Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167960.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_22, whole genome shotgun sequence
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: 19587844
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 68000 characters in sequence are not A, C, G, or T
File 74 of 105
Found at i:13000489 original size:15 final size:15
Alignment explanation
Indices: 13000454--13000507 Score: 58
Period size: 15 Copynumber: 3.6 Consensus size: 15
13000444 AATTAAAGCC
13000454 AAAAAAATGAAAAAAT
1 AAAAAAAT-AAAAAAT
*
13000470 -GAAAAATAAAAAAT
1 AAAAAAATAAAAAAT
*
13000484 AAAAAAAT-AATAAT
1 AAAAAAATAAAAAAT
13000498 AACAAAAATA
1 AA-AAAAATA
13000508 TAATAATAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
14 14 0.44
15 18 0.56
ACGTcount: A:0.80, C:0.02, G:0.04, T:0.15
Consensus pattern (15 bp):
AAAAAAATAAAAAAT
Found at i:13000495 original size:3 final size:3
Alignment explanation
Indices: 13000489--13000601 Score: 56
Period size: 3 Copynumber: 38.7 Consensus size: 3
13000479 AAAATAAAAA
* * *** *
13000489 AAT AAT AAT AAC AAA AAT -AT AAT AAT AAT GGC AAT AAT AAT AAT -GT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* ** * *
13000535 AAT AAT GAT AAT ACC AAT AAT AAT AAT -AT ACT -AT AAT ATT ATAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
* *
13000579 TAT AAT ATAT ACT -AT AAT AAT AA
1 AAT AAT A-AT AAT AAT AAT AAT AA
13000602 CAAAAATACT
Statistics
Matches: 78, Mismatches: 25, Indels: 14
0.67 0.21 0.12
Matches are distributed among these distances:
2 7 0.09
3 67 0.86
4 4 0.05
ACGTcount: A:0.58, C:0.05, G:0.04, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:13000498 original size:14 final size:15
Alignment explanation
Indices: 13000471--13000513 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
13000461 TGAAAAAATG
*
13000471 AAAAATAAAAAATAA-
1 AAAAAT-AATAATAAC
13000486 AAAAATAATAATAAC
1 AAAAATAATAATAAC
13000501 AAAAAT-ATAATAA
1 AAAAATAATAATAA
13000514 TAATGGCAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 14 0.54
15 12 0.46
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (15 bp):
AAAAATAATAATAAC
Found at i:13000507 original size:23 final size:21
Alignment explanation
Indices: 13000455--13000517 Score: 65
Period size: 22 Copynumber: 3.0 Consensus size: 21
13000445 ATTAAAGCCA
* *
13000455 AAAAAATGAAAAAATGAAAAAT
1 AAAAAATAAAAAAAT-AATAAT
13000477 AAAAAATAAAAAAATAATAAT
1 AAAAAATAAAAAAATAATAAT
* * *
13000498 AACAAA-AATATAATAATAAT
1 AAAAAATAAAAAAATAATAAT
13000518 GGCAATAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
20 12 0.33
21 10 0.28
22 14 0.39
ACGTcount: A:0.76, C:0.02, G:0.03, T:0.19
Consensus pattern (21 bp):
AAAAAATAAAAAAATAATAAT
Found at i:13000510 original size:17 final size:17
Alignment explanation
Indices: 13000471--13000516 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
13000461 TGAAAAAATG
*
13000471 AAAAATAA-AA-AATAA
1 AAAAATAATAATAACAA
13000486 AAAAATAATAATAACAA
1 AAAAATAATAATAACAA
*
13000503 AAATATAATAATAA
1 AAAAATAATAATAA
13000517 TGGCAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 8 0.30
16 2 0.07
17 17 0.63
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (17 bp):
AAAAATAATAATAACAA
Found at i:13000572 original size:13 final size:13
Alignment explanation
Indices: 13000554--13000600 Score: 69
Period size: 13 Copynumber: 3.7 Consensus size: 13
13000544 AATACCAATA
13000554 ATAATAATATACT
1 ATAATAATATACT
* *
13000567 ATAATATTATATT
1 ATAATAATATACT
13000580 ATAAT-ATATACT
1 ATAATAATATACT
13000592 ATAATAATA
1 ATAATAATA
13000601 ACAAAAATAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
12 10 0.34
13 19 0.66
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (13 bp):
ATAATAATATACT
Found at i:13002110 original size:16 final size:17
Alignment explanation
Indices: 13002089--13002122 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
13002079 AAAAGGCCTC
13002089 TTTTTATTTTTGT-TTA
1 TTTTTATTTTTGTGTTA
13002105 TTTTTATTTTTGTGTTA
1 TTTTTATTTTTGTGTTA
13002122 T
1 T
13002123 AACCATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.12, C:0.00, G:0.09, T:0.79
Consensus pattern (17 bp):
TTTTTATTTTTGTGTTA
Found at i:13006886 original size:35 final size:35
Alignment explanation
Indices: 13006826--13006927 Score: 96
Period size: 38 Copynumber: 2.8 Consensus size: 35
13006816 ATGAAACATA
* * *
13006826 CATAAAATGGAATGCATTTACTATCTATTGATGTG
1 CATAACATAGAATGCATGTACTATCTATTGATGTG
* * *
13006861 GATGACATAGAATGCATGTATTATCTTATTATGATGTG
1 CATAACATAGAATGCATGTACTATC-TA-T-TGATGTG
* * *
13006899 CATAAGATAGCATGCATGTACTACCTATT
1 CATAACATAGAATGCATGTACTATCTATT
13006928 AAGATGCCTG
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
35 20 0.38
36 3 0.06
37 3 0.06
38 26 0.50
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (35 bp):
CATAACATAGAATGCATGTACTATCTATTGATGTG
Found at i:13009240 original size:10 final size:10
Alignment explanation
Indices: 13009225--13009257 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
13009215 CCTAAAAAAT
13009225 AAAAATTTAA
1 AAAAATTTAA
13009235 AAAAATTTAA
1 AAAAATTTAA
*
13009245 GAAAA-TTAA
1 AAAAATTTAA
13009254 AAAA
1 AAAA
13009258 GTTACTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 7 0.33
10 14 0.67
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (10 bp):
AAAAATTTAA
Found at i:13016975 original size:29 final size:30
Alignment explanation
Indices: 13016942--13017001 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 30
13016932 CCAGCATCAG
13016942 GTGATGTATGAGAAAAAA-ATAACAAAAAT
1 GTGATGTATGAGAAAAAAGATAACAAAAAT
*
13016971 GTGATGTATGAGAAAAAAGATAACAAGAAT
1 GTGATGTATGAGAAAAAAGATAACAAAAAT
13017001 G
1 G
13017002 CATAACTTGG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 18 0.62
30 11 0.38
ACGTcount: A:0.55, C:0.03, G:0.22, T:0.20
Consensus pattern (30 bp):
GTGATGTATGAGAAAAAAGATAACAAAAAT
Found at i:13018330 original size:220 final size:220
Alignment explanation
Indices: 13017948--13018392 Score: 845
Period size: 220 Copynumber: 2.0 Consensus size: 220
13017938 TAGAAAGACT
13017948 AAATTTGTGTGAATCTCAGCATTCAACATCTCTAATGATTCTTCCCCACTAGTTACTACTATATA
1 AAATTTGTGTGAATCTCAGCATTCAACATCTCTAATGATTCTTCCCCACTAGTTACTACTATATA
* *
13018013 AAACTTTTTGAATTAAATATAGTTTCAAACGATAATGAAAGTTCTCAAATGGAAAAAATCAACAT
66 AAACCTTTTGAATTAAATATAGTTTCAAACGATAATGAAAGTTCTCAAATGGAAAAAAGCAACAT
13018078 CTCTAATGATTGCTACAACAGATATTTCATTTTGCTTCTCTAATACAATTAGTAAAAAGCATAAT
131 CTCTAATGATTGCTACAACAGATATTTCATTTTGCTTCTCTAATACAATTAGTAAAAAGCATAAT
13018143 TATGTTGAAAATCAAAAGATAATGA
196 TATGTTGAAAATCAAAAGATAATGA
*
13018168 AAATTTGTGTGAATCTCAGCATTCAACATCTCTAATGATTCTTCTCCACTAGTTACTACTATATA
1 AAATTTGTGTGAATCTCAGCATTCAACATCTCTAATGATTCTTCCCCACTAGTTACTACTATATA
*
13018233 AAACCTTTTGAATTAAATATAGTTTCAAACGATAATGAAAGTTCTCAAATGGTAAAAAGCAACAT
66 AAACCTTTTGAATTAAATATAGTTTCAAACGATAATGAAAGTTCTCAAATGGAAAAAAGCAACAT
13018298 CTCTAATGATTGCTACAACAGATATTTCATTTTGCTTCTCTAATACAATTAGTAAAAAGCATAAT
131 CTCTAATGATTGCTACAACAGATATTTCATTTTGCTTCTCTAATACAATTAGTAAAAAGCATAAT
*
13018363 TATGTTGAATATCAAAAGATAATGA
196 TATGTTGAAAATCAAAAGATAATGA
13018388 AAATT
1 AAATT
13018393 ATTAGAACAC
Statistics
Matches: 220, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
220 220 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (220 bp):
AAATTTGTGTGAATCTCAGCATTCAACATCTCTAATGATTCTTCCCCACTAGTTACTACTATATA
AAACCTTTTGAATTAAATATAGTTTCAAACGATAATGAAAGTTCTCAAATGGAAAAAAGCAACAT
CTCTAATGATTGCTACAACAGATATTTCATTTTGCTTCTCTAATACAATTAGTAAAAAGCATAAT
TATGTTGAAAATCAAAAGATAATGA
Found at i:13019235 original size:30 final size:30
Alignment explanation
Indices: 13019193--13019266 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
13019183 TTGATTTATG
* *
13019193 TTAAAAATTTATTT-AGCTACAAATTAAAGA-
1 TTAAAAGTTTATTTGA-ATACAAATTAAA-AT
* *
13019223 TTAAGAGTTTATTTGAATATAAATTAAAAT
1 TTAAAAGTTTATTTGAATACAAATTAAAAT
13019253 TTAAAAGTTTATTT
1 TTAAAAGTTTATTT
13019267 CAATGTAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 1 0.03
30 35 0.95
31 1 0.03
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (30 bp):
TTAAAAGTTTATTTGAATACAAATTAAAAT
Found at i:13019288 original size:54 final size:54
Alignment explanation
Indices: 13019217--13019319 Score: 131
Period size: 53 Copynumber: 1.9 Consensus size: 54
13019207 AGCTACAAAT
* *
13019217 TAAAGATTAAGAGTTTATTTGA-ATATAAATTAAAAT-TTAAAAGTTTATTTCAATG
1 TAAAGATTAAGAATTTATTT-ATATAT-AATAAAAATATT-AAAGTTTATTTCAATG
*
13019272 TAAA-ATTAAGAATTTATTTATGTATAATAAAAATATTAAAGTTTATTT
1 TAAAGATTAAGAATTTATTTATATATAATAAAAATATTAAAGTTTATTT
13019320 TAATAAAGTA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
53 20 0.47
54 19 0.44
55 4 0.09
ACGTcount: A:0.47, C:0.01, G:0.09, T:0.44
Consensus pattern (54 bp):
TAAAGATTAAGAATTTATTTATATATAATAAAAATATTAAAGTTTATTTCAATG
Found at i:13019324 original size:24 final size:23
Alignment explanation
Indices: 13019296--13019340 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
13019286 TATTTATGTA
*
13019296 TAATAAAAATATTAAAGTTTATTT
1 TAAT-AAAATAATAAAGTTTATTT
*
13019320 TAATAAAGTAATAAAGTTTAT
1 TAATAAAATAATAAAGTTTAT
13019341 ATATCTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (23 bp):
TAATAAAATAATAAAGTTTATTT
Found at i:13020881 original size:26 final size:25
Alignment explanation
Indices: 13020839--13020888 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
13020829 AAAATACTAA
*
13020839 AAATTATTTGTTATTAAAATATATTG
1 AAATTATTTATTATTAAAAT-TATTG
*
13020865 AAATTATTTATTTTTAAAATTATT
1 AAATTATTTATTATTAAAATTATT
13020889 TATATTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (25 bp):
AAATTATTTATTATTAAAATTATTG
Found at i:13020898 original size:15 final size:15
Alignment explanation
Indices: 13020858--13020898 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
13020848 GTTATTAAAA
*
13020858 TATATTGAAATTATT
1 TATATTAAAATTATT
*
13020873 TATTTTTAAAATTATT
1 TA-TATTAAAATTATT
13020889 TATATTAAAA
1 TATATTAAAA
13020899 AAAATAATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATATTAAAATTATT
Found at i:13020899 original size:16 final size:16
Alignment explanation
Indices: 13020865--13020951 Score: 54
Period size: 16 Copynumber: 5.2 Consensus size: 16
13020855 AAATATATTG
* *
13020865 AAATTATTTATTTTTA
1 AAATTATTTATATTAA
13020881 AAATTATTTATATTAAAA
1 AAATTATTTATATT--AA
* *
13020899 AAAATAATTAT-TTAA
1 AAATTATTTATATTAA
*
13020914 TAA-TATTTAATATTAAA
1 AAATTATTT-ATATT-AA
13020931 AAATTATGTTA-ATATAA
1 AAATTAT-TTATAT-TAA
13020948 AAAT
1 AAAT
13020952 ACTTAAAATA
Statistics
Matches: 56, Mismatches: 7, Indels: 15
0.72 0.09 0.19
Matches are distributed among these distances:
14 4 0.07
15 6 0.11
16 15 0.27
17 14 0.25
18 15 0.27
19 2 0.04
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (16 bp):
AAATTATTTATATTAA
Found at i:13020901 original size:18 final size:17
Alignment explanation
Indices: 13020865--13020950 Score: 56
Period size: 18 Copynumber: 5.1 Consensus size: 17
13020855 AAATATATTG
**
13020865 AAATTATTTAT-TTTTA
1 AAATTATTTATATTAAA
13020881 AAATTATTTATATTAAAA
1 AAATTATTTATATT-AAA
* *
13020899 AAAATAATTAT-TT-AA
1 AAATTATTTATATTAAA
*
13020914 TAA-TATTTAATATTAAA
1 AAATTATTT-ATATTAAA
13020931 AAATTATGTTA-ATATAAA
1 AAATTAT-TTATAT-TAAA
13020949 AA
1 AA
13020951 TACTTAAAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 14
0.72 0.09 0.18
Matches are distributed among these distances:
14 4 0.07
15 6 0.11
16 13 0.24
17 10 0.18
18 20 0.36
19 2 0.04
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.45
Consensus pattern (17 bp):
AAATTATTTATATTAAA
Found at i:13020998 original size:15 final size:15
Alignment explanation
Indices: 13020997--13021159 Score: 90
Period size: 15 Copynumber: 10.9 Consensus size: 15
13020987 TTTATTAATA
13020997 TATTAATATATTATT
1 TATTAATATATTATT
13021012 TATTAATA-A--ATT
1 TATTAATATATTATT
13021024 TATTAATATATTATGT
1 TATTAATATATTAT-T
* * *
13021040 TAATAGTGTATTATT
1 TATTAATATATTATT
*
13021055 TACTAATATATTA-T
1 TATTAATATATTATT
* *
13021069 TA-CAATAT-TTGTT
1 TATTAATATATTATT
* *
13021082 AATTAAATTAATAATATT
1 TATT-AA-T-ATATTATT
13021100 TATT-ATATTATTATT
1 TATTAATA-TATTATT
* * *
13021115 TATCAATAT-TAATA
1 TATTAATATATTATT
13021129 TATTAATATAATATTATT
1 TATT-A-AT-ATATTATT
*
13021147 TATGAATATATTA
1 TATTAATATATTA
13021160 GAATATTATT
Statistics
Matches: 111, Mismatches: 21, Indels: 32
0.68 0.13 0.20
Matches are distributed among these distances:
12 13 0.12
13 8 0.07
14 11 0.10
15 41 0.37
16 21 0.19
17 5 0.05
18 12 0.11
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (15 bp):
TATTAATATATTATT
Found at i:13021006 original size:23 final size:25
Alignment explanation
Indices: 13020980--13021037 Score: 84
Period size: 23 Copynumber: 2.3 Consensus size: 25
13020970 TATTATTCTT
13020980 TATATTATTTATTAAT-A-TATTAA
1 TATATTATTTATTAATAATTATTAA
13021003 TATATTATTTATTAATAAATTTATTAA
1 TATATTATTTATTAAT-AA-TTATTAA
13021030 TATATTAT
1 TATATTAT
13021038 GTTAATAGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
23 16 0.52
25 1 0.03
27 14 0.45
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
TATATTATTTATTAATAATTATTAA
Found at i:13021014 original size:27 final size:28
Alignment explanation
Indices: 13020979--13021037 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 28
13020969 TTATTATTCT
* *
13020979 TTATATTATTTATTAATATATTAATATA
1 TTATATTATTAATAAATATATTAATATA
*
13021007 TTAT-TTATTAATAAATTTATTAATATA
1 TTATATTATTAATAAATATATTAATATA
13021034 TTAT
1 TTAT
13021038 GTTAATAGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 24 0.86
28 4 0.14
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (28 bp):
TTATATTATTAATAAATATATTAATATA
Found at i:13021063 original size:66 final size:60
Alignment explanation
Indices: 13020982--13021169 Score: 161
Period size: 66 Copynumber: 3.1 Consensus size: 60
13020972 TTATTCTTTA
13020982 TATTATTTATTAATATATTAATATATTATTTATTAATAAATTTATTAATATATTATGTTAATAGT
1 TATTATTTA-TAATATATTAATATATTATTTATTAATAAATTTATTAATATATTA--TT-ATA-T
* * * * *
13021047 GTATTATTTACTAATATATTATTACAATATTTGTTAATTAAA-TTAATAATAT-TTATTATAT
1 -TATTATTTA-TAATATATTAATATATTATTTATTAA-TAAATTTATTAATATATTATTATAT
* * * * **
13021108 TATTATTTATCA-ATATTAATATATTA-ATA-TAATATTATTTATGAATATATTAGAATAT
1 TATTATTTATAATATATTAATATATTATTTATTAATA-AATTTATTAATATATTATTATAT
13021166 TATT
1 TATT
13021170 TATTAATCTT
Statistics
Matches: 101, Mismatches: 17, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
55 2 0.02
56 4 0.04
57 9 0.09
58 22 0.22
59 2 0.02
60 9 0.09
61 1 0.01
62 3 0.03
63 2 0.02
65 3 0.03
66 40 0.40
67 4 0.04
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (60 bp):
TATTATTTATAATATATTAATATATTATTTATTAATAAATTTATTAATATATTATTATAT
Found at i:13021112 original size:8 final size:8
Alignment explanation
Indices: 13020979--13021149 Score: 59
Period size: 8 Copynumber: 21.1 Consensus size: 8
13020969 TTATTATTCT
13020979 TTATATTA
1 TTATATTA
13020987 TT-TATTA
1 TTATATTA
*
13020994 ATATATTA
1 TTATATTA
*
13021002 ATATATTA
1 TTATATTA
13021010 TT-TATTA
1 TTATATTA
* *
13021017 ATAAATTTA
1 TTATA-TTA
13021026 TTA-ATATA
1 TTATAT-TA
*
13021034 TTATGTTAA
1 TTATATT-A
*
13021043 TAGTGTATTA
1 T--TATATTA
*
13021053 TT-TACTA
1 TTATATTA
*
13021060 ATATATTA
1 TTATATTA
* *
13021068 TTACAATA
1 TTATATTA
*
13021076 TT-TGTTAA
1 TTATATT-A
*
13021084 TTAAATTAA
1 TTATATT-A
*
13021093 TAATATTTA
1 TTATA-TTA
13021102 TTATATTA
1 TTATATTA
13021110 TTAT-TTA
1 TTATATTA
*
13021117 TCAATATTA
1 T-TATATTA
*
13021126 ATATATTA
1 TTATATTA
* *
13021134 ATATAATA
1 TTATATTA
13021142 TTAT-TTA
1 TTATATTA
13021149 T
1 T
13021150 GAATATATTA
Statistics
Matches: 121, Mismatches: 28, Indels: 29
0.68 0.16 0.16
Matches are distributed among these distances:
7 26 0.21
8 64 0.53
9 23 0.19
10 4 0.03
11 4 0.03
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (8 bp):
TTATATTA
Found at i:13021156 original size:18 final size:19
Alignment explanation
Indices: 13021119--13021156 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
13021109 ATTATTTATC
*
13021119 AATATTAATATATTAATAT
1 AATATTAATATATGAATAT
*
13021138 AATATT-ATTTATGAATAT
1 AATATTAATATATGAATAT
13021156 A
1 A
13021157 TTAGAATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (19 bp):
AATATTAATATATGAATAT
Found at i:13021771 original size:32 final size:32
Alignment explanation
Indices: 13021703--13021778 Score: 100
Period size: 32 Copynumber: 2.4 Consensus size: 32
13021693 CACTAAATAT
* * * *
13021703 GATTTCATTTGGTAAAATATTAATGCACATTT
1 GATTTCATTTGATAAAATATTAACGCACAGTG
13021735 GATTTCATTTGATAAAATATTAACGCATC-GTG
1 GATTTCATTTGATAAAATATTAACGCA-CAGTG
13021767 GATTTCATTTGA
1 GATTTCATTTGA
13021779 ATTCATTTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
32 38 0.97
33 1 0.03
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.42
Consensus pattern (32 bp):
GATTTCATTTGATAAAATATTAACGCACAGTG
Found at i:13023055 original size:40 final size:41
Alignment explanation
Indices: 13023011--13023094 Score: 125
Period size: 40 Copynumber: 2.1 Consensus size: 41
13023001 TAGTCTAGAT
* *
13023011 TATAACTTAATTATTATCAAATTATAGATTACT-GTTTATC
1 TATAACTCAATTATTATCAAATTACAGATTACTAGTTTATC
* *
13023051 TATAACTCAATTATTTTCAAATTACAGATTACTATTTTATC
1 TATAACTCAATTATTATCAAATTACAGATTACTAGTTTATC
13023092 TAT
1 TAT
13023095 CTTTTCACCT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 30 0.77
41 9 0.23
ACGTcount: A:0.37, C:0.12, G:0.04, T:0.48
Consensus pattern (41 bp):
TATAACTCAATTATTATCAAATTACAGATTACTAGTTTATC
Found at i:13023584 original size:23 final size:23
Alignment explanation
Indices: 13023554--13023869 Score: 103
Period size: 23 Copynumber: 13.6 Consensus size: 23
13023544 TAAAACTATA
*
13023554 ATAATATTATTTATGAATATATT
1 ATAATATTATTTATTAATATATT
13023577 ATAATATTATTTATTAATAATATTT
1 ATAATATTATTTATTAAT-ATA-TT
13023602 ATTAATA-TATTATATT-A-ATA--
1 A-TAATATTATT-TATTAATATATT
*
13023622 GT-ATATTATTTATTAATATATT
1 ATAATATTATTTATTAATATATT
* *
13023644 AATAA-AATATTTATTAAT-TA-A
1 -ATAATATTATTTATTAATATATT
*
13023665 ATTAATAATT-TTTATTATTATATT
1 A-TAAT-ATTATTTATTAATATATT
* * *
13023689 AT-TTGTTA-ATATTAATATATT
1 ATAATATTATTTATTAATATATT
* *
13023710 AGT-ATAATT-TTTATTTATA-ATA
1 A-TAAT-ATTATTTATTAATATATT
* * *
13023732 ATATTTATTAATTATTATTAT-TT
1 ATA-ATATTATTTATTAATATATT
*
13023755 ATGAATA-TATTAGAATATT-ATTTATT
1 AT-AATATTATT----TATTAATATATT
* *
13023781 AATATAATATTATTTATGAATATACT
1 -ATA--ATATTATTTATTAATATATT
*
13023807 ATAA-ATTTATTTAGTAATATATT
1 ATAATA-TTATTTATTAATATATT
* * ** *
13023830 ATGATATAATATTATTTTTTATTAAT
1 ATAATATTAT-TTA-TTAATA-TATT
13023856 ATAATATTATTTAT
1 ATAATATTATTTAT
13023870 AAGTAAAATC
Statistics
Matches: 213, Mismatches: 40, Indels: 79
0.64 0.12 0.24
Matches are distributed among these distances:
18 7 0.03
19 6 0.03
20 4 0.02
21 18 0.08
22 23 0.11
23 81 0.38
24 11 0.05
25 22 0.10
26 32 0.15
27 2 0.01
28 3 0.01
29 4 0.02
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.54
Consensus pattern (23 bp):
ATAATATTATTTATTAATATATT
Found at i:13023587 original size:26 final size:25
Alignment explanation
Indices: 13023550--13023790 Score: 98
Period size: 26 Copynumber: 8.9 Consensus size: 25
13023540 GATTTAAAAC
*
13023550 TATAATAATATTATTTATGAATATAT
1 TATAATATTATTATTTAT-AATATAT
*
13023576 TATAATATTATTTATTAATAATAT-T
1 TATAATATTA-TTATTTATAATATAT
*
13023601 TATTAATA-TATTATATTAATAGTATAT
1 TA-TAATATTATTAT-TT-ATAATATAT
* * *
13023628 TAT-TTATTAATATATTAATAAAATAT
1 TATAATATT-AT-TATTTATAATATAT
* * * *
13023654 T-TATTAATTA-AATTAATAATTTTTAT
1 TATAAT-ATTATTATTTATAA--TATAT
* *
13023680 TATTATATTATTTGTTAATATTAATATAT
1 TATAATATTA-TTATT--TA-TAATATAT
*
13023709 TAGT-ATAATTTTTATTTATAATAATATT
1 TA-TAAT-ATTATTATTTATAAT-ATA-T
13023737 TATTAATTATTATTATTTATGAATATAT
1 TA-TAA-TATTATTATTTAT-AATATAT
*
13023765 TAGAATATTATTTATTAATATAATAT
1 TATAATATTA-TTATT--TATAATAT
13023791 TATTTATGAA
Statistics
Matches: 165, Mismatches: 22, Indels: 54
0.68 0.09 0.22
Matches are distributed among these distances:
24 12 0.07
25 9 0.05
26 55 0.33
27 30 0.18
28 17 0.10
29 30 0.18
30 9 0.05
31 3 0.02
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (25 bp):
TATAATATTATTATTTATAATATAT
Found at i:13023709 original size:18 final size:17
Alignment explanation
Indices: 13023661--13023709 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
13023651 TATTTATTAA
13023661 TTAA-ATTAATA-ATTT
1 TTAATATTAATATATTT
*
13023676 TTATTATT-ATATTATTT
1 TTAATATTAATA-TATTT
13023693 GTTAATATTAATATATT
1 -TTAATATTAATATATT
13023710 AGTATAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
15 6 0.22
16 3 0.11
17 4 0.15
18 11 0.41
19 3 0.11
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (17 bp):
TTAATATTAATATATTT
Found at i:13023709 original size:29 final size:29
Alignment explanation
Indices: 13023597--13023790 Score: 116
Period size: 29 Copynumber: 6.7 Consensus size: 29
13023587 TTATTAATAA
* *
13023597 TATTTATTAATATATTATATTAATAGTATAT
1 TATTTATTAATAT-TAATA-TATTAGTATAT
* * *
13023628 TATTTATTAATATATTAATAAAATA-TTTAT
1 TATTTATT-A-ATATTAATATATTAGTATAT
* * *
13023658 TAATTAAATTAATAATT--TTTATTATTATAT
1 T-ATT-TATTAAT-ATTAATATATTAGTATAT
*
13023688 TATTTGTTAATATTAATATATTAGTATAAT
1 TATTTATTAATATTAATATATTAGTAT-AT
* * *
13023718 T-TTTATTTATAATAATAT-TTATTA-AT
1 TATTTATTAATATTAATATATTAGTATAT
* * *
13023744 TA-TTATTATTTATGAATATATTAGAATAT
1 TATTTATTA-ATATTAATATATTAGTATAT
13023773 TATTTATTAATA-TAATAT
1 TATTTATTAATATTAATAT
13023791 TATTTATGAA
Statistics
Matches: 125, Mismatches: 24, Indels: 31
0.69 0.13 0.17
Matches are distributed among these distances:
26 8 0.06
27 10 0.08
28 19 0.15
29 36 0.29
30 21 0.17
31 19 0.15
32 8 0.06
33 4 0.03
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (29 bp):
TATTTATTAATATTAATATATTAGTATAT
Found at i:13027528 original size:23 final size:21
Alignment explanation
Indices: 13027521--13027562 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
13027511 ATAAAAGAAT
*
13027521 AAAAGAAAAGAGAA-CAAAAA
1 AAAAGAAAAGAGAATAAAAAA
*
13027541 AAGAGAAAAGA-AATAAAAAA
1 AAAAGAAAAGAGAATAAAAAA
13027561 AA
1 AA
13027563 GGGCAGCACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.81, C:0.02, G:0.14, T:0.02
Consensus pattern (21 bp):
AAAAGAAAAGAGAATAAAAAA
Found at i:13027549 original size:20 final size:19
Alignment explanation
Indices: 13027524--13027561 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
13027514 AAAGAATAAA
13027524 AGAAAAGAGAACAAAAAAAG
1 AGAAAAGA-AACAAAAAAAG
*
13027544 AGAAAAGAAATAAAAAAA
1 AGAAAAGAAACAAAAAAA
13027562 AGGGCAGCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.79, C:0.03, G:0.16, T:0.03
Consensus pattern (19 bp):
AGAAAAGAAACAAAAAAAG
Found at i:13027552 original size:18 final size:18
Alignment explanation
Indices: 13027503--13027552 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
13027493 AATATGAGGG
* *
13027503 AAAAGAGAATAA-AAGAAT
1 AAAAGAGAA-AAGAACAAA
13027521 AAAAGA-AAAGAGAACAAA
1 AAAAGAGAAA-AGAACAAA
13027539 AAAAGAGAAAAGAA
1 AAAAGAGAAAAGAA
13027553 ATAAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
16 1 0.04
17 3 0.11
18 20 0.74
19 3 0.11
ACGTcount: A:0.76, C:0.02, G:0.18, T:0.04
Consensus pattern (18 bp):
AAAAGAGAAAAGAACAAA
Found at i:13027785 original size:19 final size:17
Alignment explanation
Indices: 13027761--13027795 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
13027751 ATAGAAGATA
13027761 AAGAAAGAAGGAAAAAAAG
1 AAGAAAG-A-GAAAAAAAG
13027780 AAGAAAGAGAAAAAAA
1 AAGAAAGAGAAAAAAA
13027796 ATGGTGGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 1 0.06
19 7 0.44
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (17 bp):
AAGAAAGAGAAAAAAAG
Found at i:13028902 original size:14 final size:15
Alignment explanation
Indices: 13028885--13028922 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
13028875 TTGAAGTGAT
13028885 AAAATAAAATTTTGAA
1 AAAATAAAATTTT-AA
13028901 AAAA-AAAATTTT-A
1 AAAATAAAATTTTAA
13028914 AAAATAAAA
1 AAAATAAAA
13028923 GCTAATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 5 0.24
14 4 0.19
15 8 0.38
16 4 0.19
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (15 bp):
AAAATAAAATTTTAA
Found at i:13030270 original size:15 final size:15
Alignment explanation
Indices: 13030238--13030272 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
13030228 CATTTTCATC
*
13030238 TTTTAAAAAAATATT
1 TTTTAAAAAAAGATT
13030253 TTTTAAAAAAAGGATT
1 TTTTAAAAAAA-GATT
13030269 TTTT
1 TTTT
13030273 TTTGTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (15 bp):
TTTTAAAAAAAGATT
Found at i:13032092 original size:38 final size:38
Alignment explanation
Indices: 13032050--13032157 Score: 94
Period size: 39 Copynumber: 2.8 Consensus size: 38
13032040 TTGAGAAAAT
*
13032050 TTAGGATTTCAAGGTTT-TA-TTTAGGGTTTAAGTTTATG
1 TTAGGATTT-AAGGTTTACACTTTAGGGTTTAA-TTTATG
* * *
13032088 TTAGGGTTTAGGGTTTACACTTTAGGGTTTAATTTATC
1 TTAGGATTTAAGGTTTACACTTTAGGGTTTAATTTATG
* * * * *
13032126 TATTGGGTTTAAGGTTGACATTTTAGGATTTA
1 T-TAGGATTTAAGGTTTACACTTTAGGGTTTA
13032158 GGGTTTCATT
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
37 6 0.10
38 15 0.26
39 37 0.64
ACGTcount: A:0.23, C:0.05, G:0.24, T:0.48
Consensus pattern (38 bp):
TTAGGATTTAAGGTTTACACTTTAGGGTTTAATTTATG
Found at i:13032112 original size:39 final size:39
Alignment explanation
Indices: 13032069--13032157 Score: 108
Period size: 39 Copynumber: 2.3 Consensus size: 39
13032059 CAAGGTTTTA
* * *
13032069 TTTAGGGTTTAAGTTTATGT-TAGGGTTTAGGGTTTACAC
1 TTTAGGGTTTAA-TTTATCTATAGGGTTTAAGGTTGACAC
* *
13032108 TTTAGGGTTTAATTTATCTATTGGGTTTAAGGTTGACAT
1 TTTAGGGTTTAATTTATCTATAGGGTTTAAGGTTGACAC
*
13032147 TTTAGGATTTA
1 TTTAGGGTTTA
13032158 GGGTTTCATT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
38 6 0.14
39 37 0.86
ACGTcount: A:0.22, C:0.04, G:0.25, T:0.48
Consensus pattern (39 bp):
TTTAGGGTTTAATTTATCTATAGGGTTTAAGGTTGACAC
Found at i:13032367 original size:3 final size:3
Alignment explanation
Indices: 13032359--13032416 Score: 55
Period size: 3 Copynumber: 18.7 Consensus size: 3
13032349 CATTAAAATT
* *
13032359 TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTTA CCT- TTA TTA TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA -TTA -TTA TTA TTA TTA TTA
*
13032406 TTT TTA TTA TT
1 TTA TTA TTA TT
13032417 TAATAATTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
2 1 0.02
3 37 0.80
4 8 0.17
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:13035531 original size:387 final size:388
Alignment explanation
Indices: 13034802--13035570 Score: 1238
Period size: 387 Copynumber: 2.0 Consensus size: 388
13034792 TTATCAGGAG
13034802 TAAATGTTAATAAATGAGAACATAATGTACCTTTTTATTTTTTGAAGATATAACGAGGTTATGAA
1 TAAATGTTAATAAATGAGAACATAATGTACCTTTTTATTTTTTGAAGATATAACGAGGTTATGAA
* * * *
13034867 ATTTATAGTAACATTGAATGGTGTGGTCATAAAATCATCTAACACTATCTCCCATATAAAACTAA
66 ATTTATACTAACATTGAATAGTGTGGTCATAAAATCATCTAACACTATCTCCCACATAAAACGAA
*
13034932 GGACATAATATCCATATTCAGTATTACCAAGTTAACGAGGTACCTAAAAATTAAATTGAGTGATT
131 GGACATAATATCCATATTCAGTATTACCAAGTTAACGAGATACCTAAAAATTAAATTGAGTGATT
** * * *
13034997 TAGGAAACATTTATCTACATAAACTCAACATAAAAGAATATATTTCATATTTACCGGTAATGACA
196 TAAAAAACATTTATCTACACAAACTCAACATAAAAGAATATATTTCACATTTACCGATAATGACA
* * *
13035062 CCCATTTCGGTTTCTTTATCTTCTTATCAAATGCAGATATTACCCTAAATTGAAAAGGAAAAAAT
261 CCCATTTCGATTTCTTTATCTTCTTATCAAATGCAGATATTACCCTAAATTAAAAAGAAAAAAAT
* *
13035127 TATTTATACATAAATTAAATTACTTATAAAGAAACAAAAGATATATAATATAATAAAGTGTAA
326 TATTAATACATAAATTAAATTACTTATAAAGAAACAAAAGAAATATAATATAATAAAGTGTAA
* *
13035190 TAAATGTTAATAAATGAGAACATAATGTACCTTTTTATTTTTTGAAGATATAATGAGTTTATGAA
1 TAAATGTTAATAAATGAGAACATAATGTACCTTTTTATTTTTTGAAGATATAACGAGGTTATGAA
**
13035255 ATTTATACTAACATTGAATAGTGTGGTCATAAAATCATC-AACACTATCTCCTGCATAAAACGAA
66 ATTTATACTAACATTGAATAGTGTGGTCATAAAATCATCTAACACTATCTCCCACATAAAACGAA
* * * *
13035319 TGACATAATATCCATATTCAGTATTACC-GGATTGACGAGATACCTGAAAATTAAATTGAGTGAT
131 GGACATAATATCCATATTCAGTATTACCAAG-TTAACGAGATACCTAAAAATTAAATTGAGTGAT
* * *
13035383 TTAAAAAACATTTATCTACACAGACTGAGCATAAAAGAATATATTTCACATTTACCGATAATGAC
195 TTAAAAAACATTTATCTACACAAACTCAACATAAAAGAATATATTTCACATTTACCGATAATGAC
* * *
13035448 ACCCATTTCGATTTCTTTATCTTCTTATCGAATGTAGATATTATCCTAAATTAAAAAGAAAAAAA
260 ACCCATTTCGATTTCTTTATCTTCTTATCAAATGCAGATATTACCCTAAATTAAAAAGAAAAAAA
13035513 TTACTTAATACA-AAATTAAATTACTTATAAAGAAACAAAAGAAATATAATATAATAAA
325 TTA-TTAATACATAAATTAAATTACTTATAAAGAAACAAAAGAAATATAATATAATAAA
13035571 ATATAATACC
Statistics
Matches: 350, Mismatches: 29, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
386 1 0.00
387 242 0.69
388 107 0.31
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.33
Consensus pattern (388 bp):
TAAATGTTAATAAATGAGAACATAATGTACCTTTTTATTTTTTGAAGATATAACGAGGTTATGAA
ATTTATACTAACATTGAATAGTGTGGTCATAAAATCATCTAACACTATCTCCCACATAAAACGAA
GGACATAATATCCATATTCAGTATTACCAAGTTAACGAGATACCTAAAAATTAAATTGAGTGATT
TAAAAAACATTTATCTACACAAACTCAACATAAAAGAATATATTTCACATTTACCGATAATGACA
CCCATTTCGATTTCTTTATCTTCTTATCAAATGCAGATATTACCCTAAATTAAAAAGAAAAAAAT
TATTAATACATAAATTAAATTACTTATAAAGAAACAAAAGAAATATAATATAATAAAGTGTAA
Found at i:13039790 original size:339 final size:336
Alignment explanation
Indices: 13039159--13040288 Score: 1419
Period size: 339 Copynumber: 3.3 Consensus size: 336
13039149 ATCCCAAAAT
* *
13039159 TTTGTTATTAACAAATACCTTC-GATAATTATGTACTAATCTTAAA-AGGAATTATTAAAGGCAT
1 TTTGTTATTAACAAACACCTTCAG-TAATTATGTACTAAGCTTAAACA-GAATTATTAAAGGCAT
* * * * * *
13039222 TTTCATT-GAATAAATGCCTTCTATAATCATAGTATATTGAAGGCGTTTTCCAGTAAAAGAAACC
64 TTTC-TTAGAATAAATGCCTTCTATAACCATTGTATATTGAAGGCATTTTCTAGTAGAAG-AGCC
* * ** * *
13039286 TTTAATAATCCTAAATTTTTTTAGAGAAAAATATGTGTAGGCGTTTGTTAATAACAAACGCCTTT
127 TTTAATAATCCTAAAATTTTTAAGAGGGAAAGATGTGTAGGCGTTTGTTATTAACAAACGCC-TT
* * * * *
13039351 AGTAATTATGTACTAAGCTTAAAAGGAA-TTATTAAATGTATTTTTCAAGAATAAATGCCTTCTA
191 AATAATTATGTACTAAGCTT-AAATGAAGTTATTAAATGTATTTTCCTAGAATAAATACCTTCTA
* * * * *
13039415 TAACCATTATATATTGAAGACATTTTCTAGTAGAAGATGCCTTTAATAATCTTAAAATTTTTAAA
255 TAACTATTGTATATTGAAG--ATTTTCCAATAGAAGATGCCTTTAATAATCTTAAAATTTTTAAG
*
13039480 AGGGAAAGATGTGTAGGCG
318 AGGGAAAGATGTGTAGGCA
* * **
13039499 TTTGTTATTAACAAACACCTTCAGTAATTATGTACTGAGCTTAAACAGAGTTATTAAAGGTGTTT
1 TTTGTTATTAACAAACACCTTCAGTAATTATGTACTAAGCTTAAACAGAATTATTAAAGGCATTT
* * * * * * *
13039564 TCCTAAAATAAATGCCTTCAATAACCTTTGTAAATTGAAGGCGTTTTCTAGTAGAAGAGCTTTTA
66 TCTTAGAATAAATGCCTTCTATAACCATTGTATATTGAAGGCATTTTCTAGTAGAAGAGCCTTTA
* * **
13039629 ATAAT-CTCAAAATTTTTAAGAGGGAAAGATGTGTAGACATTTGTTATTAACAAATACCTTCAAT
131 ATAATCCT-AAAATTTTTAAGAGGGAAAGATGTGTAGGCGTTTGTTATTAACAAACGCCTT-AAT
* * *
13039693 AATTATGTACTAAGCTTAAATGAAGTTATTAAATGCATTTTCCTAGAATAAACACCTTCTAAAAC
194 AATTATGTACTAAGCTTAAATGAAGTTATTAAATGTATTTTCCTAGAATAAATACCTTCTATAAC
* ** * *
13039758 TATTGTATATTGAATGAGTTTTCCAATAGAAGACGTTTTTATTAATCTCAAAATTTTTAAGAGGG
259 TATTGTATATTGAA-GA-TTTTCCAATAGAAGATGCCTTTAATAATCTTAAAATTTTTAAGAGGG
13039823 AAAGATGTGTAGGCA
322 AAAGATGTGTAGGCA
* * *
13039838 TTTGTTATTAACAAACGCCTTCAGTAATTATGTACTAAGCTTAAAAAGAATTATTAAAGGTATTT
1 TTTGTTATTAACAAACACCTTCAGTAATTATGTACTAAGCTTAAACAGAATTATTAAAGGCATTT
* * * * *
13039903 TCTTAGAATAAACGCCTTCTATGACCGTTATATATTAAAGGCATTTTCTAGTAGAAG-GCACCTT
66 TCTTAGAATAAATGCCTTCTATAACCATTGTATATTGAAGGCATTTTCTAGTAGAAGAG--CCTT
13039967 TAATAATCCTAAAATTTTTAAGAGGG-AAGATGTGTAGGCGTTTGTTATTAACAAACGCCTTAAG
129 TAATAATCCTAAAATTTTTAAGAGGGAAAGATGTGTAGGCGTTTGTTATTAACAAACGCCTTAA-
* * * *
13040031 TAATTATGCACTGAGCTTAAATGAAGTTATTAAAGGTGTTTTCCTAGAATAAATACCTTCTATAA
193 TAATTATGTACTAAGCTTAAATGAAGTTATTAAATGTATTTTCCTAGAATAAATACCTTCTATAA
* *
13040096 CTGTTGTATATTGAAGGCATTTTTCAATAGAAGATGCCTTTAATAATCTTAAAATTTTTAAGAGG
258 CTATTGTATATTGAA-G-ATTTTCCAATAGAAGATGCCTTTAATAATCTTAAAATTTTTAAGAGG
13040161 GAAAGATGTGTAGGCA
321 GAAAGATGTGTAGGCA
* * * * * *
13040177 TTTTTTATTAACAAACGCCTTCAGTAATTATATACTGAGCTTAAACGGAGTTATTAAAGGCATTT
1 TTTGTTATTAACAAACACCTTCAGTAATTATGTACTAAGCTTAAACAGAATTATTAAAGGCATTT
* **
13040242 TCTTATAATAAATGTATTCTATAACCATTGTATATTGAAGGCATTTT
66 TCTTAGAATAAATGCCTTCTATAACCATTGTATATTGAAGGCATTTT
13040289 TCAGTAGTAA
Statistics
Matches: 681, Mismatches: 96, Indels: 27
0.85 0.12 0.03
Matches are distributed among these distances:
338 14 0.02
339 534 0.78
340 129 0.19
341 4 0.01
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (336 bp):
TTTGTTATTAACAAACACCTTCAGTAATTATGTACTAAGCTTAAACAGAATTATTAAAGGCATTT
TCTTAGAATAAATGCCTTCTATAACCATTGTATATTGAAGGCATTTTCTAGTAGAAGAGCCTTTA
ATAATCCTAAAATTTTTAAGAGGGAAAGATGTGTAGGCGTTTGTTATTAACAAACGCCTTAATAA
TTATGTACTAAGCTTAAATGAAGTTATTAAATGTATTTTCCTAGAATAAATACCTTCTATAACTA
TTGTATATTGAAGATTTTCCAATAGAAGATGCCTTTAATAATCTTAAAATTTTTAAGAGGGAAAG
ATGTGTAGGCA
Found at i:13040140 original size:509 final size:509
Alignment explanation
Indices: 13039159--13040282 Score: 1526
Period size: 509 Copynumber: 2.2 Consensus size: 509
13039149 ATCCCAAAAT
* * *
13039159 TTTGTTATTAACAAATACCTTCGATAATTATGTACTAATCTTAAAAGGAA-TTATTAAAGGCATT
1 TTTGTTATTAACAAATACCTTCAATAATTATGTACTAAGCTT-AAACGAAGTTATTAAAGGCATT
* * * *
13039223 TTCATTGAATAAATGCCTTCTATAA-TCATAGTATATTGAAGGCGTTTTCCAGTAAAAGAAACCT
65 TTCATAGAATAAATGCCTTCTATAACT-ATTGTATATTGAAGGAGTTTTCCAATAAAAGAAACCT
* * * * *
13039287 TTAATAATCCTAAATTTTTTTAGAGAAAAATATGTGTAGGCGTTTGTTAATAACAAACGCCTTTA
129 TTAATAATCCTAAAATTTTTAAGAGAAAAAGATGTGTAGGCATTTGTTAATAACAAACGCCTTCA
* * *
13039352 GTAATTATGTACTAAGCTTAAAAGGAATTATTAAATGTATTTTTCAAGAATAAATGCCTTCTATA
194 GTAATTATGTACTAAGCTTAAAAAGAATTATTAAAGGTATTTTTCAAGAATAAACGCCTTCTATA
* ** *
13039417 ACCATTATATATTGAAGACATTTTCTAGTAGAAGATGCCTTTAATAATCTTAAAATTTTTAAAAG
259 ACCATTATATATTAAAGACATTTTCTAGTAGAAGACACCTTTAATAATCCTAAAATTTTTAAAAG
* *
13039482 GGAAAGATGTGTAGGCGTTTGTTATTAACAAACACCTTCAGTAATTATGTACTGAGCTTAAACAG
324 GGAAAGATGTGTAGGCGTTTGTTATTAACAAACACCTTAAGTAATTATGCACTGAGCTTAAACAG
*
13039547 AGTTATTAAAGGTGTTTTCCTAAAATAAATGCCTTCAATAACCTTTGTAAATTGAAGGCGTTTTC
389 AGTTATTAAAGGTGTTTTCCTAAAATAAATACCTTCAATAACCTTTGTAAATTGAAGGCGTTTTC
* *
13039612 TAGTAGAAGAGCTTTTAATAATCTCAAAATTTTTAAGAGGGAAAGATGTGTAGACA
454 TAATAGAAGAGCCTTTAATAATCTCAAAATTTTTAAGAGGGAAAGATGTGTAGACA
* *
13039668 TTTGTTATTAACAAATACCTTCAATAATTATGTACTAAGCTTAAATGAAGTTATTAAATGCATTT
1 TTTGTTATTAACAAATACCTTCAATAATTATGTACTAAGCTTAAACGAAGTTATTAAAGGCATTT
* ** * * * ****
13039733 TCCTAGAATAAACACCTTCTAAAACTATTGTATATTGAATGAGTTTTCCAATAGAAGACGTTTTT
66 TCATAGAATAAATGCCTTCTATAACTATTGTATATTGAAGGAGTTTTCCAATAAAAGAAACCTTT
* ** *
13039798 ATTAAT-CTCAAAATTTTTAAGAGGGAAAGATGTGTAGGCATTTGTTATTAACAAACGCCTTCAG
131 AATAATCCT-AAAATTTTTAAGAGAAAAAGATGTGTAGGCATTTGTTAATAACAAACGCCTTCAG
* *
13039862 TAATTATGTACTAAGCTTAAAAAGAATTATTAAAGGTA-TTTTCTTAGAATAAACGCCTTCTATG
195 TAATTATGTACTAAGCTTAAAAAGAATTATTAAAGGTATTTTTC-AAGAATAAACGCCTTCTATA
* * * *
13039926 ACCGTTATATATTAAAGGCATTTTCTAGTAGAAGGCACCTTTAATAATCCTAAAATTTTTAAGAG
259 ACCATTATATATTAAAGACATTTTCTAGTAGAAGACACCTTTAATAATCCTAAAATTTTTAAAAG
* *
13039991 GG-AAGATGTGTAGGCGTTTGTTATTAACAAACGCCTTAAGTAATTATGCACTGAGCTTAAA-TG
324 GGAAAGATGTGTAGGCGTTTGTTATTAACAAACACCTTAAGTAATTATGCACTGAGCTTAAACAG
* * * *
13040054 AAGTTATTAAAGGTGTTTTCCTAGAATAAATACCTTCTATAA-CTGTTGTATATTGAAGGCATTT
389 -AGTTATTAAAGGTGTTTTCCTAAAATAAATACCTTCAATAACCT-TTGTAAATTGAAGGCGTTT
* *
13040118 T-TCAATAGAAGATGCCTTTAATAATCTTAAAATTTTTAAGAGGGAAAGATGTGTAGGCA
452 TCT-AATAGAAGA-GCCTTTAATAATCTCAAAATTTTTAAGAGGGAAAGATGTGTAGACA
* ** * * * *
13040177 TTTTTTATTAACAAACGCCTTCAGTAATTATATACTGAGCTTAAACGGAGTTATTAAAGGCATTT
1 TTTGTTATTAACAAATACCTTCAATAATTATGTACTAAGCTTAAACGAAGTTATTAAAGGCATTT
* * ** *
13040242 TCTTATAATAAATGTATTCTATAACCATTGTATATTGAAGG
66 TCATAGAATAAATGCCTTCTATAACTATTGTATATTGAAGG
13040283 CATTTTTCAG
Statistics
Matches: 536, Mismatches: 71, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
507 4 0.01
508 133 0.25
509 398 0.74
510 1 0.00
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (509 bp):
TTTGTTATTAACAAATACCTTCAATAATTATGTACTAAGCTTAAACGAAGTTATTAAAGGCATTT
TCATAGAATAAATGCCTTCTATAACTATTGTATATTGAAGGAGTTTTCCAATAAAAGAAACCTTT
AATAATCCTAAAATTTTTAAGAGAAAAAGATGTGTAGGCATTTGTTAATAACAAACGCCTTCAGT
AATTATGTACTAAGCTTAAAAAGAATTATTAAAGGTATTTTTCAAGAATAAACGCCTTCTATAAC
CATTATATATTAAAGACATTTTCTAGTAGAAGACACCTTTAATAATCCTAAAATTTTTAAAAGGG
AAAGATGTGTAGGCGTTTGTTATTAACAAACACCTTAAGTAATTATGCACTGAGCTTAAACAGAG
TTATTAAAGGTGTTTTCCTAAAATAAATACCTTCAATAACCTTTGTAAATTGAAGGCGTTTTCTA
ATAGAAGAGCCTTTAATAATCTCAAAATTTTTAAGAGGGAAAGATGTGTAGACA
Found at i:13040289 original size:170 final size:170
Alignment explanation
Indices: 13039159--13040295 Score: 1313
Period size: 170 Copynumber: 6.7 Consensus size: 170
13039149 ATCCCAAAAT
** * * *
13039159 TTTGTTATTAACAAATACCTTC-GATAATTATGTACTAATCTTAAAAGGAATTATTAAAGGCATT
1 TTTGTTATTAACAAACGCCTTCAG-TAATTATGTACTAAGCTTAAAAGGAGTTATTAAAGGTATT
* * * * * **
13039223 TTCATT-GAATAAATGCCTTCTATAATCATAGTATATTGAAGGCGTTTTCCAGTAAAAGAAACCT
65 TTC-TTAGAATAAATGCCTTCTATAACCATTGTATATTGAAGGCATTTTTCAGTAGAAGACGCCT
* * * ** * *
13039287 TTAATAATCCTAAATTTTTTTAGAGAAAAATATGTGTAGGCG
129 TTAATAATCTTAAAATTTTTAAGAGGGAAAGATGTGTAGGCA
* * * *
13039329 TTTGTTAATAACAAACGCCTTTAGTAATTATGTACTAAGCTTAAAAGGAATTATTAAATGTATTT
1 TTTGTTATTAACAAACGCCTTCAGTAATTATGTACTAAGCTTAAAAGGAGTTATTAAAGGTATTT
* * * *
13039394 T-TCAAGAATAAATGCCTTCTATAACCATTATATATTGAAGACA-TTTTCTAGTAGAAGATGCCT
66 TCT-TAGAATAAATGCCTTCTATAACCATTGTATATTGAAGGCATTTTTC-AGTAGAAGACGCCT
* *
13039457 TTAATAATCTTAAAATTTTTAAAAGGGAAAGATGTGTAGGCG
129 TTAATAATCTTAAAATTTTTAAGAGGGAAAGATGTGTAGGCA
* * *
13039499 TTTGTTATTAACAAACACCTTCAGTAATTATGTACTGAGCTTAAACA-GAGTTATTAAAGGTGTT
1 TTTGTTATTAACAAACGCCTTCAGTAATTATGTACTAAGCTTAAA-AGGAGTTATTAAAGGTATT
* * * * * * *
13039563 TTCCTAAAATAAATGCCTTCAATAACCTTTGTAAATTGAAGGC-GTTTTCTAGTAGAAGA-GCTT
65 TTCTTAGAATAAATGCCTTCTATAACCATTGTATATTGAAGGCATTTTTC-AGTAGAAGACGCCT
* *
13039626 TTAATAATCTCAAAATTTTTAAGAGGGAAAGATGTGTAGACA
129 TTAATAATCTTAAAATTTTTAAGAGGGAAAGATGTGTAGGCA
** * * * * *
13039668 TTTGTTATTAACAAATACCTTCAATAATTATGTACTAAGCTTAAATGAAGTTATTAAATGCATTT
1 TTTGTTATTAACAAACGCCTTCAGTAATTATGTACTAAGCTTAAAAGGAGTTATTAAAGGTATTT
* ** * * * * * **
13039733 TCCTAGAATAAACACCTTCTAAAACTATTGTATATTGAATG-AGTTTTCCAATAGAAGACGTTTT
66 TCTTAGAATAAATGCCTTCTATAACCATTGTATATTGAAGGCA-TTTTTCAGTAGAAGACGCCTT
* *
13039797 TATTAATCTCAAAATTTTTAAGAGGGAAAGATGTGTAGGCA
130 TAATAATCTTAAAATTTTTAAGAGGGAAAGATGTGTAGGCA
* *
13039838 TTTGTTATTAACAAACGCCTTCAGTAATTATGTACTAAGCTTAAAAAGAATTATTAAAGGTATTT
1 TTTGTTATTAACAAACGCCTTCAGTAATTATGTACTAAGCTTAAAAGGAGTTATTAAAGGTATTT
* * * * * * *
13039903 TCTTAGAATAAACGCCTTCTATGACCGTTATATATTAAAGGCA-TTTTCTAGTAGAAGGCACCTT
66 TCTTAGAATAAATGCCTTCTATAACCATTGTATATTGAAGGCATTTTTC-AGTAGAAGACGCCTT
* *
13039967 TAATAATCCTAAAATTTTTAAGAGGG-AAGATGTGTAGGCG
130 TAATAATCTTAAAATTTTTAAGAGGGAAAGATGTGTAGGCA
* * * * * *
13040007 TTTGTTATTAACAAACGCCTTAAGTAATTATGCACTGAGCTTAAATGAAGTTATTAAAGGTGTTT
1 TTTGTTATTAACAAACGCCTTCAGTAATTATGTACTAAGCTTAAAAGGAGTTATTAAAGGTATTT
* * ** * *
13040072 TCCTAGAATAAATACCTTCTATAACTGTTGTATATTGAAGGCATTTTTCAATAGAAGATGCCTTT
66 TCTTAGAATAAATGCCTTCTATAACCATTGTATATTGAAGGCATTTTTCAGTAGAAGACGCCTTT
13040137 AATAATCTTAAAATTTTTAAGAGGGAAAGATGTGTAGGCA
131 AATAATCTTAAAATTTTTAAGAGGGAAAGATGTGTAGGCA
* * * * *
13040177 TTTTTTATTAACAAACGCCTTCAGTAATTATATACTGAGCTTAAACGGAGTTATTAAAGGCATTT
1 TTTGTTATTAACAAACGCCTTCAGTAATTATGTACTAAGCTTAAAAGGAGTTATTAAAGGTATTT
* **
13040242 TCTTATAATAAATGTATTCTATAACCATTGTATATTGAAGGCATTTTTCAGTAG
66 TCTTAGAATAAATGCCTTCTATAACCATTGTATATTGAAGGCATTTTTCAGTAG
13040296 TAATAATCCC
Statistics
Matches: 820, Mismatches: 132, Indels: 30
0.84 0.13 0.03
Matches are distributed among these distances:
168 1 0.00
169 287 0.35
170 529 0.65
171 3 0.00
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (170 bp):
TTTGTTATTAACAAACGCCTTCAGTAATTATGTACTAAGCTTAAAAGGAGTTATTAAAGGTATTT
TCTTAGAATAAATGCCTTCTATAACCATTGTATATTGAAGGCATTTTTCAGTAGAAGACGCCTTT
AATAATCTTAAAATTTTTAAGAGGGAAAGATGTGTAGGCA
Found at i:13047146 original size:157 final size:157
Alignment explanation
Indices: 13046855--13047172 Score: 501
Period size: 157 Copynumber: 2.0 Consensus size: 157
13046845 TATCAAAAGC
*
13046855 TTTTATTGTTTACGTATATTTAAGACTATCGTGTTGTTACGAGGCCAAAATATAAATACATGATA
1 TTTTATTGTTTACGTATATTTAAAACTATCGTGTTGTTACGAGGCCAAAATATAAATACATGATA
* * * *
13046920 TTAAAATTTTTTCAAATTTTAATACTTGATTGACAGGCTTGATATGCATGAATAAGTTGTGGTTG
66 TTAAAAATATTTCAAATTTTAATACTTGATTCACAGACTTGATATGCATGAATAAGTTGTGGTTG
13046985 ATATGTATCATATCAAATAACATATAT
131 ATATGTATCATATCAAATAACATATAT
** * *
13047012 TTTTATTGTTTGTGTATGTTTAAAACTATTGTGTTGTTACGAGGCCAAAATATAAATACATGATA
1 TTTTATTGTTTACGTATATTTAAAACTATCGTGTTGTTACGAGGCCAAAATATAAATACATGATA
* * *
13047077 TTAAAAATATTTGAAATTTTAATACTTGATTCACAGACTTGATATGCATGAATAAGTTGTGTTTT
66 TTAAAAATATTTCAAATTTTAATACTTGATTCACAGACTTGATATGCATGAATAAGTTGTGGTTG
* * *
13047142 ATATGTATCCTATCAAATAATATATGT
131 ATATGTATCATATCAAATAACATATAT
13047169 TTTT
1 TTTT
13047173 GTATAGGATA
Statistics
Matches: 146, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
157 146 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (157 bp):
TTTTATTGTTTACGTATATTTAAAACTATCGTGTTGTTACGAGGCCAAAATATAAATACATGATA
TTAAAAATATTTCAAATTTTAATACTTGATTCACAGACTTGATATGCATGAATAAGTTGTGGTTG
ATATGTATCATATCAAATAACATATAT
Found at i:13049181 original size:16 final size:17
Alignment explanation
Indices: 13049148--13049181 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
13049138 AATGCTTCTA
*
13049148 TTTTTTTTTTTGGTTTT
1 TTTTTTTTTTTAGTTTT
13049165 TTTTTTTTTTTAGTTTT
1 TTTTTTTTTTTAGTTTT
13049182 GGTATCCCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.03, C:0.00, G:0.09, T:0.88
Consensus pattern (17 bp):
TTTTTTTTTTTAGTTTT
Found at i:13049844 original size:7 final size:7
Alignment explanation
Indices: 13049834--13049904 Score: 58
Period size: 7 Copynumber: 9.9 Consensus size: 7
13049824 TTTTAGCTTT
13049834 TTTTATA
1 TTTTATA
13049841 TTTTATA
1 TTTTATA
13049848 TTTTATA
1 TTTTATA
*
13049855 TATT-T-
1 TTTTATA
*
13049860 TTTAATA
1 TTTTATA
13049867 TTATTAATTA
1 TT-TT-A-TA
13049877 TTTTTATA
1 -TTTTATA
13049885 TATTTATA
1 T-TTTATA
13049893 -TTTATA
1 TTTTATA
13049899 TTTTAT
1 TTTTAT
13049905 TTTATTTTGT
Statistics
Matches: 52, Mismatches: 4, Indels: 16
0.72 0.06 0.22
Matches are distributed among these distances:
5 2 0.04
6 8 0.15
7 25 0.48
8 9 0.17
9 2 0.04
10 4 0.08
11 2 0.04
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (7 bp):
TTTTATA
Found at i:13049844 original size:10 final size:10
Alignment explanation
Indices: 13049803--13049912 Score: 52
Period size: 10 Copynumber: 11.1 Consensus size: 10
13049793 TTTTTTTTAA
*
13049803 TTTTATATAT
1 TTTTATATTT
*
13049813 TCTTATATTAT
1 TTTTATATT-T
**
13049824 TTTTAGCTTT
1 TTTTATATTT
13049834 TTTTATA---
1 TTTTATATTT
13049841 TTTTATA-TT
1 TTTTATATTT
*
13049850 TTATATATTT
1 TTTTATATTT
*
13049860 TTTAATA-TT
1 TTTTATATTT
* *
13049869 ATTAATTATTT
1 TTTTA-TATTT
*
13049880 TTATATATTT
1 TTTTATATTT
13049890 ATATTTATATTT
1 -T-TTTATATTT
13049902 TATTT-TATTT
1 T-TTTATATTT
13049912 T
1 T
13049913 GTGGCCAACA
Statistics
Matches: 77, Mismatches: 15, Indels: 16
0.71 0.14 0.15
Matches are distributed among these distances:
7 7 0.09
9 12 0.16
10 33 0.43
11 17 0.22
12 8 0.10
ACGTcount: A:0.27, C:0.02, G:0.01, T:0.70
Consensus pattern (10 bp):
TTTTATATTT
Found at i:13049883 original size:44 final size:45
Alignment explanation
Indices: 13049797--13049908 Score: 124
Period size: 44 Copynumber: 2.5 Consensus size: 45
13049787 AAGCTTTTTT
* * * * *
13049797 TTTTA-ATTTTATATATTCTTATATTATTTTTAGCTTTTTTTATA
1 TTTTATATTTTATATATTATTTTAATATTATTAGATTTTTTTATA
13049841 TTTTATATTTTATATATT-TTTTAATATTATTA-ATTATTTTTATA
1 TTTTATATTTTATATATTATTTTAATATTATTAGATT-TTTTTATA
*
13049885 TATTTATA-TTTATATTTTATTTTA
1 T-TTTATATTTTATATATTATTTTA
13049909 TTTTGTGGCC
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
43 2 0.03
44 34 0.58
45 23 0.39
ACGTcount: A:0.29, C:0.02, G:0.01, T:0.69
Consensus pattern (45 bp):
TTTTATATTTTATATATTATTTTAATATTATTAGATTTTTTTATA
Found at i:13049900 original size:12 final size:11
Alignment explanation
Indices: 13049842--13049912 Score: 57
Period size: 10 Copynumber: 6.9 Consensus size: 11
13049832 TTTTTTATAT
13049842 TTTATATTTTA
1 TTTATATTTTA
13049853 --TATATTTT-
1 TTTATATTTTA
*
13049861 TTAATATTATTA
1 TTTATATT-TTA
*
13049873 ATTAT-TTTTA
1 TTTATATTTTA
13049883 --TATATTTATA
1 TTTATATTT-TA
13049893 TTTATATTTTA
1 TTTATATTTTA
13049904 TTT-TATTTT
1 TTTATATTTT
13049913 GTGGCCAACA
Statistics
Matches: 49, Mismatches: 3, Indels: 17
0.71 0.04 0.25
Matches are distributed among these distances:
8 3 0.06
9 11 0.22
10 16 0.33
11 9 0.18
12 10 0.20
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTATATTTTA
Found at i:13049910 original size:32 final size:31
Alignment explanation
Indices: 13049839--13049912 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 31
13049829 GCTTTTTTTA
13049839 TATTTTATATTTTATATATTTTTTAATATTAT
1 TATTTTAT-TTTTATATATTTTTTAATATTAT
* *
13049871 TA-ATTATTTTTATATATTTATATTTATATT-T
1 TATTTTATTTTTATATATTT-T-TTAATATTAT
13049902 TATTTTATTTT
1 TATTTTATTTT
13049913 GTGGCCAACA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
30 12 0.33
31 8 0.22
32 16 0.44
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (31 bp):
TATTTTATTTTTATATATTTTTTAATATTAT
Found at i:13051385 original size:117 final size:117
Alignment explanation
Indices: 13051179--13051416 Score: 476
Period size: 117 Copynumber: 2.0 Consensus size: 117
13051169 TGGCACGATG
13051179 GTGAATGTTGGAGTTTTTTCCTTAAAAGGATCTTCGAGCAATAGGTTGCTATGAAAATGAAATGT
1 GTGAATGTTGGAGTTTTTTCCTTAAAAGGATCTTCGAGCAATAGGTTGCTATGAAAATGAAATGT
13051244 TTTGTAAGAAAATAGTTCCTTAATTCTTATATTTTGTAAATGTTTAAAAAGA
66 TTTGTAAGAAAATAGTTCCTTAATTCTTATATTTTGTAAATGTTTAAAAAGA
13051296 GTGAATGTTGGAGTTTTTTCCTTAAAAGGATCTTCGAGCAATAGGTTGCTATGAAAATGAAATGT
1 GTGAATGTTGGAGTTTTTTCCTTAAAAGGATCTTCGAGCAATAGGTTGCTATGAAAATGAAATGT
13051361 TTTGTAAGAAAATAGTTCCTTAATTCTTATATTTTGTAAATGTTTAAAAAGA
66 TTTGTAAGAAAATAGTTCCTTAATTCTTATATTTTGTAAATGTTTAAAAAGA
13051413 GTGA
1 GTGA
13051417 TCTTTTACTT
Statistics
Matches: 121, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
117 121 1.00
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.39
Consensus pattern (117 bp):
GTGAATGTTGGAGTTTTTTCCTTAAAAGGATCTTCGAGCAATAGGTTGCTATGAAAATGAAATGT
TTTGTAAGAAAATAGTTCCTTAATTCTTATATTTTGTAAATGTTTAAAAAGA
Found at i:13051564 original size:16 final size:16
Alignment explanation
Indices: 13051543--13051578 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
13051533 AAGAGCTTTG
*
13051543 TCATTTATTCATTCAT
1 TCATTTATTAATTCAT
13051559 TCATTTATTAATTCAT
1 TCATTTATTAATTCAT
13051575 TCAT
1 TCAT
13051579 ATATCCATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.28, C:0.17, G:0.00, T:0.56
Consensus pattern (16 bp):
TCATTTATTAATTCAT
Found at i:13055717 original size:32 final size:32
Alignment explanation
Indices: 13055681--13055744 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
13055671 AATAATTTGA
*
13055681 TAGGATTTATAATCTAAAATATATTTTAAACC
1 TAGGATTCATAATCTAAAATATATTTTAAACC
13055713 TAGGATTCATAATCTAAAATATATTTTAAACC
1 TAGGATTCATAATCTAAAATATATTTTAAACC
13055745 CATGAAAATC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.44, C:0.11, G:0.06, T:0.39
Consensus pattern (32 bp):
TAGGATTCATAATCTAAAATATATTTTAAACC
Found at i:13056927 original size:18 final size:18
Alignment explanation
Indices: 13056892--13056927 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
13056882 AAATAAGAAT
* *
13056892 TAAAAGTTAAAGTTAAAA
1 TAAAAGTAAAAGTAAAAA
13056910 TAAAAGTAAAAGTAAAAA
1 TAAAAGTAAAAGTAAAAA
13056928 ATTCGAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (18 bp):
TAAAAGTAAAAGTAAAAA
Found at i:13058477 original size:23 final size:23
Alignment explanation
Indices: 13058447--13058500 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 23
13058437 TATTCGAAAT
13058447 AATTCAAACTTGAATTTAT-TCAA
1 AATTCAAA-TTGAATTTATATCAA
*
13058470 AATTCAAAAT-AATTTATATCAA
1 AATTCAAATTGAATTTATATCAA
13058492 AATT-AAATT
1 AATTCAAATT
13058501 TGACTCTAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 11 0.39
22 9 0.32
23 8 0.29
ACGTcount: A:0.50, C:0.09, G:0.02, T:0.39
Consensus pattern (23 bp):
AATTCAAATTGAATTTATATCAA
Found at i:13062908 original size:38 final size:38
Alignment explanation
Indices: 13062825--13062916 Score: 112
Period size: 38 Copynumber: 2.4 Consensus size: 38
13062815 GACGTGTTTA
* * *
13062825 TTCACAAACGCCTTAAATGATCATTTAAAGCATTTTTC
1 TTCACAAATGCCTTAAAAGATAATTTAAAGCATTTTTC
*** *
13062863 CAAACAAATGCCTTAAAAGATAATTTAAGGCATTTTTC
1 TTCACAAATGCCTTAAAAGATAATTTAAAGCATTTTTC
*
13062901 TTCACAAATGCTTTAA
1 TTCACAAATGCCTTAA
13062917 TTCATCAATT
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.35
Consensus pattern (38 bp):
TTCACAAATGCCTTAAAAGATAATTTAAAGCATTTTTC
Found at i:13063069 original size:13 final size:13
Alignment explanation
Indices: 13063047--13063077 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
13063037 TTCTAGTCAC
13063047 TTTT-AGATATAT
1 TTTTCAGATATAT
13063059 TTTTCAGATATAT
1 TTTTCAGATATAT
13063072 TTTTCA
1 TTTTCA
13063078 AAAGAGTAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.58
Consensus pattern (13 bp):
TTTTCAGATATAT
Found at i:13064702 original size:59 final size:60
Alignment explanation
Indices: 13064575--13064702 Score: 154
Period size: 60 Copynumber: 2.1 Consensus size: 60
13064565 AATACCCTTC
* * * * *
13064575 AATTTTTTGAAGGGTATTATTTAAGGTATTTTTTTACTAAAAAAGTCTTAAATAATCTTT
1 AATTTTTTAAAGGGGATTATTTAAGGTATTTTTGTACTAAAAAAGCCTTAAATAATCTCT
*
13064635 AATATTTTAAAGGGGATTATTTAAGGTATTTTTAGT-C-AAAAATA-CCTTAAATAATCTCT
1 AATTTTTTAAAGGGGATTATTTAAGGTATTTTT-GTACTAAAAA-AGCCTTAAATAATCTCT
*
13064694 CATTTTTTA
1 AATTTTTTA
13064703 CCAAAAATAT
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
59 25 0.43
60 32 0.55
61 1 0.02
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.46
Consensus pattern (60 bp):
AATTTTTTAAAGGGGATTATTTAAGGTATTTTTGTACTAAAAAAGCCTTAAATAATCTCT
Found at i:13064735 original size:34 final size:35
Alignment explanation
Indices: 13064661--13064735 Score: 93
Period size: 33 Copynumber: 2.2 Consensus size: 35
13064651 TTATTTAAGG
* *
13064661 TATTTTTAGTCAAAAATACCTTAAATAATCTCTCA
1 TATTTTTAGCCAAAAATACCTTAAATAATCTCTAA
*
13064696 T-TTTTTA-CCAAAAATATCTTAAATAATC-CTTAA
1 TATTTTTAGCCAAAAATACCTTAAATAATCTC-TAA
13064729 TATTTTT
1 TATTTTT
13064736 TAAAGAGAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
32 1 0.03
33 22 0.63
34 11 0.31
35 1 0.03
ACGTcount: A:0.39, C:0.15, G:0.01, T:0.45
Consensus pattern (35 bp):
TATTTTTAGCCAAAAATACCTTAAATAATCTCTAA
Found at i:13066491 original size:20 final size:20
Alignment explanation
Indices: 13066466--13066504 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
13066456 TATAGCCTAA
13066466 TCTCCACCTCCCACCAACTC
1 TCTCCACCTCCCACCAACTC
*
13066486 TCTCCACCTCTCACCAACT
1 TCTCCACCTCCCACCAACT
13066505 GTACAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.56, G:0.00, T:0.23
Consensus pattern (20 bp):
TCTCCACCTCCCACCAACTC
Found at i:13069074 original size:11 final size:11
Alignment explanation
Indices: 13069058--13069089 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
13069048 AAATCCCATA
13069058 AGAGATTTGTT
1 AGAGATTTGTT
13069069 AGAGATTTGTT
1 AGAGATTTGTT
*
13069080 TGAGATTTGT
1 AGAGATTTGT
13069090 CAGATATTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (11 bp):
AGAGATTTGTT
Found at i:13069201 original size:52 final size:52
Alignment explanation
Indices: 13069114--13069270 Score: 181
Period size: 52 Copynumber: 3.0 Consensus size: 52
13069104 TGGACAAGAA
* * * *
13069114 GACTTGCAAAAGAAGAATTCTAAGA-GAAAGAGGATTTTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAAAATTCTAAGAGGAAAG-GGATTCTTAATAGGCAAGTTT
* * *
13069166 GACTTGCAAGAGAATAATTCTAAAAGGAAAGGGATTCTTAATAAGCAAGTTT
1 GACTTGCAAGAGAAAAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
* * * * * *
13069218 AACTTACAGGAAAAAAATTCTAAGAGGAGAGGGATTCTTAATGGGCAAGTTT
1 GACTTGCAAGAGAAAAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
13069270 G
1 G
13069271 TATGGTTATA
Statistics
Matches: 88, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
52 83 0.94
53 5 0.06
ACGTcount: A:0.41, C:0.08, G:0.24, T:0.27
Consensus pattern (52 bp):
GACTTGCAAGAGAAAAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
Found at i:13069829 original size:25 final size:25
Alignment explanation
Indices: 13069795--13069908 Score: 97
Period size: 25 Copynumber: 4.6 Consensus size: 25
13069785 AAGTGGTATC
13069795 AGAGCTGAAGGTTTGAAATGTGAGA
1 AGAGCTGAAGGTTTGAAATGTGAGA
* * * *
13069820 AGAGTTGAA-GATTCAAGATGTGAAA
1 AGAGCTGAAGGTTTGAA-ATGTGAGA
* * *
13069845 AGAGCCGAAGGTTCGAGATGTGA-A
1 AGAGCTGAAGGTTTGAAATGTGAGA
* * * *
13069869 AGAGCTGAAAGTTCGAGATGTGGGA
1 AGAGCTGAAGGTTTGAAATGTGAGA
*
13069894 AGAGCTAAAGGTTTG
1 AGAGCTGAAGGTTTG
13069909 GGAAGTGCAT
Statistics
Matches: 70, Mismatches: 16, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
24 26 0.37
25 41 0.59
26 3 0.04
ACGTcount: A:0.36, C:0.07, G:0.35, T:0.22
Consensus pattern (25 bp):
AGAGCTGAAGGTTTGAAATGTGAGA
Found at i:13069898 original size:49 final size:50
Alignment explanation
Indices: 13069795--13069890 Score: 124
Period size: 50 Copynumber: 1.9 Consensus size: 50
13069785 AAGTGGTATC
* * *
13069795 AGAGCTGAAGGTTTGAAATGTGAGAAGAGTTGAAGATTCAAGATGTGAAA
1 AGAGCCGAAGGTTCGAAATGTGAGAAGAGCTGAAGATTCAAGATGTGAAA
* *
13069845 AGAGCCGAAGGTTCGAGATGTGA-AAGAGCTGAA-AGTTCGAGATGTG
1 AGAGCCGAAGGTTCGAAATGTGAGAAGAGCTGAAGA-TTCAAGATGTG
13069891 GGAAGAGCTA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
48 1 0.03
49 19 0.47
50 20 0.50
ACGTcount: A:0.36, C:0.07, G:0.34, T:0.22
Consensus pattern (50 bp):
AGAGCCGAAGGTTCGAAATGTGAGAAGAGCTGAAGATTCAAGATGTGAAA
Found at i:13069905 original size:49 final size:50
Alignment explanation
Indices: 13069795--13069906 Score: 129
Period size: 49 Copynumber: 2.3 Consensus size: 50
13069785 AAGTGGTATC
* *
13069795 AGAGCTGAAGGTTTGAAATGTGAGAAGAGTTGAAGATTCAAGATGTGAAA
1 AGAGCTGAAGGTTCGAAATGTGAGAAGAGCTGAAGATTCAAGATGTGAAA
* * * **
13069845 AGAGCCGAAGGTTCGAGATGTGA-AAGAGCTGAA-AGTTCGAGATGTGGGA
1 AGAGCTGAAGGTTCGAAATGTGAGAAGAGCTGAAGA-TTCAAGATGTGAAA
*
13069894 AGAGCTAAAGGTT
1 AGAGCTGAAGGTT
13069907 TGGGAAGTGC
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
48 1 0.02
49 31 0.60
50 20 0.38
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (50 bp):
AGAGCTGAAGGTTCGAAATGTGAGAAGAGCTGAAGATTCAAGATGTGAAA
Found at i:13070170 original size:11 final size:11
Alignment explanation
Indices: 13070154--13070185 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
13070144 AAATCCCATA
13070154 AGAGATTTGTT
1 AGAGATTTGTT
13070165 AGAGATTTGTT
1 AGAGATTTGTT
*
13070176 TGAGATTTGT
1 AGAGATTTGT
13070186 CAGATATTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (11 bp):
AGAGATTTGTT
Found at i:13070297 original size:52 final size:52
Alignment explanation
Indices: 13070210--13070366 Score: 208
Period size: 52 Copynumber: 3.0 Consensus size: 52
13070200 TGGACAAGAA
* * *
13070210 GACTTGCAAAAGAAGAATTCTAAGA-GAAAGAGGATTTTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAG-GGATTCTTAATAGGCAAGTTT
* * *
13070262 GACTTGCAAGAGAATAATTCTAAAAGGAAAGGGATTCTTAATAAGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
* * * *
13070314 GACTTACAGGAGAAGAATTCTAAGAGGAGAGGGATTCTTAATGGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
13070366 G
1 G
13070367 TATGGTTATA
Statistics
Matches: 91, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
52 86 0.95
53 5 0.05
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.27
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
Found at i:13070925 original size:25 final size:25
Alignment explanation
Indices: 13070891--13071004 Score: 106
Period size: 25 Copynumber: 4.6 Consensus size: 25
13070881 AAGTGGTATC
13070891 AGAGCTGAAGGTTTGAAATGTGAGA
1 AGAGCTGAAGGTTTGAAATGTGAGA
* * * *
13070916 AGAGTTGAA-GATTCAAGATGTGAAA
1 AGAGCTGAAGGTTTGAA-ATGTGAGA
* * *
13070941 AGAGCCGAAGGTTCGAGATGTGA-A
1 AGAGCTGAAGGTTTGAAATGTGAGA
* * * *
13070965 AGAGCTGAAAGTTCGAGATGTGGGA
1 AGAGCTGAAGGTTTGAAATGTGAGA
13070990 AGAGCTGAAGGTTTG
1 AGAGCTGAAGGTTTG
13071005 GGAAGTGCAT
Statistics
Matches: 71, Mismatches: 15, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
24 26 0.37
25 42 0.59
26 3 0.04
ACGTcount: A:0.35, C:0.07, G:0.36, T:0.22
Consensus pattern (25 bp):
AGAGCTGAAGGTTTGAAATGTGAGA
Found at i:13070993 original size:49 final size:50
Alignment explanation
Indices: 13070891--13071002 Score: 138
Period size: 49 Copynumber: 2.3 Consensus size: 50
13070881 AAGTGGTATC
* *
13070891 AGAGCTGAAGGTTTGAAATGTGAGAAGAGTTGAAGATTCAAGATGTGAAA
1 AGAGCTGAAGGTTCGAAATGTGAGAAGAGCTGAAGATTCAAGATGTGAAA
* * * **
13070941 AGAGCCGAAGGTTCGAGATGTGA-AAGAGCTGAA-AGTTCGAGATGTGGGA
1 AGAGCTGAAGGTTCGAAATGTGAGAAGAGCTGAAGA-TTCAAGATGTGAAA
13070990 AGAGCTGAAGGTT
1 AGAGCTGAAGGTT
13071003 TGGGAAGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
48 1 0.02
49 32 0.60
50 20 0.38
ACGTcount: A:0.36, C:0.07, G:0.36, T:0.21
Consensus pattern (50 bp):
AGAGCTGAAGGTTCGAAATGTGAGAAGAGCTGAAGATTCAAGATGTGAAA
Found at i:13071266 original size:11 final size:11
Alignment explanation
Indices: 13071250--13071281 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
13071240 AAATCCCATA
13071250 AGAGATTTGTT
1 AGAGATTTGTT
13071261 AGAGATTTGTT
1 AGAGATTTGTT
*
13071272 TGAGATTTGT
1 AGAGATTTGT
13071282 CAGATAGTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (11 bp):
AGAGATTTGTT
Found at i:13071393 original size:52 final size:52
Alignment explanation
Indices: 13071306--13071462 Score: 199
Period size: 52 Copynumber: 3.0 Consensus size: 52
13071296 TGGACAAGAA
* * * *
13071306 GACTTGCAAAAGAAGAATTCCAAGA-GAAAGAGGATTTTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAG-GGATTCTTAATAGGCAAGTTT
* * *
13071358 GACTTGCAAGAGAATAATTCTAAAAGGAAAGGGATTCTTAATAAGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
* * * *
13071410 GACTTACAGGAGAAGAATTCTAAGAGGAGAGGGATTCTTAATGGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
13071462 G
1 G
13071463 TATGGTTATA
Statistics
Matches: 90, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
52 85 0.94
53 5 0.06
ACGTcount: A:0.39, C:0.09, G:0.25, T:0.26
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
Found at i:13072021 original size:25 final size:25
Alignment explanation
Indices: 13071987--13072100 Score: 97
Period size: 25 Copynumber: 4.6 Consensus size: 25
13071977 AAGTGGTATC
13071987 AGAGCTGAAGGTTTGAAATGTGAGA
1 AGAGCTGAAGGTTTGAAATGTGAGA
* * * *
13072012 AGAGTTGAA-GATTCAAGATGTGAAA
1 AGAGCTGAAGGTTTGAA-ATGTGAGA
* * *
13072037 AGAGCCGAAGGTTCGAGATGTGA-A
1 AGAGCTGAAGGTTTGAAATGTGAGA
* * * *
13072061 AGAGCTGAAAGTTCGAGATGTGGGA
1 AGAGCTGAAGGTTTGAAATGTGAGA
*
13072086 AGAGCTAAAGGTTTG
1 AGAGCTGAAGGTTTG
13072101 GGAAGTGCAT
Statistics
Matches: 70, Mismatches: 16, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
24 26 0.37
25 41 0.59
26 3 0.04
ACGTcount: A:0.36, C:0.07, G:0.35, T:0.22
Consensus pattern (25 bp):
AGAGCTGAAGGTTTGAAATGTGAGA
Found at i:13072090 original size:49 final size:50
Alignment explanation
Indices: 13071987--13072082 Score: 124
Period size: 50 Copynumber: 1.9 Consensus size: 50
13071977 AAGTGGTATC
* * *
13071987 AGAGCTGAAGGTTTGAAATGTGAGAAGAGTTGAAGATTCAAGATGTGAAA
1 AGAGCCGAAGGTTCGAAATGTGAGAAGAGCTGAAGATTCAAGATGTGAAA
* *
13072037 AGAGCCGAAGGTTCGAGATGTGA-AAGAGCTGAA-AGTTCGAGATGTG
1 AGAGCCGAAGGTTCGAAATGTGAGAAGAGCTGAAGA-TTCAAGATGTG
13072083 GGAAGAGCTA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
48 1 0.03
49 19 0.47
50 20 0.50
ACGTcount: A:0.36, C:0.07, G:0.34, T:0.22
Consensus pattern (50 bp):
AGAGCCGAAGGTTCGAAATGTGAGAAGAGCTGAAGATTCAAGATGTGAAA
Found at i:13072097 original size:49 final size:50
Alignment explanation
Indices: 13071987--13072098 Score: 129
Period size: 49 Copynumber: 2.3 Consensus size: 50
13071977 AAGTGGTATC
* *
13071987 AGAGCTGAAGGTTTGAAATGTGAGAAGAGTTGAAGATTCAAGATGTGAAA
1 AGAGCTGAAGGTTCGAAATGTGAGAAGAGCTGAAGATTCAAGATGTGAAA
* * * **
13072037 AGAGCCGAAGGTTCGAGATGTGA-AAGAGCTGAA-AGTTCGAGATGTGGGA
1 AGAGCTGAAGGTTCGAAATGTGAGAAGAGCTGAAGA-TTCAAGATGTGAAA
*
13072086 AGAGCTAAAGGTT
1 AGAGCTGAAGGTT
13072099 TGGGAAGTGC
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
48 1 0.02
49 31 0.60
50 20 0.38
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (50 bp):
AGAGCTGAAGGTTCGAAATGTGAGAAGAGCTGAAGATTCAAGATGTGAAA
Found at i:13072362 original size:11 final size:11
Alignment explanation
Indices: 13072346--13072377 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
13072336 AAATCCCATA
13072346 AGAGATTTGTT
1 AGAGATTTGTT
13072357 AGAGATTTGTT
1 AGAGATTTGTT
*
13072368 TGAGATTTGT
1 AGAGATTTGT
13072378 CAGATATTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (11 bp):
AGAGATTTGTT
Found at i:13072489 original size:52 final size:52
Alignment explanation
Indices: 13072402--13072558 Score: 197
Period size: 52 Copynumber: 3.0 Consensus size: 52
13072392 TGGACAAGAA
* * * * * *
13072402 GACTTGCAAAAGAAGAATTCCAAGAGAAAAAGGATTTTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
* * *
13072454 GACTTGCAAGAGAATAATTCTAAAAGGAAAGGGATTCTTAATAAGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
* * * *
13072506 GACTTACAGGAGAAGAATTCTAAGAGGAGAGGGATTCTTAATGGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
13072558 G
1 G
13072559 TATGGTTATA
Statistics
Matches: 89, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
52 89 1.00
ACGTcount: A:0.40, C:0.09, G:0.25, T:0.26
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
Found at i:13073117 original size:25 final size:25
Alignment explanation
Indices: 13073083--13073196 Score: 88
Period size: 25 Copynumber: 4.6 Consensus size: 25
13073073 AAGTGGTATC
13073083 AGAGCTGAAGGTTTGAAATGTGAGA
1 AGAGCTGAAGGTTTGAAATGTGAGA
* * * * *
13073108 AGAGTTGAA-GATTCAAGATATGAAA
1 AGAGCTGAAGGTTTGAA-ATGTGAGA
* * *
13073133 AGAGCCGAAGGTTCGAGATGTGA-A
1 AGAGCTGAAGGTTTGAAATGTGAGA
* * * *
13073157 AGAGCTGAAAGTTCGAGATGTGGGA
1 AGAGCTGAAGGTTTGAAATGTGAGA
*
13073182 AGAGCTAAAGGTTTG
1 AGAGCTGAAGGTTTG
13073197 GGAAGTGCAT
Statistics
Matches: 68, Mismatches: 18, Indels: 6
0.74 0.20 0.07
Matches are distributed among these distances:
24 26 0.38
25 39 0.57
26 3 0.04
ACGTcount: A:0.37, C:0.07, G:0.34, T:0.22
Consensus pattern (25 bp):
AGAGCTGAAGGTTTGAAATGTGAGA
Found at i:13073458 original size:11 final size:11
Alignment explanation
Indices: 13073442--13073473 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
13073432 AAATCCCATA
13073442 AGAGATTTGTT
1 AGAGATTTGTT
13073453 AGAGATTTGTT
1 AGAGATTTGTT
*
13073464 TGAGATTTGT
1 AGAGATTTGT
13073474 CAGATATTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (11 bp):
AGAGATTTGTT
Found at i:13073585 original size:52 final size:52
Alignment explanation
Indices: 13073498--13073654 Score: 199
Period size: 52 Copynumber: 3.0 Consensus size: 52
13073488 TGGACAAGAA
* * * *
13073498 GACTTGCAAAAGAAGAATTCCAAGA-GAAAGAGGATTTTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAG-GGATTCTTAATAGGCAAGTTT
* * *
13073550 GACTTGCAAGAGAATAATTCTAAAAGGAAAGGGATTCTTAATAAGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
* * * *
13073602 GACTTACAGGAGAAGAATTCTAAGAGGAGAGGGATTCTTAATGGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
13073654 G
1 G
13073655 TATGGTTATA
Statistics
Matches: 90, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
52 85 0.94
53 5 0.06
ACGTcount: A:0.39, C:0.09, G:0.25, T:0.26
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
Found at i:13074223 original size:25 final size:25
Alignment explanation
Indices: 13074181--13074286 Score: 110
Period size: 25 Copynumber: 4.3 Consensus size: 25
13074171 GTGGTATCAG
* * *
13074181 GCTGAAGGTTTGAAATGTGAGAAGA
1 GCTGAAAGTTCGAGATGTGAGAAGA
* * *
13074206 GTTG-AAGATTCAAGATGTGAAAAGA
1 GCTGAAAG-TTCGAGATGTGAGAAGA
*
13074231 GCCGAAAGTTCGAGATGTGA-AAGA
1 GCTGAAAGTTCGAGATGTGAGAAGA
*
13074255 GCTGAAAGTTCGAGATGTGGGAAGA
1 GCTGAAAGTTCGAGATGTGAGAAGA
13074280 GCT-AAAG
1 GCTGAAAG
13074287 GTTTGGGAAG
Statistics
Matches: 67, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
24 28 0.42
25 36 0.54
26 3 0.04
ACGTcount: A:0.38, C:0.08, G:0.34, T:0.21
Consensus pattern (25 bp):
GCTGAAAGTTCGAGATGTGAGAAGA
Found at i:13074553 original size:11 final size:11
Alignment explanation
Indices: 13074537--13074568 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
13074527 AAATCCCATA
13074537 AGAGATTTGTT
1 AGAGATTTGTT
13074548 AGAGATTTGTT
1 AGAGATTTGTT
*
13074559 TGAGATTTGT
1 AGAGATTTGT
13074569 CAGATATTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (11 bp):
AGAGATTTGTT
Found at i:13074680 original size:52 final size:52
Alignment explanation
Indices: 13074593--13074749 Score: 197
Period size: 52 Copynumber: 3.0 Consensus size: 52
13074583 TGGACAAGAA
* * * * * *
13074593 GACTTGCAAAAGAAGAATTCCAAGAGAAAAAGGATTTTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
* * *
13074645 GACTTGCAAGAGAATAATTCTAAAAGGAAAGGGATTCTTAATAAGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
* * * *
13074697 GACTTACAGGAGAAGAATTCTAAGAGGAGAGGGATTCTTAATGGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
13074749 G
1 G
13074750 TATGGTTATA
Statistics
Matches: 89, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
52 89 1.00
ACGTcount: A:0.40, C:0.09, G:0.25, T:0.26
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
Found at i:13075308 original size:25 final size:25
Alignment explanation
Indices: 13075274--13075387 Score: 88
Period size: 25 Copynumber: 4.6 Consensus size: 25
13075264 AAGTGGTATC
13075274 AGAGCTGAAGGTTTGAAATGTGAGA
1 AGAGCTGAAGGTTTGAAATGTGAGA
* ** * *
13075299 AGAGTTGAA-GAATAAAGATGTGAAA
1 AGAGCTGAAGGTTTGAA-ATGTGAGA
* * *
13075324 AGAGCCGAAGGTTCGAGATGTGA-A
1 AGAGCTGAAGGTTTGAAATGTGAGA
* * * *
13075348 AGAGCTGAAAGTTCGAGATGTGGGA
1 AGAGCTGAAGGTTTGAAATGTGAGA
*
13075373 AGAGCTAAAGGTTTG
1 AGAGCTGAAGGTTTG
13075388 GGAAGTGCAT
Statistics
Matches: 68, Mismatches: 18, Indels: 6
0.74 0.20 0.07
Matches are distributed among these distances:
24 25 0.37
25 41 0.60
26 2 0.03
ACGTcount: A:0.38, C:0.06, G:0.35, T:0.21
Consensus pattern (25 bp):
AGAGCTGAAGGTTTGAAATGTGAGA
Found at i:13075361 original size:24 final size:24
Alignment explanation
Indices: 13075314--13075382 Score: 86
Period size: 24 Copynumber: 2.8 Consensus size: 24
13075304 TGAAGAATAA
* *
13075314 AGATGTGAAAAGAGCCGAAGGTTCG
1 AGATGTG-AAAGAGCTGAAAGTTCG
13075339 AGATGTGAAAGAGCTGAAAGTTCG
1 AGATGTGAAAGAGCTGAAAGTTCG
*
13075363 AGATGTGGGAAGAGCT-AAAG
1 AGATGT-GAAAGAGCTGAAAG
13075383 GTTTGGGAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
24 25 0.62
25 15 0.38
ACGTcount: A:0.38, C:0.09, G:0.36, T:0.17
Consensus pattern (24 bp):
AGATGTGAAAGAGCTGAAAGTTCG
Found at i:13075649 original size:11 final size:11
Alignment explanation
Indices: 13075633--13075664 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
13075623 AAATCCCATA
13075633 AGAGATTTGTT
1 AGAGATTTGTT
13075644 AGAGATTTGTT
1 AGAGATTTGTT
*
13075655 TGAGATTTGT
1 AGAGATTTGT
13075665 CAGATATTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (11 bp):
AGAGATTTGTT
Found at i:13075776 original size:52 final size:52
Alignment explanation
Indices: 13075699--13075845 Score: 179
Period size: 52 Copynumber: 2.8 Consensus size: 52
13075689 GACTTGTAAA
* * * * *
13075699 AGAAGAATTCCAAGA-GAAAGAGGATTTTTAATAGGTAAGTTTGACTTGCAAG
1 AGAAGAATTCTAAAAGGAAAG-GGATTCTTAATAGGCAAGTTTGACTTACAAG
* * *
13075751 AGAATAATTCTAAAAGGAAAGGGATTCTTAATAAGCAAGTTTGACTTACAGG
1 AGAAGAATTCTAAAAGGAAAGGGATTCTTAATAGGCAAGTTTGACTTACAAG
* * *
13075803 AGAAGAATTCTAAGAGGAGAGGGATTCTTAATGGGCAAGTTTG
1 AGAAGAATTCTAAAAGGAAAGGGATTCTTAATAGGCAAGTTTG
13075846 TATGGTTATA
Statistics
Matches: 81, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
52 76 0.94
53 5 0.06
ACGTcount: A:0.39, C:0.08, G:0.26, T:0.27
Consensus pattern (52 bp):
AGAAGAATTCTAAAAGGAAAGGGATTCTTAATAGGCAAGTTTGACTTACAAG
Found at i:13076477 original size:24 final size:24
Alignment explanation
Indices: 13076370--13076477 Score: 94
Period size: 24 Copynumber: 4.5 Consensus size: 24
13076360 AAGTGGTATC
* * *
13076370 AGAGCTGAAGGTTTGAAATGTGAGA
1 AGAGCTGAAAGTTCGAGATGTGA-A
* * *
13076395 AGAGTTGAGA-TTCAAGATGTGAAA
1 AGAGCTGAAAGTTCGAGATGTG-AA
* *
13076419 AGAGCCGAAGGTTCGAGATGTGAA
1 AGAGCTGAAAGTTCGAGATGTGAA
*
13076443 AGAGCTGAAAGTTCGAGATGTGGGA
1 AGAGCTGAAAGTTCGAGATGT-GAA
13076468 AGAGCT-AAAG
1 AGAGCTGAAAG
13076478 GTTTGGGAAG
Statistics
Matches: 66, Mismatches: 14, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
24 40 0.61
25 26 0.39
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.20
Consensus pattern (24 bp):
AGAGCTGAAAGTTCGAGATGTGAA
Found at i:13076479 original size:49 final size:49
Alignment explanation
Indices: 13076370--13076480 Score: 125
Period size: 49 Copynumber: 2.3 Consensus size: 49
13076360 AAGTGGTATC
* * *
13076370 AGAGCTGAAGGTTTGAAATGTGAGAAGAGTTGAGATTCAAGATGTGAAA
1 AGAGCTGAAGGTTCGAAATGTGAGAAGAGCTGAAATTCAAGATGTGAAA
* * * **
13076419 AGAGCCGAAGGTTCGAGATGTGA-AAGAGCTGAAAGTTCGAGATGTGGGA
1 AGAGCTGAAGGTTCGAAATGTGAGAAGAGCTGAAA-TTCAAGATGTGAAA
*
13076468 AGAGCTAAAGGTT
1 AGAGCTGAAGGTT
13076481 TGGGAAGGCA
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
48 9 0.18
49 42 0.82
ACGTcount: A:0.36, C:0.07, G:0.35, T:0.22
Consensus pattern (49 bp):
AGAGCTGAAGGTTCGAAATGTGAGAAGAGCTGAAATTCAAGATGTGAAA
Found at i:13076706 original size:27 final size:27
Alignment explanation
Indices: 13076668--13076744 Score: 118
Period size: 27 Copynumber: 2.8 Consensus size: 27
13076658 GAAGACAGAT
13076668 GATTGATGGAATTTGAGTCAAGGTGAA
1 GATTGATGGAATTTGAGTCAAGGTGAA
13076695 GATTGATGGAATTTGAGTCAAGGTGAA
1 GATTGATGGAATTTGAGTCAAGGTGAA
* *
13076722 GATTGTTGGGAATATTGACTCAA
1 GATTGAT-GGAAT-TTGAGTCAA
13076745 ATCCCATAAG
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
27 33 0.72
28 5 0.11
29 8 0.17
ACGTcount: A:0.32, C:0.05, G:0.31, T:0.31
Consensus pattern (27 bp):
GATTGATGGAATTTGAGTCAAGGTGAA
Found at i:13076769 original size:11 final size:11
Alignment explanation
Indices: 13076753--13076784 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
13076743 AAATCCCATA
13076753 AGAGATTTGTT
1 AGAGATTTGTT
13076764 AGAGATTTGTT
1 AGAGATTTGTT
*
13076775 TGAGATTTGT
1 AGAGATTTGT
13076785 CAGATATTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (11 bp):
AGAGATTTGTT
Found at i:13076896 original size:52 final size:52
Alignment explanation
Indices: 13076813--13076965 Score: 189
Period size: 52 Copynumber: 2.9 Consensus size: 52
13076803 CAAGAAGACT
* * * * * *
13076813 TGCAAAAGAAGAATTCCAAGAGAAAAAGGATTTTTAATAGGTAAGTTTGACC
1 TGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTTGACC
* * *
13076865 TGCAAGAGAATAATTCTAAAAGGAAAGGGATTCTTAATAGGCAAGTTTGACT
1 TGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTTGACC
* * * *
13076917 TACAGGAGAAGAATTCTAAGAGGATAGGGATTCTTAATGGGCAAGTTTG
1 TGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTTG
13076966 TATGGTTATA
Statistics
Matches: 86, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
52 86 1.00
ACGTcount: A:0.40, C:0.09, G:0.25, T:0.26
Consensus pattern (52 bp):
TGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTTGACC
Found at i:13079015 original size:32 final size:32
Alignment explanation
Indices: 13078991--13079057 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
13078981 TCAATTAAAT
13078991 AATCAAGCCAGAAAAAATATAATCAAATAATC
1 AATCAAGCCAGAAAAAATATAATCAAATAATC
* * * *
13079023 AATTAAGTCAGAAGAAATATAATCAAATCATC
1 AATCAAGCCAGAAAAAATATAATCAAATAATC
13079055 AAT
1 AAT
13079058 TAATCACACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.57, C:0.13, G:0.07, T:0.22
Consensus pattern (32 bp):
AATCAAGCCAGAAAAAATATAATCAAATAATC
Found at i:13079017 original size:37 final size:33
Alignment explanation
Indices: 13078976--13079060 Score: 84
Period size: 32 Copynumber: 2.5 Consensus size: 33
13078966 CACAAAAACC
13078976 TCAAATCAATTAAATAATCAAGCCAGAAAAAATATAA
1 TCAAATCAA-TAAAT--T-AAGCCAGAAAAAATATAA
* * *
13079013 TCAAAT-AATCAATTAAGTCAGAAGAAATATAA
1 TCAAATCAATAAATTAAGCCAGAAAAAATATAA
*
13079045 TCAAATC-ATCAATTAA
1 TCAAATCAATAAATTAA
13079061 TCACACAAGA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
32 31 0.70
33 1 0.02
35 4 0.09
36 2 0.05
37 6 0.14
ACGTcount: A:0.56, C:0.13, G:0.06, T:0.25
Consensus pattern (33 bp):
TCAAATCAATAAATTAAGCCAGAAAAAATATAA
Found at i:13079058 original size:32 final size:32
Alignment explanation
Indices: 13078999--13079060 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
13078989 ATAATCAAGC
13078999 CAGAAAAAATATAATCAAATAATCAATTAAGT
1 CAGAAAAAATATAATCAAATAATCAATTAAGT
* *
13079031 CAGAAGAAATATAATCAAATCATCAATTAA
1 CAGAAAAAATATAATCAAATAATCAATTAA
13079061 TCACACAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.58, C:0.11, G:0.06, T:0.24
Consensus pattern (32 bp):
CAGAAAAAATATAATCAAATAATCAATTAAGT
Found at i:13079284 original size:34 final size:33
Alignment explanation
Indices: 13079218--13079284 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 33
13079208 CCATTCATAT
* * *
13079218 GAAATATTCTTAACCTAAACAAACATACACCCA
1 GAAATATTCTCAACCCAAACAAACACACACCCA
* *
13079251 GAAAGTATTCTCAACCCAAACAAATACATACCCA
1 GAAA-TATTCTCAACCCAAACAAACACACACCCA
13079285 TGTCGATTAC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
33 4 0.14
34 24 0.86
ACGTcount: A:0.48, C:0.28, G:0.04, T:0.19
Consensus pattern (33 bp):
GAAATATTCTCAACCCAAACAAACACACACCCA
Found at i:13079384 original size:47 final size:45
Alignment explanation
Indices: 13079322--13079422 Score: 114
Period size: 46 Copynumber: 2.2 Consensus size: 45
13079312 TCTAATTCTT
* *
13079322 CTCTAATCCATTCAAACAT-ACACATACATAAAGACCCTCTCAATCTC
1 CTCTAGTCCACTCAAACATCACACATACA-AAA-A-CCTCTCAATCTC
* *
13079369 CTCTAGTCCACTCAAACATGCACACCTACAAAAATCTCTCAATCTC
1 CTCTAGTCCACTCAAACAT-CACACATACAAAAACCTCTCAATCTC
*
13079415 CTTTAGTC
1 CTCTAGTC
13079423 TAATGGAGCA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
46 18 0.38
47 18 0.38
48 3 0.06
49 8 0.17
ACGTcount: A:0.35, C:0.35, G:0.04, T:0.27
Consensus pattern (45 bp):
CTCTAGTCCACTCAAACATCACACATACAAAAACCTCTCAATCTC
Found at i:13084358 original size:21 final size:21
Alignment explanation
Indices: 13084319--13084360 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
13084309 TAGTGAATTG
* *
13084319 AGTTTGGAGTATGACATTTTA
1 AGTTTGGAATAGGACATTTTA
*
13084340 AGTTTGGAATAGGATATTTTA
1 AGTTTGGAATAGGACATTTTA
13084361 GGTTGGGCCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.31, C:0.02, G:0.24, T:0.43
Consensus pattern (21 bp):
AGTTTGGAATAGGACATTTTA
Found at i:13085694 original size:58 final size:57
Alignment explanation
Indices: 13085470--13085953 Score: 396
Period size: 58 Copynumber: 8.1 Consensus size: 57
13085460 TGTACAAGAG
* * * *
13085470 AAAATTGATACTTTCAACTTTTTCCCAAAATATATATTTTTTTAAATTTTAATTTTGAGC
1 AAAATTGATACTTTCAAC-TTTTCCCCAAA-A-ATATTTTTTGAAAATTTAATTTTGAGA
* * * * * * *
13085530 AAAATTAATACTTTCAACTTTTCCTAAACAAAAAAACCTTTCTTGAGAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCC---CCAAAAATA--TTTTTTGAAAATTTAATTTTGAGA
* * * * *
13085592 AAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTGTTTTTTTGAAAACTTAAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATA-------TTTTTTGAAAA-TTTAATTTTGAGA
*
13085657 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAACTTTAATTTCGAGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAA-TTTAATTTTGAGA
* * * *
13085715 AAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAA--TATTTTTTGAAAATTTAATTTTGAGA
* *
13085774 AAAATTGATACTTTCAACTTTTTCCCAAAAATA-TTTTTGAAAAACTTTAATTTCGAGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTG-AAAA-TTTAATTTTGAGA
* * ** * * * *
13085832 AAAATTGATACTTTCAACTTTTTCTCAAAAAT-TTTTTTTTAGATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTAATTTTGAGA
* * * * * *
13085888 AAAATTGATACTTCCAACTTTTCCTCAAAACCTTTTTTTTTTGAAAATTTATTTTTAAGGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAA---ATATTTTTTGAAAATTTAATTTTGA-GA
13085949 AAAAT
1 AAAAT
13085954 GTTTTTTTTT
Statistics
Matches: 348, Mismatches: 55, Indels: 41
0.78 0.12 0.09
Matches are distributed among these distances:
56 43 0.12
57 7 0.02
58 99 0.28
59 52 0.15
60 50 0.14
61 7 0.02
62 42 0.12
64 9 0.03
65 39 0.11
ACGTcount: A:0.37, C:0.12, G:0.06, T:0.45
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTAATTTTGAGA
Found at i:13085803 original size:117 final size:118
Alignment explanation
Indices: 13085470--13085917 Score: 502
Period size: 117 Copynumber: 3.8 Consensus size: 118
13085460 TGTACAAGAG
* * * *
13085470 AAAATTGATACTTTCAACTTTTTCC-CAAAATATATATTTTTTTAAATTTTAATTTTGAGCAAAA
1 AAAATTGATACTTTCAACTTTTTCCTCAAAATAT-TTTTTTTTTAAAATTTAATTTTAAGGAAAA
* * * * * **
13085534 TTAATACTTTCAACTTTTCCTAAACAAAAAAACCTTTCTTGAGAA-TTTATTTTTAAGA
65 TTGATACTTTCAACTTTTCC---ACAAAAATA--TTTTTTGAAAACTTTAATTTCGAGA
* * **
13085592 AAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTGTTTTTTTGAAAACTTAAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTTCCTCAAAATA--TTT-TTTTTTT-AAAA-TTTAATTTTAAGG
*
13085657 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAACTTTAATTTCGAGA
61 AAAATTGATACTTTCAACTTTTCCACAAAAATATTTTTTGAAAACTTTAATTTCGAGA
* *
13085715 AAAATTGATACTTTCAAC-TTTTCCTCAAAA-ATTTTTTTTTTGAAAATTTATTTTTAAGAAAAA
1 AAAATTGATACTTTCAACTTTTTCCTCAAAATATTTTTTTTTT-AAAATTTAATTTTAAGGAAAA
13085778 TTGATACTTTCAACTTTTTCC-CAAAAATA-TTTTTGAAAAACTTTAATTTCGAGA
65 TTGATACTTTCAAC-TTTTCCACAAAAATATTTTTTG-AAAACTTTAATTTCGAGA
* *
13085832 AAAATTGATACTTTCAACTTTTT-CTCAAAA-A-TTTTTTTTT-AGATTTATTTTTAAGGAAAAT
1 AAAATTGATACTTTCAACTTTTTCCTCAAAATATTTTTTTTTTAAAATTTAATTTTAAGGAAAAT
* *
13085893 TGATACTTCCAACTTTTCCTCAAAA
66 TGATACTTTCAACTTTTCCACAAAA
13085918 CCTTTTTTTT
Statistics
Matches: 292, Mismatches: 23, Indels: 30
0.85 0.07 0.09
Matches are distributed among these distances:
113 6 0.02
114 36 0.12
116 15 0.05
117 78 0.27
118 22 0.08
119 3 0.01
121 1 0.00
122 45 0.15
123 34 0.12
124 8 0.03
125 8 0.03
126 3 0.01
127 33 0.11
ACGTcount: A:0.37, C:0.13, G:0.06, T:0.44
Consensus pattern (118 bp):
AAAATTGATACTTTCAACTTTTTCCTCAAAATATTTTTTTTTTAAAATTTAATTTTAAGGAAAAT
TGATACTTTCAACTTTTCCACAAAAATATTTTTTGAAAACTTTAATTTCGAGA
Found at i:13086058 original size:4 final size:4
Alignment explanation
Indices: 13086049--13086073 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
13086039 ATAATATAAT
13086049 ATTA ATTA ATTA ATTA ATTA ATTA A
1 ATTA ATTA ATTA ATTA ATTA ATTA A
13086074 AAAAAACTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
ATTA
Found at i:13086438 original size:23 final size:22
Alignment explanation
Indices: 13086400--13086479 Score: 74
Period size: 23 Copynumber: 3.6 Consensus size: 22
13086390 ATAAATATAT
** *
13086400 TAATAGATAACCAAAAAAAAAA
1 TAATAGATAAATAAAAAAATAA
* *
13086422 TAATTAGATAAAT--AAAACTAT
1 TAA-TAGATAAATAAAAAAATAA
*
13086443 TAATAGATAAATAATAATAATAA
1 TAATAGATAAATAA-AAAAATAA
13086466 TAATAGATAAATAA
1 TAATAGATAAATAA
13086480 TAATATGTAT
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
20 9 0.20
21 8 0.17
22 3 0.07
23 26 0.57
ACGTcount: A:0.65, C:0.04, G:0.05, T:0.26
Consensus pattern (22 bp):
TAATAGATAAATAAAAAAATAA
Found at i:13086450 original size:43 final size:43
Alignment explanation
Indices: 13086397--13086479 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 43
13086387 AAGATAAATA
*
13086397 TATTAATAGATAACCAA-AAAAAAAATAATTAGATAAATAAAAC
1 TATTAATAGATAAACAATAAAAAAAATAA-TAGATAAATAAAAC
* * *
13086440 TATTAATAGATAAATAATAATAATAATAATAGATAAATAA
1 TATTAATAGATAAACAATAAAAAAAATAATAGATAAATAA
13086480 TAATATGTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 26 0.74
44 9 0.26
ACGTcount: A:0.64, C:0.04, G:0.05, T:0.28
Consensus pattern (43 bp):
TATTAATAGATAAACAATAAAAAAAATAATAGATAAATAAAAC
Found at i:13086480 original size:23 final size:23
Alignment explanation
Indices: 13086420--13086558 Score: 93
Period size: 23 Copynumber: 6.2 Consensus size: 23
13086410 CCAAAAAAAA
13086420 AATAATTAGATAAATAA-AACT-AT
1 AATAA-TAGATAAATAATAA-TAAT
13086443 --TAATAGATAAATAATAATAAT
1 AATAATAGATAAATAATAATAAT
*
13086464 AATAATAGATAAATAATAATATGT
1 AATAATAGATAAATAATAATA-AT
* *
13086488 ATATCAACAGATAAATAATAAAAAT
1 A-AT-AATAGATAAATAATAATAAT
13086513 GAA-AAT-GA-AAAT-AT-AT-AT
1 -AATAATAGATAAATAATAATAAT
* *
13086531 ATTAATAGAT-AGTAATAATAAAT
1 AATAATAGATAAATAATAAT-AAT
13086554 AATAA
1 AATAA
13086559 GTAACTAAGA
Statistics
Matches: 92, Mismatches: 9, Indels: 30
0.70 0.07 0.23
Matches are distributed among these distances:
17 1 0.01
18 5 0.05
19 5 0.05
20 16 0.17
21 13 0.14
22 2 0.02
23 27 0.29
24 2 0.02
25 4 0.04
26 17 0.18
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.30
Consensus pattern (23 bp):
AATAATAGATAAATAATAATAAT
Found at i:13086505 original size:43 final size:43
Alignment explanation
Indices: 13086458--13086557 Score: 107
Period size: 41 Copynumber: 2.3 Consensus size: 43
13086448 GATAAATAAT
*
13086458 AATAATAATAATAGATAAAT-AATAATATGTATATCAACAGATA-
1 AATAATAATAATAGA-AAATGAA-AATATATATATCAACAGATAG
* * *
13086501 AATAATAAAAAT-GAAAATGAAAATATATATATTAATAGATAG
1 AATAATAATAATAGAAAATGAAAATATATATATCAACAGATAG
13086543 TAATAATAAATAATA
1 -AATAAT-AATAATA
13086558 AGTAACTAAG
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
41 21 0.45
42 4 0.09
43 17 0.36
44 5 0.11
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (43 bp):
AATAATAATAATAGAAAATGAAAATATATATATCAACAGATAG
Found at i:13087083 original size:41 final size:41
Alignment explanation
Indices: 13087027--13087289 Score: 311
Period size: 41 Copynumber: 6.4 Consensus size: 41
13087017 CTATGACTTC
*
13087027 AAAAATAAAATGCTCCTCTAAACAGAGGCACCATAACTTTG
1 AAAAATAAATTGCTCCTCTAAACAGAGGCACCATAACTTTG
* * **
13087068 AAAAGTAAATTGCTCCTCTAAATAGAGGCAACCACGACTTTG
1 AAAAATAAATTGCTCCTCTAAACAGAGGC-ACCATAACTTTG
* * ***
13087110 AAAAATAAATTGCTCCTCTAAATAAAGGCACCGCGACTTTG
1 AAAAATAAATTGCTCCTCTAAACAGAGGCACCATAACTTTG
*
13087151 AAAAGTAAATTGCTCCTCTAAACAGAGGCA--ATGAAACTTTG
1 AAAAATAAATTGCTCCTCTAAACAGAGGCACCAT--AACTTTG
13087192 AAAAATAAATTGCTCCTCTAAACAGAGGCA--ATGAAACTTTG
1 AAAAATAAATTGCTCCTCTAAACAGAGGCACCAT--AACTTTG
*
13087233 AAAAATAAATTGCTCCTCTAAACAGAGGCAAACGA-AACTTTG
1 AAAAATAAATTGCTCCTCTAAACAGAGGC--ACCATAACTTTG
*
13087275 AAAAGTAAATTGCTC
1 AAAAATAAATTGCTC
13087290 ATTGACAATC
Statistics
Matches: 199, Mismatches: 16, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
41 139 0.70
42 58 0.29
43 1 0.01
45 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.24
Consensus pattern (41 bp):
AAAAATAAATTGCTCCTCTAAACAGAGGCACCATAACTTTG
Found at i:13087128 original size:83 final size:81
Alignment explanation
Indices: 13087027--13087289 Score: 343
Period size: 83 Copynumber: 3.2 Consensus size: 81
13087017 CTATGACTTC
* *
13087027 AAAAATAAAATGCTCCTCTAAACAGAGGCACCATAACTTTGAAAAGTAAATTGCTCCTCTAAATA
1 AAAAATAAATTGCTCCTCTAAACAGAGGCACCATAACTTTGAAAAGTAAATTGCTCCTCTAAACA
13087092 GAGGCAACCACGACTTTG
66 GAGGCAA--ACGACTTTG
* * ***
13087110 AAAAATAAATTGCTCCTCTAAATAAAGGCACCGCGACTTTGAAAAGTAAATTGCTCCTCTAAACA
1 AAAAATAAATTGCTCCTCTAAACAGAGGCACCATAACTTTGAAAAGTAAATTGCTCCTCTAAACA
*
13087175 GAGGCAATGA-AACTTTG
66 GAGGCAA--ACGACTTTG
*
13087192 AAAAATAAATTGCTCCTCTAAACAGAGGCA--ATGAAACTTTGAAAAATAAATTGCTCCTCTAAA
1 AAAAATAAATTGCTCCTCTAAACAGAGGCACCAT--AACTTTGAAAAGTAAATTGCTCCTCTAAA
13087255 CAGAGGCAAACGAAACTTTG
64 CAGAGGCAAACG--ACTTTG
*
13087275 AAAAGTAAATTGCTC
1 AAAAATAAATTGCTC
13087290 ATTGACAATC
Statistics
Matches: 157, Mismatches: 18, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
80 1 0.01
82 70 0.45
83 86 0.55
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.24
Consensus pattern (81 bp):
AAAAATAAATTGCTCCTCTAAACAGAGGCACCATAACTTTGAAAAGTAAATTGCTCCTCTAAACA
GAGGCAAACGACTTTG
Found at i:13087179 original size:124 final size:123
Alignment explanation
Indices: 13087027--13087289 Score: 368
Period size: 124 Copynumber: 2.1 Consensus size: 123
13087017 CTATGACTTC
* * * *
13087027 AAAAATAAAATGCTCCTCTAAACAGAGGCACCAT-AACTTTGAAAAGTAAATTGCTCCTCTAAAT
1 AAAAGTAAATTGCTCCTCTAAACAGAGGCA--ATAAACTTTGAAAAATAAATTGCTCCTCTAAAC
* * * **
13087091 AGAGGCAACCACGACTTTGAAAAATAAATTGCTCCTCTAAATAAAGGC-ACCGCGACTTTG
64 AGAGGCAACCA-AACTTTGAAAAATAAATTGCTCCTCTAAACAAAGGCAAACGAAACTTTG
13087151 AAAAGTAAATTGCTCCTCTAAACAGAGGCAATGAAACTTTGAAAAATAAATTGCTCCTCTAAACA
1 AAAAGTAAATTGCTCCTCTAAACAGAGGCAAT-AAACTTTGAAAAATAAATTGCTCCTCTAAACA
** *
13087216 GAGGCAATGAAACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCAAACGAAACTTTG
65 GAGGCAACCAAACTTTGAAAAATAAATTGCTCCTCTAAACAAAGGCAAACGAAACTTTG
13087275 AAAAGTAAATTGCTC
1 AAAAGTAAATTGCTC
13087290 ATTGACAATC
Statistics
Matches: 124, Mismatches: 12, Indels: 6
0.87 0.08 0.04
Matches are distributed among these distances:
122 2 0.02
123 33 0.27
124 89 0.72
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.24
Consensus pattern (123 bp):
AAAAGTAAATTGCTCCTCTAAACAGAGGCAATAAACTTTGAAAAATAAATTGCTCCTCTAAACAG
AGGCAACCAAACTTTGAAAAATAAATTGCTCCTCTAAACAAAGGCAAACGAAACTTTG
Found at i:13087856 original size:22 final size:21
Alignment explanation
Indices: 13087807--13087847 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
13087797 GGTTTCACTC
13087807 CTCAAAGATTCTCATTTTGAAA
1 CTCAAAGATTCTCA-TTTGAAA
13087829 CTCAAAGATTCTCATTTGA
1 CTCAAAGATTCTCATTTGA
13087848 GTTCTCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.37
Consensus pattern (21 bp):
CTCAAAGATTCTCATTTGAAA
Found at i:13088967 original size:25 final size:23
Alignment explanation
Indices: 13088938--13089015 Score: 88
Period size: 25 Copynumber: 3.4 Consensus size: 23
13088928 AATTTAAATC
13088938 TCTTTTTTTCATTTTCTCATTTTTT
1 TCTTTTTTTCATTTTCT--TTTTTT
* *
13088963 TCTTTTTTTTATTTT-TTTTTAT
1 TCTTTTTTTCATTTTCTTTTTTT
*
13088985 T-TTTTTTTCATCTTCTTTTTTT
1 TCTTTTTTTCATTTTCTTTTTTT
*
13089007 TCATTTTTT
1 TCTTTTTTT
13089016 ATCCATTGTT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
21 11 0.24
22 13 0.29
23 6 0.13
24 1 0.02
25 14 0.31
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.81
Consensus pattern (23 bp):
TCTTTTTTTCATTTTCTTTTTTT
Found at i:13088968 original size:16 final size:16
Alignment explanation
Indices: 13088936--13089013 Score: 67
Period size: 15 Copynumber: 5.1 Consensus size: 16
13088926 TCAATTTAAA
13088936 TCTCTTTTTTTCATTT
1 TCTCTTTTTTTCATTT
13088952 TCTCATTTTTTTC-TTT
1 TCTC-TTTTTTTCATTT
*
13088968 T-T-TTTATTTT-TTTT
1 TCTCTTT-TTTTCATTT
* * *
13088982 TATTTTTTTTTCATCT
1 TCTCTTTTTTTCATTT
13088998 TCT-TTTTTTTCATTT
1 TCTCTTTTTTTCATTT
13089013 T
1 T
13089014 TTATCCATTG
Statistics
Matches: 52, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
13 3 0.06
14 8 0.15
15 18 0.35
16 15 0.29
17 8 0.15
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.79
Consensus pattern (16 bp):
TCTCTTTTTTTCATTT
Found at i:13088970 original size:10 final size:10
Alignment explanation
Indices: 13088965--13088992 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
13088955 CATTTTTTTC
13088965 TTTTTTTTAT
1 TTTTTTTTAT
13088975 TTTTTTTTAT
1 TTTTTTTTAT
13088985 TTTTTTTT
1 TTTTTTTT
13088993 CATCTTCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.07, C:0.00, G:0.00, T:0.93
Consensus pattern (10 bp):
TTTTTTTTAT
Found at i:13088987 original size:17 final size:17
Alignment explanation
Indices: 13088940--13088989 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
13088930 TTTAAATCTC
* *
13088940 TTTTTTTCATTTTCTCAT
1 TTTTTTTTATTTT-TTAT
13088958 TTTTTTCTT-TTTTTTAT
1 TTTTTT-TTATTTTTTAT
13088975 TTTTTTTTATTTTTT
1 TTTTTTTTATTTTTT
13088990 TTTCATCTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
16 2 0.07
17 15 0.54
18 10 0.36
19 1 0.04
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTTTTTTATTTTTTAT
Found at i:13093051 original size:62 final size:62
Alignment explanation
Indices: 13092968--13093120 Score: 197
Period size: 61 Copynumber: 2.5 Consensus size: 62
13092958 TTAATTTCGA
* * *
13092968 AAAAAAT--TACTTTCAACTTTTCCTAAAAAAAAAAACCTTTCTTGACAATTTATTTTTTAA-
1 AAAAAATGATACTTTCAATTTTTCCTAAAAAAAAAAACCTTTCTTGAAAATTCA-TTTTTAAG
* * *
13093028 AAAAATTGATACTTTCAATTTTTCCT-AAAAAAAAAACTTTTTTTGAAAATTCATTTTTAAG
1 AAAAAATGATACTTTCAATTTTTCCTAAAAAAAAAAACCTTTCTTGAAAATTCATTTTTAAG
*
13093089 AAAAAATGATACTTTTAACTTTTTCCTAAAAA
1 AAAAAATGATACTTTCAA-TTTTTCCTAAAAA
13093121 TATTTTTGTT
Statistics
Matches: 80, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
60 13 0.16
61 39 0.49
62 24 0.30
63 4 0.05
ACGTcount: A:0.44, C:0.12, G:0.03, T:0.41
Consensus pattern (62 bp):
AAAAAATGATACTTTCAATTTTTCCTAAAAAAAAAAACCTTTCTTGAAAATTCATTTTTAAG
Found at i:13093347 original size:236 final size:233
Alignment explanation
Indices: 13093028--13093649 Score: 710
Period size: 236 Copynumber: 2.6 Consensus size: 233
13093018 TATTTTTTAA
* * * *
13093028 AAAAATTGATACTTTCAA-TTTTTCCTAAAAAAAAAACTTTTTTTGAAAATTCATTTTTAAGAAA
1 AAAAATTAATACTTTCAACTTTTT-CT--CAAAAAAATTTTTTTTGAAAATTTATTTTTAA-AAA
* *
13093092 AAA-TGATACTTTTAACTTTTTCCTAAAAATATTTTTGTTTTTGAAAAC-TTGAATTTC-GAGAA
62 AAATTGATACTTTCAACTTTTTCC-AAAAATA----T-TTTTTGAAAACTTTGAATTTCAAAG-A
* * * *
13093154 AAATTGATACTTTCAATTTTTCTTC-AAAAATAC-CTTTGAAAATTTATCTTTAAGGAAAATTAA
120 AAATTGATACTTTCAACTTTTCCTCAAAAAAAACTCTTTGAAAATTTATCTTTAAGAAAAATTAA
*
13093217 TACTTTCAACTTTTTCTCAAAAATATTTTTT-GAAAACTTTAATTTCGAG
185 TACTTTCAACTTTTTC-CAAAAATATTTTTTAAAAAACTTTAATTTCGAG
* * ***
13093266 GAAAATTGAT-CTTTCAACTTTTTCTCAAAATCTTTTTTTTTTGAAAATTTATTTTTAAAAAAAA
1 AAAAATTAATACTTTCAACTTTTTCTCAAAA-AAATTTTTTTTGAAAATTTATTTTTAAAAAAAA
*
13093330 TTGATACTTTCAACTTTTCTCCGAAAATATTTTTTGAAAACTTTGAATTTCAAAGAAAATTGATA
65 TTGATACTTTCAACTTTT-TCCAAAAATATTTTTTGAAAACTTTGAATTTCAAAGAAAATTGATA
* * *
13093395 CTTTCAACTTTTCCTCAAAAAAAAAACTTTTTTGAAAATTTATTTTTAAGAAAAATTGATACTTT
129 CTTTCAACTTTTCCTC--AAAAAAAAC-TCTTTGAAAATTTATCTTTAAGAAAAATTAATACTTT
*
13093460 CAACTTTTTCCTAAAATATTTTTTAAAAAACTTTAATTTCGAG
191 CAACTTTTTCCAAAAATATTTTTTAAAAAACTTTAATTTCGAG
* *
13093503 AAAAATTAATACTTTCAACTTTTTCTCAAAAAAATCTTTTTT-AAAATTTATTTTTAAGAAAAAT
1 AAAAATTAATACTTTCAACTTTTTCTCAAAAAAATTTTTTTTGAAAATTTATTTTTAAAAAAAAT
* * * * *
13093567 TGATACTTTCAACTTTTTCTCAAAAAAATCTTTTTTG-AAA-TTT-ATTTTTAAAAAAAATTTAT
66 TGATACTTTCAACTTTTTC-C--AAAAATATTTTTTGAAAACTTTGAATTTCAAAGAAAATTGAT
* *
13093629 ACTTTTAACTTTTCCTTAAAA
128 ACTTTCAACTTTTCCTCAAAA
13093650 CCATTTTTTA
Statistics
Matches: 334, Mismatches: 34, Indels: 37
0.82 0.08 0.09
Matches are distributed among these distances:
231 11 0.03
232 34 0.10
233 6 0.02
235 49 0.15
236 99 0.30
237 89 0.27
238 46 0.14
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.44
Consensus pattern (233 bp):
AAAAATTAATACTTTCAACTTTTTCTCAAAAAAATTTTTTTTGAAAATTTATTTTTAAAAAAAAT
TGATACTTTCAACTTTTTCCAAAAATATTTTTTGAAAACTTTGAATTTCAAAGAAAATTGATACT
TTCAACTTTTCCTCAAAAAAAACTCTTTGAAAATTTATCTTTAAGAAAAATTAATACTTTCAACT
TTTTCCAAAAATATTTTTTAAAAAACTTTAATTTCGAG
Found at i:13093508 original size:58 final size:56
Alignment explanation
Indices: 13093022--13093682 Score: 480
Period size: 58 Copynumber: 11.2 Consensus size: 56
13093012 ACAATTTATT
* * *
13093022 TTTTAA-AAAAATTGATACTTTCAA-TTTTTCCTAAAAAAAAAACTTTTTTTGAAAATTCAT
1 TTTTAAGAAAAATTGATACTTTCAACTTTTTCCT----AAAATA--TTTTTTGAAAATTTAA
* * *
13093082 TTTTAAGAAAAAATGATACTTTTAACTTTTTCCTAAAAATATTTTTGTTTTTGAAAACTTGAA
1 TTTTAAGAAAAATTGATACTTTCAACTTTTTCCT-AAAATA----T-TTTTTGAAAA-TTTAA
** * **
13093145 TTTCGAGAAAAATTGATACTTTCAA-TTTTTCTTCAAAA-ATACCTTTGAAAATTT-A
1 TTTTAAGAAAAATTGATACTTTCAACTTTTTCCT-AAAATAT-TTTTTGAAAATTTAA
* * *
13093200 TCTTTAAGGAAAATTAATACTTTCAACTTTTTCTCAAAAATATTTTTTGAAAACTTTAA
1 T-TTTAAGAAAAATTGATACTTTCAACTTTTTC-CTAAAATATTTTTTGAAAA-TTTAA
** * * *
13093259 TTTCGAGGAAAATTGAT-CTTTCAACTTTTT-CTCAAAATCTTTTTTTTTTGAAAATTTAT
1 TTTTAAGAAAAATTGATACTTTCAACTTTTTCCT-AAAA----TATTTTTTGAAAATTTAA
* *
13093318 TTTTAAAAAAAATTGATACTTTCAACTTTTCTCCGAAAATATTTTTTGAAAACTTTGAA
1 TTTTAAGAAAAATTGATACTTTCAACTTTT-TCCTAAAATATTTTTTGAAAA-TTT-AA
* * *
13093377 TTTCAA-AGAAAATTGATACTTTCAAC-TTTTCCTCAAAAAAAAAACTTTTTTGAAAATTTAT
1 TTTTAAGA-AAAATTGATACTTTCAACTTTTTCCT-----AAAATA-TTTTTTGAAAATTTAA
*
13093438 TTTTAAGAAAAATTGATACTTTCAACTTTTTCCTAAAATATTTTTTAAAAAACTTTAA
1 TTTTAAGAAAAATTGATACTTTCAACTTTTTCCTAAAATATTTTTT-GAAAA-TTTAA
** * * * * *
13093496 TTTCGAGAAAAATTAATACTTTCAACTTTTTCTCAAAAAAATCTTTTTTAAAATTTAT
1 TTTTAAGAAAAATTGATACTTTCAACTTTTTC-CTAAAATAT-TTTTTGAAAATTTAA
* * *
13093554 TTTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAAAATCTTTTTTG-AAATTTAT
1 TTTTAAGAAAAATTGATACTTTCAACTTTTTC-C--TAAAATATTTTTTGAAAATTTAA
* * * * * *
13093612 TTTTAAAAAAAATTTATACTTTTAAC-TTTTCCTTAAAACCATTTTTTAAAAAAATTTAT
1 TTTTAAGAAAAATTGATACTTTCAACTTTTTCC-TAAAA-TATTTTTT--GAAAATTTAA
13093671 TTTTAAGAAAAA
1 TTTTAAGAAAAA
13093683 ATATTTTTTT
Statistics
Matches: 493, Mismatches: 67, Indels: 83
0.77 0.10 0.13
Matches are distributed among these distances:
55 7 0.01
56 39 0.08
57 69 0.14
58 124 0.25
59 84 0.17
60 41 0.08
61 48 0.10
62 46 0.09
63 35 0.07
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.44
Consensus pattern (56 bp):
TTTTAAGAAAAATTGATACTTTCAACTTTTTCCTAAAATATTTTTTGAAAATTTAA
Found at i:13093681 original size:18 final size:18
Alignment explanation
Indices: 13093660--13093694 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
13093650 CCATTTTTTA
13093660 AAAAAAT-TTATTTTTAAG
1 AAAAAATATT-TTTTTAAG
13093678 AAAAAATATTTTTTTAA
1 AAAAAATATTTTTTTAA
13093695 CTTTATTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (18 bp):
AAAAAATATTTTTTTAAG
Found at i:13093742 original size:6 final size:6
Alignment explanation
Indices: 13093703--13093812 Score: 53
Period size: 6 Copynumber: 17.5 Consensus size: 6
13093693 AACTTTATTT
** *
13093703 AAAT-A AAATAA AATATAA GAAACGA AAATAAA AAATAA AAATAA AAATATT
1 AAATAA AAATAA AA-ATAA -AAATAA AAAT-AA AAATAA AAATAA AAATA-A
* *** * * *
13093754 AAACAA TCCT-A ATATAA TAATAA ATAATAA AAATAA AAATAA AAAAACGA
1 AAATAA AAATAA AAATAA AAATAA A-AATAA AAATAA AAATAA AAATA--A
13093804 AAATAA AAA
1 AAATAA AAA
13093813 AAATAACAAT
Statistics
Matches: 77, Mismatches: 19, Indels: 17
0.68 0.17 0.15
Matches are distributed among these distances:
5 6 0.08
6 43 0.56
7 21 0.27
8 7 0.09
ACGTcount: A:0.74, C:0.05, G:0.03, T:0.19
Consensus pattern (6 bp):
AAATAA
Found at i:13093780 original size:72 final size:69
Alignment explanation
Indices: 13093702--13093848 Score: 190
Period size: 72 Copynumber: 2.0 Consensus size: 69
13093692 TAACTTTATT
*
13093702 TAAAT-AAAAT-AAAATATAAGAAACGAAAATAAAAAATAAAAATAAAAATATTAAACAATCCTA
1 TAAATAAAAATAAAAATA-AAAAAACGAAAAT---AAA-AAAAATAAAAATATTAAACAATCCTA
13093765 ATATAATAA
61 ATATAATAA
*
13093774 TAAATAATAAAAATAAAAATAAAAAAACGAAAATAAAAAAAATAACAATATTAAACAATCCTAAT
1 T--A-AATAAAAATAAAAATAAAAAAACGAAAATAAAAAAAATAAAAATATTAAACAATCCTAAT
13093839 ATAATAA
63 ATAATAA
13093846 TAA
1 TAA
13093849 TTAATTAATT
Statistics
Matches: 68, Mismatches: 2, Indels: 13
0.82 0.02 0.16
Matches are distributed among these distances:
69 1 0.01
70 1 0.01
72 36 0.53
73 3 0.04
74 1 0.01
75 3 0.04
76 17 0.25
77 6 0.09
ACGTcount: A:0.70, C:0.06, G:0.02, T:0.22
Consensus pattern (69 bp):
TAAATAAAAATAAAAATAAAAAAACGAAAATAAAAAAAATAAAAATATTAAACAATCCTAATATA
ATAA
Found at i:13093806 original size:14 final size:14
Alignment explanation
Indices: 13093775--13093814 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
13093765 ATATAATAAT
*
13093775 AAATAATAAAAATAA
1 AAATAA-AAAAACAA
*
13093790 AAATAAAAAAACGA
1 AAATAAAAAAACAA
13093804 AAATAAAAAAA
1 AAATAAAAAAA
13093815 ATAACAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 17 0.74
15 6 0.26
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.12
Consensus pattern (14 bp):
AAATAAAAAAACAA
Found at i:13093870 original size:72 final size:70
Alignment explanation
Indices: 13093732--13093885 Score: 204
Period size: 72 Copynumber: 2.2 Consensus size: 70
13093722 AAACGAAAAT
*
13093732 AAAAAATAAAAATAAAAATATTAAACAATCCTAATATAATAATAAATAATAAAAATAAAAATAAA
1 AAAAAAAAAAAATAAAAATATTAAACAATCCTAATATAATAATAAATAATAAAAAT-AAAATAAA
13093797 AAAACG
65 AAAACG
* * * *
13093803 AAAATAAAAAAAATAACAATATTAAACAATCCTAATATAATAATAATTAATTAATTAAT-TAA-A
1 AAAA-AAAAAAAATAAAAATATTAAACAATCCTAATATAATAATAAATAA-TAA-AAATAAAATA
13093866 AAAAAACG
63 AAAAAACG
*
13093874 AAAAAAACAAAA
1 AAAAAAAAAAAA
13093886 CCTGGGAACG
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
70 7 0.09
71 17 0.23
72 44 0.59
73 3 0.04
74 3 0.04
ACGTcount: A:0.70, C:0.06, G:0.01, T:0.22
Consensus pattern (70 bp):
AAAAAAAAAAAATAAAAATATTAAACAATCCTAATATAATAATAAATAATAAAAATAAAATAAAA
AAACG
Done.