Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 209 of 216
Found at i:64752091 original size:72 final size:70
Alignment explanation
Indices: 64751939--64752091 Score: 171
Period size: 70 Copynumber: 2.2 Consensus size: 70
64751929 GAACACTAGA
* * ** * * *
64751939 AATAAGATGGACAGAGGACATTGTTTATGTAGAGGTTATTTTTAAGAAATAAAGTTAATGCAAGC
1 AATAAGATGGACAAAGAACATTGTTTACATAGAGGTGATTTTTAAGAAATAAAATTAATGCAAAC
*
64752004 CCAAT
66 CCAAC
* * *
64752009 AATAAGATGGACAAAGAACATTGTTTACATAGAGGCTGCTTTTTAAGAAAATAAAATTAGTTCAA
1 AATAAGATGGACAAAGAACATTGTTTACATAGAGG-TGATTTTTAAG-AAATAAAATTAATGCAA
* *
64752074 ATCCAGC
64 ACCCAAC
64752081 AATAAGATGGA
1 AATAAGATGGA
64752092 GGTGGAAATT
Statistics
Matches: 68, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
70 31 0.46
71 9 0.13
72 28 0.41
ACGTcount: A:0.42, C:0.10, G:0.20, T:0.28
Consensus pattern (70 bp):
AATAAGATGGACAAAGAACATTGTTTACATAGAGGTGATTTTTAAGAAATAAAATTAATGCAAAC
CCAAC
Found at i:64755272 original size:18 final size:20
Alignment explanation
Indices: 64755229--64755276 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 20
64755219 ACTCGAACCT
* *
64755229 AAACATTGAACCCAAGTTCA
1 AAACCTTGAACCCAAATTCA
64755249 AAACCTTGAA-CCAAATTC-
1 AAACCTTGAACCCAAATTCA
64755267 AAACCTTGAA
1 AAACCTTGAA
64755277 GCCTAAACCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 10 0.38
19 7 0.27
20 9 0.35
ACGTcount: A:0.46, C:0.25, G:0.08, T:0.21
Consensus pattern (20 bp):
AAACCTTGAACCCAAATTCA
Found at i:64755580 original size:20 final size:20
Alignment explanation
Indices: 64755552--64755590 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
64755542 CATCCGTCAT
*
64755552 AAATAATATTTTTATTATAA
1 AAATAATATTTTTAATATAA
*
64755572 AAATGATATTTTTAATATA
1 AAATAATATTTTTAATATA
64755591 TTTTAATAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
AAATAATATTTTTAATATAA
Found at i:64768225 original size:7 final size:8
Alignment explanation
Indices: 64768204--64768233 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
64768194 TCTCATGAAC
64768204 TCAAAAAA
1 TCAAAAAA
64768212 TCAAAAAA
1 TCAAAAAA
64768220 TCAAAAAAA
1 TC-AAAAAA
64768229 TCAAA
1 TCAAA
64768234 GTCAAAATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.73, C:0.13, G:0.00, T:0.13
Consensus pattern (8 bp):
TCAAAAAA
Found at i:64769124 original size:6 final size:7
Alignment explanation
Indices: 64769107--64769141 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
64769097 AAGAAGATAA
64769107 AAAAATG
1 AAAAATG
64769114 AAAAATG
1 AAAAATG
64769121 AAAAATG
1 AAAAATG
64769128 AAAAA-G
1 AAAAATG
64769134 TAAAAATG
1 -AAAAATG
64769142 GAGAGGCTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 1 0.04
7 24 0.92
8 1 0.04
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:64770576 original size:86 final size:88
Alignment explanation
Indices: 64770374--64770628 Score: 329
Period size: 86 Copynumber: 2.9 Consensus size: 88
64770364 CAGATCAATG
*
64770374 AAGACAAAGGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAA-CCTTGCCTC
1 AAGACAAAAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAA-ACACAAAGCCTTGCCTC
** * * * * * *
64770438 TTTCGTTTGTAATAGAGCTGGTTG
65 CATCGATTGCATTGGAGCTAGTTA
* *
64770462 AAGACAAAAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAA-ACAAAGCCTTGCATCC
1 AAGACAAAAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAACACAAAGCCTTGCCTCC
*
64770526 ATCGATCGCATTGGAGCTAGTTA
66 ATCGATTGCATTGGAGCTAGTTA
** *
64770549 AAGA-AGTAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATC-AAAGACAAAGCCTTGCCTCC
1 AAGACAAAAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAACACAAAGCCTTGCCTCC
*
64770612 ATCGGTTGCATTGGAGC
66 ATCGATTGCATTGGAGC
64770629 AAATTGAAGC
Statistics
Matches: 147, Mismatches: 18, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
85 3 0.02
86 71 0.48
87 28 0.19
88 45 0.31
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.24
Consensus pattern (88 bp):
AAGACAAAAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAACACAAAGCCTTGCCTCC
ATCGATTGCATTGGAGCTAGTTA
Found at i:64770646 original size:86 final size:86
Alignment explanation
Indices: 64770383--64770682 Score: 327
Period size: 86 Copynumber: 3.5 Consensus size: 86
64770373 GAAGACAAAG
* * ** * *
64770383 GATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGTTTGT
1 GATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAGACA-AAGCCTTGCCTCCATCGATTGC
* * * *
64770448 AATAGAGCTGGTTGAAGACAAAA
65 ATTGGAGCTAGTTGAAG-CAAGA
* * *
64770471 GATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAA-ACAAAGCCTTGCATCCATCGATCGC
1 GATCTTGCCTTCCTGCATTAACAGCGAAGCAGATC-AAAGACAAAGCCTTGCCTCCATCGATTGC
*
64770535 ATTGGAGCTAGTTAAAG-AAGTA
65 ATTGGAGCTAGTTGAAGCAAG-A
*
64770557 GATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAGACAAAGCCTTGCCTCCATCGGTTGCA
1 GATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAGACAAAGCCTTGCCTCCATCGATTGCA
* * *
64770622 TTGGAGCAAATTGAAGCCAGA
66 TTGGAGCTAGTTGAAGCAAGA
** * * *
64770643 GATCTTATCTCCCTGAGATT-ACAGCGGAGCAGATCAAAGA
1 GATCTTGCCTTCCTG-CATTAACAGCGAAGCAGATCAAAGA
64770683 TAGTAATCCT
Statistics
Matches: 180, Mismatches: 27, Indels: 12
0.82 0.12 0.05
Matches are distributed among these distances:
85 5 0.03
86 103 0.57
87 33 0.18
88 37 0.21
89 2 0.01
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.24
Consensus pattern (86 bp):
GATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAGACAAAGCCTTGCCTCCATCGATTGCA
TTGGAGCTAGTTGAAGCAAGA
Found at i:64770775 original size:41 final size:40
Alignment explanation
Indices: 64770726--64770915 Score: 138
Period size: 41 Copynumber: 4.6 Consensus size: 40
64770716 CGGATTAAAG
64770726 GATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCA
1 GATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACAT-A
* ** * *
64770767 GATCTTATCTCCCTG-AGATTACAGCGGAGCAGATCAAAGATA
1 GATCTTATCTCTCTGAAG-TTACAGTAGAGAAGATC--ACATA
* * * ** *
64770809 GTAATCCTATCTC-CTTG-AGATTACAATGGAGCGGATTA-A-A
1 G--ATCTTATCTCTC-TGAAG-TTACAGTAGAGAAGATCACATA
64770849 GGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCA
1 -GATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACAT-A
* *
64770891 GGTCTTATCTCTCTGAGGTTACAGT
1 GATCTTATCTCTCTGAAGTTACAGT
64770916 GGAGTAGACC
Statistics
Matches: 119, Mismatches: 18, Indels: 24
0.74 0.11 0.15
Matches are distributed among these distances:
39 24 0.20
40 7 0.06
41 53 0.45
42 4 0.03
43 4 0.03
44 27 0.23
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.29
Consensus pattern (40 bp):
GATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATA
Found at i:64770862 original size:124 final size:124
Alignment explanation
Indices: 64770642--64770919 Score: 520
Period size: 124 Copynumber: 2.2 Consensus size: 124
64770632 TTGAAGCCAG
64770642 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATT
64770707 ACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATC
66 ACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATC
64770766 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATT
64770831 ACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATC
66 ACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATC
* * * *
64770890 AGGTCTTATCTCTCTGAGGTTACAGTGGAG
1 AGATCTTATCTCCCTGAGATTACAGCGGAG
64770920 TAGACCGAAG
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
124 150 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (124 bp):
AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATT
ACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATC
Found at i:64771047 original size:43 final size:44
Alignment explanation
Indices: 64770623--64771052 Score: 176
Period size: 44 Copynumber: 10.1 Consensus size: 44
64770613 TCGGTTGCAT
* * * *
64770623 TGGAGCAAATTGAAGCCAGAGATCTTATCTCCCTG-AGATTACAG
1 TGGAGCAGATCGAAGACAGAGATCCTATCTCCCTGAAG-TTACAG
* * * * *
64770667 CGGAGCAGATCAAAGATAGTA-ATCCTATCTCCTTG-AGATTACAA
1 TGGAGCAGATCGAAGACAG-AGATCCTATCTCCCTGAAG-TTACAG
* * * *
64770711 TGGAGCGGAT--TA-A-AG-GATCTTATCTCTCTGAAGTTACAG
1 TGGAGCAGATCGAAGACAGAGATCCTATCTCCCTGAAGTTACAG
* * * *
64770750 TAGAGAAGATC----ACATCAGATCTTATCTCCCTG-AGATTACAG
1 TGGAGCAGATCGAAGACA-GAGATCCTATCTCCCTGAAG-TTACAG
* * * * *
64770791 CGGAGCAGATCAAAGATAGTA-ATCCTATCTCCTTG-AGATTACAA
1 TGGAGCAGATCGAAGACAG-AGATCCTATCTCCCTGAAG-TTACAG
* * * *
64770835 TGGAGCGGAT--TA-A-AG-GATCTTATCTCTCTGAAGTTACAG
1 TGGAGCAGATCGAAGACAGAGATCCTATCTCCCTGAAGTTACAG
* * * * * *
64770874 TAGAGAAGATC-ACA-TCAG-G-TCTTATCTCTCTGAGGTTACAG
1 TGGAGCAGATCGA-AGACAGAGATCCTATCTCCCTGAAGTTACAG
* * * *
64770915 TGGAGTAGACCGAAGA-ATTGCAGATCTTATCCCCCTGAAGTTACAG
1 TGGAGCAGATCGAAGACA--G-AGATCCTATCTCCCTGAAGTTACAG
* * * *
64770961 TGGAGCAGATTGAAGCCAGAGATCTTATCTCCCCG-AGATTACAG
1 TGGAGCAGATCGAAGACAGAGATCCTATCTCCCTGAAG-TTACAG
* **
64771005 CGGAGCAGATCGAAGACA-CTATCCTATCTCCCTGAAGTTACAG
1 TGGAGCAGATCGAAGACAGAGATCCTATCTCCCTGAAGTTACAG
64771048 TGGAG
1 TGGAG
64771053 TGGGTTAAAA
Statistics
Matches: 295, Mismatches: 63, Indels: 57
0.71 0.15 0.14
Matches are distributed among these distances:
38 1 0.00
39 47 0.16
40 10 0.03
41 62 0.21
42 6 0.02
43 25 0.08
44 106 0.36
45 6 0.02
46 31 0.11
47 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.26
Consensus pattern (44 bp):
TGGAGCAGATCGAAGACAGAGATCCTATCTCCCTGAAGTTACAG
Found at i:64774045 original size:18 final size:20
Alignment explanation
Indices: 64774022--64774067 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
64774012 GTATTATTGT
*
64774022 ATAAATTAT-CGAT-AATAC
1 ATAAATTATACCATCAATAC
64774040 ATAAATTATACCATCAATAC
1 ATAAATTATACCATCAATAC
64774060 ATCAAATT
1 AT-AAATT
64774068 TAACCCATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 9 0.38
19 3 0.12
20 7 0.29
21 5 0.21
ACGTcount: A:0.50, C:0.15, G:0.02, T:0.33
Consensus pattern (20 bp):
ATAAATTATACCATCAATAC
Found at i:64777143 original size:41 final size:41
Alignment explanation
Indices: 64777094--64777202 Score: 173
Period size: 41 Copynumber: 2.6 Consensus size: 41
64777084 GACTTTAAGT
*
64777094 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAAC
*
64777135 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAAC
* *
64777176 CTAGCAGGCTAAGTGCCGTTGAATCTG
1 CTAGCAGGCTACGTGCCGGTG-ATCTG
64777203 TTTAAATTAA
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
41 58 0.92
42 5 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAAC
Found at i:64780879 original size:9 final size:9
Alignment explanation
Indices: 64780865--64780904 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
64780855 ACATATCAAA
*
64780865 AATTAACTG
1 AATTAACCG
*
64780874 AATTAACCA
1 AATTAACCG
*
64780883 AACTAACCG
1 AATTAACCG
64780892 AATTAACCG
1 AATTAACCG
64780901 AATT
1 AATT
64780905 TAATATATGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.47, C:0.20, G:0.07, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:64786501 original size:21 final size:22
Alignment explanation
Indices: 64786476--64786521 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
64786466 AAAACTGTTA
* *
64786476 TTTTTTATTGTTTTCTTGCT-G
1 TTTTTTACTATTTTCTTGCTAG
64786497 TTTTTTACTATTTTCTTGCTAG
1 TTTTTTACTATTTTCTTGCTAG
64786519 TTT
1 TTT
64786522 CTTGTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.09, C:0.11, G:0.11, T:0.70
Consensus pattern (22 bp):
TTTTTTACTATTTTCTTGCTAG
Found at i:64789504 original size:46 final size:45
Alignment explanation
Indices: 64789398--64789558 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 45
64789388 CATATGACCT
* * *
64789398 CTTATCAC-TTGTC-CTTGATTAGATAAGTGTAGCTAGGCTACTA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
64789441 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
64789487 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
64789524 CTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
64789559 CACTTATCAT
Statistics
Matches: 103, Mismatches: 8, Indels: 16
0.81 0.06 0.13
Matches are distributed among these distances:
37 29 0.28
39 2 0.02
40 3 0.03
42 1 0.01
43 9 0.09
44 6 0.06
45 20 0.19
46 33 0.32
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:64789525 original size:37 final size:37
Alignment explanation
Indices: 64789484--64789622 Score: 233
Period size: 37 Copynumber: 3.8 Consensus size: 37
64789474 GCTGAAGCTA
* *
64789484 CCACTTATCACTTTATCACTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
64789521 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
* *
64789558 CCACTTATCATTTTGTCTCTTGATCAGATAAGTGTAA
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
*
64789595 CCACTTATCACTTTGTTTCTTGATCAGA
1 CCACTTATCACTTTGTCTCTTGATCAGA
64789623 AGTACTCAAA
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 96 1.00
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.39
Consensus pattern (37 bp):
CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
Found at i:64791554 original size:20 final size:20
Alignment explanation
Indices: 64791526--64791563 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
64791516 TTTTAAATAC
*
64791526 CTCTTCTAAAGAAGTTGACA
1 CTCTACTAAAGAAGTTGACA
*
64791546 CTCTACTAAAGGAGTTGA
1 CTCTACTAAAGAAGTTGA
64791564 TCCTCAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.29
Consensus pattern (20 bp):
CTCTACTAAAGAAGTTGACA
Found at i:64809912 original size:8 final size:8
Alignment explanation
Indices: 64809893--64809948 Score: 60
Period size: 9 Copynumber: 6.8 Consensus size: 8
64809883 CTCTTTTTTT
64809893 AAAATTTAA
1 AAAATTT-A
*
64809902 AAAATTCA
1 AAAATTTA
64809910 AAAATTTTA
1 AAAA-TTTA
64809919 AAAATTTA
1 AAAATTTA
64809927 AAAA-TTA
1 AAAATTTA
*
64809934 AAAAGTATA
1 AAAA-TTTA
64809943 AAAATT
1 AAAATT
64809949 ACCCAATATA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
7 7 0.17
8 14 0.35
9 19 0.47
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (8 bp):
AAAATTTA
Found at i:64809915 original size:17 final size:17
Alignment explanation
Indices: 64809893--64809937 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
64809883 CTCTTTTTTT
64809893 AAAATTTAAAAAATTCA
1 AAAATTTAAAAAATTCA
* *
64809910 AAAATTTTAAAAATTTA
1 AAAATTTAAAAAATTCA
64809927 AAAA-TTAAAAA
1 AAAATTTAAAAA
64809938 GTATAAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 6 0.24
17 19 0.76
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAATTTAAAAAATTCA
Found at i:64812234 original size:28 final size:29
Alignment explanation
Indices: 64812202--64812272 Score: 85
Period size: 28 Copynumber: 2.4 Consensus size: 29
64812192 ATATTTTAGT
64812202 TAATATATATTATATTTAATTA-ATTAATA
1 TAATATATATTATA-TTAATTATATTAATA
*
64812231 -AATA-AGTATTATATTAATTATATTATTA
1 TAATATA-TATTATATTAATTATATTAATA
64812259 TAATATTATATTAT
1 TAATA-TATATTAT
64812273 TATATATATA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
27 8 0.22
28 17 0.47
29 4 0.11
30 6 0.17
31 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (29 bp):
TAATATATATTATATTAATTATATTAATA
Found at i:64812260 original size:8 final size:8
Alignment explanation
Indices: 64812237--64812277 Score: 64
Period size: 8 Copynumber: 5.0 Consensus size: 8
64812227 AATAAATAAG
64812237 TATTATAT
1 TATTATAT
64812245 TAATTATAT
1 T-ATTATAT
*
64812254 TATTATAA
1 TATTATAT
64812262 TATTATAT
1 TATTATAT
64812270 TATTATAT
1 TATTATAT
64812278 ATATAAAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 22 0.73
9 8 0.27
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
TATTATAT
Found at i:64817897 original size:29 final size:29
Alignment explanation
Indices: 64817822--64817899 Score: 93
Period size: 31 Copynumber: 2.6 Consensus size: 29
64817812 TTAAATTTCA
* *
64817822 AAAAGTATAAAGACTAAAATTGAATAATTT
1 AAAA-TATAAAGACTAAAATTGAACAAATT
* *
64817852 AAAAAATACAAGTACTAAAATTGACCAAATT
1 AAAATATA-AAG-ACTAAAATTGAACAAATT
64817883 AAAATATAAAGACTAAA
1 AAAATATAAAGACTAAA
64817900 TTCAAAATGT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
29 9 0.22
30 10 0.24
31 22 0.54
ACGTcount: A:0.60, C:0.08, G:0.08, T:0.24
Consensus pattern (29 bp):
AAAATATAAAGACTAAAATTGAACAAATT
Found at i:64823489 original size:15 final size:15
Alignment explanation
Indices: 64823469--64823497 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
64823459 CTTAACATTG
64823469 TATTAAAAAGAACAT
1 TATTAAAAAGAACAT
64823484 TATTAAAAAGAACA
1 TATTAAAAAGAACA
64823498 GATATGATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.24
Consensus pattern (15 bp):
TATTAAAAAGAACAT
Found at i:64828638 original size:110 final size:106
Alignment explanation
Indices: 64828513--64828727 Score: 283
Period size: 110 Copynumber: 2.0 Consensus size: 106
64828503 GGTACATGTG
* * * *
64828513 TTATGTTTTGGTCCAATGT-GATATTTTTATTTGATAAAAGTTATACACTTTTGTACTCGAAGGT
1 TTATGTTTTGGTCCAATGTAG-TATTTCTATTTGACAAAAGTTATACAC--TTATACTCGAAGAT
*
64828577 AACAATGCTAATTTTTTAATTGTT-ACTTTTTTAGTATTTACCTCGGA
63 AAC-A-G-TAACTTTTTAATTGTTAAC-TTTTTAGTATTTACCTCGGA
*
64828624 TTATG-TTTGGTCCAATGTAGTATTTCTATTTGACAAAAGTTATACACTTATACTTGAAGATAAC
1 TTATGTTTTGGTCCAATGTAGTATTTCTATTTGACAAAAGTTATACACTTATACTCGAAGATAAC
*
64828688 AGTAACTTTTTAATTGTTAACTTTTTAGTGTTTACCTCGG
66 AGTAACTTTTTAATTGTTAACTTTTTAGTATTTACCTCGG
64828728 GTTTTAGAGT
Statistics
Matches: 95, Mismatches: 7, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
105 33 0.35
106 3 0.03
107 1 0.01
108 14 0.15
110 38 0.40
111 6 0.06
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.46
Consensus pattern (106 bp):
TTATGTTTTGGTCCAATGTAGTATTTCTATTTGACAAAAGTTATACACTTATACTCGAAGATAAC
AGTAACTTTTTAATTGTTAACTTTTTAGTATTTACCTCGGA
Found at i:64833187 original size:23 final size:23
Alignment explanation
Indices: 64833139--64833188 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
64833129 TATAAAGTTA
* * *
64833139 TAAAATTTATTTGATATATTATT
1 TAAAATTAATTTGAAATATTAAT
64833162 TAAAATTAATTATGAAATA-TAAT
1 TAAAATTAATT-TGAAATATTAAT
64833185 TAAA
1 TAAA
64833189 TTGTTTAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (23 bp):
TAAAATTAATTTGAAATATTAAT
Found at i:64840377 original size:3 final size:3
Alignment explanation
Indices: 64840363--64840436 Score: 51
Period size: 3 Copynumber: 24.3 Consensus size: 3
64840353 CAAACATTTA
* * * * *
64840363 TAT TAT TCAT TAT TAA TAT TAT TAA TGT TAT TGT TAT TAT CAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
64840409 TAT TGT TAT CAT T-T TCAT CAT TAT TAT T
1 TAT TAT TAT TAT TAT T-AT TAT TAT TAT T
64840437 GTTTATGCAT
Statistics
Matches: 52, Mismatches: 16, Indels: 6
0.70 0.22 0.08
Matches are distributed among these distances:
2 2 0.04
3 46 0.88
4 4 0.08
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:64855657 original size:26 final size:26
Alignment explanation
Indices: 64855628--64855693 Score: 89
Period size: 26 Copynumber: 2.5 Consensus size: 26
64855618 AAATTAAAAA
*
64855628 TTACCAAAATGCTATA-ATTTTTTCAT
1 TTACCAAAAT-ATATATATTTTTTCAT
* *
64855654 TTACCAAAATATATATTTTTTTTTAT
1 TTACCAAAATATATATATTTTTTCAT
64855680 TTACCAAAATATAT
1 TTACCAAAATATAT
64855694 CAAAAAAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
25 4 0.11
26 32 0.89
ACGTcount: A:0.38, C:0.12, G:0.02, T:0.48
Consensus pattern (26 bp):
TTACCAAAATATATATATTTTTTCAT
Found at i:64855910 original size:4 final size:4
Alignment explanation
Indices: 64855901--64855970 Score: 58
Period size: 4 Copynumber: 17.5 Consensus size: 4
64855891 GGGGAAGAAG
* *
64855901 AAGA AAGA AAGG AAGA AAG- AA-A AAGA AGGAA AAGGA AAGA AGAGGA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAG-A AA-GA AAGA A-A-GA
64855947 AAGA AAG- AA-A AAGA AAGA AAGA AA
1 AAGA AAGA AAGA AAGA AAGA AAGA AA
64855971 AGGAAAGGGG
Statistics
Matches: 54, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
3 8 0.15
4 35 0.65
5 7 0.13
6 4 0.07
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:64855926 original size:10 final size:10
Alignment explanation
Indices: 64855895--64855977 Score: 64
Period size: 10 Copynumber: 8.3 Consensus size: 10
64855885 AGGAGAGGGG
*
64855895 AAGAAGAAGA
1 AAGAAAAAGA
64855905 AAGAAAGGAAGA
1 AAGAAA--AAGA
64855917 AAGAAAAAGA
1 AAGAAAAAGA
* *
64855927 AGGAAAAGGA
1 AAGAAAAAGA
* *
64855937 AAGAAGAGGA
1 AAGAAAAAGA
64855947 AAG--AAAGA
1 AAGAAAAAGA
64855955 AA-AAGAAAGA
1 AAGAA-AAAGA
*
64855965 AAGAAAAGGA
1 AAGAAAAAGA
64855975 AAG
1 AAG
64855978 GGGAAGAAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
8 5 0.08
10 42 0.71
11 2 0.03
12 10 0.17
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (10 bp):
AAGAAAAAGA
Found at i:64855932 original size:14 final size:15
Alignment explanation
Indices: 64855895--64856076 Score: 89
Period size: 14 Copynumber: 12.3 Consensus size: 15
64855885 AGGAGAGGGG
64855895 AAGAAGAA-GAAAGA
1 AAGAAGAAGGAAAGA
64855909 AAG--GAA-GAAAGA
1 AAGAAGAAGGAAAGA
64855921 AA-AAGAAGGAAAAGGA
1 AAGAAGAAGG-AAA-GA
64855937 AAGAAG-AGGAAAGA
1 AAGAAGAAGGAAAGA
*
64855951 AAGAA-AAAGAAAGA
1 AAGAAGAAGGAAAGA
64855965 AAGAA-AAGGAAAG-
1 AAGAAGAAGGAAAGA
** **
64855978 GGGAAGAAAAAAAG-
1 AAGAAGAAGGAAAGA
* *
64855992 CAGATTATAAGGAAAGA
1 AAGA--AGAAGGAAAGA
* *
64856009 AA-AATAAGAAAAGGA
1 AAGAAGAAGGAAA-GA
* *
64856024 AAGGAGAAGAGAAAAA
1 AAGAAGAAG-GAAAGA
*
64856040 AAGAAGAAGAAGAAGA
1 AAGAAGAAGGA-AAGA
* *
64856056 ATGAAGGAAGGAAAAA
1 AAGAA-GAAGGAAAGA
64856072 AAGAA
1 AAGAA
64856077 AATAAGGTAA
Statistics
Matches: 128, Mismatches: 24, Indels: 30
0.70 0.13 0.16
Matches are distributed among these distances:
12 11 0.09
13 6 0.05
14 46 0.36
15 11 0.09
16 42 0.33
17 12 0.09
ACGTcount: A:0.68, C:0.01, G:0.29, T:0.03
Consensus pattern (15 bp):
AAGAAGAAGGAAAGA
Found at i:64855991 original size:24 final size:24
Alignment explanation
Indices: 64855957--64856040 Score: 71
Period size: 24 Copynumber: 3.4 Consensus size: 24
64855947 AAGAAAGAAA
*
64855957 AAGAAAGAAAGAAAAGGAAAGGGG
1 AAGAAAAAAAGAAAAGGAAAGGGG
* * ** *
64855981 AAGAAAAAAAGCAGATTATAA-GGA
1 AAGAAAAAAAGAAAAGGA-AAGGGG
*
64856005 AAGAAAAATAAGAAAAGGAAAGGAG
1 AAGAAAAA-AAGAAAAGGAAAGGGG
64856030 AAGAGAAAAAA
1 AAGA-AAAAAA
64856041 AGAAGAAGAA
Statistics
Matches: 44, Mismatches: 12, Indels: 7
0.70 0.19 0.11
Matches are distributed among these distances:
24 25 0.57
25 15 0.34
26 4 0.09
ACGTcount: A:0.67, C:0.01, G:0.27, T:0.05
Consensus pattern (24 bp):
AAGAAAAAAAGAAAAGGAAAGGGG
Found at i:64856928 original size:22 final size:23
Alignment explanation
Indices: 64856832--64856971 Score: 129
Period size: 27 Copynumber: 5.6 Consensus size: 23
64856822 ATATACAAAA
64856832 TTACCAAAATATTATAATTTTTTTAT
1 TTACCAAAATA-TAT-A-TTTTTTAT
* *
64856858 TTACCGAAATATATATATTTTAT
1 TTACCAAAATATATATTTTTTAT
64856881 TTACCAAAATATTATAAAATTTTTTAT
1 TTACCAAAATA-TAT---ATTTTTTAT
**
64856908 TTACGGAAATATAT-TTTTTTAT
1 TTACCAAAATATATATTTTTTAT
64856930 TTACCAAAATATATATAATTTTGTTTAT
1 TTACC-AAA-ATATAT-A-TTT-TTTAT
64856958 TTACCAAAATATAT
1 TTACCAAAATATAT
64856972 CAAAAAAAAC
Statistics
Matches: 96, Mismatches: 8, Indels: 20
0.77 0.06 0.16
Matches are distributed among these distances:
22 12 0.12
23 19 0.20
24 10 0.10
25 3 0.03
26 19 0.20
27 23 0.24
28 10 0.10
ACGTcount: A:0.40, C:0.08, G:0.03, T:0.49
Consensus pattern (23 bp):
TTACCAAAATATATATTTTTTAT
Found at i:64856947 original size:50 final size:49
Alignment explanation
Indices: 64856832--64856971 Score: 210
Period size: 50 Copynumber: 2.8 Consensus size: 49
64856822 ATATACAAAA
64856832 TTACCAAAATATTATAATTTTTTTATTTACCGAAATATATATATTTTAT
1 TTACCAAAATATTATAATTTTTTTATTTACCGAAATATATATATTTTAT
* * *
64856881 TTACCAAAATATTATAAAATTTTTTATTTACGGAAATATAT-TTTTTTAT
1 TTACCAAAATATTAT-AATTTTTTTATTTACCGAAATATATATATTTTAT
*
64856930 TTACCAAAATATATATAATTTTGTTTATTTACCAAAATATAT
1 TTACCAAAATAT-TATAATTTT-TTTATTTACCGAAATATAT
64856972 CAAAAAAAAC
Statistics
Matches: 82, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
49 39 0.48
50 43 0.52
ACGTcount: A:0.40, C:0.08, G:0.03, T:0.49
Consensus pattern (49 bp):
TTACCAAAATATTATAATTTTTTTATTTACCGAAATATATATATTTTAT
Found at i:64856970 original size:26 final size:25
Alignment explanation
Indices: 64856832--64856971 Score: 146
Period size: 26 Copynumber: 5.6 Consensus size: 25
64856822 ATATACAAAA
64856832 TTACCAAAATATTATAATTTTTTTAT
1 TTACCAAAATA-TATAATTTTTTTAT
* *
64856858 TTACCGAAATATAT-A-TATTTTAT
1 TTACCAAAATATATAATTTTTTTAT
*
64856881 TTACCAAAATATTATAAAATTTTTTAT
1 TTACCAAAATA-TAT-AATTTTTTTAT
**
64856908 TTA-CGGAA-ATAT-ATTTTTTTAT
1 TTACCAAAATATATAATTTTTTTAT
64856930 TTACCAAAATATATATAATTTTGTTTAT
1 TTACC-AAA-ATATATAATTTT-TTTAT
64856958 TTACCAAAATATAT
1 TTACCAAAATATAT
64856972 CAAAAAAAAC
Statistics
Matches: 95, Mismatches: 9, Indels: 20
0.77 0.07 0.16
Matches are distributed among these distances:
22 12 0.13
23 18 0.19
24 8 0.08
25 5 0.05
26 24 0.25
27 18 0.19
28 10 0.11
ACGTcount: A:0.40, C:0.08, G:0.03, T:0.49
Consensus pattern (25 bp):
TTACCAAAATATATAATTTTTTTAT
Found at i:64861730 original size:23 final size:23
Alignment explanation
Indices: 64861704--64861776 Score: 128
Period size: 23 Copynumber: 3.2 Consensus size: 23
64861694 AGTGCCACAT
64861704 TGATATGTAGCCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
*
64861727 TGATATGTAGCCGTAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
*
64861750 TGAAATGTAGCCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
64861773 TGAT
1 TGAT
64861777 CAATAACACT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (23 bp):
TGATATGTAGCCGAAGCTACCAC
Found at i:64862036 original size:18 final size:17
Alignment explanation
Indices: 64862010--64862048 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
64862000 ATTTTCCTTC
64862010 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
64862027 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
64862045 CACA
1 CACA
64862049 ATTTATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:64863982 original size:18 final size:18
Alignment explanation
Indices: 64863956--64863993 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
64863946 ATCCCAATGA
* *
64863956 TCGCCACCACCTTCTTCT
1 TCGCAACCACATTCTTCT
64863974 TCGCAACCACATTCTTCT
1 TCGCAACCACATTCTTCT
64863992 TC
1 TC
64863994 ACCACCAACC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.16, C:0.45, G:0.05, T:0.34
Consensus pattern (18 bp):
TCGCAACCACATTCTTCT
Found at i:64864000 original size:18 final size:18
Alignment explanation
Indices: 64863959--64864000 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
64863949 CCAATGATCG
* *
64863959 CCACCACCTTCTTCTTCG
1 CCACCACATTCTTCTTCA
*
64863977 CAACCACATTCTTCTTCA
1 CCACCACATTCTTCTTCA
64863995 CCACCA
1 CCACCA
64864001 ACCATATCAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.48, G:0.02, T:0.29
Consensus pattern (18 bp):
CCACCACATTCTTCTTCA
Found at i:64865279 original size:28 final size:28
Alignment explanation
Indices: 64865220--64865285 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
64865210 TTTTTTATAT
* *
64865220 ATTTTGGTAAATAAAAAAATTTATAAAT
1 ATTTTGGTAAATAAAAAAAATTATAAAC
*
64865248 ATTTTGGTAAATAAAAAAAGATTAT-AGC
1 ATTTTGGTAAATAAAAAAA-ATTATAAAC
64865276 ATTTTGGTAA
1 ATTTTGGTAA
64865286 TTTTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 30 0.88
29 4 0.12
ACGTcount: A:0.48, C:0.02, G:0.12, T:0.38
Consensus pattern (28 bp):
ATTTTGGTAAATAAAAAAAATTATAAAC
Found at i:64870320 original size:15 final size:16
Alignment explanation
Indices: 64870289--64870325 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
64870279 CTTGATTATG
*
64870289 TTAAAATTTTAAAAGT
1 TTAAAATTATAAAAGT
64870305 TTAAAATTAT-AAAGT
1 TTAAAATTATAAAAGT
64870320 TTAAAA
1 TTAAAA
64870326 AATTTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (16 bp):
TTAAAATTATAAAAGT
Found at i:64870326 original size:24 final size:24
Alignment explanation
Indices: 64870290--64870337 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
64870280 TTGATTATGT
* *
64870290 TAAAATTTTAAAAGTTTAAAATTA
1 TAAAATTTAAAAAATTTAAAATTA
* *
64870314 TAAAGTTTAAAAAATTTCAAATTA
1 TAAAATTTAAAAAATTTAAAATTA
64870338 AAATATAAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (24 bp):
TAAAATTTAAAAAATTTAAAATTA
Found at i:64871628 original size:23 final size:21
Alignment explanation
Indices: 64871591--64871637 Score: 51
Period size: 23 Copynumber: 2.1 Consensus size: 21
64871581 AAATTAGCAC
64871591 AATTTTTTAAATTAAATT-AT
1 AATTTTTTAAATTAAATTAAT
*
64871611 AATTATTTTAAAACTTAATTTAAT
1 AATT-TTTT-AAA-TTAAATTAAT
64871635 AAT
1 AAT
64871638 ATGATAGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
20 4 0.18
21 4 0.18
22 3 0.14
23 6 0.27
24 5 0.23
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
AATTTTTTAAATTAAATTAAT
Found at i:64873383 original size:31 final size:30
Alignment explanation
Indices: 64873346--64873426 Score: 92
Period size: 31 Copynumber: 2.6 Consensus size: 30
64873336 TACAAGCTAG
64873346 TGACTTAAATAGAAACTTTTAAATAGTTAAA
1 TGACTTAAAT-GAAACTTTTAAATAGTTAAA
* * *
64873377 TGACTTAAATGAAAATTTTTGAATAGTTTAA
1 TGACTTAAATG-AAACTTTTAAATAGTTAAA
*
64873408 TGAC-TAAATTGTAACTTTT
1 TGACTTAAA-TGAAACTTTT
64873427 TTAATTAAGT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
30 11 0.26
31 32 0.74
ACGTcount: A:0.42, C:0.06, G:0.11, T:0.41
Consensus pattern (30 bp):
TGACTTAAATGAAACTTTTAAATAGTTAAA
Found at i:64877125 original size:21 final size:19
Alignment explanation
Indices: 64877101--64877139 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 19
64877091 GATTATATTC
64877101 AAATTATTAAAAAAAGTATAA
1 AAATTA-TAAAAAAA-TATAA
64877122 AAATTATAAAAAAATATA
1 AAATTATAAAAAAATATA
64877140 TTTTTTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 8 0.44
21 6 0.33
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (19 bp):
AAATTATAAAAAAATATAA
Found at i:64883528 original size:21 final size:21
Alignment explanation
Indices: 64883489--64883539 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
64883479 ACCAAAAGTT
64883489 TATTTTAAAAATTAAAAAATA
1 TATTTTAAAAATTAAAAAATA
64883510 TATTTT-AAAATTAAAAAA-A
1 TATTTTAAAAATTAAAAAATA
*
64883529 -ATTTAAAAAAT
1 TATTTTAAAAAT
64883540 AAATATATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 4 0.14
19 6 0.21
20 12 0.43
21 6 0.21
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
TATTTTAAAAATTAAAAAATA
Found at i:64883549 original size:17 final size:18
Alignment explanation
Indices: 64883504--64883550 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
64883494 TAAAAATTAA
* *
64883504 AAAATATATTTTAAAATT
1 AAAATATATTTAAAAAAT
* *
64883522 AAAAAAAATTTAAAAAAT
1 AAAATATATTTAAAAAAT
64883540 -AAATATATTTA
1 AAAATATATTTA
64883551 TTATATTGGG
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAATATATTTAAAAAAT
Found at i:64886062 original size:7 final size:7
Alignment explanation
Indices: 64886050--64886088 Score: 51
Period size: 7 Copynumber: 5.3 Consensus size: 7
64886040 TAGGGTGTAG
64886050 TAAAAAA
1 TAAAAAA
64886057 TAAAAAA
1 TAAAAAA
64886064 TAAAAAA
1 TAAAAAA
*
64886071 TATAAATA
1 TA-AAAAA
64886079 TAAATAAA
1 TAAA-AAA
64886087 TA
1 TA
64886089 TAATACTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
7 18 0.64
8 10 0.36
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (7 bp):
TAAAAAA
Found at i:64886069 original size:14 final size:15
Alignment explanation
Indices: 64886050--64886091 Score: 59
Period size: 14 Copynumber: 2.8 Consensus size: 15
64886040 TAGGGTGTAG
64886050 TAAAAAATA-AAAAA
1 TAAAAAATATAAAAA
*
64886064 TAAAAAATATAAATA
1 TAAAAAATATAAAAA
64886079 TAAATAAATATAA
1 TAAA-AAATATAA
64886092 TACTTGTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 9 0.36
15 8 0.32
16 8 0.32
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
TAAAAAATATAAAAA
Found at i:64886075 original size:16 final size:16
Alignment explanation
Indices: 64886051--64886091 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
64886041 AGGGTGTAGT
64886051 AAAAA-ATAAAAAATA
1 AAAAATATAAAAAATA
*
64886066 AAAAATAT-AAATATA
1 AAAAATATAAAAAATA
64886081 AATAAATATAA
1 AA-AAATATAA
64886092 TACTTGTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 13 0.59
16 8 0.36
17 1 0.05
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (16 bp):
AAAAATATAAAAAATA
Found at i:64886953 original size:16 final size:16
Alignment explanation
Indices: 64886930--64886974 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
64886920 TCAGATTATT
*
64886930 TTTAATTATTTTTATA
1 TTTAATTATTTTAATA
64886946 -TTATATTATTTTAATA
1 TTTA-ATTATTTTAATA
64886962 TTTAATTATTTTA
1 TTTAATTATTTTA
64886975 TACAATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 3 0.12
16 20 0.77
17 3 0.12
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTAATTATTTTAATA
Found at i:64886953 original size:26 final size:27
Alignment explanation
Indices: 64886924--64886991 Score: 70
Period size: 26 Copynumber: 2.6 Consensus size: 27
64886914 GCCCGTTCAG
64886924 ATTATTTTTAATTATTT-TTATATTAT
1 ATTATTTTTAATTATTTATTATATTAT
*
64886950 ATTA-TTTTAA-TATTTAATTATTTTAT
1 ATTATTTTTAATTATTT-ATTATATTAT
** *
64886976 ACAATTTTTATTTATT
1 ATTATTTTTAATTATT
64886992 AAAATTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
24 5 0.15
25 6 0.18
26 14 0.41
27 5 0.15
28 4 0.12
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.66
Consensus pattern (27 bp):
ATTATTTTTAATTATTTATTATATTAT
Found at i:64889848 original size:6 final size:6
Alignment explanation
Indices: 64889837--64889871 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
64889827 GTAATAGGAG
64889837 AGAGAT AGAGAT AGAGAT AGAGAT AGAGAT AGAGA
1 AGAGAT AGAGAT AGAGAT AGAGAT AGAGAT AGAGA
64889872 GAGAACAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.51, C:0.00, G:0.34, T:0.14
Consensus pattern (6 bp):
AGAGAT
Found at i:64898026 original size:28 final size:28
Alignment explanation
Indices: 64897994--64898057 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 28
64897984 TCGGTCAGGG
*
64897994 TCGGTTAATAATTTTTTGAAAGTTCGGT
1 TCGGTTAATAATTTTTTGAAAGTTCGAT
** * *
64898022 TCGGTTAATTTTTTTTTTAAATTTCGAT
1 TCGGTTAATAATTTTTTGAAAGTTCGAT
*
64898050 TTGGTTAA
1 TCGGTTAA
64898058 CAGTTTAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.23, C:0.06, G:0.17, T:0.53
Consensus pattern (28 bp):
TCGGTTAATAATTTTTTGAAAGTTCGAT
Found at i:64903718 original size:30 final size:31
Alignment explanation
Indices: 64903684--64903743 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
64903674 AAAAATCCGA
*
64903684 AAGCTCTAACTA-AATTTTTAAAACTTTTGG
1 AAGCTCTAACTAGAAATTTTAAAACTTTTGG
* * *
64903714 AAGCTTTAATTAGAAATTTTAAAAGTTTTG
1 AAGCTCTAACTAGAAATTTTAAAACTTTTG
64903744 AAGGACCTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 10 0.40
31 15 0.60
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.42
Consensus pattern (31 bp):
AAGCTCTAACTAGAAATTTTAAAACTTTTGG
Found at i:64906064 original size:25 final size:24
Alignment explanation
Indices: 64906026--64906075 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 24
64906016 GGTCCACGTG
*
64906026 TATTAATAATTATATATTTTTATAA
1 TATTAATAAATATAT-TTTTTATAA
*
64906051 TATTAATAAATATATTTTTTTTAA
1 TATTAATAAATATATTTTTTATAA
64906075 T
1 T
64906076 TTTTTTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
TATTAATAAATATATTTTTTATAA
Found at i:64911546 original size:27 final size:24
Alignment explanation
Indices: 64911486--64911548 Score: 63
Period size: 27 Copynumber: 2.4 Consensus size: 24
64911476 TATCGATAAT
64911486 TATATTAAAAGTTTGTAAAAATTA
1 TATATTAAAAGTTTGTAAAAATTA
*
64911510 TATCAGATTAAAATTTCATGTATAAAATTA
1 TAT---ATTAAAAGTT--TGTA-AAAATTA
64911540 TATATTAAA
1 TATATTAAA
64911549 TTAAAATTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
24 3 0.09
27 15 0.47
29 4 0.12
30 10 0.31
ACGTcount: A:0.49, C:0.03, G:0.06, T:0.41
Consensus pattern (24 bp):
TATATTAAAAGTTTGTAAAAATTA
Found at i:64911572 original size:19 final size:19
Alignment explanation
Indices: 64911530--64911574 Score: 58
Period size: 17 Copynumber: 2.4 Consensus size: 19
64911520 AAATTTCATG
*
64911530 TATAAAATTATATATTAAA
1 TATAAAATTATATATAAAA
64911549 T-TAAAATT-TATATAAAA
1 TATAAAATTATATATAAAA
64911566 TTATAAAAT
1 -TATAAAAT
64911575 AATGAGAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 8 0.35
18 8 0.35
19 7 0.30
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TATAAAATTATATATAAAA
Found at i:64918398 original size:31 final size:31
Alignment explanation
Indices: 64918363--64918427 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
64918353 AATAGCTCAA
* *
64918363 TGACTTAGATAAAAACTTTTGTATAGTTTAG
1 TGACTTAAATAAAAACTTTTGAATAGTTTAG
* *
64918394 TGACTTAAATGAAAACTTTTGAATGGTTTAG
1 TGACTTAAATAAAAACTTTTGAATAGTTTAG
64918425 TGA
1 TGA
64918428 TCAAGTTGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.35, C:0.06, G:0.18, T:0.40
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTTGAATAGTTTAG
Found at i:64923305 original size:38 final size:40
Alignment explanation
Indices: 64923220--64923321 Score: 109
Period size: 38 Copynumber: 2.5 Consensus size: 40
64923210 TTTTTAACAC
* * ** *
64923220 ATTAAAAATTATTTATATTAAAAAAACACTATCTTAAATAT
1 ATTAAATATTTTTTATATT-AAAAAACACTATAATAAAAAT
*
64923261 AATAAATATTTTTTATATTAAAAAACA-TA-AATAAAAAT
1 ATTAAATATTTTTTATATTAAAAAACACTATAATAAAAAT
*
64923299 ATTAAATATTTTATTGTATTAAA
1 ATTAAATATTTT-TTATATTAAA
64923322 TATAAATTTT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
38 17 0.33
39 11 0.21
40 8 0.15
41 16 0.31
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (40 bp):
ATTAAATATTTTTTATATTAAAAAACACTATAATAAAAAT
Found at i:64934283 original size:51 final size:51
Alignment explanation
Indices: 64934218--64934325 Score: 139
Period size: 51 Copynumber: 2.1 Consensus size: 51
64934208 TGTGCAAATG
* * *
64934218 TTGACAGAATATGTAAATGTTGTAGGTT-AATTTCGTTAAATC-GTGATTAAA
1 TTGACAGAACATGTAAATGTTATAGGTTAAATTT-GTTAAATCAATG-TTAAA
* *
64934269 TTGACAGAACATGTAAGTGTTATGGGTTAAATTTGTTAAATCAATGTTAAA
1 TTGACAGAACATGTAAATGTTATAGGTTAAATTTGTTAAATCAATGTTAAA
64934320 TTGACA
1 TTGACA
64934326 AGAAGTATAA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
51 43 0.86
52 7 0.14
ACGTcount: A:0.36, C:0.06, G:0.19, T:0.38
Consensus pattern (51 bp):
TTGACAGAACATGTAAATGTTATAGGTTAAATTTGTTAAATCAATGTTAAA
Found at i:64935488 original size:15 final size:16
Alignment explanation
Indices: 64935463--64935501 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
64935453 ATATATTATA
64935463 TTCTTTCAAATTA-CTT
1 TTCTTT-AAATTATCTT
*
64935479 TTCTTTAAATTATTTT
1 TTCTTTAAATTATCTT
64935495 TTCTTTA
1 TTCTTTA
64935502 TTTTAATTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.23, C:0.13, G:0.00, T:0.64
Consensus pattern (16 bp):
TTCTTTAAATTATCTT
Found at i:64938029 original size:216 final size:217
Alignment explanation
Indices: 64937590--64938637 Score: 1597
Period size: 216 Copynumber: 4.9 Consensus size: 217
64937580 CTGTGAGCCT
*
64937590 TGAGATAAAACCCGAAGCAGAATTGAGACACATC-A-GTATATATCCATTTGTATATCTCAATAT
1 TGAGATAAAACCCGAAGCAGAATTGAGACACATCAATATATATATCCATTTGTATATCTC-A-AT
* ** *
64937653 ATATATATAACATACGCCTGTCTAGTTAGAATATTTGGACAAGTTGTCGGCCACCTTATCTGTAA
64 ATATATAT-ACATACGCATGTCTAGTTAGAATATTTGGACAAGTTGTCATCTACCTTATCTGTAA
* *
64937718 AATGTGATCATTTTGGCAAATATTCCATATTTAAGAACTTTCCTGGAAAA-TTTCTGAAACTATG
128 AATGTGATCATTTTAGCAAATATTCCAT-CTTAAGAACTTTCCTGGAAAATTTTCTGAAACTATG
*
64937782 ACCCATCAAGGCTCTTGGCAGAATCG
192 ACCCATCAAGGCTCTTAGCAGAATCG
*
64937808 TGAGATAAAACCTGAAGCAGAATTGAGACACATCAATATATATATCCATTTGTATATCTCAATAT
1 TGAGATAAAACCCGAAGCAGAATTGAGACACATCAATATATATATCCATTTGTATATCTCAATAT
* * * *
64937873 ATATATACAGACGCATGTGTAGTTAGAATATTTGGACAAGTTGTCCTCTACCTTTTCTGTAAAAT
66 ATATATACATACGCATGTCTAGTTAGAATATTTGGACAAGTTGTCATCTACCTTATCTGTAAAAT
* *
64937938 GTGATCATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGGAAATTTTTCT-TAACTATGACCC
131 GTGATCATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGGAAAATTTTCTGAAACTATGACCC
*
64938002 ATCAAGGCTCTTAGCAGAATGG
196 ATCAAGGCTCTTAGCAGAATCG
* * * *
64938024 TGAGATAAAACCCGAAGCAGAATTGCGACACTTC-A-ATATGTATCCAATTGTATATCTCAATAT
1 TGAGATAAAACCCGAAGCAGAATTGAGACACATCAATATATATATCCATTTGTATATCTC-A-AT
* *
64938087 ATATATATACATAGGCATGTCTAGTTAGACTATTTGGACAAGTTGTCATCTACCTTATCTGTAAA
64 ATATATATACATACGCATGTCTAGTTAGAATATTTGGACAAGTTGTCATCTACCTTATCTGTAAA
*
64938152 ATGTGATTATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGGAAAATTTTCTGAAACTATGAC
129 ATGTGATCATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGGAAAATTTTCTGAAACTATGAC
* *
64938217 CCATCAAGACTCTTAGCAGAGTCG
194 CCATCAAGGCTCTTAGCAGAATCG
* *
64938241 TGAGATAGAACCCGAAGCAGAGTTGAGACACATCAATATATATATCCATTTG------T---TAT
1 TGAGATAAAACCCGAAGCAGAATTGAGACACATCAATATATATATCCATTTGTATATCTCAATAT
*
64938297 ATATATACATACGCATGTCTAGTTAGAATATTTGGTCAAGTTGTCATCTACCTTATCTGTAAAAT
66 ATATATACATACGCATGTCTAGTTAGAATATTTGGACAAGTTGTCATCTACCTTATCTGTAAAAT
*
64938362 GTGATCATTTTAGCAAATATTCCATCTTAAGAACTTTGCTGGAAAATTTTCTGAAACTATGACCC
131 GTGATCATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGGAAAATTTTCTGAAACTATGACCC
*
64938427 ATCAAGGCTCTTAGCAGAGTCG
196 ATCAAGGCTCTTAGCAGAATCG
* *
64938449 TGAGATAAAACCCAAAGCAGAATTGAGCCACATCAATATATATATATCCATTTGTATATCTCAAT
1 TGAGATAAAACCCGAAGCAGAATTGAGACACATC-A-ATATATATATCCATTTGTATATCTCAAT
* *
64938514 ATATATATACATACGCGTGTCTAGTTAGAAT-TTTGGACAAGTTGTCATCAACCTTATCTGTAAA
64 ATATATATACATACGCATGTCTAGTTAGAATATTTGGACAAGTTGTCATCTACCTTATCTGTAAA
*
64938578 ATGTGATCATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGGAAATTTTTCTGAAACT
129 ATGTGATCATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGGAAAATTTTCTGAAACT
64938638 TTTTTTTCCC
Statistics
Matches: 758, Mismatches: 53, Indels: 38
0.89 0.06 0.04
Matches are distributed among these distances:
208 179 0.24
209 1 0.00
210 17 0.02
213 1 0.00
214 21 0.03
215 2 0.00
216 195 0.26
217 141 0.19
218 133 0.18
219 46 0.06
220 22 0.03
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (217 bp):
TGAGATAAAACCCGAAGCAGAATTGAGACACATCAATATATATATCCATTTGTATATCTCAATAT
ATATATACATACGCATGTCTAGTTAGAATATTTGGACAAGTTGTCATCTACCTTATCTGTAAAAT
GTGATCATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGGAAAATTTTCTGAAACTATGACCC
ATCAAGGCTCTTAGCAGAATCG
Found at i:64938520 original size:14 final size:14
Alignment explanation
Indices: 64938480--64938522 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
64938470 ATTGAGCCAC
64938480 ATCAATATATATAT
1 ATCAATATATATAT
* * *
64938494 ATCCATTTGTATAT
1 ATCAATATATATAT
*
64938508 CTCAATATATATAT
1 ATCAATATATATAT
64938522 A
1 A
64938523 CATACGCGTG
Statistics
Matches: 21, Mismatches: 8, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.42, C:0.12, G:0.02, T:0.44
Consensus pattern (14 bp):
ATCAATATATATAT
Found at i:64939214 original size:37 final size:37
Alignment explanation
Indices: 64939173--64939248 Score: 127
Period size: 37 Copynumber: 2.1 Consensus size: 37
64939163 ACGGATTAAA
64939173 TTACTTCAAA-TTTTTTAGAGGATTCAATATGCTCAAT
1 TTACTT-AAATTTTTTTAGAGGATTCAATATGCTCAAT
*
64939210 TTACTTAAATTTTTTTAGAGGATTCAATATGTTCAAT
1 TTACTTAAATTTTTTTAGAGGATTCAATATGCTCAAT
64939247 TT
1 TT
64939249 TAAAATTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
36 3 0.08
37 34 0.92
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.47
Consensus pattern (37 bp):
TTACTTAAATTTTTTTAGAGGATTCAATATGCTCAAT
Found at i:64942126 original size:28 final size:28
Alignment explanation
Indices: 64942062--64942130 Score: 88
Period size: 28 Copynumber: 2.4 Consensus size: 28
64942052 GGTTTCAAGT
64942062 TCCTTAAAAGTTGAAGAAAAAAAATTTGG
1 TCCTTAAAAGTTG-AGAAAAAAAATTTGG
*
64942091 TCCCTAAAAGTTG-GTAAAAAAAATTTGG
1 TCCTTAAAAGTTGAG-AAAAAAAATTTGG
64942119 -CCTTTAAAAGTT
1 TCC-TTAAAAGTT
64942131 AAAAATAAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
27 3 0.08
28 21 0.58
29 12 0.33
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.30
Consensus pattern (28 bp):
TCCTTAAAAGTTGAGAAAAAAAATTTGG
Found at i:64943858 original size:95 final size:89
Alignment explanation
Indices: 64943693--64943886 Score: 255
Period size: 95 Copynumber: 2.1 Consensus size: 89
64943683 TAAATAATAA
* * **
64943693 AATTGCACATCCTATTTGATATTTTTGAGCAAAAGAAAAGAAAAGAATAATGAACTTGGATACAT
1 AATTGCACATCCTATATGATATTTTTGAGCAAAAAAAAAGAAAAGAATAATGAACTTAAATACAT
*
64943758 GGTATTAGAGCGACTTATGATTGC
66 GGTATTAGAGCGACCTATGATTGC
*
64943782 AATTGCACATCCTATATGATATTTTTTTAGCAAAAAAAAAAAAGAGAAAAGAATAAT-AACCTTA
1 AATTGCACATCCTATATGATA-TTTTTGAGC----AAAAAAAA-AGAAAAGAATAATGAA-CTTA
64943846 AATACATGGTATTAGAGCGACCTATGATTGC
59 AATACATGGTATTAGAGCGACCTATGATTGC
*
64943877 AATTCCACAT
1 AATTGCACAT
64943887 TGACTTCCCA
Statistics
Matches: 91, Mismatches: 7, Indels: 8
0.86 0.07 0.08
Matches are distributed among these distances:
89 20 0.22
90 8 0.09
94 9 0.10
95 54 0.59
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.29
Consensus pattern (89 bp):
AATTGCACATCCTATATGATATTTTTGAGCAAAAAAAAAGAAAAGAATAATGAACTTAAATACAT
GGTATTAGAGCGACCTATGATTGC
Found at i:64947835 original size:18 final size:17
Alignment explanation
Indices: 64947808--64947844 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
64947798 ATTTTTTATT
64947808 TTAAAAAATATTTAAAA
1 TTAAAAAATATTTAAAA
*
64947825 TTAATAAAATATTTATAA
1 TTAA-AAAATATTTAAAA
64947843 TT
1 TT
64947845 TTCAATATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TTAAAAAATATTTAAAA
Found at i:64947921 original size:13 final size:13
Alignment explanation
Indices: 64947903--64947936 Score: 52
Period size: 12 Copynumber: 2.6 Consensus size: 13
64947893 TAATAACTTA
64947903 TTATTTTAATAAT
1 TTATTTTAATAAT
64947916 TTA-TTTAATAAT
1 TTATTTTAATAAT
64947928 TTAATTTTA
1 TT-ATTTTA
64947937 TTTTAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 11 0.58
13 4 0.21
14 4 0.21
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTATTTTAATAAT
Found at i:64947952 original size:13 final size:14
Alignment explanation
Indices: 64947936--64947977 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
64947926 ATTTAATTTT
64947936 ATTTTAAAAATA-A
1 ATTTTAAAAATATA
*
64947949 ATTTGAAAAATAATA
1 ATTTTAAAAAT-ATA
64947964 ATTTTAAATAATAT
1 ATTTTAAA-AATAT
64947978 TCTTCATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 10 0.42
16 3 0.12
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (14 bp):
ATTTTAAAAATATA
Found at i:64951748 original size:22 final size:23
Alignment explanation
Indices: 64951700--64951749 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
64951690 TGAATTATCT
* * *
64951700 GTTTTTTTTTATATATTTTATTA
1 GTTTTCTTTTATATATTTAAATA
*
64951723 GTTTTCTTTT-TATATTTAAATG
1 GTTTTCTTTTATATATTTAAATA
64951745 GTTTT
1 GTTTT
64951750 GAATTTTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.20, C:0.02, G:0.08, T:0.70
Consensus pattern (23 bp):
GTTTTCTTTTATATATTTAAATA
Found at i:64953725 original size:16 final size:16
Alignment explanation
Indices: 64953703--64953771 Score: 111
Period size: 16 Copynumber: 4.2 Consensus size: 16
64953693 TTTGGTTCGC
64953703 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
64953719 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
64953735 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
*
64953752 TGTATTGGATTAGATG
1 TGTATTGGATTAGAGG
64953768 TGTA
1 TGTA
64953772 ATAGCTAATC
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
16 33 0.67
17 16 0.33
ACGTcount: A:0.25, C:0.01, G:0.36, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:64953749 original size:33 final size:32
Alignment explanation
Indices: 64953703--64953771 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
64953693 TTTGGTTCGC
64953703 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
* *
64953735 TGTATTGGGATTAGAGGTGTATTGGATTAGATG
1 TGTATT-GGATTAGAGGCGTATTGGATTAGAGG
64953768 TGTA
1 TGTA
64953772 ATAGCTAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 6 0.18
33 28 0.82
ACGTcount: A:0.25, C:0.01, G:0.36, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGCGTATTGGATTAGAGG
Found at i:64954127 original size:120 final size:120
Alignment explanation
Indices: 64953990--64955328 Score: 2506
Period size: 120 Copynumber: 11.2 Consensus size: 120
64953980 ATCATATTTA
64953990 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
*
64954055 TATTATTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
64954110 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
*
64954175 TATTATTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
64954230 AACATAATTATTATTAAATATATTTTAATT-AAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
*
64954294 TATTATTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
* *
64954349 AACATAATTATTATTAAATATAATTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
64954414 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
64954469 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
*
64954534 TATTCTTATATTAATTTACTGAAATCATAATATATGATATTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
64954589 AACATAATTATTATTAAATATATTTTAATT-AAA-ATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
64954652 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
* *
64954707 AACATAATTATTATTAAATATAATTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
64954772 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
64954827 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
*
64954892 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
64954947 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
* *
64955012 TGTTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
64955067 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
* *
64955132 TGTTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
64955187 AACATAATTATTATTAAATATATTTTAATT-AAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
* *
64955251 TGTTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
64955306 AACATAATTATCATTAAATATAT
1 AACATAATTATTATTAAATATAT
64955329 AACTTGAAAA
Statistics
Matches: 1202, Mismatches: 14, Indels: 7
0.98 0.01 0.01
Matches are distributed among these distances:
118 113 0.09
119 235 0.20
120 854 0.71
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:64954280 original size:17 final size:17
Alignment explanation
Indices: 64954247--64954280 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
64954237 TTATTATTAA
* *
64954247 ATATATTTTAATTAAAT
1 ATATAATTTAATGAAAT
64954264 ATATAATTTAATGAAAT
1 ATATAATTTAATGAAAT
64954281 TCTTAATAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
ATATAATTTAATGAAAT
Found at i:64954407 original size:17 final size:18
Alignment explanation
Indices: 64954366--64954400 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
64954356 TTATTATTAA
64954366 ATATAATTTAATTAAAAT
1 ATATAATTTAATTAAAAT
64954384 ATATAATTTAA-TAAAAT
1 ATATAATTTAATTAAAAT
64954401 TCTTAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATATAATTTAATTAAAAT
Found at i:64954765 original size:17 final size:18
Alignment explanation
Indices: 64954724--64954758 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
64954714 TTATTATTAA
64954724 ATATAATTTAATTAAAAT
1 ATATAATTTAATTAAAAT
64954742 ATATAATTTAA-TAAAAT
1 ATATAATTTAATTAAAAT
64954759 TCTTAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATATAATTTAATTAAAAT
Found at i:64955237 original size:17 final size:17
Alignment explanation
Indices: 64955204--64955237 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
64955194 TTATTATTAA
* *
64955204 ATATATTTTAATTAAAT
1 ATATAATTTAATGAAAT
64955221 ATATAATTTAATGAAAT
1 ATATAATTTAATGAAAT
64955238 TCTTAATAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
ATATAATTTAATGAAAT
Found at i:64955266 original size:38 final size:40
Alignment explanation
Indices: 64954022--64955275 Score: 233
Period size: 38 Copynumber: 31.5 Consensus size: 40
64954012 TTTTAATTAA
* * *
64954022 AATATATAATTTAATGAAATTCTTAATAATTAATATTATT
1 AATATATAATTTAATCAAATTCTTAATAATTAATGTTCTT
* * * *
64954062 -ATAT-TAATTTACTGAAA-TCATAAT-A-T-ATGATACTGT
1 AATATATAATTTAATCAAATTCTTAATAATTAATG-TTCT-T
* * * * * * *
64954098 AAAATATAAATTAA-CATAATTATTATTAAATATATTTTAATT
1 AATATATAATTTAATCA-AATTCTTAATAATTA-ATGTT-CTT
* * *
64954140 AAAATATATAATTTAATGAAATTCTTAATAATTAATATTATT
1 --AATATATAATTTAATCAAATTCTTAATAATTAATGTTCTT
* * * *
64954182 -ATAT-TAATTTACTGAAA-TCATAAT-A-T-ATGATACTGT
1 AATATATAATTTAATCAAATTCTTAATAATTAATG-TTCT-T
* * * * * * *
64954218 AAAATATAAATTAA-CATAATTATTATTAAATATATTTTAATT
1 AATATATAATTTAATCA-AATTCTTAATAATTA-ATGTT-CTT
* * *
64954260 AAATATATAATTTAATGAAATTCTTAATAATTAATATTATT
1 -AATATATAATTTAATCAAATTCTTAATAATTAATGTTCTT
* * * *
64954301 -ATAT-TAATTTACTGAAA-TCATAAT-A-T-ATGATACTGT
1 AATATATAATTTAATCAAATTCTTAATAATTAATG-TTCT-T
* * * * *
64954337 AAAATATAAATTAA-CATAATTATTATTAAATATAAT-TTAATT
1 AATATATAATTTAATCA-AATTCTTAAT-AAT-TAATGTT-CTT
* *
64954379 AAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTT
1 --AATATATAATTTAATCAAATTCTTAATAATTAATGTTCTT
* * * *
64954421 -ATAT-TAATTTACTGAAA-TCATAAT-A-T-ATGATACTGT
1 AATATATAATTTAATCAAATTCTTAATAATTAATG-TTCT-T
* * * * * * *
64954457 AAAATATAAATTAA-CATAATTATTATTAAATATATTTTAATT
1 AATATATAATTTAATCA-AATTCTTAATAATTA-ATGTT-CTT
* *
64954499 AAAATATATAATTTAATGAAATTCTTAATAATTAATATTCTT
1 --AATATATAATTTAATCAAATTCTTAATAATTAATGTTCTT
* * * * * *
64954541 -ATAT-TAATTTACTGAAA-TCATAAT-ATATGATATT-GT
1 AATATATAATTTAATCAAATTCTTAATAAT-TAATGTTCTT
* * * * * * *
64954577 AAAATATAAATTAA-CATAATTATTATTAAATATATTTTAATT
1 AATATATAATTTAATCA-AATTCTTAATAATTA-ATGTT-CTT
* * *
64954619 AAAATATAATTTAATGAAATTCTTAATAATTAATATTCTT
1 AATATATAATTTAATCAAATTCTTAATAATTAATGTTCTT
* * * *
64954659 -ATAT-TAATTTACTGAAA-TCATAAT-A-T-ATGATACTGT
1 AATATATAATTTAATCAAATTCTTAATAATTAATG-TTCT-T
* * * * *
64954695 AAAATATAAATTAA-CATAATTATTATTAAATATAAT-TTAATT
1 AATATATAATTTAATCA-AATTCTTAAT-AAT-TAATGTT-CTT
* *
64954737 AAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTT
1 --AATATATAATTTAATCAAATTCTTAATAATTAATGTTCTT
* * * *
64954779 -ATAT-TAATTTACTGAAA-TCATAAT-A-T-ATGATACTGT
1 AATATATAATTTAATCAAATTCTTAATAATTAATG-TTCT-T
* * * * * * *
64954815 AAAATATAAATTAA-CATAATTATTATTAAATATATTTTAATT
1 AATATATAATTTAATCA-AATTCTTAATAATTA-ATGTT-CTT
* *
64954857 AAAATATATAATTTAATGAAATTCTTAATAATTAATATTCTT
1 --AATATATAATTTAATCAAATTCTTAATAATTAATGTTCTT
* * *
64954899 -ATAT-TAATTTACTCAAA-TCATAAT-A-T-ATGATACTGT
1 AATATATAATTTAATCAAATTCTTAATAATTAATG-TTCT-T
* * * * * * *
64954935 AAAATATAAATTAA-CATAATTATTATTAAATATATTTTAATT
1 AATATATAATTTAATCA-AATTCTTAATAATTA-ATGTT-CTT
*
64954977 AAAATATATAATTTAATGAAATTCTTAATAATTAATGTTCTT
1 --AATATATAATTTAATCAAATTCTTAATAATTAATGTTCTT
* * *
64955019 -ATAT-TAATTTACTCAAA-TCATAAT-A-T-ATGATACTGT
1 AATATATAATTTAATCAAATTCTTAATAATTAATG-TTCT-T
* * * * * * *
64955055 AAAATATAAATTAA-CATAATTATTATTAAATATATTTTAATT
1 AATATATAATTTAATCA-AATTCTTAATAATTA-ATGTT-CTT
*
64955097 AAAATATATAATTTAATGAAATTCTTAATAATTAATGTTCTT
1 --AATATATAATTTAATCAAATTCTTAATAATTAATGTTCTT
* * *
64955139 -ATAT-TAATTTACTCAAA-TCATAAT-A-T-ATGATACTGT
1 AATATATAATTTAATCAAATTCTTAATAATTAATG-TTCT-T
* * * * * * *
64955175 AAAATATAAATTAA-CATAATTATTATTAAATATATTTTAATT
1 AATATATAATTTAATCA-AATTCTTAATAATTA-ATGTT-CTT
*
64955217 AAATATATAATTTAATGAAATTCTTAATAATTAATGTTCTT
1 -AATATATAATTTAATCAAATTCTTAATAATTAATGTTCTT
*
64955258 -ATAT-TAATTTACTCAAAT
1 AATATATAATTTAATCAAAT
64955276 CATAATATAT
Statistics
Matches: 858, Mismatches: 218, Indels: 278
0.63 0.16 0.21
Matches are distributed among these distances:
34 20 0.02
35 33 0.04
36 21 0.02
37 109 0.13
38 207 0.24
39 84 0.10
40 14 0.02
41 18 0.02
42 75 0.09
43 104 0.12
44 166 0.19
45 7 0.01
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (40 bp):
AATATATAATTTAATCAAATTCTTAATAATTAATGTTCTT
Found at i:64958903 original size:15 final size:15
Alignment explanation
Indices: 64958878--64958910 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
64958868 TACCCAATTA
64958878 CAACACCCAATA-CC
1 CAACACCCAATAGCC
64958892 CAACAGCCCAATAGCC
1 CAACA-CCCAATAGCC
64958908 CAA
1 CAA
64958911 AATCATCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 7 0.41
16 5 0.29
ACGTcount: A:0.42, C:0.45, G:0.06, T:0.06
Consensus pattern (15 bp):
CAACACCCAATAGCC
Found at i:64966699 original size:13 final size:13
Alignment explanation
Indices: 64966681--64966706 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
64966671 TTGTCCTAGT
64966681 GATTAAATTAAAA
1 GATTAAATTAAAA
64966694 GATTAAATTAAAA
1 GATTAAATTAAAA
64966707 ATAAGTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (13 bp):
GATTAAATTAAAA
Found at i:64967689 original size:28 final size:29
Alignment explanation
Indices: 64967658--64967713 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
64967648 TATTATTATT
*
64967658 TATATAAATATATAAATTA-ATTATAAAG
1 TATATAAATAAATAAATTACATTATAAAG
* * *
64967686 TATATTATTAAATTAATTACATTATAAA
1 TATATAAATAAATAAATTACATTATAAA
64967714 TATTATATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 15 0.65
29 8 0.35
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (29 bp):
TATATAAATAAATAAATTACATTATAAAG
Found at i:64967756 original size:11 final size:11
Alignment explanation
Indices: 64967734--64967785 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
64967724 TTATATATAA
64967734 AGAAAA-AAAC
1 AGAAAAGAAAC
64967744 AGAAAAGAAAC
1 AGAAAAGAAAC
* *
64967755 AGAATAGAAAG
1 AGAAAAGAAAC
64967766 A-ACAAAGAAAC
1 AGA-AAAGAAAC
*
64967777 AGAATAGAA
1 AGAAAAGAA
64967786 GAGACGAAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
10 7 0.21
11 26 0.76
12 1 0.03
ACGTcount: A:0.71, C:0.08, G:0.17, T:0.04
Consensus pattern (11 bp):
AGAAAAGAAAC
Found at i:64968494 original size:15 final size:15
Alignment explanation
Indices: 64968474--64968506 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
64968464 TAAGTATTAA
64968474 TATTAGTATTAGTAT
1 TATTAGTATTAGTAT
*
64968489 TATTAGTATTATTAT
1 TATTAGTATTAGTAT
64968504 TAT
1 TAT
64968507 GAGTGGGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (15 bp):
TATTAGTATTAGTAT
Found at i:64968686 original size:24 final size:24
Alignment explanation
Indices: 64968643--64968713 Score: 74
Period size: 24 Copynumber: 2.9 Consensus size: 24
64968633 AATGTTGAAT
*
64968643 TGTGAAATAATTATTG-ATTGAAAG
1 TGTGAAA-AATGATTGAATTGAAAG
64968667 -GTGGAAAAATGATTGAATTGAAAG
1 TGT-GAAAAATGATTGAATTGAAAG
*
64968691 TGTGAAAATTGTGATTGAATTGA
1 TGTGAAAA--ATGATTGAATTGA
64968714 GAATATATGT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
23 9 0.22
24 17 0.43
25 2 0.05
26 12 0.30
ACGTcount: A:0.41, C:0.00, G:0.25, T:0.34
Consensus pattern (24 bp):
TGTGAAAAATGATTGAATTGAAAG
Found at i:64974276 original size:20 final size:20
Alignment explanation
Indices: 64974223--64974272 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
64974213 TCTTAGATTT
*
64974223 TATATTATTATTTATATAAA
1 TATATTATTAATTATATAAA
* *
64974243 TATATAATTAATTATA-AAG
1 TATATTATTAATTATATAAA
64974262 TATATTATTAA
1 TATATTATTAA
64974273 ATTAATTACA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
TATATTATTAATTATATAAA
Found at i:64975071 original size:18 final size:18
Alignment explanation
Indices: 64975048--64975090 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
64975038 ATGTGAGGTA
64975048 AGTATTAATATTAGTATT
1 AGTATTAATATTAGTATT
*
64975066 AGTATTATTATTAGTATT
1 AGTATTAATATTAGTATT
*
64975084 ATTATTA
1 AGTATTA
64975091 TGAGTGGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.53
Consensus pattern (18 bp):
AGTATTAATATTAGTATT
Found at i:64975091 original size:6 final size:6
Alignment explanation
Indices: 64975048--64975090 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
64975038 ATGTGAGGTA
* * *
64975048 AGTATT AATATT AGTATT AGTATT ATTATT AGTATT ATTATT A
1 AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT A
64975091 TGAGTGGGAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.53
Consensus pattern (6 bp):
AGTATT
Found at i:64975275 original size:24 final size:25
Alignment explanation
Indices: 64975243--64975302 Score: 72
Period size: 24 Copynumber: 2.4 Consensus size: 25
64975233 CGGATTAATT
64975243 ATTG-ATTGAAAG-GTGGAAAAA-TG
1 ATTGAATTGAAAGTGT-GAAAAAGTG
64975266 ATTGAATTGAAAGTGTGAAAAAGTGTG
1 ATTGAATTGAAAGTGTGAAAAA--GTG
64975293 ATTGAATTGA
1 ATTGAATTGA
64975303 GAATATATGT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.12
24 14 0.44
25 2 0.06
27 12 0.38
ACGTcount: A:0.42, C:0.00, G:0.28, T:0.30
Consensus pattern (25 bp):
ATTGAATTGAAAGTGTGAAAAAGTG
Found at i:64975505 original size:37 final size:39
Alignment explanation
Indices: 64975446--64975541 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
64975436 CGGATAGATT
* * * *
64975446 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
64975483 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
64975522 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
64975542 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:64978759 original size:16 final size:16
Alignment explanation
Indices: 64978738--64978770 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
64978728 AATTATGAAA
*
64978738 ATGTAAAAATCTATGT
1 ATGTAAAAATATATGT
64978754 ATGTAAAAATATATGT
1 ATGTAAAAATATATGT
64978770 A
1 A
64978771 AAAATGTATG
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:0.48, C:0.03, G:0.12, T:0.36
Consensus pattern (16 bp):
ATGTAAAAATATATGT
Found at i:64978948 original size:15 final size:17
Alignment explanation
Indices: 64978927--64978964 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
64978917 TATACAAGGA
64978927 TATATAAA-TAAATAAG
1 TATATAAAGTAAATAAG
*
64978943 -ATATAAAGTATATAAG
1 TATATAAAGTAAATAAG
64978959 TATATA
1 TATATA
64978965 TTTATGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 7 0.37
16 7 0.37
17 5 0.26
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (17 bp):
TATATAAAGTAAATAAG
Found at i:64979294 original size:19 final size:19
Alignment explanation
Indices: 64979264--64979303 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
64979254 GTGTAAATGG
*
64979264 ATAAACAATAAAGGCAAATA
1 ATAAACAATAAAAGC-AATA
64979284 ATAAA-AATAAAAGCAATA
1 ATAAACAATAAAAGCAATA
64979302 AT
1 AT
64979304 GACAATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 8 0.42
20 5 0.26
ACGTcount: A:0.68, C:0.07, G:0.07, T:0.17
Consensus pattern (19 bp):
ATAAACAATAAAAGCAATA
Found at i:64979310 original size:18 final size:19
Alignment explanation
Indices: 64979267--64979311 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
64979257 TAAATGGATA
*
64979267 AACAATAAAGGCAAATAAT
1 AACAATAAAAGCAAATAAT
*
64979286 AAAAATAAAAGC-AATAAT
1 AACAATAAAAGCAAATAAT
*
64979304 GACAATAA
1 AACAATAA
64979312 TAATAATGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.67, C:0.09, G:0.09, T:0.16
Consensus pattern (19 bp):
AACAATAAAAGCAAATAAT
Found at i:64983758 original size:17 final size:16
Alignment explanation
Indices: 64983731--64983773 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
64983721 ATATAAGAAC
*
64983731 ATTTTATTATTAAATT
1 ATTTTAATATTAAATT
64983747 ATATTTAATATT-AATT
1 AT-TTTAATATTAAATT
64983763 ATTTTAA-ATTA
1 ATTTTAATATTA
64983774 TATAAATTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 3 0.12
15 5 0.21
16 8 0.33
17 8 0.33
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
ATTTTAATATTAAATT
Found at i:64983891 original size:91 final size:91
Alignment explanation
Indices: 64983736--64983982 Score: 458
Period size: 91 Copynumber: 2.7 Consensus size: 91
64983726 AGAACATTTT
*
64983736 ATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTA
1 ATTATTAAATTATATTTAATAATAATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTA
64983801 TCAAGAATTTTATGAAATTATATATC
66 TCAAGAATTTTATGAAATTATATATC
64983827 ATTATTAAATTATATTTAATAATAATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTA
1 ATTATTAAATTATATTTAATAATAATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTA
* *
64983892 TCATGAATTTTATGAAATTATATATT
66 TCAAGAATTTTATGAAATTATATATC
*
64983918 ATTATTAAATTATATTTAATAATAATTATTTTAAATTATACAAATTCATATAAGAAAATTTATTA
1 ATTATTAAATTATATTTAATAATAATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTA
64983983 GTTATAATAA
Statistics
Matches: 152, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 152 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (91 bp):
ATTATTAAATTATATTTAATAATAATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTA
TCAAGAATTTTATGAAATTATATATC
Found at i:64983922 original size:101 final size:91
Alignment explanation
Indices: 64983735--64984059 Score: 390
Period size: 91 Copynumber: 3.5 Consensus size: 91
64983725 AAGAACATTT
*
64983735 TATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAAGAAAATTTATT
1 TATTATTAAATTATATTTAATAATAATTATTTTAAATTATATAAATTCATATAAGAAAATTTATT
*
64983800 A-TCA-AGA-ATTTTATGAAATTATATA
66 AGTCATA-ATATTTTAT-TAATTATATA
64983825 TCATTATTAAATTATATTTAATAATAATTATTTTAAATTATATAAATTCATATAAGAAAATTTAT
1 T-ATTATTAAATTATATTTAATAATAATTATTTTAAATTATATAAATTCATATAAGAAAATTTAT
* *
64983890 TA-TCATGA-ATTTTATGAAATTATATA
65 TAGTCATAATATTTTAT-TAATTATATA
*
64983916 TTATTATTAAATTATATTTAATAATAATTATTTTAAATTATACAAATTCATATAAGAAAATTTAT
1 -TATTATTAAATTATATTTAATAATAATTATTTTAAATTATATAAATTCATATAAGAAAATTTAT
* *
64983981 TAGTTATAATAATTTTAAATTTTATTAAATCATA
65 TAGTCATAAT-ATTTT--A-TTAATT--AT-ATA
* * *
64984015 TATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATAT
1 TA--TT-ATTAAATTATATTTAATAATAATTATTTTAAATTATAT
64984060 TTTATAGTAT
Statistics
Matches: 209, Mismatches: 11, Indels: 19
0.87 0.05 0.08
Matches are distributed among these distances:
90 1 0.00
91 150 0.72
92 5 0.02
94 5 0.02
96 4 0.02
97 1 0.00
98 4 0.02
99 3 0.01
100 2 0.01
101 34 0.16
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (91 bp):
TATTATTAAATTATATTTAATAATAATTATTTTAAATTATATAAATTCATATAAGAAAATTTATT
AGTCATAATATTTTATTAATTATATA
Found at i:64983949 original size:47 final size:46
Alignment explanation
Indices: 64983736--64983957 Score: 157
Period size: 47 Copynumber: 4.9 Consensus size: 46
64983726 AGAACATTTT
*
64983736 ATTATTAAATTATATTTAATATTAATTA-TTT-TAAATTATATA-A
1 ATTATTAAATTATATTTAATAATAATTATTTTATAAATTATATATA
* * ** *
64983779 ATTCATATAAGA--AAATTT-ATTATCAAGAATTTTATGAAATTATATATC
1 ATT-AT-TAA-ATTATATTTAATAAT-AATTATTTTAT-AAATTATATATA
64983827 ATTATTAAATTATATTTAATAATAATTA-TTT-TAAATTATATA-A
1 ATTATTAAATTATATTTAATAATAATTATTTTATAAATTATATATA
* * * * *
64983870 ATTCATATAAGA--AAATTT-ATTATCATGAATTTTATGAAATTATATATT
1 ATT-AT-TAA-ATTATATTTAATAATAAT-TATTTTAT-AAATTATATATA
64983918 ATTATTAAATTATATTTAATAATAATTA-TTT-TAAATTATA
1 ATTATTAAATTATATTTAATAATAATTATTTTATAAATTATA
64983958 CAAATTCATA
Statistics
Matches: 137, Mismatches: 20, Indels: 43
0.69 0.10 0.22
Matches are distributed among these distances:
43 15 0.11
44 36 0.26
45 16 0.12
46 16 0.12
47 38 0.28
48 16 0.12
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (46 bp):
ATTATTAAATTATATTTAATAATAATTATTTTATAAATTATATATA
Found at i:64984119 original size:16 final size:15
Alignment explanation
Indices: 64984098--64984127 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
64984088 TAAATTCATA
64984098 TAAGAATTTTGATTAT
1 TAAGAATTTT-ATTAT
64984114 TAAGAATTTTATTA
1 TAAGAATTTTATTA
64984128 AATTATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (15 bp):
TAAGAATTTTATTAT
Found at i:64984153 original size:16 final size:16
Alignment explanation
Indices: 64984132--64984173 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
64984122 TTATTAAATT
*
64984132 ATATATTTTAATTATA
1 ATATATTTTAATAATA
64984148 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
64984163 AT-TATGTTTAA
1 ATATAT-TTTAA
64984174 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:64984158 original size:15 final size:15
Alignment explanation
Indices: 64984123--64984164 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
64984113 TTAAGAATTT
*
64984123 TATTAAATTAT-ATA
1 TATTTAATTATAATA
64984137 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
64984151 TATTTAATAATAAT
1 TATTTAATTATAAT
64984165 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:64984392 original size:40 final size:39
Alignment explanation
Indices: 64984297--64984397 Score: 132
Period size: 39 Copynumber: 2.6 Consensus size: 39
64984287 TTTTTCCATT
*
64984297 ATGCTATTACACCTCTATTCCATTCAACCAAACACAAAA
1 ATGCTATTACGCCTCTATTCCATTCAACCAAACACAAAA
* * *
64984336 ATGCTATTACGCCTCTATTCCATTCAACTAAACA-ATTGAT
1 ATGCTATTACGCCTCTATTCCATTCAACCAAACACA--AAA
*
64984376 TTGCTATTACGCCTCTATTCCA
1 ATGCTATTACGCCTCTATTCCA
64984398 ATACAACGAA
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
38 1 0.02
39 32 0.58
40 22 0.40
ACGTcount: A:0.33, C:0.29, G:0.06, T:0.33
Consensus pattern (39 bp):
ATGCTATTACGCCTCTATTCCATTCAACCAAACACAAAA
Found at i:64984905 original size:24 final size:23
Alignment explanation
Indices: 64984868--64984917 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 23
64984858 AATTTAAGAT
*
64984868 AAAATTTGAAATATGAAAAATAA
1 AAAATTTAAAATATGAAAAATAA
*
64984891 AAAATATTAAAATATTAAAAATAA
1 AAAAT-TTAAAATATGAAAAATAA
64984915 AAA
1 AAA
64984918 TACAAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (23 bp):
AAAATTTAAAATATGAAAAATAA
Found at i:64984932 original size:23 final size:24
Alignment explanation
Indices: 64984876--64984926 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
64984866 ATAAAATTTG
* **
64984876 AAATATGAAAAATAAAAAATATTA
1 AAATATTAAAAATAAAAAATACAA
64984900 AAATATTAAAAAT-AAAAATACAA
1 AAATATTAAAAATAAAAAATACAA
64984923 AAAT
1 AAAT
64984927 TATAAATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 12 0.50
24 12 0.50
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.24
Consensus pattern (24 bp):
AAATATTAAAAATAAAAAATACAA
Found at i:64985277 original size:11 final size:11
Alignment explanation
Indices: 64985263--64985305 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
64985253 AAATAACAAC
*
64985263 AAAACAATGAG
1 AAAACAATAAG
* *
64985274 AAAATAACAAG
1 AAAACAATAAG
*
64985285 AAAATAATAAG
1 AAAACAATAAG
64985296 AAAACAATAA
1 AAAACAATAA
64985306 TTTTCCTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.72, C:0.07, G:0.09, T:0.12
Consensus pattern (11 bp):
AAAACAATAAG
Found at i:64985278 original size:22 final size:22
Alignment explanation
Indices: 64985253--64985299 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
64985243 CATAATAATT
*
64985253 AAATAACAACAAAACAATGAGA
1 AAATAACAACAAAACAATAAGA
* *
64985275 AAATAACAAGAAAATAATAAGA
1 AAATAACAACAAAACAATAAGA
64985297 AAA
1 AAA
64985300 CAATAATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.72, C:0.09, G:0.09, T:0.11
Consensus pattern (22 bp):
AAATAACAACAAAACAATAAGA
Found at i:64996281 original size:30 final size:31
Alignment explanation
Indices: 64996228--64996313 Score: 97
Period size: 30 Copynumber: 2.8 Consensus size: 31
64996218 AGAAAAAGCA
* *
64996228 GTTTAATT-AAAGTTTTAAAAAATTTTGAGG
1 GTTTAATTGAAACTTTTAAAAAATTTAGAGG
* *
64996258 GTTTGA-TGAGAA-TTTTTAAAAATTTAGAGG
1 GTTTAATTGA-AACTTTTAAAAAATTTAGAGG
*
64996288 GTTTAATTGAAACTTTTCAAAAATTT
1 GTTTAATTGAAACTTTTAAAAAATTT
64996314 GAAAGGTATA
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
29 1 0.02
30 29 0.62
31 17 0.36
ACGTcount: A:0.38, C:0.02, G:0.16, T:0.43
Consensus pattern (31 bp):
GTTTAATTGAAACTTTTAAAAAATTTAGAGG
Found at i:64999799 original size:2 final size:2
Alignment explanation
Indices: 64999792--64999826 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
64999782 GGGGGAGGAG
64999792 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
64999827 GATCTTCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:65001832 original size:17 final size:18
Alignment explanation
Indices: 65001802--65001847 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
65001792 ATTTAAATTG
65001802 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCGTTTT
65001820 CGGTCGC-GTCGCG-TTT
1 CGGTCGCGGTCGCGTTTT
65001836 --GTCGCGGTCGCG
1 CGGTCGCGGTCGCG
65001848 GACATAACGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 3 0.11
17 6 0.22
18 7 0.26
ACGTcount: A:0.00, C:0.30, G:0.41, T:0.28
Consensus pattern (18 bp):
CGGTCGCGGTCGCGTTTT
Found at i:65003660 original size:14 final size:14
Alignment explanation
Indices: 65003622--65003664 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
65003612 TAAAATGTAC
65003622 AATATAATTAAA-T
1 AATATAATTAAATT
65003635 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
65003650 AA-ATAATTTAATT
1 AATATAATTAAATT
65003663 AA
1 AA
65003665 CTGTTTACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:65006146 original size:3 final size:3
Alignment explanation
Indices: 65006138--65006246 Score: 83
Period size: 3 Copynumber: 36.0 Consensus size: 3
65006128 GTAAAAAATT
* **
65006138 TAA TAA TAA TAA TAC TGG TAA TAA TAAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
* * * * * * * ** *
65006184 TAA TAA TAA TAA TCA TGA TGA TGA TGA TGA TGA TGG TAT TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
65006232 TAA TAA CAA TAA TAA
1 TAA TAA TAA TAA TAA
65006247 AAATCTTAAA
Statistics
Matches: 92, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
3 89 0.97
4 3 0.03
ACGTcount: A:0.55, C:0.03, G:0.09, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:65008030 original size:16 final size:15
Alignment explanation
Indices: 65007989--65008042 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 15
65007979 AATAAAATTT
65007989 TATTTTTA-TTTA-A
1 TATTTTTATTTTATA
65008002 TATTTATTAATTTTATA
1 TATTT-TT-ATTTTATA
65008019 TACTTTTTATTTTATA
1 TA-TTTTTATTTTATA
*
65008035 AATTTTTA
1 TATTTTTA
65008043 AACATAAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
13 5 0.14
14 2 0.06
15 7 0.20
16 13 0.37
17 5 0.14
18 3 0.09
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (15 bp):
TATTTTTATTTTATA
Found at i:65016613 original size:3 final size:3
Alignment explanation
Indices: 65016605--65016641 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
65016595 TCAGAAATTC
65016605 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
65016642 AATCAACAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:65017440 original size:28 final size:27
Alignment explanation
Indices: 65017400--65017470 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 27
65017390 ATGTAGTAAG
65017400 AAATATTTTATAATTTTCCTATATTTCT
1 AAATATTTTATAATTTTCCTA-ATTTCT
* * *
65017428 ATATATTTTATAATTTTTCTAATTTTT
1 AAATATTTTATAATTTTCCTAATTTCT
65017455 AAAT-TTTTATAATTTT
1 AAATATTTTATAATTTT
65017471 TTATTAAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 12 0.31
27 8 0.21
28 19 0.49
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (27 bp):
AAATATTTTATAATTTTCCTAATTTCT
Found at i:65017445 original size:9 final size:9
Alignment explanation
Indices: 65017405--65017526 Score: 85
Period size: 9 Copynumber: 13.4 Consensus size: 9
65017395 GTAAGAAATA
65017405 TTTTATAAT
1 TTTTATAAT
65017414 TTTCCTAT-AT
1 TTT--TATAAT
*
65017424 TTCTAT-AT
1 TTTTATAAT
65017432 ATTTTATAAT
1 -TTTTATAAT
*
65017442 TTTTCTAAT
1 TTTTATAAT
65017451 TTTTA-AAT
1 TTTTATAAT
65017459 TTTTATAATT
1 TTTTATAA-T
65017469 TTTTATTAAAAT
1 TTTTA-T--AAT
*
65017481 TTTAATAA-
1 TTTTATAAT
*
65017489 TTTTATAAC
1 TTTTATAAT
*
65017498 TTTTATTAT
1 TTTTATAAT
65017507 TTTTAT--T
1 TTTTATAAT
*
65017514 TTTTATCAT
1 TTTTATAAT
65017523 TTTT
1 TTTT
65017527 GCCACATGTC
Statistics
Matches: 93, Mismatches: 8, Indels: 24
0.74 0.06 0.19
Matches are distributed among these distances:
7 7 0.08
8 20 0.22
9 42 0.45
10 12 0.13
11 5 0.05
12 5 0.05
13 2 0.02
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (9 bp):
TTTTATAAT
Found at i:65017452 original size:17 final size:17
Alignment explanation
Indices: 65017400--65017471 Score: 65
Period size: 17 Copynumber: 4.0 Consensus size: 17
65017390 ATGTAGTAAG
65017400 AAATATTTTATAATTTTCCT
1 AAAT-TTTTATAATTTT--T
* *
65017420 ATATTTCTAT-ATATTTT
1 AAATTTTTATAAT-TTTT
*
65017437 ATAATTTTTCTAATTTTT
1 A-AATTTTTATAATTTTT
65017455 AAATTTTTATAATTTTT
1 AAATTTTTATAATTTTT
65017472 TATTAAAATT
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
17 17 0.40
18 13 0.30
19 10 0.23
20 3 0.07
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (17 bp):
AAATTTTTATAATTTTT
Found at i:65030520 original size:21 final size:21
Alignment explanation
Indices: 65030496--65030535 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
65030486 ATAGAGGTGT
*
65030496 TACATTAAAAT-TTATATTTAA
1 TACAATAAAATATT-TATTTAA
65030517 TACAATAAAATATTTATTT
1 TACAATAAAATATTTATTT
65030536 GTATTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (21 bp):
TACAATAAAATATTTATTTAA
Found at i:65031040 original size:16 final size:16
Alignment explanation
Indices: 65031019--65031052 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
65031009 GAGTAAACGT
65031019 GGAAGAAAG-GAAGAAG
1 GGAAGAAAGTG-AGAAG
65031035 GGAAGAAAGTGAGAAG
1 GGAAGAAAGTGAGAAG
65031051 GG
1 GG
65031053 GCAAAGGTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 16 0.94
17 1 0.06
ACGTcount: A:0.50, C:0.00, G:0.47, T:0.03
Consensus pattern (16 bp):
GGAAGAAAGTGAGAAG
Found at i:65040812 original size:221 final size:220
Alignment explanation
Indices: 65040430--65040873 Score: 789
Period size: 221 Copynumber: 2.0 Consensus size: 220
65040420 GACTTACAAG
*
65040430 AATCCTCCATGCTTTTTGGTTTCTCTATAAGCTTTAGAAGCCAATTTTACCCTTCAATTGTATCA
1 AATCCTCCATGCTTTTTGGTTTCTCTATAAGCTTTAGAAGCCAAATTTACCCTTCAATTGTATCA
*
65040495 TTTTCGTGGGAGGTTTTGAACTTCTATAAAATAGCTCTCGGGCAATTATTTGGAACCTTTTGGTG
66 TTTTCGTGGGAGGTTTTGAACTTCTATAAAATAGCTCTCGGGCAATTATTTGGAACCTCTTGGTG
*
65040560 GTTGTTACACCCACGATGTGGGTGAAAGAAAATATTTTATATACTTTTTAAAAAGAAATTAATGA
131 GTTGTTACACCCACGATGTGGATGAAAGAAAATATTTTATATACTTTTTAAAAAGAAATTAATGA
65040625 TGATCAATGGTGGAGTGGTAAAAAA
196 TGATCAATGGTGGAGTGGTAAAAAA
*
65040650 AATCCTCCATGCTTTTTGGTTTCTCTATAAGCTTTAGAAGCCAAATTTACCCTTCCATTGTATCA
1 AATCCTCCATGCTTTTTGGTTTCTCTATAAGCTTTAGAAGCCAAATTTACCCTTCAATTGTATCA
* *
65040715 TTTTGCGTGGGAGGTTTTGAACTTCTATAGAATAGCTCTCGGGCAATTCTTTGGAACCTCTTGGT
66 TTTT-CGTGGGAGGTTTTGAACTTCTATAAAATAGCTCTCGGGCAATTATTTGGAACCTCTTGGT
* * *
65040780 GGTTGTTACACCTACTATGTGGATGAAAGAAAATATTTTATATACTTTTTAAAATGAAATTAATG
130 GGTTGTTACACCCACGATGTGGATGAAAGAAAATATTTTATATACTTTTTAAAAAGAAATTAATG
*
65040845 ATGATCAATGGTGGAGTGGTATAAAA
195 ATGATCAATGGTGGAGTGGTAAAAAA
65040871 AAT
1 AAT
65040874 TGTGCTTAAA
Statistics
Matches: 213, Mismatches: 10, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
220 67 0.31
221 146 0.69
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (220 bp):
AATCCTCCATGCTTTTTGGTTTCTCTATAAGCTTTAGAAGCCAAATTTACCCTTCAATTGTATCA
TTTTCGTGGGAGGTTTTGAACTTCTATAAAATAGCTCTCGGGCAATTATTTGGAACCTCTTGGTG
GTTGTTACACCCACGATGTGGATGAAAGAAAATATTTTATATACTTTTTAAAAAGAAATTAATGA
TGATCAATGGTGGAGTGGTAAAAAA
Found at i:65041002 original size:6 final size:6
Alignment explanation
Indices: 65040991--65041034 Score: 88
Period size: 6 Copynumber: 7.3 Consensus size: 6
65040981 CAAAAGTTTT
65040991 ATATAG ATATAG ATATAG ATATAG ATATAG ATATAG ATATAG AT
1 ATATAG ATATAG ATATAG ATATAG ATATAG ATATAG ATATAG AT
65041035 GCAAATTAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.16, T:0.34
Consensus pattern (6 bp):
ATATAG
Found at i:65042074 original size:21 final size:19
Alignment explanation
Indices: 65042031--65042078 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 19
65042021 TATTTAAAGG
* *
65042031 ATTTAAAATAAATATAAAT
1 ATTTAAAATAAAAATAAAA
65042050 ATTTAAAACTAAACAATAAAA
1 ATTTAAAA-TAAA-AATAAAA
65042071 ATTTAAAA
1 ATTTAAAA
65042079 GTTGAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 8 0.32
20 4 0.16
21 13 0.52
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (19 bp):
ATTTAAAATAAAAATAAAA
Done.