Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 171 of 211
Found at i:50626350 original size:30 final size:30
Alignment explanation
Indices: 50626316--50626417 Score: 127
Period size: 30 Copynumber: 3.4 Consensus size: 30
50626306 GCTATCAAAT
50626316 TATGAAAAGGGATGGTGACGACCATCGAAC
1 TATGAAAAGGGATGGTGACGACCATCGAAC
* * *
50626346 TATGAAAAGGGATGGTGACGACTATCAAAT
1 TATGAAAAGGGATGGTGACGACCATCGAAC
* * *
50626376 TATGAAAAGGGATAGCT-TCGCCCATCGAAC
1 TATGAAAAGGGAT-GGTGACGACCATCGAAC
50626406 TATG-AAAGGGAT
1 TATGAAAAGGGAT
50626418 AACTTTGGTT
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
29 8 0.13
30 52 0.84
31 2 0.03
ACGTcount: A:0.37, C:0.15, G:0.27, T:0.21
Consensus pattern (30 bp):
TATGAAAAGGGATGGTGACGACCATCGAAC
Found at i:50626410 original size:90 final size:89
Alignment explanation
Indices: 50626112--50626417 Score: 264
Period size: 90 Copynumber: 3.4 Consensus size: 89
50626102 TCAACGAATG
* * * * *
50626112 AAAAGGAATAGCTTCGGCTATCG-ATTATGTAAA-GGAAGGTGACGACCAGCTAACTATTAAAAG
1 AAAAGG-ATAGCTTCGGCTATCGAACTATGAAAAGGGATGGTGACGACCATCTAACTATGAAAAG
* * *
50626175 GGATGGTGACTACCATCGAACTATGA
65 GGATGGTGACGACTATC-AATTATGA
* * * * ** * * * *
50626201 AAAAGGATGGTTTCGGCTATTGAACTATGAAAAGAGATAACT-TCAACTAT-TAATTTATGAAAA
1 AAAAGGATAGCTTCGGCTATCGAACTATGAAAAGGGAT-GGTGACGACCATCTAA-CTATGAAAA
* *
50626264 GGGATGGCT-TCGGCTATCAATCTATGA
64 GGGATGG-TGACGACTATCAAT-TATGA
* * * *
50626291 AAAAGGATAGCTTCAGCTATCAAATTATGAAAAGGGATGGTGACGACCATCGAACTATGAAAAGG
1 AAAAGGATAGCTTCGGCTATCGAACTATGAAAAGGGATGGTGACGACCATCTAACTATGAAAAGG
50626356 GATGGTGACGACTATCAAATTATGA
66 GATGGTGACGACTATC-AATTATGA
* * *
50626381 AAAGGGATAGCTTCGCCCATCGAACTATG-AAAGGGAT
1 AAAAGGATAGCTTCGGCTATCGAACTATGAAAAGGGAT
50626418 AACTTTGGTT
Statistics
Matches: 165, Mismatches: 42, Indels: 20
0.73 0.19 0.09
Matches are distributed among these distances:
88 13 0.08
89 29 0.18
90 116 0.70
91 7 0.04
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (89 bp):
AAAAGGATAGCTTCGGCTATCGAACTATGAAAAGGGATGGTGACGACCATCTAACTATGAAAAGG
GATGGTGACGACTATCAATTATGA
Found at i:50636849 original size:41 final size:41
Alignment explanation
Indices: 50636792--50636869 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
50636782 AATTGAGTTG
*
50636792 TTATGGCGGTGTATTGTATTGGGCCTTG-GACCTAGCAAGCT
1 TTATGGCGGTGTATTGTATAGGGCCTTGAG-CCTAGCAAGCT
* *
50636833 TTATGTCGGTGTATTGTGTAGGGCCTTGAGCCTAGCA
1 TTATGGCGGTGTATTGTATAGGGCCTTGAGCCTAGCA
50636870 GGCCTCGTAC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 32 0.97
42 1 0.03
ACGTcount: A:0.17, C:0.17, G:0.32, T:0.35
Consensus pattern (41 bp):
TTATGGCGGTGTATTGTATAGGGCCTTGAGCCTAGCAAGCT
Found at i:50636902 original size:38 final size:38
Alignment explanation
Indices: 50636853--50636992 Score: 138
Period size: 38 Copynumber: 3.7 Consensus size: 38
50636843 GTATTGTGTA
* * *
50636853 GGGCCTTGAGCCTAGCAGGCCTCGTACCAGTGTTTATC
1 GGGCTTTGAGCCTAGCAGGCTTCGTACCAGTGTTAATC
* * * * **
50636891 GGGCTTTGAGCCTAGCAAGCTTCATGCTAGTGACCAATC
1 GGGCTTTGAGCCTAGCAGGCTTCGTACCAGTG-TTAATC
* * *
50636930 GGGCTTTGAGCCTAGTAGGCTTCGTACCAATGTTCATC
1 GGGCTTTGAGCCTAGCAGGCTTCGTACCAGTGTTAATC
*
50636968 TGGC-TTGATGCCTAGCAGGCTTCGT
1 GGGCTTTGA-GCCTAGCAGGCTTCGT
50636993 GCTGGTGTAA
Statistics
Matches: 80, Mismatches: 20, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
37 4 0.05
38 47 0.59
39 29 0.36
ACGTcount: A:0.18, C:0.26, G:0.28, T:0.29
Consensus pattern (38 bp):
GGGCTTTGAGCCTAGCAGGCTTCGTACCAGTGTTAATC
Found at i:50636955 original size:77 final size:77
Alignment explanation
Indices: 50636853--50636995 Score: 198
Period size: 77 Copynumber: 1.9 Consensus size: 77
50636843 GTATTGTGTA
* *
50636853 GGGCCTTGAGCCTAGCAGGCCTCGTACCAGTGTTTATCGGGCTTTGA-GCCTAGCAAGCTTCATG
1 GGGCCTTGAGCCTAGCAGGCCTCGTACCAATGTTCATCGGGC-TTGATGCCTAGCAAGCTTCATG
50636917 CTAGTGACCAATC
65 CTAGTGACCAATC
* * * * * *
50636930 GGGCTTTGAGCCTAGTAGGCTTCGTACCAATGTTCATCTGGCTTGATGCCTAGCAGGCTTCGTGC
1 GGGCCTTGAGCCTAGCAGGCCTCGTACCAATGTTCATCGGGCTTGATGCCTAGCAAGCTTCATGC
50636995 T
66 T
50636996 GGTGTAACGA
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
76 4 0.07
77 53 0.93
ACGTcount: A:0.17, C:0.26, G:0.28, T:0.29
Consensus pattern (77 bp):
GGGCCTTGAGCCTAGCAGGCCTCGTACCAATGTTCATCGGGCTTGATGCCTAGCAAGCTTCATGC
TAGTGACCAATC
Found at i:50640580 original size:27 final size:27
Alignment explanation
Indices: 50640542--50640612 Score: 106
Period size: 27 Copynumber: 2.6 Consensus size: 27
50640532 CAGAACAACC
* * *
50640542 ACTATGCAAACAAGTCATTATGTATCG
1 ACTAAGCAAACAAGTCATTATGCATCA
50640569 ACTAAGCAAACAAGTCATTATGCATCA
1 ACTAAGCAAACAAGTCATTATGCATCA
*
50640596 ACTAAGCAAACATGTCA
1 ACTAAGCAAACAAGTCA
50640613 CATATTCATA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.42, C:0.21, G:0.13, T:0.24
Consensus pattern (27 bp):
ACTAAGCAAACAAGTCATTATGCATCA
Found at i:50641174 original size:35 final size:36
Alignment explanation
Indices: 50641131--50641206 Score: 93
Period size: 35 Copynumber: 2.1 Consensus size: 36
50641121 TATTCACTGT
* * *
50641131 ATATTTACTGTTC-CATGGTATGAA-AACATACCCAC
1 ATATTTACT-ATCACATGGCATGAATAACATACCAAC
*
50641166 ATATTTACTATCACATGGCATGAATATCATACCAAC
1 ATATTTACTATCACATGGCATGAATAACATACCAAC
50641202 ATATT
1 ATATT
50641207 CTCTTTCACA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
34 2 0.06
35 19 0.54
36 14 0.40
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.33
Consensus pattern (36 bp):
ATATTTACTATCACATGGCATGAATAACATACCAAC
Found at i:50645289 original size:13 final size:13
Alignment explanation
Indices: 50645280--50645315 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
50645270 TCATTTCGTA
50645280 TAACCATTTCATC
1 TAACCATTTCATC
*
50645293 TAAACATTTCATC
1 TAACCATTTCATC
*
50645306 TTACCATTTC
1 TAACCATTTC
50645316 GTTTACACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.31, C:0.28, G:0.00, T:0.42
Consensus pattern (13 bp):
TAACCATTTCATC
Found at i:50661323 original size:34 final size:34
Alignment explanation
Indices: 50661285--50661351 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
50661275 TCAACCACAT
* *
50661285 AATAACTCATCATTTGCACCACACTCAGCCATAG
1 AATAACGCATCATTTGCACAACACTCAGCCATAG
* *
50661319 AATAACGCATCATTTGTACAACACTCGGCCATA
1 AATAACGCATCATTTGCACAACACTCAGCCATA
50661352 CATACCTAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.36, C:0.30, G:0.10, T:0.24
Consensus pattern (34 bp):
AATAACGCATCATTTGCACAACACTCAGCCATAG
Found at i:50666966 original size:7 final size:7
Alignment explanation
Indices: 50666950--50666979 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
50666940 GTGTTGCAAC
50666950 TTTC-TT
1 TTTCTTT
50666956 TTTCTTT
1 TTTCTTT
50666963 TTTCTTT
1 TTTCTTT
50666970 TTTCTTT
1 TTTCTTT
50666977 TTT
1 TTT
50666980 GGAATTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 19 0.83
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTCTTT
Found at i:50670077 original size:5 final size:5
Alignment explanation
Indices: 50670067--50670105 Score: 55
Period size: 5 Copynumber: 8.0 Consensus size: 5
50670057 TAAGGTTTAA
50670067 AAATT AAATT AAATT AAATT AAATT --ATT AAATTT AAATT
1 AAATT AAATT AAATT AAATT AAATT AAATT AAA-TT AAATT
50670106 TATTTTAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
3 3 0.10
5 23 0.74
6 5 0.16
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
AAATT
Found at i:50677109 original size:24 final size:25
Alignment explanation
Indices: 50677074--50677163 Score: 71
Period size: 25 Copynumber: 3.6 Consensus size: 25
50677064 GTACATGTAT
50677074 GCTCATACGAGCT--ATAAACGGTAA
1 GCTCATACGAGCTGAAT-AACGGTAA
*
50677098 GCTCAT-CTGAGCTGAATAATGGTAA
1 GCTCATAC-GAGCTGAATAACGGTAA
* * *
50677123 GCTCATGCAAGCT-AAGTATCGGTAA
1 GCTCATACGAGCTGAA-TAACGGTAA
* *
50677148 CCTCATAAGAGCTGAA
1 GCTCATACGAGCTGAA
50677164 ATCGGTAGCC
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
23 1 0.02
24 13 0.25
25 33 0.63
26 5 0.10
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.23
Consensus pattern (25 bp):
GCTCATACGAGCTGAATAACGGTAA
Found at i:50679979 original size:23 final size:23
Alignment explanation
Indices: 50679947--50680095 Score: 154
Period size: 23 Copynumber: 6.5 Consensus size: 23
50679937 CTCAAGGGCA
* * * *
50679947 TTACAAAATATGCTACAGAGCCT
1 TTACAGAATATGCCACAAAGGCT
**
50679970 TTACAGAATACACCACAAAGGCT
1 TTACAGAATATGCCACAAAGGCT
* * *
50679993 TAACAGAACATGCCACAAAGGAT
1 TTACAGAATATGCCACAAAGGCT
50680016 TTACAGAATATGCCACAAAGGCT
1 TTACAGAATATGCCACAAAGGCT
* *
50680039 TAACAGTATATGCCACAAAGGCT
1 TTACAGAATATGCCACAAAGGCT
* * *
50680062 GTATAGAATGTGCCACAAAGGCT
1 TTACAGAATATGCCACAAAGGCT
* *
50680085 TAATAGAATAT
1 TTACAGAATAT
50680096 TACATGTTTA
Statistics
Matches: 102, Mismatches: 24, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 102 1.00
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.21
Consensus pattern (23 bp):
TTACAGAATATGCCACAAAGGCT
Found at i:50681875 original size:17 final size:16
Alignment explanation
Indices: 50681834--50681866 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
50681824 CATGGATATT
*
50681834 ACCTTTCGTGAAAACC
1 ACCTTTCTTGAAAACC
50681850 ACCTTTCTTGAAAACC
1 ACCTTTCTTGAAAACC
50681866 A
1 A
50681867 ATCTTTCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.30, G:0.09, T:0.27
Consensus pattern (16 bp):
ACCTTTCTTGAAAACC
Found at i:50684776 original size:17 final size:17
Alignment explanation
Indices: 50684735--50684777 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
50684725 ATTAGGTTAA
* *
50684735 TTTAGGTTAAGTAATTT
1 TTTAGTTTAAGTAATAT
*
50684752 TCTTAGTTTAATTAATAT
1 T-TTAGTTTAAGTAATAT
50684770 TTTAGTTT
1 TTTAGTTT
50684778 GGATTCACAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.28, C:0.02, G:0.12, T:0.58
Consensus pattern (17 bp):
TTTAGTTTAAGTAATAT
Found at i:50694281 original size:18 final size:20
Alignment explanation
Indices: 50694253--50694289 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
50694243 GATAAATATA
50694253 TACATTATAAA-AAAATAAT
1 TACATTATAAATAAAATAAT
50694272 TACA-TATAAATAAAATAA
1 TACATTATAAATAAAATAA
50694290 AATAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (20 bp):
TACATTATAAATAAAATAAT
Found at i:50694299 original size:30 final size:28
Alignment explanation
Indices: 50694263--50694323 Score: 86
Period size: 30 Copynumber: 2.1 Consensus size: 28
50694253 TACATTATAA
50694263 AAAAATAATTACATATAAATAAAATAAAAT
1 AAAAATAATTACAT-TAAATAAAA-AAAAT
* *
50694293 AAAAATAATTACATTATATTAAAAAAAT
1 AAAAATAATTACATTAAATAAAAAAAAT
50694321 AAA
1 AAA
50694324 TATGCGTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 8 0.28
29 7 0.24
30 14 0.48
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (28 bp):
AAAAATAATTACATTAAATAAAAAAAAT
Found at i:50694364 original size:25 final size:25
Alignment explanation
Indices: 50694335--50694383 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
50694325 ATGCGTATGT
*
50694335 ATATATAAATATGTATAAAAAATAC
1 ATATATAAATATATATAAAAAATAC
* *
50694360 ATATATACATATATTTAAAAAATA
1 ATATATAAATATATATAAAAAATA
50694384 ATTAAATATG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (25 bp):
ATATATAAATATATATAAAAAATAC
Found at i:50694392 original size:21 final size:23
Alignment explanation
Indices: 50694337--50694392 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 23
50694327 GCGTATGTAT
*
50694337 ATATAAATATGTATAAAAAATAC
1 ATATAAATATATATAAAAAATAC
*
50694360 ATATATACATATATTTAAAAAATA-
1 ATATA-A-ATATATATAAAAAATAC
50694384 AT-TAAATAT
1 ATATAAATAT
50694393 GAAAAATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
21 4 0.14
22 1 0.03
23 7 0.24
24 3 0.10
25 14 0.48
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.36
Consensus pattern (23 bp):
ATATAAATATATATAAAAAATAC
Found at i:50694427 original size:17 final size:17
Alignment explanation
Indices: 50694394--50694431 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
50694384 ATTAAATATG
50694394 AAAAATAAAAATTAATAA
1 AAAAATAAAAA-TAATAA
50694412 AAAAATAAAGAA-AATAA
1 AAAAATAAA-AATAATAA
50694429 AAA
1 AAA
50694432 GGACTAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
18 9 0.47
19 2 0.11
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.16
Consensus pattern (17 bp):
AAAAATAAAAATAATAA
Found at i:50698546 original size:14 final size:14
Alignment explanation
Indices: 50698527--50698564 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
50698517 GTGGTTCGAC
50698527 ATAACCTTTCTATG
1 ATAACCTTTCTATG
50698541 ATAACCTTTCTATG
1 ATAACCTTTCTATG
*
50698555 ATAACTTTTC
1 ATAACCTTTC
50698565 ATGTATTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.29, C:0.21, G:0.05, T:0.45
Consensus pattern (14 bp):
ATAACCTTTCTATG
Found at i:50717583 original size:7 final size:7
Alignment explanation
Indices: 50717571--50717599 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
50717561 AGTGAGCCAT
50717571 TTATTGA
1 TTATTGA
50717578 TTATTGA
1 TTATTGA
50717585 TTATTGA
1 TTATTGA
50717592 TTATTGA
1 TTATTGA
50717599 T
1 T
50717600 CATAATTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.59
Consensus pattern (7 bp):
TTATTGA
Found at i:50719817 original size:24 final size:25
Alignment explanation
Indices: 50719776--50719822 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
50719766 AAATTAAAAT
**
50719776 ATATATATAATTTTTAAAAAATAAA
1 ATATATATAATTAGTAAAAAATAAA
50719801 ATATATA-AATTAGTAAAAAATA
1 ATATATATAATTAGTAAAAAATA
50719823 TTTAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (25 bp):
ATATATATAATTAGTAAAAAATAAA
Found at i:50719980 original size:15 final size:14
Alignment explanation
Indices: 50719960--50719993 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
50719950 AATTCATAAA
50719960 ATTTTAGTTCTTTAT
1 ATTTTA-TTCTTTAT
*
50719975 ATTTTATTTTTTAT
1 ATTTTATTCTTTAT
50719989 ATTTT
1 ATTTT
50719994 TAATTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (14 bp):
ATTTTATTCTTTAT
Found at i:50719989 original size:14 final size:14
Alignment explanation
Indices: 50719960--50720010 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 14
50719950 AATTCATAAA
*
50719960 ATTTTAGTTCTTTAT
1 ATTTTA-TTTTTTAT
50719975 ATTTTATTTTTTAT
1 ATTTTATTTTTTAT
50719989 ATTTTTAATTTTTATAT
1 A-TTTT-ATTTTT-TAT
50720006 ATTTT
1 ATTTT
50720011 TTAAAATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
14 8 0.25
15 10 0.31
16 10 0.31
17 4 0.12
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (14 bp):
ATTTTATTTTTTAT
Found at i:50719994 original size:15 final size:16
Alignment explanation
Indices: 50719970--50720011 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 16
50719960 ATTTTAGTTC
50719970 TTTATA-TTTT-ATTT
1 TTTATATTTTTAATTT
50719984 TTTATATTTTTAATTT
1 TTTATATTTTTAATTT
50720000 TTATATATTTTT
1 TT-TATATTTTT
50720012 TAAAATTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.24
15 4 0.16
16 6 0.24
17 9 0.36
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTATATTTTTAATTT
Found at i:50723521 original size:34 final size:34
Alignment explanation
Indices: 50723444--50723525 Score: 103
Period size: 34 Copynumber: 2.4 Consensus size: 34
50723434 TTTTATGTAT
* * *
50723444 ATGTATGTAAAAATTATGTATTTAAAATATAGAG
1 ATGTATTTAAAAATTAAGTATTTAAAATACAGAG
* *
50723478 GTGTGTTTAAAAATTAAGTATTTAAAATACATG-G
1 ATGTATTTAAAAATTAAGTATTTAAAATACA-GAG
50723512 ATGTATTTAAAAAT
1 ATGTATTTAAAAAT
50723526 AACACATAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
34 39 0.98
35 1 0.03
ACGTcount: A:0.45, C:0.01, G:0.15, T:0.39
Consensus pattern (34 bp):
ATGTATTTAAAAATTAAGTATTTAAAATACAGAG
Found at i:50724636 original size:70 final size:67
Alignment explanation
Indices: 50724507--50724639 Score: 176
Period size: 70 Copynumber: 1.9 Consensus size: 67
50724497 ATACACAATA
* **
50724507 TAATGGTTTTGCCTTTTAACTTAATGAGTAAACATTTATCAAAACAACATAATTTTGCCTTTTAA
1 TAATGGTTTTGACTTTTAACTTAAAAAGTAAACATTTATCAAAACAACATAATTTTGCCTTTTAA
50724572 CT
66 CT
* * * *
50724574 TAATGGTTTTGACTTTTAACTTTAGAAAAGGTAAGCATTTATCAAAACGACGTAGTTTTGCCTTT
1 TAATGGTTTTGACTTTTAAC-TTA-AAAA-GTAAACATTTATCAAAACAACATAATTTTGCCTTT
50724639 T
63 T
50724640 CTTATTCGGA
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
67 19 0.34
68 3 0.05
69 2 0.04
70 32 0.57
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (67 bp):
TAATGGTTTTGACTTTTAACTTAAAAAGTAAACATTTATCAAAACAACATAATTTTGCCTTTTAA
CT
Found at i:50740121 original size:20 final size:20
Alignment explanation
Indices: 50740088--50740135 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
50740078 TTTAGCTTGG
* * *
50740088 TTCAGCTTAGATGAGTTTAA
1 TTCAGCTCACATGAGCTTAA
*
50740108 TTTAGCTCACATGAGCTTAA
1 TTCAGCTCACATGAGCTTAA
50740128 TTCAGCTC
1 TTCAGCTC
50740136 GTTTGAGCTC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.38
Consensus pattern (20 bp):
TTCAGCTCACATGAGCTTAA
Found at i:50741736 original size:10 final size:10
Alignment explanation
Indices: 50741721--50741758 Score: 67
Period size: 10 Copynumber: 3.7 Consensus size: 10
50741711 AGCCATTGTG
50741721 AAAAAAATTC
1 AAAAAAATTC
50741731 AAAAAAATTC
1 AAAAAAATTC
50741741 AAAAAAAATTC
1 -AAAAAAATTC
50741752 AAAAAAA
1 AAAAAAA
50741759 GAGTTTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 17 0.63
11 10 0.37
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (10 bp):
AAAAAAATTC
Found at i:50741737 original size:11 final size:11
Alignment explanation
Indices: 50741721--50741758 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
50741711 AGCCATTGTG
50741721 AAAAAAATTC-
1 AAAAAAATTCA
50741731 AAAAAAATTCA
1 AAAAAAATTCA
50741742 AAAAAAATTCA
1 AAAAAAATTCA
50741753 AAAAAA
1 AAAAAA
50741759 GAGTTTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 10 0.37
11 17 0.63
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAAAAATTCA
Found at i:50742886 original size:36 final size:36
Alignment explanation
Indices: 50742839--50742945 Score: 153
Period size: 36 Copynumber: 2.9 Consensus size: 36
50742829 AGAAATGAAA
*
50742839 GAAAAAAAAGATGAGTGTGAGAATGAAAAGAAAATT
1 GAAAAAGAAGATGAGTGTGAGAATGAAAAGAAAATT
*
50742875 GAAAAAGAAGATGAGTGTGAGAACGAAAAGAAAATT
1 GAAAAAGAAGATGAGTGTGAGAATGAAAAGAAAATT
* *
50742911 GAAAAAGAAGGTGAGTTTGGAGAAATG-AAAGAAAA
1 GAAAAAGAAGATGAGTGT-GAG-AATGAAAAGAAAA
50742946 CGACATTGAA
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
36 50 0.78
37 11 0.17
38 3 0.05
ACGTcount: A:0.56, C:0.01, G:0.28, T:0.15
Consensus pattern (36 bp):
GAAAAAGAAGATGAGTGTGAGAATGAAAAGAAAATT
Found at i:50742961 original size:18 final size:18
Alignment explanation
Indices: 50742938--50742995 Score: 80
Period size: 18 Copynumber: 3.2 Consensus size: 18
50742928 TGGAGAAATG
* *
50742938 AAAGAAAACGACATTGAA
1 AAAGAAAAAGAAATTGAA
*
50742956 AAAGAAAAAGAAATTGCA
1 AAAGAAAAAGAAATTGAA
*
50742974 AAAGAAAAGGAAATTGAA
1 AAAGAAAAAGAAATTGAA
50742992 AAAG
1 AAAG
50742996 CGAGTGAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.66, C:0.05, G:0.19, T:0.10
Consensus pattern (18 bp):
AAAGAAAAAGAAATTGAA
Found at i:50743032 original size:29 final size:29
Alignment explanation
Indices: 50742959--50743038 Score: 90
Period size: 29 Copynumber: 2.7 Consensus size: 29
50742949 CATTGAAAAA
50742959 GAAAAAGAAATTGCAAAAGAAAAGGAAATT
1 GAAAAAGAAATTG-AAAAGAAAAGGAAATT
** * *
50742989 GAAAAAGCGAGTGAAAAGGAAAA-GAGATT
1 GAAAAAGAAATTGAAAA-GAAAAGGAAATT
50743018 GAAAAAGAAATTGAAAGAGAA
1 GAAAAAGAAATTGAAA-AGAA
50743039 GAAAAAGAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
29 25 0.61
30 16 0.39
ACGTcount: A:0.61, C:0.03, G:0.25, T:0.11
Consensus pattern (29 bp):
GAAAAAGAAATTGAAAAGAAAAGGAAATT
Found at i:50748620 original size:16 final size:16
Alignment explanation
Indices: 50748599--50748629 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50748589 CCACATTAGC
50748599 AAAAATAAAAAATTTA
1 AAAAATAAAAAATTTA
*
50748615 AAAAATAAAATATTT
1 AAAAATAAAAAATTT
50748630 TTAAATAAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAAATAAAAAATTTA
Found at i:50750638 original size:23 final size:23
Alignment explanation
Indices: 50750608--50750653 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
50750598 TCCACTTTTC
50750608 TCACCAACCAAATAAAAGTCAAA
1 TCACCAACCAAATAAAAGTCAAA
50750631 TCACCAACCAAATAAAAGTCAAA
1 TCACCAACCAAATAAAAGTCAAA
50750654 AATCAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.57, C:0.26, G:0.04, T:0.13
Consensus pattern (23 bp):
TCACCAACCAAATAAAAGTCAAA
Found at i:50764989 original size:6 final size:6
Alignment explanation
Indices: 50764968--50765007 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
50764958 TAAATCAATC
* *
50764968 AATATA TATTTA AATATA AATATA AATATA AATATA AATA
1 AATATA AATATA AATATA AATATA AATATA AATATA AATA
50765008 CAATACAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (6 bp):
AATATA
Found at i:50771446 original size:38 final size:38
Alignment explanation
Indices: 50771391--50771631 Score: 342
Period size: 38 Copynumber: 6.3 Consensus size: 38
50771381 AATTGTACTA
*
50771391 TTATTCAGGCTTTGTGCCTAGCAGGCTTAGTGTCGGTG
1 TTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGTCGGTG
**
50771429 TTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGTCACTG
1 TTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGTCGGTG
* *
50771467 TTATTCAGGCTTTA-TGCCTAGTAGGCTTAGTGCCGGTG
1 TTATTCAGGC-TTAGTGCCTAGCAGGCTTAGTGTCGGTG
50771505 TTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGTCGGTG
1 TTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGTCGGTG
* * * * *
50771543 TTATTCAAGCTTTA-TGCCTAGTAGGTTTAGTTTCAGTG
1 TTATTCAGGC-TTAGTGCCTAGCAGGCTTAGTGTCGGTG
*
50771581 TTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCCGGTG
1 TTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGTCGGTG
*
50771619 TTATTCAGACTTA
1 TTATTCAGGCTTA
50771632 TTGCTGGTGT
Statistics
Matches: 178, Mismatches: 21, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
37 6 0.03
38 166 0.93
39 6 0.03
ACGTcount: A:0.17, C:0.18, G:0.27, T:0.37
Consensus pattern (38 bp):
TTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGTCGGTG
Found at i:50771455 original size:16 final size:16
Alignment explanation
Indices: 50771434--50771536 Score: 55
Period size: 16 Copynumber: 5.7 Consensus size: 16
50771424 CGGTGTTATT
50771434 CAGGCTTAGTGCCTAG
1 CAGGCTTAGTGCCTAG
*
50771450 CAGGCTTAGTGTCACTGTTATT
1 CAGGCTTAGTG-C-C---TA-G
50771472 CAGGCTTTA-TGCCTAG
1 CAGGC-TTAGTGCCTAG
* *
50771488 TAGGCTTAGTGCCGGTGTTATT
1 CAGGCTTAGTGCC-----TA-G
50771510 CAGGCTTAGTGCCTAG
1 CAGGCTTAGTGCCTAG
50771526 CAGGCTTAGTG
1 CAGGCTTAGTG
50771537 TCGGTGTTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 28
0.66 0.06 0.28
Matches are distributed among these distances:
15 3 0.04
16 30 0.45
17 5 0.07
18 1 0.01
20 1 0.01
21 5 0.07
22 19 0.28
23 3 0.04
ACGTcount: A:0.17, C:0.20, G:0.29, T:0.33
Consensus pattern (16 bp):
CAGGCTTAGTGCCTAG
Found at i:50771478 original size:22 final size:21
Alignment explanation
Indices: 50771412--50771478 Score: 63
Period size: 22 Copynumber: 3.3 Consensus size: 21
50771402 TTGTGCCTAG
*
50771412 CAGGCTTAGTGTCGGTGTTATT
1 CAGGCTTAGTGTC-CTGTTATT
*
50771434 CAGGCTTAGTG-CC---TA-G
1 CAGGCTTAGTGTCCTGTTATT
50771450 CAGGCTTAGTGTCACTGTTATT
1 CAGGCTTAGTGTC-CTGTTATT
50771472 CAGGCTT
1 CAGGCTT
50771479 TATGCCTAGT
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
16 11 0.31
17 3 0.08
18 1 0.03
21 3 0.08
22 18 0.50
ACGTcount: A:0.16, C:0.19, G:0.28, T:0.36
Consensus pattern (21 bp):
CAGGCTTAGTGTCCTGTTATT
Found at i:50771517 original size:76 final size:76
Alignment explanation
Indices: 50771391--50771626 Score: 382
Period size: 76 Copynumber: 3.1 Consensus size: 76
50771381 AATTGTACTA
* *
50771391 TTATTCAGGCTTTGTGCCTAGCAGGCTTAGTGTCGGTGTTATTCAGGCTTAGTGCCTAGCAGGCT
1 TTATTCAGGCTTTATGCCTAGTAGGCTTAGTGTCGGTGTTATTCAGGCTTAGTGCCTAGCAGGCT
**
50771456 TAGTGTCACTG
66 TAGTGTCGGTG
*
50771467 TTATTCAGGCTTTATGCCTAGTAGGCTTAGTGCCGGTGTTATTCAGGCTTAGTGCCTAGCAGGCT
1 TTATTCAGGCTTTATGCCTAGTAGGCTTAGTGTCGGTGTTATTCAGGCTTAGTGCCTAGCAGGCT
50771532 TAGTGTCGGTG
66 TAGTGTCGGTG
* * * *
50771543 TTATTCAAGCTTTATGCCTAGTAGGTTTAGTTTCAGTGTTATTCAGGCTTAGTGCCTAGCAGGCT
1 TTATTCAGGCTTTATGCCTAGTAGGCTTAGTGTCGGTGTTATTCAGGCTTAGTGCCTAGCAGGCT
*
50771608 TAGTGCCGGTG
66 TAGTGTCGGTG
50771619 TTATTCAG
1 TTATTCAG
50771627 ACTTATTGCT
Statistics
Matches: 148, Mismatches: 12, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
76 148 1.00
ACGTcount: A:0.17, C:0.18, G:0.28, T:0.37
Consensus pattern (76 bp):
TTATTCAGGCTTTATGCCTAGTAGGCTTAGTGTCGGTGTTATTCAGGCTTAGTGCCTAGCAGGCT
TAGTGTCGGTG
Found at i:50771591 original size:114 final size:114
Alignment explanation
Indices: 50771391--50771631 Score: 378
Period size: 114 Copynumber: 2.1 Consensus size: 114
50771381 AATTGTACTA
* *
50771391 TTATTCAGGCTTTGTGCCTAGCAGGCTTAGTGTCGGTGTTATTCAGGCTTAGTGCCTAGCAGGCT
1 TTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGTCGGTGTTATTCAAGCTTAGTGCCTAGCAGGCT
*
50771456 TAGTGTCACTGTTATTCAGGCTTTA-TGCCTAGTAGGCTTAGTGCCGGTG
66 TAGTGTCACTGTTATTCAGGC-TTAGTGCCTAGCAGGCTTAGTGCCGGTG
* *
50771505 TTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGTCGGTGTTATTCAAGCTTTA-TGCCTAGTAGGT
1 TTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGTCGGTGTTATTCAAGC-TTAGTGCCTAGCAGGC
* *
50771569 TTAGTTTCAGTGTTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCCGGTG
65 TTAGTGTCACTGTTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCCGGTG
*
50771619 TTATTCAGACTTA
1 TTATTCAGGCTTA
50771632 TTGCTGGTGT
Statistics
Matches: 117, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
113 3 0.03
114 111 0.95
115 3 0.03
ACGTcount: A:0.17, C:0.18, G:0.27, T:0.37
Consensus pattern (114 bp):
TTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGTCGGTGTTATTCAAGCTTAGTGCCTAGCAGGCT
TAGTGTCACTGTTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCCGGTG
Found at i:50772562 original size:13 final size:13
Alignment explanation
Indices: 50772544--50772568 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50772534 ATTTTGGGAC
50772544 AGTATGCATGTAT
1 AGTATGCATGTAT
50772557 AGTATGCATGTA
1 AGTATGCATGTA
50772569 CTATGAATGA
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:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (13 bp):
AGTATGCATGTAT
Found at i:50774072 original size:17 final size:16
Alignment explanation
Indices: 50774047--50774080 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
50774037 GGTGACTCGA
50774047 TTCCCTTTTTTTCTTTC
1 TTCCCTTTTTTT-TTTC
*
50774064 TTCCGTTTTTTTTTTC
1 TTCCCTTTTTTTTTTC
50774080 T
1 T
50774081 CTAGACTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.00, C:0.24, G:0.03, T:0.74
Consensus pattern (16 bp):
TTCCCTTTTTTTTTTC
Found at i:50774728 original size:3 final size:3
Alignment explanation
Indices: 50774720--50774752 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
50774710 AGTCATTCGG
50774720 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
50774753 CTCTTATTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:50778304 original size:43 final size:43
Alignment explanation
Indices: 50778257--50778381 Score: 117
Period size: 43 Copynumber: 2.9 Consensus size: 43
50778247 TGTAATCTCG
*
50778257 TATTGATGCCAATAACCCAGCCATGGCCTTACACGAAATCACA
1 TATTGATGCCAATAACCCAGACATGGCCTTACACGAAATCACA
** * * * * *
50778300 TATTGATGCCAATGTCCTAGACATGGTCTTACATGAAGTCTCA
1 TATTGATGCCAATAACCCAGACATGGCCTTACACGAAATCACA
* * * * * *
50778343 TATCGATGCC-ATATCCCATATATGGTCTTACACGTAATC
1 TATTGATGCCAATAACCCAGACATGGCCTTACACGAAATC
50778382 TCGGTAACCC
Statistics
Matches: 66, Mismatches: 16, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
42 22 0.33
43 44 0.67
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (43 bp):
TATTGATGCCAATAACCCAGACATGGCCTTACACGAAATCACA
Found at i:50783274 original size:26 final size:26
Alignment explanation
Indices: 50783239--50783289 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
50783229 AATGTGAAAG
*
50783239 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
50783265 GGGGTTGCTAAGTGCTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
50783290 GTTCATTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:50783301 original size:103 final size:104
Alignment explanation
Indices: 50783161--50783383 Score: 369
Period size: 103 Copynumber: 2.2 Consensus size: 104
50783151 TGTATATAAA
** * *
50783161 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
50783225 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
50783264 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
50783329 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
50783368 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
50783384 GATATCCATT
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 90 0.80
104 22 0.20
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:50783435 original size:71 final size:72
Alignment explanation
Indices: 50783302--50783453 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 72
50783292 TCATTGGTGG
* *
50783302 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
50783367 GAGGGGT
66 GAGGGGT
***
50783374 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
50783438 GAGGGGT
66 GAGGGGT
50783445 TGCTAAGTG
1 TGCTAAGTG
50783454 ATGATTCCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 45 0.60
72 30 0.40
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:50787110 original size:34 final size:34
Alignment explanation
Indices: 50787072--50787141 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
50787062 GTTATTGTTT
50787072 TATACTAATGAAAATTAAGATTTACCGTTATAAA
1 TATACTAATGAAAATTAAGATTTACCGTTATAAA
50787106 TATACTAATGAAAATTAAGATTTACCGTTATAAA
1 TATACTAATGAAAATTAAGATTTACCGTTATAAA
50787140 TA
1 TA
50787142 ACATTAGACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.36
Consensus pattern (34 bp):
TATACTAATGAAAATTAAGATTTACCGTTATAAA
Found at i:50789025 original size:9 final size:9
Alignment explanation
Indices: 50788964--50789028 Score: 53
Period size: 9 Copynumber: 7.1 Consensus size: 9
50788954 ATATTTTATA
50788964 TAAAATTATT
1 TAAAATT-TT
*
50788974 TATAATTTTT
1 TA-AAATTTT
*
50788984 TAAAAATTT
1 TAAAATTTT
*
50788993 TAAAAATTT
1 TAAAATTTT
*
50789002 TAATGATTTT
1 TAA-AATTTT
50789012 T--AATTTT
1 TAAAATTTT
50789019 TAAAATTTT
1 TAAAATTTT
50789028 T
1 T
50789029 TATTTTAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
7 6 0.13
9 24 0.53
10 11 0.24
11 4 0.09
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (9 bp):
TAAAATTTT
Found at i:50789042 original size:17 final size:16
Alignment explanation
Indices: 50788981--50789039 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
50788971 ATTTATAATT
*
50788981 TTTTAAAAATTTTAAAAA
1 TTTTAAAAATTTT--TAA
**
50788999 TTTTAATGATTTTTAA
1 TTTTAAAAATTTTTAA
* *
50789015 TTTTTAAAATTTTTTA
1 TTTTAAAAATTTTTAA
50789031 TTTTAAAAA
1 TTTTAAAAA
50789040 ATTAATTAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
16 22 0.67
18 11 0.33
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (16 bp):
TTTTAAAAATTTTTAA
Found at i:50793484 original size:41 final size:40
Alignment explanation
Indices: 50793439--50793607 Score: 159
Period size: 41 Copynumber: 4.2 Consensus size: 40
50793429 TTTAATCAAC
50793439 CGCCGCTAAAGTTAAGGTATTTAGCGGCGATTTCTT-TG-AAG
1 CGCCGCTAAAGTTAAGGT-TTTAGCGGCG-TTT-TTATGTAAG
* * *
50793480 CGCCGCGAATA-TT-TGGTCTTAGCCGGCGTTTTTATGTAAG
1 CGCCGCTAA-AGTTAAGGTTTTAG-CGGCGTTTTTATGTAAG
* * *
50793520 CGACGCTAAAGTTAAGATTTTTAGCGGCGTTTTTATGATAAA
1 CGCCGCTAAAGTTAAG-GTTTTAGCGGCGTTTTTATG-TAAG
* *
50793562 CGCCGCTAATGTTAAGGTTTTAGCGGCGTTTTTGT-TGAAG
1 CGCCGCTAAAGTTAAGGTTTTAGCGGCGTTTTTATGT-AAG
50793602 CGCCGC
1 CGCCGC
50793608 AAAAAAATAT
Statistics
Matches: 105, Mismatches: 14, Indels: 19
0.76 0.10 0.14
Matches are distributed among these distances:
38 2 0.02
39 11 0.10
40 28 0.27
41 41 0.39
42 23 0.22
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.34
Consensus pattern (40 bp):
CGCCGCTAAAGTTAAGGTTTTAGCGGCGTTTTTATGTAAG
Found at i:50794392 original size:15 final size:15
Alignment explanation
Indices: 50794377--50794501 Score: 87
Period size: 15 Copynumber: 8.4 Consensus size: 15
50794367 GATATAAGGT
50794377 TTAGGGA-TTAGGGG
1 TTAGGGATTTAGGGG
*
50794391 TTAGGGATTTAGTGG
1 TTAGGGATTTAGGGG
*
50794406 TTA-GGAGTTAGGGG
1 TTAGGGATTTAGGGG
*
50794420 TTAGGAATTTAGGGG
1 TTAGGGATTTAGGGG
* **
50794435 CTTAGGG-GTTAGGAAT
1 -TTAGGGATTTAGG-GG
** * **
50794451 TTAGGGGCTAAGAGAT
1 TTAGGGATTTAG-GGG
*
50794467 TTAGGG-GTTAGGGG
1 TTAGGGATTTAGGGG
50794481 TTAGGGATTTAGGGG
1 TTAGGGATTTAGGGG
50794496 TTAGGG
1 TTAGGG
50794502 TGTCAATTAA
Statistics
Matches: 88, Mismatches: 16, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
14 26 0.30
15 45 0.51
16 16 0.18
17 1 0.01
ACGTcount: A:0.22, C:0.02, G:0.45, T:0.31
Consensus pattern (15 bp):
TTAGGGATTTAGGGG
Found at i:50794397 original size:29 final size:28
Alignment explanation
Indices: 50794355--50794424 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 28
50794345 ATATATGATT
* *
50794355 ATTA-GGGTTTGGGATATAAG-GTTTAGGG
1 ATTAGGGGTTAGGGAT-TAAGTGGTTA-GG
*
50794383 ATTAGGGGTTAGGGATTTAGTGGTTAGG
1 ATTAGGGGTTAGGGATTAAGTGGTTAGG
50794411 AGTTAGGGGTTAGG
1 A-TTAGGGGTTAGG
50794425 AATTTAGGGG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 10 0.28
29 26 0.72
ACGTcount: A:0.23, C:0.00, G:0.43, T:0.34
Consensus pattern (28 bp):
ATTAGGGGTTAGGGATTAAGTGGTTAGG
Found at i:50794409 original size:22 final size:21
Alignment explanation
Indices: 50794376--50794501 Score: 85
Period size: 22 Copynumber: 5.6 Consensus size: 21
50794366 GGATATAAGG
50794376 TTTAGGGATTAGGGGTTAGGGA
1 TTTAGGG-TTAGGGGTTAGGGA
*
50794398 TTTAGTGGTTAGGAGTTAGGG-
1 TTTAG-GGTTAGGGGTTAGGGA
* *
50794419 GTTAGGAATTTAGGGGCTTAGGG-
1 TTTAGG--GTTAGGGG-TTAGGGA
* * * *
50794442 GTTAGGAATTTAGGGGCTAAGAGA
1 TTTAGG--GTTAGGGG-TTAGGGA
50794466 TTTAGGGGTTAGGGGTTAGGGA
1 TTTA-GGGTTAGGGGTTAGGGA
50794488 TTTAGGGGTTAGGG
1 TTTA-GGGTTAGGG
50794502 TGTCAATTAA
Statistics
Matches: 88, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
20 1 0.01
21 4 0.05
22 42 0.48
23 36 0.41
24 3 0.03
25 2 0.02
ACGTcount: A:0.22, C:0.02, G:0.44, T:0.32
Consensus pattern (21 bp):
TTTAGGGTTAGGGGTTAGGGA
Found at i:50794429 original size:29 final size:30
Alignment explanation
Indices: 50794384--50794447 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 30
50794374 GGTTTAGGGA
* *
50794384 TTAGGGGTTAGGGATTTAGTGG-TTAGGAG
1 TTAGGGGTTAGGAATTTAGGGGCTTAGGAG
*
50794413 TTAGGGGTTAGGAATTTAGGGGCTTAGGGG
1 TTAGGGGTTAGGAATTTAGGGGCTTAGGAG
50794443 TTAGG
1 TTAGG
50794448 AATTTAGGGG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
29 20 0.65
30 11 0.35
ACGTcount: A:0.20, C:0.02, G:0.45, T:0.33
Consensus pattern (30 bp):
TTAGGGGTTAGGAATTTAGGGGCTTAGGAG
Found at i:50794440 original size:23 final size:23
Alignment explanation
Indices: 50794413--50794459 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
50794403 TGGTTAGGAG
50794413 TTAGGGGTTAGGAATTTAGGGGC
1 TTAGGGGTTAGGAATTTAGGGGC
50794436 TTAGGGGTTAGGAATTTAGGGGC
1 TTAGGGGTTAGGAATTTAGGGGC
50794459 T
1 T
50794460 AAGAGATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.21, C:0.04, G:0.43, T:0.32
Consensus pattern (23 bp):
TTAGGGGTTAGGAATTTAGGGGC
Found at i:50794478 original size:38 final size:37
Alignment explanation
Indices: 50794399--50794495 Score: 124
Period size: 38 Copynumber: 2.6 Consensus size: 37
50794389 GGTTAGGGAT
* * * *
50794399 TTAGTGGTTAGGAGTTAGGGGTTAGGAATTTAGGGGC
1 TTAGGGGTTAGGATTTAGGGGCTAAGAATTTAGGGGC
50794436 TTAGGGGTTAGGAATTTAGGGGCTAAGAGATTTAGGGG-
1 TTAGGGGTTAGG-ATTTAGGGGCTAAGA-ATTTAGGGGC
50794474 TTAGGGGTTAGGGATTTAGGGG
1 TTAGGGGTTA-GGATTTAGGGG
50794496 TTAGGGTGTC
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
37 11 0.21
38 31 0.58
39 11 0.21
ACGTcount: A:0.23, C:0.02, G:0.44, T:0.31
Consensus pattern (37 bp):
TTAGGGGTTAGGATTTAGGGGCTAAGAATTTAGGGGC
Found at i:50796251 original size:7 final size:7
Alignment explanation
Indices: 50796239--50796269 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
50796229 TTGGATAAAT
50796239 GAAATTA
1 GAAATTA
50796246 GAAATTA
1 GAAATTA
50796253 GAAATTA
1 GAAATTA
50796260 GAAATTA
1 GAAATTA
50796267 GAA
1 GAA
50796270 GATGCAAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.58, C:0.00, G:0.16, T:0.26
Consensus pattern (7 bp):
GAAATTA
Found at i:50796288 original size:19 final size:19
Alignment explanation
Indices: 50796266--50796307 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
50796256 ATTAGAAATT
50796266 AGAAGATGCAAATGAAAAC
1 AGAAGATGCAAATGAAAAC
50796285 AGAAGATGCAAATGAAAAC
1 AGAAGATGCAAATGAAAAC
50796304 AGAA
1 AGAA
50796308 AATTCAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.60, C:0.10, G:0.21, T:0.10
Consensus pattern (19 bp):
AGAAGATGCAAATGAAAAC
Found at i:50797851 original size:13 final size:15
Alignment explanation
Indices: 50797818--50797858 Score: 59
Period size: 13 Copynumber: 2.8 Consensus size: 15
50797808 AATAATTTAA
50797818 ATAACTTACATAATAC
1 ATAACTTACAT-ATAC
50797834 ATAACTTACAT-T-C
1 ATAACTTACATATAC
50797847 ATAACTTACATA
1 ATAACTTACATA
50797859 AACTTATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.50
14 1 0.04
16 11 0.46
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (15 bp):
ATAACTTACATATAC
Found at i:50797961 original size:28 final size:28
Alignment explanation
Indices: 50797905--50797974 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 28
50797895 TAAAATTTTT
* *
50797905 ATATAAACTTACATAATACATTCCTTAC
1 ATATAAACTTACATAATACATACCATAC
* * *
50797933 ATATTAACTTACATTATACATAGCATAC
1 ATATAAACTTACATAATACATACCATAC
50797961 --AT-AACTTACATAAT
1 ATATAAACTTACATAAT
50797975 GCAAAACTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
25 11 0.31
26 2 0.06
28 23 0.64
ACGTcount: A:0.44, C:0.19, G:0.01, T:0.36
Consensus pattern (28 bp):
ATATAAACTTACATAATACATACCATAC
Found at i:50797970 original size:9 final size:9
Alignment explanation
Indices: 50797937--50798074 Score: 96
Period size: 9 Copynumber: 16.1 Consensus size: 9
50797927 CCTTACATAT
50797937 TAACTTACA
1 TAACTTACA
*
50797946 TTA--TACA
1 TAACTTACA
* *
50797953 TAGCATACA
1 TAACTTACA
50797962 TAACTTACA
1 TAACTTACA
*
50797971 TAA--TGCA
1 TAACTTACA
*
50797978 AAACTTACA
1 TAACTTACA
*
50797987 TAACTTAAA
1 TAACTTACA
*
50797996 TATCTTACA
1 TAACTTACA
*
50798005 CAACTTACA
1 TAACTTACA
*
50798014 TAACCTACA
1 TAACTTACA
50798023 TAA--TACA
1 TAACTTACA
50798030 TAACTTACA
1 TAACTTACA
*
50798039 TAATACATA-A
1 T-A-ACTTACA
50798049 TAACTTAC-
1 TAACTTACA
50798057 -AACTTACA
1 TAACTTACA
*
50798065 TAACATACA
1 TAACTTACA
50798074 T
1 T
50798075 TAATTTGGTA
Statistics
Matches: 99, Mismatches: 19, Indels: 22
0.71 0.14 0.16
Matches are distributed among these distances:
7 24 0.24
8 4 0.04
9 64 0.65
10 3 0.03
11 4 0.04
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.30
Consensus pattern (9 bp):
TAACTTACA
Found at i:50798035 original size:52 final size:51
Alignment explanation
Indices: 50797958--50798102 Score: 141
Period size: 52 Copynumber: 2.8 Consensus size: 51
50797948 ATACATAGCA
* * * *
50797958 TACATAACTTACATAATGCAAAACTTACAT-A-ACTTAAATATCTTACACAACT
1 TACATAACATACATAATACAAAACTTACATAATACAT-AATAACTT--ACAACT
* *
50798010 TACATAACCTACATAATACATAACTTACATAATACATAATAACTTACAACT
1 TACATAACATACATAATACAAAACTTACATAATACATAATAACTTACAACT
***
50798061 TACATAACATACATTAATTTGGTAAACTTACATAATACATAA
1 TACATAACATACA-TAA--TACAAAACTTACATAATACATAA
50798103 AAATATATCA
Statistics
Matches: 78, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
51 18 0.23
52 30 0.38
53 8 0.10
54 22 0.28
ACGTcount: A:0.48, C:0.19, G:0.02, T:0.31
Consensus pattern (51 bp):
TACATAACATACATAATACAAAACTTACATAATACATAATAACTTACAACT
Found at i:50798067 original size:16 final size:16
Alignment explanation
Indices: 50797782--50798048 Score: 119
Period size: 16 Copynumber: 15.4 Consensus size: 16
50797772 ACACATAGCA
* *
50797782 ACATGACTTATATAAT
1 ACATAACTTACATAAT
* *
50797798 ACACAACTTAAATAATTT
1 ACATAACTTACATAA--T
*
50797816 AAATAACTTACATAAT
1 ACATAACTTACATAAT
50797832 ACATAACTTACAT--T
1 ACATAACTTACATAAT
50797846 -CATAACTTACATAA-
1 ACATAACTTACATAAT
50797860 ACTTATATGTTACCTTACATAAT
1 AC--ATA----A-CTTACATAAT
*
50797883 ACATAACTTATATAAAATTTTT
1 ACATAACTTACAT--AA----T
*
50797905 ATATAAACTTACATAAT
1 ACAT-AACTTACATAAT
** *
50797922 ACATTCCTTACATATT
1 ACATAACTTACATAAT
* *
50797938 AACTTACATTATACATAGCAT
1 -ACATA-ACT-TACATA--AT
50797959 ACATAACTTACATAAT
1 ACATAACTTACATAAT
* *
50797975 GCAAAACTTACATAACTT
1 ACATAACTTACATAA--T
* * *
50797993 AAATATCTTACACAACTT
1 ACATAACTTACATAA--T
*
50798011 ACATAACCTACATAAT
1 ACATAACTTACATAAT
50798027 ACATAACTTACATAAT
1 ACATAACTTACATAAT
50798043 ACATAA
1 ACATAA
50798049 TAACTTACAA
Statistics
Matches: 191, Mismatches: 33, Indels: 54
0.69 0.12 0.19
Matches are distributed among these distances:
13 12 0.06
14 1 0.01
15 1 0.01
16 77 0.40
17 11 0.06
18 47 0.25
19 8 0.04
20 4 0.02
21 7 0.04
22 13 0.07
23 10 0.05
ACGTcount: A:0.46, C:0.18, G:0.01, T:0.34
Consensus pattern (16 bp):
ACATAACTTACATAAT
Found at i:50798067 original size:19 final size:19
Alignment explanation
Indices: 50798013--50798057 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 19
50798003 CACAACTTAC
*
50798013 ATAACCTACATAATAC---
1 ATAACTTACATAATACATA
50798029 ATAACTTACATAATACATA
1 ATAACTTACATAATACATA
50798048 ATAACTTACA
1 ATAACTTACA
50798058 ACTTACATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 15 0.60
19 10 0.40
ACGTcount: A:0.51, C:0.20, G:0.00, T:0.29
Consensus pattern (19 bp):
ATAACTTACATAATACATA
Found at i:50803667 original size:21 final size:21
Alignment explanation
Indices: 50803643--50803692 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
50803633 CTACATCAAA
50803643 AGAAGCAGATGCCGCAGCAAG
1 AGAAGCAGATGCCGCAGCAAG
50803664 AGAAGCAGATGCCGCAGCAAG
1 AGAAGCAGATGCCGCAGCAAG
50803685 AGAAGCAG
1 AGAAGCAG
50803693 CGAGAGAAGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.40, C:0.22, G:0.34, T:0.04
Consensus pattern (21 bp):
AGAAGCAGATGCCGCAGCAAG
Found at i:50804279 original size:42 final size:42
Alignment explanation
Indices: 50804139--50804447 Score: 350
Period size: 42 Copynumber: 7.2 Consensus size: 42
50804129 GTTTCTGAAA
* * * ***
50804139 TAAGCGCCGCTAAAGCACATTA-CTTTTAGCGGCGTTTGTAGA
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTTTTTC
* *
50804181 TAAAGCGCCGCTAAAGAATATGATCTTTAGCGGCATTTTTTTCC
1 T-AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT-C
* * * *
50804225 CAAGCGCCGCTAAAGAACACGATCATTAGTGGCGTTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
* ** * *
50804267 TTAGTTCAGCTAAAGAACATGATCTTTAGTGGCGTTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
* * *
50804309 TTAGCGCCGCTAAAGAACATGATCTTTAGCAGCGTTTTTTGC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
* *
50804351 ACAAGCGCCGCTAAAGAACATGATATTTAGCGGCGTTTTTTTC
1 -TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
*
50804394 TAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
50804436 TGTAAGCGCCGC
1 --TAAGCGCCGC
50804448 AAAAAGTTAG
Statistics
Matches: 226, Mismatches: 35, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
42 112 0.50
43 103 0.46
44 11 0.05
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.32
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
Found at i:50804305 original size:85 final size:84
Alignment explanation
Indices: 50804139--50804436 Score: 337
Period size: 85 Copynumber: 3.5 Consensus size: 84
50804129 GTTTCTGAAA
* * * *** * *
50804139 TAAGCGCCGCTAAAGCACATTA-CTTTTAGCGGCGTTTGTAGATAAAGCGCCGCTAAAGAATATG
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTTTTTCT-AAGCGCAGCTAAAGAACATG
*
50804203 ATCTTTAGCGGCATTTTTTTCC
64 ATCTTTAGCGGCGTTTTTTT-C
* * * * * **
50804225 CAAGCGCCGCTAAAGAACACGATCATTAGTGGCGTTTTTTTCTTAGTTCAGCTAAAGAACATGAT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCAGCTAAAGAACATGAT
*
50804290 CTTTAGTGGCGTTTTTTTC
66 CTTTAGCGGCGTTTTTTTC
* * * * *
50804309 TTAGCGCCGCTAAAGAACATGATCTTTAGCAGCGTTTTTTGCACAAGCGCCGCTAAAGAACATGA
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC-TAAGCGCAGCTAAAGAACATGA
*
50804374 TATTTAGCGGCGTTTTTTTC
65 TCTTTAGCGGCGTTTTTTTC
*
50804394 TAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTTCT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
50804437 GTAAGCGCCG
Statistics
Matches: 174, Mismatches: 36, Indels: 6
0.81 0.17 0.03
Matches are distributed among these distances:
84 36 0.21
85 106 0.61
86 31 0.18
87 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.33
Consensus pattern (84 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCAGCTAAAGAACATGAT
CTTTAGCGGCGTTTTTTTC
Found at i:50804356 original size:127 final size:129
Alignment explanation
Indices: 50804139--50804447 Score: 383
Period size: 127 Copynumber: 2.4 Consensus size: 129
50804129 GTTTCTGAAA
* * * * * *** * *
50804139 TAAGCGCCGCTAAAGCACATTACTTTTAGCGGCGTTTGTAGAT-AAAGCGCCGCTAAAGAATATG
1 TAAGCGCAGCTAAAGAACATGACCTTTAGCGGCGTTTTTTTCTGTAAGCGCCGCTAAAGAACATG
* * * *
50804203 ATCTTTAGCGGCATTTTTTTCCCAAGCGCCGCTAAAGAACACGATCA-TTAGTGGCGTTTTTTTC
66 ATCTTTAGCAGCATTTTTTGCACAAGCGCCGCTAAAGAACACGAT-ATTTAGCGGCGTTTTTTTC
* ** * *
50804267 TTAGTTCAGCTAAAGAACATGATCTTTAGTGGCGTTTTTTTCT-T-AGCGCCGCTAAAGAACATG
1 TAAGCGCAGCTAAAGAACATGACCTTTAGCGGCGTTTTTTTCTGTAAGCGCCGCTAAAGAACATG
* *
50804330 ATCTTTAGCAGCGTTTTTTGCACAAGCGCCGCTAAAGAACATGATATTTAGCGGCGTTTTTTTC
66 ATCTTTAGCAGCATTTTTTGCACAAGCGCCGCTAAAGAACACGATATTTAGCGGCGTTTTTTTC
*
50804394 TAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTTCTGTAAGCGCCGC
1 TAAGCGCAGCTAAAGAACATGACCTTTAGCGGCGTTTTTTTCTGTAAGCGCCGC
50804448 AAAAAGTTAG
Statistics
Matches: 151, Mismatches: 27, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
126 1 0.01
127 111 0.74
128 31 0.21
129 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.32
Consensus pattern (129 bp):
TAAGCGCAGCTAAAGAACATGACCTTTAGCGGCGTTTTTTTCTGTAAGCGCCGCTAAAGAACATG
ATCTTTAGCAGCATTTTTTGCACAAGCGCCGCTAAAGAACACGATATTTAGCGGCGTTTTTTTC
Found at i:50815300 original size:555 final size:554
Alignment explanation
Indices: 50814346--50815459 Score: 2192
Period size: 555 Copynumber: 2.0 Consensus size: 554
50814336 TTTGGGGTTT
50814346 TTTTTATTTAGAACGTATAATCGAATTGCAAAGGTTGAAAACAAATGGAAATAAACTTTTAAAAC
1 TTTTTATTTAGAACGTATAATCGAATTGCAAAGGTTGAAAACAAATGGAAATAAACTTTTAAAAC
*
50814411 TATTTGTTACCTCAACTGAAAGTTTGGAGATCAAATTCAGGAAGAATCTTCAAAATTTCATGAAT
66 TATTTGTTACCTCAACTGAAAGTTTGGAGATCAAATTCAAGAAGAATCTTCAAAATTTCATGAAT
*
50814476 CAAGATAGTTCGAATTGATGAAAATTGTTGAGGTTTTGGGTGAAATTGATGGCTATTTTGAAGAG
131 CAAGATAGTTCGAATTGATGAAAATCGTTGAGGTTTTGGGTGAAATTGATGGCTATTTTGAAGAG
50814541 AATAGCCATTTTTCTTTATCTAGGATTTTTTTAGTGAGAAATTTGAGAGAAAATGAAGAAAAAAT
196 AATAGCCATTTTTCTTTATCTAGGATTTTTTTAGTGAGAAATTTGAGAGAAAATGAAGAAAAAAT
50814606 AAGTTAGATATGGTGTTTTATTAACCATCGGTATGGAGGGAAGGAGATGGTAGATTGGCTACAAT
261 AAGTTAGATATGGTGTTTTATTAACCATCGGTATGGAGGGAAGGAGATGGTAGATTGGCTACAAT
50814671 TTCAAAAAGTGGGGTATTTACTTCTTAAAGACTACAACTTTCACTCGTTTTCAAATAGGTCCCAT
326 TTCAAAAAGTGGGGTATTTACTTCTTAAAGACTACAACTTTCACTCGTTTTCAAATAGGTCCCAT
50814736 GGCTAAAATTAGTCAAAATTGATGTAATTTGATTCAATTTAATACCTGATTTCAATTCTAATCTC
391 GGCTAAAATTAGTCAAAATTGATGTAATTTGATTCAATTTAATACCTGATTTCAATTCTAATCTC
50814801 ACCTAAGCTAATCTAAAATTCTATTTAATTCTCTCTAATTTGAATTTCCCTTAATAGGATTTTCT
456 ACCTAAGCTAATCTAAAATTCTATTTAATTCTCTCTAATTTGAATTTCCCTTAATAGGATTTTCT
50814866 AAACTCGTATTTTTTTCTTCCACTCAATCACGTAA
521 AAACTCGTA-TTTTTTCTTCCACTCAATCACGTAA
50814901 TTTTTATTTAGAACGTATAATCGAATTGCAAAGGTTGAAAACAAATGGAAATAAACTTTTAAAAC
1 TTTTTATTTAGAACGTATAATCGAATTGCAAAGGTTGAAAACAAATGGAAATAAACTTTTAAAAC
50814966 TATTTGTTACCTCAACTGAAAGTTTGGAGATCAAATTCAAGAAGAATCTTCAAAATTTCATGAAT
66 TATTTGTTACCTCAACTGAAAGTTTGGAGATCAAATTCAAGAAGAATCTTCAAAATTTCATGAAT
50815031 CAAGATAGTTCGAATTGATGAAAATCGTTGAGGTTTTGGGTGAAATTGATGGCTATTTTGAAGAG
131 CAAGATAGTTCGAATTGATGAAAATCGTTGAGGTTTTGGGTGAAATTGATGGCTATTTTGAAGAG
50815096 AATAGCCATTTTTCTTTATCTAGGATTTTTTTAGTGAGAAATTTGAGAGAAAATGAAGAAAAAAT
196 AATAGCCATTTTTCTTTATCTAGGATTTTTTTAGTGAGAAATTTGAGAGAAAATGAAGAAAAAAT
50815161 AAGTTAGATATGGTGTTTTATTAACCATCGGTATGGAGGGAAGGAGATGGTAGATTGGCTACAAT
261 AAGTTAGATATGGTGTTTTATTAACCATCGGTATGGAGGGAAGGAGATGGTAGATTGGCTACAAT
50815226 TTCAAAAAGTGGGGTATTTACTTCTTAAAGACTACAACTTTCACTCGTTTTCAAATAGGTCCCAT
326 TTCAAAAAGTGGGGTATTTACTTCTTAAAGACTACAACTTTCACTCGTTTTCAAATAGGTCCCAT
*
50815291 GGCTAAAATTAGTCAAAATTGATGTAATTTGATTCAATTTAATACCTGATTTTAATTCTAATCTC
391 GGCTAAAATTAGTCAAAATTGATGTAATTTGATTCAATTTAATACCTGATTTCAATTCTAATCTC
50815356 ACCTAAGCTAATCTAAAATTCTATTTAATTCTCTCTAATTTGAATTTCCCTTAATAGGATTTTCT
456 ACCTAAGCTAATCTAAAATTCTATTTAATTCTCTCTAATTTGAATTTCCCTTAATAGGATTTTCT
50815421 AAACTCGTATTTTTTCTTCCACTCAATCACGTAA
521 AAACTCGTATTTTTTCTTCCACTCAATCACGTAA
50815455 TTTTT
1 TTTTT
50815460 CTCCCTCTTT
Statistics
Matches: 556, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
554 30 0.05
555 526 0.95
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (554 bp):
TTTTTATTTAGAACGTATAATCGAATTGCAAAGGTTGAAAACAAATGGAAATAAACTTTTAAAAC
TATTTGTTACCTCAACTGAAAGTTTGGAGATCAAATTCAAGAAGAATCTTCAAAATTTCATGAAT
CAAGATAGTTCGAATTGATGAAAATCGTTGAGGTTTTGGGTGAAATTGATGGCTATTTTGAAGAG
AATAGCCATTTTTCTTTATCTAGGATTTTTTTAGTGAGAAATTTGAGAGAAAATGAAGAAAAAAT
AAGTTAGATATGGTGTTTTATTAACCATCGGTATGGAGGGAAGGAGATGGTAGATTGGCTACAAT
TTCAAAAAGTGGGGTATTTACTTCTTAAAGACTACAACTTTCACTCGTTTTCAAATAGGTCCCAT
GGCTAAAATTAGTCAAAATTGATGTAATTTGATTCAATTTAATACCTGATTTCAATTCTAATCTC
ACCTAAGCTAATCTAAAATTCTATTTAATTCTCTCTAATTTGAATTTCCCTTAATAGGATTTTCT
AAACTCGTATTTTTTCTTCCACTCAATCACGTAA
Found at i:50820790 original size:12 final size:12
Alignment explanation
Indices: 50820773--50820798 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
50820763 TTTGATTGGT
50820773 TTATTTTTATTA
1 TTATTTTTATTA
50820785 TTATTTTTATTA
1 TTATTTTTATTA
50820797 TT
1 TT
50820799 TGGAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TTATTTTTATTA
Found at i:50830323 original size:19 final size:19
Alignment explanation
Indices: 50830297--50830355 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
50830287 GAAAAAAATC
*
50830297 AATC-AAAATCAAAATAAA
1 AATCAAAAATAAAAATAAA
50830315 AATCAAAAAATAAAAATAAA
1 AATC-AAAAATAAAAATAAA
**
50830335 AAAGAAAAATAAAAATAAA
1 AATCAAAAATAAAAATAAA
50830354 AA
1 AA
50830356 GGAGAGGCCA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
18 4 0.11
19 17 0.47
20 15 0.42
ACGTcount: A:0.80, C:0.05, G:0.02, T:0.14
Consensus pattern (19 bp):
AATCAAAAATAAAAATAAA
Found at i:50830329 original size:6 final size:6
Alignment explanation
Indices: 50830301--50830355 Score: 65
Period size: 6 Copynumber: 8.7 Consensus size: 6
50830291 AAAATCAATC
* *
50830301 AAAATC AAAATA AAAATCAA AAAATA AAAATAA AAAAGA AAAATA AAAATA
1 AAAATA AAAATA AAAAT--A AAAATA AAAAT-A AAAATA AAAATA AAAATA
50830352 AAAA
1 AAAA
50830356 GGAGAGGCCA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
6 32 0.74
7 5 0.12
8 6 0.14
ACGTcount: A:0.82, C:0.04, G:0.02, T:0.13
Consensus pattern (6 bp):
AAAATA
Found at i:50832720 original size:128 final size:128
Alignment explanation
Indices: 50832513--50832893 Score: 618
Period size: 128 Copynumber: 3.0 Consensus size: 128
50832503 GCCCACTGAC
*
50832513 CAGCAGTGGAGTAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCAAAG
1 CAGCAGTGGAGTAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAG
* * *
50832578 ACGGCGAATCTTATCTTCTAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATGTCCTTGGT
66 ACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATCTCCCTGGT
* * *
50832641 CAGTAGTGGAGTAGGTTGGAAATTAAAGATCTTGTCTCCCTAAGCAGTAGCGGAGTAGATCGAAG
1 CAGCAGTGGAGTAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAG
* * *
50832706 ACGGTGAATCTTATCTTCAAGTGTAAGGAAGAAGATTTTAGCCACAAGTCCTATCTCCCTGGT
66 ACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATCTCCCTGGT
* * * *
50832769 TAGCAGTGGAGCAGGTTGGAAATTACAGATCTTGTCTCCCTAAGTAGTAGCAGAGCAGATCGAAG
1 CAGCAGTGGAGTAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAG
* *
50832834 ACGGCAAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCATAAGTCCTATCTCCCT
66 ACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATCTCCCT
50832894 AAGATTACAG
Statistics
Matches: 231, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
128 231 1.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (128 bp):
CAGCAGTGGAGTAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAG
ACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATCTCCCTGGT
Found at i:50833035 original size:256 final size:253
Alignment explanation
Indices: 50832514--50832974 Score: 569
Period size: 256 Copynumber: 1.8 Consensus size: 253
50832504 CCCACTGACC
* *
50832514 AGCAGTGGAGTAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCAAAGA
1 AGCAGTGGAGCAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCAGAGCAGATCAAAGA
* * * * *
50832579 CGGCGAATCTTATCTTCTAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATGTCCTTGGTCAG
66 CGGCAAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATCTCC-T-CTAAG
* * ** * *
50832644 TAGTGGAGTAGGTTGGAAATTAAAGATCTTGTCTCCCTAAGCAGTAGCGGAGTAGATCGAAGACG
129 TAGTGGAGCAGGTTGAAAACCAAAGATCTTATCTCCCTAAG-AGTAGCGGAGTAGATCGAAGACA
* * **
50832709 GTGAATCTTATCTTCAAGTGTAAGGAAGAAGATTTTAGCCACAAGTCCTATCTCCCTGGTT
193 GTAAATCTTATCTCCAAGTGTAAGGAAGAAGATTGAAGCCACAAGTCCTATCTCCCTGGTT
* *
50832770 AGCAGTGGAGCAGGTTGGAAATTACAGATCTTGTCTCCCTAAGTAGTAGCAGAGCAGATCGAAGA
1 AGCAGTGGAGCAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCAGAGCAGATCAAAGA
*
50832835 CGGCAAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCATAAGTCCTATCTCC-CTAAG-A
66 CGGCAAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATCTCCTCTAAGTA
* * *
50832898 -T-TA-CA-GTTGAATAGACCAAAGAATCTTATCTCCCTGAG-GTTACAGCGGAGTAGATTGAAG
131 GTGGAGCAGGTTGAA-A-ACCAAAG-ATCTTATCTCCCTAAGAG-T--AGCGGAGTAGATCGAAG
*
50832958 CCAG-AAATCTTATCTCC
190 ACAGTAAATCTTATCTCC
50832975 CTGAGATTAC
Statistics
Matches: 177, Mismatches: 22, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
248 5 0.03
249 3 0.02
250 7 0.04
251 26 0.15
252 19 0.11
253 3 0.02
256 114 0.64
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (253 bp):
AGCAGTGGAGCAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCAGAGCAGATCAAAGA
CGGCAAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATCTCCTCTAAGTA
GTGGAGCAGGTTGAAAACCAAAGATCTTATCTCCCTAAGAGTAGCGGAGTAGATCGAAGACAGTA
AATCTTATCTCCAAGTGTAAGGAAGAAGATTGAAGCCACAAGTCCTATCTCCCTGGTT
Found at i:50833325 original size:211 final size:212
Alignment explanation
Indices: 50832885--50833563 Score: 1045
Period size: 211 Copynumber: 3.2 Consensus size: 212
50832875 CCATAAGTCC
* * *
50832885 TATCTCCCTAAGATTACAGTTGAATAGACCAAAGAATCTTATCTCCCTGAGGTTACAGCGGAGTA
1 TATCTCCCTGAGATTACAGTGGAATAGACCAAAGAATCTTATCTCCCTGAGGTTACAGCGGAGCA
50832950 GATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTAT
66 GATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTAT
* * *
50833015 TTCCCTGAGATTATAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGAG
131 TTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAATTACAGTAGAG
* *
50833080 TAGATTGCACCAGGTCT
196 TAGATCGCATCAGGTCT
* *
50833097 TATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATCTTATCTCCCTGAGGTTACAACGGAGCA
1 TATCTCCCTGAGATTACAGTGGAATAGACCAAAGAATCTTATCTCCCTGAGGTTACAGCGGAGCA
* *
50833162 GATTGAAGCCAGAAATCTTATCTCTCTGAGATTACAGCGGAGCAGATT-AAGCCAGTAATCATAT
66 GATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTAT
* *
50833226 TTCCCTGAGATTACAGTGGACCGGATTAAAATAAAGGATTTTATCTCTCTAAAATTACAGTAGAG
131 TTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAATTACAGTAGAG
* *
50833291 TAGATCACATTAGGTCT
196 TAGATCGCATCAGGTCT
* * * *
50833308 TATCTCACTGGGATTACAGTGGAATAGACCGAAGAATTTCAAATCTTATCTCCCTAAGGTTACAG
1 TATCTCCCTGAGATTACAGTGGAATAGACC--A-AA----GAATCTTATCTCCCTGAGGTTACAG
* * *
50833373 TGGAGCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAATA
59 CGGAGCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTA
50833438 ATCCTATTTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAATTAC
124 ATCCTATTTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAATTAC
*
50833503 AGTAGAATAGATCGCATCAGGTCT
189 AGTAGAGTAGATCGCATCAGGTCT
* * *
50833527 TATCTCCCTAAGATTACAGGGGAATAGATCAAAGAAT
1 TATCTCCCTGAGATTACAGTGGAATAGACCAAAGAAT
50833564 TTCAAATCTT
Statistics
Matches: 421, Mismatches: 38, Indels: 16
0.89 0.08 0.03
Matches are distributed among these distances:
211 116 0.28
212 110 0.26
214 2 0.00
216 2 0.00
217 1 0.00
218 74 0.18
219 116 0.28
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (212 bp):
TATCTCCCTGAGATTACAGTGGAATAGACCAAAGAATCTTATCTCCCTGAGGTTACAGCGGAGCA
GATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTAT
TTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAATTACAGTAGAG
TAGATCGCATCAGGTCT
Found at i:50833466 original size:44 final size:44
Alignment explanation
Indices: 50832919--50833471 Score: 343
Period size: 44 Copynumber: 12.8 Consensus size: 44
50832909 TAGACCAAAG
* * *
50832919 AATCTTATCTCCCTGAGGTTACAGCGGAGTAGATTGAAGCCAGA-
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCA-AT
* *
50832963 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAAT
* * * ** * *** *
50833007 AATCCTATTTCCCTGAGATTATAGTGGAGTGGATTAAAATAAAG
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAAT
* * * * * *
50833051 GATCTTATCTCTCTGAAATTACAGTAGAGTAGATTGCA-CC-A-
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAAT
** * *
50833092 GGTCTTATCTCCCTGAGATTACAGT-G-G-A-ATAG-A-CCGAAG
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCC-AAT
* **
50833131 AATCTTATCTCCCTGAGGTTACAACGGAGCAGATTGAAGCCAGA-
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCA-AT
* * *
50833175 AATCTTATCTCTCTGAGATTACAGCGGAGCAGATT-AAGCCAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAAT
* * * * * *** *
50833218 AATCATATTTCCCTGAGATTACAGTGGACCGGATTAAAATAAAG
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAAT
* * * * * * * * *
50833262 GATTTTATCTCTCTAAAATTACAGTAGAGTAGA-T-CA--CATT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAAT
* * * ** **
50833302 AGGTCTTATCTCACTGGGATTACAGTGGAATAGACCGAAG--AATTT
1 A-ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAA--T
* *
50833347 CAAATCTTATCTCCCTAAGGTTACAGTGGAGCAGATTGAAGCCAGA-
1 --AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCA-AT
50833393 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAAT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAAT
* * *
50833437 AATCCTATTTCCCTGAGATTACAGTGGAGCGGATT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATT
50833472 AAAATAAAGG
Statistics
Matches: 391, Mismatches: 93, Indels: 50
0.73 0.17 0.09
Matches are distributed among these distances:
36 3 0.01
37 3 0.01
38 2 0.01
39 21 0.05
40 3 0.01
41 47 0.12
42 3 0.01
43 42 0.11
44 231 0.59
45 4 0.01
46 29 0.07
47 1 0.00
48 1 0.00
49 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAAT
Found at i:50833529 original size:219 final size:219
Alignment explanation
Indices: 50832919--50833574 Score: 1040
Period size: 219 Copynumber: 3.0 Consensus size: 219
50832909 TAGACCAAAG
*
50832919 AATCTTATCTCCCTGAGGTTACAGCGGAGTAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTA
1 AATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTA
* *
50832984 CAGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTATAGTGGAGTGGATTAAAATAA
66 CAGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
* * *
50833049 AGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATTGCACCAGGTCTTATCTCCCTGAGATTAC
131 AGGATCTTATCTCTCTAAAATTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGATTAC
50833114 AGTGGAATAGACCGAAG-------
196 AGTGGAATAGACCGAAGAATTTCA
* *
50833131 AATCTTATCTCCCTGAGGTTACAACGGAGCAGATTGAAGCCAGAAATCTTATCTCTCTGAGATTA
1 AATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTA
* *
50833196 CAGCGGAGCAGATT-AAGCCAGTAATCATATTTCCCTGAGATTACAGTGGACCGGATTAAAATAA
66 CAGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
* * * * *
50833260 AGGATTTTATCTCTCTAAAATTACAGTAGAGTAGATCACATTAGGTCTTATCTCACTGGGATTAC
131 AGGATCTTATCTCTCTAAAATTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGATTAC
50833325 AGTGGAATAGACCGAAGAATTTCA
196 AGTGGAATAGACCGAAGAATTTCA
* *
50833349 AATCTTATCTCCCTAAGGTTACAGTGGAGCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTA
1 AATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTA
* *
50833414 CAGTGGAGCAGATTGAAGCCAATAATCCTATTTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
66 CAGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
* *
50833479 AGGATCTTATCTCTCTAAAATTACAGTAGAATAGATCGCATCAGGTCTTATCTCCCTAAGATTAC
131 AGGATCTTATCTCTCTAAAATTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGATTAC
* * *
50833544 AGGGGAATAGATCAAAGAATTTCA
196 AGTGGAATAGACCGAAGAATTTCA
50833568 AATCTTA
1 AATCTTA
50833575 CTTCCAAGGA
Statistics
Matches: 403, Mismatches: 33, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
211 120 0.30
212 76 0.19
218 74 0.18
219 133 0.33
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (219 bp):
AATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTA
CAGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
AGGATCTTATCTCTCTAAAATTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGATTAC
AGTGGAATAGACCGAAGAATTTCA
Found at i:50833641 original size:50 final size:49
Alignment explanation
Indices: 50833587--50833812 Score: 188
Period size: 50 Copynumber: 4.5 Consensus size: 49
50833577 TCCAAGGAGA
* * *
50833587 TGCAGTGGAATAGAGTAAAGCCACATATGTGAATCTTGCTTCTCCGACAT
1 TGCAGTGGAAAAGATTAAAGCCACATATGTGAATCTTACTTC-CCGACAT
** * * * **
50833637 TGCAGTTAAAAAGATTAAAGCTACA-ATAGCGAATCTTACTTCCCAGGCGG
1 TGCAGTGGAAAAGATTAAAGCCACATAT-GTGAATCTTACTTCCC-GACAT
*
50833687 TGCAGTGGAACAGATTAAAGCCACATCA-GTGAATCTTACTTCCCCGACAT
1 TGCAGTGGAAAAGATTAAAGCCACAT-ATGTGAATCTTACTT-CCCGACAT
** * * * * **
50833737 TGCAGTTAAAAAGATTAAAGCTACA-ACAGCGAATCTTACTTCCCAGGCGG
1 TGCAGTGGAAAAGATTAAAGCCACATA-TGTGAATCTTACTTCCC-GACAT
*
50833787 TGCAGTGGAACAGATTAAAGCCACAT
1 TGCAGTGGAAAAGATTAAAGCCACAT
50833813 CGCGGAACAG
Statistics
Matches: 137, Mismatches: 30, Indels: 17
0.74 0.16 0.09
Matches are distributed among these distances:
48 1 0.01
49 7 0.05
50 125 0.91
51 3 0.02
52 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (49 bp):
TGCAGTGGAAAAGATTAAAGCCACATATGTGAATCTTACTTCCCGACAT
Found at i:50833741 original size:100 final size:101
Alignment explanation
Indices: 50833568--50833813 Score: 406
Period size: 100 Copynumber: 2.5 Consensus size: 101
50833558 AAGAATTTCA
* * * * * * *
50833568 AATCTTACTTCCAAGGAGATGCAGTGGAATAGAGTAAAGCCACAT-ATGTGAATCTTGCTTCTCC
1 AATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCATGTGAATCTTACTTCCCC
*
50833632 GACATTGCAGTTAAAAAGATTAAAGCTACAATAGCG
66 GACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
50833668 AATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCA-GTGAATCTTACTTCCCC
1 AATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCATGTGAATCTTACTTCCCC
50833732 GACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
66 GACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
50833768 AATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATC
1 AATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATC
50833814 GCGGAACAGA
Statistics
Matches: 137, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
100 136 0.99
101 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (101 bp):
AATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCATGTGAATCTTACTTCCCC
GACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
Found at i:50833886 original size:50 final size:50
Alignment explanation
Indices: 50833820--50833928 Score: 175
Period size: 50 Copynumber: 2.2 Consensus size: 50
50833810 CATCGCGGAA
*
50833820 CAGATTAAAGCCACGACGG-CATATCTTGCTTCCCCGACATCACAGTTAAG
1 CAGATTAAAGCCACGACGGTCA-ATCTTGCTTCCCCAACATCACAGTTAAG
* *
50833870 CAGATTAAAGCTACGACGGTGAATCTTGCTTCCCCAACATCACAGTTAAG
1 CAGATTAAAGCCACGACGGTCAATCTTGCTTCCCCAACATCACAGTTAAG
50833920 CAGATTAAA
1 CAGATTAAA
50833929 ATTGTGAGTT
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
50 54 0.98
51 1 0.02
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (50 bp):
CAGATTAAAGCCACGACGGTCAATCTTGCTTCCCCAACATCACAGTTAAG
Found at i:50834212 original size:16 final size:17
Alignment explanation
Indices: 50834185--50834216 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
50834175 GCTAGCCCAA
50834185 AATTATAACCCAAACCC
1 AATTATAACCCAAACCC
50834202 AATTA-AACCCAAACC
1 AATTATAACCCAAACC
50834217 TAATCTGACC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.50, C:0.34, G:0.00, T:0.16
Consensus pattern (17 bp):
AATTATAACCCAAACCC
Found at i:50835653 original size:4 final size:4
Alignment explanation
Indices: 50835629--50835690 Score: 106
Period size: 4 Copynumber: 15.5 Consensus size: 4
50835619 TTGAAACTCT
* *
50835629 TACA TATA TACA TATA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
50835677 TACA TACA TACA TA
1 TACA TACA TACA TA
50835691 TATTATTTGC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 54 1.00
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (4 bp):
TACA
Found at i:50840545 original size:20 final size:20
Alignment explanation
Indices: 50840520--50840559 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
50840510 AGTGAAAAAA
* *
50840520 AGAGGCACGAATGTGCAATC
1 AGAGGCACCAAAGTGCAATC
50840540 AGAGGCACCAAAGTGCAATC
1 AGAGGCACCAAAGTGCAATC
50840560 CCAAACAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.23, G:0.28, T:0.12
Consensus pattern (20 bp):
AGAGGCACCAAAGTGCAATC
Found at i:50841255 original size:15 final size:15
Alignment explanation
Indices: 50841235--50841264 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
50841225 AACTTTACAT
50841235 AGTTTCATATTAGCC
1 AGTTTCATATTAGCC
50841250 AGTTTCATATTAGCC
1 AGTTTCATATTAGCC
50841265 CCTAAACTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (15 bp):
AGTTTCATATTAGCC
Found at i:50847838 original size:44 final size:44
Alignment explanation
Indices: 50847788--50847888 Score: 105
Period size: 44 Copynumber: 2.3 Consensus size: 44
50847778 TTATATGCAG
* *
50847788 ACTCATAAAATAAAATTCATGGATACAATGGCTCATACATGTGA
1 ACTCATAAAATAAAATTCATAGATACAATGACTCATACATGTGA
* * * ** *
50847832 ACTCATAGAAGAAGATTCATAGATTTAATGACTTATACATGTGA
1 ACTCATAAAATAAAATTCATAGATACAATGACTCATACATGTGA
**
50847876 TTTCAT-AAATAAA
1 ACTCATAAAATAAA
50847889 TCATATTTAA
Statistics
Matches: 44, Mismatches: 13, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
43 4 0.09
44 40 0.91
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.31
Consensus pattern (44 bp):
ACTCATAAAATAAAATTCATAGATACAATGACTCATACATGTGA
Found at i:50862626 original size:9 final size:9
Alignment explanation
Indices: 50862612--50862642 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
50862602 GATCAAGTAA
50862612 AATTAAATT
1 AATTAAATT
50862621 AATTAAATT
1 AATTAAATT
50862630 AATTAAAATT
1 AATT-AAATT
50862640 AAT
1 AAT
50862643 ATGATATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 13 0.62
10 8 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
AATTAAATT
Found at i:50862858 original size:25 final size:25
Alignment explanation
Indices: 50862820--50862872 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
50862810 AACCGATGGC
** *
50862820 TGGACTGGACTGATTTAGTCGTCAT
1 TGGACTGGACTGATCGAGTCATCAT
*
50862845 TGGACTGGATTGATCGAGTCATCAT
1 TGGACTGGACTGATCGAGTCATCAT
50862870 TGG
1 TGG
50862873 CCCAGGCCGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.21, C:0.15, G:0.30, T:0.34
Consensus pattern (25 bp):
TGGACTGGACTGATCGAGTCATCAT
Found at i:50874745 original size:24 final size:25
Alignment explanation
Indices: 50874718--50874773 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
50874708 TGTATTACAT
*
50874718 GTTATTTTATAT-ATTTAATTTTTA
1 GTTATTTTATATAATGTAATTTTTA
* * *
50874742 GTTAATTTATATAATGTATTTTTTT
1 GTTATTTTATATAATGTAATTTTTA
50874767 GTTATTT
1 GTTATTT
50874774 GTTATTAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 11 0.42
25 15 0.58
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (25 bp):
GTTATTTTATATAATGTAATTTTTA
Found at i:50874811 original size:29 final size:29
Alignment explanation
Indices: 50874752--50874814 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 29
50874742 GTTAATTTAT
* * * *
50874752 ATAATGTATTTTTTTGTTATTTGTTATTA
1 ATAATGTATTTTTTTCTTAATTCTTAATA
50874781 ATAATG-ATTTTTTTCTTAATTCTT-A-A
1 ATAATGTATTTTTTTCTTAATTCTTAATA
50874807 ATAATGTA
1 ATAATGTA
50874815 CAAAATTGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 7 0.24
27 1 0.03
28 15 0.52
29 6 0.21
ACGTcount: A:0.30, C:0.03, G:0.08, T:0.59
Consensus pattern (29 bp):
ATAATGTATTTTTTTCTTAATTCTTAATA
Found at i:50895361 original size:8 final size:8
Alignment explanation
Indices: 50895348--50895386 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
50895338 GAATTTCAAG
50895348 TTATTTCA
1 TTATTTCA
50895356 TTATTTCA
1 TTATTTCA
50895364 GTATATTTCA
1 -T-TATTTCA
50895374 TTATTTCA
1 TTATTTCA
50895382 -TATTT
1 TTATTT
50895387 ATGAGTTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
7 5 0.17
8 15 0.52
9 2 0.07
10 7 0.24
ACGTcount: A:0.26, C:0.10, G:0.03, T:0.62
Consensus pattern (8 bp):
TTATTTCA
Found at i:50895363 original size:18 final size:19
Alignment explanation
Indices: 50895340--50895381 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
50895330 AGATTATTGA
50895340 ATTTCAAGT-TATTTCATT
1 ATTTCAAGTATATTTCATT
50895358 ATTTC-AGTATATTTCATT
1 ATTTCAAGTATATTTCATT
50895376 ATTTCA
1 ATTTCA
50895382 TATTTATGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 3 0.14
18 19 0.86
ACGTcount: A:0.29, C:0.12, G:0.05, T:0.55
Consensus pattern (19 bp):
ATTTCAAGTATATTTCATT
Found at i:50897845 original size:17 final size:18
Alignment explanation
Indices: 50897823--50897856 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
50897813 TAGAACAATA
*
50897823 AAAATGTTTATA-ATATG
1 AAAATGTATATATATATG
50897840 AAAATGTATATATATAT
1 AAAATGTATATATATAT
50897857 ACTATAGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (18 bp):
AAAATGTATATATATATG
Found at i:50897866 original size:24 final size:23
Alignment explanation
Indices: 50897831--50897878 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
50897821 TAAAAATGTT
*
50897831 TATAATATGAAAATGTATATATA
1 TATAATATGAAAATGAATATATA
* *
50897854 TATACTATAGAAAATGAATGTATA
1 TATAATAT-GAAAATGAATATATA
50897878 T
1 T
50897879 TTTAAATTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (23 bp):
TATAATATGAAAATGAATATATA
Found at i:50898190 original size:10 final size:10
Alignment explanation
Indices: 50898177--50898214 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
50898167 ATAAATATAG
50898177 AAATAATAAT
1 AAATAATAAT
*
50898187 AAATGATAAT
1 AAATAATAAT
50898197 AAATAAT-AT
1 AAATAATAAT
50898206 -AATAATAAT
1 AAATAATAAT
50898215 GATAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
8 6 0.24
9 4 0.16
10 15 0.60
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (10 bp):
AAATAATAAT
Found at i:50898198 original size:28 final size:26
Alignment explanation
Indices: 50898167--50898229 Score: 71
Period size: 24 Copynumber: 2.5 Consensus size: 26
50898157 TGAAATGCGT
50898167 ATAAATATAGAAATAATAATAAATGATA
1 ATAAATATA-AAATAATAAT-AATGATA
*
50898195 AT-AA-ATAATATAATAATAATGATA
1 ATAAATATAAAATAATAATAATGATA
50898219 A-AAATA-AAAAT
1 ATAAATATAAAAT
50898230 TTAAAAAACC
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
24 14 0.45
25 10 0.32
26 3 0.10
27 2 0.06
28 2 0.06
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.29
Consensus pattern (26 bp):
ATAAATATAAAATAATAATAATGATA
Found at i:50898207 original size:25 final size:23
Alignment explanation
Indices: 50898179--50898225 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 23
50898169 AAATATAGAA
50898179 ATAATAATAAATGATAATAAATAAT
1 ATAATAAT-AATGATAA-AAATAAT
50898204 ATAATAATAATGATAAAAATAA
1 ATAATAATAATGATAAAAATAA
50898226 AAATTTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 6 0.27
24 8 0.36
25 8 0.36
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (23 bp):
ATAATAATAATGATAAAAATAAT
Found at i:50898805 original size:17 final size:16
Alignment explanation
Indices: 50898776--50898812 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
50898766 TTTCAAACGA
*
50898776 AAAATAAATAAAAAAG
1 AAAATAAAAAAAAAAG
50898792 AAAATGAAAAAAAAAAG
1 AAAAT-AAAAAAAAAAG
50898809 AAAA
1 AAAA
50898813 ATATGACAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (16 bp):
AAAATAAAAAAAAAAG
Found at i:50904649 original size:14 final size:15
Alignment explanation
Indices: 50904630--50904668 Score: 62
Period size: 14 Copynumber: 2.6 Consensus size: 15
50904620 ATTGATTAAC
50904630 TAAATTTTAAAG-TT
1 TAAATTTTAAAGATT
50904644 TAAATTTTAAAGAATT
1 TAAATTTTAAAG-ATT
50904660 TAAATTTTA
1 TAAATTTTA
50904669 TTATCTACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 12 0.52
16 11 0.48
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (15 bp):
TAAATTTTAAAGATT
Found at i:50904755 original size:35 final size:34
Alignment explanation
Indices: 50904704--50904802 Score: 103
Period size: 37 Copynumber: 2.8 Consensus size: 34
50904694 TAAATAGTCC
* *
50904704 TCTTTTCCTTAATTCTTCGACACTCAAAAAA-ATCA
1 TCTTTTGCTTAGTTCTTC--CACTCAAAAAAGATCA
50904739 TCTTTTGCTTAGTTCTTCCA-TCAAAACAAATGATCA
1 TCTTTTGCTTAGTTCTTCCACTC-AAA-AAA-GATCA
*
50904775 TCCTTTTGATTAGTTCTTCCACTCAAAA
1 T-CTTTTGCTTAGTTCTTCCACTCAAAA
50904803 GAAAAAAAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
32 2 0.04
33 5 0.09
34 3 0.05
35 16 0.29
36 6 0.11
37 21 0.38
38 2 0.04
ACGTcount: A:0.30, C:0.24, G:0.06, T:0.39
Consensus pattern (34 bp):
TCTTTTGCTTAGTTCTTCCACTCAAAAAAGATCA
Found at i:50909587 original size:29 final size:27
Alignment explanation
Indices: 50909521--50909592 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 27
50909511 CTATACTATG
* *
50909521 TATATTGTTGATTAAATTGAATGTTATTA
1 TATATT-TT-ATTAAAATGAATGATATTA
50909550 TATGAATTTTATTGAAAATGAATGATATATA
1 TAT--ATTTTATT-AAAATGAATGATAT-TA
50909581 TATATTTTATTA
1 TATATTTTATTA
50909593 TACAATTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
28 1 0.03
29 14 0.38
30 14 0.38
31 8 0.22
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (27 bp):
TATATTTTATTAAAATGAATGATATTA
Found at i:50909750 original size:25 final size:25
Alignment explanation
Indices: 50909701--50909779 Score: 88
Period size: 25 Copynumber: 3.2 Consensus size: 25
50909691 GTCGCTAGGG
* *
50909701 TTACCGATTC-CAGCTCTTATGAGC
1 TTACCGATACTCAGCTCGTATGAGC
*
50909725 TTACCGATACTCAGTTCGTATGAGC
1 TTACCGATACTCAGCTCGTATGAGC
* * * *
50909750 TTACCGTTATTCAGCTCGGAGGAGC
1 TTACCGATACTCAGCTCGTATGAGC
50909775 TTACC
1 TTACC
50909780 ATTTATAGCT
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
24 9 0.20
25 37 0.80
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (25 bp):
TTACCGATACTCAGCTCGTATGAGC
Found at i:50909798 original size:24 final size:25
Alignment explanation
Indices: 50909711--50909798 Score: 90
Period size: 25 Copynumber: 3.6 Consensus size: 25
50909701 TTACCGATTC
* * *
50909711 CAGCTCTTATGAGCTTACCGATACT
1 CAGCTCGTATGAGCTTACCGTTATT
*
50909736 CAGTTCGTATGAGCTTACCGTTATT
1 CAGCTCGTATGAGCTTACCGTTATT
* * *
50909761 CAGCTCGGAGGAGCTTACCATT-TAT
1 CAGCTCGTATGAGCTTACCGTTAT-T
50909786 -AGCTCGTATGAGC
1 CAGCTCGTATGAGC
50909799 ATACATGTAC
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
24 12 0.23
25 40 0.77
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.32
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTACCGTTATT
Found at i:50911752 original size:23 final size:23
Alignment explanation
Indices: 50911700--50911745 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
50911690 TCAGTCATCC
50911700 CTACACACCATATTGTGTCATTA
1 CTACACACCATATTGTGTCATTA
*
50911723 CTACACACCTTATTGTGTCATTA
1 CTACACACCATATTGTGTCATTA
50911746 TGACACATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.28, C:0.26, G:0.09, T:0.37
Consensus pattern (23 bp):
CTACACACCATATTGTGTCATTA
Found at i:50915963 original size:14 final size:15
Alignment explanation
Indices: 50915926--50915961 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
50915916 AATCTAATAG
50915926 AATTTTTATTTAAAA
1 AATTTTTATTTAAAA
50915941 AATTTTTATTTAAAA
1 AATTTTTATTTAAAA
50915956 AATTTT
1 AATTTT
50915962 ATCTAATTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
AATTTTTATTTAAAA
Found at i:50921609 original size:19 final size:19
Alignment explanation
Indices: 50921583--50921630 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
50921573 TATAAAATTT
*
50921583 TAATTTTTTTATATTTTATAA
1 TAATTTTATTA-ATTTT-TAA
50921604 -AATTTTATTAATTTTTAA
1 TAATTTTATTAATTTTTAA
50921622 TAATTTTAT
1 TAATTTTAT
50921631 CATTTAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 3 0.12
19 13 0.52
20 9 0.36
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TAATTTTATTAATTTTTAA
Found at i:50921770 original size:28 final size:28
Alignment explanation
Indices: 50921724--50921799 Score: 75
Period size: 28 Copynumber: 2.7 Consensus size: 28
50921714 AAATTTTTAC
* * *
50921724 AATAATTTAATATTATATTTCATA-TTTT
1 AATAATTT-TTATAATATTTAATAGTTTT
50921752 CAA-AATATTTTATAATATTTAATAGTTTT
1 -AATAAT-TTTTATAATATTTAATAGTTTT
*
50921781 AATAGTTTTTATAATATTT
1 AATAATTTTTATAATATTT
50921800 TTGATATTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
28 30 0.75
29 10 0.25
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (28 bp):
AATAATTTTTATAATATTTAATAGTTTT
Found at i:50921796 original size:21 final size:20
Alignment explanation
Indices: 50921771--50921811 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
50921761 TTATAATATT
50921771 TAATAGTTTTAATAGTTTTTA
1 TAATAGTTTTAATA-TTTTTA
* *
50921792 TAATATTTTTGATATTTTTA
1 TAATAGTTTTAATATTTTTA
50921812 AATCTTGAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (20 bp):
TAATAGTTTTAATATTTTTA
Found at i:50924596 original size:93 final size:93
Alignment explanation
Indices: 50924429--50924605 Score: 257
Period size: 93 Copynumber: 1.9 Consensus size: 93
50924419 ATGGTATTTA
* * *
50924429 TTGACCAAGATAGCTTTTCTTGTAAAGGTTCATGGACACTGAACTTAAAGATCGACTCTTCTAGC
1 TTGACCAAGATAGCTTTTCTTGTAAAGGCTCATAGACACTGAACTGAAAGATCGACTCTTCTAGC
*
50924494 GGTTCTTTATTATGCATGTATGTGATTG
66 GGTTCTTTATGATGCATGTATGTGATTG
* * * * *
50924522 TTGACGAAGATAGCTTTTCTTGTAGAGGCTCATAGACACTGGACTGAAAGATTGACTCTTCTAGT
1 TTGACCAAGATAGCTTTTCTTGTAAAGGCTCATAGACACTGAACTGAAAGATCGACTCTTCTAGC
50924587 GG-TCATTTATGATGCATGT
66 GGTTC-TTTATGATGCATGT
50924606 GTTGCGAAAA
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (93 bp):
TTGACCAAGATAGCTTTTCTTGTAAAGGCTCATAGACACTGAACTGAAAGATCGACTCTTCTAGC
GGTTCTTTATGATGCATGTATGTGATTG
Found at i:50927768 original size:12 final size:11
Alignment explanation
Indices: 50927746--50927783 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
50927736 TTTCCAGTGA
50927746 AGAAA-AGAAG
1 AGAAACAGAAG
*
50927756 AGAGACGAGAAG
1 AGAAAC-AGAAG
50927768 AGAAACAGAAG
1 AGAAACAGAAG
50927779 AGAAA
1 AGAAA
50927784 TTGGGAGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 4 0.17
11 10 0.42
12 10 0.42
ACGTcount: A:0.63, C:0.05, G:0.32, T:0.00
Consensus pattern (11 bp):
AGAAACAGAAG
Found at i:50930427 original size:49 final size:49
Alignment explanation
Indices: 50930350--50930447 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
50930340 ATCATTTTTA
50930350 ATCTTAAGAACTAAACTTTGATACGGGCTGAAAGTCTCCTTAACTTCTC
1 ATCTTAAGAACTAAACTTTGATACGGGCTGAAAGTCTCCTTAACTTCTC
*
50930399 ATCTTAAGAACTAAACTTTGATATGGGCTGAAAGTCTCCTTAACTTCTC
1 ATCTTAAGAACTAAACTTTGATACGGGCTGAAAGTCTCCTTAACTTCTC
50930448 TGTGTAAAGG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (49 bp):
ATCTTAAGAACTAAACTTTGATACGGGCTGAAAGTCTCCTTAACTTCTC
Found at i:50931240 original size:17 final size:17
Alignment explanation
Indices: 50931186--50931240 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
50931176 ATATTATTTT
*
50931186 AATTATTAAATATAATAA
1 AATTATT-ATTATAATAA
* * *
50931204 AAATATTTTTATAATTA
1 AATTATTATTATAATAA
*
50931221 AATTATTATTATGATAA
1 AATTATTATTATAATAA
50931238 AAT
1 AAT
50931241 AATTCTTAAA
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
17 23 0.79
18 6 0.21
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (17 bp):
AATTATTATTATAATAA
Found at i:50933747 original size:51 final size:51
Alignment explanation
Indices: 50933666--50933778 Score: 190
Period size: 51 Copynumber: 2.2 Consensus size: 51
50933656 CGGATCACAT
*
50933666 TTATCACTTGTCACTTGTCACTGATAAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCACTAATAAGATAAGTGTAGCTAAAGCTACCAC
* * *
50933717 TTATCACTTGTCACTTGTCACTAATCAGATAAGTGTAGCTGAAGCTACTAC
1 TTATCACTTGTCACTTGTCACTAATAAGATAAGTGTAGCTAAAGCTACCAC
50933768 TTATCACTTGT
1 TTATCACTTGT
50933779 TACTAATCAG
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (51 bp):
TTATCACTTGTCACTTGTCACTAATAAGATAAGTGTAGCTAAAGCTACCAC
Found at i:50941923 original size:16 final size:16
Alignment explanation
Indices: 50941898--50941932 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
50941888 TTTAGATTTG
50941898 AAACTATAGACTGTGA
1 AAACTATAGACTGTGA
*
50941914 AAACTGTAGACTGTGA
1 AAACTATAGACTGTGA
50941930 AAA
1 AAA
50941933 ATCTCGATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.46, C:0.11, G:0.20, T:0.23
Consensus pattern (16 bp):
AAACTATAGACTGTGA
Found at i:50946623 original size:22 final size:22
Alignment explanation
Indices: 50946584--50946626 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
50946574 TTCCATTAGT
50946584 GTAATTTTTAAAGTTAGGTAAGG
1 GTAATTTTTAAAG-TAGGTAAGG
50946607 GTAATTTTGTAAA-TAGGTAA
1 GTAATTTT-TAAAGTAGGTAA
50946627 TTAAAGATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 7 0.37
23 8 0.42
24 4 0.21
ACGTcount: A:0.37, C:0.00, G:0.23, T:0.40
Consensus pattern (22 bp):
GTAATTTTTAAAGTAGGTAAGG
Found at i:50947575 original size:25 final size:25
Alignment explanation
Indices: 50947523--50947635 Score: 99
Period size: 25 Copynumber: 4.6 Consensus size: 25
50947513 TTATCGATTC
* ** * *
50947523 CAGCTCTTATGAGCTTATTGATACT
1 CAGCTCGTATGAGCTTACCGTTATT
50947548 CAGCTCGTATGAGCTTACCGTTATT
1 CAGCTCGTATGAGCTTACCGTTATT
*
50947573 CAGCTCAG-AGGAGCTTACCGTTATT
1 CAGCTC-GTATGAGCTTACCGTTATT
* *
50947598 CAGCTCAG-AAGAGCTTACCATT-TAT
1 CAGCTC-GTATGAGCTTACCGTTAT-T
50947623 -AGCTCGTATGAGC
1 CAGCTCGTATGAGC
50947636 ATACATGTAC
Statistics
Matches: 76, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
23 1 0.01
24 11 0.14
25 63 0.83
26 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTACCGTTATT
Found at i:50948809 original size:21 final size:21
Alignment explanation
Indices: 50948779--50948818 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
50948769 CATAAGTAGC
50948779 CTTGTAATGGTTGATATATGA
1 CTTGTAATGGTTGATATATGA
*
50948800 CTTGTTATGGTTGATATAT
1 CTTGTAATGGTTGATATAT
50948819 TAGAAGCTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.25, C:0.05, G:0.23, T:0.47
Consensus pattern (21 bp):
CTTGTAATGGTTGATATATGA
Found at i:50955185 original size:50 final size:49
Alignment explanation
Indices: 50955052--50955199 Score: 165
Period size: 49 Copynumber: 3.0 Consensus size: 49
50955042 TGCAAGTACG
* *
50955052 TAGCAGTTTATCTGCAAATTAGTGGTGGCCTGTCCACAAAGTGTTTCAG
1 TAGCAGTTTATCTGCAAATTAGTGGTGGCTTGTCCACAAAGTGTTTCAA
* * * *
50955101 TAGCAATATATATATGCATA-T-GTGGTGGCTTGTCCACTAAGTGTTATCAA
1 TAGCAGT-T-TATCTGCAAATTAGTGGTGGCTTGTCCACAAAGTGTT-TCAA
* *
50955151 TGGCAGTTTATCTACAAATTAGTGGTGGCTTGTCCACAAATGGTGTTTC
1 TAGCAGTTTATCTGCAAATTAGTGGTGGCTTGTCCACAAA--GTGTTTC
50955200 GAATGGACAA
Statistics
Matches: 80, Mismatches: 12, Indels: 12
0.77 0.12 0.12
Matches are distributed among these distances:
48 7 0.09
49 30 0.38
50 28 0.35
51 10 0.12
52 5 0.06
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (49 bp):
TAGCAGTTTATCTGCAAATTAGTGGTGGCTTGTCCACAAAGTGTTTCAA
Done.