Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr3
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: 26558743
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1281270 characters in sequence are not A, C, G, or T
File 39 of 79
Found at i:12864364 original size:55 final size:55
Alignment explanation
Indices: 12864269--12864378 Score: 184
Period size: 55 Copynumber: 2.0 Consensus size: 55
12864259 GTATTCATTG
* * * *
12864269 GATGATAAATCATCACTTTTAATTTGATTATTGCTTATGAATAATTAATTTGCAA
1 GATGATAAATCATCACTTTTAACTTGAATAGTGCTCATGAATAATTAATTTGCAA
12864324 GATGATAAATCATCACTTTTAACTTGAATAGTGCTCATGAATAATTAATTTGCAA
1 GATGATAAATCATCACTTTTAACTTGAATAGTGCTCATGAATAATTAATTTGCAA
12864379 TCTATAATTC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.37, C:0.11, G:0.12, T:0.40
Consensus pattern (55 bp):
GATGATAAATCATCACTTTTAACTTGAATAGTGCTCATGAATAATTAATTTGCAA
Found at i:12869019 original size:23 final size:21
Alignment explanation
Indices: 12868983--12869031 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 21
12868973 ATAAATAAAA
12868983 TAAAATAAATATATTAAATA-T
1 TAAAATAAATATA-TAAATATT
12869004 TAAAATAAAATGATATAAATATT
1 TAAAAT-AAAT-ATATAAATATT
12869027 TAAAA
1 TAAAA
12869032 AGAAGAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.24
22 10 0.40
23 9 0.36
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (21 bp):
TAAAATAAATATATAAATATT
Found at i:12869022 original size:22 final size:22
Alignment explanation
Indices: 12868983--12869031 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 22
12868973 ATAAATAAAA
12868983 TAAAATAAATATATTAAATA-T
1 TAAAATAAATATATTAAATATT
12869004 TAAAATAAA-ATGATATAAATATT
1 TAAAATAAATAT-AT-TAAATATT
12869027 TAAAA
1 TAAAA
12869032 AGAAGAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 2 0.08
21 11 0.44
22 6 0.24
23 6 0.24
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (22 bp):
TAAAATAAATATATTAAATATT
Found at i:12879741 original size:27 final size:30
Alignment explanation
Indices: 12879706--12879786 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 30
12879696 ATTCATAGAA
* *
12879706 TAAAAATATAAATTACTATCATATAATAAT
1 TAAATATATAAAATACTATCATATAATAAT
*
12879736 T-TATATATAAAATA-TAT-ATATAATAA-
1 TAAATATATAAAATACTATCATATAATAAT
*
12879762 T-AATGTATGAAAATACTATCATATA
1 TAAATATAT-AAAATACTATCATATA
12879787 TTTCTTTAGA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
26 6 0.14
27 15 0.35
28 6 0.14
29 15 0.35
30 1 0.02
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.38
Consensus pattern (30 bp):
TAAATATATAAAATACTATCATATAATAAT
Found at i:12879983 original size:24 final size:24
Alignment explanation
Indices: 12879930--12879994 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 24
12879920 CTAAATAATG
* *
12879930 ATATGATAAGTTTAAAATTATTGT
1 ATATGATAAATTTTAAATTATTGT
*
12879954 ACATGATAAATTTTAAATTA-TGAT
1 ATATGATAAATTTTAAATTATTG-T
*
12879978 ATATGATAGA-TTTAAAT
1 ATATGATAAATTTTAAAT
12879995 AGTACTTATG
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
23 9 0.26
24 26 0.74
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.43
Consensus pattern (24 bp):
ATATGATAAATTTTAAATTATTGT
Found at i:12880016 original size:22 final size:22
Alignment explanation
Indices: 12879979--12880059 Score: 78
Period size: 22 Copynumber: 3.7 Consensus size: 22
12879969 AATTATGATA
*
12879979 TATGATAGATTT-AAATAGTACT
1 TATGATA-ATTTAAAATAATACT
*
12880001 TATGATAATTTAAAATAATAGT
1 TATGATAATTTAAAATAATACT
*
12880023 ATATGAT-A-TTAAAATAAAACT
1 -TATGATAATTTAAAATAATACT
*
12880044 AATGATAAATTTAAAA
1 TATGAT-AATTTAAAA
12880060 CAATGTTAAG
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
20 5 0.10
21 15 0.31
22 17 0.35
23 12 0.24
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.37
Consensus pattern (22 bp):
TATGATAATTTAAAATAATACT
Found at i:12881065 original size:13 final size:14
Alignment explanation
Indices: 12881048--12881083 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
12881038 TTTTTCTCTG
12881048 CTCTTTTTTTATTT
1 CTCTTTTTTTATTT
*
12881062 -TCTTTTTCTATTT
1 CTCTTTTTTTATTT
12881075 CTCTTTTTT
1 CTCTTTTTT
12881084 GTTTGTTATC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.78
Consensus pattern (14 bp):
CTCTTTTTTTATTT
Found at i:12882038 original size:117 final size:117
Alignment explanation
Indices: 12881826--12882041 Score: 360
Period size: 117 Copynumber: 1.8 Consensus size: 117
12881816 GGGGGATAAG
* ** * *
12881826 ATTAGTGGCTTCAATATACTCCACTGTAACCTGAGGGAGGTAAAATCTGCCACCTTCGATCTACT
1 ATTACTGGCTTCAATATACTCCACTGTAACCACAGGGAAGTAAAATCCGCCACCTTCGATCTACT
*
12881891 CCACTACTGCTTAGGGAGATAAGATTTGTAATCTGCTGACTAGGGAGGTAGA
66 CCACTACTGCTTAGGGAGATAAGATCTGTAATCTGCTGACTAGGGAGGTAGA
* *
12881943 ATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAAGTAAAATCCGCCATCTTCGATCTACT
1 ATTACTGGCTTCAATATACTCCACTGTAACCACAGGGAAGTAAAATCCGCCACCTTCGATCTACT
12882008 CCACTACTGCTTAGGGAGATAAGATCTGTAATCT
66 CCACTACTGCTTAGGGAGATAAGATCTGTAATCT
12882042 TCAATCTATT
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
117 91 1.00
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (117 bp):
ATTACTGGCTTCAATATACTCCACTGTAACCACAGGGAAGTAAAATCCGCCACCTTCGATCTACT
CCACTACTGCTTAGGGAGATAAGATCTGTAATCTGCTGACTAGGGAGGTAGA
Found at i:12882287 original size:87 final size:87
Alignment explanation
Indices: 12882170--12882554 Score: 218
Period size: 87 Copynumber: 4.4 Consensus size: 87
12882160 AAGATCTGTA
* * * *
12882170 ATCTTTAATCTATTCCACTGCTGCCCAGGGAGATAGAAT-TACTGGCTTCAATGTACTCCACT-T
1 ATCTTCAATCTACTCCACTACTGCCCAGGGAGATAGAATCTACTGGCTTCAATCTACTCCACTGT
*
12882233 AACCACAGGGAGTTAAAATCTGCC
66 -ACCACAGGGAGATAAAAT-TGCC
* ** * * *
12882257 ATCTTCGATCTACTCCACTACTGCTTAGGGAGATA-AGATCTGTAAT--CTTTAATCTATTCCAC
1 ATCTTCAATCTACTCCACTACTGCCCAGGGAGATAGA-ATC--TACTGGCTTCAATCTACTCCAC
* * * *
12882319 TGCTGCC-CAGGGAGATAGAATTACT
63 TG-TACCACAGGGAGATAAAATTGCC
** * * * * * *** *
12882344 GGCTTCAATGTACTCCACTTAAC--CACAGGGAGTTAAAATCTGCCATCTTCGATCTACTCCAC-
1 ATCTTCAATCTACTCCAC-T-ACTGCCCAGGGAGATAGAATCTACTGGCTTCAATCTACTCCACT
* * *
12882406 -TACTACTTAGGGAGATAAGATCTG-T
64 GTACCAC--AGGGAGATAAAAT-TGCC
* * * * *
12882431 ATTCTTTAATCTATTCCACTGCTGCCCAGGGAGATAGAAT-TACTGGCTTCAATGTACGCCACTG
1 A-TCTTCAATCTACTCCACTACTGCCCAGGGAGATAGAATCTACTGGCTTCAATCTACTCCACTG
*
12882495 TAACCACAGGGAGGTAAAATTCGCC
65 T-ACCACAGGGAGATAAAATT-GCC
* **
12882520 ATCTTCGATCTACTCCACTACTGCTTAGGGAGATA
1 ATCTTCAATCTACTCCACTACTGCCCAGGGAGATA
12882555 AGATCTGTAA
Statistics
Matches: 216, Mismatches: 59, Indels: 45
0.68 0.18 0.14
Matches are distributed among these distances:
84 2 0.01
85 2 0.01
86 2 0.01
87 101 0.47
88 95 0.44
89 6 0.03
90 8 0.04
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (87 bp):
ATCTTCAATCTACTCCACTACTGCCCAGGGAGATAGAATCTACTGGCTTCAATCTACTCCACTGT
ACCACAGGGAGATAAAATTGCC
Found at i:12882306 original size:131 final size:132
Alignment explanation
Indices: 12881923--12882664 Score: 1233
Period size: 132 Copynumber: 5.6 Consensus size: 132
12881913 GATTTGTAAT
* * * *
12881923 CTGCTGACTAGGGAGGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAAGTAAAA
1 CTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAA
* *
12881988 TCCGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTC
66 TCTGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCTATTC
12882053 CA
131 CA
* * *
12882055 CTGTTGCCCAGGGA-AGTAGAATTACTGACTTCAATGTACTCCACTGTAACCACAAGGAGGTAAA
1 CTGCTGCCCAGGGAGA-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAA
* * **
12882119 ATCTGCCCTCTTTGATCTACTCCACTACTGCTTAAAGAGATAAGATCTGTAATCTTTAATCTATT
65 ATCTGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCTATT
12882184 CCA
130 CCA
*
12882187 CTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACT-TAACCACAGGGAGTTAAAA
1 CTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAA
12882251 TCTGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCTATTC
66 TCTGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCTATTC
12882316 CA
131 CA
*
12882318 CTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACT-TAACCACAGGGAGTTAAAA
1 CTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAA
* *
12882382 TCTGCCATCTTCGATCTACTCCACTACTACTTAGGGAGATAAGATCTGTATTCTTTAATCTATTC
66 TCTGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCTATTC
12882447 CA
131 CA
*
12882449 CTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACGCCACTGTAACCACAGGGAGGTAAAA
1 CTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAA
*
12882514 T-TCGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATT
66 TCT-GCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCTATT
12882578 CCA
130 CCA
*
12882581 CTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACGCCACTGTAACCACAGGGAGGT-AAA
1 CTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAA
**
12882645 TCCACCATCTTCGATCTACT
66 TCTGCCATCTTCGATCTACT
12882665 TCGCTGTCAA
Statistics
Matches: 575, Mismatches: 30, Indels: 11
0.93 0.05 0.02
Matches are distributed among these distances:
131 274 0.48
132 300 0.52
133 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.29
Consensus pattern (132 bp):
CTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAA
TCTGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCTATTC
CA
Found at i:12882501 original size:263 final size:263
Alignment explanation
Indices: 12881923--12882664 Score: 1233
Period size: 263 Copynumber: 2.8 Consensus size: 263
12881913 GATTTGTAAT
* * *
12881923 CTGCTGACTAGGGAGGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAAGTAAAA
1 CTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGG-AGTAAAA
*
12881988 TCCGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTC
65 TCTGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTC
* * *
12882053 CACTGTTGCCCAGGGA-AGTAGAATTACTGACTTCAATGTACTCCACTGTAACCACAAGGAGGTA
130 CACTGCTGCCCAGGGAGA-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTA
* * *
12882117 AAATCTGCCCTCTTTGATCTACTCCACTACTGCTTAAAGAGATAAGATCTGTAATCTTTAATCTA
194 AAATCTGCCATCTTCGATCTACTCCACTACTACTTAAAGAGATAAGATCTGTAATCTTTAATCTA
12882182 TTCCA
259 TTCCA
12882187 CTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACT-TAACCACAGGGAGTTAAAA
1 CTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAG-TAAAA
*
12882251 TCTGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCTATTC
65 TCTGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTC
*
12882316 CACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACT-TAACCACAGGGAGTTAA
130 CACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAA
** *
12882380 AATCTGCCATCTTCGATCTACTCCACTACTACTTAGGGAGATAAGATCTGTATTCTTTAATCTAT
195 AATCTGCCATCTTCGATCTACTCCACTACTACTTAAAGAGATAAGATCTGTAATCTTTAATCTAT
12882445 TCCA
260 TCCA
*
12882449 CTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACGCCACTGTAACCACAGGGAGGTAAAA
1 CTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGA-GTAAAA
12882514 T-TCGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATT
65 TCT-GCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATT
*
12882578 CCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACGCCACTGTAACCACAGGGAGGT-
129 CCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTA
**
12882642 AAATCCACCATCTTCGATCTACT
194 AAATCTGCCATCTTCGATCTACT
12882665 TCGCTGTCAA
Statistics
Matches: 451, Mismatches: 21, Indels: 13
0.93 0.04 0.03
Matches are distributed among these distances:
262 125 0.28
263 268 0.59
264 58 0.13
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.29
Consensus pattern (263 bp):
CTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGTAAAAT
CTGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCC
ACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAA
ATCTGCCATCTTCGATCTACTCCACTACTACTTAAAGAGATAAGATCTGTAATCTTTAATCTATT
CCA
Found at i:12883931 original size:42 final size:42
Alignment explanation
Indices: 12883872--12883954 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
12883862 CGATCCGATC
12883872 AAGATACAAGCTGCTCTAATCACTTCATGCCCCATTCTGATT
1 AAGATACAAGCTGCTCTAATCACTTCATGCCCCATTCTGATT
*
12883914 AAGATACAAGTTGCTCTAATCACTTCATGCCCCATTCTGAT
1 AAGATACAAGCTGCTCTAATCACTTCATGCCCCATTCTGAT
12883955 CAATATTTGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (42 bp):
AAGATACAAGCTGCTCTAATCACTTCATGCCCCATTCTGATT
Found at i:12884060 original size:7 final size:7
Alignment explanation
Indices: 12884041--12884090 Score: 50
Period size: 7 Copynumber: 7.0 Consensus size: 7
12884031 TTAGCCTCTC
12884041 CATTTTT
1 CATTTTT
12884048 -ACTTTTT
1 CA-TTTTT
12884055 CATTTTTT
1 CA-TTTTT
*
12884063 CACTTTT
1 CATTTTT
12884070 CA-TTTT
1 CATTTTT
12884076 CATTTTT
1 CATTTTT
12884083 CATCTTTT
1 CAT-TTTT
12884091 TTTTTTGCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
6 7 0.19
7 18 0.49
8 12 0.32
ACGTcount: A:0.14, C:0.18, G:0.00, T:0.68
Consensus pattern (7 bp):
CATTTTT
Found at i:12884075 original size:21 final size:21
Alignment explanation
Indices: 12884051--12884090 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
12884041 CATTTTTACT
12884051 TTTTCATTTTTTCA-CTTTTCA
1 TTTTCA-TTTTTCATCTTTTCA
12884072 TTTTCATTTTTCATCTTTT
1 TTTTCATTTTTCATCTTTT
12884091 TTTTTTGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.12, C:0.17, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTCATTTTTCATCTTTTCA
Found at i:12884096 original size:21 final size:21
Alignment explanation
Indices: 12884044--12884096 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
12884034 GCCTCTCCAT
12884044 TTTTACTTTTTCATTTTTTCAC
1 TTTT-CTTTTTCATTTTTTCAC
*
12884066 TTTTCATTTTCA-TTTTTCATC
1 TTTTCTTTTTCATTTTTTCA-C
*
12884087 TTTTTTTTTT
1 TTTTCTTTTT
12884097 GCAATTCATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 7 0.26
21 16 0.59
22 4 0.15
ACGTcount: A:0.11, C:0.15, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTTCTTTTTCATTTTTTCAC
Found at i:12889528 original size:24 final size:24
Alignment explanation
Indices: 12889450--12889530 Score: 71
Period size: 24 Copynumber: 3.5 Consensus size: 24
12889440 AAAGAAAATA
* *
12889450 ATATATGATAAA-TCTAAATAATG
1 ATATATGATAAATTTTAAATTATG
* *
12889473 --ATATGATAAGTTTAAAATTAT-
1 ATATATGATAAATTTTAAATTATG
* *
12889494 AGTACAGGATAAATTTTAAATTATG
1 A-TATATGATAAATTTTAAATTATG
12889519 ATATATGATAAA
1 ATATATGATAAA
12889531 CTTAAATAGT
Statistics
Matches: 43, Mismatches: 10, Indels: 9
0.69 0.16 0.15
Matches are distributed among these distances:
21 9 0.21
22 7 0.16
24 26 0.60
25 1 0.02
ACGTcount: A:0.49, C:0.02, G:0.11, T:0.37
Consensus pattern (24 bp):
ATATATGATAAATTTTAAATTATG
Found at i:12889559 original size:22 final size:22
Alignment explanation
Indices: 12889534--12889599 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 22
12889524 TGATAAACTT
12889534 AAATAGTACTTATGATAATTTA
1 AAATAGTACTTATGATAATTTA
12889556 AAATAGTA--TATGAT-A-TTA
1 AAATAGTACTTATGATAATTTA
** *
12889574 AAATAAAACTAATGATAAATTTA
1 AAATAGTACTTATGAT-AATTTA
12889597 AAA
1 AAA
12889600 CAATGTTAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
18 9 0.25
19 1 0.03
20 11 0.31
22 9 0.25
23 6 0.17
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.35
Consensus pattern (22 bp):
AAATAGTACTTATGATAATTTA
Found at i:12890607 original size:14 final size:15
Alignment explanation
Indices: 12890589--12890625 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
12890579 TTTTTCTCTG
12890589 CTCTTTTTTCTATTT
1 CTCTTTTTTCTATTT
*
12890604 -TC-TTTTTCTGTTT
1 CTCTTTTTTCTATTT
12890617 CTCTTTTTT
1 CTCTTTTTT
12890626 GTTTGCTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
13 10 0.53
14 4 0.21
15 5 0.26
ACGTcount: A:0.03, C:0.19, G:0.03, T:0.76
Consensus pattern (15 bp):
CTCTTTTTTCTATTT
Found at i:12892870 original size:7 final size:7
Alignment explanation
Indices: 12892860--12892905 Score: 51
Period size: 7 Copynumber: 6.4 Consensus size: 7
12892850 AAAAAAAGAG
12892860 ATGAAAA
1 ATGAAAA
12892867 ATG-AAA
1 ATGAAAA
12892873 ATGAAAA
1 ATGAAAA
12892880 ATGAAAAAA
1 ATG--AAAA
12892889 ATGAAAA
1 ATGAAAA
12892896 A-GTAAAA
1 ATG-AAAA
12892903 ATG
1 ATG
12892906 GAGAGGCTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
6 7 0.21
7 19 0.56
8 1 0.03
9 7 0.21
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (7 bp):
ATGAAAA
Found at i:12892876 original size:13 final size:13
Alignment explanation
Indices: 12892860--12892886 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
12892850 AAAAAAAGAG
12892860 ATGAAAAATGAAA
1 ATGAAAAATGAAA
12892873 ATGAAAAATGAAA
1 ATGAAAAATGAAA
12892886 A
1 A
12892887 AAATGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
ATGAAAAATGAAA
Found at i:12892888 original size:22 final size:23
Alignment explanation
Indices: 12892863--12892905 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
12892853 AAAAGAGATG
*
12892863 AAAAATGAAAATG-AAAAATGAA
1 AAAAATGAAAAAGTAAAAATGAA
12892885 AAAAATGAAAAAGTAAAAATG
1 AAAAATGAAAAAGTAAAAATG
12892906 GAGAGGCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (23 bp):
AAAAATGAAAAAGTAAAAATGAA
Found at i:12894196 original size:44 final size:44
Alignment explanation
Indices: 12894133--12894385 Score: 506
Period size: 44 Copynumber: 5.8 Consensus size: 44
12894123 AGTGAAATCA
12894133 CAAAACCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
1 CAAAACCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
12894177 CAAAACCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
1 CAAAACCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
12894221 CAAAACCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
1 CAAAACCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
12894265 CAAAACCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
1 CAAAACCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
12894309 CAAAACCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
1 CAAAACCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
12894353 CAAAACCTAGCTCCCTGACCAGCAGTGGAATAG
1 CAAAACCTAGCTCCCTGACCAGCAGTGGAATAG
12894386 CGACAAATCT
Statistics
Matches: 209, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 209 1.00
ACGTcount: A:0.32, C:0.24, G:0.25, T:0.20
Consensus pattern (44 bp):
CAAAACCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
Found at i:12894545 original size:128 final size:128
Alignment explanation
Indices: 12894389--12894863 Score: 833
Period size: 128 Copynumber: 3.7 Consensus size: 128
12894379 GGAATAGCGA
**
12894389 CAAATCTTATCTTCAAAAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAG
1 CAAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAG
*
12894454 TGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAATAGCGGAGCAGATCAAAGACGG
66 TGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCAAAGACGG
*
12894517 CAAATCTTATCTTCTAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAG
1 CAAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAG
* *
12894582 TGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGTGAAGCAGATCAAAGACGG
66 TGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCAAAGACGG
* * * *
12894645 CAAATCTTATCTTCTAGTGTAAGGAAGCAGATTTAAGACACAAGTCCTATGTCTCTGGTCAGCAG
1 CAAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAG
* *
12894710 TGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGTAGATCAAAGATGG
66 TGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCAAAGACGG
12894773 CAAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAG
1 CAAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAG
12894838 TGGAATAGGTTGGGAAATTACAGATC
66 TGGAATAGGTT-GGAAATTACAGATC
12894864 CTATCTCCAT
Statistics
Matches: 329, Mismatches: 17, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
128 315 0.96
129 14 0.04
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.26
Consensus pattern (128 bp):
CAAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAG
TGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCAAAGACGG
Found at i:12894966 original size:41 final size:39
Alignment explanation
Indices: 12894947--12895227 Score: 125
Period size: 44 Copynumber: 6.7 Consensus size: 39
12894937 TCGCATCAGG
*
12894947 TCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAA
1 TCTTATCTCCCTGAGATTACAGTGGAGTAGACCGAAGAA
* * *
12894986 TCTTATCTCCCTGAGGTTACAGCGGAGTAGACTGAAGCCAGAAA
1 TCTTATCTCCCTGAGATTACAGTGGAGTAGACCG-A---AG-AA
* * * **
12895030 TCTTATCTCCCTAAGATTACAGCGGAGCAGATTGAAGCCGGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGTAGACCGAA----G-AA
* * * * * * * ***
12895074 TCCTATTTCCTTAATATTATAGTGGAGCGAATTAAAATAAATG-A
1 TCTTATCTCCCTGAGATTACAGTGGA--G---TAGACCGAA-GAA
* * * * * *
12895118 TCTTATCTCTCTGAAATTACAGTAGAGTAAATCGCATCAG-G
1 TCTTATCTCCCTGAGATTACAGTGGAGTAGACCG-A--AGAA
* *
12895159 TCTTATCTCCCTGAGATTACAGTGGAATAAACCGAAGAAA
1 TCTTATCTCCCTGAGATTACAGTGGAGTAGACCGAAG-AA
12895199 TCTTATCTCCCTGAGATTACAGTGGAGTA
1 TCTTATCTCCCTGAGATTACAGTGGAGTA
12895228 CATTGAATCA
Statistics
Matches: 184, Mismatches: 39, Indels: 37
0.71 0.15 0.14
Matches are distributed among these distances:
38 2 0.01
39 34 0.18
40 32 0.17
41 30 0.16
42 2 0.01
43 3 0.02
44 74 0.40
46 2 0.01
49 5 0.03
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (39 bp):
TCTTATCTCCCTGAGATTACAGTGGAGTAGACCGAAGAA
Found at i:12894995 original size:39 final size:42
Alignment explanation
Indices: 12894947--12895055 Score: 134
Period size: 39 Copynumber: 2.6 Consensus size: 42
12894937 TCGCATCAGG
*
12894947 TCTTATCTCCCTGAGATTACAGTGGAATAGACCG-A-AG-AA
1 TCTTATCTCCCTGAGATTACAGCGGAATAGACCGAACAGAAA
* * *
12894986 TCTTATCTCCCTGAGGTTACAGCGGAGTAGACTGAAGCCAGAAA
1 TCTTATCTCCCTGAGATTACAGCGGAATAGACCGAA--CAGAAA
*
12895030 TCTTATCTCCCTAAGATTACAGCGGA
1 TCTTATCTCCCTGAGATTACAGCGGA
12895056 GCAGATTGAA
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
39 30 0.51
40 1 0.02
43 2 0.03
44 26 0.44
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (42 bp):
TCTTATCTCCCTGAGATTACAGCGGAATAGACCGAACAGAAA
Found at i:12895050 original size:44 final size:43
Alignment explanation
Indices: 12894947--12895068 Score: 144
Period size: 44 Copynumber: 2.9 Consensus size: 43
12894937 TCGCATCAGG
* * *
12894947 TCTTATCTCCCTGAGATTACAGTGGAATAGACCG-A---AGAA
1 TCTTATCTCCCTGAGATTACAGCGGAGTAGACTGAAGCCAGAA
*
12894986 TCTTATCTCCCTGAGGTTACAGCGGAGTAGACTGAAGCCAGAAA
1 TCTTATCTCCCTGAGATTACAGCGGAGTAGACTGAAGCCAG-AA
* * *
12895030 TCTTATCTCCCTAAGATTACAGCGGAGCAGATTGAAGCC
1 TCTTATCTCCCTGAGATTACAGCGGAGTAGACTGAAGCC
12895069 GGTAATCCTA
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
39 30 0.43
40 1 0.01
43 2 0.03
44 37 0.53
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (43 bp):
TCTTATCTCCCTGAGATTACAGCGGAGTAGACTGAAGCCAGAA
Found at i:12901324 original size:60 final size:59
Alignment explanation
Indices: 12901249--12901447 Score: 199
Period size: 60 Copynumber: 3.3 Consensus size: 59
12901239 TCAAAGTGGA
* * * * *
12901249 AACAATTGGCTAGTTCAAAGAATAACTTGGACAAAAAAAAAAGGTTCAAGCCCTTATG-G-G
1 AACAATTGTCAAGTTC-AGGAATAACTTAGATAAAAAAAAAA-GTT-AAGCCCTTATGTGAG
* *
12901309 AACAATTGTCAAGTTCAGGAACTAACTTAGATAAAAAAATAATTTAA-CCCTTAATGTGAG
1 AACAATTGTCAAGTTCAGGAA-TAACTTAGATAAAAAAAAAAGTTAAGCCCTT-ATGTGAG
* *
12901369 AACAATTG-CAAGTTCAGGAATAAACTTAGATAAAAGAAAAAAAGTTTAGCCCTCCATGTGAG
1 AACAATTGTCAAGTTCAGGAAT-AACTTAGAT-AAA-AAAAAAAGTTAAGCCCT-TATGTGAG
*
12901431 AACCATTGTCAAGTTCA
1 AACAATTGTCAAGTTCA
12901448 AGCCCCAAAA
Statistics
Matches: 117, Mismatches: 12, Indels: 17
0.80 0.08 0.12
Matches are distributed among these distances:
57 5 0.04
58 6 0.05
59 28 0.24
60 43 0.37
61 9 0.08
62 18 0.15
63 8 0.07
ACGTcount: A:0.44, C:0.15, G:0.17, T:0.25
Consensus pattern (59 bp):
AACAATTGTCAAGTTCAGGAATAACTTAGATAAAAAAAAAAGTTAAGCCCTTATGTGAG
Found at i:12901388 original size:59 final size:63
Alignment explanation
Indices: 12901308--12901447 Score: 191
Period size: 62 Copynumber: 2.3 Consensus size: 63
12901298 GCCCTTATGG
* *
12901308 GAACAATTGTCAAGTTCAGGAACT-AACTTAGAT-AAA-AAAATAA-TTTAACCCTTAATGTGA
1 GAACAATTGTCAAGTTCAGGAA-TAAACTTAGATAAAAGAAAAAAAGTTTAACCCTCAATGTGA
* *
12901368 GAACAATTG-CAAGTTCAGGAATAAACTTAGATAAAAGAAAAAAAGTTTAGCCCTCCATGTGA
1 GAACAATTGTCAAGTTCAGGAATAAACTTAGATAAAAGAAAAAAAGTTTAACCCTCAATGTGA
*
12901430 GAACCATTGTCAAGTTCA
1 GAACAATTGTCAAGTTCA
12901448 AGCCCCAAAA
Statistics
Matches: 70, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
58 1 0.01
59 21 0.30
60 12 0.17
61 6 0.09
62 22 0.31
63 8 0.11
ACGTcount: A:0.44, C:0.15, G:0.16, T:0.26
Consensus pattern (63 bp):
GAACAATTGTCAAGTTCAGGAATAAACTTAGATAAAAGAAAAAAAGTTTAACCCTCAATGTGA
Found at i:12901517 original size:16 final size:17
Alignment explanation
Indices: 12901496--12901534 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
12901486 AATCATTTTA
*
12901496 TTTATATTGTGT-TTGT
1 TTTATATTGTGTGTTGC
*
12901512 TTTATATTTTGTGTTGC
1 TTTATATTGTGTGTTGC
12901529 TTTATA
1 TTTATA
12901535 ATTATTTATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.15, C:0.03, G:0.15, T:0.67
Consensus pattern (17 bp):
TTTATATTGTGTGTTGC
Found at i:12901595 original size:37 final size:36
Alignment explanation
Indices: 12901533--12901611 Score: 99
Period size: 37 Copynumber: 2.1 Consensus size: 36
12901523 TGTTGCTTTA
12901533 TAATTATTTATCTTATGTTATGTTTA-TATCATGCAT
1 TAATTATTTATCTTATGTTATGTTTACTATCATG-AT
*
12901569 TAATTATTTAATCTTGTGTT-TAGTTTACTATCATGAT
1 TAATTATTT-ATCTTATGTTAT-GTTTACTATCATGAT
12901606 TCAATT
1 T-AATT
12901612 TAAAGAAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
36 10 0.26
37 17 0.45
38 11 0.29
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.54
Consensus pattern (36 bp):
TAATTATTTATCTTATGTTATGTTTACTATCATGAT
Found at i:12904736 original size:17 final size:17
Alignment explanation
Indices: 12904714--12904760 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
12904704 GTTCATATGA
*
12904714 AATAACAGTTTATACAT
1 AATAACAGTTCATACAT
12904731 AATAACAGTTCATACA-
1 AATAACAGTTCATACAT
*
12904747 ATTTAACAGTTCAT
1 A-ATAACAGTTCAT
12904761 TCAGTATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 1 0.04
17 26 0.96
ACGTcount: A:0.45, C:0.15, G:0.06, T:0.34
Consensus pattern (17 bp):
AATAACAGTTCATACAT
Found at i:12905187 original size:79 final size:79
Alignment explanation
Indices: 12905056--12905214 Score: 318
Period size: 79 Copynumber: 2.0 Consensus size: 79
12905046 ACACATCTCT
12905056 AGGCCATAATGCTCATCACAGAAAAAAGGGTGAGTACTCACAATCTTATGGCATGCCAACTATAT
1 AGGCCATAATGCTCATCACAGAAAAAAGGGTGAGTACTCACAATCTTATGGCATGCCAACTATAT
12905121 CCAATGGTTCCATA
66 CCAATGGTTCCATA
12905135 AGGCCATAATGCTCATCACAGAAAAAAGGGTGAGTACTCACAATCTTATGGCATGCCAACTATAT
1 AGGCCATAATGCTCATCACAGAAAAAAGGGTGAGTACTCACAATCTTATGGCATGCCAACTATAT
12905200 CCAATGGTTCCATA
66 CCAATGGTTCCATA
12905214 A
1 A
12905215 AGTCACAATG
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 80 1.00
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.24
Consensus pattern (79 bp):
AGGCCATAATGCTCATCACAGAAAAAAGGGTGAGTACTCACAATCTTATGGCATGCCAACTATAT
CCAATGGTTCCATA
Found at i:12905567 original size:36 final size:36
Alignment explanation
Indices: 12905505--12905574 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 36
12905495 AATTAATGCA
*
12905505 ATTCGCCATATTAATACAGATTACCAAATTAACACG
1 ATTCGCCATAATAATACAGATTACCAAATTAACACG
* *
12905541 ATTCGCCATAATAATATA-ATTCACCAAGTTAACA
1 ATTCGCCATAATAATACAGATT-ACCAAATTAACA
12905575 TGGTTCACAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
35 3 0.10
36 27 0.90
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (36 bp):
ATTCGCCATAATAATACAGATTACCAAATTAACACG
Found at i:12905933 original size:36 final size:36
Alignment explanation
Indices: 12905886--12905964 Score: 135
Period size: 36 Copynumber: 2.2 Consensus size: 36
12905876 TAAACAATGC
12905886 ATATATA--TAATATATATAATACCAAAATCCATTA
1 ATATATACTTAATATATATAATACCAAAATCCATTA
*
12905920 ATATATACTTAATATATATAATACCAAAATCCATTC
1 ATATATACTTAATATATATAATACCAAAATCCATTA
12905956 ATATATACT
1 ATATATACT
12905965 GTTGACACCA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
34 7 0.17
36 35 0.83
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (36 bp):
ATATATACTTAATATATATAATACCAAAATCCATTA
Found at i:12905960 original size:21 final size:20
Alignment explanation
Indices: 12905898--12905960 Score: 55
Period size: 17 Copynumber: 3.3 Consensus size: 20
12905888 ATATATAATA
12905898 TATATAATACCAAAATCCAT
1 TATATAATACCAAAATCCAT
**
12905918 TA-ATATATA-CTTAAT--A-
1 TATATA-ATACCAAAATCCAT
12905934 TATATAATACCAAAATCCAT
1 TATATAATACCAAAATCCAT
12905954 TCATATA
1 T-ATATA
12905961 TACTGTTGAC
Statistics
Matches: 32, Mismatches: 4, Indels: 13
0.65 0.08 0.27
Matches are distributed among these distances:
16 5 0.16
17 8 0.25
19 8 0.25
20 6 0.19
21 5 0.16
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (20 bp):
TATATAATACCAAAATCCAT
Found at i:12908170 original size:87 final size:87
Alignment explanation
Indices: 12908024--12908369 Score: 521
Period size: 87 Copynumber: 4.0 Consensus size: 87
12908014 TTAGAGGTAT
* *
12908024 TGGTGCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTACAATCTTCGACCTACTCCG
1 TGGTGCCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCCG
**
12908089 CTGTTGCTCAGGGAGATAGGGC
66 CTACTGCTCAGGGAGATAGGGC
* * *
12908111 TGGTGCCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATATTTGACCTACTCTG
1 TGGTGCCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCCG
* *
12908176 CTACTGTTCAGAGAGATAGGGC
66 CTACTGCTCAGGGAGATAGGGC
* *
12908198 TGGTACCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTTGACCTACTCCG
1 TGGTGCCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCCG
* * *
12908263 CTGCTGATCAAGGAGATAGGGC
66 CTACTGCTCAGGGAGATAGGGC
* * * *
12908285 TGGTGCCTTCGATCTGCTCCATTATTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCA
1 TGGTGCCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCCG
*
12908350 CTACTGCTCATGGAGATAGG
66 CTACTGCTCAGGGAGATAGG
12908370 ACTGATTATG
Statistics
Matches: 234, Mismatches: 25, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
87 234 1.00
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.29
Consensus pattern (87 bp):
TGGTGCCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCCG
CTACTGCTCAGGGAGATAGGGC
Found at i:12908367 original size:44 final size:44
Alignment explanation
Indices: 12908031--12908367 Score: 194
Period size: 44 Copynumber: 7.7 Consensus size: 44
12908021 TATTGGTGCT
* * * *
12908031 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTACAATC
1 TTCGACCTACTCCACTACTGCTCAGGGAGATAAGATCTACAATC
* ** ** *****
12908075 TTCGACCTACTCCGCTGTTGCTCAGGGAGAT-AGGGCTGGTGCC
1 TTCGACCTACTCCACTACTGCTCAGGGAGATAAGATCTACAATC
* * * *
12908118 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATA
1 TTCGACCTACTCCACTACTGCTCAGGGAGATAAGATCTACAATC
* ** * * ** *** *
12908162 TTTGACCTACTCTGCTACTGTTCAGAGAGAT-AGGGCTGGTACC
1 TTCGACCTACTCCACTACTGCTCAGGGAGATAAGATCTACAATC
* * *
12908205 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATC
1 TTCGACCTACTCCACTACTGCTCAGGGAGATAAGATCTACAATC
* * * * * ** *****
12908249 TTTGACCTACTCCGCTGCTGATCAAGGAGAT-AGGGCTGGTGCC
1 TTCGACCTACTCCACTACTGCTCAGGGAGATAAGATCTACAATC
* * * * *
12908292 TTCGATCTGCTCCATTATTGCTTAGGGAGATAAGATCTACAATC
1 TTCGACCTACTCCACTACTGCTCAGGGAGATAAGATCTACAATC
* *
12908336 TTCAACCTACTCCACTACTGCTCATGGAGATA
1 TTCGACCTACTCCACTACTGCTCAGGGAGATA
12908368 GGACTGATTA
Statistics
Matches: 194, Mismatches: 96, Indels: 6
0.66 0.32 0.02
Matches are distributed among these distances:
43 83 0.43
44 111 0.57
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (44 bp):
TTCGACCTACTCCACTACTGCTCAGGGAGATAAGATCTACAATC
Found at i:12917980 original size:9 final size:9
Alignment explanation
Indices: 12917966--12917996 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
12917956 GTTAAATGAA
12917966 TCGAGTTAT
1 TCGAGTTAT
*
12917975 TCGAGTTAA
1 TCGAGTTAT
12917984 TCGAGTTAT
1 TCGAGTTAT
12917993 TCGA
1 TCGA
12917997 ATCAACTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:12918066 original size:9 final size:9
Alignment explanation
Indices: 12918049--12918085 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
12918039 TGAGTTTTCG
12918049 AATTCGAAT
1 AATTCGAAT
*
12918058 AACTCGAAT
1 AATTCGAAT
12918067 AATTCGAAT
1 AATTCGAAT
12918076 AATTCGAAT
1 AATTCGAAT
12918085 A
1 A
12918086 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:12919846 original size:26 final size:26
Alignment explanation
Indices: 12919807--12919883 Score: 109
Period size: 26 Copynumber: 3.0 Consensus size: 26
12919797 TGGAGGAAGT
*
12919807 ATACTGTTACTGGCAGCTTTACTGCG
1 ATACTATTACTGGCAGCTTTACTGCG
* *
12919833 ATACTATTATTGGCAGCTTCACTGCG
1 ATACTATTACTGGCAGCTTTACTGCG
* *
12919859 ATACTATTGCTGGCAGCTTTGCTGC
1 ATACTATTACTGGCAGCTTTACTGC
12919884 AATATTGGTG
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.35
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTTACTGCG
Found at i:12932407 original size:23 final size:23
Alignment explanation
Indices: 12932295--12932400 Score: 119
Period size: 23 Copynumber: 4.7 Consensus size: 23
12932285 ACCTGATCAG
*
12932295 TATAAGACACAT-AAGTGCCTGA
1 TATACGACACATAAAGTGCCTGA
** * * *
12932317 -A-ACGACACACGAGGTGCTTAA
1 TATACGACACATAAAGTGCCTGA
*
12932338 AATACGACACATAAAGTGCCTGA
1 TATACGACACATAAAGTGCCTGA
12932361 TATACGACACATAAAGTGCCTGA
1 TATACGACACATAAAGTGCCTGA
*
12932384 TTTACGACACATAAAGT
1 TATACGACACATAAAGT
12932401 AGCTGATCGG
Statistics
Matches: 69, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
20 7 0.10
21 8 0.12
22 1 0.01
23 53 0.77
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.21
Consensus pattern (23 bp):
TATACGACACATAAAGTGCCTGA
Found at i:12933615 original size:18 final size:18
Alignment explanation
Indices: 12933577--12933615 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
12933567 TTTGTTTCGT
*
12933577 TTTTATTTCTTTACTTTC
1 TTTTATTTCTTTACTTGC
12933595 TTTTATTTACTTTA-TTGC
1 TTTTATTT-CTTTACTTGC
12933613 TTT
1 TTT
12933616 AATTATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.13, C:0.13, G:0.03, T:0.72
Consensus pattern (18 bp):
TTTTATTTCTTTACTTGC
Found at i:12934653 original size:15 final size:16
Alignment explanation
Indices: 12934635--12934668 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
12934625 AGATCAAATT
*
12934635 AATTAA-CTAAGTGCA
1 AATTAATCTAAATGCA
12934650 AATTAATCTAAATGCA
1 AATTAATCTAAATGCA
12934666 AAT
1 AAT
12934669 AAAATGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.50, C:0.12, G:0.09, T:0.29
Consensus pattern (16 bp):
AATTAATCTAAATGCA
Found at i:12936293 original size:213 final size:212
Alignment explanation
Indices: 12935921--12936353 Score: 839
Period size: 213 Copynumber: 2.0 Consensus size: 212
12935911 ATGTATGATT
12935921 TAAATAAGCTCCCACACTTATTAATTCAATGGTCTCACTACAACAATTAAAGCACAAAAATTACT
1 TAAA-AAGCTCCCACACTTATTAATTCAATGGTCTCACTACAACAATTAAAGCACAAAAATTACT
12935986 ATGTAACAGAAGATAGTTAAATTATGCAAAATTTAATTCATAAATTCATAAAATTATATACTTTA
65 ATGTAACAGAAGATAGTTAAATTATGCAAAATTTAATTCATAAATTCATAAAATTATATACTTTA
12936051 CTAAAATTATGCTTATTGTCTCAATATGAAAAAAAAATCACCCAATTAAATATCCAAATTCTTGA
130 CTAAAATTATGCTTATTGTCTCAATATG-AAAAAAAATCACCCAATTAAATATCCAAATTCTTGA
12936116 TATTAACATAAATTCTAAG
194 TATTAACATAAATTCTAAG
12936135 TAAAAAGCTCCCACACTTATTAATTCAATGGTCTCACTACAACAATTAAAGCACAAAAATTACTA
1 TAAAAAGCTCCCACACTTATTAATTCAATGGTCTCACTACAACAATTAAAGCACAAAAATTACTA
*
12936200 TGTAACATAAGATAGTTAAATTATGCAAAATTTAATTCATAAATTCATAAAATTATATACTTTAC
66 TGTAACAGAAGATAGTTAAATTATGCAAAATTTAATTCATAAATTCATAAAATTATATACTTTAC
12936265 TAAAATTATGCTTATTGTCTCAATATGAAAAAAAATCACCCAATTAAATATCCAAATTCTTGATA
131 TAAAATTATGCTTATTGTCTCAATATGAAAAAAAATCACCCAATTAAATATCCAAATTCTTGATA
12936330 TTAACATAAATTCTAAG
196 TTAACATAAATTCTAAG
12936347 TAAAAAG
1 TAAAAAG
12936354 GTGATATACA
Statistics
Matches: 218, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
212 62 0.28
213 152 0.70
214 4 0.02
ACGTcount: A:0.46, C:0.15, G:0.06, T:0.33
Consensus pattern (212 bp):
TAAAAAGCTCCCACACTTATTAATTCAATGGTCTCACTACAACAATTAAAGCACAAAAATTACTA
TGTAACAGAAGATAGTTAAATTATGCAAAATTTAATTCATAAATTCATAAAATTATATACTTTAC
TAAAATTATGCTTATTGTCTCAATATGAAAAAAAATCACCCAATTAAATATCCAAATTCTTGATA
TTAACATAAATTCTAAG
Found at i:12939062 original size:84 final size:83
Alignment explanation
Indices: 12938964--12939180 Score: 308
Period size: 84 Copynumber: 2.6 Consensus size: 83
12938954 AAAGGGAAAG
* * * * *
12938964 TCAAATATGGGAAATAAAAGAAAATAACAACTATGTAAAATAGAGATATGAAAGGGAATTGAATA
1 TCAAATATGGGAAATGAAAGAGAATAACAAATATG-AAAATAGAGATATAAAAGAGAATTGAATA
*
12939029 TTTTATGAAAAATAGATAA
65 TTTTATGAAAAATAGAGAA
* * *
12939048 TCAAATATGAGAAATGAAAGAGAATAACAAATATAGAAAATAGACATATAAAAGAGAATTTAATA
1 TCAAATATGGGAAATGAAAGAGAATAACAAATAT-GAAAATAGAGATATAAAAGAGAATTGAATA
*
12939113 TTTTATGGAAAATAGAGAA
65 TTTTATGAAAAATAGAGAA
*
12939132 TCAAATATGGGAAATGAAAGAGAATCACAAATATGGAAAATAGAGATAT
1 TCAAATATGGGAAATGAAAGAGAATAACAAATAT-GAAAATAGAGATAT
12939181 CTATTTTTCA
Statistics
Matches: 118, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
84 117 0.99
85 1 0.01
ACGTcount: A:0.55, C:0.04, G:0.17, T:0.24
Consensus pattern (83 bp):
TCAAATATGGGAAATGAAAGAGAATAACAAATATGAAAATAGAGATATAAAAGAGAATTGAATAT
TTTATGAAAAATAGAGAA
Found at i:12939321 original size:84 final size:84
Alignment explanation
Indices: 12939178--12939360 Score: 269
Period size: 84 Copynumber: 2.2 Consensus size: 84
12939168 AAAATAGAGA
* * *
12939178 TATCTATTTTTCACAAAATATTAAATTCCCTTTCATATCTCTATTTTTCAATTTTATTATTCTCT
1 TATCTATTTTCCACAAAATATTAAATTCCCTTTCATATCTCTATTTTCCAATTATATTATTCTCT
* *
12939243 TTCTTTTTTCATATTTGAT
66 TTCCTTTCTCATATTTGAT
* * * *
12939262 TCTCTATTTTCCATAAAATATTAAATTTCTTTTCATATCTCTATTTTCC-ATATATATTATTCTC
1 TATCTATTTTCCACAAAATATTAAATTCCCTTTCATATCTCTATTTTCCAAT-TATATTATTCTC
12939326 TTTCCTTTCTCATATTTGAT
65 TTTCCTTTCTCATATTTGAT
12939346 TATCTATTTTCCACA
1 TATCTATTTTCCACA
12939361 TATTCTTTTT
Statistics
Matches: 87, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
83 2 0.02
84 85 0.98
ACGTcount: A:0.25, C:0.19, G:0.01, T:0.55
Consensus pattern (84 bp):
TATCTATTTTCCACAAAATATTAAATTCCCTTTCATATCTCTATTTTCCAATTATATTATTCTCT
TTCCTTTCTCATATTTGAT
Found at i:12940685 original size:13 final size:13
Alignment explanation
Indices: 12940667--12940692 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12940657 TTTATAACTA
12940667 TCTCTGTTGATTT
1 TCTCTGTTGATTT
12940680 TCTCTGTTGATTT
1 TCTCTGTTGATTT
12940693 CCTTGAACTC
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:0.08, C:0.15, G:0.15, T:0.62
Consensus pattern (13 bp):
TCTCTGTTGATTT
Found at i:12944113 original size:9 final size:9
Alignment explanation
Indices: 12944099--12944153 Score: 92
Period size: 9 Copynumber: 6.1 Consensus size: 9
12944089 GTAGTGATTC
12944099 AATTCGGTT
1 AATTCGGTT
12944108 AATTCGGTT
1 AATTCGGTT
*
12944117 AATTCAGTT
1 AATTCGGTT
12944126 AATTCGGTT
1 AATTCGGTT
*
12944135 AATTCGGCT
1 AATTCGGTT
12944144 AATTCGGTT
1 AATTCGGTT
12944153 A
1 A
12944154 TTTTTTAACC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 42 1.00
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:12945320 original size:27 final size:29
Alignment explanation
Indices: 12945279--12945352 Score: 77
Period size: 27 Copynumber: 2.7 Consensus size: 29
12945269 AATCGTAAAA
* *
12945279 AAATATA-AAAAAATTGTAAAAT-TAATA-
1 AAATATAGAAACAATTATAAAATAT-ATAG
12945306 AAA-ATAGAAACAATTATAAAATATATAG
1 AAATATAGAAACAATTATAAAATATATAG
12945334 AAATATAGAAA-AATATATA
1 AAATATAGAAACAAT-TATA
12945353 TAATTTTATA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
26 3 0.08
27 19 0.47
28 7 0.17
29 11 0.28
ACGTcount: A:0.66, C:0.01, G:0.05, T:0.27
Consensus pattern (29 bp):
AAATATAGAAACAATTATAAAATATATAG
Found at i:12945401 original size:19 final size:21
Alignment explanation
Indices: 12945379--12945424 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
12945369 TAAGAAAATG
12945379 ATAAAAAAT-GT-AAAGAATT
1 ATAAAAAATCGTGAAAGAATT
*
12945398 AT-AAAATTCGTGAAAGAATT
1 ATAAAAAATCGTGAAAGAATT
12945418 ATAAAAA
1 ATAAAAA
12945425 TTATCATACT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 5 0.22
19 4 0.17
20 10 0.43
21 4 0.17
ACGTcount: A:0.61, C:0.02, G:0.11, T:0.26
Consensus pattern (21 bp):
ATAAAAAATCGTGAAAGAATT
Found at i:12945796 original size:30 final size:29
Alignment explanation
Indices: 12945760--12945817 Score: 107
Period size: 30 Copynumber: 2.0 Consensus size: 29
12945750 TATATATTTC
12945760 TATTTTTTATTAAATTTTAAATATTTTTAA
1 TATTTTTTATTAAATTTTAAAT-TTTTTAA
12945790 TATTTTTTATTAAATTTTAAATTTTTTA
1 TATTTTTTATTAAATTTTAAATTTTTTA
12945818 TAACTTTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 6 0.21
30 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (29 bp):
TATTTTTTATTAAATTTTAAATTTTTTAA
Found at i:12945807 original size:20 final size:19
Alignment explanation
Indices: 12945784--12945836 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
12945774 TTTTAAATAT
12945784 TTTTAATATTTTTTATTAAA
1 TTTTAATATTTTTTA-TAAA
*
12945804 TTTTAA-ATTTTTTATAAC
1 TTTTAATATTTTTTATAAA
*
12945822 TTTTATTGATTTTTT
1 TTTTAAT-ATTTTTT
12945837 TATATTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 8 0.28
19 8 0.28
20 13 0.45
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (19 bp):
TTTTAATATTTTTTATAAA
Found at i:12946164 original size:84 final size:85
Alignment explanation
Indices: 12946011--12946176 Score: 210
Period size: 84 Copynumber: 2.0 Consensus size: 85
12946001 TTTGAAAAAT
* * * * * * *
12946011 TTTGAGGGTCTTTTTTATGCATTTTGACAATTCAAGTACCCAATTAAATGGAAAAAAAAACAAGG
1 TTTGAAGGCCTTTTTAATACATTTTGAAAATTAAAATACCCAATTAAATGGAAAAAAAAACAAGG
12946076 GCTTAATTTTT-TTTTTAAG
66 GCTTAATTTTTCTTTTTAAG
* * **
12946095 TTTGAAGGCCTTTTTAATACATTTTGAAAATTAAAATACCCAATTGAATGG-AAAAAAGAGTAGG
1 TTTGAAGGCCTTTTTAATACATTTTGAAAATTAAAATACCCAATTAAATGGAAAAAAAAACAAGG
12946159 AGCTTAATTTTTCTTTTT
66 -GCTTAATTTTTCTTTTT
12946177 TTTTTTAAGT
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
83 10 0.14
84 54 0.78
85 5 0.07
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (85 bp):
TTTGAAGGCCTTTTTAATACATTTTGAAAATTAAAATACCCAATTAAATGGAAAAAAAAACAAGG
GCTTAATTTTTCTTTTTAAG
Found at i:12948573 original size:33 final size:33
Alignment explanation
Indices: 12948536--12948654 Score: 152
Period size: 33 Copynumber: 3.6 Consensus size: 33
12948526 AAACGCACGG
*
12948536 TTTTGTGAAATGATAACAAATATCAGCTTTTCA
1 TTTTGTAAAATGATAACAAATATCAGCTTTTCA
* * *
12948569 TTTTGTAAAATTATAACAAAT-TACAAC-TTTAA
1 TTTTGTAAAATGATAACAAATAT-CAGCTTTTCA
*
12948601 TTTTGTAAAATGATAACAAATATCAGATTTTCA
1 TTTTGTAAAATGATAACAAATATCAGCTTTTCA
* *
12948634 TTTTGTGAAATTATAACAAAT
1 TTTTGTAAAATGATAACAAAT
12948655 TACAACTGTC
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
32 27 0.37
33 46 0.63
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.40
Consensus pattern (33 bp):
TTTTGTAAAATGATAACAAATATCAGCTTTTCA
Found at i:12948617 original size:65 final size:65
Alignment explanation
Indices: 12948536--12948661 Score: 225
Period size: 65 Copynumber: 1.9 Consensus size: 65
12948526 AAACGCACGG
* *
12948536 TTTTGTGAAATGATAACAAATATCAGCTTTTCATTTTGTAAAATTATAACAAATTACAACTTTAA
1 TTTTGTAAAATGATAACAAATATCAGATTTTCATTTTGTAAAATTATAACAAATTACAACTTTAA
*
12948601 TTTTGTAAAATGATAACAAATATCAGATTTTCATTTTGTGAAATTATAACAAATTACAACT
1 TTTTGTAAAATGATAACAAATATCAGATTTTCATTTTGTAAAATTATAACAAATTACAACT
12948662 GTCGAAACCA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 58 1.00
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (65 bp):
TTTTGTAAAATGATAACAAATATCAGATTTTCATTTTGTAAAATTATAACAAATTACAACTTTAA
Found at i:12951348 original size:143 final size:143
Alignment explanation
Indices: 12951090--12951357 Score: 421
Period size: 143 Copynumber: 1.9 Consensus size: 143
12951080 TCCTAACCAA
*
12951090 CTGCAACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAAGAAAATAAG
1 CTGCAACTTCAAGGAGAGAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAAGAAAATAAG
*
12951155 ATCCACCATAATTTGTAGCTTTAATCTATTCCACTGCAACGCTAGGGAAATAAGATTCGCTGTCT
66 ATCCACCATAATTTGTAGCTTTAATCTATTCCACTGCAACGCCAGGGAAATAAGATTCGCTGTCT
12951220 TCAGTCTGCTCCG
131 TCAGTCTGCTCCG
* * * * *
12951233 CTGCAACTTC-AGGAAGAGAAGGCTGGTGGTTTCAATCTGCTCCATTGTAACTTCAGGAAGATAA
1 CTGCAACTTCAAGG-AGAGAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAAGAAAATAA
* * * *
12951297 TATCCGCCATAATTTGTAGCTTTAATTTGTTCCACTGCAACGCCAGGGAAATAAGATTCGC
65 GATCCACCATAATTTGTAGCTTTAATCTATTCCACTGCAACGCCAGGGAAATAAGATTCGC
12951358 CATGATGACT
Statistics
Matches: 113, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
142 3 0.03
143 110 0.97
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (143 bp):
CTGCAACTTCAAGGAGAGAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAAGAAAATAAG
ATCCACCATAATTTGTAGCTTTAATCTATTCCACTGCAACGCCAGGGAAATAAGATTCGCTGTCT
TCAGTCTGCTCCG
Found at i:12952282 original size:32 final size:33
Alignment explanation
Indices: 12952240--12952302 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 33
12952230 GGCCTCTCCT
**
12952240 TTTTCATTTTCTTT-TTTTTTTTTTCTGTTTTCA
1 TTTTCATTTTCTTTACCTTTTTTTT-TGTTTTCA
12952273 TTTTC-TTTTCTTTACCTTTTTTTTTGTTTT
1 TTTTCATTTTCTTTACCTTTTTTTTTGTTTT
12952303 TTTAAAGTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 14 0.52
33 13 0.48
ACGTcount: A:0.05, C:0.13, G:0.03, T:0.79
Consensus pattern (33 bp):
TTTTCATTTTCTTTACCTTTTTTTTTGTTTTCA
Found at i:12952297 original size:27 final size:26
Alignment explanation
Indices: 12952238--12952297 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 26
12952228 TTGGCCTCTC
**
12952238 CTTTTTCATTTTCTTTTTTTTTTTTT
1 CTTTTTCATTTTCTTTTTTTCCTTTT
12952264 CTGTTTTCATTTTCTTTTCTTTACCTTTT
1 CT-TTTTCATTTTCTTTT-TTT-CCTTTT
12952293 -TTTTT
1 CTTTTT
12952298 GTTTTTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
26 2 0.07
27 19 0.66
28 4 0.14
29 4 0.14
ACGTcount: A:0.05, C:0.15, G:0.02, T:0.78
Consensus pattern (26 bp):
CTTTTTCATTTTCTTTTTTTCCTTTT
Found at i:12956980 original size:15 final size:14
Alignment explanation
Indices: 12956939--12956976 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
12956929 AAGATATATA
12956939 AATAAATA-GTAAT
1 AATAAATATGTAAT
*
12956952 AATAATAAATGTAAT
1 AATAA-ATATGTAAT
12956967 AATAAATATG
1 AATAAATATG
12956977 GTAAAAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 5 0.24
14 6 0.29
15 10 0.48
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.32
Consensus pattern (14 bp):
AATAAATATGTAAT
Found at i:12963317 original size:15 final size:15
Alignment explanation
Indices: 12963297--12963326 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12963287 CAACACCCTG
12963297 ATTTTAGACCCTAAT
1 ATTTTAGACCCTAAT
*
12963312 ATTTTAGATCCTAAT
1 ATTTTAGACCCTAAT
12963327 TGAAGGATTC
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:0.33, C:0.17, G:0.07, T:0.43
Consensus pattern (15 bp):
ATTTTAGACCCTAAT
Found at i:12964851 original size:29 final size:29
Alignment explanation
Indices: 12964811--12964875 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 29
12964801 ATTTTTTATT
12964811 TTTTTTTAATTTTAAAATACTTTAAAAATA
1 TTTTTTTAATTTTAAAAT-CTTTAAAAATA
*** *
12964841 TTTTTTT-ATTTTTTTATTTTTAAAAATA
1 TTTTTTTAATTTTAAAATCTTTAAAAATA
12964869 TTTTTTT
1 TTTTTTT
12964876 GTTTATTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 17 0.55
29 7 0.23
30 7 0.23
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (29 bp):
TTTTTTTAATTTTAAAATCTTTAAAAATA
Found at i:12964875 original size:21 final size:21
Alignment explanation
Indices: 12964847--12964888 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
12964837 AATATTTTTT
*
12964847 TATTTTTTTATTT-TTAAAAA
1 TATTTTTTTGTTTATTAAAAA
12964867 TATTTTTTTGTTTATTAAAAA
1 TATTTTTTTGTTTATTAAAAA
12964888 T
1 T
12964889 CGGGCCGGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
TATTTTTTTGTTTATTAAAAA
Found at i:12969479 original size:19 final size:19
Alignment explanation
Indices: 12969455--12969527 Score: 110
Period size: 19 Copynumber: 3.8 Consensus size: 19
12969445 AATCTTCAGG
12969455 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
12969474 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* ** *
12969493 AATATATAATCTTAAATAT
1 GATATGCAATCTTAGATAT
12969512 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
12969528 CGACATGATT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 46 1.00
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:12969732 original size:45 final size:45
Alignment explanation
Indices: 12969668--12969754 Score: 156
Period size: 45 Copynumber: 1.9 Consensus size: 45
12969658 AAGAGAAAAA
*
12969668 AAAAAAGGGGGAATAAAAAAAGAGAACGATTGACAGTTTTTTTTT
1 AAAAAAGGAGGAATAAAAAAAGAGAACGATTGACAGTTTTTTTTT
*
12969713 AAAAAAGGAGGAATAAAAAAAGAGAACGATTGGCAGTTTTTT
1 AAAAAAGGAGGAATAAAAAAAGAGAACGATTGACAGTTTTTT
12969755 AAAGGTGGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.48, C:0.05, G:0.23, T:0.24
Consensus pattern (45 bp):
AAAAAAGGAGGAATAAAAAAAGAGAACGATTGACAGTTTTTTTTT
Found at i:12969807 original size:21 final size:19
Alignment explanation
Indices: 12969766--12969808 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
12969756 AAGGTGGTTT
* *
12969766 ATTATTTTTTTTTCTTTCG
1 ATTATTTTTTCTTATTTCG
12969785 ATTATTTTTTACTTATTTACG
1 ATTATTTTTT-CTTATTT-CG
12969806 ATT
1 ATT
12969809 TTAAAAAGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 10 0.50
20 5 0.25
21 5 0.25
ACGTcount: A:0.19, C:0.09, G:0.05, T:0.67
Consensus pattern (19 bp):
ATTATTTTTTCTTATTTCG
Found at i:12985242 original size:3 final size:3
Alignment explanation
Indices: 12985236--12985289 Score: 65
Period size: 3 Copynumber: 17.3 Consensus size: 3
12985226 ATTGAATTGC
*
12985236 ATT ATT ATT A-T ATT ATCT ATT ATTT ATT ATAT ATT ATT ATT ATT AAT
1 ATT ATT ATT ATT ATT AT-T ATT A-TT ATT AT-T ATT ATT ATT ATT ATT
12985283 ATT ATT A
1 ATT ATT A
12985290 CTTCCATACG
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
2 2 0.04
3 34 0.76
4 9 0.20
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:12995167 original size:3 final size:3
Alignment explanation
Indices: 12995159--12995195 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
12995149 GAATGATCAC
12995159 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
12995196 AAGAACATAT
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:12998959 original size:30 final size:30
Alignment explanation
Indices: 12998924--12999093 Score: 161
Period size: 30 Copynumber: 5.7 Consensus size: 30
12998914 TAAAAATTTG
12998924 CATTTTGACCCCTAAACTTTTCTAAAATTA
1 CATTTTGACCCCTAAACTTTTCTAAAATTA
*
12998954 CATTTTGACCCCTAAAC-TTTCTCGAAATTA
1 CATTTTGACCCCTAAACTTTTCT-AAAATTA
* **
12998984 TATTTCAACCCCTAAACTTTTCT-AAATTA
1 CATTTTGACCCCTAAACTTTTCTAAAATTA
* *
12999013 CATTTTGACCCTTAAAC-TTTCTTGAAATTA
1 CATTTTGACCCCTAAACTTTTC-TAAAATTA
* * * * *
12999043 CATTTTAACCCTTGAACTTTATC-AGAATGA
1 CATTTTGACCCCTAAACTTT-TCTAAAATTA
*
12999073 CACTTTTG-CCCCAAAACTTTT
1 CA-TTTTGACCCCTAAACTTTT
12999094 GCTGTGTTTA
Statistics
Matches: 116, Mismatches: 17, Indels: 15
0.78 0.11 0.10
Matches are distributed among these distances:
28 4 0.03
29 26 0.22
30 73 0.63
31 11 0.09
32 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.05, T:0.39
Consensus pattern (30 bp):
CATTTTGACCCCTAAACTTTTCTAAAATTA
Found at i:12999029 original size:59 final size:60
Alignment explanation
Indices: 12998931--12999092 Score: 204
Period size: 59 Copynumber: 2.7 Consensus size: 60
12998921 TTGCATTTTG
*
12998931 ACCCCTAAACTTTTCTAAAATTACATTTTGACCCCTAAACTTTCTCGAAATTATATTTCA
1 ACCCCTAAACTTTTCTAAAATTACATTTTGACCCCTAAACTTTCTCGAAATTACATTTCA
* * *
12998991 ACCCCTAAACTTTTCT-AAATTACATTTTGACCCTTAAACTTTCTTGAAATTACATTTTA
1 ACCCCTAAACTTTTCTAAAATTACATTTTGACCCCTAAACTTTCTCGAAATTACATTTCA
* * * * *
12999050 ACCCTTGAACTTTATC-AGAATGACACTTTTG-CCCCAAAACTTT
1 ACCCCTAAACTTT-TCTAAAATTACA-TTTTGACCCCTAAACTTT
12999093 TGCTGTGTTT
Statistics
Matches: 89, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
59 50 0.56
60 34 0.38
61 5 0.06
ACGTcount: A:0.32, C:0.25, G:0.05, T:0.38
Consensus pattern (60 bp):
ACCCCTAAACTTTTCTAAAATTACATTTTGACCCCTAAACTTTCTCGAAATTACATTTCA
Found at i:12999283 original size:10 final size:11
Alignment explanation
Indices: 12999263--12999288 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
12999253 AGCAAGAAAC
12999263 AAAAACAAAAA
1 AAAAACAAAAA
12999274 AAAAACAAAAA
1 AAAAACAAAAA
12999285 AAAA
1 AAAA
12999289 TTTCAAAGCC
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:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAACAAAAA
Found at i:12999470 original size:22 final size:22
Alignment explanation
Indices: 12999436--12999495 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
12999426 AAAAACAAAG
*
12999436 AAAAA-AACAAGCAAAAG-AGA
1 AAAAAGAAAAAGCAAAAGAAGA
*
12999456 AAAAGAGAAAGAGC-AAAGAAGA
1 AAAA-AGAAAAAGCAAAAGAAGA
*
12999478 AAAAAGAAAAAGGAAAAG
1 AAAAAGAAAAAGCAAAAG
12999496 GGGGAGAGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
20 4 0.12
21 12 0.38
22 16 0.50
ACGTcount: A:0.73, C:0.05, G:0.22, T:0.00
Consensus pattern (22 bp):
AAAAAGAAAAAGCAAAAGAAGA
Found at i:12999598 original size:4 final size:4
Alignment explanation
Indices: 12999589--12999663 Score: 52
Period size: 4 Copynumber: 19.5 Consensus size: 4
12999579 CTGATCGGGG
* * * **
12999589 AAGA AAGA AAGG AAGA AAAA GAAGA AGGA AAG- AAGA AA-A GGGA AAG-
1 AAGA AAGA AAGA AAGA AAGA -AAGA AAGA AAGA AAGA AAGA AAGA AAGA
12999635 AAGA AAGA AAGA ACA-A AAGA AA-A AAGA AA
1 AAGA AAGA AAGA A-AGA AAGA AAGA AAGA AA
12999664 AACTTAAAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 14
0.69 0.13 0.18
Matches are distributed among these distances:
3 11 0.20
4 39 0.72
5 4 0.07
ACGTcount: A:0.72, C:0.01, G:0.27, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:12999634 original size:25 final size:25
Alignment explanation
Indices: 12999606--12999653 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
12999596 AAAGGAAGAA
* *
12999606 AAAGAAGAAGGAAAGAAGAAAAGGG
1 AAAGAAGAAAGAAAGAACAAAAGGG
12999631 AAAGAAGAAAGAAAGAACAAAAG
1 AAAGAAGAAAGAAAGAACAAAAG
12999654 AAAAAAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.69, C:0.02, G:0.29, T:0.00
Consensus pattern (25 bp):
AAAGAAGAAAGAAAGAACAAAAGGG
Found at i:12999664 original size:7 final size:7
Alignment explanation
Indices: 12999604--12999665 Score: 52
Period size: 7 Copynumber: 8.6 Consensus size: 7
12999594 AGAAAGGAAG
12999604 AAAAAGA
1 AAAAAGA
* *
12999611 AGAAGGA
1 AAAAAGA
*
12999618 AAGAAGA
1 AAAAAGA
**
12999625 AAAGGGA
1 AAAAAGA
*
12999632 AAGAAGA
1 AAAAAGA
12999639 AAGAAAGA
1 AA-AAAGA
12999647 ACAAAAGA
1 A-AAAAGA
12999655 AAAAAGA
1 AAAAAGA
12999662 AAAA
1 AAAA
12999666 CTTAAAAACA
Statistics
Matches: 41, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
7 29 0.71
8 11 0.27
9 1 0.02
ACGTcount: A:0.74, C:0.02, G:0.24, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:13000343 original size:20 final size:21
Alignment explanation
Indices: 13000309--13000355 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
13000299 TTCCCGTGTT
* *
13000309 AAAAAATTTCGAGTTTTGA-A
1 AAAAAATTTCAAGTTTTCACA
*
13000329 AAAAAATTTTAAGTTTTCACA
1 AAAAAATTTCAAGTTTTCACA
13000350 AAAAAA
1 AAAAAA
13000356 AAGAAGAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.53, C:0.06, G:0.09, T:0.32
Consensus pattern (21 bp):
AAAAAATTTCAAGTTTTCACA
Found at i:13000469 original size:37 final size:37
Alignment explanation
Indices: 13000362--13000627 Score: 237
Period size: 37 Copynumber: 7.2 Consensus size: 37
13000352 AAAAAAGAAG
* * *
13000362 AAAAAATTTTCGTGTTACAAAGAA-TTTCATGTTTTC
1 AAAAAATTTTCGTGTTTCAAAAAATTTTCGTGTTTTC
* * *
13000398 AAAAAATTCTCGTGCTT--AAAAATTTTCGTCTTTTC
1 AAAAAATTTTCGTGTTTCAAAAAATTTTCGTGTTTTC
*
13000433 AAAAAATTTTCGTATTTCAAAAAATTTTC-TCGTTTTC
1 AAAAAATTTTCGTGTTTCAAAAAATTTTCGT-GTTTTC
*
13000470 AAAAATATCTTTCGTGTTTCAAAGAA-TTTCGTGTTTTC
1 AAAAA-AT-TTTCGTGTTTCAAAAAATTTTCGTGTTTTC
* * * *
13000508 AAAAAATTTTCTCATGCTT--AAAAATTTTTGTATTTTC
1 AAAAAA-TTT-TCGTGTTTCAAAAAATTTTCGTGTTTTC
13000545 AAAAAAATTTCTCGTGTTT--AAAAATTTTCGTGTTTTC
1 -AAAAAATTT-TCGTGTTTCAAAAAATTTTCGTGTTTTC
* *
13000582 AAAAAAAAAATGTTCTTGTTTCAAAAAATTTT-GTGTTTTC
1 ----AAAAAATTTTCGTGTTTCAAAAAATTTTCGTGTTTTC
13000622 AAAAAA
1 AAAAAA
13000628 AAAATTGTGT
Statistics
Matches: 191, Mismatches: 23, Indels: 32
0.78 0.09 0.13
Matches are distributed among these distances:
34 4 0.02
35 24 0.13
36 25 0.13
37 59 0.31
38 30 0.16
39 23 0.12
40 17 0.09
41 9 0.05
ACGTcount: A:0.36, C:0.12, G:0.09, T:0.44
Consensus pattern (37 bp):
AAAAAATTTTCGTGTTTCAAAAAATTTTCGTGTTTTC
Found at i:13000501 original size:17 final size:18
Alignment explanation
Indices: 13000362--13000627 Score: 174
Period size: 18 Copynumber: 14.3 Consensus size: 18
13000352 AAAAAAGAAG
*
13000362 AAAAAATTTTCGTGTTAC
1 AAAAAATTTTCGTGTTTC
* *
13000380 AAAGAA-TTTCATGTTTTC
1 AAAAAATTTTCGTG-TTTC
* *
13000398 AAAAAATTCTCGTGCTT-
1 AAAAAATTTTCGTGTTTC
*
13000415 -AAAAATTTTCGTCTTTTC
1 AAAAAATTTTCGT-GTTTC
*
13000433 AAAAAATTTTCGTATTTC
1 AAAAAATTTTCGTGTTTC
13000451 AAAAAATTTTC-TCGTTTTC
1 AAAAAATTTTCGT-G-TTTC
13000470 AAAAATATCTTTCGTGTTTC
1 AAAAA-AT-TTTCGTGTTTC
*
13000490 AAAGAA-TTTCGTGTTTTC
1 AAAAAATTTTCGTG-TTTC
* *
13000508 AAAAAATTTTCTCATGCTT-
1 AAAAAA-TTT-TCGTGTTTC
* *
13000527 -AAAAATTTTTGTATTTTC
1 AAAAAATTTTCGT-GTTTC
13000545 AAAAAAATTTCTCGTGTTT-
1 -AAAAAATTT-TCGTGTTTC
13000564 -AAAAATTTTCGTGTTTTC
1 AAAAAATTTTCGTG-TTTC
* *
13000582 AAAAAAAAAATGTTCTTGTTTC
1 ----AAAAAATTTTCGTGTTTC
13000604 AAAAAATTTT-GTGTTTTC
1 AAAAAATTTTCGTG-TTTC
13000622 AAAAAA
1 AAAAAA
13000628 AAAATTGTGT
Statistics
Matches: 195, Mismatches: 26, Indels: 54
0.71 0.09 0.20
Matches are distributed among these distances:
16 18 0.09
17 34 0.17
18 63 0.32
19 27 0.14
20 25 0.13
21 12 0.06
22 5 0.03
23 11 0.06
ACGTcount: A:0.36, C:0.12, G:0.09, T:0.44
Consensus pattern (18 bp):
AAAAAATTTTCGTGTTTC
Found at i:13000588 original size:75 final size:74
Alignment explanation
Indices: 13000362--13000587 Score: 236
Period size: 75 Copynumber: 3.1 Consensus size: 74
13000352 AAAAAAGAAG
* * * * *
13000362 AAAAAATTTTCGTGTTACAAAGAA-TTTCAT-GTTTTC-AAAAAA-TTCTCGTGCTTAAAAATTT
1 AAAAAATTTTCGTATTTCAAAAAATTTTC-TCATTTTCAAAAAAATTTCTCGTGTTTAAAAATTT
*
13000423 TCGTCTTTTC
65 TCGTGTTTTC
* *
13000433 AAAAAATTTTCGTATTTCAAAAAATTTTCTCGTTTTCAAAAATATCTT-TCGTGTTTCAAAGAA-
1 AAAAAATTTTCGTATTTCAAAAAATTTTCTCATTTTCAAAAAAAT-TTCTCGTGTTT-AAA-AAT
13000496 TTTCGTGTTTTC
63 TTTCGTGTTTTC
* *
13000508 AAAAAATTTTC-TCATGCTT-AAAAATTTTTGT-ATTTTCAAAAAAATTTCTCGTGTTTAAAAAT
1 AAAAAATTTTCGT-AT--TTCAAAAAATTTTCTCATTTTCAAAAAAATTTCTCGTGTTTAAAAAT
13000570 TTTCGTGTTTTC
63 TTTCGTGTTTTC
13000582 AAAAAA
1 AAAAAA
13000588 AAAATGTTCT
Statistics
Matches: 133, Mismatches: 10, Indels: 21
0.81 0.06 0.13
Matches are distributed among these distances:
71 22 0.17
72 10 0.08
73 7 0.05
74 31 0.23
75 49 0.37
76 12 0.09
77 2 0.02
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (74 bp):
AAAAAATTTTCGTATTTCAAAAAATTTTCTCATTTTCAAAAAAATTTCTCGTGTTTAAAAATTTT
CGTGTTTTC
Found at i:13000698 original size:19 final size:18
Alignment explanation
Indices: 13000656--13000690 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13000646 TTCTCCCGTT
13000656 TTAAAATTTTTCGTGTTG
1 TTAAAATTTTTCGTGTTG
*
13000674 TCAAAATTTTTCGTGTT
1 TTAAAATTTTTCGTGTT
13000691 TTATAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.09, G:0.14, T:0.54
Consensus pattern (18 bp):
TTAAAATTTTTCGTGTTG
Found at i:13002419 original size:16 final size:16
Alignment explanation
Indices: 13002398--13002429 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13002388 TTCACTTGTC
*
13002398 ATTCATTCATTCATTG
1 ATTCATTCATGCATTG
13002414 ATTCATTCATGCATTG
1 ATTCATTCATGCATTG
13002430 CATGTACATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (16 bp):
ATTCATTCATGCATTG
Found at i:13006399 original size:1 final size:1
Alignment explanation
Indices: 13006393--13006510 Score: 92
Period size: 1 Copynumber: 118.0 Consensus size: 1
13006383 TATTATGCTT
* * * * * * * * *
13006393 AAAAAAAAGAACAAAAAAAACAAATAAAAAAACAAAAAAAAACAAAAAAACAAAAACAAAAACAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * *
13006458 AAACAAAAAAACAAAAAAAAATAAAAAAAAAACAAAGAAAAGAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
13006511 TCAAGATGAA
Statistics
Matches: 85, Mismatches: 32, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 85 1.00
ACGTcount: A:0.86, C:0.08, G:0.03, T:0.02
Consensus pattern (1 bp):
A
Found at i:13006410 original size:12 final size:12
Alignment explanation
Indices: 13006393--13006510 Score: 107
Period size: 12 Copynumber: 9.6 Consensus size: 12
13006383 TATTATGCTT
* *
13006393 AAAAAAAAGAAC
1 AAAAAAAACAAA
13006405 AAAAAAAACAAA
1 AAAAAAAACAAA
*
13006417 TAAAAAAACAAA
1 AAAAAAAACAAA
13006429 AAAAAACAA-AAA
1 AAAAAA-AACAAA
*
13006441 AACAAAAACAAA
1 AAAAAAAACAAA
*
13006453 AACAAAAACAAA
1 AAAAAAAACAAA
13006465 AAAACAAAA-AAA
1 AAAA-AAAACAAA
13006477 AATAAAAAA-AAA
1 AA-AAAAAACAAA
*
13006489 ACAAAGAAAAGAAA
1 A-AAA-AAAACAAA
13006503 AAGAAAAA
1 AA-AAAAA
13006511 TCAAGATGAA
Statistics
Matches: 92, Mismatches: 6, Indels: 15
0.81 0.05 0.13
Matches are distributed among these distances:
11 2 0.02
12 67 0.73
13 17 0.18
14 6 0.07
ACGTcount: A:0.86, C:0.08, G:0.03, T:0.02
Consensus pattern (12 bp):
AAAAAAAACAAA
Found at i:13006430 original size:30 final size:30
Alignment explanation
Indices: 13006396--13006504 Score: 114
Period size: 30 Copynumber: 3.5 Consensus size: 30
13006386 TATGCTTAAA
*
13006396 AAAAAGAACAAAAAAAACAAATAAAAAAAC
1 AAAAAGAAAAAAAAAAACAAATAAAAAAAC
13006426 AAAAA-AAAACAAAAAAACAAA-AACAAAAAC
1 AAAAAGAAAA-AAAAAAACAAATAA-AAAAAC
* * *
13006456 AAAAACAAAAAAACAAAAAAAAATAAAAAAAA
1 AAAAA-GAAAAAA-AAAAACAAATAAAAAAAC
*
13006488 AACAAAGAAAAGAAAAA
1 AA-AAAGAAAAAAAAAA
13006505 GAAAAATCAA
Statistics
Matches: 67, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
29 5 0.07
30 27 0.40
31 6 0.09
32 24 0.36
33 5 0.07
ACGTcount: A:0.86, C:0.09, G:0.03, T:0.02
Consensus pattern (30 bp):
AAAAAGAAAAAAAAAAACAAATAAAAAAAC
Found at i:13006448 original size:36 final size:36
Alignment explanation
Indices: 13006408--13006510 Score: 124
Period size: 36 Copynumber: 2.9 Consensus size: 36
13006398 AAAGAACAAA
13006408 AAAAACAAATAA-AAAAACAAAAAAA-AACAAAAAAAC
1 AAAAACAAA-AACAAAAACAAAAAAACAA-AAAAAAAC
*
13006444 AAAAACAAAAACAAAAACAAAAAAACAAAAAAAAAT
1 AAAAACAAAAACAAAAACAAAAAAACAAAAAAAAAC
*
13006480 AAAAA-AAAAACAAAGAA-AAGAAAAAGAAAAA
1 AAAAACAAAAACAAA-AACAA-AAAAACAAAAA
13006511 TCAAGATGAA
Statistics
Matches: 61, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
35 13 0.21
36 46 0.75
37 2 0.03
ACGTcount: A:0.86, C:0.09, G:0.03, T:0.02
Consensus pattern (36 bp):
AAAAACAAAAACAAAAACAAAAAAACAAAAAAAAAC
Found at i:13006466 original size:44 final size:44
Alignment explanation
Indices: 13006393--13006489 Score: 142
Period size: 44 Copynumber: 2.2 Consensus size: 44
13006383 TATTATGCTT
* *
13006393 AAAAAAAAGAACAAAAAAAACAAATAAAAAAACAAAAAAAAACA
1 AAAAAAAAAAACAAAAAAAACAAACAAAAAAACAAAAAAAAACA
* *
13006437 AAAAAACAAAAACAAAAACAA-AAACAAAAAAACAAAAAAAAATA
1 AAAAAA-AAAAACAAAAAAAACAAACAAAAAAACAAAAAAAAACA
13006481 AAAAAAAAA
1 AAAAAAAAA
13006490 CAAAGAAAAG
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
43 3 0.06
44 33 0.69
45 12 0.25
ACGTcount: A:0.88, C:0.09, G:0.01, T:0.02
Consensus pattern (44 bp):
AAAAAAAAAAACAAAAAAAACAAACAAAAAAACAAAAAAAAACA
Found at i:13006504 original size:44 final size:42
Alignment explanation
Indices: 13006392--13006510 Score: 141
Period size: 44 Copynumber: 2.7 Consensus size: 42
13006382 ATATTATGCT
* *
13006392 TAAAAAAAAGAACAAAAAAAACAAATAAAAAAACAAAAAAAAA
1 TAAAAAAAA-AACAAAAAAAAAAAACAAAAAAACAAAAAAAAA
*
13006435 CAAAAAAACAAA-AACAAAAACAAAAACAAAAAAACAAAAAAAAA
1 TAAAAAAA-AAACAA-AAAAA-AAAAACAAAAAAACAAAAAAAAA
*
13006479 TAAAAAAAAAACAAAGAAAAGAAAAAGAAAAA
1 TAAAAAAAAAACAAA-AAAA-AAAAACAAAAA
13006511 TCAAGATGAA
Statistics
Matches: 65, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
42 2 0.03
43 18 0.28
44 45 0.69
ACGTcount: A:0.86, C:0.08, G:0.03, T:0.03
Consensus pattern (42 bp):
TAAAAAAAAAACAAAAAAAAAAAACAAAAAAACAAAAAAAAA
Found at i:13007647 original size:74 final size:74
Alignment explanation
Indices: 13007367--13008269 Score: 976
Period size: 74 Copynumber: 11.9 Consensus size: 74
13007357 TCAAGAATTA
* * * *
13007367 TATTTTTCAATTTCT-TTTTACAAAAAAATCAACTCATAGTGCGAGAGGTGAGTTGAGCCTCGGG
1 TATTTTTAAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGG
*
13007431 TCGCATGCCGAGG
64 T--CACGCCGAGG
*
13007444 TATTTCTTTTAAATTTCT-TTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAG
1 TA--T-TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGG
** *
13007508 ACCATGCCGAGG
63 GTCACGCCGAGG
*
13007520 TATTTCTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
1 TA--T-TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGG
13007585 GTCACGCCGAGG
63 GTCACGCCGAGG
* * * **
13007597 TATTTTTCAATTCCTGTTTTTCAAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCGGACC
1 TATTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTC
*
13007662 ATGCCGAGG
66 ACGCCGAGG
*
13007671 TATTTCTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGA
1 TA--T-TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGG
* *
13007736 GTCATGTCGAGG
63 GTCACGCCGAGG
* * * * * *
13007748 TATTTTTCAATTTCTGTTTTTCAAAAATTAACTCATATTACGAGAGGTGAGTTGAGCCTAGAGTC
1 TATTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTC
*
13007813 ACGTCGAGG
66 ACGCCGAGG
* * *
13007822 TATTTTTCAATTTCTG-TTTTCTAAAAATCAACTCATATTGCGAGAAATGGGTTGAGCCTCGGGT
1 TATTTTTAAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGT
*
13007886 CGCACGCTGAGG
65 --CACGCCGAGG
*
13007898 TA-TTTTAAATTTCTGTTTTTTAAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCG
1 TATTTTTAAATTTCTG-TTTTT---CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCG
* ***
13007962 AGTCATATCGAGG
62 GGTCACGCCGAGG
* * *
13007975 TATTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGA-TAGATGAGTTGAGCCTCGGGT
1 TATTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCGGG-
*
13008039 TGCACGCTGAGG
64 T-CACGCCGAGG
* * * * * *
13008051 TA-TTTTAAGTTTCTGTTTTTCAAAAACCAACTCATATTGCTAGAGGAGAGTTGAGCCTTGGGTC
1 TATTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTC
13008115 ACGTGCCGAGG
66 AC--GCCGAGG
* *
13008126 AATTTCTTTTAAATTT-TCGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
1 --TAT-TTTTAAATTTCT-GTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCG
* *
13008190 AGTTGCACGCTGAGG
62 -GGT-CACGCCGAGG
* * * * *
13008205 T-GTTTTAATTTTCTGTTTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTTGGGT
1 TATTTTTAAATTTCTG-TTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGT
13008269 C
65 C
13008270 GCATGTCGAG
Statistics
Matches: 713, Mismatches: 82, Indels: 65
0.83 0.10 0.08
Matches are distributed among these distances:
73 10 0.01
74 220 0.31
75 82 0.12
76 92 0.13
77 142 0.20
78 49 0.07
79 97 0.14
80 18 0.03
81 3 0.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (74 bp):
TATTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTC
ACGCCGAGG
Found at i:13007975 original size:153 final size:150
Alignment explanation
Indices: 13007390--13008263 Score: 1045
Period size: 151 Copynumber: 5.7 Consensus size: 150
13007380 CTTTTTACAA
* * *
13007390 AAAAATCAACTCATAGTGCGAGAGGTGAGTTGAGCCTCGGGTCGCATGCCGAGGTATTTCTTTTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT-GCACGCTGAGGTA--T-TTTTA
*
13007455 AATTTCT-TTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-AGACCATGCCGA
62 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAG-TCATGCCGA
13007518 GGTATTTCTTTTAAATTTCTGTTTTTC
126 GGTA--TCTTTTAAATTTCTGTTTTTC
* *
13007545 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT-CACGCCGAGGTATTTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTGCACGCTGAGGTATTTTTAAATT
* * *
13007609 CCTGTTTTTCAAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCG-GACCATGCCGAGGTA
66 TCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAG-TCATGCCGAGGTA
13007673 TTTCTTTTAAATTTCTGTTTTTC
130 --TCTTTTAAATTTCTGTTTTTC
* * * *
13007696 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGT-CATG-TCGAGGTATTTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTGCACGCT-GAGGTATTTTTAAAT
* * * * * *
13007759 TTCTGTTTTTCAAAAATTAACTCATATTACGAGAGGTGAGTTGAGCCTAGAGTCACGTCGAGGTA
65 TTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGTCATGCCGAGGTA
*
13007824 T-TTTTCAATTTCTG-TTTTC
130 TCTTTTAAATTTCTGTTTTTC
** *
13007843 TAAAAATCAACTCATATTGCGAGAAATGGGTTGAGCCTCGGGTCGCACGCTGAGGTA-TTTTAAA
1 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT-GCACGCTGAGGTATTTTTAAA
* **
13007907 TTTCTGTTTTTTAAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGTCATATCG
64 TTTCTG-TTTTT---CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGTCATGCCG
* *
13007972 AGGTAT-TTTTCAATTTCTATTTTTC
125 AGGTATCTTTTAAATTTCTGTTTTTC
* * *
13007997 AAAAATCAACTCATATTGCGATAGATGAGTTGAGCCTCGGGTTGCACGCTGAGGTA-TTTTAAGT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-TGCACGCTGAGGTATTTTTAAAT
* * * * * *
13008061 TTCTGTTTTTCAAAAACCAACTCATATTGCTAGAGGAGAGTTGAGCCTTGGGTCACGTGCCGAGG
65 TTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGTCA--TGCCGAGG
*
13008126 AATTTCTTTTAAATTT-TCGTTTTTC
128 --TATCTTTTAAATTTCT-GTTTTTC
* * *
13008151 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTTGCACGCTGAGGT-GTTTTAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG-GGTGCACGCTGAGGTATTTTTAAAT
* *
13008215 TTCTGTTTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCT
65 TTCTG-TTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
13008264 TGGGTCGCAT
Statistics
Matches: 642, Mismatches: 54, Indels: 46
0.87 0.07 0.06
Matches are distributed among these distances:
147 5 0.01
148 51 0.08
149 51 0.08
150 24 0.04
151 203 0.32
152 6 0.01
153 138 0.21
154 83 0.13
155 81 0.13
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (150 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTGCACGCTGAGGTATTTTTAAATT
TCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGTCATGCCGAGGTAT
CTTTTAAATTTCTGTTTTTC
Found at i:13008503 original size:29 final size:31
Alignment explanation
Indices: 13008470--13008547 Score: 126
Period size: 30 Copynumber: 2.6 Consensus size: 31
13008460 AAAAATTTGT
13008470 ATTTTGACCCCTAAACTTTTC-T-AAATTAC
1 ATTTTGACCCCTAAACTTTTCTTAAAATTAC
13008499 ATTTTGACCCCTAAAC-TTTCTTAAAATTAC
1 ATTTTGACCCCTAAACTTTTCTTAAAATTAC
*
13008529 ATTTTAACCCCTAAACTTT
1 ATTTTGACCCCTAAACTTT
13008548 ATCAGAATGA
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
28 4 0.09
29 17 0.38
30 22 0.49
31 2 0.04
ACGTcount: A:0.32, C:0.24, G:0.03, T:0.41
Consensus pattern (31 bp):
ATTTTGACCCCTAAACTTTTCTTAAAATTAC
Found at i:13008948 original size:22 final size:23
Alignment explanation
Indices: 13008914--13008974 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 23
13008904 AAAAACAAAG
*
13008914 AAAAA-AACAAGCAAAAG-AGAA
1 AAAAAGAAAAAGCAAAAGAAGAA
* *
13008935 AAAGAGAAAGAGC-AAAGAAGAA
1 AAAAAGAAAAAGCAAAAGAAGAA
*
13008957 AAAAAGAAAAAGGAAAAG
1 AAAAAGAAAAAGCAAAAG
13008975 GGGGAGAGCA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
21 8 0.26
22 19 0.61
23 4 0.13
ACGTcount: A:0.74, C:0.05, G:0.21, T:0.00
Consensus pattern (23 bp):
AAAAAGAAAAAGCAAAAGAAGAA
Found at i:13009090 original size:14 final size:13
Alignment explanation
Indices: 13009071--13009145 Score: 53
Period size: 13 Copynumber: 5.2 Consensus size: 13
13009061 ATCGGGGAAG
13009071 AAAGAAAGGAAGAA
1 AAAGAAA-GAAGAA
13009085 AAAG-AAGAAGGAA
1 AAAGAAAGAA-GAA
13009098 AGAAGAAAAGGGGAAGAA
1 A-AAG-AAA---GAAGAA
*
13009116 GAAAGAAAGAAAAA
1 -AAAGAAAGAAGAA
*
13009130 AAAGAAAAAAGAA
1 AAAGAAAGAAGAA
13009143 AAA
1 AAA
13009146 CTTAAAAACA
Statistics
Matches: 50, Mismatches: 3, Indels: 17
0.71 0.04 0.24
Matches are distributed among these distances:
12 3 0.06
13 20 0.40
14 12 0.24
16 2 0.04
17 3 0.06
18 6 0.12
19 4 0.08
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (13 bp):
AAAGAAAGAAGAA
Found at i:13009135 original size:31 final size:30
Alignment explanation
Indices: 13009078--13009137 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 30
13009068 AAGAAAGAAA
*
13009078 GGAAGAAAAAGAAGAAGGAAAGAAGAAAAGG
1 GGAAGAAAAAGAAGAA-GAAAAAAGAAAAGG
13009109 GGAAGAAGAAAGAAAGAA-AAAAAAGAAAA
1 GGAAGAA-AAAG-AAGAAGAAAAAAGAAAA
13009138 AAGAAAAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
31 17 0.65
32 4 0.15
33 5 0.19
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (30 bp):
GGAAGAAAAAGAAGAAGAAAAAAGAAAAGG
Found at i:13009869 original size:17 final size:16
Alignment explanation
Indices: 13009844--13009920 Score: 66
Period size: 17 Copynumber: 4.5 Consensus size: 16
13009834 AAAGGAAGAA
13009844 AAAAATTTCGTGTTAC
1 AAAAATTTCGTGTTAC
*
13009860 AAAGAATTTCGTGTTCTC
1 AAA-AATTTCGTGTT-AC
13009878 AAAAAATTCTCGTGCTTA-
1 -AAAAATT-TCGTG-TTAC
* *
13009896 AAAATTTTCGTGTTTTC
1 AAAAATTTCGTG-TTAC
13009913 AAAAATTT
1 AAAAATTT
13009921 TTCGTATTTC
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
16 10 0.20
17 24 0.49
18 5 0.10
19 8 0.16
20 2 0.04
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (16 bp):
AAAAATTTCGTGTTAC
Found at i:13009981 original size:17 final size:17
Alignment explanation
Indices: 13009843--13009996 Score: 139
Period size: 18 Copynumber: 8.5 Consensus size: 17
13009833 AAAAGGAAGA
*
13009843 AAAAAATTTCGTGTTAC
1 AAAAAATTTCGTGTTTC
*
13009860 AAAGAATTTCGTGTTCTC
1 AAAAAATTTCGTGTT-TC
*
13009878 AAAAAATTCTCGTGCTT-
1 AAAAAATT-TCGTGTTTC
*
13009895 AAAAATTTTCGTGTTTTC
1 AAAAAATTTCGTG-TTTC
* *
13009913 AAAAATTTTTCGTATTTC
1 AAAAA-ATTTCGTGTTTC
*
13009931 AAAAAATTTTCGCGTTTTC
1 AAAAAA-TTTCGTG-TTTC
13009950 AAAAATATCTTTCGTGTTTC
1 AAAAA-A--TTTCGTGTTTC
*
13009970 AAAGAATTTCGTGTTTTC
1 AAAAAATTTCGTG-TTTC
13009988 AAAAAATTT
1 AAAAAATTT
13009997 TCTCATGCTT
Statistics
Matches: 113, Mismatches: 14, Indels: 19
0.77 0.10 0.13
Matches are distributed among these distances:
16 5 0.04
17 30 0.27
18 40 0.35
19 23 0.20
20 9 0.08
21 6 0.05
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (17 bp):
AAAAAATTTCGTGTTTC
Found at i:13010047 original size:18 final size:18
Alignment explanation
Indices: 13010021--13010107 Score: 54
Period size: 17 Copynumber: 4.6 Consensus size: 18
13010011 TTTTTTGTAT
13010021 TTTCAAAAAAATTTCTCGTG
1 TTTC-AAAAAATTT-TCGTG
13010041 TTT--AAAAATTTTCGTG
1 TTTCAAAAAATTTTCGTG
* *
13010057 TTTTCAAAAAAAAAATGTTCTTG
1 -TTTC----AAAAAATTTTCGTG
*
13010080 TTTC-AAAAATTTTTGTG
1 TTTCAAAAAATTTTCGTG
13010097 TTTTCAAAAAA
1 -TTTCAAAAAA
13010108 AAAAAATGTG
Statistics
Matches: 53, Mismatches: 5, Indels: 19
0.69 0.06 0.25
Matches are distributed among these distances:
16 5 0.09
17 21 0.40
18 4 0.08
19 5 0.09
20 3 0.06
22 4 0.08
23 11 0.21
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (18 bp):
TTTCAAAAAATTTTCGTG
Found at i:13010068 original size:75 final size:73
Alignment explanation
Indices: 13009878--13010067 Score: 219
Period size: 75 Copynumber: 2.6 Consensus size: 73
13009868 TCGTGTTCTC
* *
13009878 AAAAAA-TTCTCGTGCTTAAAAATTTTCGTGTTTTCAAAAATTTTTCGTATTTCAAAAAATTTTC
1 AAAAAATTTCTCGTGTTTAAAAATTTTCGTGTTTTCAAAAAATTTTCGTATTT-AAAAAATTTTC
*
13009942 GCGTTTTCA
65 GCATTTTCA
* *
13009951 AAAATATCTT-TCGTGTTTCAAAGAA-TTTCGTGTTTTCAAAAAATTTTC-TCATGCTT-AAAAT
1 AAAAAAT-TTCTCGTGTTT-AAA-AATTTTCGTGTTTTCAAAAAATTTTCGT-AT--TTAAAAAA
* *
13010012 TTTTTGTATTTTCA
60 TTTTCGCATTTTCA
13010026 AAAAAATTTCTCGTGTTTAAAAATTTTCGTGTTTTCAAAAAA
1 AAAAAATTTCTCGTGTTTAAAAATTTTCGTGTTTTCAAAAAA
13010068 AAAATGTTCT
Statistics
Matches: 100, Mismatches: 8, Indels: 17
0.80 0.06 0.14
Matches are distributed among these distances:
73 7 0.07
74 31 0.31
75 58 0.58
76 2 0.02
77 2 0.02
ACGTcount: A:0.34, C:0.12, G:0.09, T:0.45
Consensus pattern (73 bp):
AAAAAATTTCTCGTGTTTAAAAATTTTCGTGTTTTCAAAAAATTTTCGTATTTAAAAAATTTTCG
CATTTTCA
Found at i:13010107 original size:39 final size:39
Alignment explanation
Indices: 13009842--13010110 Score: 164
Period size: 37 Copynumber: 7.2 Consensus size: 39
13009832 AAAAAGGAAG
* * *
13009842 AAAAAAATTTC-GTGTTACAAAGAA-TTTCGTGTTCTC--
1 AAAAAAATTTCTCTGTTTCAAA-AATTTTCGTGTTTTCAA
*
13009878 -AAAAAA-TTCTCGTGCTT-AAAAATTTTCGTGTTTTC--
1 AAAAAAATTTCTC-TGTTTCAAAAATTTTCGTGTTTTCAA
* * *
13009913 --AAAAATTTTTCGTATTTCAAAAAATTTTCGCGTTTTCAA
1 AAAAAAATTTCTC-TGTTTC-AAAAATTTTCGTGTTTTCAA
* ** *
13009952 AAATATCTTTC-GTGTTTCAAAGAA-TTTCGTGTTTTC--
1 AAAAAAATTTCTCTGTTTCAAA-AATTTTCGTGTTTTCAA
* * * * *
13009988 AAAAAATTTTCTCATGCTT-AAAATTTTTTGTATTTTC--
1 AAAAAAATTTCTC-TGTTTCAAAAATTTTCGTGTTTTCAA
13010025 AAAAAAATTTCTCGTGTTT-AAAAATTTTCGTGTTTTCAAA
1 AAAAAAATTTCTC-TGTTTCAAAAATTTTCGTGTTTTC-AA
*
13010065 AAAAAAATGTTCT-TGTTTCAAAAATTTTTGTGTTTTCAA
1 AAAAAAAT-TTCTCTGTTTCAAAAATTTTCGTGTTTTCAA
13010104 AAAAAAA
1 AAAAAAA
13010111 AAATGTGTTT
Statistics
Matches: 184, Mismatches: 30, Indels: 35
0.74 0.12 0.14
Matches are distributed among these distances:
34 10 0.05
35 28 0.15
36 12 0.07
37 61 0.33
38 18 0.10
39 21 0.11
40 25 0.14
41 9 0.05
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.43
Consensus pattern (39 bp):
AAAAAAATTTCTCTGTTTCAAAAATTTTCGTGTTTTCAA
Found at i:13011115 original size:9 final size:9
Alignment explanation
Indices: 13011101--13011140 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
13011091 TGGAAACAAG
13011101 AAAAAAGAA
1 AAAAAAGAA
13011110 AAAAAAGAA
1 AAAAAAGAA
13011119 AAAAAAGGAA
1 AAAAAA-GAA
* *
13011129 AGAAAACAA
1 AAAAAAGAA
13011138 AAA
1 AAA
13011141 GAAACAATGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
9 19 0.70
10 8 0.30
ACGTcount: A:0.85, C:0.03, G:0.12, T:0.00
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:13011129 original size:19 final size:18
Alignment explanation
Indices: 13011094--13011140 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
13011084 TCAATTATGG
13011094 AAACAAGAAAAAAGAAAAA
1 AAACAA-AAAAAAGAAAAA
* *
13011113 AAAGAAAAAAAAGGAAAGA
1 AAACAAAAAAAA-GAAAAA
13011132 AAACAAAAA
1 AAACAAAAA
13011141 GAAACAATGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 6 0.25
19 18 0.75
ACGTcount: A:0.83, C:0.04, G:0.13, T:0.00
Consensus pattern (18 bp):
AAACAAAAAAAAGAAAAA
Found at i:13016742 original size:13 final size:14
Alignment explanation
Indices: 13016724--13016752 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
13016714 TTTGGATGCA
13016724 TTGTTGTG-TGAAT
1 TTGTTGTGTTGAAT
13016737 TTGTTGTGTTGAAT
1 TTGTTGTGTTGAAT
13016751 TT
1 TT
13016753 CCGAATTCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.14, C:0.00, G:0.28, T:0.59
Consensus pattern (14 bp):
TTGTTGTGTTGAAT
Found at i:13017890 original size:7 final size:7
Alignment explanation
Indices: 13017874--13017937 Score: 51
Period size: 7 Copynumber: 8.7 Consensus size: 7
13017864 TATCAATTAT
*
13017874 AGAAACA
1 AGAAAAA
13017881 AGAAAAAA
1 AG-AAAAA
13017889 GAGAAAAA
1 -AGAAAAA
13017897 AGAAAAA
1 AGAAAAA
13017904 AGAAAAGA
1 AGAAAA-A
13017912 A-AAAAA
1 AGAAAAA
*
13017918 GGAAAGAA
1 AGAAA-AA
13017926 A-ACAAAA
1 AGA-AAAA
13017933 AGAAA
1 AGAAA
13017938 CAATGGAAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
6 1 0.02
7 28 0.60
8 16 0.34
9 2 0.04
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (7 bp):
AGAAAAA
Found at i:13017899 original size:16 final size:16
Alignment explanation
Indices: 13017874--13017906 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
13017864 TATCAATTAT
*
13017874 AGAAACAAGAAAAAAG
1 AGAAAAAAGAAAAAAG
13017890 AGAAAAAAGAAAAAAG
1 AGAAAAAAGAAAAAAG
13017906 A
1 A
13017907 AAAGAAAAAA
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:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (16 bp):
AGAAAAAAGAAAAAAG
Found at i:13017915 original size:13 final size:13
Alignment explanation
Indices: 13017880--13017927 Score: 60
Period size: 13 Copynumber: 3.5 Consensus size: 13
13017870 TTATAGAAAC
13017880 AAGAAAAAAGAGAA
1 AAGAAAAAA-AGAA
*
13017894 AAAAGAAAAAAGAA
1 AAGA-AAAAAAGAA
*
13017908 AAGAAAAAAAGGA
1 AAGAAAAAAAGAA
13017921 AAGAAAA
1 AAGAAAA
13017928 CAAAAAGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
13 15 0.50
14 10 0.33
15 5 0.17
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (13 bp):
AAGAAAAAAAGAA
Found at i:13022751 original size:27 final size:27
Alignment explanation
Indices: 13022721--13022774 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
13022711 TAAAAGAGAA
* *
13022721 TTGTAATTCCAAAAGAGTGTAATTACT
1 TTGTAATTACAAAAGAATGTAATTACT
* *
13022748 TTGTAGTTACAAGAGAATGTAATTACT
1 TTGTAATTACAAAAGAATGTAATTACT
13022775 ATCCCAATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (27 bp):
TTGTAATTACAAAAGAATGTAATTACT
Found at i:13028264 original size:27 final size:27
Alignment explanation
Indices: 13028234--13028286 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
13028224 ATTTAAAATA
13028234 ATTAATAAACATAAAAACCCTAATATC
1 ATTAATAAACATAAAAACCCTAATATC
* *
13028261 ATTAATAAAGATAATAACCCTAATAT
1 ATTAATAAACATAAAAACCCTAATAT
13028287 GAACTTACCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.55, C:0.15, G:0.02, T:0.28
Consensus pattern (27 bp):
ATTAATAAACATAAAAACCCTAATATC
Found at i:13033604 original size:45 final size:45
Alignment explanation
Indices: 13033554--13033704 Score: 187
Period size: 45 Copynumber: 3.4 Consensus size: 45
13033544 AAGCCTAAAC
13033554 ATGAGTAAGACCATGGCAGAAAGACACCATGGCATCACACTATCG
1 ATGAGTAAGACCATGGCAGAAAGACACCATGGCATCACACTATCG
* * *
13033599 ATGAGTAAGACTATGGCAGAATGACAGCATGGCATCACACTATCG
1 ATGAGTAAGACCATGGCAGAAAGACACCATGGCATCACACTATCG
** * * * * *
13033644 ATGAGTAAGACCATAACAAAAAGATACTATGGCATCATGA-TATAG
1 ATGAGTAAGACCATGGCAGAAAGACACCATGGCATCA-CACTATCG
*
13033689 ATGAGTAAGGCCATGG
1 ATGAGTAAGACCATGG
13033705 TTGGAAGATA
Statistics
Matches: 89, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
45 88 0.99
46 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.19
Consensus pattern (45 bp):
ATGAGTAAGACCATGGCAGAAAGACACCATGGCATCACACTATCG
Found at i:13039021 original size:290 final size:291
Alignment explanation
Indices: 13038500--13039084 Score: 1091
Period size: 290 Copynumber: 2.0 Consensus size: 291
13038490 TCCAATAGTG
* *
13038500 TGTTTGAAAAATAGACGAAGACATAATGCATCAAATGTGCCAACATGAAAGAAAAAAAATGCTTA
1 TGTTTGAAAAATAGACAAAGACACAATGCATCAAATGTGCCAACATGAAAGAAAAAAAATGCTTA
13038565 ACACTAACTTGTCGCTCAAGTCTTCAACTTAATCCAATTTGTCAATTGTAACAAAGTATGTATTA
66 ACACTAACTTGTCGCTCAAGTCTTCAACTTAATCCAATTTGTCAATTGTAACAAAGTATGTATTA
13038630 GCCAAAACTAGAAATCATATACCTTTAACCTATTAATGCCTAAAAATGTTATGTTTATTACATTT
131 GCCAAAACTAGAAATCATATACCTTTAACCTATTAATGCCTAAAAATGTTATGTTTATTACATTT
13038695 ATTTAAGACATATGTGACAAACGTGATGAAATTTTAGTTCCTTCAAATTCTATTCCTAAACATGT
196 ATTTAAGACATATGTGACAAACGTGATGAAATTTTAGTTCCTTCAAATTCTATTCCTAAACATGT
*
13038760 GGATGGGAATGATTTGCAAGCTAAAATAATT
261 GGATGAGAATGATTTGCAAGCTAAAATAATT
13038791 TGTTTGAAAAATAGACAAAGACACAATGCATCAAATGTGCCAACATGAAAG-AAAAAAATGCTTA
1 TGTTTGAAAAATAGACAAAGACACAATGCATCAAATGTGCCAACATGAAAGAAAAAAAATGCTTA
* *
13038855 ACGCTAACTTGTCGCTCAGGTCTTCAACTTAATCCAATTTGTCAATTGTAACAAAGTATGTATTA
66 ACACTAACTTGTCGCTCAAGTCTTCAACTTAATCCAATTTGTCAATTGTAACAAAGTATGTATTA
* *
13038920 GCCAAAACTAGAAATCATATACCTTTAACCTATTGATGCCTAATAATGTTATGTTTATTACATTT
131 GCCAAAACTAGAAATCATATACCTTTAACCTATTAATGCCTAAAAATGTTATGTTTATTACATTT
*
13038985 ATTTAAGACATATGTGACAAACGTGATGGAATTTTAGTTCCTTCAAATTCTATTCCTAAACATGT
196 ATTTAAGACATATGTGACAAACGTGATGAAATTTTAGTTCCTTCAAATTCTATTCCTAAACATGT
13039050 GGATGAGAATGATTTGCAAGCTAAAATAATT
261 GGATGAGAATGATTTGCAAGCTAAAATAATT
13039081 TGTT
1 TGTT
13039085 AATAATCTCT
Statistics
Matches: 286, Mismatches: 8, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
290 237 0.83
291 49 0.17
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (291 bp):
TGTTTGAAAAATAGACAAAGACACAATGCATCAAATGTGCCAACATGAAAGAAAAAAAATGCTTA
ACACTAACTTGTCGCTCAAGTCTTCAACTTAATCCAATTTGTCAATTGTAACAAAGTATGTATTA
GCCAAAACTAGAAATCATATACCTTTAACCTATTAATGCCTAAAAATGTTATGTTTATTACATTT
ATTTAAGACATATGTGACAAACGTGATGAAATTTTAGTTCCTTCAAATTCTATTCCTAAACATGT
GGATGAGAATGATTTGCAAGCTAAAATAATT
Found at i:13039387 original size:23 final size:23
Alignment explanation
Indices: 13039325--13039380 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
13039315 GCTCACTCAA
*
13039325 TTATATGTTAAATTATTATAATT
1 TTATAAGTTAAATTATTATAATT
13039348 TTATAAGTTAAATTATTATAATT
1 TTATAAGTTAAATTATTATAATT
13039371 TTATAAGTTA
1 TTATAAGTTA
13039381 CTTTATTGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (23 bp):
TTATAAGTTAAATTATTATAATT
Found at i:13041473 original size:25 final size:26
Alignment explanation
Indices: 13041427--13041483 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
13041417 GCTCAATCAT
* * *
13041427 AGTCATACATATCATAGAGCCA-ATC
1 AGTCATACATAACAAAGAGCCATAAC
13041452 AGTCATACATAACACAAG-GCCATAAC
1 AGTCATACATAACA-AAGAGCCATAAC
13041478 AGTCAT
1 AGTCAT
13041484 TTCATCTCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 17 0.63
26 10 0.37
ACGTcount: A:0.42, C:0.25, G:0.12, T:0.21
Consensus pattern (26 bp):
AGTCATACATAACAAAGAGCCATAAC
Found at i:13041523 original size:27 final size:27
Alignment explanation
Indices: 13041493--13041609 Score: 141
Period size: 27 Copynumber: 4.3 Consensus size: 27
13041483 TTTCATCTCT
**
13041493 TAGGGGTATAAAAGTCATTTTACCCTA
1 TAGGGGTATATCAGTCATTTTACCCTA
*
13041520 TAGGGGTATTTC-GATCATTTTACCCTA
1 TAGGGGTATATCAG-TCATTTTACCCTA
* *
13041547 T-GAGGGTATTTCGGTCATTTTACCCTA
1 TAG-GGGTATATCAGTCATTTTACCCTA
13041574 T-GAGGGTATATCAGTCATTTTACCCTA
1 TAG-GGGTATATCAGTCATTTTACCCTA
13041601 TAGGGGTAT
1 TAGGGGTAT
13041610 TTTGATCATT
Statistics
Matches: 81, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
26 2 0.02
27 77 0.95
28 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (27 bp):
TAGGGGTATATCAGTCATTTTACCCTA
Found at i:13041618 original size:27 final size:27
Alignment explanation
Indices: 13041507--13041624 Score: 161
Period size: 27 Copynumber: 4.4 Consensus size: 27
13041497 GGTATAAAAG
13041507 TCATTTTACCCTAT-AGGGGTATTTCGA
1 TCATTTTACCCTATGA-GGGTATTTCGA
*
13041534 TCATTTTACCCTATGAGGGTATTTCGG
1 TCATTTTACCCTATGAGGGTATTTCGA
*
13041561 TCATTTTACCCTATGAGGGTATATC-A
1 TCATTTTACCCTATGAGGGTATTTCGA
*
13041587 GTCATTTTACCCTAT-AGGGGTATTTTGA
1 -TCATTTTACCCTATGA-GGGTATTTCGA
13041615 TCATTTTACC
1 TCATTTTACC
13041625 TATTTTAGGG
Statistics
Matches: 82, Mismatches: 5, Indels: 8
0.86 0.05 0.08
Matches are distributed among these distances:
26 1 0.01
27 79 0.96
28 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.42
Consensus pattern (27 bp):
TCATTTTACCCTATGAGGGTATTTCGA
Found at i:13041894 original size:19 final size:19
Alignment explanation
Indices: 13041859--13041896 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
13041849 GTGTGGGGCC
*
13041859 CACGAGCCCATTGAGCCCA
1 CACGAGCCCATTCAGCCCA
13041878 CACG-GCCCATTTCAGCCCA
1 CACGAGCCCA-TTCAGCCCA
13041897 ACGTGGCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.24, C:0.45, G:0.18, T:0.13
Consensus pattern (19 bp):
CACGAGCCCATTCAGCCCA
Found at i:13049252 original size:22 final size:22
Alignment explanation
Indices: 13049227--13049280 Score: 90
Period size: 22 Copynumber: 2.4 Consensus size: 22
13049217 TAAATTATCC
*
13049227 TAATAAACTAGGACAATTACTT
1 TAATAAACTAGGAAAATTACTT
13049249 TAATAAACTAGGAAAATTACTT
1 TAATAAACTAGGAAAATTACTT
13049271 TAATTAAACT
1 TAA-TAAACT
13049281 TAATTTATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 24 0.80
23 6 0.20
ACGTcount: A:0.48, C:0.11, G:0.07, T:0.33
Consensus pattern (22 bp):
TAATAAACTAGGAAAATTACTT
Found at i:13050527 original size:13 final size:14
Alignment explanation
Indices: 13050499--13050528 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
13050489 CAATTTTATT
13050499 AATGAAATATTTAA
1 AATGAAATATTTAA
13050513 AATGAAATA-TTAA
1 AATGAAATATTTAA
13050526 AAT
1 AAT
13050529 ATAACATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (14 bp):
AATGAAATATTTAA
Found at i:13056900 original size:26 final size:26
Alignment explanation
Indices: 13056871--13056930 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
13056861 AACTTGCCAA
*
13056871 GCCCACTAGAGACCACAGTTCACTAG
1 GCCCACTAGAGACCACAGCTCACTAG
* **
13056897 GCCCATTAGAGACCATGGCTCACTAG
1 GCCCACTAGAGACCACAGCTCACTAG
13056923 GCCCACTA
1 GCCCACTA
13056931 ATGATCCCTG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.28, C:0.35, G:0.20, T:0.17
Consensus pattern (26 bp):
GCCCACTAGAGACCACAGCTCACTAG
Found at i:13060728 original size:9 final size:9
Alignment explanation
Indices: 13060714--13060789 Score: 82
Period size: 9 Copynumber: 8.4 Consensus size: 9
13060704 TTTGGTTAAA
13060714 AATTAACCG
1 AATTAACCG
*
13060723 AATTAACTG
1 AATTAACCG
*
13060732 AATTAACCA
1 AATTAACCG
13060741 AATTAACCG
1 AATTAACCG
*
13060750 AATTAACTG
1 AATTAACCG
* *
13060759 AATTACCCA
1 AATTAACCG
13060768 AATT-ACCTG
1 AATTAACC-G
*
13060777 AATTACCCG
1 AATTAACCG
13060786 AATT
1 AATT
13060790 GAATCACTAC
Statistics
Matches: 54, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
8 2 0.04
9 50 0.93
10 2 0.04
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:13060745 original size:27 final size:27
Alignment explanation
Indices: 13060713--13060781 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
13060703 TTTTGGTTAA
13060713 AAATTAACCGAATTAACTGAATTAACC
1 AAATTAACCGAATTAACTGAATTAACC
*
13060740 AAATTAACCGAATTAACTGAATTACCC
1 AAATTAACCGAATTAACTGAATTAACC
13060767 AAATT-ACCTGAATTA
1 AAATTAACC-GAATTA
13060782 CCCGAATTGA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 3 0.08
27 37 0.93
ACGTcount: A:0.46, C:0.19, G:0.07, T:0.28
Consensus pattern (27 bp):
AAATTAACCGAATTAACTGAATTAACC
Found at i:13060834 original size:37 final size:37
Alignment explanation
Indices: 13060788--13060862 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
13060778 ATTACCCGAA
* * *
13060788 TTGAATCACTACATAATTAAAAATATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATCACATAACTCT
13060825 TTGAATCACTACATAATTAAAAACATCACATAACTCT
1 TTGAATCACTACATAATTAAAAACATCACATAACTCT
13060862 T
1 T
13060863 GAAATTAACA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.45, C:0.17, G:0.04, T:0.33
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATCACATAACTCT
Found at i:13061038 original size:38 final size:39
Alignment explanation
Indices: 13060994--13061071 Score: 140
Period size: 38 Copynumber: 2.0 Consensus size: 39
13060984 ACTTAAGAGT
*
13060994 TAGACTTTAGTTTTATTTTTATTGGGTT-GGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTAGGTAATTGGG
13061032 TAGACTTTAGTTTTAGTTTTATTGGGTTAGGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTAGGTAATTGGG
13061071 T
1 T
13061072 TGGGTAATTG
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 27 0.71
39 11 0.29
ACGTcount: A:0.19, C:0.03, G:0.27, T:0.51
Consensus pattern (39 bp):
TAGACTTTAGTTTTAGTTTTATTGGGTTAGGTAATTGGG
Found at i:13061086 original size:13 final size:13
Alignment explanation
Indices: 13061052--13061089 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
13061042 TTTTAGTTTT
*
13061052 ATTGGGTTAGGTA
1 ATTGGGTTGGGTA
13061065 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
13061078 ATTGGGTTGGGT
1 ATTGGGTTGGGT
13061090 TGGATAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.16, C:0.00, G:0.45, T:0.39
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Done.