Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 267 of 292
Found at i:76833212 original size:90 final size:91
Alignment explanation
Indices: 76832996--76833231 Score: 289
Period size: 90 Copynumber: 2.6 Consensus size: 91
76832986 GTGTCCCGAG
* * *
76832996 GCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGAAAAGCATAAATTAAAAAACATTAATT
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACATAAATTAAAAAACATAAATT
* *
76833061 GAAAATACCTCGGCATATGATCCTGAG
65 GAAAATACCTCGACATATGATCCTGAC
* * * *
76833088 GCTCAATTCACCTCTAGCAATATGAATTGA-TTTTTGAAAAACATAAATTGAAAAAC-TGAAATT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATAAATTAAAAAACAT-AAATT
* *
76833151 GTAAATACCTCGACATGTGA-CCTGAC
65 GAAAATACCTCGACATATGATCCTGAC
* ** *
76833177 GTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATGAACAGAAATTAAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACATAAATTAAAA
76833232 CTACCTCAGC
Statistics
Matches: 122, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
89 32 0.26
90 45 0.37
91 19 0.16
92 26 0.21
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.31
Consensus pattern (91 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATAAATTAAAAAACATAAATTG
AAAATACCTCGACATATGATCCTGAC
Found at i:76833270 original size:75 final size:72
Alignment explanation
Indices: 76833153--76833378 Score: 292
Period size: 74 Copynumber: 3.0 Consensus size: 72
76833143 CTGAAATTGT
* * *
76833153 AAATACCTCGACATGTGACCTGACGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATG
1 AAATACCTC-A-ACGTGTCCTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA--
76833218 AACAGAAATTA
62 AACAGAAATTA
* *
76833229 AAACTACCTCAGCGTGTCCTGAGGTTCAACTCACCTCTCGCAGTATGAGTTGATTTTTTTGAAA-
1 AAA-TACCTCAACGTGTCCTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAC
*
76833293 AAATAGATTGA
65 AGA-A-ATT-A
* *
76833304 AAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACA
1 AAATACCTCAACGTGTCCTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACA
*
76833369 GAAATAA
66 GAAATTA
76833376 AAA
1 AAA
76833379 ATATCAAAAT
Statistics
Matches: 133, Mismatches: 12, Indels: 14
0.84 0.08 0.09
Matches are distributed among these distances:
72 6 0.05
73 5 0.04
74 60 0.45
75 52 0.39
76 4 0.03
77 6 0.05
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.31
Consensus pattern (72 bp):
AAATACCTCAACGTGTCCTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACA
GAAATTA
Found at i:76835201 original size:46 final size:44
Alignment explanation
Indices: 76835142--76835256 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
76835132 ACAGGACAGA
* *
76835142 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
76835188 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
76835232 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
76835257 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:76835237 original size:44 final size:45
Alignment explanation
Indices: 76835142--76835275 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
76835132 ACAGGACAGA
* *
76835142 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
76835188 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
76835232 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
76835276 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:76840832 original size:46 final size:44
Alignment explanation
Indices: 76840773--76840887 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
76840763 ACAGGACAGA
* *
76840773 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
76840819 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
76840863 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
76840888 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:76840868 original size:44 final size:45
Alignment explanation
Indices: 76840773--76840906 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
76840763 ACAGGACAGA
* *
76840773 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
76840819 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
76840863 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
76840907 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:76853257 original size:25 final size:23
Alignment explanation
Indices: 76853205--76853259 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
76853195 TATAAATAGT
76853205 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
76853228 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
76853253 AATAGTG
1 AATAGTG
76853260 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:76853676 original size:9 final size:9
Alignment explanation
Indices: 76853662--76853698 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
76853652 ATAACATTAA
76853662 AATATATAT
1 AATATATAT
*
76853671 AATATATAA
1 AATATATAT
*
76853680 AATAAATAT
1 AATATATAT
76853689 AATATATAT
1 AATATATAT
76853698 A
1 A
76853699 TATTAGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (9 bp):
AATATATAT
Found at i:76853682 original size:18 final size:18
Alignment explanation
Indices: 76853659--76853696 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
76853649 CTAATAACAT
*
76853659 TAAAATATATATAATATA
1 TAAAATAAATATAATATA
76853677 TAAAATAAATATAATATA
1 TAAAATAAATATAATATA
76853695 TA
1 TA
76853697 TATATTAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
TAAAATAAATATAATATA
Found at i:76853793 original size:19 final size:19
Alignment explanation
Indices: 76853769--76853805 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
76853759 TATAAATAAT
*
76853769 AATGATGTTAGAAATATAC
1 AATGATATTAGAAATATAC
76853788 AATGATATTAGAAATATA
1 AATGATATTAGAAATATA
76853806 TATAAAATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.14, T:0.32
Consensus pattern (19 bp):
AATGATATTAGAAATATAC
Found at i:76853903 original size:24 final size:24
Alignment explanation
Indices: 76853862--76853917 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
76853852 ACACAATAAT
*
76853862 ATATATAACATACAATAT-TGAAAA
1 ATATAT-ACATACAATATACGAAAA
76853886 CATATATACATA-ATATATACGAAAA
1 -ATATATACATACA-ATATACGAAAA
76853911 ATATATA
1 ATATATA
76853918 GATATACATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 1 0.04
24 16 0.57
25 11 0.39
ACGTcount: A:0.57, C:0.09, G:0.04, T:0.30
Consensus pattern (24 bp):
ATATATACATACAATATACGAAAA
Found at i:76853942 original size:30 final size:30
Alignment explanation
Indices: 76853889--76853963 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
76853879 TTGAAAACAT
*
76853889 ATATACATAATATATACGAAAAATATATAG
1 ATATACATAATATATACGAAAAATATATAC
** *
76853919 ATATACATAATATAATA-TTAAAATATTTAC
1 ATATACATAATAT-ATACGAAAAATATATAC
76853949 ATAATACATAA-ATAT
1 AT-ATACATAATATAT
76853964 TAGGGATAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
29 2 0.05
30 26 0.67
31 11 0.28
ACGTcount: A:0.56, C:0.07, G:0.03, T:0.35
Consensus pattern (30 bp):
ATATACATAATATATACGAAAAATATATAC
Found at i:76854027 original size:23 final size:22
Alignment explanation
Indices: 76854001--76854044 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
76853991 CTACATAAGT
76854001 ATATACATAAATATATTAAAAAC
1 ATATACATAAATATA-TAAAAAC
*
76854024 ATATACATATATATATAAAAA
1 ATATACATAAATATATAAAAA
76854045 TAAAAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (22 bp):
ATATACATAAATATATAAAAAC
Found at i:76854042 original size:31 final size:30
Alignment explanation
Indices: 76854000--76854069 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 30
76853990 GCTACATAAG
* * *
76854000 TATATACATAAATATATTAAAAACATATACA-
1 TATATATATAAA-A-ATAAAAAAAATATACAC
76854031 TATATATATAAAAATAAAAAAAATATACAC
1 TATATATATAAAAATAAAAAAAATATACAC
76854061 TA-ATATATA
1 TATATATATA
76854070 GTAATCATGA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 21 0.60
30 3 0.09
31 11 0.31
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (30 bp):
TATATATATAAAAATAAAAAAAATATACAC
Found at i:76857867 original size:11 final size:11
Alignment explanation
Indices: 76857851--76857876 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
76857841 ATTTCATCAT
76857851 ATGTAATTATG
1 ATGTAATTATG
76857862 ATGTAATTATG
1 ATGTAATTATG
76857873 ATGT
1 ATGT
76857877 GTGGATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (11 bp):
ATGTAATTATG
Found at i:76860594 original size:3 final size:3
Alignment explanation
Indices: 76860588--76860648 Score: 95
Period size: 3 Copynumber: 20.0 Consensus size: 3
76860578 AAAAGTTGTG
*
76860588 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
76860636 ATA TTA ATTA ATA
1 ATA ATA A-TA ATA
76860649 TGATAGTGGT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
3 50 0.94
4 3 0.06
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:76861172 original size:26 final size:25
Alignment explanation
Indices: 76861143--76861205 Score: 65
Period size: 25 Copynumber: 2.4 Consensus size: 25
76861133 ATTCTCATTT
*
76861143 AATTAGAAAATATATATTTTTAA-AAA
1 AATTA-AAAATATAT-TATTTAATAAA
*
76861169 AATTTAAAAACATATTATTTAATAAA
1 AA-TTAAAAATATATTATTTAATAAA
*
76861195 ATTTAAAAATA
1 AATTAAAAATA
76861206 AACACGTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
25 14 0.45
26 14 0.45
27 3 0.10
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (25 bp):
AATTAAAAATATATTATTTAATAAA
Found at i:76861202 original size:24 final size:24
Alignment explanation
Indices: 76861156--76861203 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 24
76861146 TAGAAAATAT
76861156 ATATTTTTAAAAAAATTTAAAAAC
1 ATATTTTTAAAAAAATTTAAAAAC
*
76861180 ATATTATTTAATAAAATTTAAAAA
1 ATATT-TTTAAAAAAATTTAAAAA
76861204 TAAACACGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (24 bp):
ATATTTTTAAAAAAATTTAAAAAC
Found at i:76863881 original size:71 final size:71
Alignment explanation
Indices: 76863765--76863907 Score: 286
Period size: 71 Copynumber: 2.0 Consensus size: 71
76863755 CGGAAGGAAA
76863765 TTAAGTTGACTGTTAGCTTATGGGCTACGGGGATTCTTGTTTTGACTTATTTCCTTACACATATA
1 TTAAGTTGACTGTTAGCTTATGGGCTACGGGGATTCTTGTTTTGACTTATTTCCTTACACATATA
76863830 CATACG
66 CATACG
76863836 TTAAGTTGACTGTTAGCTTATGGGCTACGGGGATTCTTGTTTTGACTTATTTCCTTACACATATA
1 TTAAGTTGACTGTTAGCTTATGGGCTACGGGGATTCTTGTTTTGACTTATTTCCTTACACATATA
76863901 CATACG
66 CATACG
76863907 T
1 T
76863908 CTATATGTGA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (71 bp):
TTAAGTTGACTGTTAGCTTATGGGCTACGGGGATTCTTGTTTTGACTTATTTCCTTACACATATA
CATACG
Found at i:76866016 original size:20 final size:20
Alignment explanation
Indices: 76865991--76866042 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
76865981 AAAAATTAAA
76865991 AAAAAATTCTAAATATTTAT
1 AAAAAATTCTAAATATTTAT
* * * *
76866011 AAAAAATTATAATTTTTTTT
1 AAAAAATTCTAAATATTTAT
76866031 AAAAAA-TCTAAA
1 AAAAAATTCTAAA
76866043 GAATAAATAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 4 0.15
20 22 0.85
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAAAATTCTAAATATTTAT
Found at i:76866363 original size:22 final size:22
Alignment explanation
Indices: 76866338--76866382 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
76866328 TTTGAGTTAT
76866338 AATGATAGAATAGGACTCATAA
1 AATGATAGAATAGGACTCATAA
76866360 AATGATAGAATAGGACTCATAA
1 AATGATAGAATAGGACTCATAA
76866382 A
1 A
76866383 CTCGATTAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.51, C:0.09, G:0.18, T:0.22
Consensus pattern (22 bp):
AATGATAGAATAGGACTCATAA
Found at i:76867062 original size:22 final size:23
Alignment explanation
Indices: 76867037--76867095 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 23
76867027 CAACCAAATC
76867037 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
76867059 AATTCATGCATATTTATAAGAT-
1 AATTCATACATATTTATAAGATA
76867081 AATGTCATCACATAT
1 AAT-TCAT-ACATAT
76867096 CTAAAACCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
22 9 0.29
23 16 0.52
24 6 0.19
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:76883983 original size:13 final size:14
Alignment explanation
Indices: 76883967--76883999 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
76883957 AACATCCAAC
76883967 CAAAAT-AGACATT
1 CAAAATAAGACATT
76883980 CAAAATAAGACATT
1 CAAAATAAGACATT
76883994 CAAAAT
1 CAAAAT
76884000 TGAAGGACGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.58, C:0.15, G:0.06, T:0.21
Consensus pattern (14 bp):
CAAAATAAGACATT
Found at i:76892160 original size:29 final size:29
Alignment explanation
Indices: 76892128--76892191 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
76892118 CCAAATTAAA
76892128 CACCCCACTAAACCGAC-CACTAACTCCAT
1 CACCCCACTAAACC-ACTCACTAACTCCAT
* *
76892157 CACCCTACTAAACCACTCACTACCTCCAT
1 CACCCCACTAAACCACTCACTAACTCCAT
76892186 CACCCC
1 CACCCC
76892192 CACACTCCAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
28 2 0.06
29 29 0.94
ACGTcount: A:0.31, C:0.52, G:0.02, T:0.16
Consensus pattern (29 bp):
CACCCCACTAAACCACTCACTAACTCCAT
Found at i:76892362 original size:12 final size:11
Alignment explanation
Indices: 76892322--76892364 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
76892312 GGATTTGGAA
76892322 AGGATTTTTAG
1 AGGATTTTTAG
76892333 AGGATTTTTAG
1 AGGATTTTTAG
* *
76892344 AAGATTTTTGG
1 AGGATTTTTAG
76892355 AGGAATTTTT
1 AGG-ATTTTT
76892365 TTTAGAGAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
11 22 0.79
12 6 0.21
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.47
Consensus pattern (11 bp):
AGGATTTTTAG
Found at i:76892670 original size:62 final size:60
Alignment explanation
Indices: 76892593--76892709 Score: 157
Period size: 60 Copynumber: 1.9 Consensus size: 60
76892583 TATTTTATTG
* *
76892593 TTAAATTAATTAATTTGAGCTT-TATTTTCATTATTTTTATATT-TGTTTTTTATTATTTTCTA
1 TTAAATTAATTAATTTGAG-TTATA-TTTCA-TATTATTATATTAT-TTATTTATTATTTTCTA
*
76892655 TTAATTTAATTAATTTGAGTTATATTTCATATTATTATATTATTTATTTATTATT
1 TTAAATTAATTAATTTGAGTTATATTTCATATTATTATATTATTTATTTATTATT
76892710 ATATATTTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
60 22 0.44
61 8 0.16
62 20 0.40
ACGTcount: A:0.29, C:0.03, G:0.04, T:0.63
Consensus pattern (60 bp):
TTAAATTAATTAATTTGAGTTATATTTCATATTATTATATTATTTATTTATTATTTTCTA
Found at i:76892708 original size:19 final size:18
Alignment explanation
Indices: 76892684--76892720 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
76892674 TTATATTTCA
76892684 TATTATTATATTATTTATT
1 TATTATTATA-TATTTATT
76892703 TATTATTATATATTTATT
1 TATTATTATATATTTATT
76892721 ATGTAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTATTATATATTTATT
Found at i:76892730 original size:17 final size:14
Alignment explanation
Indices: 76892692--76892746 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
76892682 CATATTATTA
*
76892692 TATTATTTATTTAT
1 TATTATATATTTAT
76892706 TATTATATATTTAT
1 TATTATATATTTAT
* *
76892720 TATGTAAATATATA-
1 TAT-TATATATTTAT
76892734 TATATATATATTT
1 TAT-TATATATTT
76892747 TAAGCGAAGT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
14 26 0.76
15 8 0.24
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (14 bp):
TATTATATATTTAT
Found at i:76893414 original size:127 final size:126
Alignment explanation
Indices: 76893188--76893424 Score: 429
Period size: 127 Copynumber: 1.9 Consensus size: 126
76893178 CATTGATCTT
76893188 CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
1 CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
76893253 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATACTCTTACCAGTTCA
66 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATACTCTTACCAGTTCA
* * *
76893314 CTCTCAAAAATTTTCAAAATAAAGGCAATGTTTGGTATTTAAAAGATTTCGAAGAATCGTGCTCT
1 CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTT-AAAGAATTCGAAGAATCGTGCCCT
*
76893379 AACGTACTGGGTTTCGCTTTCTTTGTTTGTTTTGAATATTCGAATA
65 AACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATA
76893425 CCCTCTTAAG
Statistics
Matches: 106, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
126 39 0.37
127 67 0.63
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (126 bp):
CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATACTCTTACCAGTTCA
Found at i:76896493 original size:21 final size:20
Alignment explanation
Indices: 76896455--76896498 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
76896445 CAAAATCCCG
76896455 AACATCAAACTTTAAACCCA
1 AACATCAAACTTTAAACCCA
* *
76896475 AACATTAAATTTTGAAACCCA
1 AACATCAAACTTT-AAACCCA
76896496 AAC
1 AAC
76896499 TCACCCTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.50, C:0.25, G:0.02, T:0.23
Consensus pattern (20 bp):
AACATCAAACTTTAAACCCA
Found at i:76896581 original size:14 final size:14
Alignment explanation
Indices: 76896558--76896590 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
76896548 TGAGTTCAAT
76896558 ATTC-AAATTTAAG
1 ATTCAAAATTTAAG
*
76896571 TTTCAAAATTTAAG
1 ATTCAAAATTTAAG
76896585 ATTCAA
1 ATTCAA
76896591 GTCAAGGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 3 0.18
14 14 0.82
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.39
Consensus pattern (14 bp):
ATTCAAAATTTAAG
Found at i:76899378 original size:18 final size:18
Alignment explanation
Indices: 76899355--76899432 Score: 66
Period size: 18 Copynumber: 4.1 Consensus size: 18
76899345 AATAAATTAA
*
76899355 ACCTAACAATTTAAATAT
1 ACCTAACAACTTAAATAT
*
76899373 ACCTAACAACTTAACTATAAGA
1 ACCTAACAACTTAA--AT-A-T
* *
76899395 ATTCTAACAATTTAAATAT
1 A-CCTAACAACTTAAATAT
*
76899414 ACCTAACAACTTAACTAT
1 ACCTAACAACTTAAATAT
76899432 A
1 A
76899433 AGAATTCTAA
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
18 28 0.60
19 1 0.02
20 3 0.06
21 3 0.06
22 1 0.02
23 11 0.23
ACGTcount: A:0.49, C:0.19, G:0.01, T:0.31
Consensus pattern (18 bp):
ACCTAACAACTTAAATAT
Found at i:76899401 original size:23 final size:23
Alignment explanation
Indices: 76899375--76899442 Score: 74
Period size: 23 Copynumber: 3.2 Consensus size: 23
76899365 TTAAATATAC
76899375 CTAACAACTTAACTATAAGAATT
1 CTAACAACTTAACTATAAGAATT
* * *
76899398 CTAACAATTTAA--AT-A-TA-C
1 CTAACAACTTAACTATAAGAATT
76899416 CTAACAACTTAACTATAAGAATT
1 CTAACAACTTAACTATAAGAATT
76899439 CTAA
1 CTAA
76899443 ACAAATTATA
Statistics
Matches: 34, Mismatches: 6, Indels: 10
0.68 0.12 0.20
Matches are distributed among these distances:
18 11 0.32
19 1 0.03
20 3 0.09
21 3 0.09
22 1 0.03
23 15 0.44
ACGTcount: A:0.49, C:0.18, G:0.03, T:0.31
Consensus pattern (23 bp):
CTAACAACTTAACTATAAGAATT
Found at i:76899402 original size:41 final size:41
Alignment explanation
Indices: 76899357--76899442 Score: 172
Period size: 41 Copynumber: 2.1 Consensus size: 41
76899347 TAAATTAAAC
76899357 CTAACAATTTAAATATACCTAACAACTTAACTATAAGAATT
1 CTAACAATTTAAATATACCTAACAACTTAACTATAAGAATT
76899398 CTAACAATTTAAATATACCTAACAACTTAACTATAAGAATT
1 CTAACAATTTAAATATACCTAACAACTTAACTATAAGAATT
76899439 CTAA
1 CTAA
76899443 ACAAATTATA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.49, C:0.17, G:0.02, T:0.31
Consensus pattern (41 bp):
CTAACAATTTAAATATACCTAACAACTTAACTATAAGAATT
Found at i:76899936 original size:14 final size:14
Alignment explanation
Indices: 76899917--76899957 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
76899907 TTTAAAATTA
76899917 ATAATTATTTAAAC
1 ATAATTATTTAAAC
*
76899931 ATAATTATTCAAA-
1 ATAATTATTTAAAC
*
76899944 A-AAATATTTAAAC
1 ATAATTATTTAAAC
76899957 A
1 A
76899958 CAAAATATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
12 9 0.39
13 2 0.09
14 12 0.52
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (14 bp):
ATAATTATTTAAAC
Found at i:76900433 original size:15 final size:14
Alignment explanation
Indices: 76900412--76900446 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
76900402 AAGATCAGTT
*
76900412 AAATAAAATTTAAA
1 AAATAAAATATAAA
76900426 AGAATAAAATATAAA
1 A-AATAAAATATAAA
76900441 AAATAA
1 AAATAA
76900447 GGATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (14 bp):
AAATAAAATATAAA
Found at i:76900594 original size:22 final size:22
Alignment explanation
Indices: 76900566--76900611 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
76900556 TATTATATAT
76900566 AATATA-TACCAAACTCAAATCC
1 AATATATTACCAAAC-CAAATCC
* *
76900588 AATATATTACCCAACCAAGTCC
1 AATATATTACCAAACCAAATCC
76900610 AA
1 AA
76900612 ACCCAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.48, C:0.28, G:0.02, T:0.22
Consensus pattern (22 bp):
AATATATTACCAAACCAAATCC
Found at i:76902490 original size:22 final size:22
Alignment explanation
Indices: 76902462--76902505 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
76902452 ACCTAAGGAA
76902462 GTCTCTTTAAAAGGTAACTCAT
1 GTCTCTTTAAAAGGTAACTCAT
76902484 GTCTCTTTAAAAGGTAACTCAT
1 GTCTCTTTAAAAGGTAACTCAT
76902506 TTACTCAATC
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:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (22 bp):
GTCTCTTTAAAAGGTAACTCAT
Found at i:76904313 original size:15 final size:15
Alignment explanation
Indices: 76904293--76904323 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
76904283 ATATTCCTTC
76904293 TTATAATACGTAAAT
1 TTATAATACGTAAAT
76904308 TTATAATACGTAAAT
1 TTATAATACGTAAAT
76904323 T
1 T
76904324 AAGTAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (15 bp):
TTATAATACGTAAAT
Found at i:76904798 original size:16 final size:17
Alignment explanation
Indices: 76904779--76904811 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
76904769 TTAATCTTTC
*
76904779 AAATTATTAA-AAAATA
1 AAATTATAAACAAAATA
76904795 AAATTATAAACAAAATA
1 AAATTATAAACAAAATA
76904812 TATTTTCTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (17 bp):
AAATTATAAACAAAATA
Found at i:76908269 original size:342 final size:337
Alignment explanation
Indices: 76907581--76908260 Score: 1117
Period size: 342 Copynumber: 2.0 Consensus size: 337
76907571 AAGCTAAGGA
76907581 TAAAAGTAGAGAAAGCTGGTGAGGCTTAGGTTTGGTATATAACTTGGATAGTAAATCAGTGCTGT
1 TAAAAGTAGAGAAAGCTGGTGAGGCTTAGGTTTGGTATATAACTTGGATAGTAAATCAGTGCTGT
76907646 TCCTTTTATATTTGTTTTCTCTAAAGAGCATGCACATGTTGGAATTTAGGCTGTATGAACCTTGT
66 TCCTTTTATATTTGTTTTCTCTAAAGAGCATGCACATGTTGGAATTTAGGCTGTATGAACCTTGT
* * **
76907711 TTTGAAGGTTTCTTTGTATGTGTCTGTGATGAAACAATTCAGTAATTGTTTTGCTTGTGTTAATC
131 TTTGAAGGTTTCTTTGTATCTGTCTGTAATGAAACAATTCAGTAATTGTTTTGCTCATGTTAATC
* * *
76907776 TTCACTATATCAATTTTAGATTAGTTTCCTATAGTCGATCTGCATGAAGCTGAGATTGAGAGATA
196 TTCACTATATCAATTTTAGATTAGTTTCCTATAATCAATCTGCATGAAGCTGAAATTGAGAGATA
*
76907841 CTCCCTCCATCCAGTAAAATTGGAACTTTTTTATTTTTAGTGGTAAAAAATTTTCAACTTTTACC
261 CTCCCTCCATCCAGTAAAATTGGAACTTTTTTATTTTTAGTGGTAAAAAATTTTCAACTTTAACC
76907906 TCTTATTCTTTAAAATT
326 TCTTA----TT-AAATT
76907923 TAAAAGTAGAGAAAGCTGGTGAGGCTTAGGTTTGGTATATAACTTGGATAGTAAATCAGTGCTGT
1 TAAAAGTAGAGAAAGCTGGTGAGGCTTAGGTTTGGTATATAACTTGGATAGTAAATCAGTGCTGT
* *
76907988 TCCTTTTTTATTTGTTTTCTCTAAAGAGCATGCATATGTTGGAATTTAGGCTGTATGAACCTTGT
66 TCCTTTTATATTTGTTTTCTCTAAAGAGCATGCACATGTTGGAATTTAGGCTGTATGAACCTTGT
*
76908053 TTTGAAGGTTTCTTTGTATCTGTCTGTAATGAAACAATTCGGTAATTGTTTTGCTCATGTTAATC
131 TTTGAAGGTTTCTTTGTATCTGTCTGTAATGAAACAATTCAGTAATTGTTTTGCTCATGTTAATC
*
76908118 TTCACTATGTCAATTTTAGATTAGTTTCCTATAATCAATCTGCATGAAGTGAATGCTGAAATTGA
196 TTCACTATATCAATTTTAGATTAGTTTCCTATAATCAATCTGC----A-TGAA-GCTGAAATTGA
* * *
76908183 GAGATACTCCCTCCATCCCAGTAAATTTGTAACTTTTTTATTTTTTGTGGTAAAAAATTTTCAAC
255 GAGATACTCCCTCCAT-CCAGTAAAATTGGAACTTTTTTATTTTTAGTGGTAAAAAATTTTCAAC
76908248 TTTAACCTCTTAT
319 TTTAACCTCTTAT
76908261 GATTTAAAAT
Statistics
Matches: 316, Mismatches: 15, Indels: 11
0.92 0.04 0.03
Matches are distributed among these distances:
342 228 0.72
345 1 0.00
346 1 0.00
347 4 0.01
348 26 0.08
349 56 0.18
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.41
Consensus pattern (337 bp):
TAAAAGTAGAGAAAGCTGGTGAGGCTTAGGTTTGGTATATAACTTGGATAGTAAATCAGTGCTGT
TCCTTTTATATTTGTTTTCTCTAAAGAGCATGCACATGTTGGAATTTAGGCTGTATGAACCTTGT
TTTGAAGGTTTCTTTGTATCTGTCTGTAATGAAACAATTCAGTAATTGTTTTGCTCATGTTAATC
TTCACTATATCAATTTTAGATTAGTTTCCTATAATCAATCTGCATGAAGCTGAAATTGAGAGATA
CTCCCTCCATCCAGTAAAATTGGAACTTTTTTATTTTTAGTGGTAAAAAATTTTCAACTTTAACC
TCTTATTAAATT
Found at i:76919157 original size:18 final size:18
Alignment explanation
Indices: 76919134--76919168 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
76919124 TACTTTTATT
*
76919134 TATATTAATTATTTATAA
1 TATATTAATAATTTATAA
*
76919152 TATATTTATAATTTATA
1 TATATTAATAATTTATA
76919169 TATTATTTTA
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:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TATATTAATAATTTATAA
Found at i:76919187 original size:13 final size:13
Alignment explanation
Indices: 76919127--76919219 Score: 55
Period size: 13 Copynumber: 6.9 Consensus size: 13
76919117 ATCAAAATAC
76919127 TTTTATTTATATTA
1 TTTTATTT-TATTA
*
76919141 -ATTATTTATAATATA
1 TTTTATTT-T-AT-TA
*
76919156 TTTATAATTTA-TA
1 TTT-TATTTTATTA
*
76919169 TATTATTTTATTA
1 TTTTATTTTATTA
* *
76919182 TTTTATTTAAATA
1 TTTTATTTTATTA
*
76919195 TTTTATTTCATTA
1 TTTTATTTTATTA
* *
76919208 TATTAATTTATT
1 TTTTATTTTATT
76919220 TTATTTAAGA
Statistics
Matches: 61, Mismatches: 13, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
12 6 0.10
13 44 0.72
14 2 0.03
15 3 0.05
16 2 0.03
17 4 0.07
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (13 bp):
TTTTATTTTATTA
Found at i:76919189 original size:31 final size:31
Alignment explanation
Indices: 76919149--76919220 Score: 76
Period size: 31 Copynumber: 2.3 Consensus size: 31
76919139 TAATTATTTA
* *
76919149 TAATATATTTATAAT-TTATATATT-ATTTTAT
1 TAATTTATTTA-AATATTATAT-TTCATTATAT
* *
76919180 TATTTTATTTAAATATTTTATTTCATTATAT
1 TAATTTATTTAAATATTATATTTCATTATAT
76919211 TAATTTATTT
1 TAATTTATTT
76919221 TATTTAAGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
30 5 0.15
31 29 0.85
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (31 bp):
TAATTTATTTAAATATTATATTTCATTATAT
Found at i:76919195 original size:26 final size:27
Alignment explanation
Indices: 76919166--76919217 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
76919156 TTTATAATTT
* *
76919166 ATATATTATTTTATTAT-TTTATTTAA
1 ATATATTATTTCATTATATTAATTTAA
*
76919192 ATATTTTATTTCATTATATTAATTTA
1 ATATATTATTTCATTATATTAATTTA
76919218 TTTTATTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (27 bp):
ATATATTATTTCATTATATTAATTTAA
Found at i:76920393 original size:30 final size:30
Alignment explanation
Indices: 76920359--76920428 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 30
76920349 GTGATTGAAT
76920359 TTTACTATTAAACTTTGAA-TTTT-ATTAAAA
1 TTTACTATT-AACTTT-AATTTTTAATTAAAA
*
76920389 TTTACAATTAACTTTAATTTTTTAATTAAAA
1 TTTACTATTAACTTTAA-TTTTTAATTAAAA
76920420 TTTACTATT
1 TTTACTATT
76920429 CAATAATAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
28 2 0.06
29 6 0.17
30 12 0.34
31 15 0.43
ACGTcount: A:0.39, C:0.07, G:0.01, T:0.53
Consensus pattern (30 bp):
TTTACTATTAACTTTAATTTTTAATTAAAA
Found at i:76920782 original size:18 final size:17
Alignment explanation
Indices: 76920748--76920795 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 17
76920738 ATGAATAGTA
76920748 AACTTTAATAAAAAATT
1 AACTTTAATAAAAAATT
*
76920765 AACTTTAGTAATAAAATT
1 AACTTTAATAA-AAAATT
* *
76920783 AAATTAAATAAAA
1 AACTTTAATAAAA
76920796 GTAAAGTCAC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.33
Consensus pattern (17 bp):
AACTTTAATAAAAAATT
Found at i:76924449 original size:17 final size:17
Alignment explanation
Indices: 76924427--76924460 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
76924417 TTCTCATAAA
*
76924427 TTTATTTAAGTATATTG
1 TTTATTTAAATATATTG
76924444 TTTATTTAAATATATTG
1 TTTATTTAAATATATTG
76924461 AGGATTGTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (17 bp):
TTTATTTAAATATATTG
Found at i:76926422 original size:61 final size:61
Alignment explanation
Indices: 76926319--76926439 Score: 199
Period size: 61 Copynumber: 2.0 Consensus size: 61
76926309 GTAAATTATA
*
76926319 AGGATCAAATAATTTAGTTCATTTGCTATCAACTTTGTGTTACTAAAAATTTTGTCACTTG
1 AGGATCAAATAATTTAGTTCATGTGCTATCAACTTTGTGTTACTAAAAATTTTGTCACTTG
* *
76926380 AGGATCAAATAATTTAGTTCCTGTGCTATCAGCTTT-TGGTTACTAAAAATTTTGTCACTT
1 AGGATCAAATAATTTAGTTCATGTGCTATCAACTTTGT-GTTACTAAAAATTTTGTCACTT
76926440 AACTGAGTGA
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
60 1 0.02
61 55 0.98
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (61 bp):
AGGATCAAATAATTTAGTTCATGTGCTATCAACTTTGTGTTACTAAAAATTTTGTCACTTG
Found at i:76930949 original size:2 final size:2
Alignment explanation
Indices: 76930942--76930966 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
76930932 CCAAGTAGAT
76930942 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
76930967 GTGTGTGGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:76931770 original size:23 final size:23
Alignment explanation
Indices: 76931701--76931758 Score: 107
Period size: 23 Copynumber: 2.5 Consensus size: 23
76931691 TTTGATTATT
76931701 TGTTCATGAACATATCCATTTAA
1 TGTTCATGAACATATCCATTTAA
*
76931724 TGATCATGAACATATCCATTTAA
1 TGTTCATGAACATATCCATTTAA
76931747 TGTTCATGAACA
1 TGTTCATGAACA
76931759 AGTTCATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.36
Consensus pattern (23 bp):
TGTTCATGAACATATCCATTTAA
Found at i:76941097 original size:18 final size:18
Alignment explanation
Indices: 76941074--76941110 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
76941064 AATATAAAAA
76941074 TTTTAAAAA-TATATTAGT
1 TTTTAAAAATTA-ATTAGT
76941092 TTTTAAAAATTAATTAGT
1 TTTTAAAAATTAATTAGT
76941110 T
1 T
76941111 ACTTAGATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (18 bp):
TTTTAAAAATTAATTAGT
Found at i:76946396 original size:50 final size:49
Alignment explanation
Indices: 76946277--76946452 Score: 176
Period size: 50 Copynumber: 3.5 Consensus size: 49
76946267 TGAGGTCGCA
* * * *
76946277 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT-GATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGACTGTAGGTCACG
* * ** *
76946328 TGTGTAGTACGAAGTGCAGGCTACTACTTGTATTAGA-TGGTGAGGTCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GT-AGGTCACG
* * * *
76946378 TGTGTATTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
76946427 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
76946453 TACGTACCAG
Statistics
Matches: 102, Mismatches: 19, Indels: 10
0.78 0.15 0.08
Matches are distributed among these distances:
47 1 0.01
48 4 0.04
49 29 0.28
50 39 0.38
51 29 0.28
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
Found at i:76946981 original size:26 final size:26
Alignment explanation
Indices: 76946952--76947007 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
76946942 TGATAAAAAT
*
76946952 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGATAAATGTTCCA
76946978 TGATAATGGGTTAGATAAATGTTCCA
1 TGATAATGGGTTAGATAAATGTTCCA
76947004 TGAT
1 TGAT
76947008 GGGCATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGATAAATGTTCCA
Found at i:76948526 original size:26 final size:26
Alignment explanation
Indices: 76948497--76948551 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
76948487 TTTACAGTTT
76948497 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
76948523 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
76948549 TAC
1 TAC
76948552 ATGTTTGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 7 0.27
26 19 0.73
ACGTcount: A:0.38, C:0.24, G:0.15, T:0.24
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:76951874 original size:28 final size:28
Alignment explanation
Indices: 76951842--76951940 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
76951832 GCAATAAGCC
*
76951842 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
76951870 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
76951898 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
76951927 CGCACACTTAGTGC
1 CGCACACTTAGTGC
76951941 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:76953740 original size:28 final size:28
Alignment explanation
Indices: 76953682--76953747 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
76953672 TGTTAAAATA
* * *
76953682 TATATTAAATTATTATTATTTATAGTTT
1 TATATTTAATTAGTATTAGTTATAGTTT
*
76953710 TATATTTAATTAGTATT-GTTATTGTTAT
1 TATATTTAATTAGTATTAGTTATAGTT-T
76953738 TATTATTTAA
1 TA-TATTTAA
76953748 ATTGATATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 7 0.22
28 18 0.56
29 7 0.22
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (28 bp):
TATATTTAATTAGTATTAGTTATAGTTT
Found at i:76954743 original size:15 final size:15
Alignment explanation
Indices: 76954695--76954744 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
76954685 TTTATCAAAT
76954695 TTATATTGATTGAAA
1 TTATATTGATTGAAA
* * *
76954710 TCATTTTGATTGAAT
1 TTATATTGATTGAAA
76954725 TTATATTGATTGAAA
1 TTATATTGATTGAAA
76954740 TTATA
1 TTATA
76954745 ATATATATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.36, C:0.02, G:0.12, T:0.50
Consensus pattern (15 bp):
TTATATTGATTGAAA
Found at i:76955411 original size:18 final size:19
Alignment explanation
Indices: 76955390--76955430 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
76955380 AATGAAATGA
76955390 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
76955408 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
76955427 GAAA
1 GAAA
76955431 ATATGAATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:76956537 original size:31 final size:31
Alignment explanation
Indices: 76956499--76956562 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
76956489 CCTTTTCATA
76956499 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
76956530 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
76956561 TT
1 TT
76956563 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:76956831 original size:23 final size:23
Alignment explanation
Indices: 76956777--76956872 Score: 138
Period size: 23 Copynumber: 4.1 Consensus size: 23
76956767 CCTAGCCTCT
*
76956777 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* *
76956800 TTTTAATAATTGGGGCATAAGCAC
1 -TTTAATAACTGGGGCATAAGCCC
76956824 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* *
76956847 TTTAATAACTGGGGCGTAGGCCC
1 TTTAATAACTGGGGCATAAGCCC
76956870 TTT
1 TTT
76956873 TTCACTTCCT
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
23 45 0.69
24 20 0.31
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:76956951 original size:20 final size:20
Alignment explanation
Indices: 76956923--76956969 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
76956913 TTAGGATTAC
*
76956923 ATCAAGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
76956943 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
76956963 ACCATGT
1 ATCATGT
76956970 TTATCAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.32
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:76957038 original size:25 final size:25
Alignment explanation
Indices: 76957006--76957053 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
76956996 ATACATAAAC
* * *
76957006 CCTAAGGGTATAATGGTCATTTTTA
1 CCTAAGGGCAAAACGGTCATTTTTA
76957031 CCTAAGGGCAAAACGGTCATTTT
1 CCTAAGGGCAAAACGGTCATTTT
76957054 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (25 bp):
CCTAAGGGCAAAACGGTCATTTTTA
Found at i:76958090 original size:20 final size:21
Alignment explanation
Indices: 76958065--76958103 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
76958055 AGTAGAGATA
76958065 AATGAA-AGAAATAATGGGTG
1 AATGAAGAGAAATAATGGGTG
*
76958085 AATGAAGGGAAATAATGGG
1 AATGAAGAGAAATAATGGG
76958104 CTGGTTTGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.49, C:0.00, G:0.33, T:0.18
Consensus pattern (21 bp):
AATGAAGAGAAATAATGGGTG
Found at i:76958141 original size:12 final size:13
Alignment explanation
Indices: 76958110--76958142 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
76958100 TGGGCTGGTT
76958110 TGGAAGAAAGAGA
1 TGGAAGAAAGAGA
*
76958123 AGGAAGAAA-AGA
1 TGGAAGAAAGAGA
76958135 TGGAAGAA
1 TGGAAGAA
76958143 GAAATGGTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 10 0.56
13 8 0.44
ACGTcount: A:0.58, C:0.00, G:0.36, T:0.06
Consensus pattern (13 bp):
TGGAAGAAAGAGA
Found at i:76964551 original size:28 final size:30
Alignment explanation
Indices: 76964502--76964576 Score: 109
Period size: 28 Copynumber: 2.5 Consensus size: 30
76964492 CAACATGTAC
*
76964502 TGGGCCGTAGCCCTTTTCATATTTCATA-T-
1 TGGGCCGAAG-CCTTTTCATATTTCATATTA
76964531 TGGGCCGAAGCCTTTTCATATTTCATATTA
1 TGGGCCGAAGCCTTTTCATATTTCATATTA
76964561 CTGGGCCGAAGCCTTT
1 -TGGGCCGAAGCCTTT
76964577 ACTGTAAACG
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 17 0.40
29 10 0.24
31 15 0.36
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.37
Consensus pattern (30 bp):
TGGGCCGAAGCCTTTTCATATTTCATATTA
Found at i:76964842 original size:23 final size:23
Alignment explanation
Indices: 76964791--76964886 Score: 156
Period size: 23 Copynumber: 4.1 Consensus size: 23
76964781 CCTAGCCTCT
*
76964791 TTTAATAACTGGGGCAAAAGCCCC
1 TTTAATAACTGGGGCATAAG-CCC
76964815 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
76964838 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* *
76964861 TTTAATAACTTGGGCGTAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
76964884 TTT
1 TTT
76964887 TTCACTTCCT
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
23 50 0.72
24 19 0.28
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:76964965 original size:20 final size:20
Alignment explanation
Indices: 76964937--76965003 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
76964927 TTATGATTAC
76964937 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
76964957 ATTATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
76964977 GTCATGCGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
76964997 ACCATGT
1 ATCATGT
76965004 TTATCAAAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:76965069 original size:25 final size:25
Alignment explanation
Indices: 76965041--76965088 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
76965031 ATACATAAAC
* * *
76965041 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
76965066 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
76965089 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:76966178 original size:12 final size:12
Alignment explanation
Indices: 76966147--76966186 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
76966137 TGGGTTGGTT
76966147 TGGAAGAAAGAGA
1 TGGAAGAAA-AGA
*
76966160 AGGAAGAAAAGA
1 TGGAAGAAAAGA
*
76966172 TGGAAGAAGAGA
1 TGGAAGAAAAGA
76966184 TGG
1 TGG
76966187 TAGGTTCGGC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
12 16 0.67
13 8 0.33
ACGTcount: A:0.53, C:0.00, G:0.40, T:0.07
Consensus pattern (12 bp):
TGGAAGAAAAGA
Found at i:76969134 original size:26 final size:26
Alignment explanation
Indices: 76969104--76969155 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
76969094 ACCATGATTT
76969104 GTGTCCAAACATCACAAAACCAATTC
1 GTGTCCAAACATCACAAAACCAATTC
76969130 GTGTCCAAACATCACAAAACCAATTC
1 GTGTCCAAACATCACAAAACCAATTC
76969156 CAACCGAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.31, G:0.08, T:0.19
Consensus pattern (26 bp):
GTGTCCAAACATCACAAAACCAATTC
Found at i:76969885 original size:28 final size:27
Alignment explanation
Indices: 76969822--76969891 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
76969812 ATAGTGAGTC
76969822 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
76969849 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
76969877 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
76969892 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:76977696 original size:28 final size:27
Alignment explanation
Indices: 76977633--76977702 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
76977623 ATAGTGAGTC
76977633 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
76977660 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
76977688 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
76977703 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:76980654 original size:15 final size:15
Alignment explanation
Indices: 76980634--76980665 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
76980624 TCAGTTGAGA
76980634 TATTAGCTTGAATGG
1 TATTAGCTTGAATGG
76980649 TATTAGCTTGAATGG
1 TATTAGCTTGAATGG
76980664 TA
1 TA
76980666 AAGTCATATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.06, G:0.25, T:0.41
Consensus pattern (15 bp):
TATTAGCTTGAATGG
Found at i:76981108 original size:21 final size:22
Alignment explanation
Indices: 76981084--76981147 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 22
76981074 TTAAAATATA
76981084 TATTA-AGTTATTATTATTATT
1 TATTATAGTTATTATTATTATT
*
76981105 TATTATAGTT-TTA-TATTTAAT
1 TATTATAGTTATTATTA-TTATT
* *
76981126 TATTATTGTTATTGTTATTATT
1 TATTATAGTTATTATTATTATT
76981148 ATTTAAATTG
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
20 2 0.06
21 21 0.60
22 10 0.29
23 2 0.06
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (22 bp):
TATTATAGTTATTATTATTATT
Found at i:76982148 original size:15 final size:15
Alignment explanation
Indices: 76982100--76982149 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
76982090 TTTATCAAAT
76982100 TTATATTGATTGAAA
1 TTATATTGATTGAAA
* *
76982115 TCATTTTGATT-AAA
1 TTATATTGATTGAAA
76982129 TTTATATTGATTGAAA
1 -TTATATTGATTGAAA
76982145 TTATA
1 TTATA
76982150 ATACATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 3 0.10
15 23 0.79
16 3 0.10
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.50
Consensus pattern (15 bp):
TTATATTGATTGAAA
Found at i:76982161 original size:2 final size:2
Alignment explanation
Indices: 76982154--76982186 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
76982144 ATTATAATAC
76982154 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
76982187 GATTTATGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:76982261 original size:21 final size:22
Alignment explanation
Indices: 76982235--76982276 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
76982225 TTAAAAATTA
76982235 AATTGAT-TGGAA-ATATGAGAG
1 AATTGATAT-GAATATATGAGAG
76982256 AATTGATATGAATATATGAGA
1 AATTGATATGAATATATGAGA
76982277 TTTGTGATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.45, C:0.00, G:0.24, T:0.31
Consensus pattern (22 bp):
AATTGATATGAATATATGAGAG
Found at i:76982830 original size:18 final size:19
Alignment explanation
Indices: 76982809--76982849 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
76982799 AATGAAATGA
76982809 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
76982827 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
76982846 GAAA
1 GAAA
76982850 ATATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:76984781 original size:18 final size:18
Alignment explanation
Indices: 76984754--76984795 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
76984744 GCTCTTAAAT
*
76984754 TTGGCAAGTAAGTTCACA
1 TTGGCCAGTAAGTTCACA
76984772 TTGGCCAGTAAGTTCACA
1 TTGGCCAGTAAGTTCACA
76984790 TTGGCC
1 TTGGCC
76984796 TATGAACTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (18 bp):
TTGGCCAGTAAGTTCACA
Found at i:76984951 original size:109 final size:109
Alignment explanation
Indices: 76984812--76985022 Score: 260
Period size: 109 Copynumber: 1.9 Consensus size: 109
76984802 CTTATTTTTA
* * * * * * *
76984812 TCCATTTTGACTCCTTAATTTGAAAATTGTTATTCTTTTAAGCCTAATCTGTTAATGACCCAGAA
1 TCCACTTTGACTCATTAACTTGAAAATTGTTATTCATTTAAACCCAATCTATTAATGACCCAGAA
**
76984877 AAAAATAGGGATAATGTAACTTTTTCCCCTCGAACTTTTTTAGG
66 AAAAATAGGGATAATGTAACTTTCGCCCCTCGAACTTTTTTAGG
* * * * ****
76984921 TCCACTTTGACTTATTAACTTGAAATTTGTTATTCATTTAAACCCATTCTATTAGTGATTGTGAA
1 TCCACTTTGACTCATTAACTTGAAAATTGTTATTCATTTAAACCCAATCTATTAATGACCCAGAA
*
76984986 AAAAATAGGGATAATGTAACTTTCGCCCCTTGAACTT
66 AAAAATAGGGATAATGTAACTTTCGCCCCTCGAACTT
76985023 GGCAAATAGG
Statistics
Matches: 84, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
109 84 1.00
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.39
Consensus pattern (109 bp):
TCCACTTTGACTCATTAACTTGAAAATTGTTATTCATTTAAACCCAATCTATTAATGACCCAGAA
AAAAATAGGGATAATGTAACTTTCGCCCCTCGAACTTTTTTAGG
Found at i:76985050 original size:31 final size:31
Alignment explanation
Indices: 76985012--76985116 Score: 131
Period size: 31 Copynumber: 3.4 Consensus size: 31
76985002 TAACTTTCGC
* *
76985012 CCCTTGAACTTGGCAAATAGGTCCACATTGG
1 CCCTTGAACTTAGCAAGTAGGTCCACATTGG
76985043 CCCTTGAACTTAGCAAGTAGGTCCACATTGG
1 CCCTTGAACTTAGCAAGTAGGTCCACATTGG
* ** *
76985074 -CCTCTAAACTTAATAAGTAGGTCCACATTAG
1 CCCT-TGAACTTAGCAAGTAGGTCCACATTGG
76985105 CCCATTGAACTT
1 CCC-TTGAACTT
76985117 GATAAGTAGG
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
30 3 0.05
31 52 0.81
32 8 0.12
33 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.28
Consensus pattern (31 bp):
CCCTTGAACTTAGCAAGTAGGTCCACATTGG
Found at i:77003962 original size:20 final size:20
Alignment explanation
Indices: 77003925--77003965 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
77003915 ATATTTTTAG
*
77003925 AAAGATTAATTATTATAAAA
1 AAAGATTAATTATGATAAAA
77003945 AAAGTATTAA-TATGATAAAA
1 AAAG-ATTAATTATGATAAAA
77003965 A
1 A
77003966 TAATTTCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (20 bp):
AAAGATTAATTATGATAAAA
Found at i:77006167 original size:22 final size:21
Alignment explanation
Indices: 77006135--77006181 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
77006125 CATGGTGTCT
*
77006135 TTAAAATAATAAAATTTTAAA
1 TTAAAATAATAAAATTATAAA
*
77006156 TTAATAATAATAAAATTATAAT
1 TTAA-AATAATAAAATTATAAA
77006178 TTAA
1 TTAA
77006182 GCGATAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TTAAAATAATAAAATTATAAA
Found at i:77009780 original size:7 final size:8
Alignment explanation
Indices: 77009763--77009795 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
77009753 TTAAATTTCT
77009763 AAAAATAA
1 AAAAATAA
77009771 AAAAATAA
1 AAAAATAA
77009779 AAAAATAA
1 AAAAATAA
*
77009787 AAAACTAA
1 AAAAATAA
77009795 A
1 A
77009796 TTTTAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAATAA
Found at i:77013201 original size:18 final size:18
Alignment explanation
Indices: 77013178--77013220 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
77013168 GTTAAAGGCA
77013178 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
77013196 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
77013214 TAATTAA
1 TAATTAA
77013221 AAATCTATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:77016924 original size:25 final size:25
Alignment explanation
Indices: 77016895--77016946 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
77016885 AAAATGTTAG
* *
77016895 GTCAAATTCTACTATTAATTCTGTA
1 GTCAAAGTCTACTATTAATTCTATA
77016920 GTCAAAGTCTACTATTAATTCTATA
1 GTCAAAGTCTACTATTAATTCTATA
77016945 GT
1 GT
77016947 ATATGTAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (25 bp):
GTCAAAGTCTACTATTAATTCTATA
Found at i:77028507 original size:5 final size:5
Alignment explanation
Indices: 77028497--77028529 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
77028487 ATATAAAATT
77028497 TATTA TATTA TATTA TATTA TATTA TATTA TAT
1 TATTA TATTA TATTA TATTA TATTA TATTA TAT
77028530 CTAACAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATTA
Found at i:77030069 original size:18 final size:20
Alignment explanation
Indices: 77030038--77030089 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
77030028 TTGGACCAAC
* *
77030038 AAAAATTAAATAAA-TAATTA
1 AAAAATT-ATTAAATTAATAA
*
77030058 AAAAATT-TTAAATTTATAA
1 AAAAATTATTAAATTAATAA
77030077 AAAAATTATTAAA
1 AAAAATTATTAAA
77030090 GCAGTTCAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 4 0.15
19 11 0.41
20 12 0.44
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAAATTATTAAATTAATAA
Found at i:77031650 original size:41 final size:41
Alignment explanation
Indices: 77031591--77031673 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
77031581 GAAAAGCTCC
77031591 GATAAGAAATAGGAGAGAGAGACTGGAGAAGTAAGAGATAA
1 GATAAGAAATAGGAGAGAGAGACTGGAGAAGTAAGAGATAA
* * *
77031632 GATAAGAACTAGGGGAGAGAGATTGGAGAAGTAAGAGATAA
1 GATAAGAAATAGGAGAGAGAGACTGGAGAAGTAAGAGATAA
77031673 G
1 G
77031674 GCAGTGACTA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.48, C:0.02, G:0.36, T:0.13
Consensus pattern (41 bp):
GATAAGAAATAGGAGAGAGAGACTGGAGAAGTAAGAGATAA
Found at i:77033842 original size:21 final size:23
Alignment explanation
Indices: 77033814--77033869 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 23
77033804 AAAAAATAGT
* *
77033814 TACT-TATTTAAA-TTTTATATT
1 TACTATATTAAAATTTTTATATA
77033835 TA-TATATTAAAATTTTTATATA
1 TACTATATTAAAATTTTTATATA
77033857 TACTATATTAAAA
1 TACTATATTAAAA
77033870 AACTTCAGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 1 0.03
21 9 0.30
22 10 0.33
23 10 0.33
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.54
Consensus pattern (23 bp):
TACTATATTAAAATTTTTATATA
Found at i:77035905 original size:47 final size:47
Alignment explanation
Indices: 77035745--77035906 Score: 200
Period size: 47 Copynumber: 3.4 Consensus size: 47
77035735 TGATTGGACC
* * * *
77035745 ATGGCAACA-TGTGATATGTGATTTCAGAATAAGACCATAGCTGGGTT
1 ATGGCATCAGTGTGATATGTG-CTTCAGAATAAGACCATATCTGGGAT
* * * *
77035792 ATGGCATCGGTGTGATATGAGCTTCCGTATAAGACCATATCTGGGAT
1 ATGGCATCAGTGTGATATGTGCTTCAGAATAAGACCATATCTGGGAT
* * * *
77035839 ATGGCGTCAGTATGATATGTGCTTCTGAATAAAACCATATCTGGGAT
1 ATGGCATCAGTGTGATATGTGCTTCAGAATAAGACCATATCTGGGAT
77035886 ATGGCATCAGTGTGATATGTG
1 ATGGCATCAGTGTGATATGTG
77035907 ATCCGTGCAA
Statistics
Matches: 97, Mismatches: 17, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
47 87 0.90
48 10 0.10
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (47 bp):
ATGGCATCAGTGTGATATGTGCTTCAGAATAAGACCATATCTGGGAT
Found at i:77043125 original size:31 final size:29
Alignment explanation
Indices: 77043090--77043161 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 29
77043080 TCAAATTATC
*
77043090 AAAATTAATA-TTGAGTTATAAAATTTAATTA
1 AAAATTAA-AGTT-AGTGATAAAATTTAA-TA
*
77043121 AAAATTAAAGTTAGTGGTAAAATTTAAT-
1 AAAATTAAAGTTAGTGATAAAATTTAATA
77043149 AAAATTCAAAGTT
1 AAAATT-AAAGTT
77043162 TAATTAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
28 6 0.16
29 7 0.19
30 14 0.38
31 10 0.27
ACGTcount: A:0.51, C:0.01, G:0.10, T:0.38
Consensus pattern (29 bp):
AAAATTAAAGTTAGTGATAAAATTTAATA
Found at i:77043594 original size:17 final size:19
Alignment explanation
Indices: 77043567--77043606 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
77043557 TTTATTGAAC
77043567 TTTTAATTGTTATA-ATTT
1 TTTTAATTGTTATAGATTT
*
77043585 TTTTAA-TGTTTTAGATTT
1 TTTTAATTGTTATAGATTT
77043603 TTTT
1 TTTT
77043607 TTATGATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (19 bp):
TTTTAATTGTTATAGATTT
Found at i:77052875 original size:18 final size:17
Alignment explanation
Indices: 77052854--77052901 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
77052844 AAATAATTTT
*
77052854 AAAAATATAAAAGTATTC
1 AAAAATATAAAA-AATTC
77052872 AAAAATA-AAAAAATTC
1 AAAAATATAAAAAATTC
77052888 AAAAATTATAAAAA
1 AAAAA-TATAAAAA
77052902 GTCCATAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 9 0.33
17 6 0.22
18 12 0.44
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.23
Consensus pattern (17 bp):
AAAAATATAAAAAATTC
Found at i:77052898 original size:19 final size:21
Alignment explanation
Indices: 77052876--77052923 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 21
77052866 GTATTCAAAA
*
77052876 ATAAAAAAATTCA-AAAATT-
1 ATAAAAAAATCCATAAAATTC
*
77052895 AT-AAAAAGTCCATAAAATTC
1 ATAAAAAAATCCATAAAATTC
77052915 ATAAAAAAA
1 ATAAAAAAA
77052924 ATAGCATGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 8 0.35
19 8 0.35
20 2 0.09
21 5 0.22
ACGTcount: A:0.67, C:0.08, G:0.02, T:0.23
Consensus pattern (21 bp):
ATAAAAAAATCCATAAAATTC
Found at i:77052900 original size:16 final size:16
Alignment explanation
Indices: 77052854--77052893 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
77052844 AAATAATTTT
*
77052854 AAAAATATAAAAGTATTC
1 AAAAATA-AAAA-AATTC
77052872 AAAAATAAAAAAATTC
1 AAAAATAAAAAAATTC
77052888 AAAAAT
1 AAAAAT
77052894 TATAAAAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.48
17 4 0.19
18 7 0.33
ACGTcount: A:0.70, C:0.05, G:0.03, T:0.23
Consensus pattern (16 bp):
AAAAATAAAAAAATTC
Found at i:77055021 original size:20 final size:19
Alignment explanation
Indices: 77054985--77055023 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
77054975 AAAAATTACA
* *
77054985 AAAATATATTTTTGTAATT
1 AAAATAAATTTTAGTAATT
77055004 AAAATAAATTTATAGTAATT
1 AAAATAAATTT-TAGTAATT
77055024 TAATTTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (19 bp):
AAAATAAATTTTAGTAATT
Found at i:77056036 original size:22 final size:23
Alignment explanation
Indices: 77055990--77056038 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
77055980 AATATTTTTG
** *
77055990 TAAATATAAATTAAATTCAATGA
1 TAAATATAAATTAAAGACAAGGA
77056013 TAAAT-TAAATTAAAGACAAGGA
1 TAAATATAAATTAAAGACAAGGA
77056035 TAAA
1 TAAA
77056039 ATTTTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.59, C:0.04, G:0.08, T:0.29
Consensus pattern (23 bp):
TAAATATAAATTAAAGACAAGGA
Found at i:77062356 original size:20 final size:22
Alignment explanation
Indices: 77062312--77062356 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
77062302 ATAAAACAAT
*
77062312 TATAATGTAATATGTATTATAA
1 TATAATGTAATATGTATGATAA
*
77062334 TATAATG-AA-ATGTATGATTA
1 TATAATGTAATATGTATGATAA
77062354 TAT
1 TAT
77062357 TTTTATCTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 12 0.57
21 2 0.10
22 7 0.33
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (22 bp):
TATAATGTAATATGTATGATAA
Found at i:77067546 original size:24 final size:24
Alignment explanation
Indices: 77067519--77067564 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
77067509 ACCGTTGGTC
*
77067519 TAAAGTTGGGCCGTCGGTTTTGAT
1 TAAAGTTGGACCGTCGGTTTTGAT
*
77067543 TAAAGTTGGACCGTTGGTTTTG
1 TAAAGTTGGACCGTCGGTTTTG
77067565 GTCCTATCTG
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:0.17, C:0.11, G:0.33, T:0.39
Consensus pattern (24 bp):
TAAAGTTGGACCGTCGGTTTTGAT
Found at i:77068100 original size:20 final size:19
Alignment explanation
Indices: 77068062--77068108 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
77068052 TAAAAATTCT
*
77068062 TAAAAATTATTCAATTTTA
1 TAAAAAATATTCAATTTTA
77068081 GTAAAAAATATTACAA-TTTA
1 -TAAAAAATATT-CAATTTTA
77068101 -AAAAAATA
1 TAAAAAATA
77068109 GAAAAAAATC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 8 0.32
20 14 0.56
21 3 0.12
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.36
Consensus pattern (19 bp):
TAAAAAATATTCAATTTTA
Found at i:77069796 original size:32 final size:32
Alignment explanation
Indices: 77069755--77069818 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
77069745 CTCTAGCTTC
77069755 ATGTAAGTTTAATTCTTGCTTTCTCCTTGACA
1 ATGTAAGTTTAATTCTTGCTTTCTCCTTGACA
77069787 ATGTAAGTTTAATTCTTGCTTTCTCCTTGACA
1 ATGTAAGTTTAATTCTTGCTTTCTCCTTGACA
77069819 TTTTTATGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.22, C:0.19, G:0.12, T:0.47
Consensus pattern (32 bp):
ATGTAAGTTTAATTCTTGCTTTCTCCTTGACA
Found at i:77071949 original size:25 final size:25
Alignment explanation
Indices: 77071919--77072054 Score: 188
Period size: 25 Copynumber: 5.6 Consensus size: 25
77071909 GACTTCAGCA
* * *
77071919 TGCTCTCTGAATATTAGCACGTCAG
1 TGCTCTCTGATTACTAGCACGCCAG
****
77071944 TGCTCTCTGA-T--TAGCACATTTG
1 TGCTCTCTGATTACTAGCACGCCAG
77071966 TGCTCTCTGATTACTAGCACGCCAG
1 TGCTCTCTGATTACTAGCACGCCAG
77071991 TGCTCTCTGATTACTAGCACGCCAG
1 TGCTCTCTGATTACTAGCACGCCAG
77072016 TGCTCTCTGATTACTAGCACGCCAG
1 TGCTCTCTGATTACTAGCACGCCAG
77072041 TGCTCTCTGATTAC
1 TGCTCTCTGATTAC
77072055 CACATTTGTG
Statistics
Matches: 101, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
22 18 0.18
23 1 0.01
24 1 0.01
25 81 0.80
ACGTcount: A:0.20, C:0.29, G:0.19, T:0.32
Consensus pattern (25 bp):
TGCTCTCTGATTACTAGCACGCCAG
Found at i:77077932 original size:34 final size:34
Alignment explanation
Indices: 77077853--77077933 Score: 119
Period size: 34 Copynumber: 2.4 Consensus size: 34
77077843 CTTTTTTATT
* * *
77077853 TCTTTCTTTCTTTCTCACGTTTGCTCTTTGTTAG
1 TCTTTCTTTCTTTCTCACGTTTGCTCTCTGTAAC
77077887 TCTTTCTTTCTTTCTCACGTTTGCTCTCTGTAAC
1 TCTTTCTTTCTTTCTCACGTTTGCTCTCTGTAAC
77077921 T-TTTCTATTCTTT
1 TCTTTCT-TTCTTT
77077934 ACTTATTATT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
33 5 0.12
34 38 0.88
ACGTcount: A:0.07, C:0.25, G:0.09, T:0.59
Consensus pattern (34 bp):
TCTTTCTTTCTTTCTCACGTTTGCTCTCTGTAAC
Found at i:77084280 original size:47 final size:47
Alignment explanation
Indices: 77084200--77084332 Score: 223
Period size: 47 Copynumber: 2.8 Consensus size: 47
77084190 CCGGGATAAG
* * *
77084200 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACAAAGTACTTCATCGGAACAAATCCGAAACTTTAACATTATAGTA
77084247 CACAAAGTACTTCATCGGAACAAATCCGAAACTTTAACATTATAGTA
1 CACAAAGTACTTCATCGGAACAAATCCGAAACTTTAACATTATAGTA
77084294 CACAAAGTACTTCATCGGAACAAATCC-AGAACTTTAACA
1 CACAAAGTACTTCATCGGAACAAATCCGA-AACTTTAACA
77084333 GTAGTCGACA
Statistics
Matches: 82, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
46 1 0.01
47 81 0.99
ACGTcount: A:0.41, C:0.23, G:0.12, T:0.25
Consensus pattern (47 bp):
CACAAAGTACTTCATCGGAACAAATCCGAAACTTTAACATTATAGTA
Found at i:77085173 original size:42 final size:42
Alignment explanation
Indices: 77085113--77085193 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
77085103 CTTTTTTATT
*
77085113 TCTTTCTTTCCTTATTTCTTTCTCACGTTTGCTCTCTGTTAG
1 TCTTTCTATCCTTATTTCTTTCTCACGTTTGCTCTCTGTTAG
* *
77085155 TCTTTCTATCTTTCTTTCTTTCTCACGTTTGCTCTCTGT
1 TCTTTCTATCCTTATTTCTTTCTCACGTTTGCTCTCTGT
77085194 AACTTTTCTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.06, C:0.27, G:0.09, T:0.58
Consensus pattern (42 bp):
TCTTTCTATCCTTATTTCTTTCTCACGTTTGCTCTCTGTTAG
Found at i:77085209 original size:42 final size:42
Alignment explanation
Indices: 77085113--77085209 Score: 133
Period size: 42 Copynumber: 2.3 Consensus size: 42
77085103 CTTTTTTATT
* * * * *
77085113 TCTTTCTTTCCTTATTTCTTTCTCACGTTTGCTCTCTGTTAG
1 TCTTTCTATCTTTCTTTCTTTCTCACGTTTGCTCTCTGTAAC
77085155 TCTTTCTATCTTTCTTTCTTTCTCACGTTTGCTCTCTGTAAC
1 TCTTTCTATCTTTCTTTCTTTCTCACGTTTGCTCTCTGTAAC
77085197 T-TTTCTATTCTTT
1 TCTTTCTA-TCTTT
77085210 ACTTATTATT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
41 6 0.12
42 43 0.88
ACGTcount: A:0.08, C:0.26, G:0.07, T:0.59
Consensus pattern (42 bp):
TCTTTCTATCTTTCTTTCTTTCTCACGTTTGCTCTCTGTAAC
Found at i:77087112 original size:17 final size:17
Alignment explanation
Indices: 77087090--77087135 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
77087080 TTTGAGTTGG
77087090 TTTTTTATACTAGATT-T
1 TTTTTTATACTA-ATTAT
77087107 TTTTTTA-A-TAATTAT
1 TTTTTTATACTAATTAT
*
77087122 TTTTTTTTACTAAT
1 TTTTTTATACTAAT
77087136 ATAATTGGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
14 3 0.12
15 9 0.36
16 2 0.08
17 11 0.44
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTTTTATACTAATTAT
Found at i:77088616 original size:10 final size:10
Alignment explanation
Indices: 77088603--77088645 Score: 61
Period size: 10 Copynumber: 4.2 Consensus size: 10
77088593 AAATTATCAA
77088603 AATTTTTTAT
1 AATTTTTTAT
77088613 AATTTTTTAT
1 AATTTTTTAT
77088623 AA-TTTTTAT
1 AATTTTTTAT
77088632 ATATTTTTGTAT
1 A-ATTTTT-TAT
77088644 AA
1 AA
77088646 ATATATACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
9 8 0.27
10 13 0.43
11 5 0.17
12 4 0.13
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (10 bp):
AATTTTTTAT
Found at i:77088628 original size:19 final size:21
Alignment explanation
Indices: 77088606--77088645 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 21
77088596 TTATCAAAAT
77088606 TTTTTATA-ATTTTT-TATAA
1 TTTTTATATATTTTTGTATAA
77088625 TTTTTATATATTTTTGTATAA
1 TTTTTATATATTTTTGTATAA
77088646 ATATATACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.42
20 6 0.32
21 5 0.26
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (21 bp):
TTTTTATATATTTTTGTATAA
Found at i:77095683 original size:14 final size:15
Alignment explanation
Indices: 77095664--77095693 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
77095654 ATTGGATGTG
77095664 TGAACTA-ATTAAGT
1 TGAACTACATTAAGT
77095678 TGAACTACATTAAGT
1 TGAACTACATTAAGT
77095693 T
1 T
77095694 AGCATATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (15 bp):
TGAACTACATTAAGT
Found at i:77101126 original size:15 final size:15
Alignment explanation
Indices: 77101106--77101135 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
77101096 GTTCTAGTAA
*
77101106 TTTTATTTTTATTTT
1 TTTTATATTTATTTT
77101121 TTTTATATTTATTTT
1 TTTTATATTTATTTT
77101136 ACAATTAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTATATTTATTTT
Found at i:77101802 original size:16 final size:15
Alignment explanation
Indices: 77101759--77101805 Score: 53
Period size: 16 Copynumber: 3.2 Consensus size: 15
77101749 TCTAAATTAC
77101759 ATAATAT-ATA-AAA
1 ATAATATAATATAAA
77101772 ATAATATAATATAAA
1 ATAATATAATATAAA
* *
77101787 ATATTATAAATTTAAA
1 ATAATAT-AATATAAA
77101803 ATA
1 ATA
77101806 GGTTAAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 7 0.24
14 3 0.10
15 9 0.31
16 10 0.34
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
ATAATATAATATAAA
Found at i:77102587 original size:3 final size:3
Alignment explanation
Indices: 77102579--77102622 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
77102569 TATGTTCTCT
77102579 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
77102623 TTATTGTGTT
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:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:77104263 original size:2 final size:2
Alignment explanation
Indices: 77104256--77104289 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
77104246 CATGTCATCA
77104256 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
77104290 CCCATATAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:77108265 original size:2 final size:2
Alignment explanation
Indices: 77108258--77108289 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
77108248 TAAAATCCCA
77108258 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
77108290 GAGATAGAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:77108686 original size:103 final size:101
Alignment explanation
Indices: 77108505--77108692 Score: 245
Period size: 103 Copynumber: 1.8 Consensus size: 101
77108495 AGTTCTAAAT
*
77108505 AATTTTAGATATAATATATATCTAATAATTTTTTAAATTACAGAAATAAATTTTTAATTTTAAAT
1 AATTTTAGAAATAATATATATCTAATAATTTTTTAAATTACAGAAATAAATTTTTAA--TTAAAT
*
77108570 GATTTTTAGAAATAAAGTTTTAAATTTTTTTATTTGTA
64 GATTTTTAAAAATAAAGTTTTAAATTTTTTTATTTGTA
* * * * *
77108608 AATTTTAGAAATAATTTATATCTAATACTTTTTT-AATTTCAGAAATAAATTCTTTAA-TAATTT
1 AATTTTAGAAATAATATATATCTAATAATTTTTTAAATTACAGAAATAAATT-TTTAATTAAATG
77108671 ATTTTAATACAAAATAAAGTTT
65 ATTTT--TA-AAAATAAAGTTT
77108693 CTTAAATAAT
Statistics
Matches: 74, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
100 9 0.12
102 18 0.24
103 47 0.64
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.49
Consensus pattern (101 bp):
AATTTTAGAAATAATATATATCTAATAATTTTTTAAATTACAGAAATAAATTTTTAATTAAATGA
TTTTTAAAAATAAAGTTTTAAATTTTTTTATTTGTA
Found at i:77109712 original size:23 final size:22
Alignment explanation
Indices: 77109669--77109714 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
77109659 TATTCAACTT
* *
77109669 TATTAGATAACTTTTACCTAAC
1 TATTAGATAAATATTACCTAAC
*
77109691 TATTAAGATAAATATTATCTAAC
1 TATT-AGATAAATATTACCTAAC
77109714 T
1 T
77109715 TTGTTTTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.41, C:0.13, G:0.04, T:0.41
Consensus pattern (22 bp):
TATTAGATAAATATTACCTAAC
Found at i:77110881 original size:15 final size:15
Alignment explanation
Indices: 77110854--77110924 Score: 67
Period size: 15 Copynumber: 4.7 Consensus size: 15
77110844 AAAATATATT
77110854 TCTTTTATTTCTTTTC
1 TCTTTT-TTTCTTTTC
77110870 TCTTTTTTTCTTTAT-
1 TCTTTTTTTCTTT-TC
*
77110885 TCGTTTTTT-TTTTC
1 TCTTTTTTTCTTTTC
*
77110899 TTTTTTTTTCTTCTTC
1 TCTTTTTTTCTT-TTC
77110915 T-TTTCTTTTC
1 TCTTT-TTTTC
77110925 CCAACAAACC
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
13 1 0.02
14 10 0.21
15 20 0.43
16 16 0.34
ACGTcount: A:0.03, C:0.17, G:0.01, T:0.79
Consensus pattern (15 bp):
TCTTTTTTTCTTTTC
Done.