Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 153 of 189
Found at i:46047130 original size:251 final size:246
Alignment explanation
Indices: 46046641--46047149 Score: 652
Period size: 251 Copynumber: 2.1 Consensus size: 246
46046631 GTTCCTCAAC
* * *
46046641 CGAAACGGCAACGTTCTGAACATTTTGTAATACACATTTGTGGCGTTTTCATACTAAATGCCGCT
1 CGAAACGGCAACGTTCTGAACATTTTGTAATACACATTTGTGGCGTTTCCATACCAAACGCCGCT
* * * *
46046706 AAAGCTTACAGTTGCGGCGTTTTAAATACAAACGCCACTAATGAGTTCAAATCATTTAAGAAAAC
66 AAAGATCACAGTTGCGGCGTTTTAAATAAAAACGCCACTAAGGAGTTCAAATCATTTAAGAAAAC
* * * *
46046771 GATACCATTTTCGTTCACAAAAACATGTATGAATTTGCGGCGTTTCTATAAAAACGCCACTACTG
131 GACACCATTTTCATACACAAAAACATGTATGAATTTGCGGCGTTTCAATAAAAACGCCACTACTG
*
46046836 TATACCTTATGTGGCGTTTTTCATACAAACGCCACTAAAATTCAAATTCATGTAA
196 CATACCTTATGTGGCG---TT-ATACAAACGCCACTAAAATTCAAATTCATGTAA
** *
46046891 CGAAACGGTGACGTTCTGAACATTTTGTAATGCACATTTGTGGCGTTTCCATACCAAACGCCGCT
1 CGAAACGGCAACGTTCTGAACATTTTGTAATACACATTTGTGGCGTTTCCATACCAAACGCCGCT
* * * *
46046956 AAATATCACAATTTGCGGCGTTTTAAATAAAAATGCCAGTAAGGAGTTCAAATCATTTAAGAAAA
66 AAAGATCAC-AGTTGCGGCGTTTTAAATAAAAACGCCACTAAGGAGTTCAAATCATTTAAGAAAA
* * * * * *
46047021 CGACGCCGTTTTCATACAGACAAACATTTATGGATTTGCGGCGTTTCAATATAAAACGCCACTA-
130 CGACACCATTTTCATACACAAAAACATGTATGAATTTGCGGCGTTTCAATA-AAAACGCCACTAC
*
46047085 TAGCATACCTTCA-GTGGCG-T-TA-AAACGCCACTAAAATTCAAATTCAT-TAG
194 T-GCATACCTT-ATGTGGCGTTATACAAACGCCACTAAAATTCAAATTCATGTAA
* *
46047135 CCAAACGGCACCGTT
1 CGAAACGGCAACGTT
46047150 TTACGTAATT
Statistics
Matches: 225, Mismatches: 30, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
244 13 0.06
245 25 0.11
246 2 0.01
248 1 0.00
250 65 0.29
251 92 0.41
252 26 0.12
253 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (246 bp):
CGAAACGGCAACGTTCTGAACATTTTGTAATACACATTTGTGGCGTTTCCATACCAAACGCCGCT
AAAGATCACAGTTGCGGCGTTTTAAATAAAAACGCCACTAAGGAGTTCAAATCATTTAAGAAAAC
GACACCATTTTCATACACAAAAACATGTATGAATTTGCGGCGTTTCAATAAAAACGCCACTACTG
CATACCTTATGTGGCGTTATACAAACGCCACTAAAATTCAAATTCATGTAA
Found at i:46052974 original size:3 final size:3
Alignment explanation
Indices: 46052968--46053002 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
46052958 TTATTTCTAT
46052968 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
46053003 TACCTTAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
TAG
Found at i:46056037 original size:3 final size:3
Alignment explanation
Indices: 46056029--46056056 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
46056019 CTAAAAAATC
46056029 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
46056057 TAAGCATTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:46058615 original size:28 final size:29
Alignment explanation
Indices: 46058584--46058657 Score: 114
Period size: 28 Copynumber: 2.6 Consensus size: 29
46058574 AATGGTAGAC
* * *
46058584 AGTGAAAGCCAAAGTGACGGGTAGTCC-A
1 AGTGCAAGCCAAAATGACGGATAGTCCAA
46058612 AGTGCAAGCCAAAATGACGGATAGTCCAA
1 AGTGCAAGCCAAAATGACGGATAGTCCAA
46058641 AGTGCAAGCCAAAATGA
1 AGTGCAAGCCAAAATGA
46058658 TGGACAGTAC
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 24 0.57
29 18 0.43
ACGTcount: A:0.41, C:0.19, G:0.27, T:0.14
Consensus pattern (29 bp):
AGTGCAAGCCAAAATGACGGATAGTCCAA
Found at i:46058691 original size:79 final size:79
Alignment explanation
Indices: 46058560--46058749 Score: 229
Period size: 79 Copynumber: 2.4 Consensus size: 79
46058550 ACGAGATGAA
* * ** *
46058560 AAAGTGCAAGCCAAAATGGTAGACAGTGA-AAGCCAAAGTGACGGGTAGTCCAAGTGCAAGCCAA
1 AAAGTGCAAGCCAAAATGGTGGACAGT-ACAAGCCAAAGTGACAGACAATCCAAGTGCAAGCCAA
*
46058624 AATGACGGATAGTCC
65 AATGACGGACAGTCC
* * *
46058639 AAAGTGCAAGCCAAAATGATGGACAGTACAAGCTAAAGTGGCAGACAATCCAAGTGCAAGCCAAA
1 AAAGTGCAAGCCAAAATGGTGGACAGTACAAGCCAAAGTGACAGACAATCCAAGTGCAAGCCAAA
* **
46058704 TTGGTGGACAGTCC
66 ATGACGGACAGTCC
* * *
46058718 AAAGTACAAGCCAAAATGGTGGGCAGTCCAAG
1 AAAGTGCAAGCCAAAATGGTGGACAGTACAAG
46058750 AATTCGCAAA
Statistics
Matches: 94, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
78 1 0.01
79 93 0.99
ACGTcount: A:0.39, C:0.19, G:0.27, T:0.14
Consensus pattern (79 bp):
AAAGTGCAAGCCAAAATGGTGGACAGTACAAGCCAAAGTGACAGACAATCCAAGTGCAAGCCAAA
ATGACGGACAGTCC
Found at i:46058728 original size:29 final size:29
Alignment explanation
Indices: 46058663--46058748 Score: 93
Period size: 29 Copynumber: 3.0 Consensus size: 29
46058653 AATGATGGAC
* * ** *
46058663 AGTACAAGCTAAAGTGGCAGACAATCC-A
1 AGTACAAGCCAAAATGGTGGACAGTCCAA
* *
46058691 AGTGCAAGCCAAATTGGTGGACAGTCCAA
1 AGTACAAGCCAAAATGGTGGACAGTCCAA
*
46058720 AGTACAAGCCAAAATGGTGGGCAGTCCAA
1 AGTACAAGCCAAAATGGTGGACAGTCCAA
46058749 GAATTCGCAA
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
28 21 0.44
29 27 0.56
ACGTcount: A:0.38, C:0.21, G:0.26, T:0.15
Consensus pattern (29 bp):
AGTACAAGCCAAAATGGTGGACAGTCCAA
Found at i:46061887 original size:3 final size:3
Alignment explanation
Indices: 46061872--46061933 Score: 115
Period size: 3 Copynumber: 20.7 Consensus size: 3
46061862 GAATAAGGCG
*
46061872 CAA CAA TAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
46061920 CAA CAA CAA CAA CA
1 CAA CAA CAA CAA CA
46061934 GAACCATATT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.66, C:0.32, G:0.00, T:0.02
Consensus pattern (3 bp):
CAA
Found at i:46070199 original size:12 final size:12
Alignment explanation
Indices: 46070182--46070212 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
46070172 GTTTGGTTCA
46070182 ATTAAATAAATT
1 ATTAAATAAATT
46070194 ATTAAATAAATT
1 ATTAAATAAATT
*
46070206 ATAAAAT
1 ATTAAAT
46070213 TAAAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
ATTAAATAAATT
Found at i:46079226 original size:83 final size:83
Alignment explanation
Indices: 46079132--46079294 Score: 326
Period size: 83 Copynumber: 2.0 Consensus size: 83
46079122 AAAAGAAATT
46079132 GTTTGTCTCCTTTTTCTTTTCCATTTTGACTAAAAAAATTAGTTGGAGATTCAAGCTGGCATTTA
1 GTTTGTCTCCTTTTTCTTTTCCATTTTGACTAAAAAAATTAGTTGGAGATTCAAGCTGGCATTTA
46079197 AAGCTCATTTGAACTATC
66 AAGCTCATTTGAACTATC
46079215 GTTTGTCTCCTTTTTCTTTTCCATTTTGACTAAAAAAATTAGTTGGAGATTCAAGCTGGCATTTA
1 GTTTGTCTCCTTTTTCTTTTCCATTTTGACTAAAAAAATTAGTTGGAGATTCAAGCTGGCATTTA
46079280 AAGCTCATTTGAACT
66 AAGCTCATTTGAACT
46079295 GTCATGTAAG
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 80 1.00
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.42
Consensus pattern (83 bp):
GTTTGTCTCCTTTTTCTTTTCCATTTTGACTAAAAAAATTAGTTGGAGATTCAAGCTGGCATTTA
AAGCTCATTTGAACTATC
Found at i:46085713 original size:21 final size:21
Alignment explanation
Indices: 46085650--46085765 Score: 72
Period size: 21 Copynumber: 5.9 Consensus size: 21
46085640 ATAGATGAAC
*
46085650 TAAATTATA-TTAAGAATGTTAT
1 TAAATTATATTTAATAA--TTAT
**
46085672 TAAATTATATATT-ATTTTTAT
1 TAAATTATAT-TTAATAATTAT
46085693 TAAATTATATTTAATAATTAT
1 TAAATTATATTTAATAATTAT
* *
46085714 TATATTA-A---AAT-ATGAT
1 TAAATTATATTTAATAATTAT
*
46085730 TAAA-T-TATTT-ATTATTAT
1 TAAATTATATTTAATAATTAT
*
46085748 AAAATTATATTTAATAAT
1 TAAATTATATTTAATAAT
46085766 AATCCTATTA
Statistics
Matches: 72, Mismatches: 11, Indels: 23
0.68 0.10 0.22
Matches are distributed among these distances:
15 2 0.03
16 7 0.10
17 5 0.07
18 7 0.10
19 1 0.01
20 8 0.11
21 30 0.42
22 9 0.12
23 1 0.01
24 2 0.03
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.52
Consensus pattern (21 bp):
TAAATTATATTTAATAATTAT
Found at i:46085760 original size:55 final size:58
Alignment explanation
Indices: 46085652--46085779 Score: 163
Period size: 55 Copynumber: 2.2 Consensus size: 58
46085642 AGATGAACTA
* * * *
46085652 AATTATATTAAGAATGTTATTAAATTATATATTATTTTTATTAAATTATATTTAATAAT
1 AATTATATTAA-AATATGATTAAATTATATATTATTATTATAAAATTATATTTAATAAT
*
46085711 TATTATATTAAAATATGATTAAA-T-TAT-TTATTATTATAAAATTATATTTAATAAT
1 AATTATATTAAAATATGATTAAATTATATATTATTATTATAAAATTATATTTAATAAT
**
46085766 AATCCTATTAAAAT
1 AATTATATTAAAAT
46085780 TTAATAACAA
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
55 37 0.61
56 3 0.05
57 1 0.02
58 10 0.16
59 10 0.16
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (58 bp):
AATTATATTAAAATATGATTAAATTATATATTATTATTATAAAATTATATTTAATAAT
Found at i:46085924 original size:44 final size:46
Alignment explanation
Indices: 46085873--46085960 Score: 119
Period size: 44 Copynumber: 2.0 Consensus size: 46
46085863 TACAATATCT
*
46085873 ATTCCATTCAATCAAAC-ACAAGAA-TACT-ATTACAACTCTATTCA
1 ATTCCATTCAACCAAACAAC-AGAATTACTGATTACAACTCTATTCA
* *
46085917 ATTCCATTCAACCAAACAACTGAATTACTGATTACAGCTCTATT
1 ATTCCATTCAACCAAACAACAGAATTACTGATTACAACTCTATT
46085961 ACATTACAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
44 19 0.50
45 6 0.16
46 13 0.34
ACGTcount: A:0.40, C:0.25, G:0.05, T:0.31
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAACAGAATTACTGATTACAACTCTATTCA
Found at i:46085968 original size:16 final size:16
Alignment explanation
Indices: 46085947--46085986 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
46085937 TGAATTACTG
*
46085947 ATTACAGCTCTATTAC
1 ATTACAACTCTATTAC
* *
46085963 ATTACAATTCTATTCC
1 ATTACAACTCTATTAC
46085979 ATTACAAC
1 ATTACAAC
46085987 CTTATTTCAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.38
Consensus pattern (16 bp):
ATTACAACTCTATTAC
Found at i:46086621 original size:49 final size:49
Alignment explanation
Indices: 46086530--46086626 Score: 151
Period size: 49 Copynumber: 2.0 Consensus size: 49
46086520 ATCTATTTAT
* * *
46086530 AGGTTGAAAAACCTTATTCTAATCAATGTCAAATAGATGAAGTGTAGTA
1 AGGTTGAAAAACCTTATTCTAATCAATGTCAAATAAAAGAAGTATAGTA
46086579 AGGTTGAAAAACCTTATTCTAATCAATGT-AAAGTAAAAGAAGTATAGT
1 AGGTTGAAAAACCTTATTCTAATCAATGTCAAA-TAAAAGAAGTATAGT
46086627 TCTATATGGA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
48 3 0.07
49 41 0.93
ACGTcount: A:0.43, C:0.09, G:0.18, T:0.30
Consensus pattern (49 bp):
AGGTTGAAAAACCTTATTCTAATCAATGTCAAATAAAAGAAGTATAGTA
Found at i:46088347 original size:22 final size:22
Alignment explanation
Indices: 46088317--46088360 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
46088307 TTTGGTATTT
46088317 GGGAATTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
* *
46088339 GGGATTTGGTATGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
46088361 TGGTTCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.34, C:0.02, G:0.36, T:0.27
Consensus pattern (22 bp):
GGGAATTGGTACGAAATGGTAA
Found at i:46090762 original size:21 final size:22
Alignment explanation
Indices: 46090716--46090762 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
46090706 CATTTTTCTT
*
46090716 TTCTTTTTCACTCTCTCTCAAT
1 TTCTTTTTCACTCTCTCTCAAA
* *
46090738 TTCTTTTTCAGT-TCTTTCAAA
1 TTCTTTTTCACTCTCTCTCAAA
46090759 TTCT
1 TTCT
46090763 CCAAAGATTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.15, C:0.26, G:0.02, T:0.57
Consensus pattern (22 bp):
TTCTTTTTCACTCTCTCTCAAA
Found at i:46092951 original size:13 final size:12
Alignment explanation
Indices: 46092930--46092967 Score: 67
Period size: 12 Copynumber: 3.1 Consensus size: 12
46092920 AGACCGTATG
46092930 CAATTTTTTTTT
1 CAATTTTTTTTT
46092942 CAATTTTTTTTT
1 CAATTTTTTTTT
46092954 CAAATTTTTTTTT
1 C-AATTTTTTTTT
46092967 C
1 C
46092968 TCTTTCTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 13 0.52
13 12 0.48
ACGTcount: A:0.18, C:0.11, G:0.00, T:0.71
Consensus pattern (12 bp):
CAATTTTTTTTT
Found at i:46092977 original size:25 final size:25
Alignment explanation
Indices: 46092931--46092978 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
46092921 GACCGTATGC
*
46092931 AATTTTTTTTTCAATTTTTTTTTCA
1 AATTTTTTTTTCAATTTCTTTTTCA
**
46092956 AATTTTTTTTTCTCTTTCTTTTT
1 AATTTTTTTTTCAATTTCTTTTT
46092979 TTTTCGAACT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.75
Consensus pattern (25 bp):
AATTTTTTTTTCAATTTCTTTTTCA
Found at i:46102865 original size:49 final size:49
Alignment explanation
Indices: 46102776--46102870 Score: 136
Period size: 49 Copynumber: 1.9 Consensus size: 49
46102766 ATATTTATAG
* * * * * *
46102776 GTTGAAAGACTTTATTCTAATCAATGTCAAATAGATGAAGTGTAGTAAT
1 GTTGAAAAACCTTATTCTAATCAATGTAAAATAAAAGAAGTATAGTAAT
46102825 GTTGAAAAACCTTATTCTAATCAATGTAAAATAAAAGAAGTATAGT
1 GTTGAAAAACCTTATTCTAATCAATGTAAAATAAAAGAAGTATAGT
46102871 TCTATATGGA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 40 1.00
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.33
Consensus pattern (49 bp):
GTTGAAAAACCTTATTCTAATCAATGTAAAATAAAAGAAGTATAGTAAT
Found at i:46104150 original size:7 final size:7
Alignment explanation
Indices: 46104135--46104168 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
46104125 TTTTATCTAT
*
46104135 TTTTTTG
1 TTTTATG
46104142 TTTTATG
1 TTTTATG
46104149 TTTTATG
1 TTTTATG
46104156 TTTTATG
1 TTTTATG
*
46104163 TGTTAT
1 TTTTAT
46104169 TATAATTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.12, C:0.00, G:0.15, T:0.74
Consensus pattern (7 bp):
TTTTATG
Found at i:46105274 original size:13 final size:13
Alignment explanation
Indices: 46105239--46105300 Score: 72
Period size: 13 Copynumber: 4.8 Consensus size: 13
46105229 TTTGGCAATG
*
46105239 CTTTTGAAAAGTG
1 CTTTTGAAAAGTA
*
46105252 C-TGTGAAAAAGTA
1 CTTTTG-AAAAGTA
46105265 CTTTTGAAAAGTA
1 CTTTTGAAAAGTA
* *
46105278 CTTTTGAGAAGTG
1 CTTTTGAAAAGTA
46105291 CTTTTGAAAA
1 CTTTTGAAAA
46105301 TGTTAAGTGT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
12 3 0.07
13 35 0.85
14 3 0.07
ACGTcount: A:0.35, C:0.08, G:0.21, T:0.35
Consensus pattern (13 bp):
CTTTTGAAAAGTA
Found at i:46106806 original size:24 final size:23
Alignment explanation
Indices: 46106777--46106837 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 23
46106767 ATTGCCGAGC
*
46106777 AAGGAAAG-AATCAGGGAGAAGAAA
1 AAGGAAAGAAATC-GGAAG-AGAAA
*
46106801 AGGGAAAGAAATCGGAAGAGAAA
1 AAGGAAAGAAATCGGAAGAGAAA
46106824 AAGGAAAGGAAATC
1 AAGGAAA-GAAATC
46106838 TCAGAAGGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 11 0.34
24 17 0.53
25 4 0.12
ACGTcount: A:0.57, C:0.05, G:0.33, T:0.05
Consensus pattern (23 bp):
AAGGAAAGAAATCGGAAGAGAAA
Found at i:46117650 original size:15 final size:16
Alignment explanation
Indices: 46117610--46117651 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
46117600 TAGAATAAGC
*
46117610 CAAACCCAAAACAAGT
1 CAAACCCAAAACAACT
46117626 CAAACCCAAAACAACT
1 CAAACCCAAAACAACT
*
46117642 -AAACTCAAAA
1 CAAACCCAAAA
46117652 TGGCCCATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 9 0.38
16 15 0.62
ACGTcount: A:0.60, C:0.31, G:0.02, T:0.07
Consensus pattern (16 bp):
CAAACCCAAAACAACT
Found at i:46125143 original size:26 final size:25
Alignment explanation
Indices: 46125113--46125168 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
46125103 ATAAACAAAC
*
46125113 ATTTT-CTTCTTTTACAAAATTTAATT
1 ATTTTACTTCTTTT-CAAAAGTTAA-T
* *
46125139 ATTTTATTTCTTTTCATAAGTTAAT
1 ATTTTACTTCTTTTCAAAAGTTAAT
46125164 ATTTT
1 ATTTT
46125169 TATTTTTGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 6 0.23
26 13 0.50
27 7 0.27
ACGTcount: A:0.29, C:0.09, G:0.02, T:0.61
Consensus pattern (25 bp):
ATTTTACTTCTTTTCAAAAGTTAAT
Found at i:46125451 original size:21 final size:20
Alignment explanation
Indices: 46125427--46125488 Score: 54
Period size: 21 Copynumber: 3.0 Consensus size: 20
46125417 CGAGTTACGA
46125427 GTTTGAGATTCAGGGTTCGAG
1 GTTT-AGATTCAGGGTTCGAG
* * *
46125448 GTTTA-AGTTTAGGGTTCTAT
1 GTTTAGA-TTCAGGGTTCGAG
*
46125468 ATTTAGAGTTCAGGGTTCGAG
1 GTTTAGA-TTCAGGGTTCGAG
46125489 ATTATCAAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
19 1 0.03
20 15 0.47
21 16 0.50
ACGTcount: A:0.21, C:0.08, G:0.32, T:0.39
Consensus pattern (20 bp):
GTTTAGATTCAGGGTTCGAG
Found at i:46125461 original size:20 final size:21
Alignment explanation
Indices: 46125435--46125491 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
46125425 GAGTTTGAGA
*
46125435 TTCAGGGTTCGAGGTTTA-AG
1 TTCAGGGTTCGAGATTTAGAG
* * *
46125455 TTTAGGGTTCTATATTTAGAG
1 TTCAGGGTTCGAGATTTAGAG
46125476 TTCAGGGTTCGAGATT
1 TTCAGGGTTCGAGATT
46125492 ATCAAAACCA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
20 14 0.48
21 15 0.52
ACGTcount: A:0.21, C:0.09, G:0.30, T:0.40
Consensus pattern (21 bp):
TTCAGGGTTCGAGATTTAGAG
Found at i:46125602 original size:45 final size:44
Alignment explanation
Indices: 46125549--46125647 Score: 128
Period size: 44 Copynumber: 2.2 Consensus size: 44
46125539 TTTGGTTCGC
*
46125549 TGTAATGGAATAGAGGCGTAATAGCAAATCAAT-TGTTTGGTTGAA
1 TGTAATGGAATAGAAGCGTAATAG-AAATC-ATGTGTTTGGTTGAA
* * *
46125594 TGTAATGGAATAGAAGCGTAATAGTATTCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAAGCGTAATAGAAATCATGTGTTTGGTTGAA
*
46125638 TGGAATGGAA
1 TGTAATGGAA
46125648 GTGTAATAGC
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
43 1 0.02
44 24 0.50
45 23 0.48
ACGTcount: A:0.33, C:0.05, G:0.28, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAAGCGTAATAGAAATCATGTGTTTGGTTGAA
Found at i:46125831 original size:14 final size:15
Alignment explanation
Indices: 46125792--46125833 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
46125782 TTTTAACATA
*
46125792 ATTATTATTAAATAT
1 ATTATAATTAAATAT
46125807 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
46125821 A-TATAATTTAATA
1 ATTATAATTAAATA
46125834 AAATTCCTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:46129146 original size:16 final size:16
Alignment explanation
Indices: 46129125--46129182 Score: 89
Period size: 16 Copynumber: 3.6 Consensus size: 16
46129115 TTCGCTGTAT
*
46129125 TGGAATAAAGGCGTAA
1 TGGAATAGAGGCGTAA
46129141 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
* *
46129157 TGAAATAGAGGTGTAA
1 TGGAATAGAGGCGTAA
46129173 TGGAATAGAG
1 TGGAATAGAG
46129183 TTGTAATAGC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.41, C:0.03, G:0.34, T:0.21
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:46129187 original size:16 final size:16
Alignment explanation
Indices: 46129120--46129189 Score: 86
Period size: 16 Copynumber: 4.4 Consensus size: 16
46129110 TTTGGTTCGC
* *
46129120 TGTATTGGAATAAAGG
1 TGTAATGGAATAGAGG
*
46129136 CGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
* *
46129152 CGTAATGAAATAGAGG
1 TGTAATGGAATAGAGG
*
46129168 TGTAATGGAATAGAGT
1 TGTAATGGAATAGAGG
46129184 TGTAAT
1 TGTAAT
46129190 AGCAAATCAA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.39, C:0.03, G:0.31, T:0.27
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:46129568 original size:66 final size:64
Alignment explanation
Indices: 46129493--46129866 Score: 242
Period size: 66 Copynumber: 6.1 Consensus size: 64
46129483 GAATTTACTC
46129493 AAATCATAATATATGATACTATAAAATATAAATTAACATAATTATTATTAAATATATTATAATTA
1 AAATCATAATATATGATACTATAAAATATAAATTAACATAATTATTATTAAATATATT-TAATTA
* * * * * *
46129558 AAAT-AT-ATA-AT-TTA--ATAAAAT-T--CTTAATAATCAA-TATTCTTATATGA-ATTT-AC
1 AAATCATAATATATGATACTATAAAATATAAATTAA-CAT-AATTATTATTAAAT-ATATTTAAT
*
46129611 TC
63 TA
** *
46129613 AAATCATAATATATGATACTATAAAATATAAATTAACATAATTATTATTCTTATATGAATTTACT
1 AAATCATAATATATGATACTATAAAATATAAATTAACATAATTATTATT-AAATAT--ATTTAAT
46129678 T-
63 TA
* * *
46129679 AAATCATAATATATGATACTATAAAAGATAATTTAACATAATTATTATTAAACATATTTTAATTA
1 AAATCATAATATATGATACTATAAAATATAAATTAACATAATTATTATTAAATATA-TTTAATTA
* * * * * * *
46129744 AAAT-AT-ATA-AT-TTA--ATAAAATTCTTAA-TAA-TTAA-TATTCTTATATGA-ATTT-ACT
1 AAATCATAATATATGATACTATAAAA-TATAAATTAACATAATTATTATTAAAT-ATATTTAATT
*
46129798 C
64 A
* * *
46129799 AAATCATAATATATGATACTATAAAAGATAATTTGAA-ATAATTA-AATTAAATATATTTTAATT
1 AAATCATAATATATGATACTATAAAATATAAATT-AACATAATTATTATTAAATATA-TTTAATT
46129862 A
64 A
46129863 AAAT
1 AAAT
46129867 ATATGATTTA
Statistics
Matches: 233, Mismatches: 42, Indels: 69
0.68 0.12 0.20
Matches are distributed among these distances:
55 12 0.05
56 12 0.05
57 29 0.12
58 12 0.05
59 20 0.09
60 4 0.02
61 19 0.08
62 18 0.08
63 21 0.09
64 23 0.10
65 11 0.05
66 51 0.22
67 1 0.00
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (64 bp):
AAATCATAATATATGATACTATAAAATATAAATTAACATAATTATTATTAAATATATTTAATTA
Found at i:46129572 original size:14 final size:15
Alignment explanation
Indices: 46129523--46129574 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
46129513 ATAAAATATA
46129523 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
46129538 TATTAAATATATTAT
1 AATTAAATATATTAT
46129553 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
46129566 AATTTAATA
1 AATTAAATA
46129575 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:46129628 original size:120 final size:121
Alignment explanation
Indices: 46129406--46129661 Score: 487
Period size: 120 Copynumber: 2.1 Consensus size: 121
46129396 ATCATATTTA
* *
46129406 AACATAATTATTACTAAATATATTATAATTAAAATATATAATTTAATAAATTTCCTTAATAATCA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCCTTAATAATCA
46129471 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
46129527 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT-CTTAATAATCA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCCTTAATAATCA
46129591 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
46129647 AACATAATTATTATT
1 AACATAATTATTATT
46129662 CTTATATGAA
Statistics
Matches: 133, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
120 82 0.62
121 51 0.38
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (121 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCCTTAATAATCA
ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:46129653 original size:32 final size:32
Alignment explanation
Indices: 46129617--46129720 Score: 95
Period size: 32 Copynumber: 3.2 Consensus size: 32
46129607 TTACTCAAAT
46129617 CATAATATATGATACTATAAAATATAAATTAA
1 CATAATATATGATACTATAAAATATAAATTAA
* * * * *
46129649 CATAAT-TATTATTCTTATATGAAT-TTACTTAAA
1 CATAATATATGATAC-TATA-AAATATAAATT-AA
* *
46129682 TCATAATATATGATACTATAAAAGATAATTTAA
1 -CATAATATATGATACTATAAAATATAAATTAA
46129715 CATAAT
1 CATAAT
46129721 TATTATTAAA
Statistics
Matches: 55, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
31 6 0.11
32 20 0.36
33 9 0.16
34 14 0.25
35 6 0.11
ACGTcount: A:0.49, C:0.08, G:0.04, T:0.39
Consensus pattern (32 bp):
CATAATATATGATACTATAAAATATAAATTAA
Found at i:46129774 original size:120 final size:119
Alignment explanation
Indices: 46129650--46129884 Score: 400
Period size: 120 Copynumber: 2.0 Consensus size: 119
46129640 ATAAATTAAC
* *
46129650 ATAATTATTATTCTTATATGAATTTACTTAAATCATAATATATGATACTATAAAAGATAATTT-A
1 ATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTGA
*
46129714 ACATAATTATTATTAAACATATTTTAATTAAAATATATAATTTAATAAAATTCTTA
66 A-ATAATTA-AATTAAACATATTTTAATTAAAATATATAATTTAATAAAATTCTTA
46129770 ATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTGA
1 ATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTGA
* *
46129835 AATAATTAAATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
66 AATAATTAAATTAAACATATTTTAATTAAAATATATAATTTAATAAAATT
46129885 TAAAATAATT
Statistics
Matches: 109, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
119 39 0.36
120 68 0.62
121 2 0.02
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (119 bp):
ATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTGA
AATAATTAAATTAAACATATTTTAATTAAAATATATAATTTAATAAAATTCTTA
Found at i:46129786 original size:186 final size:186
Alignment explanation
Indices: 46129463--46129842 Score: 654
Period size: 186 Copynumber: 2.0 Consensus size: 186
46129453 AAATTTCCTT
* * *
46129463 AATAATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATTA
1 AATAATTATTATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTA
*
46129528 ACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAAT
66 ACATAATTATTATTAAACATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAAT
*
46129593 ATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT-A
131 ATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTGA
* *
46129648 ACATAATTATTATTCTTATATGAATTTACTTAAATCATAATATATGATACTATAAAAGATAATTT
1 A-ATAATTATTATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATT
* *
46129713 AACATAATTATTATTAAACATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
65 AACATAATTATTATTAAACATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
46129778 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTGA
130 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTGA
46129835 AATAATTA
1 AATAATTA
46129843 AATTAAATAT
Statistics
Matches: 183, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
185 1 0.01
186 180 0.98
187 2 0.01
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.41
Consensus pattern (186 bp):
AATAATTATTATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTA
ACATAATTATTATTAAACATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAAT
ATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTGA
Found at i:46129866 original size:16 final size:17
Alignment explanation
Indices: 46129843--46129883 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
46129833 GAAATAATTA
46129843 AATT-AAATATAT-TTT
1 AATTAAAATATATATTT
46129858 AATTAAAATATATGATTT
1 AATTAAAATATAT-ATTT
46129876 AA-TAAAAT
1 AATTAAAAT
46129884 TTAAAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.17
16 8 0.35
17 6 0.26
18 5 0.22
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
AATTAAAATATATATTT
Found at i:46132215 original size:12 final size:12
Alignment explanation
Indices: 46132198--46132224 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
46132188 AGCGACGAAA
46132198 CAATTGCTCAAC
1 CAATTGCTCAAC
46132210 CAATTGCTCAAC
1 CAATTGCTCAAC
46132222 CAA
1 CAA
46132225 AATTAGCAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.33, G:0.07, T:0.22
Consensus pattern (12 bp):
CAATTGCTCAAC
Found at i:46133394 original size:16 final size:16
Alignment explanation
Indices: 46133357--46133405 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
46133347 ATAACTTAAA
*
46133357 TTCAACACTTAA-TTT
1 TTCAATACTTAACTTT
* * *
46133372 TTTAATATTTATCTTT
1 TTCAATACTTAACTTT
46133388 TTCAATACTTAACTTT
1 TTCAATACTTAACTTT
46133404 TT
1 TT
46133406 GGATTTATTA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
15 8 0.31
16 18 0.69
ACGTcount: A:0.29, C:0.14, G:0.00, T:0.57
Consensus pattern (16 bp):
TTCAATACTTAACTTT
Found at i:46153085 original size:25 final size:25
Alignment explanation
Indices: 46153051--46153111 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
46153041 ACAAATGTGC
* *
46153051 TAATCTGAGAGCATTAACGTACCAA
1 TAATCAGAGAGCACTAACGTACCAA
* * * *
46153076 TAATCAGAGAGCACTGATGTGCTAA
1 TAATCAGAGAGCACTAACGTACCAA
46153101 TAATCAGAGAG
1 TAATCAGAGAG
46153112 GGCACTAGGG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.23
Consensus pattern (25 bp):
TAATCAGAGAGCACTAACGTACCAA
Found at i:46154184 original size:5 final size:5
Alignment explanation
Indices: 46154172--46154234 Score: 119
Period size: 5 Copynumber: 12.8 Consensus size: 5
46154162 AAAAGTTAAG
46154172 TATA- TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
46154221 TATAT TATAT TATA
1 TATAT TATAT TATA
46154235 AAAGAAATAA
Statistics
Matches: 58, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
4 4 0.07
5 54 0.93
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:46155235 original size:22 final size:22
Alignment explanation
Indices: 46155209--46155323 Score: 88
Period size: 22 Copynumber: 5.1 Consensus size: 22
46155199 CTCTTTGATA
* *
46155209 TTTAGCATGTCGGTGCTCTCTG
1 TTTAGCATATCAGTGCTCTCTG
* * *
46155231 TTTAGGACATCTGTGCTCTCTG
1 TTTAGCATATCAGTGCTCTCTG
* *
46155253 ATATTTAGCATGTCAATGCTCTCTG
1 ---TTTAGCATATCAGTGCTCTCTG
* * *
46155278 TTTAGCACATCTGTGCTCTCTA
1 TTTAGCATATCAGTGCTCTCTG
*
46155300 TATAGCACT-TCAGTGCTCTCTG
1 TTTAGCA-TATCAGTGCTCTCTG
46155322 TT
1 TT
46155324 CATTAGTGCA
Statistics
Matches: 70, Mismatches: 19, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
22 53 0.76
25 17 0.24
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.41
Consensus pattern (22 bp):
TTTAGCATATCAGTGCTCTCTG
Found at i:46155273 original size:47 final size:47
Alignment explanation
Indices: 46155198--46155323 Score: 179
Period size: 47 Copynumber: 2.7 Consensus size: 47
46155188 ACTCTAGCGC
* * *
46155198 GCTCTTTGATATTTAGCATGTCGGTGCTCTCTGTTTAGGACATCTGT
1 GCTCTCTGATATTTAGCATGTCAGTGCTCTCTGTTTAGCACATCTGT
*
46155245 GCTCTCTGATATTTAGCATGTCAATGCTCTCTGTTTAGCACATCTGT
1 GCTCTCTGATATTTAGCATGTCAGTGCTCTCTGTTTAGCACATCTGT
46155292 GCTCTCT-ATA--TAGCACT-TCAGTGCTCTCTGTT
1 GCTCTCTGATATTTAGCA-TGTCAGTGCTCTCTGTT
46155324 CATTAGTGCA
Statistics
Matches: 73, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
44 19 0.26
45 1 0.01
46 3 0.04
47 50 0.68
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.41
Consensus pattern (47 bp):
GCTCTCTGATATTTAGCATGTCAGTGCTCTCTGTTTAGCACATCTGT
Found at i:46159100 original size:18 final size:18
Alignment explanation
Indices: 46159063--46159101 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
46159053 ATTGTTTCTC
* *
46159063 AAAAAAACTTTTGGATAA
1 AAAAAAACTTTTGAACAA
46159081 AAAAAAACTTTTGAACAA
1 AAAAAAACTTTTGAACAA
46159099 AAA
1 AAA
46159102 CTAAAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (18 bp):
AAAAAAACTTTTGAACAA
Found at i:46159225 original size:17 final size:18
Alignment explanation
Indices: 46159194--46159241 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
46159184 TAAAATCATC
*
46159194 TTATTT-AATAATA-TTT
1 TTATTTCAAAAATATTTT
46159210 TTATTTCAAAAATATTTT
1 TTATTTCAAAAATATTTT
*
46159228 TTATCTCAAAAATA
1 TTATTTCAAAAATA
46159242 CATTTTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.21
17 6 0.21
18 16 0.57
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (18 bp):
TTATTTCAAAAATATTTT
Found at i:46159247 original size:18 final size:18
Alignment explanation
Indices: 46159208--46159248 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
46159198 TTAATAATAT
* **
46159208 TTTTATTTCAAAAATATT
1 TTTTATCTCAAAAATACA
46159226 TTTTATCTCAAAAATACA
1 TTTTATCTCAAAAATACA
46159244 TTTTA
1 TTTTA
46159249 AAAAGAATGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTTATCTCAAAAATACA
Found at i:46163477 original size:27 final size:27
Alignment explanation
Indices: 46163436--46163491 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
46163426 GCAGCAGTGG
*
46163436 CGCCCCTCGCGCTCCCTCCGCATGTGA
1 CGCCCCTCGCGCTCCCTCCGCACGTGA
* *
46163463 CGCCCCTTGCTCTCCCTCCGCACGTGA
1 CGCCCCTCGCGCTCCCTCCGCACGTGA
46163490 CG
1 CG
46163492 AGCCCTCGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.07, C:0.52, G:0.21, T:0.20
Consensus pattern (27 bp):
CGCCCCTCGCGCTCCCTCCGCACGTGA
Found at i:46163986 original size:11 final size:12
Alignment explanation
Indices: 46163965--46163997 Score: 59
Period size: 11 Copynumber: 2.8 Consensus size: 12
46163955 TTCTAGGTTT
46163965 TTTTTTGTTTTC
1 TTTTTTGTTTTC
46163977 TTTTTT-TTTTC
1 TTTTTTGTTTTC
46163988 TTTTTTGTTT
1 TTTTTTGTTT
46163998 AGAGTAATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.00, C:0.06, G:0.06, T:0.88
Consensus pattern (12 bp):
TTTTTTGTTTTC
Found at i:46165118 original size:458 final size:458
Alignment explanation
Indices: 46164227--46165143 Score: 1678
Period size: 458 Copynumber: 2.0 Consensus size: 458
46164217 TGGCCTCGTA
*
46164227 TTCTGTTTTCATTTCAGTTTGGCCCAGCTTGCAACGCCGCGTTTTGGAGGGTGAGGAATATTCCC
1 TTCTGTTTTCATTTCAGTTTGGCCCAGCATGCAACGCCGCGTTTTGGAGGGTGAGGAATATTCCC
46164292 CTTTCGGTCCCCCATGTCATTCACGCTTTGCAATTTGGACCCGTTCTTTTATTTGTTTTAGATTT
66 CTTTCGGTCCCCCATGTCATTCACGCTTTGCAATTTGGACCCGTTCTTTTATTTGTTTTAGATTT
* *
46164357 CTCCCTTGAATTACTGCTTTAATGCCAATTTTGTCCTCTGTTTTGTTATTATTGCTAAAATTGTT
131 CTCCCCTGAATTACTGCTTTAATGCCAATTTTGTCCTCTGTTTTGTTATTATTGCTAAAATCGTT
46164422 TAATTTATCATCTTTACTATTGTTATTATTGGTATTATTATCATATTAGTATACATATTTACTTA
196 TAATTTATCATCTTTACTATTGTTATTATTGGTATTATTATCATATTAGTATACATATTTACTTA
46164487 TTTTCATATATATATATGCATATACATTACTTTATTTCATTACATATTGTTATTTTAATTCTTTT
261 TTTTCATATATATATATGCATATACATTACTTTATTTCATTACATATTGTTATTTTAATTCTTTT
* *
46164552 TCTATTCTAATATATTAGTATATATTTTATGTTAATTATTATTTATATATTTTTATAATACATTT
326 TCTATTCTAATATATTAGTATATATTTTATGTTAATTATTAATTATATATTTGTATAATACATTT
*
46164617 TTCTTAAAACGTTTATTCATATATACTTTTTTGCTTAAAAAAAAATCAATAATACCTTTATATAA
391 TTCTTAAAACGTTTATTCATATATACTTTTGTGCTTAAAAAAAAATCAATAATACCTTTATATAA
46164682 TAC
456 TAC
*
46164685 TTCTGTTTTCATTTCAGTTTGGCCCAGCATGCAACGCCGCGTTTTGGAGGGTG-GAGAATATTCT
1 TTCTGTTTTCATTTCAGTTTGGCCCAGCATGCAACGCCGCGTTTTGGAGGGTGAG-GAATATTCC
* *
46164749 CCTTTCGGTCCCCCATGTCATTCGCGCTTTGTAATTTGGACCCGTTCTTTTATTTGTTTTAGATT
65 CCTTTCGGTCCCCCATGTCATTCACGCTTTGCAATTTGGACCCGTTCTTTTATTTGTTTTAGATT
46164814 TCTCCCCTGAATTACTGCTTTAATGCCAATTTTGTCCTCTGTTTTGTTATTATTGCTAAAATCGT
130 TCTCCCCTGAATTACTGCTTTAATGCCAATTTTGTCCTCTGTTTTGTTATTATTGCTAAAATCGT
*
46164879 TTAATTTATTATCTTTACTATTGTTATTATTGGTATTATTATCATATTAGTATACATATTTACTT
195 TTAATTTATCATCTTTACTATTGTTATTATTGGTATTATTATCATATTAGTATACATATTTACTT
*
46164944 ATTTTCATATATATATATATGCATGTACATTACTTTA-TTCATTACATATTGTTATTTTAATTCT
260 ATTTTC--ATATATATATATGCATATACATTACTTTATTTCATTACATATTGTTATTTTAATTCT
46165008 TTTTCTATTCTAATATATTAGTATATATTTTATGTTAATTATTAATTATATATTTGTATAATACA
323 TTTTCTATTCTAATATATTAGTATATATTTTATGTTAATTATTAATTATATATTTGTATAATACA
*
46165073 TTTTTCTTAAAATGTTTATTCATATATACTTTTGTGCTT-AAAAAAAATCAATAATACCTTTATA
388 TTTTTCTTAAAACGTTTATTCATATATACTTTTGTGCTTAAAAAAAAATCAATAATACCTTTATA
46165137 TAATAC
453 TAATAC
46165143 T
1 T
46165144 ATTTTATATA
Statistics
Matches: 444, Mismatches: 12, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
457 1 0.00
458 288 0.65
459 127 0.29
460 28 0.06
ACGTcount: A:0.26, C:0.15, G:0.10, T:0.49
Consensus pattern (458 bp):
TTCTGTTTTCATTTCAGTTTGGCCCAGCATGCAACGCCGCGTTTTGGAGGGTGAGGAATATTCCC
CTTTCGGTCCCCCATGTCATTCACGCTTTGCAATTTGGACCCGTTCTTTTATTTGTTTTAGATTT
CTCCCCTGAATTACTGCTTTAATGCCAATTTTGTCCTCTGTTTTGTTATTATTGCTAAAATCGTT
TAATTTATCATCTTTACTATTGTTATTATTGGTATTATTATCATATTAGTATACATATTTACTTA
TTTTCATATATATATATGCATATACATTACTTTATTTCATTACATATTGTTATTTTAATTCTTTT
TCTATTCTAATATATTAGTATATATTTTATGTTAATTATTAATTATATATTTGTATAATACATTT
TTCTTAAAACGTTTATTCATATATACTTTTGTGCTTAAAAAAAAATCAATAATACCTTTATATAA
TAC
Found at i:46167708 original size:12 final size:12
Alignment explanation
Indices: 46167693--46167717 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46167683 TTAATTTTTT
46167693 TATAATTTTAAA
1 TATAATTTTAAA
46167705 TATAATTTTAAA
1 TATAATTTTAAA
46167717 T
1 T
46167718 TTTTATGAAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TATAATTTTAAA
Found at i:46171270 original size:12 final size:10
Alignment explanation
Indices: 46171237--46171286 Score: 66
Period size: 10 Copynumber: 4.8 Consensus size: 10
46171227 TTCAAATTTT
46171237 AAATATTAAA
1 AAATATTAAA
46171247 AAATATTAAA
1 AAATATTAAA
46171257 AAATATTAATAA
1 AAATATT-A-AA
46171269 AAATATTAATA
1 AAATATTAA-A
46171280 AAA-ATTA
1 AAATATTA
46171287 TTTCTTGAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
10 22 0.59
11 6 0.16
12 9 0.24
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
AAATATTAAA
Found at i:46171271 original size:13 final size:13
Alignment explanation
Indices: 46171253--46171288 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
46171243 TAAAAAATAT
46171253 TAAAAAATATTAA
1 TAAAAAATATTAA
46171266 T-AAAAATATTAA
1 TAAAAAATATTAA
*
46171278 TAAAAATTATT
1 TAAAAAATATT
46171289 TCTTGAATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 12 0.57
13 9 0.43
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
TAAAAAATATTAA
Found at i:46171273 original size:22 final size:22
Alignment explanation
Indices: 46171237--46171286 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
46171227 TTCAAATTTT
46171237 AAATATT-AAAAAATATTAA-A
1 AAATATTAAAAAAATATTAATA
46171257 AAATATTAATAAAAATATTAATA
1 AAATATTAA-AAAAATATTAATA
46171280 AAA-ATTA
1 AAATATTA
46171287 TTTCTTGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 7 0.26
21 1 0.04
22 15 0.56
23 4 0.15
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (22 bp):
AAATATTAAAAAAATATTAATA
Found at i:46171422 original size:7 final size:7
Alignment explanation
Indices: 46171410--46171442 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
46171400 AATAGTTATA
46171410 AAAAATT
1 AAAAATT
46171417 AAAAATT
1 AAAAATT
46171424 AAAAATT
1 AAAAATT
46171431 AAAAATT
1 AAAAATT
46171438 AAAAA
1 AAAAA
46171443 GTTCAAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAAATT
Found at i:46172994 original size:3 final size:3
Alignment explanation
Indices: 46172986--46173050 Score: 62
Period size: 3 Copynumber: 21.3 Consensus size: 3
46172976 GTGTTATCAT
* *
46172986 TTA TTA TTA TTA TTA TT- TCTA TTA TTA TTA TTA TGTA -TA TTA CTG
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA T-TA TTA TTA TTA
*
46173031 TTA CTTA TCA TTA TTA TTA T
1 TTA -TTA TTA TTA TTA TTA T
46173051 GTGATAGCTT
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
2 3 0.06
3 42 0.82
4 6 0.12
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:46173115 original size:16 final size:17
Alignment explanation
Indices: 46173088--46173123 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
46173078 TTTTCTAACC
46173088 TATTTAATATATATAAA
1 TATTTAATATATATAAA
46173105 TATTT-ATATATATAAA
1 TATTTAATATATATAAA
46173121 TAT
1 TAT
46173124 CTATGTGCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TATTTAATATATATAAA
Found at i:46175143 original size:19 final size:19
Alignment explanation
Indices: 46175119--46175165 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
46175109 ACGTCTCTTT
*
46175119 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTGCAT-CA
46175138 TTTGCATTACATTGCATCA
1 TTTGCATTACATTGCATCA
*
46175157 TATGCATTA
1 TTTGCATTA
46175166 GATTTTCCCG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.26, C:0.19, G:0.11, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTGCATCA
Found at i:46176491 original size:9 final size:9
Alignment explanation
Indices: 46176451--46176494 Score: 51
Period size: 8 Copynumber: 5.3 Consensus size: 9
46176441 TCAGACTAAA
46176451 AAAAAAATC
1 AAAAAAATC
46176460 --AAAAAT-
1 AAAAAAATC
*
46176466 TAAAAAAT-
1 AAAAAAATC
46176474 AAAAAAATC
1 AAAAAAATC
46176483 AAAAAAATC
1 AAAAAAATC
46176492 AAA
1 AAA
46176495 GTCAAAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
7 6 0.19
8 13 0.42
9 12 0.39
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.14
Consensus pattern (9 bp):
AAAAAAATC
Found at i:46176525 original size:12 final size:11
Alignment explanation
Indices: 46176510--46176550 Score: 52
Period size: 10 Copynumber: 3.9 Consensus size: 11
46176500 AAATATGAGA
46176510 AAAAAAGAGAAG
1 AAAAAAGA-AAG
46176522 -AAAAA-AAAG
1 AAAAAAGAAAG
46176531 AAAAAAGAAA-
1 AAAAAAGAAAG
46176541 AAAAAAGAAA
1 AAAAAAGAAA
46176551 AATGAGAGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 3 0.11
10 16 0.59
11 8 0.30
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAG
Found at i:46176533 original size:9 final size:9
Alignment explanation
Indices: 46176519--46176552 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
46176509 AAAAAAAGAG
46176519 AAGAAAAAA
1 AAGAAAAAA
46176528 AAGAAAAAA
1 AAGAAAAAA
*
46176537 GA-AAAAAA
1 AAGAAAAAA
46176545 AAGAAAAA
1 AAGAAAAA
46176553 TGAGAGGTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:46178667 original size:45 final size:45
Alignment explanation
Indices: 46178586--46178679 Score: 109
Period size: 45 Copynumber: 2.1 Consensus size: 45
46178576 CAGATCAATG
* * *
46178586 AAGACATCAAATCTTGCTTTCCTGTACTGACTGTGAAGCAGATCA
1 AAGACAACAAATCTTGCCTTCCTGTACTGACAGTGAAGCAGATCA
* * * *
46178631 AAGACAACAGATCTTGCCTTCCTG-CCTTGACAGTGAAGCATATCG
1 AAGACAACAAATCTTGCCTTCCTGTAC-TGACAGTGAAGCAGATCA
46178676 AAGA
1 AAGA
46178680 TACAAGCTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
44 1 0.02
45 40 0.98
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (45 bp):
AAGACAACAAATCTTGCCTTCCTGTACTGACAGTGAAGCAGATCA
Found at i:46178973 original size:44 final size:44
Alignment explanation
Indices: 46178856--46179339 Score: 276
Period size: 44 Copynumber: 11.0 Consensus size: 44
46178846 TCGTGTCAGG
* ** * *
46178856 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAG-AATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTA-GT-A-A
* *
46178902 TCTTATCTCCCTGAGATTATAGCGGAGCAGATTGAAGCTAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAA
* * * * * *
46178946 TCCTATCTCCCTGATATTACAGTGGAGC-GAATTAAAACCAAG-GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAG-ATT-GAAGCTAGTAA
* * * * * *
46178990 TCTTATCTCTCTGA-AGTTACAGTAGAGTAGATTGCATC-AG--G
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGCTAGTAA
* * * ** * *
46179031 TCTTATTTCCCTGAGATTATAGTGGAACAGACCGAAG-AATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTA-GT-A-A
* *
46179077 TCTTATCGCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAA
* * * * * * *
46179121 TCCTATCTCCCTGATATTACAGTGGAGCGGATTAAAACCA-AAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTA-A
**
46179165 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGCTAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAA
* * * ** * * * *
46179209 TCCTATCTCCTTGATATTACAGTGGAGTGGATTAAAACCAAG-GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATT-GAAGCTAGTAA
* ** * * * *
46179253 TCTTATCTCTCTGA-AGTTACAGTATAGTAGATCGTA-CTAG--G
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGCTAGTAA
*
46179294 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGCTAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAA
46179338 TC
1 TC
46179340 CTGTGACACC
Statistics
Matches: 331, Mismatches: 86, Indels: 44
0.72 0.19 0.10
Matches are distributed among these distances:
41 55 0.17
42 11 0.03
43 7 0.02
44 177 0.53
45 15 0.05
46 64 0.19
47 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.29
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAA
Found at i:46179103 original size:175 final size:175
Alignment explanation
Indices: 46178810--46179197 Score: 643
Period size: 175 Copynumber: 2.2 Consensus size: 175
46178800 TGATTGAAGA
* **
46178810 AAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGTGTCAGGTCTTATCTCCCTGAGATTA
1 AAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGATTA
* *
46178875 CAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTATAGCGGAGCAGATTGAAGC
66 CAGTGGAACAGACCGAAGAATTTCAGATCTTATCGCCCTGAGATTACAGCGGAGCAGATTGAAGC
46178940 TAGTAATCCTATCTCCCTGATATTACAGTGGAGCGAATTAAAACC
131 TAGTAATCCTATCTCCCTGATATTACAGTGGAGCGAATTAAAACC
* *
46178985 AAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATTGCATCAGGTCTTATTTCCCTGAGATTA
1 AAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGATTA
*
46179050 TAGTGGAACAGACCGAAGAATTTCAGATCTTATCGCCCTGAGATTACAGCGGAGCAGATTGAAGC
66 CAGTGGAACAGACCGAAGAATTTCAGATCTTATCGCCCTGAGATTACAGCGGAGCAGATTGAAGC
*
46179115 TAGTAATCCTATCTCCCTGATATTACAGTGGAGCGGATTAAAACC
131 TAGTAATCCTATCTCCCTGATATTACAGTGGAGCGAATTAAAACC
* * * *
46179160 AAAGATCTTATCTCCCTG-AGATTACAGTGGAGCAGATC
1 AAGGATCTTATCTCTCTGAAG-TTACAGTAGAGTAGATC
46179198 AAAGCTAGTA
Statistics
Matches: 198, Mismatches: 14, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
174 2 0.01
175 196 0.99
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.28
Consensus pattern (175 bp):
AAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGATTA
CAGTGGAACAGACCGAAGAATTTCAGATCTTATCGCCCTGAGATTACAGCGGAGCAGATTGAAGC
TAGTAATCCTATCTCCCTGATATTACAGTGGAGCGAATTAAAACC
Found at i:46179275 original size:88 final size:88
Alignment explanation
Indices: 46178900--46179275 Score: 415
Period size: 88 Copynumber: 4.3 Consensus size: 88
46178890 AAGAATTTCA
* *
46178900 GATCTTATCTCCCTGAGATTATAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGATATTA
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGATATTA
*
46178965 CAGTGGAGCGAATTAAAACCAAG
66 CAGTGGAGCGGATTAAAACCAAG
* * * * * * * * *
46178988 GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATTGCATC-AG--GTCTTATTTCCCTGAGATT
1 GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGATATT
* * * ** *
46179049 ATAGTGGAACAGACCGAAGAATTTC-A-
65 ACAGTGGAGCGGA-TTAA-AA--CCAAG
* *
46179075 GATCTTATCGCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGATATTA
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGATATTA
*
46179140 CAGTGGAGCGGATTAAAACCAAA
66 CAGTGGAGCGGATTAAAACCAAG
** *
46179163 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGCTAGTAATCCTATCTCCTTGATATTA
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGATATTA
*
46179228 CAGTGGAGTGGATTAAAACCAAG
66 CAGTGGAGCGGATTAAAACCAAG
*
46179251 GATCTTATCTCTCTGA-AGTTACAGT
1 GATCTTATCTCCCTGAGA-TTACAGT
46179276 ATAGTAGATC
Statistics
Matches: 233, Mismatches: 43, Indels: 24
0.78 0.14 0.08
Matches are distributed among these distances:
85 24 0.10
86 3 0.01
87 38 0.16
88 140 0.60
89 3 0.01
90 25 0.11
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (88 bp):
GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGATATTA
CAGTGGAGCGGATTAAAACCAAG
Found at i:46179285 original size:88 final size:88
Alignment explanation
Indices: 46178900--46179321 Score: 396
Period size: 88 Copynumber: 4.8 Consensus size: 88
46178890 AAGAATTTCA
* ** *
46178900 GATCTTATCTCCCTGAGATTATAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGATATTA
1 GATCTTATCTCCCTGAGATTACAGTAGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGATATTA
*
46178965 CAGTGGAGCGAATTAAAACCAAG
66 CAGTGGAGCGGATTAAAACCAAG
* * * * * * * * *
46178988 GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATTGCATC-AG--GTCTTATTTCCCTGAGATT
1 GATCTTATCTCCCTGAGA-TTACAGTAGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGATATT
* * * ** *
46179049 ATAGTGGAACAGACCGAAGAATTTC-A-
65 ACAGTGGAGCGGA-TTAA-AA--CCAAG
* ** *
46179075 GATCTTATCGCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGATATTA
1 GATCTTATCTCCCTGAGATTACAGTAGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGATATTA
*
46179140 CAGTGGAGCGGATTAAAACCAAA
66 CAGTGGAGCGGATTAAAACCAAG
* * *
46179163 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGCTAGTAATCCTATCTCCTTGATATTA
1 GATCTTATCTCCCTGAGATTACAGTAGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGATATTA
*
46179228 CAGTGGAGTGGATTAAAACCAAG
66 CAGTGGAGCGGATTAAAACCAAG
* * * * * * *
46179251 GATCTTATCTCTCTGA-AGTTACAGTATAGTAGATCGTA-CTAG--GTCTTATCTCCCTGAGATT
1 GATCTTATCTCCCTGAGA-TTACAGTAGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGATATT
46179312 ACAGTGGAGC
65 ACAGTGGAGC
46179322 AGATCGAAGC
Statistics
Matches: 269, Mismatches: 53, Indels: 27
0.77 0.15 0.08
Matches are distributed among these distances:
85 48 0.18
86 3 0.01
87 42 0.16
88 148 0.55
89 3 0.01
90 25 0.09
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (88 bp):
GATCTTATCTCCCTGAGATTACAGTAGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGATATTA
CAGTGGAGCGGATTAAAACCAAG
Found at i:46181873 original size:47 final size:47
Alignment explanation
Indices: 46181801--46182215 Score: 636
Period size: 47 Copynumber: 8.7 Consensus size: 47
46181791 ATGATAGTAT
46181801 ATGTGAT--ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
* *
46181848 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
46181895 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
* *
46181944 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
46181991 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
46182040 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
46182087 ATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
46182134 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
46182181 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
46182216 TCCCGAAGGG
Statistics
Matches: 340, Mismatches: 22, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
47 239 0.70
49 101 0.30
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:46181924 original size:96 final size:96
Alignment explanation
Indices: 46181801--46182215 Score: 707
Period size: 96 Copynumber: 4.4 Consensus size: 96
46181791 ATGATAGTAT
46181801 ATGTGAT--ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
46181864 AGTGTATATATGTGATAAGGCCGAATGGCCA
66 AGTGTATATATGTGATAAGGCCGAATGGCCA
46181895 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
46181960 AGTGTATATATGTGATAAGGCCGAATGGCCA
66 AGTGTATATATGTGATAAGGCCGAATGGCCA
46181991 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
46182056 AGTGTATATATGTGATAAGGCCTAATAGCCG
66 AGTGTATATATGTGATAAGGCCGAATGGCCA
*
46182087 ATGTGATGAATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
46182150 AGTGTATATATGTGACAGGGCCGAGTGGCCA
66 AGTGTATATATGTGATAAGGCCGAATGGCCA
* *
46182181 ACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
46182216 TCCCGAAGGG
Statistics
Matches: 304, Mismatches: 13, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
94 101 0.33
95 1 0.00
96 202 0.66
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (96 bp):
ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
AGTGTATATATGTGATAAGGCCGAATGGCCA
Found at i:46181971 original size:143 final size:143
Alignment explanation
Indices: 46181801--46182215 Score: 653
Period size: 143 Copynumber: 2.9 Consensus size: 143
46181791 ATGATAGTAT
46181801 ATGTGAT--ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
46181864 AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGAT
64 AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGAT
*
46181929 AAGGCCTAATGGCCG
129 AAGGCCTAATAGCCG
* *
46181944 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* *
46182009 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGAT
66 TG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGAT
46182072 AAGGCCTAATAGCCG
129 AAGGCCTAATAGCCG
*
46182087 ATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* * * * *
46182152 TGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAA
66 TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAA
46182215 G
131 G
46182216 TCCCGAAGGG
Statistics
Matches: 251, Mismatches: 15, Indels: 14
0.90 0.05 0.05
Matches are distributed among these distances:
141 50 0.20
142 1 0.00
143 144 0.57
145 56 0.22
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (143 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAA
GGCCTAATAGCCG
Found at i:46183838 original size:44 final size:44
Alignment explanation
Indices: 46183775--46184408 Score: 338
Period size: 44 Copynumber: 14.6 Consensus size: 44
46183765 TTACAAATCC
* *
46183775 TATCTCCCTGATATTACAGTGGAGCGGATTAAAACCAAAGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATTAAAACCAAAGATCT
** * * * *
46183819 TATCTCCCTGAGATTACAGTGGAGCAGATCGAAGCTAGTA-ATCC
1 TATCTCCCTGAGATTACAGTGGAGCAGATTAAAACCA-AAGATCT
* * *
46183863 TATCTCCCTGATATTACAGTGGAGCGGATTAAAACCAATGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATTAAAACCAAAGATCT
* * * *** **
46183907 TATCTCTCTGA-AGTTACAGTAGAGTAGA-TCGTACC--AGGCCT
1 TATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAACCAAAGATCT
* * * * * *
46183948 TATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTA-ATCC
1 TATCTCCCTGAGATTACAGTGGAGCAGATTAAAACCA-AAGATCT
* * *
46183992 TATCTCCCTGATATTACAGTGGAGCGGATTAAAACCAATGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATTAAAACCAAAGATCT
* * * * *** *
46184036 TATCTCTCTGA-AGTTATAGTAGAGTAGA-TCGCACC--AGGTCT
1 TATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAACCAAAGATCT
* * * ****
46184077 TATTTCCCTGAGATTACAGTGGAACAGACTGAAAAATTTCAGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGA-T-TAAAACCAAAGATCT
* * * * *
46184123 TATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTA-ATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATTAAAACCA-AAGATCT
* *
46184167 TATCTCCCTGATATTACAGTGGAGCGGATTAAAACC-AAGAATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATTAAAACCAAAG-ATCT
* * * ***
46184211 TATCTCTCTGA-AGTTACAGTAGAGTAGA-TCGTACC--AGATCT
1 TATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAACCAAAGATCT
* ** * * * *
46184252 TATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTA-ATCC
1 TATCTCCCTGAGATTACAGTGGAGCAGATTAAAACCA-AAGATCT
* ** *
46184296 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAAGATTT
1 TATCTCCCTGAGATTACAGTGGAGCAGATTAAAACCAAAGATCT
* * * *** * *
46184340 TATCTCTCTGA-AGTTACAGTAGAGTAGA-TCGCATC--AGGTCT
1 TATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAACCAAAGATCT
*
46184381 TATCTCCCTGAGATTACAGTGGAACAGA
1 TATCTCCCTGAGATTACAGTGGAGCAGA
46184409 CCGAGGGATT
Statistics
Matches: 433, Mismatches: 129, Indels: 59
0.70 0.21 0.10
Matches are distributed among these distances:
41 101 0.23
42 10 0.02
43 20 0.05
44 267 0.62
45 5 0.01
46 30 0.07
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (44 bp):
TATCTCCCTGAGATTACAGTGGAGCAGATTAAAACCAAAGATCT
Found at i:46184047 original size:129 final size:129
Alignment explanation
Indices: 46183817--46184109 Score: 514
Period size: 129 Copynumber: 2.3 Consensus size: 129
46183807 AACCAAAGAT
*
46183817 CTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGATATTACAG
1 CTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGATATTACAG
*
46183882 TGGAGCGGATTAAAACCAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTACCAGGC
66 TGGAGCGGATTAAAACCAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAGGC
*
46183946 CTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGATATTACAG
1 CTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGATATTACAG
* *
46184011 TGGAGCGGATTAAAACCAATGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGCACCAGGT
66 TGGAGCGGATTAAAACCAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAGGC
* * *
46184075 CTTATTTCCCTGAGATTACAGTGGAACAGACTGAA
1 CTTATCTCCCTGAGATTACAGTGGAGCAGATTGAA
46184110 AAATTTCAGA
Statistics
Matches: 155, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
129 155 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (129 bp):
CTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGATATTACAG
TGGAGCGGATTAAAACCAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAGGC
Found at i:46184144 original size:175 final size:175
Alignment explanation
Indices: 46183946--46184279 Score: 589
Period size: 175 Copynumber: 1.9 Consensus size: 175
46183936 CGTACCAGGC
46183946 CTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGATATTACAG
1 CTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGATATTACAG
* *
46184011 TGGAGCGGATTAAAACCAATG-ATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGCACCAGGT
66 TGGAGCGGATTAAAACCAA-GAATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAGAT
* *
46184075 CTTATTTCCCTGAGATTACAGTGGAACAGACTGAAAAATTTCAGAT
130 CTTATCTCCCTGAGATTACAGCGGAACAGACTGAAAAATTTCAGAT
*
46184121 CTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCTTATCTCCCTGATATTACAG
1 CTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGATATTACAG
*
46184186 TGGAGCGGATTAAAACCAAGAATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTACCAGATC
66 TGGAGCGGATTAAAACCAAGAATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAGATC
*
46184251 TTATCTCCCTGAGATTACAGCGGAGCAGA
131 TTATCTCCCTGAGATTACAGCGGAACAGA
46184280 TCGAAGCTAG
Statistics
Matches: 151, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
174 1 0.01
175 150 0.99
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (175 bp):
CTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGATATTACAG
TGGAGCGGATTAAAACCAAGAATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAGATC
TTATCTCCCTGAGATTACAGCGGAACAGACTGAAAAATTTCAGAT
Found at i:46184266 original size:129 final size:129
Alignment explanation
Indices: 46184116--46184408 Score: 471
Period size: 129 Copynumber: 2.3 Consensus size: 129
46184106 TGAAAAATTT
* * *
46184116 CAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCTTATCTCCCTGATAT
1 CAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGAGAT
* *
46184181 TACAGTGGAGCGGATTAAAAC-CAAGAATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTAC
66 TACAGTGGAGCGGATTAAAACAAAAG-ATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAC
46184245 CAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGAGAT
1 CAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGAGAT
* * *
46184310 TACAGTGGAGCGGATTAAAATAAAAGATTTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
66 TACAGTGGAGCGGATTAAAACAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAC
* * *
46184374 CAGGTCTTATCTCCCTGAGATTACAGTGGAACAGA
1 CAGATCTTATCTCCCTGAGATTACAGCGGAGCAGA
46184409 CCGAGGGATT
Statistics
Matches: 152, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
129 149 0.98
130 3 0.02
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (129 bp):
CAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGAGAT
TACAGTGGAGCGGATTAAAACAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAC
Found at i:46184268 original size:85 final size:84
Alignment explanation
Indices: 46183992--46184276 Score: 304
Period size: 85 Copynumber: 3.3 Consensus size: 84
46183982 CTAGTAATCC
* *
46183992 TATCTCCCTGATATTACAGTGGAGCGGATTAAAACCAATGATCTTATCTCTCTGAAGTTATAGTA
1 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAACCAA-GATCTTATCTCTCTGAAGTTACAGTA
* *
46184057 GAGTAGATCGCACCAGGTCT
65 GAGTAGATCGAACCAGATCT
* * * * * *
46184077 TATTTCCCTGAGATTACAGTGGAACAGACTGAAAAATTTC-AGATCTTATCTCCCTG-AGATTAC
1 TATCTCCCTGAGATTACAGTGGAGCGGA-T-TAAAA--CCAAGATCTTATCTCTCTGAAG-TTAC
** * * *
46184140 AGCGGAGCAGATTGAAGCTAGTAATCT
61 AGTAGAGTAGATCGAA-CCAG--ATCT
*
46184167 TATCTCCCTGATATTACAGTGGAGCGGATTAAAACCAAGAATCTTATCTCTCTGAAGTTACAGTA
1 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAACCAAG-ATCTTATCTCTCTGAAGTTACAGTA
*
46184232 GAGTAGATCGTACCAGATCT
65 GAGTAGATCGAACCAGATCT
*
46184252 TATCTCCCTGAGATTACAGCGGAGC
1 TATCTCCCTGAGATTACAGTGGAGC
46184277 AGATCGAAGC
Statistics
Matches: 159, Mismatches: 30, Indels: 22
0.75 0.14 0.10
Matches are distributed among these distances:
85 51 0.32
86 4 0.03
87 37 0.23
88 36 0.23
89 4 0.03
90 27 0.17
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (84 bp):
TATCTCCCTGAGATTACAGTGGAGCGGATTAAAACCAAGATCTTATCTCTCTGAAGTTACAGTAG
AGTAGATCGAACCAGATCT
Found at i:46184453 original size:304 final size:304
Alignment explanation
Indices: 46183813--46184454 Score: 1063
Period size: 304 Copynumber: 2.1 Consensus size: 304
46183803 TTAAAACCAA
46183813 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGATATT
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGATATT
46183878 ACAGTGGAGCGGATTAAAACCAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTACCA
66 ACAGTGGAGCGGATTAAAACCAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTACCA
* * *
46183943 GGCCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGATATTA
131 GACCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGAGATTA
* * *
46184008 CAGTGGAGCGGATTAAAACCAATGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGCACCAG
196 CAGTGGAGCGGATTAAAACAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAG
* *
46184073 GTCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAAAATTTC
261 GTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTC
* * *
46184117 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCTTATCTCCCTGATATT
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGATATT
46184182 ACAGTGGAGCGGATTAAAACCAA-GAATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTACC
66 ACAGTGGAGCGGATTAAAACCAATG-ATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTACC
*
46184246 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGAGATT
130 AGACCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGAGATT
* * *
46184311 ACAGTGGAGCGGATTAAAATAAAAGATTTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
195 ACAGTGGAGCGGATTAAAACAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCA
***
46184376 GGTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAGGGATTTC
260 GGTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTC
* * *
46184421 AGATTTTATCTCCCTAACG-TTGCAGTGGAGCAGA
1 AGATCTTATCTCCCTGA-GATTACAGTGGAGCAGA
46184455 CTAAAACCAC
Statistics
Matches: 314, Mismatches: 22, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
303 1 0.00
304 312 0.99
305 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.28
Consensus pattern (304 bp):
AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGATATT
ACAGTGGAGCGGATTAAAACCAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTACCA
GACCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGAGATTA
CAGTGGAGCGGATTAAAACAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAG
GTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTC
Found at i:46185868 original size:3 final size:3
Alignment explanation
Indices: 46185853--46185920 Score: 59
Period size: 3 Copynumber: 22.3 Consensus size: 3
46185843 GTATTATCAT
*
46185853 TTA TTA ATA TTA TTA TTA TTA TT- TCTA TTA TTA TTA TGTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA T-TA TTA TTA
* * *
46185898 CTG TTA CTTA TCA TTA TTA TTA T
1 TTA TTA -TTA TTA TTA TTA TTA T
46185921 GTGATAGCTT
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
2 3 0.06
3 43 0.83
4 6 0.12
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:46185985 original size:16 final size:17
Alignment explanation
Indices: 46185958--46185993 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
46185948 TTTTCTAACC
46185958 TATTTAATATATATAAA
1 TATTTAATATATATAAA
46185975 TATTT-ATATATATAAA
1 TATTTAATATATATAAA
46185991 TAT
1 TAT
46185994 CTATGTGCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TATTTAATATATATAAA
Found at i:46186073 original size:20 final size:20
Alignment explanation
Indices: 46186015--46186075 Score: 63
Period size: 22 Copynumber: 3.0 Consensus size: 20
46186005 GTTTTACGAG
*
46186015 TATATGTATATA-TA-TTTA
1 TATATATATATATTATTTTA
*
46186033 TATATATATATAGTTTCTTTTA
1 TATATATATATA--TTATTTTA
*
46186055 TATTTATATATATTATTTTA
1 TATATATATATATTATTTTA
46186075 T
1 T
46186076 TTCATTTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
18 11 0.31
20 8 0.23
21 1 0.03
22 15 0.43
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (20 bp):
TATATATATATATTATTTTA
Found at i:46186084 original size:24 final size:25
Alignment explanation
Indices: 46186028--46186085 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
46186018 ATGTATATAT
* *
46186028 ATTTATATATATATATAGTTTCTTTT
1 ATTT-TATATATATATAGTTTATTTC
*
46186054 ATATTTATATATAT-TATTTTATTTC
1 AT-TTTATATATATATAGTTTATTTC
46186079 ATTTTAT
1 ATTTTAT
46186086 TTTTTATATC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 5 0.18
25 10 0.36
26 11 0.39
27 2 0.07
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (25 bp):
ATTTTATATATATATAGTTTATTTC
Found at i:46189816 original size:5 final size:5
Alignment explanation
Indices: 46189802--46189838 Score: 56
Period size: 5 Copynumber: 7.2 Consensus size: 5
46189792 CATAAAAGTG
*
46189802 AAATA GAATA AAATA AAATA AAATA AAATA AATATA A
1 AAATA AAATA AAATA AAATA AAATA AAATA AA-ATA A
46189839 CTAGTCTTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 25 0.86
6 4 0.14
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.22
Consensus pattern (5 bp):
AAATA
Found at i:46192868 original size:12 final size:12
Alignment explanation
Indices: 46192851--46192880 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
46192841 GGGGAAAGTA
46192851 AAAAAAAACAAG
1 AAAAAAAACAAG
*
46192863 AAAAAAAAGAAG
1 AAAAAAAACAAG
46192875 AAAAAA
1 AAAAAA
46192881 GATGAACAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.87, C:0.03, G:0.10, T:0.00
Consensus pattern (12 bp):
AAAAAAAACAAG
Found at i:46213519 original size:5 final size:5
Alignment explanation
Indices: 46213509--46213546 Score: 67
Period size: 5 Copynumber: 7.4 Consensus size: 5
46213499 AAAACTCATA
46213509 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAATAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT AA
46213547 CTAGTCTTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 28 0.88
6 4 0.12
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:46214330 original size:18 final size:17
Alignment explanation
Indices: 46214299--46214343 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 17
46214289 TATAATAGTA
*
46214299 ATTAATAGAATATTATT
1 ATTAATAAAATATTATT
*
46214316 ACTTATTAAAATATTATT
1 A-TTAATAAAATATTATT
46214334 ATTAATAAAA
1 ATTAATAAAA
46214344 ATATCATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (17 bp):
ATTAATAAAATATTATT
Found at i:46219745 original size:17 final size:18
Alignment explanation
Indices: 46219704--46219746 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
46219694 CTTCTCACCT
46219704 TTTTTTCTATTTACTTTA
1 TTTTTTCTATTTACTTTA
**
46219722 -TACTTCTATTTA-TTTA
1 TTTTTTCTATTTACTTTA
46219738 TTTTTTCTA
1 TTTTTTCTA
46219747 ATTCACCGAA
Statistics
Matches: 20, Mismatches: 4, Indels: 3
0.74 0.15 0.11
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.19, C:0.12, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTTTTCTATTTACTTTA
Found at i:46221779 original size:28 final size:28
Alignment explanation
Indices: 46221739--46221795 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
46221729 TTGCATGACC
*
46221739 TTAGAGAGAGCTGTTTAAGCTTTGTCAT
1 TTAGAGAGAGCTGTTTAAGCTTTATCAT
46221767 TTAGAGAGAGCTGTTTAAGCTTTATCAT
1 TTAGAGAGAGCTGTTTAAGCTTTATCAT
46221795 T
1 T
46221796 GATTGAGGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (28 bp):
TTAGAGAGAGCTGTTTAAGCTTTATCAT
Found at i:46223436 original size:22 final size:22
Alignment explanation
Indices: 46223411--46223464 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
46223401 AAATCATCAA
46223411 ATATAAAAATGTGT-AATGATGT
1 ATATAAAAATGTGTGAAT-ATGT
* * *
46223433 ATATATATATGTGTGTATATGT
1 ATATAAAAATGTGTGAATATGT
46223455 ATATAAAAAT
1 ATATAAAAAT
46223465 ATGAAATGTC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 24 0.92
23 2 0.08
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (22 bp):
ATATAAAAATGTGTGAATATGT
Found at i:46223684 original size:3 final size:3
Alignment explanation
Indices: 46223676--46223724 Score: 50
Period size: 3 Copynumber: 16.7 Consensus size: 3
46223666 TGTACATAGC
*
46223676 AAT AAT AAT AAT AAT AA- AACT AATT AAT -TT AAT AAT AAT AAT AA-
1 AAT AAT AAT AAT AAT AAT AA-T AA-T AAT AAT AAT AAT AAT AAT AAT
46223720 AAT AA
1 AAT AA
46223725 CGGGACTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
2 5 0.13
3 29 0.74
4 5 0.13
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:46225321 original size:128 final size:127
Alignment explanation
Indices: 46225168--46225501 Score: 492
Period size: 127 Copynumber: 2.6 Consensus size: 127
46225158 ATTGATATTT
* * * *
46225168 ATCCACTCCACTGCAACTTCGGGGAGATAGGATTTATTTCTT-TCGTCTGCTCCACTACTGCTTA
1 ATCCACTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCT-GTCTACTCCACTACTGCCTA
* * * *
46225232 GGGAGGTAAGACTTGATGCAATCTGC-TCTACTGCAACTTCAGAGAGATAAGATTTGTGGTTTTA
65 GGGAGATAAGACTTGATGCAATCTGCTTC-ACTACAACTT-AGAGAGATAAGATCTATGGTTTTA
46225296 ATCCACTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTACTCCACTACTGCCTAG
1 ATCCACTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTACTCCACTACTGCCTAG
* ** * *
46225361 GGAGATAAGACTGGATGTGATCTGCTTCACTACTACTTAGGGAGATAAGATCTATGGTTTTA
66 GGAGATAAGACTTGATGCAATCTGCTTCACTACAACTTAGAGAGATAAGATCTATGGTTTTA
* *
46225423 ATCCACTCCACTGTAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTACTCCATTACTGCCTAG
1 ATCCACTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTACTCCACTACTGCCTAG
46225488 GGAGATAAGACTTG
66 GGAGATAAGACTTG
46225502 TAATTTCCAA
Statistics
Matches: 188, Mismatches: 16, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
127 97 0.52
128 88 0.47
129 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (127 bp):
ATCCACTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTACTCCACTACTGCCTAG
GGAGATAAGACTTGATGCAATCTGCTTCACTACAACTTAGAGAGATAAGATCTATGGTTTTA
Found at i:46225348 original size:44 final size:43
Alignment explanation
Indices: 46225300--46225497 Score: 113
Period size: 44 Copynumber: 4.6 Consensus size: 43
46225290 GTTTTAATCC
* *
46225300 ACTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCT
1 ACTCCACTACAACTT-AGGGAGATAAGATTGATTTCTTCTGTCT
** * * * **
46225344 ACTCCACTACTGCCTAGGGAGATAAGACTGGATGTGATCTG-CT
1 ACTCCACTACAACTTAGGGAGATAAGA-TTGATTTCTTCTGTCT
* ** *
46225387 --T-CACTACTACTTAGGGAGATAAGATCT-ATGGTT-TT-AATCC
1 ACTCCACTACAACTTAGGGAGATAAGAT-TGAT--TTCTTCTGTCT
** *
46225427 ACTCCACTGTAACTTCAGGGAGATAGGATTGATTTCTTCTGTCT
1 ACTCCACTACAACTT-AGGGAGATAAGATTGATTTCTTCTGTCT
* ** *
46225471 ACTCCATTACTGCCTAGGGAGATAAGA
1 ACTCCACTACAACTTAGGGAGATAAGA
46225498 CTTGTAATTT
Statistics
Matches: 111, Mismatches: 31, Indels: 25
0.66 0.19 0.15
Matches are distributed among these distances:
39 3 0.03
40 23 0.21
41 2 0.02
42 3 0.03
43 35 0.32
44 45 0.41
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (43 bp):
ACTCCACTACAACTTAGGGAGATAAGATTGATTTCTTCTGTCT
Found at i:46225669 original size:44 final size:43
Alignment explanation
Indices: 46225621--46225757 Score: 102
Period size: 44 Copynumber: 3.1 Consensus size: 43
46225611 GTACTTAGGA
46225621 AGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCAATGG
1 AGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACC-ATGG
* * ** * * * * **
46225665 AGGCAATGCTTTG--AT-TTCGATCTGCTTCGCTGTTAACGCA-GG
1 AGGCAA-GATCTGCTATCTTTAACCAGCTCCACT-ACAAC-CATGG
46225707 AAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGG
1 -AGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACC-ATGG
46225752 AGGCAA
1 AGGCAA
46225758 TGCTTTGTTT
Statistics
Matches: 64, Mismatches: 20, Indels: 18
0.63 0.20 0.18
Matches are distributed among these distances:
42 16 0.25
43 13 0.20
44 19 0.30
45 16 0.25
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.25
Consensus pattern (43 bp):
AGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCATGG
Found at i:46225739 original size:87 final size:87
Alignment explanation
Indices: 46225617--46226381 Score: 1197
Period size: 87 Copynumber: 8.8 Consensus size: 87
46225607 GCTAGTACTT
* * * *
46225617 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCAATGGAGGCAATGCTTTGATTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
46225682 CGATCTGCTTCGCTGTTAACGC
66 CGATCTGCTTCGCTGTTAACGC
* *
46225704 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAATGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
* *
46225769 CGATCTGCTTCGCTGTTAATGG
66 CGATCTGCTTCGCTGTTAACGC
*
46225791 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGTAACCGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
*
46225856 CGATCTGCTTCGCTGTTAATGC
66 CGATCTGCTTCGCTGTTAACGC
* *
46225878 AGGGAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGACTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
*
46225943 CGATCTGCTTCGCTGTTAACAC
66 CGATCTGCTTCGCTGTTAACGC
*
46225965 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATCGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
* **
46226030 TGATCTGCTTCGCTGTTAATAC
66 CGATCTGCTTCGCTGTTAACGC
* *
46226052 AGGGAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGTAACCGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
* *
46226117 CGATCTGCTTCGCTGTTAATGT
66 CGATCTGCTTCGCTGTTAACGC
* *
46226139 AGGGAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
*
46226204 CGATCTACTTCGCTGTTAACGC
66 CGATCTGCTTCGCTGTTAACGC
* * * * * *
46226226 AGGAAGGCAAAATTTGCTATCTTTAATCAGCTCCACTGCAACCAATGGAGGTAAGGTTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
*
46226291 CGATCTGCTTCACTGTTAACGC
66 CGATCTGCTTCGCTGTTAACGC
* * * * * *
46226313 AGGGAGACAAGATCTGCTATATTTAACCAGCTCCACTACAACCGATGGAGGCAAGACTTTATTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
46226378 CGAT
66 CGAT
46226382 TTTCACTGAT
Statistics
Matches: 627, Mismatches: 51, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 627 1.00
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.29
Consensus pattern (87 bp):
AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
CGATCTGCTTCGCTGTTAACGC
Found at i:46225886 original size:43 final size:43
Alignment explanation
Indices: 46225750--46225888 Score: 104
Period size: 43 Copynumber: 3.2 Consensus size: 43
46225740 TACAACCGAT
* *
46225750 GGAGGCAATGCTTTGTTTTCGATCTGCTTCGCTGTTAATGGAG
1 GGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAG
* * * ** * * * * * *
46225793 GAAGGCAA-GATCTGCTATCTTTAACCAGCTCCACTG-TAA-CCGAT
1 GGAGGCAAGGCTTTG-T-T-TTCGATCTGCTTCGCTGTTAATGC-AG
46225837 GGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAG
1 GGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAG
46225880 GGAGGCAAG
1 GGAGGCAAG
46225889 ATCTGCTATC
Statistics
Matches: 66, Mismatches: 23, Indels: 14
0.64 0.22 0.14
Matches are distributed among these distances:
42 15 0.23
43 22 0.33
44 14 0.21
45 15 0.23
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (43 bp):
GGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAG
Found at i:46226061 original size:43 final size:43
Alignment explanation
Indices: 46226012--46226149 Score: 111
Period size: 43 Copynumber: 3.2 Consensus size: 43
46226002 GCAACCGATC
46226012 GAGGCAAGGCTTTGTTTTTGATCTGCTTCGCTGTTAATACAGG
1 GAGGCAAGGCTTTGTTTTTGATCTGCTTCGCTGTTAATACAGG
* * * * * * * * *
46226055 GAGGCAA-GATCTGCTATCTTTAACCAGCTCCACTG-TAA-CCGATG
1 GAGGCAAGGCTTTG-T-T-TTTGATCTGCTTCGCTGTTAATAC-AGG
* **
46226099 GAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGTAGG
1 GAGGCAAGGCTTTGTTTTTGATCTGCTTCGCTGTTAATACAGG
46226142 GAGGCAAG
1 GAGGCAAG
46226150 ATCTGCTATC
Statistics
Matches: 68, Mismatches: 20, Indels: 14
0.67 0.20 0.14
Matches are distributed among these distances:
42 15 0.22
43 23 0.34
44 14 0.21
45 16 0.24
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.31
Consensus pattern (43 bp):
GAGGCAAGGCTTTGTTTTTGATCTGCTTCGCTGTTAATACAGG
Found at i:46231198 original size:19 final size:20
Alignment explanation
Indices: 46231169--46231220 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
46231159 CACTTTATGA
* *
46231169 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGCATG
*
46231188 CAATGTAATGCAAATGCATG
1 AAATGTAATGCAAATGCATG
46231208 AAATG-AATGCAAA
1 AAATGTAATGCAAA
46231221 AAGAGACGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 21 0.75
20 7 0.25
ACGTcount: A:0.46, C:0.12, G:0.17, T:0.25
Consensus pattern (20 bp):
AAATGTAATGCAAATGCATG
Found at i:46233020 original size:4 final size:4
Alignment explanation
Indices: 46233011--46233037 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
46233001 ATTGAAAATG
46233011 TAAA TAAA TAAA TAAA TAAA TAAA TAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAA
46233038 TGAATAGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:46233451 original size:3 final size:3
Alignment explanation
Indices: 46233443--46233509 Score: 86
Period size: 3 Copynumber: 22.7 Consensus size: 3
46233433 TGCACATAGC
46233443 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AACT AATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AA-T
*
46233489 AAT -TT AAT AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA
46233510 CGGGAATAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
2 5 0.09
3 47 0.82
4 5 0.09
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:46236054 original size:13 final size:14
Alignment explanation
Indices: 46236030--46236062 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
46236020 ATATAGATAT
46236030 TAGAATAGGATAAA
1 TAGAATAGGATAAA
46236044 TAGAATA-GATAAA
1 TAGAATAGGATAAA
46236057 TAGAAT
1 TAGAAT
46236063 CTTATTCCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.58, C:0.00, G:0.18, T:0.24
Consensus pattern (14 bp):
TAGAATAGGATAAA
Found at i:46238492 original size:14 final size:14
Alignment explanation
Indices: 46238473--46238501 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
46238463 ATAAGAAGAA
46238473 AGCTCAACGAGAGG
1 AGCTCAACGAGAGG
46238487 AGCTCAACGAGAGG
1 AGCTCAACGAGAGG
46238501 A
1 A
46238502 AATACATACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.21, G:0.34, T:0.07
Consensus pattern (14 bp):
AGCTCAACGAGAGG
Found at i:46240166 original size:33 final size:33
Alignment explanation
Indices: 46240129--46240194 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
46240119 TTAAAATTAC
46240129 TGTGGAAAAGTGTTGTTCAAAATTTAAGTGTTT
1 TGTGGAAAAGTGTTGTTCAAAATTTAAGTGTTT
*
46240162 TGTGGAAAAGTGTTGTTTAAAATTTAAGTGTTT
1 TGTGGAAAAGTGTTGTTCAAAATTTAAGTGTTT
46240195 AGTATTGCTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.30, C:0.02, G:0.24, T:0.44
Consensus pattern (33 bp):
TGTGGAAAAGTGTTGTTCAAAATTTAAGTGTTT
Found at i:46240190 original size:18 final size:18
Alignment explanation
Indices: 46240136--46240193 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
46240126 TACTGTGGAA
*
46240136 AAGTGTTGTTCAAAATTT
1 AAGTGTTGTTTAAAATTT
**
46240154 AAGTGTT-TTGTGGAA---
1 AAGTGTTGTT-TAAAATTT
46240169 AAGTGTTGTTTAAAATTT
1 AAGTGTTGTTTAAAATTT
46240187 AAGTGTT
1 AAGTGTT
46240194 TAGTATTGCT
Statistics
Matches: 30, Mismatches: 5, Indels: 10
0.67 0.11 0.22
Matches are distributed among these distances:
15 10 0.33
16 2 0.07
17 2 0.07
18 16 0.53
ACGTcount: A:0.31, C:0.02, G:0.22, T:0.45
Consensus pattern (18 bp):
AAGTGTTGTTTAAAATTT
Found at i:46240452 original size:20 final size:20
Alignment explanation
Indices: 46240423--46240470 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
46240413 ATTTAATTAG
* *
46240423 AATATATAAACTATATTC-TA
1 AATATTTAAA-TATAATCATA
46240443 AATATTTAAATATAATCATTA
1 AATATTTAAATATAATCA-TA
46240464 AATATTT
1 AATATTT
46240471 GTAATTAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (20 bp):
AATATTTAAATATAATCATA
Found at i:46243648 original size:72 final size:72
Alignment explanation
Indices: 46243288--46243623 Score: 466
Period size: 72 Copynumber: 4.7 Consensus size: 72
46243278 TCACCTGTGA
** * * * *
46243288 ATAAATTTTATATCC-AAAATCAAATATAAACAACTATTGATAAAGCTA-ATTTAGTA-A-AAAT
1 ATAAATTCAATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAGA-TTA-CACATAAAT
46243349 AAGTAGAAC
64 AAGTAGAAC
* *
46243358 ATAAATTCAATATCCAAAAACCAAACATAAACAATTACTGATAAAACTAGATTA-AGCATAAATA
1 ATAAATTCAATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAGATTACA-CATAAATA
*
46243422 AGTAGACC
65 AGTAGAAC
* * * *
46243430 ATAAATTCAATATTCAAAAACCAAATATAAACAACTGTTGATAACACTAGATTACACATAAATAA
1 ATAAATTCAATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAA
46243495 GTAGAAC
66 GTAGAAC
*
46243502 ATAAATTCAATATCCAAAAACCAAACATAAACAACCATTGATAAAACTAGATTACACATAAATAA
1 ATAAATTCAATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAA
46243567 GTAGAAC
66 GTAGAAC
* *
46243574 ATAAATTCAATATCCAAAAACCAAACATAATCAACAATTGATAAAACTAG
1 ATAAATTCAATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAG
46243624 TTTAGCATTG
Statistics
Matches: 238, Mismatches: 22, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
69 1 0.00
70 13 0.05
71 32 0.13
72 191 0.80
73 1 0.00
ACGTcount: A:0.54, C:0.15, G:0.06, T:0.24
Consensus pattern (72 bp):
ATAAATTCAATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAA
GTAGAAC
Found at i:46246348 original size:22 final size:22
Alignment explanation
Indices: 46246296--46246349 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
46246286 ATTGAATCAA
* *
46246296 AGAAAGGAAAATAAGCTTTTGG
1 AGAAAAGAAAATAAGCTTTTGC
* *
46246318 AGAAGAGAAAATGAGCTTTTGC
1 AGAAAAGAAAATAAGCTTTTGC
*
46246340 ATAAAAGAAA
1 AGAAAAGAAA
46246350 GCAGTCAATC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.50, C:0.06, G:0.24, T:0.20
Consensus pattern (22 bp):
AGAAAAGAAAATAAGCTTTTGC
Found at i:46249546 original size:23 final size:22
Alignment explanation
Indices: 46249518--46249614 Score: 97
Period size: 23 Copynumber: 4.2 Consensus size: 22
46249508 ACATTTATAG
*
46249518 AATACGTCACA-AACGCCAAACAG
1 AATACG-CACACAA-GCCAAACAA
46249541 AATACGCTACACAAGCCAAACAA
1 AATACGC-ACACAAGCCAAACAA
46249564 AATACGCCACACAAGCCAAACAA
1 AATACG-CACACAAGCCAAACAA
* * * *
46249587 AATATGCCTCACAAGGCAAACAG
1 AATACG-CACACAAGCCAAACAA
46249610 AATAC
1 AATAC
46249615 TCCACAAAGG
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
22 1 0.02
23 61 0.94
24 3 0.05
ACGTcount: A:0.49, C:0.30, G:0.11, T:0.09
Consensus pattern (22 bp):
AATACGCACACAAGCCAAACAA
Found at i:46249585 original size:46 final size:46
Alignment explanation
Indices: 46249518--46249622 Score: 124
Period size: 46 Copynumber: 2.3 Consensus size: 46
46249508 ACATTTATAG
* *
46249518 AATACGTCACAAACGCCAAACAGAATACG-CTACACAAGCCAAACAA
1 AATACGCCACAAACGCCAAACAAAATACGCCT-CACAAGCCAAACAA
* * *
46249564 AATACGCCACACAA-GCCAAACAAAATATGCCTCACAAGGCAAACAG
1 AATACGCCACA-AACGCCAAACAAAATACGCCTCACAAGCCAAACAA
*
46249610 AATACTCCACAAA
1 AATACGCCACAAA
46249623 GGCAATATTG
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
45 2 0.04
46 45 0.88
47 4 0.08
ACGTcount: A:0.50, C:0.30, G:0.10, T:0.10
Consensus pattern (46 bp):
AATACGCCACAAACGCCAAACAAAATACGCCTCACAAGCCAAACAA
Found at i:46251230 original size:2 final size:2
Alignment explanation
Indices: 46251223--46251284 Score: 90
Period size: 2 Copynumber: 31.5 Consensus size: 2
46251213 GGAGAAAAGA
* * *
46251223 AG AG AG AG AG AA AG -G GG GG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
46251264 AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG A
46251285 AGGGGAAAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
1 1 0.02
2 55 0.98
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
AG
Found at i:46253298 original size:19 final size:20
Alignment explanation
Indices: 46253274--46253317 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
46253264 TTTATGCTTC
*
46253274 TTCTTCTC-GTACGTTTGTT
1 TTCTTCTCTGTACGTTTCTT
*
46253293 TTCTTCTCTTTACGTTTCTT
1 TTCTTCTCTGTACGTTTCTT
46253313 TTCTT
1 TTCTT
46253318 TTCTCCATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.05, C:0.23, G:0.09, T:0.64
Consensus pattern (20 bp):
TTCTTCTCTGTACGTTTCTT
Found at i:46253374 original size:5 final size:5
Alignment explanation
Indices: 46253364--46253388 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
46253354 CTTTCCCTGT
46253364 TTTTC TTTTC TTTTC TTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC
46253389 AGTAAAATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:46257725 original size:25 final size:25
Alignment explanation
Indices: 46257683--46257732 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
46257673 ATCTGATCGA
* * *
46257683 TTTGGGTTTTGAATTTTCATACTTT
1 TTTGAGTTTTGAACTTTCAAACTTT
*
46257708 TTTGAGTTTTGAGCTTTCAAACTTT
1 TTTGAGTTTTGAACTTTCAAACTTT
46257733 ATTTAGACAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.18, C:0.10, G:0.16, T:0.56
Consensus pattern (25 bp):
TTTGAGTTTTGAACTTTCAAACTTT
Found at i:46258974 original size:19 final size:19
Alignment explanation
Indices: 46258950--46258990 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
46258940 ATTTAATCCT
*
46258950 AATTCTAATCAAATTTTAA
1 AATTCTAATAAAATTTTAA
*
46258969 AATTCTCATAAAATTTTAA
1 AATTCTAATAAAATTTTAA
46258988 AAT
1 AAT
46258991 ATAAATAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
AATTCTAATAAAATTTTAA
Found at i:46264500 original size:44 final size:44
Alignment explanation
Indices: 46264451--46265000 Score: 336
Period size: 44 Copynumber: 12.8 Consensus size: 44
46264441 ATTTTAATCC
* *
46264451 GCTCCACTGCAACTTCAGGGAGATATGATTGGTTTCTTCTGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGATTCTTCTGTCT
* * * **
46264495 ACTCCACTGCAACTTCAGGGAGATAAGACTGGATGC-GAT-T-T
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGATTCTTCTGTCT
* ** * * *
46264536 GCTCTACTGCAACTTCAAAGAGATAAGGTCTGTGGTT-TTCT-TCC
1 GCTCCACTGCAACTTCAGGGAGATAAGAT-TG-GATTCTTCTGTCT
* * *
46264580 GCTCCACTACAACTTCAGGGAGATAGGATTGGCTTCTTCTGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGATTCTTCTGTCT
* *
46264624 GCTCCACTGCAACTTCAGGGAGATAAGACTGGA---TGC-GATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGATTCTTCTG-TCT
* * * ** *
46264665 GCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTT-TT-AATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGAT-TG-GATTCTTCTGTCT
* * * * *
46264709 ACTCTACTGCAACTTCAGGTAGATAGGATT-GAGTTCTTCTGTTT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGA-TTCTTCTGTCT
* * **
46264753 GCTCCACTGCAACTTCAGGGAGATAAGACTGGATGC-GAT-T-T
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGATTCTTCTGTCT
* * * * * ** *
46264794 ACTCTACTGCAACTTCAGAGAGATAAGGTCTGTGGTT-TT-AATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGAT-TG-GATTCTTCTGTCT
* *
46264838 GCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGATTCTTCTGTCT
* * * *
46264882 GCTCCACTGCAACTTTAGGGAGATAAGACTGGATGCAATCTG-CT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGATTC-TTCTGTCT
** * ** *
46264926 -CT--ACTGCAACTTCAAAGAGATAAGATCTGTGGTT-TT-AATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGAT-TG-GATTCTTCTGTCT
* * *
46264967 GGTCTACTGCAACTTCAGGGAGATAAGACTGGAT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGAT
46265001 GCGGTTTACT
Statistics
Matches: 381, Mismatches: 95, Indels: 62
0.71 0.18 0.12
Matches are distributed among these distances:
40 1 0.00
41 103 0.27
42 21 0.06
43 29 0.08
44 220 0.58
45 7 0.02
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATTGGATTCTTCTGTCT
Found at i:46264559 original size:85 final size:85
Alignment explanation
Indices: 46264451--46264862 Score: 311
Period size: 85 Copynumber: 4.8 Consensus size: 85
46264441 ATTTTAATCC
* * *
46264451 GCTCCACTGCAACTTCAGGGAGATATGATTG-GTTTCTTCTGTCTACTCCACTGCAACTTCAGGG
1 GCTCTACTGCAACTTCAGGGAGATAAGATTGAG-TTCTTCTGTCTGCTCCACTGCAACTTCAGGG
46264515 AGATAAGACTGGATGCGATTT
65 AGATAAGACTGGATGCGATTT
** * * * *
46264536 GCTCTACTGCAACTTCAAAGAGATAAGGTCTGTGGTT-TTCT-TCCGCTCCACTACAACTTCAGG
1 GCTCTACTGCAACTTCAGGGAGATAAGAT-TG-AGTTCTTCTGTCTGCTCCACTGCAACTTCAGG
* * * * **
46264599 GAGATAGGATTGGCTTCTTCTGTCT
64 GAGATAAGACTGGATGC-GAT-T-T
* * * * * *
46264624 GCTCCACTGCAACTTCAGGGAGATAAGACTG-G--ATGC-GATCTGCTCTACTGCAACTTCAGAG
1 GCTCTACTGCAACTTCAGGGAGATAAGATTGAGTTCTTCTG-TCTGCTCCACTGCAACTTCAGGG
* *** **
46264685 AGATAAGATCTGTGGTTTTAATCC
65 AGATAAGA-C--TGGATGCGATTT
* * * *
46264709 ACTCTACTGCAACTTCAGGTAGATAGGATTGAGTTCTTCTGTTTGCTCCACTGCAACTTCAGGGA
1 GCTCTACTGCAACTTCAGGGAGATAAGATTGAGTTCTTCTGTCTGCTCCACTGCAACTTCAGGGA
46264774 GATAAGACTGGATGCGATTT
66 GATAAGACTGGATGCGATTT
* * * * ** *
46264794 ACTCTACTGCAACTTCAGAGAGATAAGGTCTGTGGTT-TT-AATCCGCTCCACTGCAACTTCAGG
1 GCTCTACTGCAACTTCAGGGAGATAAGAT-TG-AGTTCTTCTGTCTGCTCCACTGCAACTTCAGG
46264857 GAGATA
64 GAGATA
46264863 GGATTGGTTT
Statistics
Matches: 252, Mismatches: 57, Indels: 36
0.73 0.17 0.10
Matches are distributed among these distances:
84 2 0.01
85 166 0.66
86 12 0.05
87 10 0.04
88 61 0.24
89 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (85 bp):
GCTCTACTGCAACTTCAGGGAGATAAGATTGAGTTCTTCTGTCTGCTCCACTGCAACTTCAGGGA
GATAAGACTGGATGCGATTT
Found at i:46264610 original size:129 final size:129
Alignment explanation
Indices: 46264383--46264991 Score: 945
Period size: 129 Copynumber: 4.7 Consensus size: 129
46264373 TACAACTTTA
* ** **
46264383 AGGGA-ATAAGATCT-GATGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCATCATTTT
1 AGGGAGATAAGA-CTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
* *
46264446 AATCCGCTCCACTGCAACTTCAGGGAGATATGATTGGTTTCTTCTGTCTACTCCACTGCAACTTC
65 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTC
* * * *
46264511 AGGGAGATAAGACTGGATGCGATTTGCTCTACTGCAACTTCAAAGAGATAAGGTCTGTGGTTTTC
1 AGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTA
* * *
46264576 TTCCGCTCCACTACAACTTCAGGGAGATAGGATTGGCTTCTTCTGTCTGCTCCACTGCAACTTC
66 ATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTC
46264640 AGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTA
1 AGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTA
* * * *
46264705 ATCCACTCTACTGCAACTTCAGGTAGATAGGATTGAG-TTCTTCTGTTTGCTCCACTGCAACTTC
66 ATCCGCTCCACTGCAACTTCAGGGAGATAGGATTG-GTTTCTTCTGTCTGCTCCACTGCAACTTC
* * *
46264769 AGGGAGATAAGACTGGATGCGATTTACTCTACTGCAACTTCAGAGAGATAAGGTCTGTGGTTTTA
1 AGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTA
*
46264834 ATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTT
66 ATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTC
* *
46264898 AGGGAGATAAGACTGGATGCAATCTGCTCTACTGCAACTTCAAAGAGATAAGATCTGTGGTTTTA
1 AGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTA
* *
46264963 ATCCGGTCTACTGCAACTTCAGGGAGATA
66 ATCCGCTCCACTGCAACTTCAGGGAGATA
46264992 AGACTGGATG
Statistics
Matches: 438, Mismatches: 39, Indels: 7
0.90 0.08 0.01
Matches are distributed among these distances:
128 8 0.02
129 429 0.98
130 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (129 bp):
AGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTA
ATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTC
Found at i:46264845 original size:214 final size:212
Alignment explanation
Indices: 46264624--46265079 Score: 553
Period size: 214 Copynumber: 2.1 Consensus size: 212
46264614 TCTTCTGTCT
*
46264624 GCTCCACTGCAACTTCAGGGAGATAAGACTGG-ATGC-GATCTGCTCTACTGCAACTTCAGAGAG
1 GCTCCACTGCAACTTCAGGGAGATAAGACTGGTATGCTG-TCTGCTCCACTGCAACTTCAGAGAG
* ** * * *
46264687 ATAAGATCTGTGGTTTTAATCCACTCTACTGCAACTTC-AGGTAGATAGGAT-TG-AGTTCTTCT
65 ATAAGA-C--TGGATGCAATCCACTCTACTGCAACTTCAAAG-AGATAAGATCTGTAGTT-TT-A
* **
46264749 GTTTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATTTACTCTACTGCAACTTCAGAG
124 ATCCGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATTTACTCTACTGCAACTTCAGAG
*
46264814 AGATAAGGTCTGTGGTTTTAATCC
189 AGATAAGATCTGTGGTTTTAATCC
* * * * * *
46264838 GCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTTAGGGA
1 GCTCCACTGCAACTTCAGGGAGATAAGACTGG--TATGCTGTCTGCTCCACTGCAACTTCAGAGA
** *
46264903 GATAAGACTGGATGCAATCTGCTCTACTGCAACTTCAAAGAGATAAGATCTGTGGTTTTAATCCG
64 GATAAGACTGGATGCAATCCACTCTACTGCAACTTCAAAGAGATAAGATCTGTAGTTTTAATCCG
* * *
46264968 GTCTACTGCAACTTCAGGGAGATAAGACTGGATGCGGTTTACTCTACTGCAACTTCAGAGAGATA
129 CTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATTTACTCTACTGCAACTTCAGAGAGATA
46265033 AGATCTGTGGTTTTAATCC
194 AGATCTGTGGTTTTAATCC
* * * *
46265052 ACTCCACTGCAATTTGATGGAGATAAGA
1 GCTCCACTGCAACTTCAGGGAGATAAGA
46265080 TTGACTTTTG
Statistics
Matches: 207, Mismatches: 28, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
214 166 0.80
215 6 0.03
216 4 0.02
217 30 0.14
218 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.30
Consensus pattern (212 bp):
GCTCCACTGCAACTTCAGGGAGATAAGACTGGTATGCTGTCTGCTCCACTGCAACTTCAGAGAGA
TAAGACTGGATGCAATCCACTCTACTGCAACTTCAAAGAGATAAGATCTGTAGTTTTAATCCGCT
CCACTGCAACTTCAGGGAGATAAGACTGGATGCGATTTACTCTACTGCAACTTCAGAGAGATAAG
ATCTGTGGTTTTAATCC
Found at i:46264932 original size:85 final size:84
Alignment explanation
Indices: 46264580--46265036 Score: 346
Period size: 85 Copynumber: 5.3 Consensus size: 84
46264570 GTTTTCTTCC
* * * * * *
46264580 GCTCCACTACAACTTCAGGGAGATAGGATTGGCTTCTTCTGTCTGCTCCACTGCAACTTCAGGGA
1 GCTCCACTGCAACTTCAGAGAGATAAGATTGGGTTCTT-TATCTGCTCTACTGCAACTTCAGGGA
*
46264645 GATAAGACTGGATGCGATCT
65 GATAAGACTGGATGCAATCT
* * ** *
46264665 GCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTT-TTAATCCACTCTACTGCAACTTCAGGT
1 GCTCCACTGCAACTTCAGAGAGATAAGAT-TG-GGTTCTTTATCTGCTCTACTGCAACTTCAGGG
* * * * ** *
46264729 AGATAGGATTGAGTTCTTCTGTTT
64 AGATAAGACTG-G--ATGCAATCT
* * * * * * * *
46264753 GCTCCACTGCAACTTCAGGGAGATAAGACTGGATGC--GATTTACTCTACTGCAACTTCAGAGAG
1 GCTCCACTGCAACTTCAGAGAGATAAGATTGGGTTCTTTATCTGCTCTACTGCAACTTCAGGGAG
* * ** *
46264816 ATAAGGTCTGTGGTTTTAATCC
66 ATAA-GAC--TGGATGCAATCT
* * * * * *
46264838 GCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTTAGGGA
1 GCTCCACTGCAACTTCAGAGAGATAAGATTGGGTTCTT-TATCTGCTCTACTGCAACTTCAGGGA
46264903 GATAAGACTGGATGCAATCT
65 GATAAGACTGGATGCAATCT
* * * * *
46264923 GCTCTACTGCAACTTCAAAGAGATAAGATCTGTGGTT-TTAATCCGGTCTACTGCAACTTCAGGG
1 GCTCCACTGCAACTTCAGAGAGATAAGAT-TG-GGTTCTTTATCTGCTCTACTGCAACTTCAGGG
** *
46264987 AGATAAGACTGGATGCGGTTT
64 AGATAAGACTGGATGCAATCT
* *
46265008 ACTCTACTGCAACTTCAGAGAGATAAGAT
1 GCTCCACTGCAACTTCAGAGAGATAAGAT
46265037 CTGTGGTTTT
Statistics
Matches: 289, Mismatches: 69, Indels: 28
0.75 0.18 0.07
Matches are distributed among these distances:
85 210 0.73
86 12 0.04
87 11 0.04
88 56 0.19
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (84 bp):
GCTCCACTGCAACTTCAGAGAGATAAGATTGGGTTCTTTATCTGCTCTACTGCAACTTCAGGGAG
ATAAGACTGGATGCAATCT
Found at i:46265037 original size:85 final size:85
Alignment explanation
Indices: 46264629--46265079 Score: 392
Period size: 85 Copynumber: 5.3 Consensus size: 85
46264619 TGTCTGCTCC
*
46264629 ACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
1 ACTGCAACTTCAGGGAGATAAGACTGGATGCGATTTGCTCTACTGCAACTTCAGAGAGATAAGAT
46264694 CTGTGGTTTTAATCCACTCT
66 CTGTGGTTTTAATCCACTCT
* * * * * * *
46264714 ACTGCAACTTCAGGTAGATAGGATTGAGTTCTTCTG-TTTGCTCCACTGCAACTTCAGGGAGATA
1 ACTGCAACTTCAGGGAGATAAGACTG-G--ATGC-GATTTGCTCTACTGCAACTTCAGAGAGATA
* *** **
46264778 AGA-C--TGGATGCGATTTACTCT
62 AGATCTGTGGTTTTAATCCACTCT
* * * *** ** * * *
46264799 ACTGCAACTTCAGAGAGATAAGGTCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAG
1 ACTGCAACTTCAGGGAGATAA-GAC--TGGATGCGATTTGCTCTACTGCAACTTCAGAGAGATAA
* ** ** *
46264864 GAT-TG-GTTTCTTCTGTCTGCTCC
63 GATCTGTGGTT-TT-AATCCACTCT
* * * *
46264887 ACTGCAACTTTAGGGAGATAAGACTGGATGCAATCTGCTCTACTGCAACTTCAAAGAGATAAGAT
1 ACTGCAACTTCAGGGAGATAAGACTGGATGCGATTTGCTCTACTGCAACTTCAGAGAGATAAGAT
**
46264952 CTGTGGTTTTAATCCGGTCT
66 CTGTGGTTTTAATCCACTCT
* *
46264972 ACTGCAACTTCAGGGAGATAAGACTGGATGCGGTTTACTCTACTGCAACTTCAGAGAGATAAGAT
1 ACTGCAACTTCAGGGAGATAAGACTGGATGCGATTTGCTCTACTGCAACTTCAGAGAGATAAGAT
*
46265037 CTGTGGTTTTAATCCACTCC
66 CTGTGGTTTTAATCCACTCT
* * *
46265057 ACTGCAATTTGATGGAGATAAGA
1 ACTGCAACTTCAGGGAGATAAGA
46265080 TTGACTTTTG
Statistics
Matches: 288, Mismatches: 63, Indels: 30
0.76 0.17 0.08
Matches are distributed among these distances:
85 216 0.75
86 8 0.03
87 7 0.02
88 56 0.19
89 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (85 bp):
ACTGCAACTTCAGGGAGATAAGACTGGATGCGATTTGCTCTACTGCAACTTCAGAGAGATAAGAT
CTGTGGTTTTAATCCACTCT
Found at i:46265063 original size:129 final size:127
Alignment explanation
Indices: 46264322--46265035 Score: 854
Period size: 129 Copynumber: 5.6 Consensus size: 127
46264312 TGATTCATCA
** * *
46264322 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGA-T--TAAT-TG-CT--TCAACTACAACT
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTCTTCTGTCTGCTCCACTGCAAC-
* * * * * ** **
46264380 TTAAGGGA-ATAAGATCT-GATGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCATCA
65 TTCAGGGAGATAAGA-CTGGATGCAATCTACTCTACTGCAACTTCAAAGAGATAAGATCTGTGG
* *
46264442 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATATGATTGGTTTCTTCTGTCTACTCCACTGCAA
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGG--TCTTCTGTCTGCTCCACTGCAA
* * * *
46264507 CTTCAGGGAGATAAGACTGGATGCGATTTGCTCTACTGCAACTTCAAAGAGATAAGGTCTGTGG
64 CTTCAGGGAGATAAGACTGGATGCAATCTACTCTACTGCAACTTCAAAGAGATAAGATCTGTGG
** *
46264571 TTTTCTTCCGCTCCACTACAACTTCAGGGAGATAGGATTGGCTTCTTCTGTCTGCTCCACTGCAA
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGG--TCTTCTGTCTGCTCCACTGCAA
* * *
46264636 CTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGG
64 CTTCAGGGAGATAAGACTGGATGCAATCTACTCTACTGCAACTTCAAAGAGATAAGATCTGTGG
* * * *
46264700 TTTTAATCCACTCTACTGCAACTTCAGGTAGATAGGATTGAGTTCTTCTGTTTGCTCCACTGCAA
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTG-G-TCTTCTGTCTGCTCCACTGCAA
* * * *
46264765 CTTCAGGGAGATAAGACTGGATGCGATTTACTCTACTGCAACTTCAGAGAGATAAGGTCTGTGG
64 CTTCAGGGAGATAAGACTGGATGCAATCTACTCTACTGCAACTTCAAAGAGATAAGATCTGTGG
46264829 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAA
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGG--TCTTCTGTCTGCTCCACTGCAA
* *
46264894 CTTTAGGGAGATAAGACTGGATGCAATCTGCTCTACTGCAACTTCAAAGAGATAAGATCTGTGG
64 CTTCAGGGAGATAAGACTGGATGCAATCTACTCTACTGCAACTTCAAAGAGATAAGATCTGTGG
* * * * * * * * * *
46264958 TTTTAATCCGGTCTACTGCAACTTCAGGGAGATAAGACTGG-ATGCGGTTTACTCTACTGCAACT
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTCTTCTGTCTGCTCCACTGCAACT
*
46265022 TCAGAGAGATAAGA
66 TCAGGGAGATAAGA
46265036 TCTGTGGTTT
Statistics
Matches: 526, Mismatches: 55, Indels: 20
0.88 0.09 0.03
Matches are distributed among these distances:
120 36 0.07
121 1 0.00
125 2 0.00
126 31 0.06
127 2 0.00
128 10 0.02
129 443 0.84
130 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.30
Consensus pattern (127 bp):
TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTCTTCTGTCTGCTCCACTGCAACT
TCAGGGAGATAAGACTGGATGCAATCTACTCTACTGCAACTTCAAAGAGATAAGATCTGTGG
Found at i:46265063 original size:258 final size:255
Alignment explanation
Indices: 46264322--46265035 Score: 1000
Period size: 258 Copynumber: 2.8 Consensus size: 255
46264312 TGATTCATCA
** * *
46264322 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGA----TTAAT-TG-CT--TCAACTACAAC
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTCTTCTGTCTGCTCCACTGCAAC
* ** **
46264379 TTTAAGGGA-ATAAGATCT-GATGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCATCA
66 TTT-AGGGAGATAAGA-CTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGG
* * *
46264442 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATATGATTGGTTTCTTCTGTCTACTCCACTGCAA
129 TTTTAATCCGCTCTACTGCAACTTCAGGGAGATAAGATTGG--TCTTCTGTTTACTCCACTGCAA
*
46264507 CTTCAGGGAGATAAGACTGGATGCGATTTGCTCTACTGCAACTTCAAAGAGATAAGGTCTGTGG
192 CTTCAGGGAGATAAGACTGGATGCGATTTACTCTACTGCAACTTCAAAGAGATAAGGTCTGTGG
** *
46264571 TTTTCTTCCGCTCCACTACAACTTCAGGGAGATAGGATTGGCTTCTTCTGTCTGCTCCACTGCAA
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGG-TTCTTCTGTCTGCTCCACTGCAA
*
46264636 CTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGT
65 CTTTAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGT
* * * *
46264701 TTTAATCCACTCTACTGCAACTTCAGGTAGATAGGATTGAGTTCTTCTGTTTGCTCCACTGCAAC
130 TTTAATCCGCTCTACTGCAACTTCAGGGAGATAAGATTG-G-TCTTCTGTTTACTCCACTGCAAC
*
46264766 TTCAGGGAGATAAGACTGGATGCGATTTACTCTACTGCAACTTCAGAGAGATAAGGTCTGTGG
193 TTCAGGGAGATAAGACTGGATGCGATTTACTCTACTGCAACTTCAAAGAGATAAGGTCTGTGG
46264829 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAA
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGG-TTCTTCTGTCTGCTCCACTGCAA
* *
46264894 CTTTAGGGAGATAAGACTGGATGCAATCTGCTCTACTGCAACTTCAAAGAGATAAGATCTGTGGT
65 CTTTAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGT
* * * * * *
46264959 TTTAATCCGGTCTACTGCAACTTCAGGGAGATAAGACTGG-ATGCGGTTTACTCTACTGCAACTT
130 TTTAATCCGCTCTACTGCAACTTCAGGGAGATAAGATTGGTCTTCTGTTTACTCCACTGCAACTT
*
46265023 CAGAGAGATAAGA
195 CAGGGAGATAAGA
46265036 TCTGTGGTTT
Statistics
Matches: 414, Mismatches: 39, Indels: 18
0.88 0.08 0.04
Matches are distributed among these distances:
249 34 0.08
254 3 0.01
255 33 0.08
256 2 0.00
257 8 0.02
258 333 0.80
259 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.30
Consensus pattern (255 bp):
TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTCTTCTGTCTGCTCCACTGCAAC
TTTAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTT
TTAATCCGCTCTACTGCAACTTCAGGGAGATAAGATTGGTCTTCTGTTTACTCCACTGCAACTTC
AGGGAGATAAGACTGGATGCGATTTACTCTACTGCAACTTCAAAGAGATAAGGTCTGTGG
Found at i:46265189 original size:50 final size:50
Alignment explanation
Indices: 46265120--46266464 Score: 254
Period size: 50 Copynumber: 27.5 Consensus size: 50
46265110 GGGAAGCATA
* * * *
46265120 ATTCGCTGTTGTAGTTTCAATCTGTCCCATTACACCGCCAGGGAAGTAAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCACCGCCAGGGAAGTAAG
* * * ** * * *
46265170 ATTCGCCGTTGCAGCTTCAATATTTTTAATTGCAACGTC-GAGGAA-CAAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCACCGCCAG-GGAAGTAAG
* * *
46265219 ATTTGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCACCGCCAGGGAAGTAAG
** * * ** ** * * *
46265269 ATTTTCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCACCGCCAGGGAAGTAAG
* * * * * * *
46265319 ATTCACCGTCGTAGCTCCAATCTGCTCCACTGTACCGCCAGGGGAGTAAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCACCGCCAGGGAAGTAAG
* ** * * * ** * ** * * **
46265369 ATTCACCGTTGCGGCTTTAATATTTTAAATTGTAATGTCGGGGAAACAAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCACCGCCAGGGAAGTAAG
* * * * ** * *
46265419 ATTCGCCGTCGTAGCTTCAATCTGATCTACTATACTGCCAAGGAAGTAAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCACCGCCAGGGAAGTAAG
*** *** * ** ** * *
46265469 ATTCATTGTTACGGCTTCAATCTTTTAAATTGCAATGTC-GTGGAAGCAAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCACCGCCAG-GGAAGTAAG
* * * * * * * *
46265519 ATTCACCGTCGTAGCTTCAATCTGCTCCACTACACTGCTAGAGAAGTAAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCACCGCCAGGGAAGTAAG
* *** * ** ** * * *
46265569 ATTTGCCGTTACGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCACCGCCAGGGAAGTAAG
** * * * *
46265619 ATTCATCATTGTAGCTTCAATCTGCTCCACTGCACCGCCAAGGAAGTAAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCACCGCCAGGGAAGTAAG
** * * ** ** * *
46265669 ATTTACCGTTG-CGACTTCAATCTTTTTGATTGCAATGTCGGGGAA-TAAG
1 ATTCGCCGTTGTAG-CTTCAATCTGTTCCATTGCACCGCCAGGGAAGTAAG
* * * *
46265718 ATTCACTGTTGTAGCTTTAATCTGTT-C----CA----C---TAAGTAAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCACCGCCAGGGAAGTAAG
*** ** * ** ** * *
46265756 ATTCATTGTTGCGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTAAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCACCGCCAGGGAAGTAAG
* * * * * * *
46265806 ACTCACCGTCGTAGCTCCAATCTGCTCCACTGCACCGCCAGGGGAGTAAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCACCGCCAGGGAAGTAAG
** * * * ** * ** * * **
46265856 ATTCGCCGTTGCGGCTTTAATATTTTAAATTGTAATGTCGGGGAAACAAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCACCGCCAGGGAAGTAAG
* * * ** * *
46265906 ATTCGCCGTCGTAGCTTCAATCTGATCCACTATACTGCCAAGGAAGTAAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCACCGCCAGGGAAGTAAG
*** *** * ** ** *
46265956 ATTCATTGTTACGGCTTCAATCTTTTAAATTGCAATGCC-GTGG-AGCAAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCACCGCCAG-GGAAGTAAG
* * * * * *
46266005 ATTCACCGTCGTAGCTTCAATCTGCTCCACTGCACTGCCAGAGAAGTAAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCACCGCCAGGGAAGTAAG
* *** * ** * ** * * *
46266055 ATTTGCCGTTACGGCTTCAATCTTTTAAATTGTAATGTCGGGGAAGCAAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCACCGCCAGGGAAGTAAG
* * * * *
46266105 ATTCACCGTTGTAGCTTCAATCTGCTCCACTGCACTGCCAAGGAAGTAAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCACCGCCAGGGAAGTAAG
** * * * ** ** * *
46266155 ATTTACCATTG-CGACTTCAATCTTTTTTATTGCAATGTCGGGGAA-TAAG
1 ATTCGCCGTTGTAG-CTTCAATCTGTTCCATTGCACCGCCAGGGAAGTAAG
* * *
46266204 ATTCACCGTTGTAGCTTTAATCTGTT-C----CA----C---TAAGTAAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCACCGCCAGGGAAGTAAG
* ** * ** ** * * *
46266242 ATTCACCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCACCGCCAGGGAAGTAAG
* ** * *
46266292 ATTCACCGTCATAGCTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCACCGCCAGGGAAGTAAG
** ** * * * ** *** * **
46266342 ATTTTCCGTTGCGGCTTTAATATTTTAAATTGCAATACCGGGGAAACAAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCACCGCCAGGGAAGTAAG
* ** * * * *
46266392 ATTCACTATCGTAGCTTCAATCTATTCCACTGCACCGCGAGGGAAGTAAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCACCGCCAGGGAAGTAAG
* **
46266442 ATTCGTCGTTGCGGCTTCAATCT
1 ATTCGCCGTTGTAGCTTCAATCT
46266465 TTTAAATTAC
Statistics
Matches: 865, Mismatches: 392, Indels: 76
0.65 0.29 0.06
Matches are distributed among these distances:
37 4 0.00
38 51 0.06
40 2 0.00
43 4 0.00
44 4 0.00
47 2 0.00
49 118 0.14
50 679 0.78
51 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (50 bp):
ATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCACCGCCAGGGAAGTAAG
Found at i:46265368 original size:100 final size:100
Alignment explanation
Indices: 46265102--46266472 Score: 1448
Period size: 100 Copynumber: 14.0 Consensus size: 100
46265092 TAATTAACTA
* * * * * *
46265102 CAATGTCGGGGAAGCATA-ATTCGCTGTTGTAGTTTCAATCTG-TCCCATTACACCGCCAGGGAA
1 CAATGTCGGGGAAGCA-AGATTCACCGTCGTAGCTTCAATCTGCT-CCACTGCACCGCCAGGGAA
** * * *
46265165 GTAAGATTCGCCGTTGCAGCTTCAATATTTTTAATTG
64 GTAAGATTTTCCGTTGCGGCTTCAATCTTTTAAATTG
* * ** * * *
46265202 CAACGTCGAGGAA-CAAGATTTGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGT
1 CAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGCTCCACTGCACCGCCAGGGAAGT
*
46265266 AAGATTTTCCGTTGTGGCTTCAATCTTTTAAATTG
66 AAGATTTTCCGTTGCGGCTTCAATCTTTTAAATTG
* * *
46265301 CAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTCCAATCTGCTCCACTGTACCGCCAGGGGAGT
1 CAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGCTCCACTGCACCGCCAGGGAAGT
** * *
46265366 AAGATTCACCGTTGCGGCTTTAATATTTTAAATTG
66 AAGATTTTCCGTTGCGGCTTCAATCTTTTAAATTG
* * * * * ** * *
46265401 TAATGTCGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGATCTACTATACTGCCAAGGAAGT
1 CAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGCTCCACTGCACCGCCAGGGAAGT
*
46265466 AAGATTCATT--GTTACGGCTTCAATCTTTTAAATTG
66 AAGATT--TTCCGTTGCGGCTTCAATCTTTTAAATTG
* * * * *
46265501 CAATGTCGTGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGCTCCACTACACTGCTAGAGAAGT
1 CAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGCTCCACTGCACCGCCAGGGAAGT
* *
46265566 AAGATTTGCCGTTACGGCTTCAATCTTTTAAATTG
66 AAGATTTTCCGTTGCGGCTTCAATCTTTTAAATTG
* * * *
46265601 CAATGTCGGGGAAGCAAGATTCATCATTGTAGCTTCAATCTGCTCCACTGCACCGCCAAGGAAGT
1 CAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGCTCCACTGCACCGCCAGGGAAGT
* * **
46265666 AAGATTTACCGTTGCGACTTCAATCTTTTTGATTG
66 AAGATTTTCCGTTGCGGCTTCAATCTTTTAAATTG
* * * * *
46265701 CAATGTCGGGGAA-TAAGATTCACTGTTGTAGCTTTAATCTGTTCCACT------------AAGT
1 CAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGCTCCACTGCACCGCCAGGGAAGT
46265753 AAGATTCATT--GTTGCGGCTTCAATCTTTTAAATTG
66 AAGATT--TTCCGTTGCGGCTTCAATCTTTTAAATTG
* * * *
46265788 CAATGTCGGGGAAGTAAGACTCACCGTCGTAGCTCCAATCTGCTCCACTGCACCGCCAGGGGAGT
1 CAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGCTCCACTGCACCGCCAGGGAAGT
** * *
46265853 AAGATTCGCCGTTGCGGCTTTAATATTTTAAATTG
66 AAGATTTTCCGTTGCGGCTTCAATCTTTTAAATTG
* * * * ** * *
46265888 TAATGTCGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGATCCACTATACTGCCAAGGAAGT
1 CAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGCTCCACTGCACCGCCAGGGAAGT
*
46265953 AAGATTCATT--GTTACGGCTTCAATCTTTTAAATTG
66 AAGATT--TTCCGTTGCGGCTTCAATCTTTTAAATTG
* * * *
46265988 CAATGCCGTGG-AGCAAGATTCACCGTCGTAGCTTCAATCTGCTCCACTGCACTGCCAGAGAAGT
1 CAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGCTCCACTGCACCGCCAGGGAAGT
* *
46266052 AAGATTTGCCGTTACGGCTTCAATCTTTTAAATTG
66 AAGATTTTCCGTTGCGGCTTCAATCTTTTAAATTG
* * * *
46266087 TAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGCTCCACTGCACTGCCAAGGAAGT
1 CAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGCTCCACTGCACCGCCAGGGAAGT
* * * **
46266152 AAGATTTACCATTGCGACTTCAATCTTTTTTATTG
66 AAGATTTTCCGTTGCGGCTTCAATCTTTTAAATTG
* * * *
46266187 CAATGTCGGGGAA-TAAGATTCACCGTTGTAGCTTTAATCTGTTCCACT------------AAGT
1 CAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGCTCCACTGCACCGCCAGGGAAGT
**
46266239 AAGATTCACCGTTGCGGCTTCAATCTTTTAAATTG
66 AAGATTTTCCGTTGCGGCTTCAATCTTTTAAATTG
*
46266274 CAATGTCGGGGAAGCAAGATTCACCGTCATAGCTTCAATCTGCTCCACTGCACCGCCAGGGAAGT
1 CAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGCTCCACTGCACCGCCAGGGAAGT
* *
46266339 AAGATTTTCCGTTGCGGCTTTAATATTTTAAATTG
66 AAGATTTTCCGTTGCGGCTTCAATCTTTTAAATTG
** * ** ** *
46266374 CAATACCGGGGAAACAAGATTCACTATCGTAGCTTCAATCTATTCCACTGCACCGCGAGGGAAGT
1 CAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGCTCCACTGCACCGCCAGGGAAGT
*
46266439 AAGATTCGT-CGTTGCGGCTTCAATCTTTTAAATT
66 AAGATT-TTCCGTTGCGGCTTCAATCTTTTAAATT
46266473 ACAACCTCAA
Statistics
Matches: 1070, Mismatches: 158, Indels: 86
0.81 0.12 0.07
Matches are distributed among these distances:
87 92 0.09
88 59 0.06
89 1 0.00
97 1 0.00
98 2 0.00
99 229 0.21
100 685 0.64
101 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (100 bp):
CAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGCTCCACTGCACCGCCAGGGAAGT
AAGATTTTCCGTTGCGGCTTCAATCTTTTAAATTG
Found at i:46266240 original size:486 final size:487
Alignment explanation
Indices: 46265262--46266472 Score: 2048
Period size: 486 Copynumber: 2.5 Consensus size: 487
46265252 ACCGCCAGGG
** *
46265262 AAGTAAGATTTTCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCACCG
1 AAGTAAGATTCACCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCACCG
*
46265327 TCGTAGCTCCAATCTGCTCCACTGTACCGCCAGGGGAGTAAGATTCACCGTTGCGGCTTTAATAT
66 TCGTAGCTCCAATCTGCTCCACTGCACCGCCAGGGGAGTAAGATTCACCGTTGCGGCTTTAATAT
*
46265392 TTTAAATTGTAATGTCGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGATCTACTATACTGC
131 TTTAAATTGTAATGTCGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGATCCACTATACTGC
*
46265457 CAAGGAAGTAAGATTCATTGTTACGGCTTCAATCTTTTAAATTGCAATGTCGTGGAAGCAAGATT
196 CAAGGAAGTAAGATTCATTGTTACGGCTTCAATCTTTTAAATTGCAATGCCGTGGAAGCAAGATT
*
46265522 CACCGTCGTAGCTTCAATCTGCTCCACTACACTGCTAGAGAAGTAAGATTTGCCGTTACGGCTTC
261 CACCGTCGTAGCTTCAATCTGCTCCACTACACTGCCAGAGAAGTAAGATTTGCCGTTACGGCTTC
*
46265587 AATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCATCATTGTAGCTTCAATCTGCTCCACTGC
326 AATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCACCATTGTAGCTTCAATCTGCTCCACTGC
*
46265652 ACCGCCAAGGAAGTAAGATTTACCGTTGCGACTTCAATCTTTTTGATTGCAATGTCGGGGAATAA
391 ACCGCCAAGGAAGTAAGATTTACCATTGCGACTTCAATCTTTTTGATTGCAATGTCGGGGAATAA
*
46265717 GATTCACTGTTGTAGCTTTAATCTGTTCCACT
456 GATTCACCGTTGTAGCTTTAATCTGTTCCACT
** * *
46265749 AAGTAAGATTCATTGTTGCGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTAAGACTCACCG
1 AAGTAAGATTCACCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCACCG
*
46265814 TCGTAGCTCCAATCTGCTCCACTGCACCGCCAGGGGAGTAAGATTCGCCGTTGCGGCTTTAATAT
66 TCGTAGCTCCAATCTGCTCCACTGCACCGCCAGGGGAGTAAGATTCACCGTTGCGGCTTTAATAT
46265879 TTTAAATTGTAATGTCGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGATCCACTATACTGC
131 TTTAAATTGTAATGTCGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGATCCACTATACTGC
46265944 CAAGGAAGTAAGATTCATTGTTACGGCTTCAATCTTTTAAATTGCAATGCCGTGG-AGCAAGATT
196 CAAGGAAGTAAGATTCATTGTTACGGCTTCAATCTTTTAAATTGCAATGCCGTGGAAGCAAGATT
*
46266008 CACCGTCGTAGCTTCAATCTGCTCCACTGCACTGCCAGAGAAGTAAGATTTGCCGTTACGGCTTC
261 CACCGTCGTAGCTTCAATCTGCTCCACTACACTGCCAGAGAAGTAAGATTTGCCGTTACGGCTTC
* *
46266073 AATCTTTTAAATTGTAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGCTCCACTGC
326 AATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCACCATTGTAGCTTCAATCTGCTCCACTGC
* *
46266138 ACTGCCAAGGAAGTAAGATTTACCATTGCGACTTCAATCTTTTTTATTGCAATGTCGGGGAATAA
391 ACCGCCAAGGAAGTAAGATTTACCATTGCGACTTCAATCTTTTTGATTGCAATGTCGGGGAATAA
46266203 GATTCACCGTTGTAGCTTTAATCTGTTCCACT
456 GATTCACCGTTGTAGCTTTAATCTGTTCCACT
46266235 AAGTAAGATTCACCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCACCG
1 AAGTAAGATTCACCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCACCG
* * * **
46266300 TCATAGCTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATTTTCCGTTGCGGCTTTAATAT
66 TCGTAGCTCCAATCTGCTCCACTGCACCGCCAGGGGAGTAAGATTCACCGTTGCGGCTTTAATAT
* ** * ** ** *
46266365 TTTAAATTGCAATACCGGGGAAACAAGATTCACTATCGTAGCTTCAATCT-ATTCCACTGCACCG
131 TTTAAATTGTAATGTCGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGA-TCCACTATACTG
* * * * *
46266429 CGAGGGAAGTAAGATTCGTCGTTGCGGCTTCAATCTTTTAAATT
195 CCAAGGAAGTAAGATTCATTGTTACGGCTTCAATCTTTTAAATT
46266473 ACAACCTCAA
Statistics
Matches: 680, Mismatches: 43, Indels: 3
0.94 0.06 0.00
Matches are distributed among these distances:
485 1 0.00
486 440 0.65
487 239 0.35
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (487 bp):
AAGTAAGATTCACCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCACCG
TCGTAGCTCCAATCTGCTCCACTGCACCGCCAGGGGAGTAAGATTCACCGTTGCGGCTTTAATAT
TTTAAATTGTAATGTCGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGATCCACTATACTGC
CAAGGAAGTAAGATTCATTGTTACGGCTTCAATCTTTTAAATTGCAATGCCGTGGAAGCAAGATT
CACCGTCGTAGCTTCAATCTGCTCCACTACACTGCCAGAGAAGTAAGATTTGCCGTTACGGCTTC
AATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCACCATTGTAGCTTCAATCTGCTCCACTGC
ACCGCCAAGGAAGTAAGATTTACCATTGCGACTTCAATCTTTTTGATTGCAATGTCGGGGAATAA
GATTCACCGTTGTAGCTTTAATCTGTTCCACT
Done.