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 155 of 189
Found at i:46550126 original size:14 final size:14
Alignment explanation
Indices: 46550107--46550135 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
46550097 AATAGATTTA
46550107 ACTATACTAAAATG
1 ACTATACTAAAATG
46550121 ACTATACTAAAATG
1 ACTATACTAAAATG
46550135 A
1 A
46550136 TCACACATAC
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:0.52, C:0.14, G:0.07, T:0.28
Consensus pattern (14 bp):
ACTATACTAAAATG
Found at i:46565356 original size:220 final size:219
Alignment explanation
Indices: 46564971--46565413 Score: 742
Period size: 220 Copynumber: 2.0 Consensus size: 219
46564961 TGAATAAATA
* **
46564971 AATAACTATTATTAACATGATTACAATGATTGAACCAAAGATAAAGTACATAGTAACAGGAGGGT
1 AATAACTATCATTAACATGATTACAATGATTGAACCAAAGATAAAGTACATAGTAACACAAGGGT
*
46565036 AGTTAACACATTTTCACTTACCATACTTTCATCATTCACTTATCTTTAATACACCACTCACGTTG
66 AGTTAACACATTTTCACTTACCATACTTTCATCATTCACTTATCTTTAATACACCACTCACATTG
* * * ** * *
46565101 CCCCTTGTAGACTCGAGTGAATAAGAAGGATATATGGAATGTAATCATAGAGCACAAGAGCATGT
131 CCCCTTATAGACTCAAGTGAACAAGAAAAATATATGGAATGTAATCACAAAGCACAAGAGCATGT
46565166 AAATGCCAAATTATCACGAACACT
196 AAATGCCAAATTATCACGAACACT
46565190 AATAACTATCATTAACATGATTACAATGATTGAACCAAAGATAAAGTACATAGTAACAACAAGGG
1 AATAACTATCATTAACATGATTACAATGATTGAACCAAAGATAAAGTACATAGTAAC-ACAAGGG
* *
46565255 TAGTTAACACATTTTCACTTACCATACTTTCATCATTCACTTATCTTTTATATACCACTCACATT
65 TAGTTAACACATTTTCACTTACCATACTTTCATCATTCACTTATCTTTAATACACCACTCACATT
*
46565320 GCCCCTTATAGACTCAAGTGAACAAGAAAAATATATGGAATGTAATCACAAAGCACAGGAGCATG
130 GCCCCTTATAGACTCAAGTGAACAAGAAAAATATATGGAATGTAATCACAAAGCACAAGAGCATG
*
46565385 TAAGTGCCAAATTATCACGAACACT
195 TAAATGCCAAATTATCACGAACACT
46565410 AATA
1 AATA
46565414 GTGTTAGAAC
Statistics
Matches: 208, Mismatches: 15, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
219 56 0.27
220 152 0.73
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (219 bp):
AATAACTATCATTAACATGATTACAATGATTGAACCAAAGATAAAGTACATAGTAACACAAGGGT
AGTTAACACATTTTCACTTACCATACTTTCATCATTCACTTATCTTTAATACACCACTCACATTG
CCCCTTATAGACTCAAGTGAACAAGAAAAATATATGGAATGTAATCACAAAGCACAAGAGCATGT
AAATGCCAAATTATCACGAACACT
Found at i:46568950 original size:11 final size:11
Alignment explanation
Indices: 46568934--46568972 Score: 51
Period size: 11 Copynumber: 3.3 Consensus size: 11
46568924 TTTCGCGCAT
46568934 AAAAAATAATA
1 AAAAAATAATA
46568945 AAAAAATAAAAGTA
1 AAAAAAT--AA-TA
46568959 AAAAAATAATA
1 AAAAAATAATA
46568970 AAA
1 AAA
46568973 CGAAACAGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 12 0.48
12 2 0.08
13 2 0.08
14 9 0.36
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (11 bp):
AAAAAATAATA
Found at i:46581527 original size:3 final size:3
Alignment explanation
Indices: 46581519--46581569 Score: 93
Period size: 3 Copynumber: 16.7 Consensus size: 3
46581509 ACTTACACCC
46581519 ATT ATT ATT ATT ATT ATT ATT ATTT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT
46581565 ATT AT
1 ATT AT
46581570 CTTTCTTGTT
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 44 0.94
4 3 0.06
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:46589787 original size:14 final size:14
Alignment explanation
Indices: 46589768--46589797 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
46589758 AATAATCCTT
46589768 AATTGATTTTCCGG
1 AATTGATTTTCCGG
46589782 AATTGATTTTCCGG
1 AATTGATTTTCCGG
46589796 AA
1 AA
46589798 AATCATTTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (14 bp):
AATTGATTTTCCGG
Found at i:46590340 original size:34 final size:35
Alignment explanation
Indices: 46590285--46590351 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
46590275 CAAACACCAG
*
46590285 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
46590320 AAAACATTTTCCCG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
46590352 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:46592698 original size:17 final size:17
Alignment explanation
Indices: 46592676--46592718 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
46592666 CTTCGTCAAC
46592676 CACACGGCCGTGTCTCG
1 CACACGGCCGTGTCTCG
*
46592693 CACACGACCGTGTCTCG
1 CACACGGCCGTGTCTCG
46592710 CACACGGCC
1 CACACGGCC
46592719 AACCACACAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.16, C:0.44, G:0.26, T:0.14
Consensus pattern (17 bp):
CACACGGCCGTGTCTCG
Found at i:46607392 original size:22 final size:24
Alignment explanation
Indices: 46607342--46607393 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 24
46607332 TTGCAATGCT
46607342 TTTATATTTTAATAATTGAGTATTA
1 TTTATATTTTAAT-ATTGAGTATTA
46607367 -TTATATATTTAAT-TTGA-T-TTA
1 TTTATAT-TTTAATATTGAGTATTA
46607388 TTTATA
1 TTTATA
46607394 AATAAATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
21 3 0.12
22 6 0.24
23 4 0.16
24 6 0.24
25 6 0.24
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.60
Consensus pattern (24 bp):
TTTATATTTTAATATTGAGTATTA
Found at i:46607564 original size:29 final size:32
Alignment explanation
Indices: 46607503--46607566 Score: 80
Period size: 33 Copynumber: 2.1 Consensus size: 32
46607493 GGAAATCTGC
*
46607503 CAAACAGCAAAAAATATTTTACACAGATTCAAT
1 CAAACACCAAAAAATATTTTACACAGA-TCAAT
*
46607536 CAAACACCAGAAAATATTTT-C-CAG-TCAAT
1 CAAACACCAAAAAATATTTTACACAGATCAAT
46607565 CA
1 CA
46607567 TTTTACAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 7 0.24
31 3 0.10
32 1 0.03
33 18 0.62
ACGTcount: A:0.48, C:0.22, G:0.06, T:0.23
Consensus pattern (32 bp):
CAAACACCAAAAAATATTTTACACAGATCAAT
Found at i:46607605 original size:34 final size:35
Alignment explanation
Indices: 46607546--46607612 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
46607536 CAAACACCAG
*
46607546 AAAATATTTTCCAGTCAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
46607581 AAAATATTTTCTAG-AAATCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAA
46607613 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:46608219 original size:32 final size:32
Alignment explanation
Indices: 46608182--46608245 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
46608172 CAGGATATAC
*
46608182 AGAATCATAAAGTTCTCAGAATGTATGCATAT
1 AGAATCATAAAGTTCTCAAAATGTATGCATAT
*
46608214 AGAATCATAAAGTTCTCAAAATGTATGTATAT
1 AGAATCATAAAGTTCTCAAAATGTATGCATAT
46608246 GTTCATGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (32 bp):
AGAATCATAAAGTTCTCAAAATGTATGCATAT
Found at i:46608638 original size:17 final size:18
Alignment explanation
Indices: 46608618--46608663 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
46608608 TGAATTGGTT
46608618 AAATGGATAT-GAATAT-G
1 AAATGGATATGGAA-ATGG
*
46608635 AAATGGAAATGGAAATGG
1 AAATGGATATGGAAATGG
46608653 AAATGTGATAT
1 AAATG-GATAT
46608664 ATGATATATG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 11 0.46
18 9 0.38
19 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (18 bp):
AAATGGATATGGAAATGG
Found at i:46620361 original size:10 final size:10
Alignment explanation
Indices: 46620346--46620374 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
46620336 GAAATTTTTG
46620346 ATGATATAAT
1 ATGATATAAT
46620356 ATGATATAAT
1 ATGATATAAT
46620366 A-GATATAAT
1 ATGATATAAT
46620375 TATTTATAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.42
10 11 0.58
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (10 bp):
ATGATATAAT
Found at i:46620658 original size:37 final size:37
Alignment explanation
Indices: 46620617--46620688 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
46620607 TCGAAGCAAT
46620617 TGGCATGATATCGGGTGGATTAGCTCTTATGAGCATC
1 TGGCATGATATCGGGTGGATTAGCTCTTATGAGCATC
* *
46620654 TGGCATGTTATTGGGTGGATTAGCTCTTATGAGCA
1 TGGCATGATATCGGGTGGATTAGCTCTTATGAGCA
46620689 ATTGGTGTGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.21, C:0.14, G:0.31, T:0.35
Consensus pattern (37 bp):
TGGCATGATATCGGGTGGATTAGCTCTTATGAGCATC
Found at i:46622958 original size:45 final size:45
Alignment explanation
Indices: 46622901--46622986 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
46622891 ACAATCCACA
*
46622901 TGTATGAGTTCGCCATATCTATGAATTTTCTAT-TATGAATCCGCG
1 TGTATGAGTTCGCCATATCTATGAATCTTCT-TCTATGAATCCGCG
*
46622946 TGTATGATTTCGCCATATCTATGAATCTTCTTCTATGAATC
1 TGTATGAGTTCGCCATATCTATGAATCTTCTTCTATGAATC
46622987 TTCTTCTATG
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
44 1 0.03
45 37 0.97
ACGTcount: A:0.24, C:0.19, G:0.15, T:0.42
Consensus pattern (45 bp):
TGTATGAGTTCGCCATATCTATGAATCTTCTTCTATGAATCCGCG
Found at i:46622982 original size:14 final size:14
Alignment explanation
Indices: 46622963--46623044 Score: 85
Period size: 14 Copynumber: 5.7 Consensus size: 14
46622953 TTTCGCCATA
46622963 TCTATGAATCTTCT
1 TCTATGAATCTTCT
46622977 TCTATGAATCTTCT
1 TCTATGAATCTTCT
* *
46622991 TCTATGAATCTGCA
1 TCTATGAATCTTCT
* **
46623005 T-TATGAGTTCACCAT
1 TCTATGA-ATCTTC-T
46623020 GTCTATGAATCTTCT
1 -TCTATGAATCTTCT
46623035 TCTATGAATC
1 TCTATGAATC
46623045 CGTATGTATG
Statistics
Matches: 55, Mismatches: 9, Indels: 8
0.76 0.12 0.11
Matches are distributed among these distances:
13 5 0.09
14 40 0.73
15 1 0.02
16 4 0.07
17 5 0.09
ACGTcount: A:0.24, C:0.21, G:0.11, T:0.44
Consensus pattern (14 bp):
TCTATGAATCTTCT
Found at i:46623032 original size:58 final size:59
Alignment explanation
Indices: 46622918--46623044 Score: 177
Period size: 58 Copynumber: 2.2 Consensus size: 59
46622908 GTTCGCCATA
* * * *
46622918 TCTATGAATTTTCTATTATGAATCCGCGTGTATGATTTCGCCATATCTATGAATCTTCT
1 TCTATGAATCTTCTATTATGAATCCGCATGTATGAGTTCACCATATCTATGAATCTTCT
* *
46622977 TCTATGAATCTTCT-TCTATGAATCTGCAT-TATGAGTTCACCATGTCTATGAATCTTCT
1 TCTATGAATCTTCTAT-TATGAATCCGCATGTATGAGTTCACCATATCTATGAATCTTCT
46623035 TCTATGAATC
1 TCTATGAATC
46623045 CGTATGTATG
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
58 37 0.61
59 24 0.39
ACGTcount: A:0.24, C:0.20, G:0.13, T:0.43
Consensus pattern (59 bp):
TCTATGAATCTTCTATTATGAATCCGCATGTATGAGTTCACCATATCTATGAATCTTCT
Found at i:46623070 original size:45 final size:45
Alignment explanation
Indices: 46622977--46623210 Score: 319
Period size: 45 Copynumber: 5.2 Consensus size: 45
46622967 TGAATCTTCT
* * *
46622977 TCTATGAATCTTCTTCTATGAATCTGCAT-TATGAGTTCACCATG
1 TCTATGAATCTTCTTCTATGAATCCGCATGTATGAGTTCGCCATA
* * *
46623021 TCTATGAATCTTCTTCTATGAATCCGTATGTATGAGTTTGTCATA
1 TCTATGAATCTTCTTCTATGAATCCGCATGTATGAGTTCGCCATA
*
46623066 TCTATGAATCTTCTACTATGAATCCGCATGTATGAGTTCGCCATA
1 TCTATGAATCTTCTTCTATGAATCCGCATGTATGAGTTCGCCATA
* * * * *
46623111 TTTATGAATATTCTTCTATGAATCTGCATGTATGAGTTTGCTATA
1 TCTATGAATCTTCTTCTATGAATCCGCATGTATGAGTTCGCCATA
* *
46623156 TCTATGAATCTTCTAT-TATGAATTCGCATGTATGAGTTAGCCATA
1 TCTATGAATCTTCT-TCTATGAATCCGCATGTATGAGTTCGCCATA
46623201 TCTATGAATC
1 TCTATGAATC
46623211 CATTTCTACA
Statistics
Matches: 166, Mismatches: 22, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
44 27 0.16
45 138 0.83
46 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.41
Consensus pattern (45 bp):
TCTATGAATCTTCTTCTATGAATCCGCATGTATGAGTTCGCCATA
Found at i:46623085 original size:103 final size:103
Alignment explanation
Indices: 46622903--46623089 Score: 279
Period size: 103 Copynumber: 1.8 Consensus size: 103
46622893 AATCCACATG
* * *
46622903 TATGAGTTCGCCATATCTATGAATTTTCTATTATGAATCCGCGTGTATGATTTCGCCATATCTAT
1 TATGAGTTCACCATATCTATGAATCTTCTATTATGAATCCGCATGTATGATTTCGCCATATCTAT
*
46622968 GAATCTTCTTCTATGAATCTTCTTCTATGAATCTGCAT
66 GAATCTTCTACTATGAATCTTCTTCTATGAATCTGCAT
* * *
46623006 TATGAGTTCACCATGTCTATGAATCTTCT-TCTATGAATCCGTATGTATGAGTTT-GTCATATCT
1 TATGAGTTCACCATATCTATGAATCTTCTAT-TATGAATCCGCATGTATGA-TTTCGCCATATCT
46623069 ATGAATCTTCTACTATGAATC
64 ATGAATCTTCTACTATGAATC
46623090 CGCATGTATG
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
102 1 0.01
103 71 0.95
104 3 0.04
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.42
Consensus pattern (103 bp):
TATGAGTTCACCATATCTATGAATCTTCTATTATGAATCCGCATGTATGATTTCGCCATATCTAT
GAATCTTCTACTATGAATCTTCTTCTATGAATCTGCAT
Found at i:46623218 original size:90 final size:90
Alignment explanation
Indices: 46622977--46623238 Score: 315
Period size: 90 Copynumber: 2.9 Consensus size: 90
46622967 TGAATCTTCT
* *
46622977 TCTATGAATCTTCT-TCTATGAA-TCTGCAT-TATGAGTTCA-CCATGTCTATGAATCTTCTTCT
1 TCTATGAATCTTCTAT-TATGAATTC-GCATGTATGAGTT-AGCCATATCTATGAATCATCTTCT
*
46623038 ATGAATCCGTATGTATGAGTTTGTCATA
63 ATGAATCCGCATGTATGAGTTTGTCATA
* * * *
46623066 TCTATGAATCTTCTACTATGAATCCGCATGTATGAGTTCGCCATATTTATGAAT-ATTCTTCTAT
1 TCTATGAATCTTCTATTATGAATTCGCATGTATGAGTTAGCCATATCTATGAATCA-TCTTCTAT
*
46623130 GAATCTGCATGTATGAGTTTG-CTATA
65 GAATCCGCATGTATGAGTTTGTC-ATA
46623156 TCTATGAATCTTCTATTATGAATTCGCATGTATGAGTTAGCCATATCTATGAATCCAT-TTCTA-
1 TCTATGAATCTTCTATTATGAATTCGCATGTATGAGTTAGCCATATCTATGAAT-CATCTTCTAT
* *
46623219 CAAGTTCGCATGTATGAGTT
65 GAA-TCCGCATGTATGAGTT
46623239 AGCATATAAG
Statistics
Matches: 149, Mismatches: 15, Indels: 17
0.82 0.08 0.09
Matches are distributed among these distances:
89 27 0.18
90 120 0.81
91 1 0.01
92 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.41
Consensus pattern (90 bp):
TCTATGAATCTTCTATTATGAATTCGCATGTATGAGTTAGCCATATCTATGAATCATCTTCTATG
AATCCGCATGTATGAGTTTGTCATA
Found at i:46623227 original size:45 final size:44
Alignment explanation
Indices: 46622977--46623245 Score: 209
Period size: 45 Copynumber: 6.0 Consensus size: 44
46622967 TGAATCTTCT
*
46622977 TCTATGAATCTTCT-TCTATGAA-TCTGCAT-TATGAGTTCA-CCATG
1 TCTATGAATCTTCTATC-A-GAATTC-GCATGTATGAGTT-AGCCATA
* * * *
46623021 TCTATGAATCTTCT-TCTATGAATCCGTATGTATGAGTTTGTCATA
1 TCTATGAATCTTCTATC-A-GAATTCGCATGTATGAGTTAGCCATA
* *
46623066 TCTATGAATCTTCTA-CTATGAATCCGCATGTATGAGTTCGCCATA
1 TCTATGAATCTTCTATC-A-GAATTCGCATGTATGAGTTAGCCATA
* * * *
46623111 TTTATGAATATTCT-TCTATGAA-TCTGCATGTATGAGTTTGCTATA
1 TCTATGAATCTTCTATC-A-GAATTC-GCATGTATGAGTTAGCCATA
*
46623156 TCTATGAATCTTCTATTATGAATTCGCATGTATGAGTTAGCCATA
1 TCTATGAATCTTCTATCA-GAATTCGCATGTATGAGTTAGCCATA
*
46623201 TCTATGAATCCATTTCTA-CA-AGTTCGCATGTATGAGTTAG-CATA
1 TCTATGAAT-C--TTCTATCAGAATTCGCATGTATGAGTTAGCCATA
46623245 T
1 T
46623246 AAGAATCCAC
Statistics
Matches: 194, Mismatches: 20, Indels: 22
0.82 0.08 0.09
Matches are distributed among these distances:
44 31 0.16
45 153 0.79
46 4 0.02
47 1 0.01
48 5 0.03
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (44 bp):
TCTATGAATCTTCTATCAGAATTCGCATGTATGAGTTAGCCATA
Found at i:46623269 original size:42 final size:44
Alignment explanation
Indices: 46623176--46623280 Score: 117
Period size: 42 Copynumber: 2.4 Consensus size: 44
46623166 TTCTATTATG
* *
46623176 AATTCGCATGTATGAGTTAGCCATATCTATGAATCCATTTCTACA
1 AATTCGCATGTATGAGTTAGCCATA-CTAAGAATCCAATTCTACA
* *
46623221 AGTTCGCATGTATGAGTTAG-CATA-TAAGAATCCACATT-TAGA
1 AATTCGCATGTATGAGTTAGCCATACTAAGAATCCA-ATTCTACA
* *
46623263 AATTCGCACGTAAGAGTT
1 AATTCGCATGTATGAGTT
46623281 TGTAGGAATG
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
42 27 0.52
43 2 0.04
44 4 0.08
45 19 0.37
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Consensus pattern (44 bp):
AATTCGCATGTATGAGTTAGCCATACTAAGAATCCAATTCTACA
Found at i:46624412 original size:21 final size:21
Alignment explanation
Indices: 46624388--46624427 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
46624378 TTTTTTGTTT
*
46624388 TATTTTATAATATTATTATAA
1 TATTTAATAATATTATTATAA
**
46624409 TATTTAATTTTATTATTAT
1 TATTTAATAATATTATTAT
46624428 CTTTTTTTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTTAATAATATTATTATAA
Found at i:46628308 original size:3 final size:3
Alignment explanation
Indices: 46628300--46628343 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
46628290 TGCTTTACCT
46628300 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
46628344 GTACTTCAGC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:46643942 original size:42 final size:42
Alignment explanation
Indices: 46643817--46643988 Score: 199
Period size: 42 Copynumber: 4.1 Consensus size: 42
46643807 ATTGGCACTT
* * * * * *
46643817 AGCCTGCTAGACTTAAAGCCTGAT-TCAG-TACACTGGCATTT
1 AGCCTGCTAGACGTAAAGTCTGATAT-TGTTTCACCGGCATTA
* * *
46643858 AGCCTGCTAGACATATAGTCTGA-AATGTTTCACCGGCATTA
1 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACCGGCATTA
46643899 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACCGGCATTA
1 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACCGGCATTA
* *
46643941 AGCCTGCTAGACGTAAAGTCTGAAATTATTTCACCGGGC-TTA
1 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACC-GGCATTA
46643983 AGCCTG
1 AGCCTG
46643989 ATAGGCACTG
Statistics
Matches: 114, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
40 1 0.01
41 51 0.45
42 59 0.52
43 3 0.03
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (42 bp):
AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACCGGCATTA
Found at i:46643961 original size:83 final size:83
Alignment explanation
Indices: 46643817--46643988 Score: 215
Period size: 83 Copynumber: 2.1 Consensus size: 83
46643807 ATTGGCACTT
* * * *
46643817 AGCCTGCTAGACTTAAAGCCTGATTCAGTACACTGGCATTTAGCCTGCTAGACATATAGTCTGAA
1 AGCCTGCTAGACGTAAAGCCTGATTCAGTACACCGGCATTAAGCCTGCTAGACATAAAGTCTGAA
*
46643882 A-TGTTTCACC-GGCATTA
66 ATTATTTCACCGGGC-TTA
* * * *
46643899 AGCCTGCTAGACGTAAAGTCTGATAT-TGTTTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTG
1 AGCCTGCTAGACGTAAAGCCTGAT-TCAG-TACACCGGCATTAAGCCTGCTAGACATAAAGTCTG
46643963 AAATTATTTCACCGGGCTTA
64 AAATTATTTCACCGGGCTTA
46643983 AGCCTG
1 AGCCTG
46643989 ATAGGCACTG
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
82 23 0.30
83 34 0.44
84 17 0.22
85 3 0.04
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (83 bp):
AGCCTGCTAGACGTAAAGCCTGATTCAGTACACCGGCATTAAGCCTGCTAGACATAAAGTCTGAA
ATTATTTCACCGGGCTTA
Found at i:46644592 original size:23 final size:23
Alignment explanation
Indices: 46644566--46644610 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
46644556 TACTTGTATA
* * *
46644566 TACATGTATAAATTTAAAACTTG
1 TACATATAAAAATATAAAACTTG
46644589 TACATATAAAAATATAAAACTT
1 TACATATAAAAATATAAAACTT
46644611 TTATACTCCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.36
Consensus pattern (23 bp):
TACATATAAAAATATAAAACTTG
Found at i:46648689 original size:54 final size:54
Alignment explanation
Indices: 46648577--46648722 Score: 152
Period size: 54 Copynumber: 2.7 Consensus size: 54
46648567 AGAAAGTTGC
* * * *
46648577 GATCTTAAATCGAC-AACTACAAGATTACG-GAAATCTTGTAAGTATAAGACTGT
1 GATCTTAAATCGGCAAACTACAAGATT-TGAAAAATCTTGTAAGTATAAGACTGG
* * * * * **
46648630 TATCTTAAATCGGCAAGCTGCAAGATTTTAAAACTCTTGTAAGTATAAGGTTGG
1 GATCTTAAATCGGCAAACTACAAGATTTGAAAAATCTTGTAAGTATAAGACTGG
* *
46648684 GATCTTAAATTGGTAAACTACAAGATTTGAAAAATCTTG
1 GATCTTAAATCGGCAAACTACAAGATTTGAAAAATCTTG
46648723 CAATCTTAAA
Statistics
Matches: 73, Mismatches: 18, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
53 12 0.16
54 61 0.84
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.32
Consensus pattern (54 bp):
GATCTTAAATCGGCAAACTACAAGATTTGAAAAATCTTGTAAGTATAAGACTGG
Found at i:46648729 original size:40 final size:40
Alignment explanation
Indices: 46648685--46648762 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
46648675 TAAGGTTGGG
* * *
46648685 ATCTTAAATTGGTAAACTACAAGATTTGAAAAATCTTGCA
1 ATCTTAAATTGGCAAACCACAAGATTCGAAAAATCTTGCA
* *
46648725 ATCTTAAATTGGCAAGCCACAATATTCGAAAAATCTTG
1 ATCTTAAATTGGCAAACCACAAGATTCGAAAAATCTTG
46648763 TAAGTATAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (40 bp):
ATCTTAAATTGGCAAACCACAAGATTCGAAAAATCTTGCA
Found at i:46648803 original size:94 final size:94
Alignment explanation
Indices: 46648631--46648813 Score: 233
Period size: 94 Copynumber: 1.9 Consensus size: 94
46648621 TAAGACTGTT
** ** * **
46648631 ATCTTAAATCGGCAAGCTGCAAGATTTTAAAACTCTTGTAAGTATAAGGTTGGGATCTTAAATTG
1 ATCTTAAATCGGCAAGCCACAAGATTCGAAAAATCTTGTAAGTATAAGGTTGCAATCTTAAATTG
*
46648696 GTAAACTACAAGATTTGAAAAATCTTGCA
66 GGAAACTACAAGATTTGAAAAATCTTGCA
* *
46648725 ATCTTAAATTGGCAAGCCACAATATTCGAAAAATCTTGTAAGTATAAGGTTGCAATCTTAAATTG
1 ATCTTAAATCGGCAAGCCACAAGATTCGAAAAATCTTGTAAGTATAAGGTTGCAATCTTAAATTG
** *
46648790 GCGAGTC-ATAAGATTTGAAAAATC
66 G-GAAACTACAAGATTTGAAAAATC
46648814 CTGTAAGTAT
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
94 73 0.97
95 2 0.03
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.31
Consensus pattern (94 bp):
ATCTTAAATCGGCAAGCCACAAGATTCGAAAAATCTTGTAAGTATAAGGTTGCAATCTTAAATTG
GGAAACTACAAGATTTGAAAAATCTTGCA
Found at i:46648810 original size:54 final size:54
Alignment explanation
Indices: 46648721--46649037 Score: 339
Period size: 54 Copynumber: 5.9 Consensus size: 54
46648711 TGAAAAATCT
* * * * *
46648721 TGCAATCTTAAATTGGCAAGCCACAATATTCGAAAAATCTTGTAAGTATAAGGT
1 TGCAATCTTAAATCGGCGAGCCGCAAGATTCGAAAAATCTTGTAAGTATAAGGC
* * ** * *
46648775 TGCAATCTTAAATTGGCGAGTCATAAGATTTGAAAAATCCTGTAAGTATAAGGC
1 TGCAATCTTAAATCGGCGAGCCGCAAGATTCGAAAAATCTTGTAAGTATAAGGC
* * * * * *
46648829 TACGA-CTTAAATCGGTGAGCCGCAAGACTCAAAAAATCTTGTAAGTATAAGGT
1 TGCAATCTTAAATCGGCGAGCCGCAAGATTCGAAAAATCTTGTAAGTATAAGGC
* * * * * * * * *
46648882 TACAATCTTAAATCGGCAAACTGCAATATTCGGAAGATCTTATAAGTGTAAGGC
1 TGCAATCTTAAATCGGCGAGCCGCAAGATTCGAAAAATCTTGTAAGTATAAGGC
* * * *
46648936 TGCGATCTTAAATCGACGAGTCGCAAGATTGGAAAAATCTTGTAAGTATAAGGC
1 TGCAATCTTAAATCGGCGAGCCGCAAGATTCGAAAAATCTTGTAAGTATAAGGC
* *
46648990 TGCAATCTTAAATCGGCAAGCCGCAAGATTCAAAAAATCTTGTAAGTA
1 TGCAATCTTAAATCGGCGAGCCGCAAGATTCGAAAAATCTTGTAAGTA
46649038 GTGAATTGAG
Statistics
Matches: 211, Mismatches: 51, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
53 42 0.20
54 169 0.80
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.27
Consensus pattern (54 bp):
TGCAATCTTAAATCGGCGAGCCGCAAGATTCGAAAAATCTTGTAAGTATAAGGC
Found at i:46648988 original size:161 final size:162
Alignment explanation
Indices: 46648723--46649037 Score: 434
Period size: 161 Copynumber: 2.0 Consensus size: 162
46648713 AAAAATCTTG
* * * *
46648723 CAATCTTAAATTGGCAAGCCACAATATTCGAAAAATCTTGTAAGTATAAGGTTGCAATCTTAAAT
1 CAATCTTAAATCGGCAAACCACAATATTCGAAAAATCTTATAAGTATAAGGCTGCAATCTTAAAT
* * * * * **
46648788 TGGCGAGTCATAAGATTTGAAAAATCCTGTAAGTATAAGGCTACGA-CTTAAATCGGTGAGCCGC
66 CGACGAGTCACAAGATTGGAAAAATCCTGTAAGTATAAGGCTACAATCTTAAATCGGCAAGCCGC
46648852 AAGACTCAAAAAATCTTGTAAGTATAAGGTTA
131 AAGACTCAAAAAATCTTGTAAGTATAAGGTTA
** * * * *
46648884 CAATCTTAAATCGGCAAACTGCAATATTCGGAAGATCTTATAAGTGTAAGGCTGCGATCTTAAAT
1 CAATCTTAAATCGGCAAACCACAATATTCGAAAAATCTTATAAGTATAAGGCTGCAATCTTAAAT
* * *
46648949 CGACGAGTCGCAAGATTGGAAAAATCTTGTAAGTATAAGGCTGCAATCTTAAATCGGCAAGCCGC
66 CGACGAGTCACAAGATTGGAAAAATCCTGTAAGTATAAGGCTACAATCTTAAATCGGCAAGCCGC
*
46649014 AAGATTCAAAAAATCTTGTAAGTA
131 AAGACTCAAAAAATCTTGTAAGTA
46649038 GTGAATTGAG
Statistics
Matches: 132, Mismatches: 21, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
161 93 0.70
162 39 0.30
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (162 bp):
CAATCTTAAATCGGCAAACCACAATATTCGAAAAATCTTATAAGTATAAGGCTGCAATCTTAAAT
CGACGAGTCACAAGATTGGAAAAATCCTGTAAGTATAAGGCTACAATCTTAAATCGGCAAGCCGC
AAGACTCAAAAAATCTTGTAAGTATAAGGTTA
Found at i:46648996 original size:108 final size:107
Alignment explanation
Indices: 46648750--46649008 Score: 306
Period size: 107 Copynumber: 2.4 Consensus size: 107
46648740 GCCACAATAT
* * * *
46648750 TCGAAAAATCTTGTAAGTATAAGGTTGCAATCTTAAATTGGC-GAGTCATAAGATTTGAAAAATC
1 TCGAAAAATCTTGTAAGTATAAGGTTGCAATCTTAAATCGGCAAACTCA-AAGATTCGAAAAATC
* **
46648814 CTGTAAGTATAAGGCTACGACTTAAATCGGTGAGCCGCAAGAC
65 CTATAAGTATAAGGCTACGACTTAAATCGACGAGCCGCAAGAC
* * * * *
46648857 TCAAAAAATCTTGTAAGTATAAGGTTACAATCTTAAATCGGCAAACTGC-AATATTCGGAAGATC
1 TCGAAAAATCTTGTAAGTATAAGGTTGCAATCTTAAATCGGCAAACT-CAAAGATTCGAAAAATC
* * * * *
46648921 TTATAAGTGTAAGGCTGCGATCTTAAATCGACGAGTCGCAAGAT
65 CTATAAGTATAAGGCTACGA-CTTAAATCGACGAGCCGCAAGAC
* *
46648965 TGGAAAAATCTTGTAAGTATAAGGCTGCAATCTTAAATCGGCAA
1 TCGAAAAATCTTGTAAGTATAAGGTTGCAATCTTAAATCGGCAA
46649009 GCCGCAAGAT
Statistics
Matches: 128, Mismatches: 21, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
107 66 0.52
108 61 0.48
109 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.27
Consensus pattern (107 bp):
TCGAAAAATCTTGTAAGTATAAGGTTGCAATCTTAAATCGGCAAACTCAAAGATTCGAAAAATCC
TATAAGTATAAGGCTACGACTTAAATCGACGAGCCGCAAGAC
Found at i:46663072 original size:19 final size:19
Alignment explanation
Indices: 46663036--46663087 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
46663026 AGATATAGAT
46663036 TAATT-AAAATATAATAAT-
1 TAATTAAAAAT-TAATAATA
*
46663054 TCAATTAAAAATTATTAATA
1 T-AATTAAAAATTAATAATA
46663074 TAATATAAAAATTA
1 TAAT-TAAAAATTA
46663088 GTGGCATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 1 0.03
19 13 0.45
20 15 0.52
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
TAATTAAAAATTAATAATA
Found at i:46668834 original size:5 final size:5
Alignment explanation
Indices: 46668824--46668849 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
46668814 TCAAAGATTC
46668824 CATTT CATTT CATTT CATTT CATTT C
1 CATTT CATTT CATTT CATTT CATTT C
46668850 GTATATTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.23, G:0.00, T:0.58
Consensus pattern (5 bp):
CATTT
Found at i:46668875 original size:20 final size:19
Alignment explanation
Indices: 46668824--46668876 Score: 51
Period size: 20 Copynumber: 2.9 Consensus size: 19
46668814 TCAAAGATTC
46668824 CATTTCATTT--CAT-TT-
1 CATTTCATTTCACATATTA
**
46668839 CATTTCATTTCGTATATTA
1 CATTTCATTTCACATATTA
46668858 CATTTCCATTTCACATATT
1 CATTT-CATTTCACATATT
46668877 TAAATTTCTC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 10 0.33
17 2 0.07
18 2 0.07
19 5 0.17
20 11 0.37
ACGTcount: A:0.25, C:0.21, G:0.02, T:0.53
Consensus pattern (19 bp):
CATTTCATTTCACATATTA
Found at i:46670102 original size:38 final size:38
Alignment explanation
Indices: 46670060--46670145 Score: 156
Period size: 38 Copynumber: 2.3 Consensus size: 38
46670050 GCATGAAAGA
46670060 ACTCTTTCATTCCATTATCTTCCAATTTCCTTTATTTT
1 ACTCTTTCATTCCATTATCTTCCAATTTCCTTTATTTT
46670098 ACTCTTTCATTCCATTATCTTCCAATTTCCTTTATTTT
1 ACTCTTTCATTCCATTATCTTCCAATTTCCTTTATTTT
*
46670136 A-TTTTTCATT
1 ACTCTTTCATT
46670146 TATTTATTTA
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 8 0.17
38 39 0.83
ACGTcount: A:0.19, C:0.24, G:0.00, T:0.57
Consensus pattern (38 bp):
ACTCTTTCATTCCATTATCTTCCAATTTCCTTTATTTT
Found at i:46670126 original size:21 final size:21
Alignment explanation
Indices: 46670064--46670126 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
46670054 GAAAGAACTC
46670064 TTTCATTCCATTATCTTCCAA
1 TTTCATTCCATTATCTTCCAA
* * *
46670085 TTTCCTT-TATT-T-TACTC--
1 TTTCATTCCATTATCTTC-CAA
46670102 TTTCATTCCATTATCTTCCAA
1 TTTCATTCCATTATCTTCCAA
46670123 TTTC
1 TTTC
46670127 CTTTATTTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 12
0.62 0.12 0.25
Matches are distributed among these distances:
17 6 0.20
18 5 0.17
19 4 0.13
20 5 0.17
21 10 0.33
ACGTcount: A:0.19, C:0.27, G:0.00, T:0.54
Consensus pattern (21 bp):
TTTCATTCCATTATCTTCCAA
Found at i:46670173 original size:15 final size:15
Alignment explanation
Indices: 46670129--46670175 Score: 55
Period size: 13 Copynumber: 3.3 Consensus size: 15
46670119 CCAATTTCCT
* *
46670129 TTATTTTATTTTTCA
1 TTATATTATATTTCA
46670144 TT-TATT-TATTT-A
1 TTATATTATATTTCA
46670156 TTATATTATATTTCA
1 TTATATTATATTTCA
46670171 TTATA
1 TTATA
46670176 ATTTGATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
12 3 0.11
13 8 0.30
14 8 0.30
15 8 0.30
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (15 bp):
TTATATTATATTTCA
Found at i:46676893 original size:48 final size:48
Alignment explanation
Indices: 46676811--46676904 Score: 129
Period size: 48 Copynumber: 2.0 Consensus size: 48
46676801 TTTCTTGGCT
* * *
46676811 TAAAAATGCCTAAGTCAGCCTAACTTCCACCAATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
46676859 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
46676905 AGAATTCCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
47 4 0.10
48 37 0.90
ACGTcount: A:0.40, C:0.27, G:0.13, T:0.20
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:46679409 original size:48 final size:48
Alignment explanation
Indices: 46679327--46679420 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
46679317 TTTCTTGGCT
* *
46679327 TAAAAATGCCTAAGTCAGCCTAACTTCCACCAATAATGGATTCAACCG
1 TAAAAATGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
46679375 TAAAAATGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAAC
1 TAAAAATGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
46679421 AGAATTCCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 4 0.10
48 38 0.90
ACGTcount: A:0.40, C:0.26, G:0.13, T:0.21
Consensus pattern (48 bp):
TAAAAATGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:46690309 original size:18 final size:18
Alignment explanation
Indices: 46690288--46690324 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
46690278 GTCTCTTCAT
*
46690288 GAGTACCTGCCTCTTTTA
1 GAGTACCCGCCTCTTTTA
46690306 GAGTACCCGCCTCTTTTA
1 GAGTACCCGCCTCTTTTA
46690324 G
1 G
46690325 CATATGACCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.16, C:0.30, G:0.19, T:0.35
Consensus pattern (18 bp):
GAGTACCCGCCTCTTTTA
Found at i:46694500 original size:24 final size:24
Alignment explanation
Indices: 46694472--46694517 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
46694462 GTAGAATAGA
*
46694472 AAGATGAAAGGTGAAGGGTTAAAG
1 AAGATGAAAGGTGAAAGGTTAAAG
*
46694496 AAGATGAAATGTGAAAGGTTAA
1 AAGATGAAAGGTGAAAGGTTAA
46694518 TAAAGATAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.48, C:0.00, G:0.33, T:0.20
Consensus pattern (24 bp):
AAGATGAAAGGTGAAAGGTTAAAG
Found at i:46694523 original size:24 final size:23
Alignment explanation
Indices: 46694471--46694524 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 23
46694461 AGTAGAATAG
*
46694471 AAAGATGAAAGGTGAAGGGTTAA
1 AAAGATGAAAGGTGAAAGGTTAA
*
46694494 AGAAGATGAAATGTGAAAGGTTAA
1 A-AAGATGAAAGGTGAAAGGTTAA
46694518 TAAAGAT
1 -AAAGAT
46694525 AGAAGGTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 1 0.04
24 25 0.93
25 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.30, T:0.20
Consensus pattern (23 bp):
AAAGATGAAAGGTGAAAGGTTAA
Found at i:46696756 original size:31 final size:29
Alignment explanation
Indices: 46696736--46696790 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
46696726 AACCAAAATC
46696736 AAATCCA-AAAACTTAGTCCAAAAATAAA
1 AAATCCAGAAAACTTAGTCCAAAAATAAA
*
46696764 AAATCCAGAAAACTTAGT-TAAAAATAA
1 AAATCCAGAAAACTTAGTCCAAAAATAA
46696791 TTCAAACCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 15 0.60
29 10 0.40
ACGTcount: A:0.60, C:0.15, G:0.05, T:0.20
Consensus pattern (29 bp):
AAATCCAGAAAACTTAGTCCAAAAATAAA
Found at i:46697052 original size:34 final size:34
Alignment explanation
Indices: 46696989--46697078 Score: 99
Period size: 34 Copynumber: 2.6 Consensus size: 34
46696979 GCACATACAA
* **
46696989 ATATCATATCAGAATGTCGCATTACCAGAAACAT
1 ATATCAGATCAGAATGTCATATTACCAGAAACAT
* ** *
46697023 ATATTAGATCAGAATGTCATATTTTCAGAAGCAT
1 ATATCAGATCAGAATGTCATATTACCAGAAACAT
* *
46697057 ATATCATATCAAAATGTCATAT
1 ATATCAGATCAGAATGTCATAT
46697079 CATATCAGAA
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (34 bp):
ATATCAGATCAGAATGTCATATTACCAGAAACAT
Found at i:46697688 original size:31 final size:31
Alignment explanation
Indices: 46697641--46697710 Score: 122
Period size: 31 Copynumber: 2.3 Consensus size: 31
46697631 TTGGAAAATG
* *
46697641 GGCCCACACGGCCCAACTAGCTAGCTCGTGT
1 GGCCTACACGGACCAACTAGCTAGCTCGTGT
46697672 GGCCTACACGGACCAACTAGCTAGCTCGTGT
1 GGCCTACACGGACCAACTAGCTAGCTCGTGT
46697703 GGCCTACA
1 GGCCTACA
46697711 TGGCCTCACA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.21, C:0.36, G:0.26, T:0.17
Consensus pattern (31 bp):
GGCCTACACGGACCAACTAGCTAGCTCGTGT
Found at i:46697744 original size:29 final size:29
Alignment explanation
Indices: 46697695--46697754 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
46697685 CAACTAGCTA
* *
46697695 GCTCGTGTGGCCTACATGGCCTCACACAC
1 GCTCGTGTGGCCAACACGGCCTCACACAC
*
46697724 GCTCGTGTGGCCAACACGGCCTCACATAC
1 GCTCGTGTGGCCAACACGGCCTCACACAC
46697753 GC
1 GC
46697755 CTATGTGGCC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.18, C:0.38, G:0.25, T:0.18
Consensus pattern (29 bp):
GCTCGTGTGGCCAACACGGCCTCACACAC
Found at i:46697761 original size:29 final size:29
Alignment explanation
Indices: 46697695--46697769 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
46697685 CAACTAGCTA
* * *
46697695 GCTCGTGTGGCCTACATGGCCTCACACAC
1 GCTCATGTGGCCAACACGGCCTCACACAC
* *
46697724 GCTCGTGTGGCCAACACGGCCTCACATAC
1 GCTCATGTGGCCAACACGGCCTCACACAC
*
46697753 GC-CTATGTGGCCCACAC
1 GCTC-ATGTGGCCAACAC
46697770 AGCCCAAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 1 0.03
29 39 0.98
ACGTcount: A:0.19, C:0.39, G:0.24, T:0.19
Consensus pattern (29 bp):
GCTCATGTGGCCAACACGGCCTCACACAC
Found at i:46698174 original size:26 final size:24
Alignment explanation
Indices: 46698137--46698185 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
46698127 AAGAAATTCA
**
46698137 AAGAAGAAAAGAAAGGAAGAAAAT
1 AAGAAGAAAAGAAACAAAGAAAAT
46698161 AAGAGAGAACAAGAAACAAAGAAAA
1 AAGA-AGAA-AAGAAACAAAGAAAA
46698186 GAAAATATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 4 0.19
25 4 0.19
26 13 0.62
ACGTcount: A:0.71, C:0.04, G:0.22, T:0.02
Consensus pattern (24 bp):
AAGAAGAAAAGAAACAAAGAAAAT
Found at i:46698331 original size:85 final size:85
Alignment explanation
Indices: 46698188--46698443 Score: 512
Period size: 85 Copynumber: 3.0 Consensus size: 85
46698178 AAAGAAAAGA
46698188 AAATATGATAGAGAATAGAGGTGATAGACAGTTGAAAGAGTAAATTTAAGAGAAAATCCCTTACC
1 AAATATGATAGAGAATAGAGGTGATAGACAGTTGAAAGAGTAAATTTAAGAGAAAATCCCTTACC
46698253 ACTACTTTTACAACTACCCC
66 ACTACTTTTACAACTACCCC
46698273 AAATATGATAGAGAATAGAGGTGATAGACAGTTGAAAGAGTAAATTTAAGAGAAAATCCCTTACC
1 AAATATGATAGAGAATAGAGGTGATAGACAGTTGAAAGAGTAAATTTAAGAGAAAATCCCTTACC
46698338 ACTACTTTTACAACTACCCC
66 ACTACTTTTACAACTACCCC
46698358 AAATATGATAGAGAATAGAGGTGATAGACAGTTGAAAGAGTAAATTTAAGAGAAAATCCCTTACC
1 AAATATGATAGAGAATAGAGGTGATAGACAGTTGAAAGAGTAAATTTAAGAGAAAATCCCTTACC
46698423 ACTACTTTTACAACTACCCC
66 ACTACTTTTACAACTACCCC
46698443 A
1 A
46698444 CTAACTCCTA
Statistics
Matches: 171, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 171 1.00
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.25
Consensus pattern (85 bp):
AAATATGATAGAGAATAGAGGTGATAGACAGTTGAAAGAGTAAATTTAAGAGAAAATCCCTTACC
ACTACTTTTACAACTACCCC
Found at i:46699450 original size:16 final size:16
Alignment explanation
Indices: 46699429--46699462 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
46699419 AGGGATGGTG
*
46699429 TGTAATTTCATTTTTA
1 TGTAATTTCATTGTTA
46699445 TGTAATTTCATTGTTA
1 TGTAATTTCATTGTTA
46699461 TG
1 TG
46699463 GTGTGTAGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.06, G:0.12, T:0.59
Consensus pattern (16 bp):
TGTAATTTCATTGTTA
Found at i:46708207 original size:58 final size:59
Alignment explanation
Indices: 46708126--46708249 Score: 169
Period size: 58 Copynumber: 2.1 Consensus size: 59
46708116 CTACTGTATT
* * * * *
46708126 TTGGACTTTTACTTATATTTTTTTTATTATAATCTTGTTGTGTTATTGTTGTTGTTTAC
1 TTGGACTTTTACTTATATCTTTTTAATTATAATCTTGTTATATTATAGTTGTTGTTTAC
* * *
46708185 TTGGACTTTTGCTTCT-TCTTTTTAATTATAATCTTGTTATATTGTAGTTGTTGTTTAC
1 TTGGACTTTTACTTATATCTTTTTAATTATAATCTTGTTATATTATAGTTGTTGTTTAC
46708243 TTGGACT
1 TTGGACT
46708250 CATGTTGTTT
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
58 43 0.75
59 14 0.25
ACGTcount: A:0.17, C:0.09, G:0.15, T:0.60
Consensus pattern (59 bp):
TTGGACTTTTACTTATATCTTTTTAATTATAATCTTGTTATATTATAGTTGTTGTTTAC
Found at i:46708257 original size:19 final size:19
Alignment explanation
Indices: 46708233--46708276 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
46708223 ATATTGTAGT
*
46708233 TGTTGTTTACTTGGACTCA
1 TGTTGTTTACTTGGACTAA
* *
46708252 TGTTGTTTATTTGGGCTAA
1 TGTTGTTTACTTGGACTAA
46708271 TGTTGT
1 TGTTGT
46708277 GTTGCTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.14, C:0.09, G:0.25, T:0.52
Consensus pattern (19 bp):
TGTTGTTTACTTGGACTAA
Found at i:46710650 original size:14 final size:15
Alignment explanation
Indices: 46710622--46710652 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
46710612 ATCCACAAAT
46710622 TTAATTTTTATATAA
1 TTAATTTTTATATAA
46710637 TTAATTTTTA-ATAA
1 TTAATTTTTATATAA
46710651 TT
1 TT
46710653 TATATCTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TTAATTTTTATATAA
Found at i:46711230 original size:30 final size:31
Alignment explanation
Indices: 46711195--46711258 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
46711185 ATAATTATGC
46711195 TTTAATGTAAATTTATA-A-AT-AAATTTTTAT
1 TTTAAT-TAAA-TTATACATATAAAATTTTTAT
*
46711225 TTTAATTTAATTATACATATAAAATTTTTAT
1 TTTAATTAAATTATACATATAAAATTTTTAT
46711256 TTT
1 TTT
46711259 TATTTAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
28 5 0.17
29 4 0.13
30 8 0.27
31 13 0.43
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (31 bp):
TTTAATTAAATTATACATATAAAATTTTTAT
Found at i:46712359 original size:59 final size:59
Alignment explanation
Indices: 46712294--46712413 Score: 231
Period size: 59 Copynumber: 2.0 Consensus size: 59
46712284 TATAATCTTT
*
46712294 TTCCTAGGGAATGGTTTAGGAAGCTTCTTTTGATAAGATAATTTCTTATTTCTTACTTC
1 TTCCTAGGGAATGGTTTAGGAAGCTTCTTTTGATAAGATAATTTCTTACTTCTTACTTC
46712353 TTCCTAGGGAATGGTTTAGGAAGCTTCTTTTGATAAGATAATTTCTTACTTCTTACTTC
1 TTCCTAGGGAATGGTTTAGGAAGCTTCTTTTGATAAGATAATTTCTTACTTCTTACTTC
46712412 TT
1 TT
46712414 ACTCATCCAT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.23, C:0.14, G:0.17, T:0.46
Consensus pattern (59 bp):
TTCCTAGGGAATGGTTTAGGAAGCTTCTTTTGATAAGATAATTTCTTACTTCTTACTTC
Found at i:46727294 original size:30 final size:30
Alignment explanation
Indices: 46727258--46727324 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 30
46727248 CTTGATCAAC
46727258 AGATAGCCATAAAGGCGACCATACACCATT
1 AGATAGCCATAAAGGCGACCATACACCATT
* * *
46727288 AGATAGCCATAAAGGCGTCCATATATCATT
1 AGATAGCCATAAAGGCGACCATACACCATT
46727318 AGATAGC
1 AGATAGC
46727325 TACAAATACA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.21
Consensus pattern (30 bp):
AGATAGCCATAAAGGCGACCATACACCATT
Found at i:46727471 original size:29 final size:28
Alignment explanation
Indices: 46727416--46727500 Score: 91
Period size: 29 Copynumber: 2.9 Consensus size: 28
46727406 ATAGAGAACA
46727416 GCCACAAAGGCTTCCACATATAACATATC-C
1 GCCAC-AAGGC-T-CACATATAACATATCTC
* *
46727446 TGCCACTAAGGCTCACATATAGCATATTTC
1 -GCCAC-AAGGCTCACATATAACATATCTC
46727476 GCCACAAGGGCTCACATATAACATA
1 GCCACAA-GGCTCACATATAACATA
46727501 GAATAGCCAC
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.04
29 34 0.71
30 2 0.04
31 10 0.21
ACGTcount: A:0.35, C:0.29, G:0.13, T:0.22
Consensus pattern (28 bp):
GCCACAAGGCTCACATATAACATATCTC
Found at i:46727512 original size:30 final size:30
Alignment explanation
Indices: 46727385--46727547 Score: 116
Period size: 30 Copynumber: 5.4 Consensus size: 30
46727375 CAACAAAATC
* * * * *
46727385 AGCCACAAAAGCTCACATGTAATAGAGAAC
1 AGCCACAAAGGCTCACATATAACATAGAAT
***
46727415 AGCCACAAAGGCTTCCACATATAACATATCCT
1 AGCCACAAAGGC-T-CACATATAACATAGAAT
* * **
46727447 -GCCACTAAGGCTCACATATAGCATA-TTT
1 AGCCACAAAGGCTCACATATAACATAGAAT
* *
46727475 CGCCACAAGGGCTCACATATAACATAGAAT
1 AGCCACAAAGGCTCACATATAACATAGAAT
** * *
46727505 AGCCACAAAGGCTTC-CATATATTAGAGAAC
1 AGCCACAAAGGC-TCACATATAACATAGAAT
46727535 AGCCACAAAGGCT
1 AGCCACAAAGGCT
46727548 TCCATTTTTT
Statistics
Matches: 105, Mismatches: 23, Indels: 11
0.76 0.17 0.08
Matches are distributed among these distances:
28 1 0.01
29 35 0.33
30 46 0.44
31 13 0.12
32 10 0.10
ACGTcount: A:0.39, C:0.26, G:0.15, T:0.19
Consensus pattern (30 bp):
AGCCACAAAGGCTCACATATAACATAGAAT
Found at i:46727906 original size:16 final size:16
Alignment explanation
Indices: 46727885--46727930 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
46727875 TTTCATGTAG
* *
46727885 AGACTTATTGATGCAA
1 AGACTTAGTCATGCAA
46727901 AGACTTAGTCATGCAA
1 AGACTTAGTCATGCAA
46727917 AGACTCTA-TCATGC
1 AGACT-TAGTCATGC
46727931 TTCAGACGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 25 0.93
17 2 0.07
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (16 bp):
AGACTTAGTCATGCAA
Found at i:46731927 original size:11 final size:11
Alignment explanation
Indices: 46731907--46731953 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
46731897 TTTTCCCATT
*
46731907 AAAATGATTAA
1 AAAATCATTAA
46731918 AAAATCATTAA
1 AAAATCATTAA
* *
46731929 AAAAGCTTATAA
1 AAAATCAT-TAA
46731941 AAAATCA-TAA
1 AAAATCATTAA
46731951 AAA
1 AAA
46731954 TTATCAAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
10 6 0.20
11 16 0.53
12 8 0.27
ACGTcount: A:0.66, C:0.06, G:0.04, T:0.23
Consensus pattern (11 bp):
AAAATCATTAA
Found at i:46732164 original size:18 final size:19
Alignment explanation
Indices: 46732129--46732172 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
46732119 TTAAAATTCT
46732129 ATAA-AAAAATCATAAAAA
1 ATAATAAAAATCATAAAAA
46732147 ATAATAAAAAT-ATAAAAA
1 ATAATAAAAATCATAAAAA
*
46732165 ATATTAAA
1 ATAATAAA
46732173 TTTGAGATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 18 0.75
19 6 0.25
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (19 bp):
ATAATAAAAATCATAAAAA
Found at i:46732172 original size:10 final size:9
Alignment explanation
Indices: 46731936--46732083 Score: 66
Period size: 9 Copynumber: 15.8 Consensus size: 9
46731926 TAAAAAAGCT
46731936 TATAAAAAA
1 TATAAAAAA
*
46731945 TCATAAAAAT
1 T-ATAAAAAA
*
46731955 TAT-CAAAA
1 TATAAAAAA
*
46731963 TATAAAAAG
1 TATAAAAAA
* * *
46731972 TATTAGATA
1 TATAAAAAA
46731981 T-TAAAAAA
1 TATAAAAAA
46731989 TATTTAAAAAA
1 TA--TAAAAAA
* *
46732000 TATGAAAAT
1 TATAAAAAA
* **
46732009 TGATATGAACT
1 T-ATA-AAAAA
46732020 TATAAAAAA
1 TATAAAAAA
* *
46732029 AATATAAAAC
1 TATA-AAAAA
46732039 TATAAAAAA
1 TATAAAAAA
*
46732048 TCTAATAAAA
1 TATAA-AAAA
* *
46732058 TTTAATAAAT
1 TATAA-AAAA
46732068 TATAAAAAA
1 TATAAAAAA
46732077 TATAAAA
1 TATAAAA
46732084 TTAATAAATC
Statistics
Matches: 101, Mismatches: 29, Indels: 18
0.68 0.20 0.12
Matches are distributed among these distances:
8 11 0.11
9 41 0.41
10 36 0.36
11 13 0.13
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (9 bp):
TATAAAAAA
Found at i:46732632 original size:9 final size:9
Alignment explanation
Indices: 46732615--46732863 Score: 91
Period size: 9 Copynumber: 26.8 Consensus size: 9
46732605 TTTATGGTTT
46732615 TTTTATATAA
1 TTTT-TATAA
46732625 TTTTTATAA
1 TTTTTATAA
*
46732634 GTTTGTATCAA
1 -TTTTTAT-AA
** *
46732645 TTTCAATATT
1 TTTTTATA-A
*
46732655 TTTTTATAT
1 TTTTTATAA
*
46732664 TTTTTACAA
1 TTTTTATAA
*
46732673 TTTATTATTAT
1 TTT-TTA-TAA
*
46732684 TTTTTAAGAA
1 TTTTT-ATAA
* *
46732694 TTCTAATACA
1 TTTTTATA-A
46732704 TTTTT-TAA
1 TTTTTATAA
*
46732712 TTTTGA-ATA
1 TTTTTATA-A
*
46732721 TTTTAATAA
1 TTTTTATAA
*
46732730 GTTTTATTAA
1 TTTTTA-TAA
46732740 -TTTTATAA
1 TTTTTATAA
* *
46732748 TTTATTAGAT
1 TTT-TTATAA
46732758 TTTTTATATA
1 TTTTTATA-A
*
46732768 TTTTTA-AGT
1 TTTTTATA-A
46732777 TTTTTATAA
1 TTTTTATAA
*
46732786 TTTTGATAA
1 TTTTTATAA
*
46732795 GTTTATATCAA
1 -TTTTTAT-AA
*
46732806 TTTTAAT-A
1 TTTTTATAA
46732814 -TTTTATAA
1 TTTTTATAA
*
46732822 TATTTA-ATA
1 TTTTTATA-A
*
46732831 TTTTTAT-T
1 TTTTTATAA
46732839 TTTTTATAA
1 TTTTTATAA
* *
46732848 TTTTTTTTA
1 TTTTTATAA
46732857 TTTTTAT
1 TTTTTAT
46732864 GGAAAAATTA
Statistics
Matches: 176, Mismatches: 41, Indels: 45
0.67 0.16 0.17
Matches are distributed among these distances:
7 5 0.03
8 19 0.11
9 81 0.46
10 62 0.35
11 9 0.05
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:46732762 original size:19 final size:18
Alignment explanation
Indices: 46732740--46732837 Score: 71
Period size: 19 Copynumber: 5.3 Consensus size: 18
46732730 GTTTTATTAA
46732740 TTTTATAATTTATT-AGATT
1 TTTTATAATTT-TTAAG-TT
46732759 TTTTATATATTTTTAAGTT
1 TTTTATA-ATTTTTAAGTT
46732778 TTTTATAATTTTGATAAG-T
1 TTTTATAATTTT--TAAGTT
* *
46732797 TTATATCAA-TTTTAA-TA
1 TTTTAT-AATTTTTAAGTT
*
46732814 TTTTATAATATTTAA-TAT
1 TTTTATAATTTTTAAGT-T
46732832 TTTTAT
1 TTTTAT
46732838 TTTTTTATAA
Statistics
Matches: 66, Mismatches: 5, Indels: 17
0.75 0.06 0.19
Matches are distributed among these distances:
16 2 0.03
17 14 0.21
18 11 0.17
19 27 0.41
20 12 0.18
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.62
Consensus pattern (18 bp):
TTTTATAATTTTTAAGTT
Found at i:46732779 original size:17 final size:18
Alignment explanation
Indices: 46732759--46732809 Score: 52
Period size: 20 Copynumber: 2.8 Consensus size: 18
46732749 TTATTAGATT
46732759 TTTTATAT-ATTTTTAAG
1 TTTTATATAATTTTTAAG
*
46732776 TTTTTTATAATTTTGATAAG
1 TTTTATATAATTTT--TAAG
46732796 -TTTATATCAATTTT
1 TTTTATAT-AATTTT
46732810 AATATTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
17 7 0.25
18 5 0.18
19 6 0.21
20 10 0.36
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.63
Consensus pattern (18 bp):
TTTTATATAATTTTTAAG
Found at i:46732835 original size:26 final size:26
Alignment explanation
Indices: 46732806--46732862 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
46732796 TTTATATCAA
46732806 TTTTAATATTTTATAATATTTAATAT
1 TTTTAATATTTTATAATATTTAATAT
* * * **
46732832 TTTTATTTTTTTATAATTTTTTTTAT
1 TTTTAATATTTTATAATATTTAATAT
46732858 TTTTA
1 TTTTA
46732863 TGGAAAAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (26 bp):
TTTTAATATTTTATAATATTTAATAT
Found at i:46744001 original size:50 final size:49
Alignment explanation
Indices: 46743877--46744071 Score: 171
Period size: 50 Copynumber: 3.9 Consensus size: 49
46743867 GATAATAGCA
* * * * *
46743877 TGCCAAAGTCATGTTCCAGACATGGTCTTACATGGGATGTT-TCCTGTAC-
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-CG
* *
46743926 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATC-G
* * ** ** * *
46743976 TGCCTATGCCATGTCCCAAACATGGTCTTACGGGGGACCTCTTATCTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATC-G
* *
46744026 TGCCAACGCCATGTCCTAGACATGGTCTTACATGGGA-TCTCTCATA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGT-TCTCATA
46744072 ACCTTAATAA
Statistics
Matches: 115, Mismatches: 27, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
48 4 0.03
49 36 0.31
50 75 0.65
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.30
Consensus pattern (49 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCG
Found at i:46746182 original size:18 final size:19
Alignment explanation
Indices: 46746147--46746183 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
46746137 CTCGAAAAAA
*
46746147 AATTCGAGTTAACTTGATT
1 AATTCGAGTTAACATGATT
46746166 AATTCGA-TTAACATGATT
1 AATTCGAGTTAACATGATT
46746184 CAAATAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.41
Consensus pattern (19 bp):
AATTCGAGTTAACATGATT
Found at i:46746574 original size:26 final size:26
Alignment explanation
Indices: 46746516--46746578 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 26
46746506 CTATTTTACC
*
46746516 CAGTAAAATTTTGACATTTTTACCCT
1 CAGTAAAATTTTGACATTTTAACCCT
*
46746542 CAATAAAATTTTGACAATTTTAACCCT
1 CAGTAAAATTTTGAC-ATTTTAACCCT
*
46746569 -GGTAAAATTT
1 CAGTAAAATTT
46746579 CAGGAAAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 22 0.69
27 10 0.31
ACGTcount: A:0.37, C:0.16, G:0.08, T:0.40
Consensus pattern (26 bp):
CAGTAAAATTTTGACATTTTAACCCT
Found at i:46749490 original size:94 final size:95
Alignment explanation
Indices: 46749326--46749733 Score: 447
Period size: 94 Copynumber: 4.3 Consensus size: 95
46749316 CATTAAAAGA
* *
46749326 GGTTACAAGTGTAAGACCATAGCTCGACTATGGA-AACATG-GAGAGTCTGTTGGGACAGTAAAC
1 GGTTACATGTGTAAGACCATAGCTCGACTAT-GACAACATGAG-GAGTCTGTCGGGACAGTAAAC
* *
46749389 -ATGGGGTAATTCACTAGGACATTAAACATGG
64 AATGGGGTAATCCACCAGGACATTAAACATGG
** * *
46749420 GGTTACATGTGTAAGACCATATTTC-AGCTATGACAACATGAGGAGTTTGTCGGGACAATAAACA
1 GGTTACATGTGTAAGACCATAGCTCGA-CTATGACAACATGAGGAGTCTGTCGGGACAGTAAACA
* * *
46749484 AT-GGGTAGTCTATCAGGACATTAAACATGG
65 ATGGGGTAATCCACCAGGACATTAAACATGG
* * * * * * * *
46749514 GGTTACATGTGTAAGGCCATATCT-TAGCTATGACAACATGGGGAGTCCGTCGAGATAGTAAA-T
1 GGTTACATGTGTAAGACCATAGCTCGA-CTATGACAACATGAGGAGTCTGTCGGGACAGTAAACA
* * * *
46749577 ATGGGGCAGTCCACCAGGAAATTAAACATGT
65 ATGGGGTAATCCACCAGGACATTAAACATGG
*
46749608 GGTTACATGTGTAAGACCATAGCTCGACTATGACAACATGAGGAGACTGTCGGGACAGTAAACAC
1 GGTTACATGTGTAAGACCATAGCTCGACTATGACAACATGAGGAGTCTGTCGGGACAGTAAACA-
* **
46749673 A--GGGTAGTCCACCAAAACATTAAACATGG
65 ATGGGGTAATCCACCAGGACATTAAACATGG
* *
46749702 GGTTACATGTGTACGATCATAGCTCGACTATG
1 GGTTACATGTGTAAGACCATAGCTCGACTATG
46749734 GCAGCATGTG
Statistics
Matches: 264, Mismatches: 41, Indels: 18
0.82 0.13 0.06
Matches are distributed among these distances:
93 5 0.02
94 254 0.96
95 4 0.02
96 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (95 bp):
GGTTACATGTGTAAGACCATAGCTCGACTATGACAACATGAGGAGTCTGTCGGGACAGTAAACAA
TGGGGTAATCCACCAGGACATTAAACATGG
Found at i:46755598 original size:14 final size:13
Alignment explanation
Indices: 46755579--46755609 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
46755569 GATGGATTTG
46755579 TATAATTCTTATCA
1 TATAATTCTTAT-A
46755593 TATAATTCTTATA
1 TATAATTCTTATA
46755606 TATA
1 TATA
46755610 TTGTACAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.52
Consensus pattern (13 bp):
TATAATTCTTATA
Found at i:46756563 original size:13 final size:13
Alignment explanation
Indices: 46756545--46756586 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
46756535 TCGCCATGCT
46756545 ATTAAGTATTTTG
1 ATTAAGTATTTTG
46756558 ATTAAGTATTTTG
1 ATTAAGTATTTTG
*
46756571 ATGTAATTA-TTTG
1 AT-TAAGTATTTTG
46756584 ATT
1 ATT
46756587 CTAATCAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 1 0.04
13 21 0.78
14 5 0.19
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
ATTAAGTATTTTG
Found at i:46757529 original size:85 final size:86
Alignment explanation
Indices: 46757386--46757553 Score: 275
Period size: 85 Copynumber: 2.0 Consensus size: 86
46757376 TTTTGTTTCC
*
46757386 AAATTAAAGGTAAATAAAATCTGTTTCGGGATTGATTCTTGTCGTTCAACGATTTTATTCC-ATT
1 AAATTAAAGGTAAATAAAATCTGTTTCGGGATTGATTCTCGTCGTTCAACGATTTTATTCCAATT
*
46757450 TTTATTTTATTTCCAAACGGG
66 TTGATTTTATTTCCAAACGGG
* * *
46757471 AAATTAAAGGTAAATAAAATTTGTTTCGGGATTGATTCTCGTTGTTCAATGATTTTATTCCAAAT
1 AAATTAAAGGTAAATAAAATCTGTTTCGGGATTGATTCTCGTCGTTCAACGATTTTATTCC-AAT
46757536 TTTGATTTTATTTCCAAA
65 TTTGATTTTATTTCCAAA
46757554 AGCGAGTAAA
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
85 57 0.75
87 19 0.25
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.43
Consensus pattern (86 bp):
AAATTAAAGGTAAATAAAATCTGTTTCGGGATTGATTCTCGTCGTTCAACGATTTTATTCCAATT
TTGATTTTATTTCCAAACGGG
Found at i:46757715 original size:80 final size:77
Alignment explanation
Indices: 46757482--46757708 Score: 249
Period size: 80 Copynumber: 2.9 Consensus size: 77
46757472 AATTAAAGGT
* *
46757482 AAATAAAATTTGTTTCGGGATTGATTCTCGTTGTTCAATGATTTTATTCCAAATTTTGATTTTAT
1 AAATAAAATCTGTTTCGGGATTGATTCTCCTT-TT-AATGATTTTATTCCAAATTTTGATTTTAT
* *
46757547 TTCCAAAAGCGAGTA
64 TT-GAAAAACGAGTA
* * * * * * * *
46757562 AATTCAAACCTATTTCGGGATTGATTTTCACTGTTCAACGATTTTATTCCAAATTTTAATTTTAT
1 AAATAAAATCTGTTTCGGGATTGATTCTC-CT-TTTAATGATTTTATTCCAAATTTTGATTTTA-
46757627 TTTGAAAAACGAGTA
63 TTTGAAAAACGAGTA
* *
46757642 AAATAAAATCTGTTTCAGGATTGATTCCTGCCTTTTAATGATTCTATTCCAAATTTTGATTTT-T
1 AAATAAAATCTGTTTCGGGATTGATT-CT-CCTTTTAATGATTTTATTCCAAATTTTGATTTTAT
46757706 TTG
64 TTG
46757709 GTAAAAATGA
Statistics
Matches: 120, Mismatches: 22, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
78 4 0.03
80 106 0.88
81 8 0.07
82 2 0.02
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.44
Consensus pattern (77 bp):
AAATAAAATCTGTTTCGGGATTGATTCTCCTTTTAATGATTTTATTCCAAATTTTGATTTTATTT
GAAAAACGAGTA
Found at i:46775592 original size:21 final size:21
Alignment explanation
Indices: 46775550--46775603 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
46775540 GTTGGTAAGA
*
46775550 AGAAAGTTGCTGCTGCAAAAG
1 AGAAAGTTGCTACTGCAAAAG
*
46775571 AGAAAGTTGTTACTG-AAGAAG
1 AGAAAGTTGCTACTGCAA-AAG
46775592 A-AGAAGTTGCTA
1 AGA-AAGTTGCTA
46775604 AATATGAGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 3 0.11
21 25 0.89
ACGTcount: A:0.41, C:0.09, G:0.28, T:0.22
Consensus pattern (21 bp):
AGAAAGTTGCTACTGCAAAAG
Found at i:46780739 original size:20 final size:21
Alignment explanation
Indices: 46780711--46780755 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
46780701 CACAAAAAAT
46780711 AACACCCAAAACAACACC-AA
1 AACACCCAAAACAACACCTAA
*
46780731 AACAGCCAAAACAACACCTAA
1 AACACCCAAAACAACACCTAA
46780752 AACA
1 AACA
46780756 ACCTACAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.60, C:0.36, G:0.02, T:0.02
Consensus pattern (21 bp):
AACACCCAAAACAACACCTAA
Found at i:46780746 original size:12 final size:11
Alignment explanation
Indices: 46780706--46780757 Score: 54
Period size: 12 Copynumber: 4.7 Consensus size: 11
46780696 AATAACACAA
*
46780706 AAAATAACACCC
1 AAAACAACA-CC
46780718 AAAACAACACC
1 AAAACAACACC
*
46780729 AAAAC-A-GCC
1 AAAACAACACC
46780738 AAAACAACACC
1 AAAACAACACC
46780749 TAAAACAAC
1 -AAAACAAC
46780758 CTACAAAATG
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 7 0.21
10 2 0.06
11 9 0.26
12 16 0.47
ACGTcount: A:0.62, C:0.33, G:0.02, T:0.04
Consensus pattern (11 bp):
AAAACAACACC
Found at i:46789343 original size:7 final size:7
Alignment explanation
Indices: 46789297--46789366 Score: 52
Period size: 7 Copynumber: 9.6 Consensus size: 7
46789287 TTTAATTTAA
46789297 TTTTCTT
1 TTTTCTT
46789304 TTCTTCTT
1 TT-TTCTT
*
46789312 TCTTCTT
1 TTTTCTT
*
46789319 TCTTCTT
1 TTTTCTT
*
46789326 TTCTTGGTT
1 TT-TT-CTT
46789335 TTTTCTT
1 TTTTCTT
* *
46789342 TTTCCCTA
1 TTT-TCTT
46789350 TTTTC-T
1 TTTTCTT
46789356 TTTTCTT
1 TTTTCTT
46789363 TTTT
1 TTTT
46789367 TGGTTCATCT
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
6 5 0.10
7 26 0.52
8 15 0.30
9 4 0.08
ACGTcount: A:0.01, C:0.20, G:0.03, T:0.76
Consensus pattern (7 bp):
TTTTCTT
Found at i:46789741 original size:18 final size:18
Alignment explanation
Indices: 46789714--46789748 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
46789704 GAATTTCGTT
*
46789714 GTTTTAGTTGTTTAATTG
1 GTTTTAGTTGGTTAATTG
*
46789732 GTTTTGGTTGGTTAATT
1 GTTTTAGTTGGTTAATT
46789749 TAGGCTCCAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.14, C:0.00, G:0.26, T:0.60
Consensus pattern (18 bp):
GTTTTAGTTGGTTAATTG
Found at i:46793926 original size:35 final size:35
Alignment explanation
Indices: 46793884--46794015 Score: 176
Period size: 35 Copynumber: 3.8 Consensus size: 35
46793874 TAATTATTCG
* *
46793884 TCAGTTTATCCGACTAGCGCTAGGCACAACTTTCA
1 TCAGTTTATCCGACTAGTGCTGGGCACAACTTTCA
** * * *
46793919 TCAGTTTATTTGACTAGTGCTGAGCAC-ACATTCG
1 TCAGTTTATCCGACTAGTGCTGGGCACAACTTTCA
*
46793953 TCGGTTTATCCGACTAGTGCTGGGCACAACTTTCA
1 TCAGTTTATCCGACTAGTGCTGGGCACAACTTTCA
*
46793988 TCAGTTTATCTGACTAGTGCTGGGCACA
1 TCAGTTTATCCGACTAGTGCTGGGCACA
46794016 TATTTGTCGG
Statistics
Matches: 81, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
34 28 0.35
35 53 0.65
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.32
Consensus pattern (35 bp):
TCAGTTTATCCGACTAGTGCTGGGCACAACTTTCA
Found at i:46793968 original size:34 final size:35
Alignment explanation
Indices: 46793879--46794032 Score: 152
Period size: 35 Copynumber: 4.5 Consensus size: 35
46793869 CTCACTAATT
*
46793879 ATTCGTCAGTTTATCCGACTAGCGCT-AGGCACAAC
1 ATTCGTCAGTTTATCCGACTAGTGCTGA-GCACAAC
* * **
46793914 TTTCATCAGTTTATTTGACTAGTGCTGAGCAC-AC
1 ATTCGTCAGTTTATCCGACTAGTGCTGAGCACAAC
* *
46793948 ATTCGTCGGTTTATCCGACTAGTGCTGGGCACAAC
1 ATTCGTCAGTTTATCCGACTAGTGCTGAGCACAAC
* * * * *
46793983 TTTCATCAGTTTATCTGACTAGTGCTGGGCAC-AT
1 ATTCGTCAGTTTATCCGACTAGTGCTGAGCACAAC
* *
46794017 ATTTGTCGGTTTATCC
1 ATTCGTCAGTTTATCC
46794033 AGCTAGCACT
Statistics
Matches: 96, Mismatches: 21, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
34 40 0.42
35 55 0.57
36 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.34
Consensus pattern (35 bp):
ATTCGTCAGTTTATCCGACTAGTGCTGAGCACAAC
Found at i:46794081 original size:35 final size:37
Alignment explanation
Indices: 46794019--46794105 Score: 90
Period size: 35 Copynumber: 2.4 Consensus size: 37
46794009 GGGCACATAT
* *
46794019 TTGTCGGTTTATCCAGCTAGCACTGGGCGCA-AA-TA
1 TTGTCGGTTTATCCAACAAGCACTGGGCGCACAATTA
* *
46794054 TTGTCGGTTTATCCAACAAG-AGTTGGGCTCACTAATTA
1 TTGTCGGTTTATCCAACAAGCA-CTGGGCGCAC-AATTA
46794092 TTCGTCGGTTTATC
1 TT-GTCGGTTTATC
46794106 TGACTAGCGC
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
34 1 0.02
35 25 0.58
37 2 0.05
38 4 0.09
39 11 0.26
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.34
Consensus pattern (37 bp):
TTGTCGGTTTATCCAACAAGCACTGGGCGCACAATTA
Found at i:46794191 original size:69 final size:70
Alignment explanation
Indices: 46793879--46794193 Score: 275
Period size: 69 Copynumber: 4.5 Consensus size: 70
46793869 CTCACTAATT
* * * *
46793879 ATTCGTCAGTTTATCCGACTAGCGCTAGGCACAACTTTCATCAGTTTAT-TTGACTAGTGCTGAG
1 ATTCGTCGGTTTATCCGACTAGCGCTGGGCGCAACTTTCATCAGTTTATCTT-ACTAGTGCTGGG
46793943 CACAC-
65 CACACA
* * *
46793948 ATTCGTCGGTTTATCCGACTAGTGCTGGGCACAACTTTCATCAGTTTATCTGACTAGTGCTGGGC
1 ATTCGTCGGTTTATCCGACTAGCGCTGGGCGCAACTTTCATCAGTTTATCTTACTAGTGCTGGGC
*
46794013 ACA-T
66 ACACA
* * * * * ** * * *
46794017 ATTTGTCGGTTTATCC-AGCTAGCACTGGGCGCAAATATT-GTCGGTTTATCCAACAAGAGTTGG
1 ATTCGTCGGTTTATCCGA-CTAGCGCTGGGCGCAACT-TTCATCAGTTTATCTTACTAGTGCTGG
*
46794080 GCTCACTAA
64 GCACAC--A
* * * * *
46794089 TTATTCGTCGGTTTATCTGACTAGCGCTAGGCGCAACCTTT-GTCATTTTATCTTACTAGTGCAG
1 --ATTCGTCGGTTTATCCGACTAGCGCTGGGCGCAA-CTTTCATCAGTTTATCTTACTAGTGCTG
46794153 GGCACACA
63 GGCACACA
* *
46794161 ATT-GTCAGTTTATCCGACTAGCACTGGGCGCAA
1 ATTCGTCGGTTTATCCGACTAGCGCTGGGCGCAA
46794194 ACTCTTTTGC
Statistics
Matches: 198, Mismatches: 37, Indels: 22
0.77 0.14 0.09
Matches are distributed among these distances:
68 1 0.01
69 137 0.69
70 6 0.03
72 1 0.01
74 51 0.26
75 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (70 bp):
ATTCGTCGGTTTATCCGACTAGCGCTGGGCGCAACTTTCATCAGTTTATCTTACTAGTGCTGGGC
ACACA
Found at i:46802959 original size:22 final size:22
Alignment explanation
Indices: 46802931--46802974 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
46802921 GTGAACAACT
46802931 CACCCTTGTATTTATACTAGGG
1 CACCCTTGTATTTATACTAGGG
46802953 CACCCTTGTATTTATACTAGGG
1 CACCCTTGTATTTATACTAGGG
46802975 TTGCCACCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (22 bp):
CACCCTTGTATTTATACTAGGG
Found at i:46813806 original size:19 final size:19
Alignment explanation
Indices: 46813765--46813806 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
46813755 ATTGAACTTG
* *
46813765 AAAATTGGACCCAAGATCG
1 AAAATTGGACCCAAGAACC
*
46813784 AAAATTGGACCCGAGAACC
1 AAAATTGGACCCAAGAACC
46813803 AAAA
1 AAAA
46813807 ATCAAGACTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.48, C:0.21, G:0.19, T:0.12
Consensus pattern (19 bp):
AAAATTGGACCCAAGAACC
Found at i:46814237 original size:31 final size:31
Alignment explanation
Indices: 46814201--46814305 Score: 124
Period size: 31 Copynumber: 3.4 Consensus size: 31
46814191 TATACTAAAT
* *
46814201 TTAATTTAATATTTATCTAGACAGTAATTTA
1 TTAATTTAATATTTATCTAGATAATAATTTA
* * * *
46814232 TTAATTTAATATTAATATGAGATATTAA-AT-
1 TTAATTTAATATTTATCT-AGATAATAATTTA
*
46814262 TTAATTTAATATTTATCTAGATAATATTTTA
1 TTAATTTAATATTTATCTAGATAATAATTTA
46814293 TTAATTTAATATT
1 TTAATTTAATATT
46814306 AATATGGTTA
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
29 7 0.11
30 17 0.28
31 30 0.49
32 7 0.11
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (31 bp):
TTAATTTAATATTTATCTAGATAATAATTTA
Found at i:46814250 original size:61 final size:61
Alignment explanation
Indices: 46814179--46814311 Score: 221
Period size: 61 Copynumber: 2.2 Consensus size: 61
46814169 ATTTATCTTG
* *
46814179 ATATTAATATGATATACTAAATTTAATTTAATATTTATCTAGACAGTAATTTATTAATTTA
1 ATATTAATATGAGATACTAAATTTAATTTAATATTTATCTAGACAATAATTTATTAATTTA
* * *
46814240 ATATTAATATGAGATATTAAATTTAATTTAATATTTATCTAGATAATATTTTATTAATTTA
1 ATATTAATATGAGATACTAAATTTAATTTAATATTTATCTAGACAATAATTTATTAATTTA
46814301 ATATTAATATG
1 ATATTAATATG
46814312 GTTAATTCTA
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 67 1.00
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (61 bp):
ATATTAATATGAGATACTAAATTTAATTTAATATTTATCTAGACAATAATTTATTAATTTA
Found at i:46814973 original size:3 final size:3
Alignment explanation
Indices: 46814967--46815004 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
46814957 ATCAAAGACA
*
46814967 AAT AAT AAT AAT ATT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
46815005 AAGATACTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:46815098 original size:11 final size:11
Alignment explanation
Indices: 46815081--46815121 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
46815071 TTAAAATTTT
46815081 AATTTTTTATA
1 AATTTTTTATA
*
46815092 TATTTTTT-TA
1 AATTTTTTATA
46815102 GAA-TTTTTATA
1 -AATTTTTTATA
46815113 AATTTTTTA
1 AATTTTTTA
46815122 AAAAAATGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 9 0.36
11 16 0.64
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (11 bp):
AATTTTTTATA
Found at i:46821598 original size:39 final size:41
Alignment explanation
Indices: 46821555--46821658 Score: 115
Period size: 44 Copynumber: 2.5 Consensus size: 41
46821545 TCCTTATGCT
*
46821555 ATTACAGC-TCTATTCCATTCAACCAAACACAAGAA-TA-CC
1 ATTAC-GCATCTATTCCATTCAACCAAACAAAAGAATTACCC
*
46821594 ATTACGCTTCTATTCCATTCCATTCAACCAAACAAAAGAATTACCC
1 ATTACG---C-A-TCTATTCCATTCAACCAAACAAAAGAATTACCC
46821640 ATTACGCATCTATTCCATT
1 ATTACGCATCTATTCCATT
46821659 ACAGCGAACC
Statistics
Matches: 54, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
38 1 0.02
39 5 0.09
41 11 0.20
42 1 0.02
43 1 0.02
44 25 0.46
45 2 0.04
46 8 0.15
ACGTcount: A:0.37, C:0.30, G:0.05, T:0.29
Consensus pattern (41 bp):
ATTACGCATCTATTCCATTCAACCAAACAAAAGAATTACCC
Found at i:46821633 original size:44 final size:46
Alignment explanation
Indices: 46821566--46821658 Score: 154
Period size: 44 Copynumber: 2.1 Consensus size: 46
46821556 TTACAGCTCT
* *
46821566 ATTCCATTCAACCAAACACAAGAA-TA-CCATTACGCTTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCCATTACGCATCTATTCC
46821610 ATTCCATTCAACCAAACAAAAGAATTACCCATTACGCATCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCCATTACGCATCTATTCC
46821656 ATT
1 ATT
46821659 ACAGCGAACC
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 23 0.51
45 2 0.04
46 20 0.44
ACGTcount: A:0.38, C:0.30, G:0.04, T:0.28
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAAAAGAATTACCCATTACGCATCTATTCC
Found at i:46821669 original size:46 final size:44
Alignment explanation
Indices: 46821574--46821671 Score: 126
Period size: 46 Copynumber: 2.2 Consensus size: 44
46821564 CTATTCCATT
* * * *
46821574 CAACCAAACACAAGAATACCATTACGCTTCTATTCCATTCCATT
1 CAACCAAACAAAAGAATACCATTACGCATCTATTCCATTACATG
46821618 CAACCAAACAAAAGAATTACCCATTACGCATCTATTCCATTACA-G
1 CAACCAAACAAAAGAA-TA-CCATTACGCATCTATTCCATTACATG
46821663 CGAACCAAA
1 C-AACCAAA
46821672 TGTCCCCTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
44 15 0.32
45 3 0.06
46 29 0.62
ACGTcount: A:0.41, C:0.31, G:0.06, T:0.22
Consensus pattern (44 bp):
CAACCAAACAAAAGAATACCATTACGCATCTATTCCATTACATG
Found at i:46824516 original size:3 final size:3
Alignment explanation
Indices: 46824508--46824538 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
46824498 TTTTCCTAAT
46824508 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
46824539 CCTTCTTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:46825347 original size:15 final size:14
Alignment explanation
Indices: 46825273--46825351 Score: 70
Period size: 15 Copynumber: 5.4 Consensus size: 14
46825263 GGGCTTTTTT
* *
46825273 AGAGAAAAAGAAGA
1 AGAGAAAGAGAAAA
*
46825287 AG-GAAAGAAAGAAA
1 AGAGAAAGAGA-AAA
*
46825301 AGAGATAAGAAAAAA
1 AGAGA-AAGAGAAAA
46825316 AGAGAAAAGAGAAAA
1 AGAG-AAAGAGAAAA
*
46825331 AGAGAAAGACGATAA
1 AGAGAAAGA-GAAAA
46825346 AGAGAA
1 AGAGAA
46825352 GGAAAGAAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
13 6 0.11
14 11 0.20
15 31 0.56
16 7 0.13
ACGTcount: A:0.70, C:0.01, G:0.27, T:0.03
Consensus pattern (14 bp):
AGAGAAAGAGAAAA
Found at i:46825682 original size:19 final size:19
Alignment explanation
Indices: 46825652--46825714 Score: 74
Period size: 19 Copynumber: 3.3 Consensus size: 19
46825642 TTGTATAAGG
*
46825652 TTTTGAGTTTTTTTATATT
1 TTTTTAGTTTTTTTATATT
46825671 TTTTTAAG-TTTTTTATATAT
1 TTTTT-AGTTTTTTTATAT-T
**
46825691 TCATTAGTTTTTTTATATT
1 TTTTTAGTTTTTTTATATT
46825710 TTTTT
1 TTTTT
46825715 TGAAATGTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
19 20 0.56
20 16 0.44
ACGTcount: A:0.19, C:0.02, G:0.06, T:0.73
Consensus pattern (19 bp):
TTTTTAGTTTTTTTATATT
Found at i:46835321 original size:11 final size:11
Alignment explanation
Indices: 46835307--46835334 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
46835297 TAAGAAGGAA
46835307 TTGAGAGAGAT
1 TTGAGAGAGAT
46835318 TTGAGAGAGAT
1 TTGAGAGAGAT
46835329 TTGAGA
1 TTGAGA
46835335 ATGTGAGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.36, T:0.29
Consensus pattern (11 bp):
TTGAGAGAGAT
Found at i:46836245 original size:21 final size:21
Alignment explanation
Indices: 46836219--46836259 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
46836209 AGACTTTTCA
46836219 AACACTTTTACATGATTTAAT
1 AACACTTTTACATGATTTAAT
46836240 AACACTTTTACATGATTTAA
1 AACACTTTTACATGATTTAA
46836260 CTTTAAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.15, G:0.05, T:0.41
Consensus pattern (21 bp):
AACACTTTTACATGATTTAAT
Found at i:46837166 original size:3 final size:3
Alignment explanation
Indices: 46837158--46837231 Score: 93
Period size: 3 Copynumber: 26.0 Consensus size: 3
46837148 CCTAGGCAGT
* * *
46837158 AGA AGA AGA AG- AGA AAA AGA AGA AGA AG- AGA AGA A-A TGG AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
46837203 AGA AGA AGA AGA AGA A-A AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
46837232 GAAAATTGAA
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
2 7 0.11
3 54 0.89
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.01
Consensus pattern (3 bp):
AGA
Found at i:46837180 original size:17 final size:17
Alignment explanation
Indices: 46837158--46837236 Score: 82
Period size: 17 Copynumber: 5.0 Consensus size: 17
46837148 CCTAGGCAGT
46837158 AGAAGAAGAAGAGAAAA
1 AGAAGAAGAAGAGAAAA
46837175 AGAAGAAGAAGAG---A
1 AGAAGAAGAAGAGAAAA
* *
46837189 AGAA-ATG--GAGAAGA
1 AGAAGAAGAAGAGAAAA
46837203 AGAAGAAGAAGA-AGAAA
1 AGAAGAAGAAGAGA-AAA
46837220 AGAAGAAGAAGAGAAAA
1 AGAAGAAGAAGAGAAAA
46837237 TTGAAGGAGC
Statistics
Matches: 51, Mismatches: 3, Indels: 16
0.73 0.04 0.23
Matches are distributed among these distances:
11 3 0.06
13 2 0.04
14 10 0.20
15 2 0.04
16 1 0.02
17 32 0.63
18 1 0.02
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.01
Consensus pattern (17 bp):
AGAAGAAGAAGAGAAAA
Found at i:46838297 original size:40 final size:41
Alignment explanation
Indices: 46838250--46838330 Score: 112
Period size: 40 Copynumber: 2.0 Consensus size: 41
46838240 GTAACAGTTT
* * *
46838250 GGGCCTTAGCCCATTTCAGTA-CAGTATCAAAT-ATGCAGTA
1 GGGCCTTAGCCCATTACAATATCAGTAGC-AATCATGCAGTA
46838290 GGGCCTTAGCCCATTACAATATCAGTAGCAATCATGCAGTA
1 GGGCCTTAGCCCATTACAATATCAGTAGCAATCATGCAGTA
46838331 TTCAGTAACA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
40 22 0.61
41 14 0.39
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (41 bp):
GGGCCTTAGCCCATTACAATATCAGTAGCAATCATGCAGTA
Found at i:46838803 original size:18 final size:18
Alignment explanation
Indices: 46838780--46838824 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
46838770 ATTTGGTCTG
* *
46838780 CCCGTGTGGATCGACACA
1 CCCGTGTGGACCCACACA
*
46838798 CCCGTGTGGACCCACACG
1 CCCGTGTGGACCCACACA
46838816 CCCGTGTGG
1 CCCGTGTGG
46838825 CTCACTTGGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.16, C:0.38, G:0.31, T:0.16
Consensus pattern (18 bp):
CCCGTGTGGACCCACACA
Found at i:46846318 original size:16 final size:16
Alignment explanation
Indices: 46846278--46846323 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
46846268 CCCTTATAAA
*
46846278 AAATGTTATAAATTAT
1 AAATGTTATATATTAT
*
46846294 AAAAGTTATATATTAT
1 AAATGTTATATATTAT
46846310 AAAT-TT-TATATTAT
1 AAATGTTATATATTAT
46846324 TTTGACCTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 8 0.30
15 2 0.07
16 17 0.63
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (16 bp):
AAATGTTATATATTAT
Found at i:46847675 original size:13 final size:13
Alignment explanation
Indices: 46847657--46847681 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46847647 ATTTTTTTAA
46847657 TTTTAATTAATAT
1 TTTTAATTAATAT
46847670 TTTTAATTAATA
1 TTTTAATTAATA
46847682 ACTCATTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTAATTAATAT
Found at i:46862119 original size:13 final size:13
Alignment explanation
Indices: 46862101--46862125 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46862091 AATAATTTAT
46862101 TATTTAAAATATA
1 TATTTAAAATATA
46862114 TATTTAAAATAT
1 TATTTAAAATAT
46862126 CACAATATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TATTTAAAATATA
Found at i:46866607 original size:26 final size:26
Alignment explanation
Indices: 46866578--46866628 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
46866568 AAAATAATCA
*
46866578 TTAACGTATCAAATAATTATTTTTAT
1 TTAACATATCAAATAATTATTTTTAT
*
46866604 TTAATATATCAAATAATTATTTTTA
1 TTAACATATCAAATAATTATTTTTA
46866629 GAAAGGGATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.51
Consensus pattern (26 bp):
TTAACATATCAAATAATTATTTTTAT
Found at i:46867592 original size:21 final size:22
Alignment explanation
Indices: 46867567--46867610 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
46867557 TAAAAAAACC
46867567 CTAATATTTTTCCA-TGTTTTG
1 CTAATATTTTTCCACTGTTTTG
* *
46867588 CTAATGTTTTTCCACTTTTTTG
1 CTAATATTTTTCCACTGTTTTG
46867610 C
1 C
46867611 CACTATTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.16, C:0.18, G:0.09, T:0.57
Consensus pattern (22 bp):
CTAATATTTTTCCACTGTTTTG
Found at i:46874470 original size:13 final size:13
Alignment explanation
Indices: 46874435--46874472 Score: 67
Period size: 14 Copynumber: 2.8 Consensus size: 13
46874425 GATATATTTG
46874435 TAATTTGAAAACT
1 TAATTTGAAAACT
46874448 TAAGTTTGAAAACT
1 TAA-TTTGAAAACT
46874462 TAATTTGAAAA
1 TAATTTGAAAA
46874473 TTTGGAAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (13 bp):
TAATTTGAAAACT
Found at i:46874804 original size:34 final size:34
Alignment explanation
Indices: 46874710--46874902 Score: 206
Period size: 34 Copynumber: 5.6 Consensus size: 34
46874700 TCACTTGTCT
* *
46874710 TTTCTTGCAGGGAATATTTCCTGTTCACGCATTA
1 TTTCTTGCAGGGAATCTTTCCTGTTCACGCATCA
* * *
46874744 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATCA
1 -TTTCTTGCAGGGAATCTTTCCTGTTCACGCATCA
* * *
46874779 TTTCTTGTAGGGAATTTTTCATGTTCACGCATCA
1 TTTCTTGCAGGGAATCTTTCCTGTTCACGCATCA
* * *
46874813 TTTCTTGCAGGGAACCTTTCCTGTCCACGCATTA
1 TTTCTTGCAGGGAATCTTTCCTGTTCACGCATCA
* * *
46874847 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATCA
1 -TTTCTTGCAGGGAATCTTTCCTGTTCACGCATCA
* **
46874882 TTTTTTATAGGGAATCATTTC
1 TTTCTTGCAGGGAATC-TTTC
46874903 TGGTATTATT
Statistics
Matches: 129, Mismatches: 27, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
34 69 0.53
35 60 0.47
ACGTcount: A:0.20, C:0.22, G:0.17, T:0.40
Consensus pattern (34 bp):
TTTCTTGCAGGGAATCTTTCCTGTTCACGCATCA
Found at i:46874860 original size:69 final size:69
Alignment explanation
Indices: 46874709--46874884 Score: 210
Period size: 69 Copynumber: 2.6 Consensus size: 69
46874699 TTCACTTGTC
* * * *
46874709 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACA
1 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATCA-TTTCTTGCAGGGAACCTCTCCTGTCCACA
46874774 CATCA
65 CATCA
* * * * *
46874779 -TTTCTTGTAGGGAATTTTTCATGTTCACGCATCATTTCTTGCAGGGAACCTTTCCTGTCCACGC
1 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATCATTTCTTGCAGGGAACCTCTCCTGTCCACAC
*
46874843 ATTA
66 ATCA
* * * *
46874847 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATCATTT
1 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATCATTT
46874885 TTTATAGGGA
Statistics
Matches: 89, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
68 28 0.31
69 61 0.69
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.40
Consensus pattern (69 bp):
TTTTCTTGCAGGGAATATTTCCTGTTCACGCATCATTTCTTGCAGGGAACCTCTCCTGTCCACAC
ATCA
Found at i:46874878 original size:103 final size:103
Alignment explanation
Indices: 46874710--46874896 Score: 329
Period size: 103 Copynumber: 1.8 Consensus size: 103
46874700 TCACTTGTCT
* *
46874710 TTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAC
1 TTTCTTGCAGGGAACATTTCCTGTCCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAC
*
46874775 ATCATTTCTTGTAGGGAATTTTTCATGTTCACGCATCA
66 ATCATTTCTTATAGGGAATTTTTCATGTTCACGCATCA
*
46874813 TTTCTTGCAGGGAACCTTTCCTGTCCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAC
1 TTTCTTGCAGGGAACATTTCCTGTCCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAC
*
46874878 ATCATTTTTTATAGGGAAT
66 ATCATTTCTTATAGGGAAT
46874897 CATTTCTGGT
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 79 1.00
ACGTcount: A:0.20, C:0.22, G:0.18, T:0.40
Consensus pattern (103 bp):
TTTCTTGCAGGGAACATTTCCTGTCCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAC
ATCATTTCTTATAGGGAATTTTTCATGTTCACGCATCA
Found at i:46877618 original size:21 final size:23
Alignment explanation
Indices: 46877594--46877636 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
46877584 TTAATTTTTT
*
46877594 AAAACATATTT-CTTCT-TTTAG
1 AAAACAGATTTGCTTCTGTTTAG
*
46877615 AAAAGAGATTTGCTTCTGTTTA
1 AAAACAGATTTGCTTCTGTTTA
46877637 TAATTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.44
Consensus pattern (23 bp):
AAAACAGATTTGCTTCTGTTTAG
Found at i:46881534 original size:13 final size:14
Alignment explanation
Indices: 46881501--46881544 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
46881491 AGATCAACAC
46881501 AGCCCAATCAGCCTA
1 AGCCCAA-CAGCCTA
*
46881516 AGCCCAACA-CCTT
1 AGCCCAACAGCCTA
46881529 AGCCCAACTAGCCTA
1 AGCCCAAC-AGCCTA
46881544 A
1 A
46881545 ACAAGCAGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 11 0.44
14 3 0.12
15 11 0.44
ACGTcount: A:0.34, C:0.41, G:0.11, T:0.14
Consensus pattern (14 bp):
AGCCCAACAGCCTA
Found at i:46884897 original size:21 final size:21
Alignment explanation
Indices: 46884872--46885006 Score: 112
Period size: 21 Copynumber: 6.4 Consensus size: 21
46884862 GTGTTTTACT
* *
46884872 TTTTGTTTAGCTCTTATGAGC
1 TTTTGTTCAACTCTTATGAGC
* *
46884893 TTTTGTTTAACTCATATGAG-
1 TTTTGTTCAACTCTTATGAGC
*
46884913 TTTCTGTTCAGCTCTTATGAGC
1 TTT-TGTTCAACTCTTATGAGC
* * *
46884935 TTCTATTAAACTCTTATGAG-
1 TTTTGTTCAACTCTTATGAGC
* *
46884955 TTTCTGTTCAGCTCTTACGAGC
1 TTT-TGTTCAACTCTTATGAGC
* * *
46884977 TTCTGCTCAACTCTTACGAGC
1 TTTTGTTCAACTCTTATGAGC
*
46884998 TTTTATTCA
1 TTTTGTTCA
46885007 GCTTTCGAGC
Statistics
Matches: 90, Mismatches: 20, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
20 5 0.06
21 81 0.90
22 4 0.04
ACGTcount: A:0.19, C:0.20, G:0.15, T:0.46
Consensus pattern (21 bp):
TTTTGTTCAACTCTTATGAGC
Found at i:46884989 original size:42 final size:42
Alignment explanation
Indices: 46884875--46885025 Score: 173
Period size: 42 Copynumber: 3.6 Consensus size: 42
46884865 TTTTACTTTT
* * * * *
46884875 TGTTTAGCTCTTATGAGCTTTTGTTTAACTCATATGAGTTTC
1 TGTTCAGCTCTTACGAGCTTCTGTTAAACTCTTATGAGTTTC
* *
46884917 TGTTCAGCTCTTATGAGCTTCTATTAAACTCTTATGAGTTTC
1 TGTTCAGCTCTTACGAGCTTCTGTTAAACTCTTATGAGTTTC
* * *
46884959 TGTTCAGCTCTTACGAGCTTCTGCTCAACTCTTACGAGCTTT-
1 TGTTCAGCTCTTACGAGCTTCTGTTAAACTCTTATGAG-TTTC
*
46885001 TATTCAGCT-TT-CGAGCTTCTGTTAA
1 TGTTCAGCTCTTACGAGCTTCTGTTAA
46885026 CGATGTACTC
Statistics
Matches: 95, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
40 12 0.13
41 2 0.02
42 78 0.82
43 3 0.03
ACGTcount: A:0.19, C:0.21, G:0.16, T:0.44
Consensus pattern (42 bp):
TGTTCAGCTCTTACGAGCTTCTGTTAAACTCTTATGAGTTTC
Found at i:46884992 original size:63 final size:63
Alignment explanation
Indices: 46884882--46885004 Score: 149
Period size: 63 Copynumber: 2.0 Consensus size: 63
46884872 TTTTGTTTAG
* * * * * *
46884882 CTCTTATGAGCTTTTGTTTAACTCATATGAGTTTCTGTTCAGCTCTTATGAGCTTCTATTAAA
1 CTCTTATGAGCTTTTGTTCAACTCATACGAGCTTCTGCTCAACTCTTACGAGCTTCTATTAAA
* * *
46884945 CTCTTATGAG-TTTCTGTTCAGCTCTTACGAGCTTCTGCTCAACTCTTACGAGCTTTTATT
1 CTCTTATGAGCTTT-TGTTCAACTCATACGAGCTTCTGCTCAACTCTTACGAGCTTCTATT
46885005 CAGCTTTCGA
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
62 3 0.06
63 47 0.94
ACGTcount: A:0.20, C:0.21, G:0.15, T:0.45
Consensus pattern (63 bp):
CTCTTATGAGCTTTTGTTCAACTCATACGAGCTTCTGCTCAACTCTTACGAGCTTCTATTAAA
Found at i:46888486 original size:31 final size:31
Alignment explanation
Indices: 46888451--46888511 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
46888441 GTATAATTTA
*
46888451 ATTTAATTAATTATAGTATTTGTACTTTTTG
1 ATTTAATCAATTATAGTATTTGTACTTTTTG
* *
46888482 ATTTAATCAATTTTAGTTTTTGTACTTTTT
1 ATTTAATCAATTATAGTATTTGTACTTTTT
46888512 AAAATATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.26, C:0.05, G:0.08, T:0.61
Consensus pattern (31 bp):
ATTTAATCAATTATAGTATTTGTACTTTTTG
Found at i:46901231 original size:6 final size:6
Alignment explanation
Indices: 46901220--46901249 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
46901210 GCATGCATGC
46901220 ATGTGT ATGTGT ATGTGT ATGTGT ATGTGT
1 ATGTGT ATGTGT ATGTGT ATGTGT ATGTGT
46901250 GTGTATACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (6 bp):
ATGTGT
Found at i:46926487 original size:27 final size:25
Alignment explanation
Indices: 46926430--46926517 Score: 133
Period size: 25 Copynumber: 3.6 Consensus size: 25
46926420 ATTATACATT
46926430 AAATATATATATTTTATTTTTAATC
1 AAATATATATATTTTATTTTTAATC
46926455 AAATATATATATTTTATTTTTAATC
1 AAATATATATATTTTATTTTTAATC
* * * *
46926480 AAATATATATATTTTGTATAT-ATT
1 AAATATATATATTTTATTTTTAATC
46926504 AAATATATATATTT
1 AAATATATATATTT
46926518 AATATGGGTC
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
24 16 0.27
25 43 0.73
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.55
Consensus pattern (25 bp):
AAATATATATATTTTATTTTTAATC
Done.