Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr1
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: 35726063
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1821929 characters in sequence are not A, C, G, or T
File 44 of 109
Found at i:14424287 original size:36 final size:36
Alignment explanation
Indices: 14424247--14424321 Score: 123
Period size: 36 Copynumber: 2.1 Consensus size: 36
14424237 TGTGGCACAG
* *
14424247 TCTTGAACATGCCCTTGAGTTTGTCCTGAAATAGTT
1 TCTTGAACATGCCATTGAGTCTGTCCTGAAATAGTT
*
14424283 TCTTGAACATGCCATTGAGTCTGTCTTGAAATAGTT
1 TCTTGAACATGCCATTGAGTCTGTCCTGAAATAGTT
14424319 TCT
1 TCT
14424322 AACTTGTAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.40
Consensus pattern (36 bp):
TCTTGAACATGCCATTGAGTCTGTCCTGAAATAGTT
Found at i:14427066 original size:18 final size:17
Alignment explanation
Indices: 14427026--14427066 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
14427016 ATTTCTTTTC
14427026 CTTTTTCCTTTTTCCTT
1 CTTTTTCCTTTTTCCTT
14427043 -TATTTTCTCTTTTTCCTT
1 CT-TTTTC-CTTTTTCCTT
14427061 CTTTTT
1 CTTTTT
14427067 TGTTCATTCG
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 1 0.05
17 5 0.24
18 14 0.67
19 1 0.05
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.73
Consensus pattern (17 bp):
CTTTTTCCTTTTTCCTT
Found at i:14434600 original size:48 final size:48
Alignment explanation
Indices: 14434525--14434619 Score: 136
Period size: 48 Copynumber: 2.0 Consensus size: 48
14434515 GAACCACTGT
*
14434525 AATACATTGTGGATGAACCACTAGTCGTGCAAATAGACTGCCGACTAA
1 AATACATTGTGGATGAACCACTAGTCGTGCAAATAAACTGCCGACTAA
* * * * *
14434573 AATACGTTGTGGATGAAGCATTGGTCGTGCAAATAAATTGCCGACTA
1 AATACATTGTGGATGAACCACTAGTCGTGCAAATAAACTGCCGACTA
14434620 CTTCCTCGGT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (48 bp):
AATACATTGTGGATGAACCACTAGTCGTGCAAATAAACTGCCGACTAA
Found at i:14434755 original size:34 final size:32
Alignment explanation
Indices: 14434662--14434773 Score: 104
Period size: 33 Copynumber: 3.4 Consensus size: 32
14434652 ATGTAACATG
14434662 ACATGTTTATAACAGATCAATACGGTAGCAA-TA
1 ACATGTTTAT-A-AGATCAATACGGTAGCAATTA
*
14434695 ACAT-TCTTATAACGAGTCAATTCGGTAGCAATTA
1 ACATGT-TTATAA-GA-TCAATACGGTAGCAATTA
*
14434729 TCATGTTTATGATAGATCAATACGGTAGCAA-TA
1 ACATGTTTAT-A-AGATCAATACGGTAGCAATTA
* *
14434762 AAATGCTTATAA
1 ACATGTTTATAA
14434774 CAAATCGATA
Statistics
Matches: 66, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
31 2 0.03
32 5 0.08
33 31 0.47
34 23 0.35
35 4 0.06
36 1 0.02
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.31
Consensus pattern (32 bp):
ACATGTTTATAAGATCAATACGGTAGCAATTA
Found at i:14434771 original size:67 final size:67
Alignment explanation
Indices: 14434663--14434902 Score: 288
Period size: 67 Copynumber: 3.6 Consensus size: 67
14434653 TGTAACATGA
* * * * * * *
14434663 CATGTTTATAACAGATCAATACGGTAGCAATAACATTCTTATAACGAGTCAATTCGGTAGCAATT
1 CATGTTTATAATAGATCAATACGGTAGCAATAAAATGCTTATAACAAGTCGATTCAGTAGCATTT
14434728 AT
66 AT
* *
14434730 CATGTTTATGATAGATCAATACGGTAGCAATAAAATGCTTATAACAAATCGATAT-AGTAGCATT
1 CATGTTTATAATAGATCAATACGGTAGCAATAAAATGCTTATAACAAGTCGAT-TCAGTAGCATT
*
14434794 TGT
65 TAT
* * * * *
14434797 CATGCTTATAGTAGATCAGTACGGT-G-AATAACATGCTTATAACAAGTCGATACAGTAGCATTT
1 CATGTTTATAATAGATCAATACGGTAGCAATAAAATGCTTATAACAAGTCGATTCAGTAGCATTT
14434860 AT
66 AT
* *
14434862 CATGTTTGTAATAGATCAATATGGTAGCAATAAACATGCTT
1 CATGTTTATAATAGATCAATACGGTAGCAATAAA-ATGCTT
14434903 GGCATGTATT
Statistics
Matches: 144, Mismatches: 24, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
65 54 0.38
66 2 0.01
67 81 0.56
68 7 0.05
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (67 bp):
CATGTTTATAATAGATCAATACGGTAGCAATAAAATGCTTATAACAAGTCGATTCAGTAGCATTT
AT
Found at i:14436441 original size:20 final size:21
Alignment explanation
Indices: 14436401--14436441 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
14436391 GTTTGGGATG
**
14436401 GTTATATTTAAAAATTTTAAA
1 GTTATATTTAAAAATCCTAAA
14436422 GTTATA-TTAAAAATCCTAAA
1 GTTATATTTAAAAATCCTAAA
14436442 AAATTATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (21 bp):
GTTATATTTAAAAATCCTAAA
Found at i:14438916 original size:194 final size:195
Alignment explanation
Indices: 14438586--14438974 Score: 771
Period size: 194 Copynumber: 2.0 Consensus size: 195
14438576 ATTAAAAATA
14438586 ATAATAATAAATAGATAAATTAGAAAAAAAAACTAGACGTTCCTTACAGGTTGCAACAGTCCAAA
1 ATAATAATAAATAGATAAATTAGAAAAAAAAACTAGACGTTCCTTACAGGTTGCAACAGTCCAAA
14438651 TTTTGGTGCAAACTACAAGATGTCTTTTTTTTTCAACAAATTCATTATTTTGATGACATGTAACT
66 TTTTGGTGCAAACTACAAGATGTCTTTTTTTTTCAACAAATTCATTATTTTGATGACATGTAACT
14438716 TTATAATAATTTAATTAATATTTAGTAAGATTGATACCATAAAATAGAAGTATATTCTGTTTGAT
131 TTATAATAATTTAATTAATATTTAGTAAGATTGATACCATAAAATAGAAGTATATTCTGTTTGAT
14438781 ATAATAAT-AATAGATAAATTAGAAAAAAAAACTAGACGTTCCTTACAGGTTGCAACAGTCCAAA
1 ATAATAATAAATAGATAAATTAGAAAAAAAAACTAGACGTTCCTTACAGGTTGCAACAGTCCAAA
14438845 TTTTGGTGCAAACTACAAGATGTCTTTTTTTTTCAACAAATTCATTATTTTGATGACATGTAACT
66 TTTTGGTGCAAACTACAAGATGTCTTTTTTTTTCAACAAATTCATTATTTTGATGACATGTAACT
14438910 TTATAATAATTTAATTAATATTTAGTAAGATTGATACCATAAAATAGAAGTATATTCTGTTTGAT
131 TTATAATAATTTAATTAATATTTAGTAAGATTGATACCATAAAATAGAAGTATATTCTGTTTGAT
14438975 TCATTTCTAT
Statistics
Matches: 194, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
194 186 0.96
195 8 0.04
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (195 bp):
ATAATAATAAATAGATAAATTAGAAAAAAAAACTAGACGTTCCTTACAGGTTGCAACAGTCCAAA
TTTTGGTGCAAACTACAAGATGTCTTTTTTTTTCAACAAATTCATTATTTTGATGACATGTAACT
TTATAATAATTTAATTAATATTTAGTAAGATTGATACCATAAAATAGAAGTATATTCTGTTTGAT
Found at i:14439964 original size:23 final size:23
Alignment explanation
Indices: 14439933--14439978 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
14439923 TTTAGATTAA
* *
14439933 TCATTATTT-TTTTAAAAATATT
1 TCATTATTTATATAAAAAATATT
14439955 TCATATATTTATATAAAAAATATT
1 TCAT-TATTTATATAAAAAATATT
14439979 ATAAATATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 4 0.20
23 5 0.25
24 11 0.55
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.52
Consensus pattern (23 bp):
TCATTATTTATATAAAAAATATT
Found at i:14440012 original size:11 final size:11
Alignment explanation
Indices: 14439968--14440016 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
14439958 TATATTTATA
14439968 TAAA-AAATAT
1 TAAATAAATAT
14439978 T--ATAAATAT
1 TAAATAAATAT
*
14439987 TAAATAATGAGAT
1 TAAATAA--ATAT
14440000 TAAATAAATAT
1 TAAATAAATAT
14440011 TAAATA
1 TAAATA
14440017 TAAAATACTC
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
8 1 0.03
9 7 0.22
10 1 0.03
11 13 0.41
13 10 0.31
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (11 bp):
TAAATAAATAT
Found at i:14449434 original size:21 final size:23
Alignment explanation
Indices: 14449410--14449457 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
14449400 TTGAAATGAA
14449410 AAATATTAA-AT-ATTTTTAAAT
1 AAATATTAATATCATTTTTAAAT
14449431 AAATA--AATATCATTTTTAAAT
1 AAATATTAATATCATTTTTAAAT
14449452 -AATATT
1 AAATATT
14449458 GTAATTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 2 0.09
20 6 0.26
21 15 0.65
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (23 bp):
AAATATTAATATCATTTTTAAAT
Found at i:14460105 original size:108 final size:106
Alignment explanation
Indices: 14459918--14460111 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 106
14459908 GAGATTTAAG
*
14459918 AGGATATTTGGATATTTAGTCAAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGA
1 AGGATATTTGGATATTTAGTCAAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCAA
* * *
14459983 ATTTTCAAACGCAAAATATTGTCTTATTTCGAAATTTGAAA
66 ATCTCCAAACGCAAAACATTGTCTTATTTCGAAATTTGAAA
* *
14460024 AGGATATTTGGCTATTT-GATCAAACGAGAAAAATCGAAACTCAGCACATTAGGGCACGTTTTCT
1 AGGATATTTGGATATTTAG-TCAAACGAG--AAATCGAAACCCAGCACATTAGGGCACGTTTTCT
14460088 CAAATCTCCAAACGCAAAACATTG
63 CAAATCTCCAAACGCAAAACATTG
14460112 CCTTTATTAT
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
105 1 0.01
106 25 0.32
108 53 0.67
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (106 bp):
AGGATATTTGGATATTTAGTCAAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCAA
ATCTCCAAACGCAAAACATTGTCTTATTTCGAAATTTGAAA
Found at i:14462234 original size:21 final size:20
Alignment explanation
Indices: 14462210--14462299 Score: 57
Period size: 22 Copynumber: 4.5 Consensus size: 20
14462200 TGCTTATAGC
14462210 TAATCTTAAAAAAATTATGTA
1 TAAT-TTAAAAAAATTATGTA
* *
14462231 TAA--TAATAATATTA--TA
1 TAATTTAAAAAAATTATGTA
14462247 -AATCTT-AAAAAATTATGTA
1 TAAT-TTAAAAAAATTATGTA
*
14462266 TATATTATAAAAAATTTATGTA
1 TA-ATT-TAAAAAAATTATGTA
14462288 TATATTATAAAA
1 TA-ATT-TAAAA
14462300 TTATAAAAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 17
0.71 0.06 0.22
Matches are distributed among these distances:
15 2 0.04
16 2 0.04
17 7 0.13
18 10 0.18
19 2 0.04
20 2 0.04
21 6 0.11
22 24 0.44
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.41
Consensus pattern (20 bp):
TAATTTAAAAAAATTATGTA
Found at i:14462284 original size:22 final size:21
Alignment explanation
Indices: 14462252--14462299 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 21
14462242 TTATAAATCT
14462252 TAAAAAATTATGTATATATTA
1 TAAAAAATTATGTATATATTA
14462273 TAAAAAATTTATGTATATATTA
1 TAAAAAA-TTATGTATATATTA
14462295 TAAAA
1 TAAAA
14462300 TTATAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 7 0.27
22 19 0.73
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (21 bp):
TAAAAAATTATGTATATATTA
Found at i:14465764 original size:66 final size:66
Alignment explanation
Indices: 14465684--14465816 Score: 212
Period size: 66 Copynumber: 2.0 Consensus size: 66
14465674 ATTAAAGATA
14465684 TCCTATGAGGGTAATATTGAGAAACATGTCCATATTGTAGTAAACATAAAATTATTTTCTATGTA
1 TCCTATGAGGGTAATATTGAGAAACATGTCCATATTGTAGTAAACATAAAATTATTTTCTATGTA
14465749 T
66 T
* * * * **
14465750 TCCTATGAGGGTAATGTTGGGAAACGTGTTCATATTGTAGTAAACATGTAATTATTTTCTATGTA
1 TCCTATGAGGGTAATATTGAGAAACATGTCCATATTGTAGTAAACATAAAATTATTTTCTATGTA
14465815 T
66 T
14465816 T
1 T
14465817 TGAACGATGC
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (66 bp):
TCCTATGAGGGTAATATTGAGAAACATGTCCATATTGTAGTAAACATAAAATTATTTTCTATGTA
T
Found at i:14471426 original size:42 final size:43
Alignment explanation
Indices: 14471378--14471487 Score: 159
Period size: 48 Copynumber: 2.5 Consensus size: 43
14471368 TGTACATGAG
*
14471378 AAAAATATTAATTAGAAACATA-TGCATATATATATAAATATA
1 AAAAATATTCATTAGAAACATAGTGCATATATATATAAATATA
14471420 AAAAATATTCATTAGAAACATACATATGTGCATATATATATAAATATA
1 AAAAATATTCATTAG--A-A-ACATA-GTGCATATATATATAAATATA
14471468 AAAAATATTCATTAGAAACA
1 AAAAATATTCATTAGAAACA
14471488 ATATACGAAT
Statistics
Matches: 61, Mismatches: 1, Indels: 10
0.85 0.01 0.14
Matches are distributed among these distances:
42 14 0.23
44 4 0.07
45 2 0.03
46 6 0.10
48 35 0.57
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.32
Consensus pattern (43 bp):
AAAAATATTCATTAGAAACATAGTGCATATATATATAAATATA
Found at i:14471774 original size:19 final size:19
Alignment explanation
Indices: 14471750--14471839 Score: 153
Period size: 19 Copynumber: 4.7 Consensus size: 19
14471740 TCATATCTTT
14471750 TAAGATTGCATATCATATC
1 TAAGATTGCATATCATATC
*
14471769 TAAGATTTCATATCATATC
1 TAAGATTGCATATCATATC
*
14471788 TAAGATTGCATAACATATC
1 TAAGATTGCATATCATATC
*
14471807 TAAGATTACATATCATATC
1 TAAGATTGCATATCATATC
14471826 TAAGATTGCATATC
1 TAAGATTGCATATC
14471840 CTTGAAGATT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 65 1.00
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.37
Consensus pattern (19 bp):
TAAGATTGCATATCATATC
Found at i:14472445 original size:45 final size:45
Alignment explanation
Indices: 14472350--14472727 Score: 264
Period size: 45 Copynumber: 8.6 Consensus size: 45
14472340 TTCTAATCCA
* * * * * *
14472350 CTCCACTACAACTTTAGGGAGATGAGATTTG-TTTATTTAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTTCTTGAGTCTG
* * *
14472394 CCCCACTGCAATTTCAGGGGGATAAGACTTGATTTCTTGAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTTCTTGAGTCTG
* * *
14472439 CTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGGGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTTCTTGAGTCTG
* * * * *
14472484 CTCCATTGCAACTTCAGGAAGATAAGACCTGA-TGC--GA-TCTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTTCTTGAGTCTG
* * * **
14472525 CT-CTCTGCAACTTCAGAGAGATAAGATCTGTGA-TT-TT-AATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGATTTCTTGAGTCTG
* * * *
14472568 CTCCACTGCAACTTCAGGGAGATAGGA-TT-ATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATT-TCTTGAGTCTG
* * * * *
14472612 TTACACTGCAACTTCAGGGAGATAAGA-TTCGCTATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-GATTTCTTGAGTCTG
* * * * *
14472657 C-CTTACTACAACTTCA-GGAGGATAAGGCTTGCTTACTT-AGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGATTTCTTGAGTCTG
*
14472701 CTCCACTGTAACTTCAGGGAGATAAGA
1 CTCCACTGCAACTTCAGGGAGATAAGA
14472728 TTAGATGCGA
Statistics
Matches: 261, Mismatches: 55, Indels: 36
0.74 0.16 0.10
Matches are distributed among these distances:
40 21 0.08
41 8 0.03
42 7 0.03
43 7 0.03
44 103 0.39
45 112 0.43
46 3 0.01
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (45 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGATTTCTTGAGTCTG
Found at i:14472781 original size:217 final size:217
Alignment explanation
Indices: 14472397--14472872 Score: 620
Period size: 217 Copynumber: 2.2 Consensus size: 217
14472387 TAGTCTGCCC
* * * * *
14472397 CACTGCAATTTCAGGGGGATAAGACTT-GATTTCTTGAGTCTGCTCCACTGCAACTTCAGGGAGA
1 CACTGCAACTTCAGGGAGATAAGA-TTCG-TATCTTCAGTCTGCTCCACTACAACTTCAGGGAGA
* * *
14472461 TAAGACTCGCTTTCTTGGGTCTGCTCCATTGCAACTTCAGGAAGATAAGACCTGATGCGATCTAC
64 TAAGACTCGCTTACTTGAGTCTGCTCCACTGCAACTTCAGGAAGATAAGACCTGATGCGATCTAC
* * *
14472526 TCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACTGCAACTTCAGGGAGAT
129 TCTCTACAACTTCAGAGAGATAAGATCTGCGATTTTAATCCACTCCACTGCAACTTCAGAGAGAT
*
14472591 AGGATTATTGGCTTTAATCTGTTA
194 AGGATTATTGGCTTTAATCTGCTA
*
14472615 CACTGCAACTTCAGGGAGATAAGATTCGCTATCTTCAGTCTGC-CTTACTACAACTTCA-GGAGG
1 CACTGCAACTTCAGGGAGATAAGATTCG-TATCTTCAGTCTGCTC-CACTACAACTTCAGGGA-G
* * * * *
14472678 ATAAGGCTTGCTTACTT-AGTCTGCTCCACTGTAACTTCAGGGAGATAAGA-TTAGATGCGATCT
63 ATAAGACTCGCTTACTTGAGTCTGCTCCACTGCAACTTCAGGAAGATAAGACCT-GATGCGATCT
* * * * * *
14472741 GCTCTCTATAACTTCTGAGAGATAAGATCTGCGATTTTAATCCGCTCCACTGCGACTTTAGAGAG
127 ACTCTCTACAACTTCAGAGAGATAAGATCTGCGATTTTAATCCACTCCACTGCAACTTCAGAGAG
*
14472806 ATAGGATTATTGGCTTTAATCTGCTC
192 ATAGGATTATTGGCTTTAATCTGCTA
*
14472832 CACTGCAACTTTAGGGAGATAAGATTCGTCATCTTCAGTCT
1 CACTGCAACTTCAGGGAGATAAGATTCGT-ATCTTCAGTCT
14472873 TTTAAATTGC
Statistics
Matches: 226, Mismatches: 27, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
216 2 0.01
217 163 0.72
218 61 0.27
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (217 bp):
CACTGCAACTTCAGGGAGATAAGATTCGTATCTTCAGTCTGCTCCACTACAACTTCAGGGAGATA
AGACTCGCTTACTTGAGTCTGCTCCACTGCAACTTCAGGAAGATAAGACCTGATGCGATCTACTC
TCTACAACTTCAGAGAGATAAGATCTGCGATTTTAATCCACTCCACTGCAACTTCAGAGAGATAG
GATTATTGGCTTTAATCTGCTA
Found at i:14473272 original size:44 final size:44
Alignment explanation
Indices: 14473221--14473342 Score: 151
Period size: 44 Copynumber: 2.8 Consensus size: 44
14473211 ATATGCTATT
*
14473221 TTCAACCTACTT-CACTGTTG-CTCAGGGAGATAGGA-TTCACAATC
1 TTCAACCTA-TTCCACTGCTGAC-CAGGGAGATAGGACTT-ACAATC
14473265 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATC
* * * *
14473309 TTCAATCTATTCCACTACTGTCTAGGGAGATAGG
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGG
14473343 GCTGGGGTCA
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
43 2 0.03
44 65 0.93
45 3 0.04
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATC
Found at i:14473479 original size:88 final size:88
Alignment explanation
Indices: 14473342--14473918 Score: 739
Period size: 88 Copynumber: 6.6 Consensus size: 88
14473332 AGGGAGATAG
* * * * * *
14473342 GGCTGGGGTCATCAATCTGCTTCGCTGTCGATGCAGGAAGGCAATATCTGATATTTTTAATCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGATATTTTTAACCTGC
* * * *
14473407 TTCGTTGCAACCCATGGAGGCAA
66 TCCGCTACAACCCAGGGAGGCAA
* * *
14473430 GACTGGTGTCTTCGATCTGCTTCGCTGTTGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGATATTTTTAACCTGC
14473495 TCCGCTACAACCCAGGGAGGCAA
66 TCCGCTACAACCCAGGGAGGCAA
* * * *
14473518 GGTTGGTGTCTTCGATCTGCTTCGCTATCAGTGTAGGAAGGCAAGATCT-ACTA-TTTTAACCTG
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGA-TATTTTTAACCTG
** *
14473581 CTCCATTACAACCTAGGGAGGCAA
65 CTCCGCTACAACCCAGGGAGGCAA
* * *
14473605 GGCTGGTGTCTTCAATCTGCTTCGCTGTCGGTGTAGGAAGGCAAGATCTG-TAATTTTTAACTTG
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGAT-ATTTTTAACCTG
* * **
14473669 CTCCACTGCAACCCAGAAAGGCAA
65 CTCCGCTACAACCCAGGGAGGCAA
* *
14473693 GACTAGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCT-ACTATTTTTAACCTG
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGA-TATTTTTAACCTG
* * *
14473757 CTTCGCTGCAACCCAGGGAGGCAT
65 CTCCGCTACAACCCAGGGAGGCAA
* * *
14473781 GGCTAGTGTCTTCTATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGATATTTTTAACCTGC
* *
14473846 TCTGCTACAACCCAGGGAAGCAA
66 TCCGCTACAACCCAGGGAGGCAA
* * *
14473869 TGTTGGTGTCTTCGATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTG
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
14473919 TTATCTTCAC
Statistics
Matches: 426, Mismatches: 56, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
86 1 0.00
87 77 0.18
88 347 0.81
89 1 0.00
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.29
Consensus pattern (88 bp):
GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGATATTTTTAACCTGC
TCCGCTACAACCCAGGGAGGCAA
Found at i:14473683 original size:263 final size:265
Alignment explanation
Indices: 14473342--14473919 Score: 824
Period size: 263 Copynumber: 2.2 Consensus size: 265
14473332 AGGGAGATAG
* * * *
14473342 GGCTGGGGTCATCAATCTGCTTCGCTGTCGATGCAGGAAGGCAATATCTG-ATATTTTTAATCTG
1 GGCTGGTGTCTTCAATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGTATATTTTTAATCTG
* ** * * *
14473406 CTTCGTTGCAACCCATG-GAGGCAAGACTGGTGTCTTCGATCTGCTTCGCTGTTGGTGCAGGAAG
66 CTCCACTGCAACCCA-GAAAGGCAAGACTAGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAG
* * *
14473470 GCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCCAGGGAGGCAAGGTTGGTGTCTTCGATC
130 GCAAGATCTACTATTTTTAACCTGCTCCGCTACAACCCAGGGAGGCAAGGCTAGTGTCTTCGATC
* * *
14473535 TGCTTCGCTATCAGTGTAGGAAGGCAAGATCTACTA-TTTTAACCTGCTCCATTACAACCTAGGG
195 TGCTTCGCTATCAGTGCAGGAAGGCAAGATCTACTATTTTTAACCTGCTCCACTACAACCCAGGG
*
14473599 AGGCAA
260 AAGCAA
*
14473605 GGCTGGTGTCTTCAATCTGCTTCGCTGTCGGTGTAGGAAGGCAAGATCTGTA-ATTTTTAA-CTT
1 GGCTGGTGTCTTCAATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGTATATTTTTAATC-T
14473668 GCTCCACTGCAACCCAGAAAGGCAAGACTAGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAG
65 GCTCCACTGCAACCCAGAAAGGCAAGACTAGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAG
* * * *
14473733 GCAAGATCTACTATTTTTAACCTGCTTCGCTGCAACCCAGGGAGGCATGGCTAGTGTCTTCTATC
130 GCAAGATCTACTATTTTTAACCTGCTCCGCTACAACCCAGGGAGGCAAGGCTAGTGTCTTCGATC
* * * **
14473798 TGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCTGCTACAACCCAGGG
195 TGCTTCGCTATCAGTGCAGGAAGGCAAGATCTACTATTTTTAACCTGCTCCACTACAACCCAGGG
14473863 AAGCAA
260 AAGCAA
* * * *
14473869 TGTTGGTGTCTTCGATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTGT
1 GGCTGGTGTCTTCAATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGT
14473920 TATCTTCACT
Statistics
Matches: 279, Mismatches: 32, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
262 2 0.01
263 201 0.72
264 76 0.27
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.29
Consensus pattern (265 bp):
GGCTGGTGTCTTCAATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGTATATTTTTAATCTG
CTCCACTGCAACCCAGAAAGGCAAGACTAGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGG
CAAGATCTACTATTTTTAACCTGCTCCGCTACAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCT
GCTTCGCTATCAGTGCAGGAAGGCAAGATCTACTATTTTTAACCTGCTCCACTACAACCCAGGGA
AGCAA
Found at i:14473734 original size:44 final size:44
Alignment explanation
Indices: 14473599--14473826 Score: 149
Period size: 44 Copynumber: 5.2 Consensus size: 44
14473589 CAACCTAGGG
* * *
14473599 AGGCAAGGCTGGTGTCTTCAATCTGCTTCGCTGTCGGTGTAGGA
1 AGGCAAGACTAGTGTCTTCAATCTGCTTCGCTGTCGGTGCAGGA
* * * * * **** *
14473643 AGGCAAGATCT-GTAATTTTTAA-CTTGCTCCACTG-CAACCCAGAA
1 AGGCAAGA-CTAGT-GTCTTCAATC-TGCTTCGCTGTCGGTGCAGGA
*
14473687 AGGCAAGACTAGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGA
1 AGGCAAGACTAGTGTCTTCAATCTGCTTCGCTGTCGGTGCAGGA
* * * * * **** *
14473731 AGGCAAGATCTACTATTTTTAACCTGCTTCGCTG-CAACCCAGGG
1 AGGCAAGA-CTAGTGTCTTCAATCTGCTTCGCTGTCGGTGCAGGA
* * *
14473775 AGGCATGGCTAGTGTCTTCTATCTGCTTCGCTGTCGGTGCAGGA
1 AGGCAAGACTAGTGTCTTCAATCTGCTTCGCTGTCGGTGCAGGA
14473819 AGGCAAGA
1 AGGCAAGA
14473827 TCTGCTATTT
Statistics
Matches: 127, Mismatches: 49, Indels: 16
0.66 0.26 0.08
Matches are distributed among these distances:
43 33 0.26
44 60 0.47
45 34 0.27
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.28
Consensus pattern (44 bp):
AGGCAAGACTAGTGTCTTCAATCTGCTTCGCTGTCGGTGCAGGA
Found at i:14478623 original size:19 final size:19
Alignment explanation
Indices: 14478599--14478685 Score: 147
Period size: 19 Copynumber: 4.6 Consensus size: 19
14478589 TCATATATTT
14478599 TAAGATTGCATATCATATC
1 TAAGATTGCATATCATATC
*
14478618 TAAGATTACATATCATATC
1 TAAGATTGCATATCATATC
*
14478637 TAAGATTGCATATTATATC
1 TAAGATTGCATATCATATC
*
14478656 TAAGATTACATATCATATC
1 TAAGATTGCATATCATATC
14478675 TAAGATTGCAT
1 TAAGATTGCAT
14478686 TTCCTTGAAG
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 62 1.00
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (19 bp):
TAAGATTGCATATCATATC
Found at i:14478647 original size:38 final size:38
Alignment explanation
Indices: 14478599--14478685 Score: 165
Period size: 38 Copynumber: 2.3 Consensus size: 38
14478589 TCATATATTT
14478599 TAAGATTGCATATCATATCTAAGATTACATATCATATC
1 TAAGATTGCATATCATATCTAAGATTACATATCATATC
*
14478637 TAAGATTGCATATTATATCTAAGATTACATATCATATC
1 TAAGATTGCATATCATATCTAAGATTACATATCATATC
14478675 TAAGATTGCAT
1 TAAGATTGCAT
14478686 TTCCTTGAAG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 48 1.00
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (38 bp):
TAAGATTGCATATCATATCTAAGATTACATATCATATC
Found at i:14479320 original size:86 final size:86
Alignment explanation
Indices: 14479136--14479308 Score: 337
Period size: 86 Copynumber: 2.0 Consensus size: 86
14479126 CAAGAAAAAG
14479136 CAAGAAAATTAAAGAGAAGAAGACAGACTCCATGGGATGGGGGGTGGTCATGCAACAAGTTGATG
1 CAAGAAAATTAAAGAGAAGAAGACAGACTCCATGGGATGGGGGGTGGTCATGCAACAAGTTGATG
14479201 GAGATGAGTTTTTCATTTTTT
66 GAGATGAGTTTTTCATTTTTT
14479222 CAAGAAAATTAAAGAGAAGAAGACAGACTCCATGGGATGGGGGGTGGTCATGCAACAAGTTGATG
1 CAAGAAAATTAAAGAGAAGAAGACAGACTCCATGGGATGGGGGGTGGTCATGCAACAAGTTGATG
*
14479287 GGGATGAGTTTTTCATTTTTT
66 GAGATGAGTTTTTCATTTTTT
14479308 C
1 C
14479309 CCACTTTTTA
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
86 86 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (86 bp):
CAAGAAAATTAAAGAGAAGAAGACAGACTCCATGGGATGGGGGGTGGTCATGCAACAAGTTGATG
GAGATGAGTTTTTCATTTTTT
Found at i:14481028 original size:20 final size:19
Alignment explanation
Indices: 14481001--14481040 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
14480991 CATACAATTG
14481001 ATGAAATAAAAAAATGTAC
1 ATGAAATAAAAAAATGTAC
**
14481020 ATGACAATATTAAAATGTAC
1 ATGA-AATAAAAAAATGTAC
14481040 A
1 A
14481041 AAACATTTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.57, C:0.07, G:0.10, T:0.25
Consensus pattern (19 bp):
ATGAAATAAAAAAATGTAC
Found at i:14483319 original size:14 final size:14
Alignment explanation
Indices: 14483300--14483346 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
14483290 TGAGTTGCAG
14483300 AGAAATAGAAAGAA
1 AGAAATAGAAAGAA
14483314 AGAAATCA-AAAGAA
1 AGAAAT-AGAAAGAA
* * *
14483328 ATAAAGAGAGAGAA
1 AGAAATAGAAAGAA
14483342 AGAAA
1 AGAAA
14483347 GTGCAATGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
13 1 0.04
14 25 0.93
15 1 0.04
ACGTcount: A:0.70, C:0.02, G:0.21, T:0.06
Consensus pattern (14 bp):
AGAAATAGAAAGAA
Found at i:14486297 original size:16 final size:16
Alignment explanation
Indices: 14486265--14486314 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
14486255 AATGTTAAAT
*
14486265 AATATTCTAATATTTTA
1 AATATTTTAA-ATTTTA
* *
14486282 AATTTTTTAGATTTTA
1 AATATTTTAAATTTTA
*
14486298 TATATTTTAAATTTTA
1 AATATTTTAAATTTTA
14486314 A
1 A
14486315 GACAATAATA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
16 19 0.73
17 7 0.27
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (16 bp):
AATATTTTAAATTTTA
Found at i:14487084 original size:19 final size:20
Alignment explanation
Indices: 14487044--14487084 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
14487034 TCACACCAAT
*
14487044 AAATAATTAAAAAATTAGAA
1 AAATAATTAAAAAATTACAA
*
14487064 AAAT-ATTAAAAAATTTCAA
1 AAATAATTAAAAAATTACAA
14487083 AA
1 AA
14487085 CTCGAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.27
Consensus pattern (20 bp):
AAATAATTAAAAAATTACAA
Found at i:14490838 original size:28 final size:28
Alignment explanation
Indices: 14490798--14490857 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
14490788 GCAGATTCAT
* *
14490798 ACTTGTAAGACAGTCTTGACGGACTCTC
1 ACTTATAAGACAGTCCTGACGGACTCTC
*
14490826 ACTTATAAGACAGTCCTGATGGACTCTC
1 ACTTATAAGACAGTCCTGACGGACTCTC
14490854 ACTT
1 ACTT
14490858 GAAAGATTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (28 bp):
ACTTATAAGACAGTCCTGACGGACTCTC
Found at i:14491121 original size:9 final size:9
Alignment explanation
Indices: 14491104--14491140 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
14491094 TAAGTTTTCG
14491104 AATTCGAAT
1 AATTCGAAT
*
14491113 AACTCGAAT
1 AATTCGAAT
14491122 AATTCGAAT
1 AATTCGAAT
14491131 AATTCGAAT
1 AATTCGAAT
14491140 A
1 A
14491141 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:14492422 original size:22 final size:23
Alignment explanation
Indices: 14492394--14492443 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
14492384 CCTCAGACTC
* *
14492394 TCATACTACCT-TTAAAGGGCTT
1 TCATACTACCTATAAAAAGGCTT
14492416 TCATACTACCTATAAAAAGGCTT
1 TCATACTACCTATAAAAAGGCTT
14492439 TCATA
1 TCATA
14492444 TCTATGTGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 11 0.44
23 14 0.56
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (23 bp):
TCATACTACCTATAAAAAGGCTT
Found at i:14493731 original size:16 final size:16
Alignment explanation
Indices: 14493710--14493743 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
14493700 TTACTCAAGA
14493710 AGAATAAATGGAAATG
1 AGAATAAATGGAAATG
14493726 AGAATAAATGGAAATG
1 AGAATAAATGGAAATG
14493742 AG
1 AG
14493744 CTGAGTAAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.26, T:0.18
Consensus pattern (16 bp):
AGAATAAATGGAAATG
Found at i:14496614 original size:4 final size:4
Alignment explanation
Indices: 14496605--14496637 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
14496595 CCACCATGAT
14496605 CAGA CAGA CAGA CAGA CAGA CAGA CAGA CAGA C
1 CAGA CAGA CAGA CAGA CAGA CAGA CAGA CAGA C
14496638 GGTACCAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.48, C:0.27, G:0.24, T:0.00
Consensus pattern (4 bp):
CAGA
Found at i:14501413 original size:15 final size:15
Alignment explanation
Indices: 14501393--14501421 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
14501383 CCTGAGCCAC
14501393 TGCTGTTGTTGTTGA
1 TGCTGTTGTTGTTGA
14501408 TGCTGTTGTTGTTG
1 TGCTGTTGTTGTTG
14501422 TTGAAAATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.07, G:0.34, T:0.55
Consensus pattern (15 bp):
TGCTGTTGTTGTTGA
Found at i:14501431 original size:21 final size:21
Alignment explanation
Indices: 14501392--14501460 Score: 81
Period size: 24 Copynumber: 3.3 Consensus size: 21
14501382 GCCTGAGCCA
14501392 CTGCTGTTGTTGTTG---ATG
1 CTGCTGTTGTTGTTGAAAATG
*
14501410 CTGTTGTTGTTGTTGAAAATG
1 CTGCTGTTGTTGTTGAAAATG
14501431 CTGCTGATTGTGTTGTTGAAAATG
1 CTGCTG--T-TGTTGTTGAAAATG
14501455 CTGCTG
1 CTGCTG
14501461 ATTATGAACC
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
18 14 0.33
21 8 0.19
23 1 0.02
24 20 0.47
ACGTcount: A:0.14, C:0.10, G:0.30, T:0.45
Consensus pattern (21 bp):
CTGCTGTTGTTGTTGAAAATG
Found at i:14501435 original size:24 final size:24
Alignment explanation
Indices: 14501408--14501463 Score: 96
Period size: 24 Copynumber: 2.3 Consensus size: 24
14501398 TTGTTGTTGA
14501408 TGCTG-TTGTTGTTGTTGAAAATGC
1 TGCTGATTG-TGTTGTTGAAAATGC
14501432 TGCTGATTGTGTTGTTGAAAATGC
1 TGCTGATTGTGTTGTTGAAAATGC
14501456 TGCTGATT
1 TGCTGATT
14501464 ATGAACCAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 28 0.90
25 3 0.10
ACGTcount: A:0.18, C:0.09, G:0.29, T:0.45
Consensus pattern (24 bp):
TGCTGATTGTGTTGTTGAAAATGC
Found at i:14502727 original size:12 final size:12
Alignment explanation
Indices: 14502710--14502742 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
14502700 ACTTAATCTT
14502710 TTTAATATTAAA
1 TTTAATATTAAA
14502722 TTTAATATT-AA
1 TTTAATATTAAA
*
14502733 TCTAATATTA
1 TTTAATATTA
14502743 TATTATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTAATATTAAA
Found at i:14504739 original size:21 final size:23
Alignment explanation
Indices: 14504715--14504757 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
14504705 TTAATTTTTT
*
14504715 AAAACATATTT-CTTCT-TTTAG
1 AAAACAGATTTGCTTCTGTTTAG
*
14504736 AAAAGAGATTTGCTTCTGTTTA
1 AAAACAGATTTGCTTCTGTTTA
14504758 TAATTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.44
Consensus pattern (23 bp):
AAAACAGATTTGCTTCTGTTTAG
Found at i:14505670 original size:15 final size:15
Alignment explanation
Indices: 14505650--14505680 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
14505640 AGATGTTGTA
14505650 TGTAATTCATCTATT
1 TGTAATTCATCTATT
14505665 TGTAATTCATCTATT
1 TGTAATTCATCTATT
14505680 T
1 T
14505681 CAGTAGATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.13, G:0.06, T:0.55
Consensus pattern (15 bp):
TGTAATTCATCTATT
Found at i:14509012 original size:13 final size:13
Alignment explanation
Indices: 14508979--14509016 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
14508969 GATATATTTG
*
14508979 TAATTTGAAAACT
1 TAATTTGAAAAAT
14508992 TAAATTTGAAAAAT
1 T-AATTTGAAAAAT
14509006 TAATTTGAAAA
1 TAATTTGAAAA
14509017 TTTGTAAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.37
Consensus pattern (13 bp):
TAATTTGAAAAAT
Found at i:14509317 original size:34 final size:34
Alignment explanation
Indices: 14509254--14509343 Score: 126
Period size: 34 Copynumber: 2.6 Consensus size: 34
14509244 NNNNNNNNNN
* * * *
14509254 TCCTGTTCAACGCATTATTTGTTGCAGGGAATCTT
1 TCCTGTTC-ACACATCATTTCTTGCAGGGAATCTC
14509289 TCCTGTTCACACATCATTTCTTGCAGGGAATCTC
1 TCCTGTTCACACATCATTTCTTGCAGGGAATCTC
*
14509323 TCCTGTTCATACATCATTTCT
1 TCCTGTTCACACATCATTTCT
14509344 GGTATTATTT
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
34 42 0.84
35 8 0.16
ACGTcount: A:0.20, C:0.26, G:0.14, T:0.40
Consensus pattern (34 bp):
TCCTGTTCACACATCATTTCTTGCAGGGAATCTC
Found at i:14512444 original size:23 final size:23
Alignment explanation
Indices: 14512414--14512462 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
14512404 TATGGAAGCA
14512414 TCTATAGGTAAACCTTTTCTTTT
1 TCTATAGGTAAACCTTTTCTTTT
14512437 TCTATAGGTAAACCTTTTCTTTT
1 TCTATAGGTAAACCTTTTCTTTT
14512460 TCT
1 TCT
14512463 CCCAGCTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.20, C:0.18, G:0.08, T:0.53
Consensus pattern (23 bp):
TCTATAGGTAAACCTTTTCTTTT
Found at i:14517772 original size:5 final size:5
Alignment explanation
Indices: 14517762--14517807 Score: 92
Period size: 5 Copynumber: 9.2 Consensus size: 5
14517752 GTTAAGAATA
14517762 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT T
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT T
14517808 TGATGTTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 41 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:14518702 original size:22 final size:23
Alignment explanation
Indices: 14518649--14518705 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 23
14518639 CTAGCACGAC
* *
14518649 AGTGTTCTCCGTTTAGCACATTT
1 AGTGCTCTCTGTTTAGCACATTT
14518672 -GTGCTCTCTGTTTAGCAC-TTT
1 AGTGCTCTCTGTTTAGCACATTT
14518693 AGTGCTCTCTGTT
1 AGTGCTCTCTGTT
14518706 CATTAGTGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 3 0.10
22 28 0.90
ACGTcount: A:0.12, C:0.23, G:0.19, T:0.46
Consensus pattern (23 bp):
AGTGCTCTCTGTTTAGCACATTT
Found at i:14525893 original size:18 final size:19
Alignment explanation
Indices: 14525857--14525911 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 19
14525847 ATCAATTTTA
* *
14525857 ATTAAATAAATTATTAAAT
1 ATTAAAAAAATTATAAAAT
* *
14525876 ATTTATAAAATT-TAAAAT
1 ATTAAAAAAATTATAAAAT
14525894 ATTAAAAAAATTATAAAA
1 ATTAAAAAAATTATAAAA
14525912 GTGTTATTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
18 15 0.52
19 14 0.48
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
ATTAAAAAAATTATAAAAT
Found at i:14530619 original size:8 final size:8
Alignment explanation
Indices: 14530589--14530624 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
14530579 CTGGACATTG
*
14530589 TTTATTGT
1 TTTATTTT
14530597 TTTATTTT
1 TTTATTTT
14530605 TTTATTTT
1 TTTATTTT
*
14530613 TTTATTTA
1 TTTATTTT
14530621 TTTA
1 TTTA
14530625 ATCTGCATGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.81
Consensus pattern (8 bp):
TTTATTTT
Found at i:14531088 original size:9 final size:9
Alignment explanation
Indices: 14531072--14531207 Score: 155
Period size: 9 Copynumber: 14.4 Consensus size: 9
14531062 TTTGGTTAAA
14531072 AATTACCCG
1 AATTACCCG
*
14531081 ACTTACCCG
1 AATTACCCG
*
14531090 ACTTACCCG
1 AATTACCCG
14531099 AATTACCCG
1 AATTACCCG
*
14531108 ACTTACCCG
1 AATTACCCG
*
14531117 AATTACCTG
1 AATTACCCG
14531126 AAAATTACCCG
1 --AATTACCCG
14531137 AATTACCCG
1 AATTACCCG
*
14531146 AAAATTACCCA
1 --AATTACCCG
*
14531157 AATTACCTG
1 AATTACCCG
14531166 AATTACCCG
1 AATTACCCG
*
14531175 AAAATTACCCA
1 --AATTACCCG
14531186 AATTACCCG
1 AATTACCCG
14531195 AATTACCCG
1 AATTACCCG
14531204 AATT
1 AATT
14531208 GAAATGTATT
Statistics
Matches: 109, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
9 85 0.78
11 24 0.22
ACGTcount: A:0.36, C:0.32, G:0.09, T:0.24
Consensus pattern (9 bp):
AATTACCCG
Found at i:14531135 original size:20 final size:19
Alignment explanation
Indices: 14531071--14531205 Score: 152
Period size: 20 Copynumber: 7.1 Consensus size: 19
14531061 TTTTGGTTAA
*
14531071 AAATTACCCGACTTACCCG
1 AAATTACCCGAATTACCCG
*
14531090 -ACTTACCCGAATTACCCG
1 AAATTACCCGAATTACCCG
* *
14531108 -ACTTACCCGAATTACCTG
1 AAATTACCCGAATTACCCG
14531126 AAAATTACCCGAATTACCCG
1 -AAATTACCCGAATTACCCG
* *
14531146 AAAATTACCCAAATTACCTG
1 -AAATTACCCGAATTACCCG
14531166 -AATTACCCGAAAATTACCC-
1 AAATTACCCG--AATTACCCG
14531185 AAATTACCCGAATTACCCG
1 AAATTACCCGAATTACCCG
14531204 AA
1 AA
14531206 TTGAAATGTA
Statistics
Matches: 101, Mismatches: 9, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
18 49 0.49
19 2 0.02
20 50 0.50
ACGTcount: A:0.37, C:0.32, G:0.09, T:0.22
Consensus pattern (19 bp):
AAATTACCCGAATTACCCG
Found at i:14531142 original size:29 final size:28
Alignment explanation
Indices: 14531071--14531205 Score: 166
Period size: 29 Copynumber: 4.8 Consensus size: 28
14531061 TTTTGGTTAA
* *
14531071 AAATTACCCGACTTACCCG-ACTTACCC
1 AAATTACCCGAATTACCCGAAATTACCC
* * *
14531098 GAATTACCCGACTTACCCG-AATTACCTGA
1 AAATTACCCGAATTACCCGAAATTACC--C
14531127 AAATTACCCGAATTACCCGAAAATTACCC
1 AAATTACCCGAATTACCCG-AAATTACCC
*
14531156 AAATTACCTGAATTACCCGAAAATTACCC
1 AAATTACCCGAATTACCCG-AAATTACCC
14531185 AAATTACCCGAATTACCCGAA
1 AAATTACCCGAATTACCCGAA
14531206 TTGAAATGTA
Statistics
Matches: 96, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
27 24 0.25
28 2 0.02
29 63 0.66
31 7 0.07
ACGTcount: A:0.37, C:0.32, G:0.09, T:0.22
Consensus pattern (28 bp):
AAATTACCCGAATTACCCGAAATTACCC
Found at i:14531262 original size:24 final size:24
Alignment explanation
Indices: 14531235--14531293 Score: 100
Period size: 24 Copynumber: 2.5 Consensus size: 24
14531225 ATTCTCCATT
*
14531235 TATATCCATTTCATCTTTCCAAAA
1 TATATCCATTTCATCTCTCCAAAA
14531259 TATATCCATTTCATCTCTCCAAAA
1 TATATCCATTTCATCTCTCCAAAA
*
14531283 TATCTCCATTT
1 TATATCCATTT
14531294 GCAATAAAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.31, C:0.27, G:0.00, T:0.42
Consensus pattern (24 bp):
TATATCCATTTCATCTCTCCAAAA
Found at i:14534822 original size:17 final size:17
Alignment explanation
Indices: 14534800--14534835 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
14534790 TGAATTAAGG
14534800 TATGAAAAATAATCTTA
1 TATGAAAAATAATCTTA
14534817 TATGAAAAATAATCTTA
1 TATGAAAAATAATCTTA
14534834 TA
1 TA
14534836 CGACTGAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.36
Consensus pattern (17 bp):
TATGAAAAATAATCTTA
Found at i:14535054 original size:8 final size:8
Alignment explanation
Indices: 14535041--14535065 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
14535031 AAATGTTCGC
14535041 ATTTAATT
1 ATTTAATT
14535049 ATTTAATT
1 ATTTAATT
14535057 ATTTAATT
1 ATTTAATT
14535065 A
1 A
14535066 ACAATATAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
ATTTAATT
Found at i:14535200 original size:27 final size:27
Alignment explanation
Indices: 14535170--14535222 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
14535160 AAAGATGAAA
14535170 GAAAAAATTAAGACAATAGTATACAAT
1 GAAAAAATTAAGACAATAGTATACAAT
14535197 GAAAAAATTAAGACAATAGTATACAA
1 GAAAAAATTAAGACAATAGTATACAA
14535223 CGACATAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.60, C:0.08, G:0.11, T:0.21
Consensus pattern (27 bp):
GAAAAAATTAAGACAATAGTATACAAT
Found at i:14536779 original size:206 final size:207
Alignment explanation
Indices: 14536414--14536826 Score: 819
Period size: 206 Copynumber: 2.0 Consensus size: 207
14536404 GATAATAATA
14536414 TTATAATTTTAATAGTTTATATATTTATAATTTTAAAAATTAAATTAAATTTTTAATATTTTTAA
1 TTATAATTTTAATAGTTTATATATTTATAATTTTAAAAATTAAATTAAATTTTTAATATTTTTAA
14536479 ATGTTAATTTTATCTTTATTAATTTAAAGATTTTACATTTTAGGACGCTGCCCCTGCCAGCCTGC
66 ATGTTAATTTTATCTTTATTAATTTAAAGATTTTACATTTTAGGACGCTGCCCCTGCCAGCCTGC
14536544 CTGATCTTATTGTATTTATTTAGTTATCATCATAATTATTAAGAACCCAGACTTCGTTTATCAGA
131 CTGATCTTATTGTATTTATTTAGTTATCATCATAATTATTAAGAACCCAGACTTCGTTTATCAGA
14536609 TTCTAATCAAGC
196 TTCTAATCAAGC
14536621 TTATAATTTT-ATAGTTTATATATTTATAATTTTAAAAATTAAATTAAATTTTTAATATTTTTAA
1 TTATAATTTTAATAGTTTATATATTTATAATTTTAAAAATTAAATTAAATTTTTAATATTTTTAA
14536685 ATGTTAATTTTATCTTTATTAATTTAAAGATTTTACATTTTAGGACGCTGCCCCTGCCAGCCTGC
66 ATGTTAATTTTATCTTTATTAATTTAAAGATTTTACATTTTAGGACGCTGCCCCTGCCAGCCTGC
14536750 CTGATCTTATTGTATTTATTTAGTTATCATCATAATTATTAAGAACCCAGACTTCGTTTATCAGA
131 CTGATCTTATTGTATTTATTTAGTTATCATCATAATTATTAAGAACCCAGACTTCGTTTATCAGA
14536815 TTCTAATCAAGC
196 TTCTAATCAAGC
14536827 AACTGATAGG
Statistics
Matches: 206, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
206 196 0.95
207 10 0.05
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.46
Consensus pattern (207 bp):
TTATAATTTTAATAGTTTATATATTTATAATTTTAAAAATTAAATTAAATTTTTAATATTTTTAA
ATGTTAATTTTATCTTTATTAATTTAAAGATTTTACATTTTAGGACGCTGCCCCTGCCAGCCTGC
CTGATCTTATTGTATTTATTTAGTTATCATCATAATTATTAAGAACCCAGACTTCGTTTATCAGA
TTCTAATCAAGC
Found at i:14549779 original size:16 final size:16
Alignment explanation
Indices: 14549758--14549789 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
14549748 GTACATATCA
14549758 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
14549774 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
14549790 GCATAATAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.31, T:0.25
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:14549842 original size:45 final size:44
Alignment explanation
Indices: 14549775--14549870 Score: 140
Period size: 45 Copynumber: 2.2 Consensus size: 44
14549765 GGAATAGAGC
14549775 TGTAATGGAATAGAGGCATAATAGTAATTCAAT-TGTTTGGTTGAA
1 TGTAATGGAATAGAGGCATAATAGT-ATTC-ATGTGTTTGGTTGAA
* *
14549820 TGTAATGGAATAGAGGCGTAATAGTATTCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCATAATAGTATTCATGTGTTTGGTTGAA
*
14549864 TGGAATG
1 TGTAATG
14549871 ATGTTGTAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.47
45 24 0.51
ACGTcount: A:0.31, C:0.04, G:0.28, T:0.36
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCATAATAGTATTCATGTGTTTGGTTGAA
Found at i:14550026 original size:54 final size:54
Alignment explanation
Indices: 14549967--14550142 Score: 172
Period size: 54 Copynumber: 3.4 Consensus size: 54
14549957 ATTAAATTTT
* *
14549967 AATATATAATTTAATATAATTTGAAATAATTAATATTAAATATATTTTAATTAA
1 AATATATAATTTAATAAAATTTAAAATAATTAATATTAAATATATTTTAATTAA
* * * *
14550021 AATATATGATTTAATAAAATTTAAAATAATT-ATAACT-AATAAATTTT-CTT--
1 AATATATAATTTAATAAAATTTAAAATAATTAAT-ATTAAATATATTTTAATTAA
* * * * *
14550071 -ATAT-GAATTT-GTATAATTTAAAATAATTATTATTAAATATAATTTAA-TAA
1 AATATATAATTTAATAAAATTTAAAATAATTAATATTAAATATATTTTAATTAA
14550121 TAATATATAATTTAATAAAATT
1 -AATATATAATTTAATAAAATT
14550143 CTTAGTATGA
Statistics
Matches: 94, Mismatches: 18, Indels: 20
0.71 0.14 0.15
Matches are distributed among these distances:
47 18 0.19
48 14 0.15
49 4 0.04
52 6 0.06
53 16 0.17
54 36 0.38
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.45
Consensus pattern (54 bp):
AATATATAATTTAATAAAATTTAAAATAATTAATATTAAATATATTTTAATTAA
Found at i:14550086 original size:101 final size:101
Alignment explanation
Indices: 14549959--14550142 Score: 273
Period size: 101 Copynumber: 1.8 Consensus size: 101
14549949 TTATTGTTAT
* *
14549959 TAAATTTTAATATATAATTTAATATAATTTGAAATAATTAATATTAAATATATTTTAATTAA-AA
1 TAAATTTTAATATATAATTTAATATAATTTAAAATAATTAATATTAAATATAATTTAA-TAATAA
*
14550023 TATATGATTTAATAAAATTTAAAATAATTATAACTAA
65 TATATAATTTAATAAAATTTAAAATAATTATAACTAA
** * *
14550060 TAAATTTTCTTATATGAATTT-GTATAATTTAAAATAATTATTATTAAATATAATTTAATAATAA
1 TAAATTTTAATATAT-AATTTAATATAATTTAAAATAATTAATATTAAATATAATTTAATAATAA
14550124 TATATAATTTAATAAAATT
65 TATATAATTTAATAAAATT
14550143 CTTAGTATGA
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
100 3 0.04
101 66 0.89
102 5 0.07
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (101 bp):
TAAATTTTAATATATAATTTAATATAATTTAAAATAATTAATATTAAATATAATTTAATAATAAT
ATATAATTTAATAAAATTTAAAATAATTATAACTAA
Found at i:14550134 original size:91 final size:90
Alignment explanation
Indices: 14550038--14550248 Score: 202
Period size: 91 Copynumber: 2.3 Consensus size: 90
14550028 GATTTAATAA
* * * *
14550038 AATTTAAAATAATTATAACTAATAAATTTTCTTATATGAATTT-GTATAAT-TTAA-A-ATAATT
1 AATTTAAAATAATT-TAA-TAATAAATATTCTTATATGAATTTACTAAAATCATAATATATAA-T
* *
14550099 ATTATTAAATATAATTTAATAATAATATAT
63 ACTATAAAATATAATTTAA-AATAAT-TAT
*
14550129 AATTTAATAA-AATTCTTAGT-ATGAAATATTCTTATATGAATTTACTAAAATCATAATATATAA
1 AATTTAA-AATAA-T-TTAATAAT-AAATATTCTTATATGAATTTACTAAAATCATAATATATAA
14550192 TACTATAAAATATAATTTAAAATAATTAT
62 TACTATAAAATATAATTTAAAATAATTAT
*
14550221 TA-TTAAATATAATTTAATAATAATATAT
1 AATTTAAA-ATAATTTAATAATAA-ATAT
14550249 AATTTAATAA
Statistics
Matches: 99, Mismatches: 9, Indels: 24
0.75 0.07 0.18
Matches are distributed among these distances:
90 9 0.09
91 41 0.41
92 16 0.16
93 10 0.10
94 19 0.19
95 4 0.04
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.44
Consensus pattern (90 bp):
AATTTAAAATAATTTAATAATAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACT
ATAAAATATAATTTAAAATAATTAT
Found at i:14550156 original size:61 final size:61
Alignment explanation
Indices: 14550091--14550276 Score: 218
Period size: 61 Copynumber: 3.1 Consensus size: 61
14550081 GTATAATTTA
14550091 AAATAATTATTATTAAATATAATTTAATAATAATATATAATTTAATAAAATTCTTAGTATG
1 AAATAATTATTATTAAATATAATTTAATAATAATATATAATTTAATAAAATTCTTAGTATG
* * * * ** * * * * * *
14550152 AAAT-ATTCTTATATGAATTTACTAAAATCATAATATATAATACT-ATAAAA-T-ATAATTTA
1 AAATAATTATTAT-TAAATATAATTTAATAATAATATATAAT-TTAATAAAATTCTTAGTATG
14550211 AAATAATTATTATTAAATATAATTTAATAATAATATATAATTTAATAAAATTCTTAGTATG
1 AAATAATTATTATTAAATATAATTTAATAATAATATATAATTTAATAAAATTCTTAGTATG
14550272 AAATA
1 AAATA
14550277 TTCTTATATG
Statistics
Matches: 95, Mismatches: 24, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
58 1 0.01
59 36 0.38
60 16 0.17
61 41 0.43
62 1 0.01
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (61 bp):
AAATAATTATTATTAAATATAATTTAATAATAATATATAATTTAATAAAATTCTTAGTATG
Found at i:14550219 original size:120 final size:120
Alignment explanation
Indices: 14550082--14550337 Score: 512
Period size: 120 Copynumber: 2.1 Consensus size: 120
14550072 TATGAATTTG
14550082 TATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTAATAAAATTCTTA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTAATAAAATTCTTA
14550147 GTATGAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAA
66 GTATGAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAA
14550202 TATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTAATAAAATTCTTA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTAATAAAATTCTTA
14550267 GTATGAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAA
66 GTATGAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAA
14550322 TATAATTTAAAATAAT
1 TATAATTTAAAATAAT
14550338 AAAATTTGAA
Statistics
Matches: 136, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 136 1.00
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (120 bp):
TATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTAATAAAATTCTTA
GTATGAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAA
Found at i:14550229 original size:26 final size:28
Alignment explanation
Indices: 14550199--14550262 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 28
14550189 TAATACTATA
*
14550199 AAATATAATTTAA-AATAAT-TATTATT
1 AAATATAATTTAATAATAATATATAATT
14550225 AAATATAATTTAATAATAATATATAATT
1 AAATATAATTTAATAATAATATATAATT
* *
14550253 TAATAAAATT
1 AAATATAATT
14550263 CTTAGTATGA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 13 0.39
27 6 0.18
28 14 0.42
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (28 bp):
AAATATAATTTAATAATAATATATAATT
Found at i:14550308 original size:59 final size:59
Alignment explanation
Indices: 14550125--14550308 Score: 182
Period size: 59 Copynumber: 3.1 Consensus size: 59
14550115 TAATAATAAT
14550125 ATATAATTTAATAAAATTCTTAGTATGAAATATTCTTATATGAATTTACTAAAATCATA
1 ATATAATTTAATAAAATTCTTAGTATGAAATATTCTTATATGAATTTACTAAAATCATA
* * ** * * * *
14550184 ATAT-ATAATACTATAAAATATAATTTAAAAT-AATTATTATTAAATAT-AATTTA--ATAATAA
1 ATATAAT-TTA--ATAAAAT-T--CTTAGTATGAAATATTCTT--ATATGAATTTACTAAAATCA
14550244 T-
58 TA
14550245 ATATAATTTAATAAAATTCTTAGTATGAAATATTCTTATATGAATTTACTAAAATCATA
1 ATATAATTTAATAAAATTCTTAGTATGAAATATTCTTATATGAATTTACTAAAATCATA
14550304 ATATA
1 ATATA
14550309 TAATACTATA
Statistics
Matches: 95, Mismatches: 16, Indels: 28
0.68 0.12 0.20
Matches are distributed among these distances:
55 4 0.04
56 11 0.12
57 8 0.08
58 9 0.09
59 18 0.19
61 13 0.14
62 9 0.09
63 8 0.08
64 11 0.12
65 4 0.04
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.42
Consensus pattern (59 bp):
ATATAATTTAATAAAATTCTTAGTATGAAATATTCTTATATGAATTTACTAAAATCATA
Found at i:14550310 original size:61 final size:61
Alignment explanation
Indices: 14550120--14550312 Score: 232
Period size: 61 Copynumber: 3.2 Consensus size: 61
14550110 TAATTTAATA
14550120 ATAATATATAATTTAATAAAATTCTTAGTATGAAATATTCTTATATGAATTTACTAAAATC
1 ATAATATATAATTTAATAAAATTCTTAGTATGAAATATTCTTATATGAATTTACTAAAATC
* * * * * * * * * ** *
14550181 ATAATATATAATACT-ATAAAA-T-ATAATTTAAAATAATTATTAT-TAAATATAATTTAATA
1 ATAATATATAAT-TTAATAAAATTCTTAGTATGAAAT-ATTCTTATATGAATTTACTAAAATC
14550240 ATAATATATAATTTAATAAAATTCTTAGTATGAAATATTCTTATATGAATTTACTAAAATC
1 ATAATATATAATTTAATAAAATTCTTAGTATGAAATATTCTTATATGAATTTACTAAAATC
14550301 ATAATATATAAT
1 ATAATATATAAT
14550313 ACTATAAAAT
Statistics
Matches: 102, Mismatches: 24, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
58 1 0.01
59 36 0.35
60 16 0.16
61 48 0.47
62 1 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (61 bp):
ATAATATATAATTTAATAAAATTCTTAGTATGAAATATTCTTATATGAATTTACTAAAATC
Found at i:14550382 original size:20 final size:20
Alignment explanation
Indices: 14550335--14550373 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
14550325 AATTTAAAAT
*
14550335 AATAAAATTTGAATCGATTA
1 AATAATATTTGAATCGATTA
* *
14550355 AATGATATTTGAATTGATT
1 AATAATATTTGAATCGATT
14550374 TGATAATATG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.03, G:0.13, T:0.41
Consensus pattern (20 bp):
AATAATATTTGAATCGATTA
Found at i:14551582 original size:19 final size:19
Alignment explanation
Indices: 14551558--14551632 Score: 114
Period size: 19 Copynumber: 3.8 Consensus size: 19
14551548 AATTTTTGAG
14551558 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
14551577 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
14551596 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
* *
14551617 GATATGTAATATTAGA
1 GATATGCAATCTTAGA
14551633 AGATATGATT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
19 33 0.63
21 19 0.37
ACGTcount: A:0.39, C:0.08, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:14551604 original size:21 final size:21
Alignment explanation
Indices: 14551559--14551621 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
14551549 ATTTTTGAGG
14551559 ATATGCAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
14551578 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
14551599 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
14551620 AT
1 AT
14551622 GTAATATTAG
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 19 0.45
21 23 0.55
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:14551639 original size:22 final size:23
Alignment explanation
Indices: 14551611--14551655 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
14551601 ATGCAATCTT
14551611 AGATATGA-TATGTAATATTAGA
1 AGATATGATTATGTAATATTAGA
* *
14551633 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATATTAGA
14551656 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.40, C:0.02, G:0.18, T:0.40
Consensus pattern (23 bp):
AGATATGATTATGTAATATTAGA
Found at i:14551665 original size:22 final size:23
Alignment explanation
Indices: 14551621--14551665 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
14551611 AGATATGATA
*
14551621 TGTAATATTAGAAGATATGATTT
1 TGTAATATTAGAAGATATAATTT
* *
14551644 TGTAATCTTAG-AGATTTAATTT
1 TGTAATATTAGAAGATATAATTT
14551666 GTAGATACCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.36, C:0.02, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATATTAGAAGATATAATTT
Found at i:14556296 original size:50 final size:50
Alignment explanation
Indices: 14556172--14556316 Score: 184
Period size: 50 Copynumber: 2.9 Consensus size: 50
14556162 GATAATAACA
** *
14556172 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATGATGG
* * * * *
14556223 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCAT-CTCGG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGAT-GG
*
14556273 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCA
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCA
14556317 AAATATTGTA
Statistics
Matches: 81, Mismatches: 12, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
49 1 0.01
50 47 0.58
51 33 0.41
ACGTcount: A:0.21, C:0.30, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATGG
Found at i:14592011 original size:23 final size:23
Alignment explanation
Indices: 14591985--14592074 Score: 98
Period size: 23 Copynumber: 4.1 Consensus size: 23
14591975 GAAAAGTTAA
14591985 AAGAGTGAAGAGACTTGAATATG
1 AAGAGTGAAGAGACTTGAATATG
*
14592008 AAGAGTGAAGAGACTTGAAGATG
1 AAGAGTGAAGAGACTTGAATATG
* * * * *
14592031 AAAAGT-TACACAC---ATTATG
1 AAGAGTGAAGAGACTTGAATATG
14592050 AAGAGTGAAGAGACTTGAATATG
1 AAGAGTGAAGAGACTTGAATATG
14592073 AA
1 AA
14592075 AATTTATACA
Statistics
Matches: 51, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
19 9 0.18
20 4 0.08
22 4 0.08
23 34 0.67
ACGTcount: A:0.46, C:0.07, G:0.27, T:0.21
Consensus pattern (23 bp):
AAGAGTGAAGAGACTTGAATATG
Found at i:14592063 original size:42 final size:42
Alignment explanation
Indices: 14592004--14592087 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
14591994 GAGACTTGAA
14592004 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
1 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
* * *
14592046 TATGAAGAGTGAAGAGACTTGAATATGAAAATTTATACACAT
1 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
14592088 GCATGAATAG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.45, C:0.08, G:0.21, T:0.25
Consensus pattern (42 bp):
TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
Found at i:14606982 original size:8 final size:8
Alignment explanation
Indices: 14606960--14606992 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
14606950 GAGTAAAATC
14606960 ATGTA-AT
1 ATGTATAT
*
14606967 ATGCATAT
1 ATGTATAT
14606975 ATGTATAT
1 ATGTATAT
14606983 ATGTATAT
1 ATGTATAT
14606991 AT
1 AT
14606993 TTTGGAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
7 4 0.17
8 19 0.83
ACGTcount: A:0.39, C:0.03, G:0.12, T:0.45
Consensus pattern (8 bp):
ATGTATAT
Found at i:14612309 original size:29 final size:31
Alignment explanation
Indices: 14612277--14612344 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 31
14612267 TAAAAGGACA
*
14612277 CCTTTTTGGCTATCTC-AATAAA-AAGTGAG
1 CCTTTGTGGCTATCTCTAATAAAGAAGTGAG
* *
14612306 CCTTTGTGGTTATCTCTACTAAAGAAGTGA-
1 CCTTTGTGGCTATCTCTAATAAAGAAGTGAG
14612336 -CTTTGTGGC
1 CCTTTGTGGC
14612345 AGTTTCTGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 22 0.67
30 5 0.15
31 6 0.18
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.37
Consensus pattern (31 bp):
CCTTTGTGGCTATCTCTAATAAAGAAGTGAG
Found at i:14614774 original size:45 final size:45
Alignment explanation
Indices: 14614710--14614803 Score: 152
Period size: 45 Copynumber: 2.1 Consensus size: 45
14614700 ATTAGTAATA
* *
14614710 TAAAACTTAATATTATCTTGCTTTTATTATTAAACATACGAAAAT
1 TAAAACTTAATATTATCTTGCATTTATTATTAAACATACCAAAAT
* *
14614755 TAAAACTTAATATTATCTTGCATTTATTATTAGATATACCAAAAT
1 TAAAACTTAATATTATCTTGCATTTATTATTAAACATACCAAAAT
14614800 TAAA
1 TAAA
14614804 CTACCTTGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.41
Consensus pattern (45 bp):
TAAAACTTAATATTATCTTGCATTTATTATTAAACATACCAAAAT
Found at i:14616454 original size:2 final size:2
Alignment explanation
Indices: 14616447--14616472 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14616437 TAATATTGCC
14616447 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
14616473 GTGTGTGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14617418 original size:31 final size:31
Alignment explanation
Indices: 14617382--14617445 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
14617372 TCTATCAAAG
* *
14617382 TTTTACCACTCTCATATGTACGAAGACGGGT
1 TTTTACCACCCTCATATGCACGAAGACGGGT
14617413 TTTTACCACCCTCATATGCACGAAGACGGGT
1 TTTTACCACCCTCATATGCACGAAGACGGGT
14617444 TT
1 TT
14617446 GATTCCACTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (31 bp):
TTTTACCACCCTCATATGCACGAAGACGGGT
Found at i:14619526 original size:213 final size:214
Alignment explanation
Indices: 14619228--14619660 Score: 814
Period size: 213 Copynumber: 2.0 Consensus size: 214
14619218 CCATATTTGG
*
14619228 AATTTTCTAATTATCCCCAACACTTTAAAGTCTTTTTTTTTTTTTTTTTATTTTTTGAAGCTTCT
1 AATTTTCTAATTATCCCCAACACTTTAAAGTCTTTTTTTTTTTTTTTTTATCTTTTGAAGCTTCT
*
14619293 TCAATTTTTATGTTATTCTTGGGTTTGCTTTTTAAGTTTTCCCCAATTTTTGGCTCATTAAAATT
66 TCAATATTTATGTTATTCTTGGGTTTGCTTTTTAAGTTTTCCCCAATTTTTGGCTCATTAAAATT
14619358 TTGAAAATTATTAAAAATTATATTAATCTAATAAATTTTAAATTGTTTATTCTTCAAATTATTTG
131 TTGAAAATTATTAAAAATTATATTAATCTAATAAATTTTAAATTGTTTATTCTTCAAATTATTTG
14619423 ATTATTTTTTACATTTAAC
196 ATTATTTTTTACATTTAAC
* *
14619442 AATTTTCTAATTTTCCCCAACCCTTTAAAGT-TTTTTTTTTTTTTTTTTATCTTTTGAAGCTTCT
1 AATTTTCTAATTATCCCCAACACTTTAAAGTCTTTTTTTTTTTTTTTTTATCTTTTGAAGCTTCT
14619506 TCAATATTTATGTTATTCTTGGGTTTGCTTTTTAAGTTTTCCCCAATTTTTGGCTCATTAAAATT
66 TCAATATTTATGTTATTCTTGGGTTTGCTTTTTAAGTTTTCCCCAATTTTTGGCTCATTAAAATT
14619571 TTGAAAATTATTAAAAATTATATTAATCTAATAAATTTTAAATTGTTTATTCTTCAAATTATTTG
131 TTGAAAATTATTAAAAATTATATTAATCTAATAAATTTTAAATTGTTTATTCTTCAAATTATTTG
14619636 ATTATTTTTTACATTTAAC
196 ATTATTTTTTACATTTAAC
*
14619655 ACTTTT
1 AATTTT
14619661 TTTAAATTTA
Statistics
Matches: 214, Mismatches: 5, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
213 185 0.86
214 29 0.14
ACGTcount: A:0.28, C:0.12, G:0.06, T:0.54
Consensus pattern (214 bp):
AATTTTCTAATTATCCCCAACACTTTAAAGTCTTTTTTTTTTTTTTTTTATCTTTTGAAGCTTCT
TCAATATTTATGTTATTCTTGGGTTTGCTTTTTAAGTTTTCCCCAATTTTTGGCTCATTAAAATT
TTGAAAATTATTAAAAATTATATTAATCTAATAAATTTTAAATTGTTTATTCTTCAAATTATTTG
ATTATTTTTTACATTTAAC
Found at i:14621227 original size:18 final size:19
Alignment explanation
Indices: 14621200--14621237 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
14621190 AAGCAAATAA
*
14621200 ATTATTAAAA-ATAAAAAT
1 ATTATAAAAATATAAAAAT
14621218 ATTATAAAAATTATAAAAAT
1 ATTATAAAAA-TATAAAAAT
14621238 CGGTTCAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
20 8 0.47
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
ATTATAAAAATATAAAAAT
Found at i:14622726 original size:23 final size:23
Alignment explanation
Indices: 14622700--14622753 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
14622690 GTTCCATAAA
* *
14622700 CACTTGCAACGTAGTGTCATC-AT
1 CACTTGCAACATAGTGCCA-CAAT
*
14622723 CACTTGCACCATAGTGCCACAAT
1 CACTTGCAACATAGTGCCACAAT
14622746 CACTTGCA
1 CACTTGCA
14622754 CGCATTGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 1 0.04
23 26 0.96
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (23 bp):
CACTTGCAACATAGTGCCACAAT
Found at i:14624121 original size:23 final size:23
Alignment explanation
Indices: 14624095--14624148 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
14624085 AAATTCAAAT
*
14624095 TTCGAGTTAA-TCGAATCAACTTA
1 TTCGAGTTAACTCGAAT-AACTGA
*
14624118 TTCGAGTCAACTCGAATAACTGA
1 TTCGAGTTAACTCGAATAACTGA
*
14624141 TTCAAGTT
1 TTCGAGTT
14624149 TCGAGTTTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (23 bp):
TTCGAGTTAACTCGAATAACTGA
Found at i:14624297 original size:19 final size:19
Alignment explanation
Indices: 14624275--14624319 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
14624265 AAAATACAAA
14624275 AAAAAATCAAAATAATTT-T
1 AAAAAATCAAAAT-ATTTAT
*
14624294 AAAAATTCAAAATATTTAT
1 AAAAAATCAAAATATTTAT
14624313 AAAAAAT
1 AAAAAAT
14624320 TTAAAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAAAATCAAAATATTTAT
Found at i:14625063 original size:15 final size:16
Alignment explanation
Indices: 14625043--14625075 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
14625033 TTTTTTTCAT
*
14625043 ATTTTAAATA-AAAAA
1 ATTTTAAAAATAAAAA
14625058 ATTTTAAAAATAAAAA
1 ATTTTAAAAATAAAAA
14625074 AT
1 AT
14625076 ATGAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTTTAAAAATAAAAA
Found at i:14625809 original size:14 final size:15
Alignment explanation
Indices: 14625782--14625814 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
14625772 TTTTTAGAAT
14625782 TTTTTAATATTTTTA
1 TTTTTAATATTTTTA
14625797 TTTTTAATA-TTTTA
1 TTTTTAATATTTTTA
14625811 TTTT
1 TTTT
14625815 CTTTGAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTAATATTTTTA
Found at i:14633491 original size:23 final size:23
Alignment explanation
Indices: 14633421--14633506 Score: 110
Period size: 21 Copynumber: 4.0 Consensus size: 23
14633411 CCTGATCAGT
14633421 ATACGACACAT-AAGTGCCTGA-
1 ATACGACACATAAAGTGCCTGAG
** *
14633442 A-ACGACACACGAGGTGCCT--G
1 ATACGACACATAAAGTGCCTGAG
14633462 ATACGACACATAAAGTGCCTGAG
1 ATACGACACATAAAGTGCCTGAG
14633485 ATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
14633507 TCGGCAAAGC
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
20 9 0.16
21 23 0.42
23 23 0.42
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.16
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAG
Found at i:14633503 original size:44 final size:41
Alignment explanation
Indices: 14633421--14633507 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 41
14633411 CCTGATCAGT
* *
14633421 ATACGACACATAAGTGCCTGAAACGACACACGAGGTGCCTG
1 ATACGACACATAAGTGCCTGAAACGACACACAAAGTGCCTG
*
14633462 ATACGACACATAAAGTGCCTGAGATACGACACATAAAGTGCCTG
1 ATACGACACAT-AAGTGCCTGA-A-ACGACACACAAAGTGCCTG
14633506 AT
1 AT
14633508 CGGCAAAGCC
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
41 11 0.28
42 10 0.25
43 1 0.03
44 18 0.45
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (41 bp):
ATACGACACATAAGTGCCTGAAACGACACACAAAGTGCCTG
Found at i:14639865 original size:6 final size:6
Alignment explanation
Indices: 14639854--14639878 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
14639844 AATTACACTG
14639854 GCACCT GCACCT GCACCT GCACCT G
1 GCACCT GCACCT GCACCT GCACCT G
14639879 AAGACTGGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.48, G:0.20, T:0.16
Consensus pattern (6 bp):
GCACCT
Found at i:14642894 original size:9 final size:9
Alignment explanation
Indices: 14642880--14642911 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
14642870 TTTGATGGGA
14642880 TTTTATTTT
1 TTTTATTTT
14642889 TTTTATTTT
1 TTTTATTTT
*
14642898 TTTTTTTTT
1 TTTTATTTT
14642907 TTTTA
1 TTTTA
14642912 GTTTCATTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (9 bp):
TTTTATTTT
Found at i:14645040 original size:43 final size:42
Alignment explanation
Indices: 14644989--14645209 Score: 250
Period size: 43 Copynumber: 5.2 Consensus size: 42
14644979 ATAAATAAAT
14644989 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTT-TCCCACAAAC
* *
14645032 GCCGCTAAAGACCAAGACCTTTAGCGACGCTTCTCCCACAAAT
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTT-TCCCACAAAC
* *
14645075 GCCGCTAAAGACCAAGATCTTTAGCGGCGCTATTCCCAC-AAT
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCT-TTCCCACAAAC
* * **
14645117 GCCGCTAAAGACCATGACCTTTAGCAGCGCTTTTAACACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGC-TTTCCCACAAAC
* * * * * *
14645160 GCCGCTATAGA--ATAGATCTTCAGCGGCGCTTTTCTAAAAAC
1 GCCGCTAAAGACCA-AGACCTTTAGCGGCGCTTTCCCACAAAC
14645201 GCCGCTAAA
1 GCCGCTAAA
14645210 AATATATCTT
Statistics
Matches: 154, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
41 17 0.11
42 47 0.31
43 89 0.58
44 1 0.01
ACGTcount: A:0.30, C:0.32, G:0.18, T:0.20
Consensus pattern (42 bp):
GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCCCACAAAC
Found at i:14645139 original size:42 final size:43
Alignment explanation
Indices: 14644985--14645166 Score: 260
Period size: 43 Copynumber: 4.3 Consensus size: 43
14644975 TTTTATAAAT
14644985 AAATGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCAC
1 AAATGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCAC
* *
14645028 AAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTCTCCCAC
1 AAATGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCAC
*
14645071 AAATGCCGCTAAAGACCAAGATCTTTAGCGGCGCTAT-TCCCAC
1 AAATGCCGCTAAAGACCAAGACCTTTAGCGGCGCT-TCTCCCAC
* * * **
14645114 -AATGCCGCTAAAGACCATGACCTTTAGCAGCGCTTTTAACAC
1 AAATGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCAC
*
14645156 AAACGCCGCTA
1 AAATGCCGCTA
14645167 TAGAATAGAT
Statistics
Matches: 125, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
41 1 0.01
42 35 0.28
43 88 0.70
44 1 0.01
ACGTcount: A:0.30, C:0.33, G:0.18, T:0.19
Consensus pattern (43 bp):
AAATGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCAC
Found at i:14651726 original size:255 final size:255
Alignment explanation
Indices: 14651275--14651784 Score: 1020
Period size: 255 Copynumber: 2.0 Consensus size: 255
14651265 AAAGTTGATG
14651275 CCTTCTATGTGGACCAAATTCTTGAAAATGCAATCTTCAACTTGTCAACTTGTCTTTAGAATTGT
1 CCTTCTATGTGGACCAAATTCTTGAAAATGCAATCTTCAACTTGTCAACTTGTCTTTAGAATTGT
14651340 TTATTATTATTATGGAAGAGTGTGTTTAGATTTTAAGTTCAATGAATTGTGAGTTGTGTTCGAAT
66 TTATTATTATTATGGAAGAGTGTGTTTAGATTTTAAGTTCAATGAATTGTGAGTTGTGTTCGAAT
14651405 CTTTAAAGAGATTAGATAGATTTTTTTAAAATTTAAAATTAAATATTCAAATATATGTGTGTGTT
131 CTTTAAAGAGATTAGATAGATTTTTTTAAAATTTAAAATTAAATATTCAAATATATGTGTGTGTT
14651470 AAAATAAATGCATCCTGTAGGAAATGATCTTGAGCCAGAGAGGAAGAATGATGGAAATTT
196 AAAATAAATGCATCCTGTAGGAAATGATCTTGAGCCAGAGAGGAAGAATGATGGAAATTT
14651530 CCTTCTATGTGGACCAAATTCTTGAAAATGCAATCTTCAACTTGTCAACTTGTCTTTAGAATTGT
1 CCTTCTATGTGGACCAAATTCTTGAAAATGCAATCTTCAACTTGTCAACTTGTCTTTAGAATTGT
14651595 TTATTATTATTATGGAAGAGTGTGTTTAGATTTTAAGTTCAATGAATTGTGAGTTGTGTTCGAAT
66 TTATTATTATTATGGAAGAGTGTGTTTAGATTTTAAGTTCAATGAATTGTGAGTTGTGTTCGAAT
14651660 CTTTAAAGAGATTAGATAGATTTTTTTAAAATTTAAAATTAAATATTCAAATATATGTGTGTGTT
131 CTTTAAAGAGATTAGATAGATTTTTTTAAAATTTAAAATTAAATATTCAAATATATGTGTGTGTT
14651725 AAAATAAATGCATCCTGTAGGAAATGATCTTGAGCCAGAGAGGAAGAATGATGGAAATTT
196 AAAATAAATGCATCCTGTAGGAAATGATCTTGAGCCAGAGAGGAAGAATGATGGAAATTT
14651785 ACCATAATTT
Statistics
Matches: 255, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
255 255 1.00
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.38
Consensus pattern (255 bp):
CCTTCTATGTGGACCAAATTCTTGAAAATGCAATCTTCAACTTGTCAACTTGTCTTTAGAATTGT
TTATTATTATTATGGAAGAGTGTGTTTAGATTTTAAGTTCAATGAATTGTGAGTTGTGTTCGAAT
CTTTAAAGAGATTAGATAGATTTTTTTAAAATTTAAAATTAAATATTCAAATATATGTGTGTGTT
AAAATAAATGCATCCTGTAGGAAATGATCTTGAGCCAGAGAGGAAGAATGATGGAAATTT
Found at i:14656006 original size:17 final size:17
Alignment explanation
Indices: 14655958--14656000 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
14655948 CTGACCCAGT
*
14655958 TCGTGTGGCCCACACAG
1 TCGTGTGGCCCACATAG
*
14655975 TCATGTGGCCCACATAG
1 TCGTGTGGCCCACATAG
14655992 TCGTGTGGC
1 TCGTGTGGC
14656001 TTACATGGCC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.16, C:0.30, G:0.30, T:0.23
Consensus pattern (17 bp):
TCGTGTGGCCCACATAG
Found at i:14657131 original size:14 final size:14
Alignment explanation
Indices: 14657112--14657139 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
14657102 GGTACAATCA
14657112 AAGTCTATTTGGTT
1 AAGTCTATTTGGTT
14657126 AAGTCTATTTGGTT
1 AAGTCTATTTGGTT
14657140 GGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.21, T:0.50
Consensus pattern (14 bp):
AAGTCTATTTGGTT
Found at i:14657686 original size:13 final size:13
Alignment explanation
Indices: 14657668--14657692 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14657658 TTTATTTAGT
14657668 GTTTAGGGTTTAA
1 GTTTAGGGTTTAA
14657681 GTTTAGGGTTTA
1 GTTTAGGGTTTA
14657693 GGGTTAAGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.32, T:0.48
Consensus pattern (13 bp):
GTTTAGGGTTTAA
Found at i:14657933 original size:109 final size:109
Alignment explanation
Indices: 14657791--14658009 Score: 420
Period size: 109 Copynumber: 2.0 Consensus size: 109
14657781 ATTATGCCTC
14657791 TTGATAAGTTGTGAAGAGTTTAACCATAGATAATCTCTTAACCATCCCATCAAATAAGTAGAAGA
1 TTGATAAGTTGTGAAGAGTTTAACCATAGATAATCTCTTAACCATCCCATCAAATAAGTAGAAGA
* *
14657856 TTCATTAAACTGTGAGACGTTCCCCTGCCATAATGTGATGTGTT
66 TTCATTAAACTGTCAGACGTTACCCTGCCATAATGTGATGTGTT
14657900 TTGATAAGTTGTGAAGAGTTTAACCATAGATAATCTCTTAACCATCCCATCAAATAAGTAGAAGA
1 TTGATAAGTTGTGAAGAGTTTAACCATAGATAATCTCTTAACCATCCCATCAAATAAGTAGAAGA
14657965 TTCATTAAACTGTCAGACGTTACCCTGCCATAATGTGATGTGTT
66 TTCATTAAACTGTCAGACGTTACCCTGCCATAATGTGATGTGTT
14658009 T
1 T
14658010 CCAATGCCAA
Statistics
Matches: 108, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
109 108 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Consensus pattern (109 bp):
TTGATAAGTTGTGAAGAGTTTAACCATAGATAATCTCTTAACCATCCCATCAAATAAGTAGAAGA
TTCATTAAACTGTCAGACGTTACCCTGCCATAATGTGATGTGTT
Found at i:14659265 original size:28 final size:28
Alignment explanation
Indices: 14659225--14659281 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
14659215 AGTAAAAAAG
14659225 GTACCTAAGCAGGATTTACGTCGTTGGA
1 GTACCTAAGCAGGATTTACGTCGTTGGA
14659253 GTACCTAAGCAGGATTTACGTCGTTGGA
1 GTACCTAAGCAGGATTTACGTCGTTGGA
14659281 G
1 G
14659282 ACCCCTCGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.28
Consensus pattern (28 bp):
GTACCTAAGCAGGATTTACGTCGTTGGA
Found at i:14659925 original size:3 final size:3
Alignment explanation
Indices: 14659917--14659981 Score: 94
Period size: 3 Copynumber: 21.7 Consensus size: 3
14659907 TGTTGAATTA
* *
14659917 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ACT GTT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
14659965 ATT ACT ACT ATT ATT AT
1 ATT ATT ATT ATT ATT AT
14659982 ATGTACATAT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:14664883 original size:12 final size:12
Alignment explanation
Indices: 14664866--14664890 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14664856 ACCATAGTGG
14664866 AAGTATAAACAT
1 AAGTATAAACAT
14664878 AAGTATAAACAT
1 AAGTATAAACAT
14664890 A
1 A
14664891 CATCTTTATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.08, G:0.08, T:0.24
Consensus pattern (12 bp):
AAGTATAAACAT
Found at i:14680041 original size:17 final size:17
Alignment explanation
Indices: 14680019--14680051 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14680009 ACATGAGTTG
*
14680019 ACATATCATAAGGGTTC
1 ACATATCACAAGGGTTC
14680036 ACATATCACAAGGGTT
1 ACATATCACAAGGGTT
14680052 TGCAAATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.27
Consensus pattern (17 bp):
ACATATCACAAGGGTTC
Found at i:14684251 original size:43 final size:43
Alignment explanation
Indices: 14684201--14684535 Score: 206
Period size: 43 Copynumber: 7.8 Consensus size: 43
14684191 ATACGAAGTG
* * *
14684201 TATACTAGCATACATAATGCTTCATCGGATATACCGAAAAAAC
1 TATACTAGCACACACAATGCTTCATCGAATATACCGAAAAAAC
* * *
14684244 TGTACTAGCACACACAATGCATCATCGAATATACCGAAACAAC
1 TATACTAGCACACACAATGCTTCATCGAATATACCGAAAAAAC
* *
14684287 TATACTAGCACACACAATGCATT-ATCGAATATA-CTAAAGCAAC
1 TATACTAGCACACACAATGC-TTCATCGAATATACCGAAA-AAAC
* * * * *
14684330 TATATTGGCACACACAGTGCATCATCGAAT-TACC-AAAGCAAC
1 TATACTAGCACACACAATGCTTCATCGAATATACCGAAA-AAAC
* * * *
14684372 TATAC-AGGCACACATAGTGCATCATC-AGATAAACC-AAAGTAAA-
1 TATACTA-GCACACACAATGCTTCATCGA-ATATACCGAAA--AAAC
* * * ** **
14684415 TATACTGGCACACACAGTGCATCATC-ATATATATTGAAGCAAC
1 TATACTAGCACACACAATGCTTCATCGA-ATATACCGAAAAAAC
* * * * * *
14684458 TATA-TTG-ACACACATAGTGCATCATTGGATATACCGGAACAAC
1 TATACTAGCACACACA-A-TGCTTCATCGAATATACCGAAAAAAC
* * *
14684501 TATACTAGCACACACAATGCATCATTGGATATACC
1 TATACTAGCACACACAATGCTTCATCGAATATACC
14684536 AAAGGACACA
Statistics
Matches: 240, Mismatches: 36, Indels: 32
0.78 0.12 0.10
Matches are distributed among these distances:
41 8 0.03
42 43 0.18
43 174 0.73
44 8 0.03
45 7 0.03
ACGTcount: A:0.41, C:0.24, G:0.13, T:0.23
Consensus pattern (43 bp):
TATACTAGCACACACAATGCTTCATCGAATATACCGAAAAAAC
Found at i:14684351 original size:86 final size:86
Alignment explanation
Indices: 14684201--14684535 Score: 292
Period size: 86 Copynumber: 3.9 Consensus size: 86
14684191 ATACGAAGTG
* * * * * * *
14684201 TATACTAGCATACATAATGCTTCATCGGATATACCGAAA-AAACTGTACTAGCACACACAATGCA
1 TATACTAGCACACACAATGCATCATCGAATATACC-AAAGCAACTATACTGGCACACACAATGCA
14684265 TCATCGAATATACCGAAACAAC
65 TCATCGAATATACCGAAACAAC
* * * *
14684287 TATACTAGCACACACAATGCATTATCGAATATACTAAAGCAACTATATTGGCACACACAGTGCAT
1 TATACTAGCACACACAATGCATCATCGAATATACCAAAGCAACTATACTGGCACACACAATGCAT
14684352 CATCGAAT-TACC-AAAGCAAC
66 CATCGAATATACCGAAA-CAAC
* * * * * *
14684372 TATAC-AGGCACACATAGTGCATCATC-AGATAAACCAAAGTAAATATACTGGCACACACAGTGC
1 TATACTA-GCACACACAATGCATCATCGA-ATATACCAAAGCAACTATACTGGCACACACAATGC
** *
14684435 ATCATC-ATATATATTGAAGCAAC
64 ATCATCGA-ATATACCGAAACAAC
* * * * *
14684458 TATA-TTG-ACACACATAGTGCATCATTGGATATACCGGAA-CAACTATACTAGCACACACAATG
1 TATACTAGCACACACA-A-TGCATCATCGAATATACC-AAAGCAACTATACTGGCACACACAATG
* *
14684520 CATCATTGGATATACC
63 CATCATCGAATATACC
14684536 AAAGGACACA
Statistics
Matches: 199, Mismatches: 37, Indels: 26
0.76 0.14 0.10
Matches are distributed among these distances:
84 12 0.06
85 71 0.36
86 112 0.56
87 4 0.02
ACGTcount: A:0.41, C:0.24, G:0.13, T:0.23
Consensus pattern (86 bp):
TATACTAGCACACACAATGCATCATCGAATATACCAAAGCAACTATACTGGCACACACAATGCAT
CATCGAATATACCGAAACAAC
Found at i:14684427 original size:128 final size:129
Alignment explanation
Indices: 14684222--14684539 Score: 360
Period size: 128 Copynumber: 2.5 Consensus size: 129
14684212 ACATAATGCT
* * * * *
14684222 TCATCGGATATACCGAAAAAACTGTACTAGCACACACAATGCATCATC-GAATATACCGAAA-CA
1 TCATCGAATATACCGAAACAACTATACTAGCACACACAATGCATCATCAG-ATAAACC-AAAGTA
* * *
14684285 ACTATACTAGCACACACAATGCATTATCGA-ATATACTAAAGCAACTATATTGGCACACACAGTG
64 AATATACTAGCACACACAATGCATCATC-ATATATACTAAAGCAACTATATTGACACACACAGTG
14684349 CA
128 CA
* *
14684351 TCATCGAAT-TACC-AAAGCAACTATAC-AGGCACACATAGTGCATCATCAGATAAACCAAAGTA
1 TCATCGAATATACCGAAA-CAACTATACTA-GCACACACAATGCATCATCAGATAAACCAAAGTA
* * * * *
14684413 AATATACTGGCACACACAGTGCATCATCATATATATTGAAGCAACTATATTGACACACATAGTGC
64 AATATACTAGCACACACAATGCATCATCATATATACTAAAGCAACTATATTGACACACACAGTGC
14684478 A
129 A
* * * ** *
14684479 TCATTGGATATACCGGAACAACTATACTAGCACACACAATGCATCATTGGATATACCAAAG
1 TCATCGAATATACCGAAACAACTATACTAGCACACACAATGCATCATCAGATAAACCAAAG
14684540 GACACAGTGC
Statistics
Matches: 158, Mismatches: 23, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
127 8 0.05
128 98 0.62
129 49 0.31
130 3 0.02
ACGTcount: A:0.41, C:0.24, G:0.13, T:0.22
Consensus pattern (129 bp):
TCATCGAATATACCGAAACAACTATACTAGCACACACAATGCATCATCAGATAAACCAAAGTAAA
TATACTAGCACACACAATGCATCATCATATATACTAAAGCAACTATATTGACACACACAGTGCA
Found at i:14684552 original size:72 final size:71
Alignment explanation
Indices: 14684473--14684613 Score: 176
Period size: 72 Copynumber: 2.0 Consensus size: 71
14684463 TGACACACAT
** * *
14684473 AGTGCATCATTGGATATACCG-GAACAACTATACTAGCACACACAATGCATCATTGGATATACCA
1 AGTGCATCATTAAATATACCGAGAA-AA-TATACTAGCACACACAATACATCATCGGATATACCA
14684537 AAGGACAC
64 AAGGACAC
* * * *
14684545 AGTGCATCATTAAATATATCGAAGAAAATATATTGGCACACACAGTACATCATCGGATATACCAA
1 AGTGCATCATTAAATATACCG-AGAAAATATACTAGCACACACAATACATCATCGGATATACCAA
14684610 AGGA
65 AGGA
14684614 TAACCTGTAC
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
72 54 0.92
73 2 0.03
74 3 0.05
ACGTcount: A:0.41, C:0.21, G:0.16, T:0.22
Consensus pattern (71 bp):
AGTGCATCATTAAATATACCGAGAAAATATACTAGCACACACAATACATCATCGGATATACCAAA
GGACAC
Found at i:14688586 original size:35 final size:35
Alignment explanation
Indices: 14688517--14688609 Score: 141
Period size: 35 Copynumber: 2.6 Consensus size: 35
14688507 AGTACATCGA
*
14688517 CAATCCAACCAAAACACACCAGATGCTCACAAGAGC
1 CAATCCAACCGAAACACACCA-ATGCTCACAAGAGC
* *
14688553 CAATCCATCCGAAACACACCAATGCTCATAAGAGC
1 CAATCCAACCGAAACACACCAATGCTCACAAGAGC
*
14688588 TAATCCAACCGAAACACACCAA
1 CAATCCAACCGAAACACACCAA
14688610 AATAGAGAAC
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
35 33 0.63
36 19 0.37
ACGTcount: A:0.44, C:0.35, G:0.10, T:0.11
Consensus pattern (35 bp):
CAATCCAACCGAAACACACCAATGCTCACAAGAGC
Found at i:14689945 original size:35 final size:35
Alignment explanation
Indices: 14689902--14690078 Score: 159
Period size: 35 Copynumber: 5.2 Consensus size: 35
14689892 GTTGTTACAG
14689902 GTGTTGTGGCGAAATATTAAATGAATGAAGTAATA
1 GTGTTGTGGCGAAATATTAAATGAATGAAGTAATA
* * * **
14689937 GTTTTGTGGTGGAATATTAAATGAATGAAGTAAGG
1 GTGTTGTGGCGAAATATTAAATGAATGAAGTAATA
* * *
14689972 GTGTTGTGG-TAAA-A-T--ATTAATGAAGTAACA
1 GTGTTGTGGCGAAATATTAAATGAATGAAGTAATA
** *
14690002 GTGTTGTGGCGGGATATTAAATGAATGAAGT-ATCG
1 GTGTTGTGGCGAAATATTAAATGAATGAAGTAAT-A
* * * * *
14690037 GTGTTGTGGCGATATGTTAAAAGAATGAAGTATTG
1 GTGTTGTGGCGAAATATTAAATGAATGAAGTAATA
14690072 GTGTTGT
1 GTGTTGT
14690079 AATGGGATGT
Statistics
Matches: 113, Mismatches: 22, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
30 21 0.19
31 1 0.01
32 2 0.02
33 2 0.02
34 3 0.03
35 83 0.73
36 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.30, T:0.34
Consensus pattern (35 bp):
GTGTTGTGGCGAAATATTAAATGAATGAAGTAATA
Found at i:14690089 original size:35 final size:35
Alignment explanation
Indices: 14689990--14690117 Score: 103
Period size: 35 Copynumber: 3.7 Consensus size: 35
14689980 GTAAAATATT
* * ** * *
14689990 AATGAAGTAACAGTGTTGTGGCGGGATATTAAATG
1 AATGAAGTATCGGTGTTGTAACGGGATGTTAAAAG
** **
14690025 AATGAAGTATCGGTGTTGTGGCGATATGTTAAAAG
1 AATGAAGTATCGGTGTTGTAACGGGATGTTAAAAG
* * **
14690060 AATGAAGTATTGGTGTTGTAATGGGATGTTAATTG
1 AATGAAGTATCGGTGTTGTAACGGGATGTTAAAAG
* * *
14690095 AAAGAAGTATCGGTTTTCTAACG
1 AATGAAGTATCGGTGTTGTAACG
14690118 AAATTTTAAT
Statistics
Matches: 74, Mismatches: 19, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
35 74 1.00
ACGTcount: A:0.32, C:0.05, G:0.30, T:0.33
Consensus pattern (35 bp):
AATGAAGTATCGGTGTTGTAACGGGATGTTAAAAG
Found at i:14690092 original size:100 final size:100
Alignment explanation
Indices: 14689902--14690081 Score: 229
Period size: 100 Copynumber: 1.8 Consensus size: 100
14689892 GTTGTTACAG
* * *
14689902 GTGTTGTGGCGAAATATTAAATGAATGAAGTAATAGTTTTGTGGTGGAATATTAAATGAATGAAG
1 GTGTTGTGGCGAAATATTAAATGAATGAAGTAATAGTGTTGTGGTCGAATATTAAAAGAATGAAG
**
14689967 TAAGGGTGTTGTGGTAAAATATTAATGAAGTAACA
66 TAAGGGTGTTGTAATAAAATATTAATGAAGTAACA
** * *
14690002 GTGTTGTGGCGGGATATTAAATGAATGAAGT-ATCGGTGTTGTGG-CGATATGTTAAAAGAATGA
1 GTGTTGTGGCGAAATATTAAATGAATGAAGTAAT-AGTGTTGTGGTCGA-ATATTAAAAGAATGA
**
14690065 AGTATTGGTGTTGTAAT
64 AGTAAGGGTGTTGTAAT
14690082 GGGATGTTAA
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
99 4 0.06
100 63 0.94
ACGTcount: A:0.34, C:0.03, G:0.29, T:0.34
Consensus pattern (100 bp):
GTGTTGTGGCGAAATATTAAATGAATGAAGTAATAGTGTTGTGGTCGAATATTAAAAGAATGAAG
TAAGGGTGTTGTAATAAAATATTAATGAAGTAACA
Found at i:14701293 original size:58 final size:59
Alignment explanation
Indices: 14701143--14701312 Score: 175
Period size: 60 Copynumber: 2.9 Consensus size: 59
14701133 ATTGCGACAA
* * * * * * *
14701143 AAAAAAAACTCTAGTACCTAATTAAACACTGAAGCCAAACTTAGGTACTTAAATGGGAC
1 AAAAAAAACTCAAGTACCAAATTGAACATTGAAGCCAAACTCAAGTACTCAAATGGGAC
* * *
14701202 AAAGAAAAACTCAAGTACCAAAGTGAACTTTGAAGTCAAACTCAAGTAC-CAAATTGGGAC
1 AAA-AAAAACTCAAGTACCAAATTGAACATTGAAGCCAAACTCAAGTACTCAAA-TGGGAC
* * * *
14701262 -AAAAAAACTCAAATACCGAATTGAACATTGAAGCCAAATTCATGTA-TCAAA
1 AAAAAAAACTCAAGTACCAAATTGAACATTGAAGCCAAACTCAAGTACTCAAA
14701313 CAGTATATTA
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
58 41 0.45
59 8 0.09
60 42 0.46
ACGTcount: A:0.48, C:0.18, G:0.14, T:0.21
Consensus pattern (59 bp):
AAAAAAAACTCAAGTACCAAATTGAACATTGAAGCCAAACTCAAGTACTCAAATGGGAC
Found at i:14702063 original size:25 final size:24
Alignment explanation
Indices: 14702017--14702062 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
14702007 TTTGACAAGT
14702017 TTAGGTACAAATTGAGAAAAAAGC
1 TTAGGTACAAATTGAGAAAAAAGC
14702041 TTAGGTACCAAATT-AGAAAAAA
1 TTAGGTA-CAAATTGAGAAAAAA
14702063 AATGTCAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.52, C:0.09, G:0.17, T:0.22
Consensus pattern (24 bp):
TTAGGTACAAATTGAGAAAAAAGC
Found at i:14709821 original size:26 final size:26
Alignment explanation
Indices: 14709791--14709851 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
14709781 TTAGCTCTTA
14709791 TGAGCTTCCCGATT-ATAGGCTCCTCG
1 TGAGCTTCCCG-TTAATAGGCTCCTCG
* * * *
14709817 TGAGCTTCCTGTTAATTGGCTCTTTG
1 TGAGCTTCCCGTTAATAGGCTCCTCG
14709843 TGAGCTTCC
1 TGAGCTTCC
14709852 TGATATGGCT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 2 0.07
26 28 0.93
ACGTcount: A:0.13, C:0.26, G:0.23, T:0.38
Consensus pattern (26 bp):
TGAGCTTCCCGTTAATAGGCTCCTCG
Found at i:14713694 original size:42 final size:42
Alignment explanation
Indices: 14713647--14713743 Score: 151
Period size: 42 Copynumber: 2.3 Consensus size: 42
14713637 ACGAGTGGAG
*
14713647 ACACGGGTGTGTGTCTCAGTCGTGTGTGACACACGGCC-ATGC
1 ACACGGGTGTGTGTCTCAGCCGTGTGTGACACACGGCCTA-GC
*
14713689 GCACGGGTGTGTGTCTCAGCCGTGTGTGACACACGGCCTAGC
1 ACACGGGTGTGTGTCTCAGCCGTGTGTGACACACGGCCTAGC
*
14713731 ACACGGGCGTGTG
1 ACACGGGTGTGTG
14713744 GCTTGACTGT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
42 49 0.98
43 1 0.02
ACGTcount: A:0.15, C:0.27, G:0.36, T:0.22
Consensus pattern (42 bp):
ACACGGGTGTGTGTCTCAGCCGTGTGTGACACACGGCCTAGC
Found at i:14714551 original size:12 final size:13
Alignment explanation
Indices: 14714526--14714550 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14714516 TAGCCCGCCC
14714526 ATATTAATTTTTT
1 ATATTAATTTTTT
14714539 ATATTAATTTTT
1 ATATTAATTTTT
14714551 AAAATAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
ATATTAATTTTTT
Found at i:14714824 original size:3 final size:3
Alignment explanation
Indices: 14714818--14714858 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
14714808 ATATCAAGAA
*
14714818 AAT AAT AAT AAT AAT AAT AAT AAA AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
14714859 AACAATTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:14718450 original size:88 final size:88
Alignment explanation
Indices: 14718301--14718619 Score: 496
Period size: 88 Copynumber: 3.6 Consensus size: 88
14718291 AGAGCAGATT
* *
14718301 GGTTAAAAATAGCAGATCTTGCATTCTTGCGTCGACAGCGAAGCAGATCGAAGACACCAGCCTTG
1 GGTTAAAAATAGCAGATCTTGCCTTCTTGCGCCGACAGCGAAGCAGATCGAAGACACCAGCCTTG
* *
14718366 CCTCCCTGGGTTGTAGCTGAGCA
66 CCTCCCTGGGTTGCAGCGGAGCA
* * *
14718389 GGTTAAAAAGAGCAGATCTTGCCTTCTTGCGCCGACAGCGAAACCGATCGAAGACACCAGCCTTG
1 GGTTAAAAATAGCAGATCTTGCCTTCTTGCGCCGACAGCGAAGCAGATCGAAGACACCAGCCTTG
*
14718454 CCTTCCTGGGTTGCAGCGGAGCA
66 CCTCCCTGGGTTGCAGCGGAGCA
* * * *
14718477 GGTTAAAAATAACAGATCTTGCCTTCCTGCACCGAGAGCGAAGCAGATCGAAGACACCAGCCTTG
1 GGTTAAAAATAGCAGATCTTGCCTTCTTGCGCCGACAGCGAAGCAGATCGAAGACACCAGCCTTG
*
14718542 CCTCCCTGGGTTGCAGCGGAACA
66 CCTCCCTGGGTTGCAGCGGAGCA
*
14718565 GGTTAAAAATAGCA-ATTCTTGCCTTCTTGCGCCGACAGCGAAGCAGATCAAAGAC
1 GGTTAAAAATAGCAGA-TCTTGCCTTCTTGCGCCGACAGCGAAGCAGATCGAAGAC
14718620 TGATGGGTGT
Statistics
Matches: 208, Mismatches: 22, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
87 1 0.00
88 207 1.00
ACGTcount: A:0.28, C:0.27, G:0.25, T:0.20
Consensus pattern (88 bp):
GGTTAAAAATAGCAGATCTTGCCTTCTTGCGCCGACAGCGAAGCAGATCGAAGACACCAGCCTTG
CCTCCCTGGGTTGCAGCGGAGCA
Found at i:14720348 original size:174 final size:174
Alignment explanation
Indices: 14720037--14720363 Score: 410
Period size: 174 Copynumber: 1.9 Consensus size: 174
14720027 AAGACATCAG
* * * *
14720037 CCTTGCCTCCCTGGGTTGCAGCAGAGCAGGTTAAAAATAACAGATCTTGCCTTTCTGCGCCGACG
1 CCTTGCCTCCCTCGGTTGCAGCAGAACAGGTTAAAAATAACAGATCTTGCCTTTCTGCACCGACA
* * * *
14720102 GTGAAGCAGATCGAAGACTCCAGCCTTATCTTCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACA
66 GTGAAGCAGATCGAAGACACCAGCCTTACCTCCCTGAGCAGCAGTGGAGCAGGTTGAAAATTACA
14720167 AATCTTATCTCCCTAAGCAGTAGCGGAGTAATCGAAGACACTAA
131 AATCTTATCTCCCTAAGCAGTAGCGGAGTAATCGAAGACACTAA
* * * * * *
14720211 CCTTGCCTCCCTCGG-TGACAGGAGAACAGGTTAAAGATAGCCGATCTTGCCTTAT-TGTACTGA
1 CCTTGCCTCCCTCGGTTG-CAGCAGAACAGGTTAAAAATAACAGATCTTGCCTT-TCTGCACCGA
* * * **
14720274 CAGTGAAGTAGATCGAAGACACTAGCCTTGCCTCCCTCG-GTGGCAGTGGAGCAGGTT-AAAGAT
64 CAGTGAAGCAGATCGAAGACACCAGCCTTACCTCCCT-GAGCAGCAGTGGAGCAGGTTGAAA-AT
*
14720337 TACAGATCTTATCTCCCTAAGCAGTAG
127 TACAAATCTTATCTCCCTAAGCAGTAG
14720364 TGAAGCAGAT
Statistics
Matches: 129, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
173 5 0.04
174 122 0.95
175 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (174 bp):
CCTTGCCTCCCTCGGTTGCAGCAGAACAGGTTAAAAATAACAGATCTTGCCTTTCTGCACCGACA
GTGAAGCAGATCGAAGACACCAGCCTTACCTCCCTGAGCAGCAGTGGAGCAGGTTGAAAATTACA
AATCTTATCTCCCTAAGCAGTAGCGGAGTAATCGAAGACACTAA
Found at i:14722564 original size:15 final size:16
Alignment explanation
Indices: 14722544--14722574 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14722534 GATTTGTGTT
14722544 TTCATTT-ATATTTTA
1 TTCATTTGATATTTTA
14722559 TTCATTTGATATTTTA
1 TTCATTTGATATTTTA
14722575 CATGTCGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.26, C:0.06, G:0.03, T:0.65
Consensus pattern (16 bp):
TTCATTTGATATTTTA
Found at i:14726390 original size:2 final size:2
Alignment explanation
Indices: 14726383--14726425 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
14726373 CAAAGTTCCT
14726383 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
14726425 T
1 T
14726426 TTTATCAACT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:14743156 original size:2 final size:2
Alignment explanation
Indices: 14743149--14743191 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
14743139 TCTATTCCCT
*
14743149 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TT TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
14743191 T
1 T
14743192 GTAAAACAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:14753416 original size:30 final size:30
Alignment explanation
Indices: 14753380--14753613 Score: 323
Period size: 30 Copynumber: 7.9 Consensus size: 30
14753370 ATATATTTCT
**
14753380 GAATTGATTTGTATATGAATATACATTTTC
1 GAATTGATTTGTATATGAATATACATTGCC
* * *
14753410 GAATTGATTCGTATATGGATATACATCGCC
1 GAATTGATTTGTATATGAATATACATTGCC
*
14753440 GAATTGATTTGTATATGGATATACATTGCC
1 GAATTGATTTGTATATGAATATACATTGCC
* *
14753470 GAATTGATTTGTATATGGATATACATTGCT
1 GAATTGATTTGTATATGAATATACATTGCC
*
14753500 GAATTGATTTGTATATGAATATACATTACC
1 GAATTGATTTGTATATGAATATACATTGCC
* *
14753530 GAATTGATTTGTATAT-AGATATAAATTACC
1 GAATTGATTTGTATATGA-ATATACATTGCC
14753560 GAATTGATTTGTATAT-AGATATACATTGCC
1 GAATTGATTTGTATATGA-ATATACATTGCC
14753590 GAATTGATTTGTATATG--TATACAT
1 GAATTGATTTGTATATGAATATACAT
14753614 ATATATTGTT
Statistics
Matches: 188, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
28 7 0.04
29 1 0.01
30 180 0.96
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (30 bp):
GAATTGATTTGTATATGAATATACATTGCC
Done.