAC
* * * * *
2896221 AAAAATTTGCATGCCACCACGAAGCCGCAACACCAAATGGAGGGTTGACTCCTTCTGAATGTTAT
129 AAAAATCTGCATGCCACCACGAAGACGCAAGACCAAATGGAGGGTTGACTCCTTCTGGATATTAT
* * *
2896286 AGTCTGCAAGGGTTCTGCCATCTTCAAGCTGTTTT
194 AATCTGCAAGGGTCCTCCCATCTTCAAGCTG-TTT
* * * * * *
2896321 CCGGCAAAAATTAACCTCTGCTGGTCCGGTGGGATACCCTCCTTGTCCTGAATCTTGGCCTTCAC
1 CCAGCAAAAATCAACCTCTGTTGGTCTGGTGGGATACCCTCCTTGTCCTGGATCTTGGCTTTCAC
* * * * * *
2896386 ATTATCGATGGTATCCGAACTCTCCACCTCCAAAGTGATGGTTTTCCCAGTGAGAGTTTTCACAA
66 ATTGTCAATGGTGTCAGAGCTCTCCACCTCCAAAGTGATGGTTTTCCCAGTCAGAGTTTTCACAA
* * * * * *
2896451 ATATCTGCATGCCACCCCTAAGACG-AAGGA-CAAGGTGGAGGGTGGACTCCTTCTGGATATTGT
131 AAATCTGCATGCCACCACGAAGACGCAA-GACCAA-ATGGAGGGTTGACTCCTTCTGGATATTAT
* * ** * *
2896514 AATCAGCAAGGGTGCGGCCATCCTCTAGCTGTTT
194 AATCTGCAAGGGTCCTCCCATCTTCAAGCTGTTT
* *
2896548 ACCAGCAAAGAT-AAGCCTCTGTTGGTCTGGTGGGAT-CCCTTCCTTGTCTTGGATCTTGGCTTT
1 -CCAGCAAAAATCAA-CCTCTGTTGGTCTGGTGGGATACCC-TCCTTGTCCTGGATCTTGGCTTT
* * * * * ** * * * *
2896611 GACATTATCAATAGTGTCAGAGCTTTCCACCTCGAGGGTGATGGTCTTGCCAGTAAGGGTTTTCA
63 CACATTGTCAATGGTGTCAGAGCTCTCCACCTCCAAAGTGATGGTTTTCCCAGTCAGAGTTTTCA
*
2896676 CAAAGATCTGCAT
128 CAAAAATCTGCAT
2896689 CTGTTGTCAA
Statistics
Matches: 683, Mismatches: 127, Indels: 28
0.82 0.15 0.03
Matches are distributed among these distances:
227 26 0.04
228 644 0.94
229 13 0.02
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (227 bp):
CCAGCAAAAATCAACCTCTGTTGGTCTGGTGGGATACCCTCCTTGTCCTGGATCTTGGCTTTCAC
ATTGTCAATGGTGTCAGAGCTCTCCACCTCCAAAGTGATGGTTTTCCCAGTCAGAGTTTTCACAA
AAATCTGCATGCCACCACGAAGACGCAAGACCAAATGGAGGGTTGACTCCTTCTGGATATTATAA
TCTGCAAGGGTCCTCCCATCTTCAAGCTGTTT
Found at i:2896411 original size:456 final size:456
Alignment explanation
Indices: 2895550--2896689 Score: 1309
Period size: 456 Copynumber: 2.5 Consensus size: 456
2895540 AACTTAGAAA
* * * * * * *
2895550 CCACCACGGAGGCGAAGGACAAGATGAAGGGTGGACTCCTTCTGGATATTGTAGTCAGCCAGAGT
1 CCACCACGAAGACGAAGCACAAGGTGGAGGGTGGACTCCTTCTGGATATTGTAATCAGCAAGAGT
* * * * *
2895615 GCGACCATCCTCCAACTGCTTACCAGCAAAGATCAACCTCTGCTGGTCTGGAGGAATCCCCTCCT
66 GCGACCATCCTCCAACTGTTTACCAGCAAAGATCAGCCTCTGTTGGTCTGGAGGGATCCCTTCCT
* * * * * * *
2895680 TGTCCTGAATCTTTGCTTTCACATTGTCAATTGTGTCTGAGCTCTCAACCTCCAGGGTGATGGTT
131 TGTCCTGGATCTTAGCTTTCACATTGTCAATAGTGTCAGAACTCTCAACCTCCAAGGTAATGGTT
* * * * * * *
2895745 TTCCCAGTCAATGTCTTGACAAATATCTGCATCCCTCCTCTAAGGCGCAAGACCAAATGCAGGGT
196 TTCCCAGTCAATGTCTTCACAAAAATCTGCATCCCACCACGAAGCCGCAACACCAAATGCAGGGT
* * *
2895810 TGACTCCTTTTGGATGTTATAGTCTGCAAGTGTCCTCCCATCTTCAAGCTGCTTTCCAGCAAAAA
261 TGACTCCTTCTGAATGTTATAGTCTGCAAGGGTCCTCCCATCTTCAAGCTGCTTTCCAGCAAAAA
* * * * * * *
2895875 TCAACCTCTGTTGGTCAGGTGGGATACCCTCCTTATCTTGGATCTTGGCTTTGACATTGTCAATT
326 TCAACCTCTGCTGGTCAGGTGGGATACCCTCCTTATCCTGAATCTTGGCCTTCACATTATCAATG
* *
2895940 GTGTCAGAGCTCTCCACCTCCAAAGTGATGGTTTTACCAGTCAAG-GTTTTCACAAAAATCTGCA
391 GTATCAGAACTCTCCACCTCCAAAGTGATGGTTTTACCAGT-AAGAGTTTTCACAAAAATCTGCA
*
2896004 TT
455 TG
* * * * * *
2896006 CCACCACGCAGACGCAGCACCAA-GTGGAGGGTTGACTCCTTTTGGATATTGTAATCTGCAAGCG
1 CCACCACGAAGACGAAGCA-CAAGGTGGAGGGTGGACTCCTTCTGGATATTGTAATCAGCAAGAG
* ** * * * * *
2896070 TCCTCCCATCCTCCAACTGTTTGCCGGCAAATATCAGCCTCTGTTGATCTGGAGGGATACCTTCC
65 TGCGACCATCCTCCAACTGTTTACCAGCAAAGATCAGCCTCTGTTGGTCTGGAGGGATCCCTTCC
* * * * *
2896135 TTGTCCTGGATCTTAGCTTTTACATTGTCAATGGTATCAGAACTCTCAACTTCCAAGGTAATTGT
130 TTGTCCTGGATCTTAGCTTTCACATTGTCAATAGTGTCAGAACTCTCAACCTCCAAGGTAATGGT
* * * * *
2896200 CTTT-CCAGTGAGA-GTTTTCACAAAAATTTGCATGCCACCACGAAGCCGCAACACCAAATGGAG
195 -TTTCCCAGTCA-ATGTCTTCACAAAAATCTGCATCCCACCACGAAGCCGCAACACCAAATGCAG
* * * *
2896263 GGTTGACTCCTTCTGAATGTTATAGTCTGCAAGGGTTCTGCCATCTTCAAGCTGTTTTCCGGCAA
258 GGTTGACTCCTTCTGAATGTTATAGTCTGCAAGGGTCCTCCCATCTTCAAGCTGCTTTCCAGCAA
* * * *
2896328 AAATTAACCTCTGCTGGTCCGGTGGGATACCCTCCTTGTCCTGAATCTTGGCCTTCACATTATCG
323 AAATCAACCTCTGCTGGTCAGGTGGGATACCCTCCTTATCCTGAATCTTGGCCTTCACATTATCA
* * * *
2896393 ATGGTATCCGAACTCTCCACCTCCAAAGTGATGGTTTTCCCAGTGAGAGTTTTCACAAATATCTG
388 ATGGTATCAGAACTCTCCACCTCCAAAGTGATGGTTTTACCAGTAAGAGTTTTCACAAAAATCTG
2896458 CATG
453 CATG
* * * *
2896462 CCACCCCTAAGACGAAGGACAAGGTGGAGGGTGGACTCCTTCTGGATATTGTAATCAGCAAGGGT
1 CCACCACGAAGACGAAGCACAAGGTGGAGGGTGGACTCCTTCTGGATATTGTAATCAGCAAGAGT
* * * * *
2896527 GCGGCCATCCTCTAGCTGTTTACCAGCAAAGATAAGCCTCTGTTGGTCTGGTGGGATCCCTTCCT
66 GCGACCATCCTCCAACTGTTTACCAGCAAAGATCAGCCTCTGTTGGTCTGGAGGGATCCCTTCCT
* * * * * * * * * * *
2896592 TGTCTTGGATCTTGGCTTTGACATTATCAATAGTGTCAGAGCTTTCCACCTCGAGGGTGATGGTC
131 TGTCCTGGATCTTAGCTTTCACATTGTCAATAGTGTCAGAACTCTCAACCTCCAAGGTAATGGTT
* * * *
2896657 TTGCCAGT-AAGGGTTTTCACAAAGATCTGCATC
196 TTCCCAGTCAA-TGTCTTCACAAAAATCTGCATC
2896690 TGTTGTCAAT
Statistics
Matches: 564, Mismatches: 112, Indels: 16
0.82 0.16 0.02
Matches are distributed among these distances:
454 1 0.00
455 8 0.01
456 548 0.97
457 7 0.01
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (456 bp):
CCACCACGAAGACGAAGCACAAGGTGGAGGGTGGACTCCTTCTGGATATTGTAATCAGCAAGAGT
GCGACCATCCTCCAACTGTTTACCAGCAAAGATCAGCCTCTGTTGGTCTGGAGGGATCCCTTCCT
TGTCCTGGATCTTAGCTTTCACATTGTCAATAGTGTCAGAACTCTCAACCTCCAAGGTAATGGTT
TTCCCAGTCAATGTCTTCACAAAAATCTGCATCCCACCACGAAGCCGCAACACCAAATGCAGGGT
TGACTCCTTCTGAATGTTATAGTCTGCAAGGGTCCTCCCATCTTCAAGCTGCTTTCCAGCAAAAA
TCAACCTCTGCTGGTCAGGTGGGATACCCTCCTTATCCTGAATCTTGGCCTTCACATTATCAATG
GTATCAGAACTCTCCACCTCCAAAGTGATGGTTTTACCAGTAAGAGTTTTCACAAAAATCTGCAT
G
Found at i:2898332 original size:24 final size:23
Alignment explanation
Indices: 2898304--2898358 Score: 51
Period size: 24 Copynumber: 2.3 Consensus size: 23
2898294 CACATATTTT
*
2898304 ATATAAAACTTT-AAAATTTTTTAA
1 ATATAAAA-TTTAAAACTTTTT-AA
*
2898328 ATATAAATATTTAATACTTTTTAA
1 ATATAAA-ATTTAAAACTTTTTAA
2898352 A-ATAAAA
1 ATATAAAA
2898359 AATATACGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
22 1 0.04
23 5 0.19
24 13 0.48
25 8 0.30
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (23 bp):
ATATAAAATTTAAAACTTTTTAA
Found at i:2903414 original size:18 final size:19
Alignment explanation
Indices: 2903391--2903426 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2903381 GTGAGAAGAA
2903391 TATTTT-GAAATAAAATAT
1 TATTTTAGAAATAAAATAT
*
2903409 TATTTTATAAATAAAATA
1 TATTTTAGAAATAAAATA
2903427 ATACTTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (19 bp):
TATTTTAGAAATAAAATAT
Found at i:2904392 original size:34 final size:34
Alignment explanation
Indices: 2904349--2904425 Score: 120
Period size: 34 Copynumber: 2.3 Consensus size: 34
2904339 TGATTTTTGA
2904349 GAGAGGAAAG-GGAGGCCTTGTGCTGTCAATTTTT
1 GAGAGGAAAGAGG-GGCCTTGTGCTGTCAATTTTT
* *
2904383 GAGAGGAAAGAGGGGCTTTGTGCTGTCGATTTTT
1 GAGAGGAAAGAGGGGCCTTGTGCTGTCAATTTTT
2904417 GAGAGGAAA
1 GAGAGGAAA
2904426 AAAAGGCCTT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
34 38 0.95
35 2 0.05
ACGTcount: A:0.26, C:0.09, G:0.38, T:0.27
Consensus pattern (34 bp):
GAGAGGAAAGAGGGGCCTTGTGCTGTCAATTTTT
Found at i:2904438 original size:34 final size:34
Alignment explanation
Indices: 2904361--2904462 Score: 114
Period size: 34 Copynumber: 3.0 Consensus size: 34
2904351 GAGGAAAGGG
* * *
2904361 AGGCCTTGTGCTGTCAATTTTTGAGAGGAAAGAG
1 AGGCCTTGTGCTGTCGATTTTTGAGAGGAAAAAA
* *
2904395 GGGCTTTGTGCTGTCGATTTTTGAGAGGAAAAAA
1 AGGCCTTGTGCTGTCGATTTTTGAGAGGAAAAAA
* * * *
2904429 AGGCCTTGTGTTGCTGGATTTTTGGGAAGAAAAA
1 AGGCCTTGTGCTG-TCGATTTTTGAGAGGAAAAA
2904463 GAAAGGAAGC
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
34 39 0.70
35 17 0.30
ACGTcount: A:0.26, C:0.10, G:0.32, T:0.31
Consensus pattern (34 bp):
AGGCCTTGTGCTGTCGATTTTTGAGAGGAAAAAA
Found at i:2905046 original size:2 final size:2
Alignment explanation
Indices: 2905039--2905065 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2905029 ATCGTTTTGA
2905039 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
2905066 AATTATATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2907727 original size:20 final size:20
Alignment explanation
Indices: 2907689--2907737 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
2907679 ATAGAAAATT
*
2907689 CTATCAATAGATCACATTAG
1 CTATCGATAGATCACATTAG
* * *
2907709 CTATCGATAGATTATATTAT
1 CTATCGATAGATCACATTAG
2907729 CTATCGATA
1 CTATCGATA
2907738 AATAAATAGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (20 bp):
CTATCGATAGATCACATTAG
Found at i:2907795 original size:20 final size:20
Alignment explanation
Indices: 2907770--2907807 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2907760 CTTGAACGTA
2907770 ATCTATCAATAGATATTCTC
1 ATCTATCAATAGATATTCTC
*
2907790 ATCTATCGATAGATATTC
1 ATCTATCAATAGATATTC
2907808 AATTTTCAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.18, G:0.08, T:0.39
Consensus pattern (20 bp):
ATCTATCAATAGATATTCTC
Found at i:2910906 original size:2 final size:2
Alignment explanation
Indices: 2910899--2910933 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2910889 TTTCACAACC
2910899 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2910934 TGGTCCAACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2911017 original size:3 final size:3
Alignment explanation
Indices: 2911009--2911033 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
2910999 GTATCTTTTC
2911009 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
2911034 TTGTTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:2914186 original size:2 final size:2
Alignment explanation
Indices: 2914179--2914205 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2914169 GATATGTTAC
2914179 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
2914206 GATGAATTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2917752 original size:134 final size:133
Alignment explanation
Indices: 2917452--2917844 Score: 414
Period size: 134 Copynumber: 2.9 Consensus size: 133
2917442 AAAATTGTAC
* *
2917452 TTTTTTTTAAAAAAAAAAAGCATGAGTAATTGATTTACCGAAAAAGATTACATGAATATCAATTC
1 TTTTTTTTAAAAAAAAAAA-CATGAGTAATTGATTGACCGAAAAAGATTACATGAATACCAATTC
* * * * *
2917517 AAATCTACTGTCATAGATAAAATCAATCACAAACCCAATGCGATATTGCAATTATATTTCACAA-
65 AAATCTATTGTCATAGATAAAATCAATCACAAACTCAATGCGACATTACAATTACATTTCACAAT
2917581 TTTT
130 TTTT
*** * * * *
2917585 TTTTTAAAAAAAAGAACAAAATATAAGTCATTGATTGATCGAAAAAGATTACATGAATACCAATT
1 TTTTTTTTAAAAA-AA-AAAACATGAGTAATTGATTGACCGAAAAAGATTACATGAATACCAATT
* * ** * *
2917650 CAAGTCTATTGTCATAGATAAAATCAA-CTACAGACTCGGTGCGACATTACACTTACATTTCACC
64 CAAATCTATTGTCATAGATAAAATCAATC-ACAAACTCAATGCGACATTACAATTACATTTCACA
*
2917714 TTTTTGT
128 ATTTT-T
* * * * * * * *
2917721 TTTTTTTTTAAATAAAAAACATGAGTTATTGATTGACCAAAAAAGTTTACTTAAATACCAATTTA
1 TTTTTTTTAAAAAAAAAAACATGAGTAATTGATTGACCGAAAAAGATTACATGAATACCAATTCA
* * * * *
2917786 AATCTGTTATAATAGAT-AAATCAGTCACAAACTCAATGCGACATTACATTTACATTTCA
66 AATCTATTGTCATAGATAAAATCAATCACAAACTCAATGCGACATTACAATTACATTTCA
2917845 GCATAATCAT
Statistics
Matches: 210, Mismatches: 44, Indels: 12
0.79 0.17 0.05
Matches are distributed among these distances:
133 46 0.22
134 146 0.70
135 9 0.04
136 9 0.04
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.34
Consensus pattern (133 bp):
TTTTTTTTAAAAAAAAAAACATGAGTAATTGATTGACCGAAAAAGATTACATGAATACCAATTCA
AATCTATTGTCATAGATAAAATCAATCACAAACTCAATGCGACATTACAATTACATTTCACAATT
TTT
Found at i:2921230 original size:17 final size:17
Alignment explanation
Indices: 2921202--2921235 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
2921192 ATTAATAATC
2921202 AATTTGATATTTGATTAT
1 AATTTGATATTT-ATTAT
2921220 AATTT-ATATTTATTAT
1 AATTTGATATTTATTAT
2921236 CAATATGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 6 0.38
18 5 0.31
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (17 bp):
AATTTGATATTTATTAT
Found at i:2925471 original size:13 final size:13
Alignment explanation
Indices: 2925453--2925480 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2925443 AATATTACAG
2925453 ATATTTCAAATCA
1 ATATTTCAAATCA
2925466 ATATTTCAAATCA
1 ATATTTCAAATCA
2925479 AT
1 AT
2925481 GAAAATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.39
Consensus pattern (13 bp):
ATATTTCAAATCA
Found at i:2958698 original size:19 final size:20
Alignment explanation
Indices: 2958674--2958711 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2958664 GGGTTTTGTA
*
2958674 ACTTT-AGTTCTTATGAAAC
1 ACTTTAAGTTCTGATGAAAC
2958693 ACTTTAAGTTCTGATGAAA
1 ACTTTAAGTTCTGATGAAA
2958712 GATTACATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.39
Consensus pattern (20 bp):
ACTTTAAGTTCTGATGAAAC
Found at i:2966899 original size:17 final size:16
Alignment explanation
Indices: 2966872--2966903 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
2966862 AATTTTTTTT
2966872 ATTATTATATGTATAA
1 ATTATTATATGTATAA
2966888 ATTATATATATGTATA
1 ATTAT-TATATGTATA
2966904 TATAATATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (16 bp):
ATTATTATATGTATAA
Found at i:2966911 original size:17 final size:17
Alignment explanation
Indices: 2966877--2966911 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2966867 TTTTTATTAT
*
2966877 TATATGTATAAATTATA
1 TATATGTATAAATAATA
*
2966894 TATATGTATATATAATA
1 TATATGTATAAATAATA
2966911 T
1 T
2966912 GATTACGTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (17 bp):
TATATGTATAAATAATA
Found at i:2967893 original size:26 final size:26
Alignment explanation
Indices: 2967864--2967915 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
2967854 ATGTTACTGA
* *
2967864 ATGTTGATTTACCCTTATGTTTACAG
1 ATGTTAATGTACCCTTATGTTTACAG
2967890 ATGTTAATGTACCCTTATGTTTACAG
1 ATGTTAATGTACCCTTATGTTTACAG
2967916 GTGACAGCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.44
Consensus pattern (26 bp):
ATGTTAATGTACCCTTATGTTTACAG
Found at i:2968665 original size:19 final size:20
Alignment explanation
Indices: 2968628--2968665 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2968618 TTGATAAACT
*
2968628 CACTTAAATATACTTAACAA
1 CACTTAAATACACTTAACAA
2968648 CACTTAAATACA-TTAACA
1 CACTTAAATACACTTAACA
2968666 GGGATGAGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (20 bp):
CACTTAAATACACTTAACAA
Found at i:2970144 original size:11 final size:11
Alignment explanation
Indices: 2970130--2970172 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
2970120 CTTTAAATTT
2970130 TGCAAAAATCG
1 TGCAAAAATCG
2970141 TGCAAAAATCG
1 TGCAAAAATCG
* *
2970152 TACAAAATTCG
1 TGCAAAAATCG
*
2970163 TGCGAAAATC
1 TGCAAAAATC
2970173 AATGTTAAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.21
Consensus pattern (11 bp):
TGCAAAAATCG
Found at i:2989671 original size:28 final size:28
Alignment explanation
Indices: 2989640--2989751 Score: 215
Period size: 28 Copynumber: 4.0 Consensus size: 28
2989630 AAAGAGAAAG
2989640 AAAAATACAAACAACTATGAGAACTTAA
1 AAAAATACAAACAACTATGAGAACTTAA
2989668 AAAAATACAAACAACTATGAGAACTTAA
1 AAAAATACAAACAACTATGAGAACTTAA
2989696 AAAAATACAAACAACTATGAGAACTTAA
1 AAAAATACAAACAACTATGAGAACTTAA
*
2989724 AAAAATACAAACAACTACGAGAACTTAA
1 AAAAATACAAACAACTATGAGAACTTAA
2989752 TAGACAGACA
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
28 83 1.00
ACGTcount: A:0.61, C:0.15, G:0.07, T:0.17
Consensus pattern (28 bp):
AAAAATACAAACAACTATGAGAACTTAA
Found at i:3000762 original size:29 final size:30
Alignment explanation
Indices: 3000710--3000767 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
3000700 TATATTGTTT
* * * *
3000710 TCAATTAAACTTTTGTACTTTTATTTTGAA
1 TCAAATAAACTCTTATACTTTTATGTTGAA
3000740 TCAAATAAACTCTTATAC-TTTATGTTGA
1 TCAAATAAACTCTTATACTTTTATGTTGA
3000768 TTTAGTCAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.48
Consensus pattern (30 bp):
TCAAATAAACTCTTATACTTTTATGTTGAA
Found at i:3007730 original size:25 final size:25
Alignment explanation
Indices: 3007679--3007730 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
3007669 TTTTAGTGAG
*
3007679 TTATTTTAATTTTATATTATTCCTT
1 TTATTTTAATTTTATATTATTACTT
* *
3007704 TTATTTTAGTTATTAT-TTATTAGTT
1 TTATTTTAATT-TTATATTATTACTT
3007729 TT
1 TT
3007731 TATATTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.69
Consensus pattern (25 bp):
TTATTTTAATTTTATATTATTACTT
Found at i:3013048 original size:13 final size:13
Alignment explanation
Indices: 3013030--3013069 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
3013020 ATAAACTTTT
3013030 TAAATTTTTTTAA
1 TAAATTTTTTTAA
*
3013043 TAAATTTTTGTAA
1 TAAATTTTTTTAA
3013056 TAAATTTTTTTAA
1 TAAATTTTTTTAA
3013069 T
1 T
3013070 GATCTTCTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (13 bp):
TAAATTTTTTTAA
Found at i:3013175 original size:23 final size:23
Alignment explanation
Indices: 3013148--3013192 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
3013138 TTTGACTCAA
3013148 TTTTAAAATTT-TTTTTAATTTTT
1 TTTTAAAATTTATTTTT-ATTTTT
**
3013171 TTTTATTATTTATTTTTATTTT
1 TTTTAAAATTTATTTTTATTTT
3013193 ATTTACTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTTAAAATTTATTTTTATTTTT
Found at i:3013602 original size:15 final size:16
Alignment explanation
Indices: 3013584--3013613 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
3013574 TAATGACCCT
3013584 TTAAATAATT-TTTTA
1 TTAAATAATTATTTTA
3013599 TTAAATAATTATTTT
1 TTAAATAATTATTTT
3013614 TATTCATCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTAAATAATTATTTTA
Found at i:3017706 original size:33 final size:30
Alignment explanation
Indices: 3017669--3017752 Score: 87
Period size: 33 Copynumber: 2.6 Consensus size: 30
3017659 TAATTTTACC
3017669 TTTTATTAATTTTAAAAATTACTATTATATAAT
1 TTTTATTAATTTTAAAAATT--TATTAT-TAAT
** *
3017702 TTTTATTAATTTTTTATTAATTTTTTATTAAT
1 TTTTATTAA--TTTTAAAAATTTATTATTAAT
3017734 TTGTTATTAATTTTAAAAA
1 TT-TTATTAATTTTAAAAA
3017753 ATATAATGGA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
31 7 0.16
32 6 0.14
33 21 0.49
35 9 0.21
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (30 bp):
TTTTATTAATTTTAAAAATTTATTATTAAT
Found at i:3017715 original size:11 final size:11
Alignment explanation
Indices: 3017701--3017747 Score: 85
Period size: 11 Copynumber: 4.3 Consensus size: 11
3017691 TATTATATAA
3017701 TTTTTATTAAT
1 TTTTTATTAAT
3017712 TTTTTATTAAT
1 TTTTTATTAAT
3017723 TTTTTATTAAT
1 TTTTTATTAAT
*
3017734 TTGTTATTAAT
1 TTTTTATTAAT
3017745 TTT
1 TTT
3017748 AAAAAATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 34 1.00
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (11 bp):
TTTTTATTAAT
Found at i:3017726 original size:22 final size:22
Alignment explanation
Indices: 3017693--3017747 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
3017683 AAAATTACTA
*
3017693 TTATATAA-TTTTTATTAATTTT
1 TTAT-TAATTTTTTATTAATTTG
3017715 TTATTAATTTTTTATTAATTTG
1 TTATTAATTTTTTATTAATTTG
3017737 TTATTAATTTT
1 TTATTAATTTT
3017748 AAAAAATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 3 0.10
22 28 0.90
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (22 bp):
TTATTAATTTTTTATTAATTTG
Found at i:3017993 original size:138 final size:138
Alignment explanation
Indices: 3017849--3018130 Score: 363
Period size: 139 Copynumber: 2.0 Consensus size: 138
3017839 TAAATTAATT
* * * * *
3017849 AAAAAAGGCATCTTAATCTTTTTATATTATCGGTTAATAGCGTTTATACTTTT-GGACA-AAATG
1 AAAAAAGACATCTTAATCTTTTTATATTACCGATTAACAGCGTTTACACTTTTAGGA-AGAAATG
* **
3017912 TCTATTTCAAAAACTAATGGATCCGTTT-AGAATTTCAATTAAAATTTAGGAAGGTGAAGGTATT
65 TCTATTTCAAAAACTAATGAATCCGTTTGA-AATTTCAATTAAAATTTAAAAAGGTGAAGGTATT
*
3017976 TTATCTTAAGA
129 TTATCCTAA-A
* * * * * *
3017987 AAAAAAGACATTTTAGTCTTTTTATATTACCTATTAACGGTGTTTACACTTTTAGGAAGAAGTGT
1 AAAAAAGACATCTTAATCTTTTTATATTACCGATTAACAGCGTTTACACTTTTAGGAAGAAATGT
* *
3018052 TTATTTCAAAAACTACTGAATCCGTTTGAAATTTCAATTAAAATTTAAAAAGGTGAAGGTATTTT
66 CTATTTCAAAAACTAATGAATCCGTTTGAAATTTCAATTAAAATTTAAAAAGGTGAAGGTATTTT
3018117 ATCCTAAA
131 ATCCTAAA
3018125 AAAAAA
1 AAAAAA
3018131 TTCGAAAGTC
Statistics
Matches: 124, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
138 51 0.41
139 72 0.58
140 1 0.01
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (138 bp):
AAAAAAGACATCTTAATCTTTTTATATTACCGATTAACAGCGTTTACACTTTTAGGAAGAAATGT
CTATTTCAAAAACTAATGAATCCGTTTGAAATTTCAATTAAAATTTAAAAAGGTGAAGGTATTTT
ATCCTAAA
Found at i:3019289 original size:32 final size:33
Alignment explanation
Indices: 3019229--3019294 Score: 80
Period size: 32 Copynumber: 2.0 Consensus size: 33
3019219 GAAATCAAAG
* * * *
3019229 AGATGAATAAATCAATTTTATTATTTATTTATT
1 AGATAAATAAATCAATTATATTAATTATTGATT
*
3019262 AGATAAATAAAT-TATTATATTAATTATTGATT
1 AGATAAATAAATCAATTATATTAATTATTGATT
3019294 A
1 A
3019295 CATATATATT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (33 bp):
AGATAAATAAATCAATTATATTAATTATTGATT
Found at i:3025646 original size:11 final size:11
Alignment explanation
Indices: 3025632--3025656 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
3025622 TATTATATCA
3025632 TTTTTATTAAT
1 TTTTTATTAAT
3025643 TTTTTATTAAT
1 TTTTTATTAAT
3025654 TTT
1 TTT
3025657 AAAAAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTATTAAT
Found at i:3025919 original size:137 final size:137
Alignment explanation
Indices: 3025765--3026013 Score: 383
Period size: 138 Copynumber: 1.8 Consensus size: 137
3025755 ATTCATAAAG
* * *
3025765 AAAAAAAGCATTTTAGTCTTTTTATATTGCATGTTAACGACGTTTACACTTTT-GGACGAAGTGT
1 AAAAAAAGCATTTTAGTCTTTTTATATTACATATTAACGACGTTTACACTTTTAAGACGAAGTGT
* * *
3025829 CTATTTTAAAAATTAATGAATTCGCTTGGAATTTCAATTAAAATTTAGGAAGGAGAGGGTATTTT
66 CTATTTCAAAAATTAATGAATACGCTTGAAATTTCAATTAAAATTTAGGAAGGAGAGGGTATTTT
3025894 ATCGCAA
131 ATCGCAA
* * **
3025901 AAAAAAAGGTATTTTAGTCTTTTTATATTACCTATTAACGGTGTTTACACTTTTAAGACGAAGTG
1 AAAAAAA-GCATTTTAGTCTTTTTATATTACATATTAACGACGTTTACACTTTTAAGACGAAGTG
*
3025966 TCTATTTCAAAAATTACTGAATACGCTTGAAATTTCAATTAAAATTTA
65 TCTATTTCAAAAATTAATGAATACGCTTGAAATTTCAATTAAAATTTA
3026014 AAAAGTGGAG
Statistics
Matches: 100, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
136 7 0.07
137 40 0.40
138 53 0.53
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.39
Consensus pattern (137 bp):
AAAAAAAGCATTTTAGTCTTTTTATATTACATATTAACGACGTTTACACTTTTAAGACGAAGTGT
CTATTTCAAAAATTAATGAATACGCTTGAAATTTCAATTAAAATTTAGGAAGGAGAGGGTATTTT
ATCGCAA
Found at i:3026040 original size:137 final size:136
Alignment explanation
Indices: 3025765--3026043 Score: 375
Period size: 138 Copynumber: 2.1 Consensus size: 136
3025755 ATTCATAAAG
* * *
3025765 AAAAAAAGCATTTTAGTCTTTTTATATTGCATGTTAACGACGTTTACACTTTTGGACGAAGTGTC
1 AAAAAAAGCATTTTAGTCTTTTTATATTACATATTAACGACGTTTACACTTTTAGACGAAGTGTC
* * * ** *
3025830 TATTTTAAAAATTAATGAATTCGCTTGGAATTTCAATTAAAATTTAGGAAGGAGAGGGTATTTTA
66 TATTTCAAAAATTAATGAATACGCTTGAAATTTCAATTAAAATTTAAAAAGGAGAGGATATTTTA
3025895 TCGCAA
131 TCGCAA
* * **
3025901 AAAAAAAGGTATTTTAGTCTTTTTATATTACCTATTAACGGTGTTTACACTTTTAAGACGAAGTG
1 AAAAAAA-GCATTTTAGTCTTTTTATATTACATATTAACGACGTTTACACTTTT-AGACGAAGTG
*
3025966 TCTATTTCAAAAATTACTGAATACGCTTGAAATTTCAATTAAAATTTAAAAAGTG-GA-GATATT
64 TCTATTTCAAAAATTAATGAATACGCTTGAAATTTCAATTAAAATTTAAAAAG-GAGAGGATATT
*
3026029 TTATC-CTA
128 TTATCGCAA
3026037 AAAAAAA
1 AAAAAAA
3026044 TTCGAAAGTC
Statistics
Matches: 125, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
136 16 0.13
137 50 0.40
138 58 0.46
139 1 0.01
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (136 bp):
AAAAAAAGCATTTTAGTCTTTTTATATTACATATTAACGACGTTTACACTTTTAGACGAAGTGTC
TATTTCAAAAATTAATGAATACGCTTGAAATTTCAATTAAAATTTAAAAAGGAGAGGATATTTTA
TCGCAA
Found at i:3026041 original size:138 final size:138
Alignment explanation
Indices: 3025760--3026043 Score: 378
Period size: 137 Copynumber: 2.1 Consensus size: 138
3025750 TTTAAATTCA
* * *
3025760 TAAAGAAAAAAAGCATTTTAGTCTTTTTATATTGCATGTTAACGACGTTTACACTTTTGGACGAA
1 TAAA-AAAAAAAGCATTTTAGTCTTTTTATATTACATATTAACGACGTTTACACTTTTAGACGAA
* * * ** *
3025825 GTGTCTATTTTAAAAATTAATGAATTCGCTTGGAATTTCAATTAAAATTTAGGAAGGAGAGGGTA
65 GTGTCTATTTCAAAAATTAATGAATACGCTTGAAATTTCAATTAAAATTTAAAAAGGAGAGGATA
3025890 TTTTATCGC
130 TTTTATCGC
* * * **
3025899 -AAAAAAAAAGGTATTTTAGTCTTTTTATATTACCTATTAACGGTGTTTACACTTTTAAGACGAA
1 TAAAAAAAAAAGCATTTTAGTCTTTTTATATTACATATTAACGACGTTTACACTTTT-AGACGAA
*
3025963 GTGTCTATTTCAAAAATTACTGAATACGCTTGAAATTTCAATTAAAATTTAAAAAGTG-GA-GAT
65 GTGTCTATTTCAAAAATTAATGAATACGCTTGAAATTTCAATTAAAATTTAAAAAG-GAGAGGAT
3026026 ATTTTATC-C
129 ATTTTATCGC
3026035 TAAAAAAAA
1 TAAAAAAAA
3026044 TTCGAAAGTC
Statistics
Matches: 127, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
136 1 0.01
137 64 0.50
138 61 0.48
139 1 0.01
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (138 bp):
TAAAAAAAAAAGCATTTTAGTCTTTTTATATTACATATTAACGACGTTTACACTTTTAGACGAAG
TGTCTATTTCAAAAATTAATGAATACGCTTGAAATTTCAATTAAAATTTAAAAAGGAGAGGATAT
TTTATCGC
Found at i:3026404 original size:214 final size:214
Alignment explanation
Indices: 3026030--3026463 Score: 733
Period size: 214 Copynumber: 2.0 Consensus size: 214
3026020 GGAGATATTT
* *
3026030 TATCCTAAAAAAAATTCGAAAGTCACAACACTCACTTTAAAAATTGATAAATCTTTCAACTGAAT
1 TATCCTAAAAAAAATTCGAAAGTCACAACACTAACTTTAAAAATAGATAAATCTTTCAACTGAAT
* ** *
3026095 CAATTATCATATCGATAGATTAGTTACATAATTAGTTCAATGAATTGTTTGATTAAAAAATTGAA
66 CAATTATCATATCAATAGAGCAGTTACATAATAAGTTCAATGAATTGTTTGATTAAAAAATTGAA
**
3026160 GTCATTTTCCCAAGAAGGCAAATATGAATTGAACATGTATGATAGAATCACTTTTTTTACTTCTC
131 GTCATTTTCCCAAGAAGGCAAATATGAATTGAACATGTATGATAGAATCACTTTTCCTACTTCTC
*
3026225 CGTTATTGACCGCAGTTGC
196 CATTATTGACCGCAGTTGC
* * * *
3026244 TATCTTAAAAAAATTTCGAAAGTCACAACACTAACTTTCAAAATAGATAAATTTTTCAACTGAAT
1 TATCCTAAAAAAAATTCGAAAGTCACAACACTAACTTTAAAAATAGATAAATCTTTCAACTGAAT
3026309 CAATTATCATATCAATAGAGCAGTTACATAATAAGTTCAATGAATTGTTTGATTAAAAAATTGAA
66 CAATTATCATATCAATAGAGCAGTTACATAATAAGTTCAATGAATTGTTTGATTAAAAAATTGAA
*
3026374 GTCATTTTCCCAAGAAGGCAAATATGAATTGAACATGTATGATAGAATGACTTTTCCTACTTCTC
131 GTCATTTTCCCAAGAAGGCAAATATGAATTGAACATGTATGATAGAATCACTTTTCCTACTTCTC
3026439 CATTATTGACCGCAGTTGC
196 CATTATTGACCGCAGTTGC
*
3026458 CATCCT
1 TATCCT
3026464 TCAAACATCA
Statistics
Matches: 204, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
214 204 1.00
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (214 bp):
TATCCTAAAAAAAATTCGAAAGTCACAACACTAACTTTAAAAATAGATAAATCTTTCAACTGAAT
CAATTATCATATCAATAGAGCAGTTACATAATAAGTTCAATGAATTGTTTGATTAAAAAATTGAA
GTCATTTTCCCAAGAAGGCAAATATGAATTGAACATGTATGATAGAATCACTTTTCCTACTTCTC
CATTATTGACCGCAGTTGC
Found at i:3029901 original size:79 final size:79
Alignment explanation
Indices: 3029815--3030049 Score: 461
Period size: 79 Copynumber: 3.0 Consensus size: 79
3029805 GTCATTTTTG
3029815 TAAGATACAAAGTTTGAGAGATTACACCAAAAAAGGGCTTTCTTTTATGCCAACTCGGCACATAC
1 TAAGATACAAAGTTTGAGAGATTACACCAAAAAAGGGCTTTCTTTTATGCCAACTCGGCACATAC
3029880 ACTCAGACATGTAT
66 ACTCAGACATGTAT
3029894 TAAGATACAAAGTTTGAGAGATTACACCAAAAAAGGGCTTTCTTTTATGCCAACTCGGCACATAC
1 TAAGATACAAAGTTTGAGAGATTACACCAAAAAAGGGCTTTCTTTTATGCCAACTCGGCACATAC
3029959 ACTCAGACATGTAT
66 ACTCAGACATGTAT
*
3029973 TAAGATAAAAAGTTTGAGAGATTACACCAAAAAAGGGCTTTCTTTTATGCCAACTCGGCACATAC
1 TAAGATACAAAGTTTGAGAGATTACACCAAAAAAGGGCTTTCTTTTATGCCAACTCGGCACATAC
3030038 ACTCAGACATGT
66 ACTCAGACATGT
3030050 GTTTATATAT
Statistics
Matches: 155, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 155 1.00
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (79 bp):
TAAGATACAAAGTTTGAGAGATTACACCAAAAAAGGGCTTTCTTTTATGCCAACTCGGCACATAC
ACTCAGACATGTAT
Found at i:3039063 original size:17 final size:18
Alignment explanation
Indices: 3039020--3039063 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
3039010 GGGAGCTACA
*
3039020 AGAGAAAAATGATCAATTT
1 AGAG-AAAATGATCAATTC
*
3039039 AGAGAAAATGATCAGTTC
1 AGAGAAAATGATCAATTC
3039057 A-AGAAAA
1 AGAGAAAA
3039064 CAGAATCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 6 0.26
18 13 0.57
19 4 0.17
ACGTcount: A:0.55, C:0.07, G:0.18, T:0.20
Consensus pattern (18 bp):
AGAGAAAATGATCAATTC
Found at i:3042151 original size:56 final size:56
Alignment explanation
Indices: 3042079--3042230 Score: 198
Period size: 56 Copynumber: 2.7 Consensus size: 56
3042069 CATTGTGGAG
* * * * **
3042079 AGCTCCTTACACTACTCTTCATGCCTAAACCCTAAATCTCACATGACACCTAACAA
1 AGCTCCTCACACTACTCTTCATGTCTAAACCCTAAACCTCAAACAACACCTAACAA
3042135 AGCTCCTCACACTACTCTTCATGTCTAAACCCTAAACCTCAAACAACACCTAACAA
1 AGCTCCTCACACTACTCTTCATGTCTAAACCCTAAACCTCAAACAACACCTAACAA
* *
3042191 AGCT-CTCCGCACTATACTCTTCATGTTTAAACCCTAAACC
1 AGCTCCT-CACAC--TACTCTTCATGTCTAAACCCTAAACC
3042231 CTAAACCCTA
Statistics
Matches: 85, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
55 2 0.02
56 58 0.68
58 25 0.29
ACGTcount: A:0.34, C:0.36, G:0.05, T:0.25
Consensus pattern (56 bp):
AGCTCCTCACACTACTCTTCATGTCTAAACCCTAAACCTCAAACAACACCTAACAA
Found at i:3042230 original size:7 final size:7
Alignment explanation
Indices: 3042218--3042243 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
3042208 TCTTCATGTT
3042218 TAAACCC
1 TAAACCC
3042225 TAAACCC
1 TAAACCC
3042232 TAAACCC
1 TAAACCC
3042239 TAAAC
1 TAAAC
3042244 TTCAAACAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.38, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAACCC
Found at i:3048534 original size:21 final size:21
Alignment explanation
Indices: 3048508--3048548 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
3048498 TCATCAGCTA
3048508 TTGTCAAAACCCAAGTGTCTC
1 TTGTCAAAACCCAAGTGTCTC
*
3048529 TTGTCAAAACCCAGGTGTCT
1 TTGTCAAAACCCAAGTGTCT
3048549 GAATGACAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (21 bp):
TTGTCAAAACCCAAGTGTCTC
Found at i:3051691 original size:9 final size:10
Alignment explanation
Indices: 3051666--3051700 Score: 61
Period size: 10 Copynumber: 3.4 Consensus size: 10
3051656 ATAATTATTT
3051666 TATTTTTTAA
1 TATTTTTTAA
3051676 TATTTTTTAA
1 TATTTTTTAA
3051686 TATTTTTTAAA
1 TATTTTTT-AA
3051697 TATT
1 TATT
3051701 AATAATTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 18 0.75
11 6 0.25
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TATTTTTTAA
Found at i:3051692 original size:11 final size:11
Alignment explanation
Indices: 3051668--3051700 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
3051658 AATTATTTTA
3051668 TTTTTTAATA-
1 TTTTTTAATAT
3051678 TTTTTTAATAT
1 TTTTTTAATAT
*
3051689 TTTTTAAATAT
1 TTTTTTAATAT
3051700 T
1 T
3051701 AATAATTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTTTTAATAT
Found at i:3075360 original size:24 final size:25
Alignment explanation
Indices: 3075315--3075365 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 25
3075305 AAAATTTTAA
*
3075315 AATTATTTATTTTAAAAGATTTTTG
1 AATTATTTATTTTAAAAGATTTATG
* * *
3075340 AATT-TTTATTTTTACATATTTATG
1 AATTATTTATTTTAAAAGATTTATG
3075364 AA
1 AA
3075366 ATGTTACTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (25 bp):
AATTATTTATTTTAAAAGATTTATG
Found at i:3084756 original size:25 final size:26
Alignment explanation
Indices: 3084723--3084777 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
3084713 AACTAGACTT
*
3084723 AAAAATAAT-ATTAA-AATGAAAAAAA
1 AAAAATAATCATTAACAA-AAAAAAAA
*
3084748 AAAGATAATCATTAACAAAAAAAAAA
1 AAAAATAATCATTAACAAAAAAAAAA
3084774 AAAA
1 AAAA
3084778 CCATGAAGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
25 8 0.32
26 15 0.60
27 2 0.08
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.16
Consensus pattern (26 bp):
AAAAATAATCATTAACAAAAAAAAAA
Found at i:3097357 original size:36 final size:36
Alignment explanation
Indices: 3097310--3097381 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
3097300 TGGAGCAGGA
* *
3097310 GGTGGTGGAGGACTGGCCCTACTTGG-GACAGGAGGT
1 GGTGGAGGAGGACTGGCCCTAATTGGCG-CAGGAGGT
*
3097346 GGTGGAGGAGGACTGTCCCTAATTGGCGCAGGAGGT
1 GGTGGAGGAGGACTGGCCCTAATTGGCGCAGGAGGT
3097382 TCAGGAGGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
36 31 0.97
37 1 0.03
ACGTcount: A:0.18, C:0.17, G:0.46, T:0.19
Consensus pattern (36 bp):
GGTGGAGGAGGACTGGCCCTAATTGGCGCAGGAGGT
Found at i:3097389 original size:36 final size:36
Alignment explanation
Indices: 3097316--3097390 Score: 89
Period size: 36 Copynumber: 2.1 Consensus size: 36
3097306 AGGAGGTGGT
* **
3097316 GGAGGACTGGCCCTACTTGGGACAGGAGGTGGTGGA
1 GGAGGACTGGCCCTAATTGGGACAGGAGGTGCAGGA
* *
3097352 GGAGGACTGTCCCTAATTGGCG-CAGGAGGTTCAGGA
1 GGAGGACTGGCCCTAATTGG-GACAGGAGGTGCAGGA
3097388 GGA
1 GGA
3097391 AGAGGATCTG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
36 32 0.97
37 1 0.03
ACGTcount: A:0.21, C:0.17, G:0.44, T:0.17
Consensus pattern (36 bp):
GGAGGACTGGCCCTAATTGGGACAGGAGGTGCAGGA
Found at i:3098097 original size:6 final size:6
Alignment explanation
Indices: 3098086--3098130 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
3098076 ATCAGGAGAA
* * * *
3098086 GGGGCT GGGGCT GGGGCT GAGGAT GGGGAT GGGGAT GGGGAT GGG
1 GGGGAT GGGGAT GGGGAT GGGGAT GGGGAT GGGGAT GGGGAT GGG
3098131 CCTAAGTTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.11, C:0.07, G:0.67, T:0.16
Consensus pattern (6 bp):
GGGGAT
Found at i:3101471 original size:13 final size:14
Alignment explanation
Indices: 3101453--3101491 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
3101443 TTAACAAGTG
3101453 TTTATAAATA-ATT
1 TTTATAAATATATT
3101466 TTTATAAATATTATT
1 TTTATAAATA-TATT
*
3101481 TTAATAAATAT
1 TTTATAAATAT
3101492 TTATAAACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 10 0.43
14 1 0.04
15 12 0.52
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TTTATAAATATATT
Found at i:3113311 original size:15 final size:15
Alignment explanation
Indices: 3113287--3113316 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3113277 ATGGAGCTAA
*
3113287 TGGTGGTAGTGGTGG
1 TGGTGATAGTGGTGG
3113302 TGGTGATAGTGGTGG
1 TGGTGATAGTGGTGG
3113317 CTCAACTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.00, G:0.57, T:0.33
Consensus pattern (15 bp):
TGGTGATAGTGGTGG
Found at i:3125137 original size:13 final size:14
Alignment explanation
Indices: 3125121--3125154 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
3125111 CTTGCATTCG
3125121 ATTATAAATATT-A
1 ATTATAAATATTAA
*
3125134 ATTATTAATATTAA
1 ATTATAAATATTAA
3125148 ATTATAA
1 ATTATAA
3125155 TTTTATATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATTATAAATATTAA
Found at i:3138757 original size:13 final size:14
Alignment explanation
Indices: 3138739--3138769 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
3138729 TTGAAACTCT
3138739 AAAAAAT-AAAATA
1 AAAAAATAAAAATA
3138752 AAAAAATAAAAATA
1 AAAAAATAAAAATA
3138766 AAAA
1 AAAA
3138770 GCTAGTGATT
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:3140602 original size:44 final size:44
Alignment explanation
Indices: 3140537--3140621 Score: 134
Period size: 44 Copynumber: 1.9 Consensus size: 44
3140527 GAACATGCGT
*
3140537 CCTTTAGCCAGGTGTCCATTCCTTCGCTGAGGTACTGCCAGCTG
1 CCTTTAGCCACGTGTCCATTCCTTCGCTGAGGTACTGCCAGCTG
** *
3140581 CCTTTAGCCACGTGTGTATTCCTTCTCTGAGGTACTGCCAG
1 CCTTTAGCCACGTGTCCATTCCTTCGCTGAGGTACTGCCAG
3140622 TTGTCGTTCG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.14, C:0.31, G:0.24, T:0.32
Consensus pattern (44 bp):
CCTTTAGCCACGTGTCCATTCCTTCGCTGAGGTACTGCCAGCTG
Found at i:3141436 original size:24 final size:24
Alignment explanation
Indices: 3141381--3141433 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
3141371 TAAATTTATC
3141381 AATAAATAAATTATTGAGAGAATA
1 AATAAATAAATTATTGAGAGAATA
3141405 AATAAATAAATTATTGAGAGAAT-
1 AATAAATAAATTATTGAGAGAATA
3141428 AATAAA
1 AATAAA
3141434 ATATGTGATA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 6 0.21
24 23 0.79
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.28
Consensus pattern (24 bp):
AATAAATAAATTATTGAGAGAATA
Found at i:3142114 original size:19 final size:19
Alignment explanation
Indices: 3142066--3142114 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
3142056 ATTGTTTTTT
*
3142066 TTTTCTTTTTGATTTGGGC
1 TTTTCATTTTGATTTGGGC
3142085 TTTT-ATATTTGATTCTGGG-
1 TTTTCAT-TTTGATT-TGGGC
3142104 TTTTCATTTTG
1 TTTTCATTTTG
3142115 GTTATTAGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 1 0.04
19 19 0.73
20 6 0.23
ACGTcount: A:0.10, C:0.08, G:0.18, T:0.63
Consensus pattern (19 bp):
TTTTCATTTTGATTTGGGC
Found at i:3143475 original size:24 final size:24
Alignment explanation
Indices: 3143448--3143496 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
3143438 CTCACCCAAC
* *
3143448 TCGCCCTTTTCGTCTCAATTTGAT
1 TCGCCCTTATCGACTCAATTTGAT
3143472 TCGCCCTTATCGACTCAATTTGAT
1 TCGCCCTTATCGACTCAATTTGAT
3143496 T
1 T
3143497 GTGATACCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.16, C:0.29, G:0.12, T:0.43
Consensus pattern (24 bp):
TCGCCCTTATCGACTCAATTTGAT
Found at i:3162412 original size:25 final size:25
Alignment explanation
Indices: 3162375--3162434 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
3162365 AAACTTAAAC
3162375 TCAA-AATTAAAAAAAAA-ATATTAT
1 TCAATAATTAAAAAAAAATA-ATTAT
* *
3162399 TCAATAATTTAAAAAAATTAATTAT
1 TCAATAATTAAAAAAAAATAATTAT
*
3162424 TTAATAATTAA
1 TCAATAATTAA
3162435 GTCTAAAAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 4 0.13
25 25 0.83
26 1 0.03
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (25 bp):
TCAATAATTAAAAAAAAATAATTAT
Found at i:3164829 original size:42 final size:43
Alignment explanation
Indices: 3164772--3164886 Score: 137
Period size: 42 Copynumber: 2.7 Consensus size: 43
3164762 CAATGGTTGC
* *
3164772 TTTTGATAT-ACTTATAACCCATGCCACTAGGGTTCATTGTG-G
1 TTTTGATATGA-TTATAACCTATGCCACTAGGGTTAATTGTGAG
* * *
3164814 TTTTGATATGATTATAACCTATGCCACGAGAGTTAATTGTGAT
1 TTTTGATATGATTATAACCTATGCCACTAGGGTTAATTGTGAG
* *
3164857 TTTTGTTATGATTATGACCTATGCCA-TAGG
1 TTTTGATATGATTATAACCTATGCCACTAGG
3164887 AGATAAGTAT
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
42 37 0.60
43 25 0.40
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (43 bp):
TTTTGATATGATTATAACCTATGCCACTAGGGTTAATTGTGAG
Found at i:3165852 original size:38 final size:38
Alignment explanation
Indices: 3165791--3165865 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 38
3165781 CAAATCCTTT
* *
3165791 TTTTCTCTTTCCTAGAATCTGTAAGGAAAATTCGATGC
1 TTTTCTCTTTCCTAAAATCTGTAAGAAAAATTCGATGC
* *
3165829 TTTTCT-TTTCCCTAAAATTTGTAAGAAAAATTTGATG
1 TTTTCTCTTT-CCTAAAATCTGTAAGAAAAATTCGATG
3165866 GTGTTGAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 3 0.09
38 29 0.91
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.43
Consensus pattern (38 bp):
TTTTCTCTTTCCTAAAATCTGTAAGAAAAATTCGATGC
Found at i:3166881 original size:12 final size:12
Alignment explanation
Indices: 3166866--3166890 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3166856 TAATTATTTA
3166866 TTTAAGAGCATT
1 TTTAAGAGCATT
3166878 TTTAAGAGCATT
1 TTTAAGAGCATT
3166890 T
1 T
3166891 GTTTTGAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (12 bp):
TTTAAGAGCATT
Found at i:3167864 original size:2 final size:2
Alignment explanation
Indices: 3167852--3167887 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
3167842 CCCTGTTATC
*
3167852 CT CT TT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
3167888 ATTTTGCACA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
CT
Found at i:3168783 original size:19 final size:16
Alignment explanation
Indices: 3168767--3168802 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
3168757 AATTTTTTAA
3168767 ATTTATATTATTTTTTT
1 ATTTATA-TATTTTTTT
*
3168784 ATTTATATATTTTTAT
1 ATTTATATATTTTTTT
3168800 ATT
1 ATT
3168803 ATTTGTCTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
ATTTATATATTTTTTT
Found at i:3168787 original size:17 final size:16
Alignment explanation
Indices: 3168760--3168802 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
3168750 TCTTTAAAAT
*
3168760 TTTTTAAATTTATATTA
1 TTTTTATATTTATA-TA
*
3168777 TTTTTTTATTTATATA
1 TTTTTATATTTATATA
3168793 TTTTTATATT
1 TTTTTATATT
3168803 ATTTGTCTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTTATATTTATATA
Found at i:3169386 original size:16 final size:16
Alignment explanation
Indices: 3169346--3169390 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
3169336 TTAAAAAATA
*
3169346 AAAGAGAATAGAAAAAG
1 AAAGAGAA-AGAGAAAG
* *
3169363 AAAAAGAAAGAGAGAG
1 AAAGAGAAAGAGAAAG
3169379 AAAGAGAAAGAG
1 AAAGAGAAAGAG
3169391 GTGGGGAGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 17 0.71
17 7 0.29
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (16 bp):
AAAGAGAAAGAGAAAG
Found at i:3169565 original size:23 final size:23
Alignment explanation
Indices: 3169513--3169557 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
3169503 AAAATATATA
3169513 ATAAAT-AAAAAATTTTAAAAAT
1 ATAAATAAAAAAATTTTAAAAAT
3169535 ATAAATAAAAAAATTTTAAAAAT
1 ATAAATAAAAAAATTTTAAAAAT
3169558 GTATATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (23 bp):
ATAAATAAAAAAATTTTAAAAAT
Found at i:3170645 original size:16 final size:17
Alignment explanation
Indices: 3170620--3170658 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
3170610 TGTCTAGCGA
3170620 AAAATATATTT-TTTTG
1 AAAATATATTTATTTTG
3170636 ATAAAT-TATTTATTTTG
1 A-AAATATATTTATTTTG
3170653 AAAATA
1 AAAATA
3170659 GATGAACCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
AAAATATATTTATTTTG
Found at i:3174061 original size:12 final size:12
Alignment explanation
Indices: 3174044--3174068 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3174034 ATCTTTGTTT
3174044 TGGATAAGAATC
1 TGGATAAGAATC
3174056 TGGATAAGAATC
1 TGGATAAGAATC
3174068 T
1 T
3174069 AGATGTGAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (12 bp):
TGGATAAGAATC
Found at i:3174409 original size:23 final size:23
Alignment explanation
Indices: 3174378--3174422 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
3174368 TAGAATAACA
* *
3174378 ATTCTTAATTCTATTAGGATAAT
1 ATTCCTAATTATATTAGGATAAT
3174401 ATTCCTAATTATATTAGGATAA
1 ATTCCTAATTATATTAGGATAA
3174423 AGTTATTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (23 bp):
ATTCCTAATTATATTAGGATAAT
Done.