Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 36 of 276
Found at i:11323445 original size:15 final size:15
Alignment explanation
Indices: 11323422--11323463 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
11323412 TGATATTTTC
*
11323422 TTCTGGATTTCTTTA
1 TTCTGGATTTCTATA
11323437 TGT-TGGATTTCTATA
1 T-TCTGGATTTCTATA
11323452 TTCTGGATTTCT
1 TTCTGGATTTCT
11323464 CCGTTATGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 1 0.04
15 22 0.92
16 1 0.04
ACGTcount: A:0.14, C:0.12, G:0.17, T:0.57
Consensus pattern (15 bp):
TTCTGGATTTCTATA
Found at i:11328567 original size:46 final size:46
Alignment explanation
Indices: 11328517--11328785 Score: 311
Period size: 46 Copynumber: 5.8 Consensus size: 46
11328507 TGGTTGAGCA
11328517 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
11328563 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
11328608 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
11328656 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
11328701 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
11328749 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
11328786 GCGGATTACA
Statistics
Matches: 190, Mismatches: 15, Indels: 36
0.79 0.06 0.15
Matches are distributed among these distances:
42 4 0.02
43 10 0.05
45 6 0.03
46 93 0.49
47 58 0.31
48 6 0.03
50 9 0.05
51 4 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:11328673 original size:93 final size:93
Alignment explanation
Indices: 11328514--11328777 Score: 501
Period size: 93 Copynumber: 2.8 Consensus size: 93
11328504 GGATGGTTGA
11328514 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
11328579 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
11328607 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
11328672 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
11328700 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
11328765 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
11328778 ACTTATGGGC
Statistics
Matches: 168, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 168 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:11333904 original size:38 final size:38
Alignment explanation
Indices: 11333807--11333908 Score: 134
Period size: 38 Copynumber: 2.7 Consensus size: 38
11333797 GCTTAAAGAA
** *
11333807 CCGCAGGCTTTGTGCTGGTAAAATATCCAGGTTAAATC
1 CCGCAGGCTTTGTGCTGGTATTATATCCAGGATAAATC
*
11333845 CCGCAGGCTTTGTGCTAGTATTATAT-CAGGGATAAATC
1 CCGCAGGCTTTGTGCTGGTATTATATCCA-GGATAAATC
* *
11333883 CCGCAGGCCTAGTGCTGGTATTATAT
1 CCGCAGGCTTTGTGCTGGTATTATAT
11333909 TCGGGCCTTC
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
37 2 0.04
38 54 0.96
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (38 bp):
CCGCAGGCTTTGTGCTGGTATTATATCCAGGATAAATC
Found at i:11333967 original size:43 final size:43
Alignment explanation
Indices: 11333906--11334060 Score: 258
Period size: 43 Copynumber: 3.6 Consensus size: 43
11333896 GCTGGTATTA
*
11333906 TATTCGGGCCTTCGTGCCTAGTAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
11333949 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGATGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
11333992 TATTCGGGCCTTCGTGCCTAG-AGGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCA-GGCTTCGTGCCGGTGATGTG
*
11334035 TATTCAGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
11334061 GTAATGCCGG
Statistics
Matches: 104, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
42 1 0.01
43 102 0.98
44 1 0.01
ACGTcount: A:0.12, C:0.25, G:0.33, T:0.30
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:11334012 original size:86 final size:86
Alignment explanation
Indices: 11333906--11334069 Score: 285
Period size: 86 Copynumber: 1.9 Consensus size: 86
11333896 GCTGGTATTA
*
11333906 TATTCGGGCCTTCGTGCCTAGTA-GGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAG
1 TATTCGGGCCTTCGTGCCTAG-AGGGCTTCGTGCCGGTGATGTGTATTCAGGCCTTCGTGCCTAG
* *
11333970 CAGGCTTCATGCCGATGATGTG
65 CAGGCGTAATGCCGATGATGTG
11333992 TATTCGGGCCTTCGTGCCTAGAGGGCTTCGTGCCGGTGATGTGTATTCAGGCCTTCGTGCCTAGC
1 TATTCGGGCCTTCGTGCCTAGAGGGCTTCGTGCCGGTGATGTGTATTCAGGCCTTCGTGCCTAGC
11334057 AGGCGTAATGCCG
66 AGGCGTAATGCCG
11334070 GTGAAATGAT
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
85 1 0.01
86 73 0.99
ACGTcount: A:0.12, C:0.25, G:0.33, T:0.30
Consensus pattern (86 bp):
TATTCGGGCCTTCGTGCCTAGAGGGCTTCGTGCCGGTGATGTGTATTCAGGCCTTCGTGCCTAGC
AGGCGTAATGCCGATGATGTG
Found at i:11337766 original size:29 final size:28
Alignment explanation
Indices: 11337730--11337807 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
11337720 TCATGAGATT
11337730 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
11337760 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
11337787 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
11337808 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:11350758 original size:27 final size:27
Alignment explanation
Indices: 11350604--11350741 Score: 177
Period size: 27 Copynumber: 5.1 Consensus size: 27
11350594 CCCTAATTGA
* * *
11350604 TAAAGTGACTATTTTTCTCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
*
11350631 TAAAATGACTATTTTGCCCTTATATGG
1 TAAAATGACTATTTTGCCCTTATGTGG
* * *
11350658 TAAAATGATTGTTTTACCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
* * *
11350685 TAAAATGACCATTTTGCCGTTATATGG
1 TAAAATGACTATTTTGCCCTTATGTGG
*
11350712 TAAAATAACTATTTTGCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
11350739 TAA
1 TAA
11350742 GGTGACTCTT
Statistics
Matches: 93, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 93 1.00
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCTTATGTGG
Found at i:11358183 original size:40 final size:39
Alignment explanation
Indices: 11358152--11358361 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
11358142 GGACTAAGAT
* *
11358152 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
11358192 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
11358232 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
11358272 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
11358312 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
11358351 CCGAAGGCATT
1 CCGAAGGCATT
11358362 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:11358315 original size:120 final size:120
Alignment explanation
Indices: 11358099--11358361 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
11358089 TTGAATGCTG
* *
11358099 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
11358163 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
11358219 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
11358282 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
11358338 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
11358362 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:11358381 original size:79 final size:80
Alignment explanation
Indices: 11358100--11358396 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
11358090 TGAATGCTGT
* ** * * * **
11358100 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
11358163 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
11358180 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
11358244 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
11358260 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
11358324 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
11358339 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
11358397 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:11360814 original size:16 final size:16
Alignment explanation
Indices: 11360793--11360835 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
11360783 GTAGATCGGA
*
11360793 AAAAGCCGAAATGCTG
1 AAAAGCCGAAATACTG
* *
11360809 AAAAGCCAAAATATTG
1 AAAAGCCGAAATACTG
*
11360825 AAAAGCTGAAA
1 AAAAGCCGAAA
11360836 GTTTGAATAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.53, C:0.14, G:0.19, T:0.14
Consensus pattern (16 bp):
AAAAGCCGAAATACTG
Found at i:11361081 original size:29 final size:27
Alignment explanation
Indices: 11361048--11361137 Score: 90
Period size: 29 Copynumber: 3.1 Consensus size: 27
11361038 TGAGCATGAC
11361048 TATAAATGTAAATTGGGCCTGATGGGCCA
1 TATAAATGT-AATTGGGCCT-ATGGGCCA
*
11361077 TATAAATGTGATTTGGGCCTAATGGGCCA
1 TATAAATGT-AATTGGGCCT-ATGGGCCA
* * * *
11361106 TGTGAATATAATTGGGTCTAGTGGGCCA
1 TATAAATGTAATTGGGCCTA-TGGGCCA
11361134 TATA
1 TATA
11361138 CAGGTATGTG
Statistics
Matches: 50, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
27 1 0.02
28 17 0.34
29 32 0.64
ACGTcount: A:0.29, C:0.12, G:0.28, T:0.31
Consensus pattern (27 bp):
TATAAATGTAATTGGGCCTATGGGCCA
Found at i:11377128 original size:27 final size:26
Alignment explanation
Indices: 11377098--11377473 Score: 270
Period size: 27 Copynumber: 14.0 Consensus size: 26
11377088 TTTACCCTAC
* *
11377098 AAGGGTATTTCAGTAATTTTTCACTAT
1 AAGGGTATTTCAGTAATTTTACA-AAT
** * *
11377125 AAGGGTATTTTGGTAATTTGAAAAAT
1 AAGGGTATTTCAGTAATTTTACAAAT
*
11377151 CAAGGGTATTTCATTAATTTTACAAAT
1 -AAGGGTATTTCAGTAATTTTACAAAT
* *
11377178 AAGGGGTATCTC-GATAATTTTACAAACC
1 AA-GGGTATTTCAG-TAATTTTACAAA-T
*
11377206 GAGGGTATTTC-GATAATTTTACAAACT
1 AAGGGTATTTCAG-TAATTTTACAAA-T
** * * *
11377233 GGGGGTATTTCGGTAATTTTACACTAC
1 AAGGGTATTTCAGTAATTTTACA-AAT
*
11377260 AAGGGTATTTCAGTAACTTTACAAATT
1 AAGGGTATTTCAGTAATTTTACAAA-T
** *
11377287 GGGGGTATTTCAATAATTTTACAAATT
1 AAGGGTATTTCAGTAATTTTACAAA-T
* ** * *
11377314 AGGGGTATTTTGGTAATTTTACACTAG
1 AAGGGTATTTCAGTAATTTTACA-AAT
**
11377341 AAGGGTATTTTGGTAATTTTACAAAT
1 AAGGGTATTTCAGTAATTTTACAAAT
* **
11377367 CGAGGGTATTTTGGTAATTTTACAAACT
1 -AAGGGTATTTCAGTAATTTTACAAA-T
* **
11377395 AGGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTCAGTAATTTTACAAA-T
* **
11377422 AGGGGTATTTTGGTAATTTTACAAAT
1 AAGGGTATTTCAGTAATTTTACAAAT
**
11377448 CGGGGGTATTTCAGTAATTTTACAAA
1 -AAGGGTATTTCAGTAATTTTACAAA
11377474 CTGGGGTTTT
Statistics
Matches: 292, Mismatches: 46, Indels: 22
0.81 0.13 0.06
Matches are distributed among these distances:
26 7 0.02
27 280 0.96
28 5 0.02
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (26 bp):
AAGGGTATTTCAGTAATTTTACAAAT
Found at i:11377156 original size:54 final size:54
Alignment explanation
Indices: 11377097--11377473 Score: 318
Period size: 54 Copynumber: 7.0 Consensus size: 54
11377087 GTTTACCCTA
* * * * *
11377097 CAAGGGTATTTCAGTAATTTTTCACTA-TAAGGGTATTTTGGTAATTTGAAAAAT
1 CAAGGGTATTTCAGTAATTTTACA-AACTAAGGGTATTTCGGTAATTTTACAAAT
* * * *
11377151 CAAGGGTATTTCATTAATTTTACAAA-TAAGGGGTATCTCGATAATTTTACAAAC
1 CAAGGGTATTTCAGTAATTTTACAAACTAA-GGGTATTTCGGTAATTTTACAAAT
* ** *
11377205 CGAGGGTATTTC-GATAATTTTACAAACTGGGGGTATTTCGGTAATTTTAC-ACT
1 CAAGGGTATTTCAG-TAATTTTACAAACTAAGGGTATTTCGGTAATTTTACAAAT
* * ** **
11377258 ACAAGGGTATTTCAGTAACTTTACAAATTGGGGGTATTTCAATAATTTTACAAAT
1 -CAAGGGTATTTCAGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTACAAAT
* * ** *
11377313 TAGGGGTATTTTGGTAATTTTAC--ACTAGAAGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCAGTAATTTTACAAACT--AAGGGTATTTCGGTAATTTTACAAAT
* ** * *
11377367 CGAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCAGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTACAAAT
* * ** ** *
11377421 TAGGGGTATTTTGGTAATTTTACAAA-TCGGGGGTATTTCAGTAATTTTACAAA
1 CAAGGGTATTTCAGTAATTTTACAAACT-AAGGGTATTTCGGTAATTTTACAAA
11377474 CTGGGGTTTT
Statistics
Matches: 268, Mismatches: 44, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
52 2 0.01
53 6 0.02
54 253 0.94
55 4 0.01
56 3 0.01
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (54 bp):
CAAGGGTATTTCAGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTACAAAT
Found at i:11377211 original size:81 final size:81
Alignment explanation
Indices: 11377095--11377480 Score: 363
Period size: 81 Copynumber: 4.8 Consensus size: 81
11377085 CAGTTTACCC
* * * * * * *
11377095 TACAAGGGTATTTC-AGTAATTTTTCACTAT-AAGGGTATTTTGGTAATTTGA-AAAATCAAGGG
1 TACAAGGGTATTTCGA-TAATTTTACA-AATCGAGGGTATTTCGGTAATTTTACAAACT-AGGGG
**
11377157 TATTTCATTAATTTTACAAA
63 TATTTCGGTAATTTTAC-AA
* * * * *
11377177 TA-AGGGGTATCTCGATAATTTTACAAACCGAGGGTATTTCGATAATTTTACAAACTGGGGGTAT
1 TACAAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAACTAGGGGTAT
*
11377241 TTCGGTAATTTTACAC
66 TTCGGTAATTTTACAA
* * * ** *
11377257 TACAAGGGTATTTC-AGTAACTTTACAAATTGGGGGTATTTCAATAATTTTACAAATTAGGGGTA
1 TACAAGGGTATTTCGA-TAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAACTAGGGGTA
* *
11377321 TTTTGGTAATTTTACAC
65 TTTCGGTAATTTTACAA
* * * *
11377338 TAGAAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACTAGGGGTAT
1 TACAAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAACTAGGGGTAT
*
11377403 TTTGGTAATTTTACAA
66 TTCGGTAATTTTACAA
* * * * * *
11377419 -ATTAGGGGTATTTTGGTAATTTTACAAATCGGGGGTATTTCAGTAATTTTACAAACT-GGGGT
1 TA-CAAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAACTAGGGGT
11377481 TTTAACGACC
Statistics
Matches: 256, Mismatches: 41, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
80 11 0.04
81 238 0.93
82 7 0.03
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (81 bp):
TACAAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAACTAGGGGTAT
TTCGGTAATTTTACAA
Found at i:11377479 original size:27 final size:27
Alignment explanation
Indices: 11377154--11377479 Score: 295
Period size: 27 Copynumber: 12.1 Consensus size: 27
11377144 GAAAAATCAA
** *
11377154 GGGTATTTCATTAATTTTACAAA-TAAG
1 GGGTATTTCGGTAATTTTACAAACT-GG
* * * *
11377181 GGGTATCTCGATAATTTTACAAACCGA
1 GGGTATTTCGGTAATTTTACAAACTGG
*
11377208 GGGTATTTCGATAATTTTACAAACTGG
1 GGGTATTTCGGTAATTTTACAAACTGG
* **
11377235 GGGTATTTCGGTAATTTTACACTAC-AA
1 GGGTATTTCGGTAATTTTACA-AACTGG
* * *
11377262 GGGTATTTCAGTAACTTTACAAATTGG
1 GGGTATTTCGGTAATTTTACAAACTGG
** * *
11377289 GGGTATTTCAATAATTTTACAAATTAG
1 GGGTATTTCGGTAATTTTACAAACTGG
* *
11377316 GGGTATTTTGGTAATTTTAC--ACTAGAA
1 GGGTATTTCGGTAATTTTACAAACT-G-G
* *
11377343 GGGTATTTTGGTAATTTTACAAA-TCGA
1 GGGTATTTCGGTAATTTTACAAACT-GG
* *
11377370 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTCGGTAATTTTACAAACTGG
* * *
11377397 GGGTATTTTGGTAATTTTACAAATTAG
1 GGGTATTTCGGTAATTTTACAAACTGG
*
11377424 GGGTATTTTGGTAATTTTACAAA-TCGG
1 GGGTATTTCGGTAATTTTACAAACT-GG
*
11377451 GGGTATTTCAGTAATTTTACAAACTGG
1 GGGTATTTCGGTAATTTTACAAACTGG
11377478 GG
1 GG
11377480 TTTTAACGAC
Statistics
Matches: 254, Mismatches: 35, Indels: 20
0.82 0.11 0.06
Matches are distributed among these distances:
25 2 0.01
26 2 0.01
27 243 0.96
28 6 0.02
29 1 0.00
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.39
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACAAACTGG
Found at i:11383441 original size:50 final size:50
Alignment explanation
Indices: 11383366--11383465 Score: 182
Period size: 50 Copynumber: 2.0 Consensus size: 50
11383356 CGTCCCTTAA
* *
11383366 GACTTATTCATTTTCATCATAAGAATAACCAAACCAAGTTCACTTTAGAT
1 GACTTATTCAATTTCATCATAAGAATAACCAAACCAAGTTCACTTCAGAT
11383416 GACTTATTCAATTTCATCATAAGAATAACCAAACCAAGTTCACTTCAGAT
1 GACTTATTCAATTTCATCATAAGAATAACCAAACCAAGTTCACTTCAGAT
11383466 TTATCTGATC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (50 bp):
GACTTATTCAATTTCATCATAAGAATAACCAAACCAAGTTCACTTCAGAT
Found at i:11384392 original size:17 final size:19
Alignment explanation
Indices: 11384344--11384393 Score: 59
Period size: 17 Copynumber: 2.7 Consensus size: 19
11384334 TGGGCTATTT
*
11384344 TGTAAAGTTTGTAAAATAAG
1 TGTAAA-TTTGTGAAATAAG
*
11384364 TGTAAATGTGTGAAATAA-
1 TGTAAATTTGTGAAATAAG
11384382 T-TAAATTTGTGA
1 TGTAAATTTGTGA
11384394 GTTTCTATAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 10 0.37
18 1 0.04
19 10 0.37
20 6 0.22
ACGTcount: A:0.42, C:0.00, G:0.20, T:0.38
Consensus pattern (19 bp):
TGTAAATTTGTGAAATAAG
Found at i:11386437 original size:15 final size:13
Alignment explanation
Indices: 11386404--11386436 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
11386394 GACACATGGG
11386404 CGTGTGTCTAGGC
1 CGTGTGTCTAGGC
11386417 CGTGTGTCTAGGC
1 CGTGTGTCTAGGC
11386430 CGTGTGT
1 CGTGTGT
11386437 GACATACGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.06, C:0.21, G:0.39, T:0.33
Consensus pattern (13 bp):
CGTGTGTCTAGGC
Found at i:11387658 original size:46 final size:46
Alignment explanation
Indices: 11387606--11387771 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 46
11387596 TGATATGTGC
11387606 GCCAGTGTAAGACATGTCTGGAACATGCATCGACCACATTGCGAGA
1 GCCAGTGTAAGACATGTCTGGAACATGCATCGACCACATTGCGAGA
* * *
11387652 GCCAGTGTAATACATGTCTAGG-ACAT--ATCGA--A-ATATGTG-TA
1 GCCAGTGTAAGACATGTCT-GGAACATGCATCGACCACAT-TGCGAGA
* * * *
11387693 -CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGTTGCGAGA
1 GCCAGTGTAAGACATGTCTGGAACATGCATCGACCACATTGCGAGA
*
11387738 GCCAGTGCAAGACATGTCT-GAGACATGCATCGAC
1 GCCAGTGTAAGACATGTCTGGA-ACATGCATCGAC
11387772 TTTGAGACAA
Statistics
Matches: 96, Mismatches: 13, Indels: 22
0.73 0.10 0.17
Matches are distributed among these distances:
39 2 0.02
40 20 0.21
41 3 0.03
42 8 0.08
44 9 0.09
45 3 0.03
46 49 0.51
47 2 0.02
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.22
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGAACATGCATCGACCACATTGCGAGA
Found at i:11395469 original size:183 final size:183
Alignment explanation
Indices: 11395161--11395527 Score: 725
Period size: 183 Copynumber: 2.0 Consensus size: 183
11395151 TCATTAACTA
11395161 TCTAAATCCATTTCTACTATTTTTAGTGATTTTTCAAATTCACATCATTACTGCTATCTGATACT
1 TCTAAATCCATTTCTACTATTTTTAGTGATTTTTCAAATTCACATCATTACTGCTATCTGATACT
11395226 ATTTTAAAGCTAATTTCACCTTTGTCATGATTTCCATGGAATAACTAGCATTTAGGCATACATAA
66 ATTTTAAAGCTAATTTCACCTTTGTCATGATTTCCATGGAATAACTAGCATTTAGGCATACATAA
*
11395291 CACCAAACATGTCCTTGATGAGCCATTCCAATATCTAATCATTACCAAGCATG
131 CACCAAACATGTCCTTGATGAGCCATTCCAATATCTAATCATCACCAAGCATG
11395344 TCTAAATCCATTTCTACTATTTTTAGTGATTTTTCAAATTCACATCATTACTGCTATCTGATACT
1 TCTAAATCCATTTCTACTATTTTTAGTGATTTTTCAAATTCACATCATTACTGCTATCTGATACT
11395409 ATTTTAAAGCTAATTTCACCTTTGTCATGATTTCCATGGAATAACTAGCATTTAGGCATACATAA
66 ATTTTAAAGCTAATTTCACCTTTGTCATGATTTCCATGGAATAACTAGCATTTAGGCATACATAA
11395474 CACCAAACATGTCCTTGATGAGCCATTCCAATATCTAATCATCACCAAGCATG
131 CACCAAACATGTCCTTGATGAGCCATTCCAATATCTAATCATCACCAAGCATG
11395527 T
1 T
11395528 ACATACCATT
Statistics
Matches: 183, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
183 183 1.00
ACGTcount: A:0.32, C:0.22, G:0.10, T:0.37
Consensus pattern (183 bp):
TCTAAATCCATTTCTACTATTTTTAGTGATTTTTCAAATTCACATCATTACTGCTATCTGATACT
ATTTTAAAGCTAATTTCACCTTTGTCATGATTTCCATGGAATAACTAGCATTTAGGCATACATAA
CACCAAACATGTCCTTGATGAGCCATTCCAATATCTAATCATCACCAAGCATG
Found at i:11409301 original size:8 final size:8
Alignment explanation
Indices: 11409288--11409331 Score: 61
Period size: 8 Copynumber: 5.5 Consensus size: 8
11409278 CTAGATCGGC
11409288 AAAAGCCG
1 AAAAGCCG
11409296 AAAAGCCG
1 AAAAGCCG
*
11409304 AAATGCCG
1 AAAAGCCG
*
11409312 AAATGCCG
1 AAAAGCCG
*
11409320 AAATGCCG
1 AAAAGCCG
11409328 AAAA
1 AAAA
11409332 TTCAGCATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 34 1.00
ACGTcount: A:0.48, C:0.23, G:0.23, T:0.07
Consensus pattern (8 bp):
AAAAGCCG
Found at i:11409313 original size:16 final size:16
Alignment explanation
Indices: 11409292--11409331 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
11409282 ATCGGCAAAA
11409292 GCCGAAAAGCCGAAAT
1 GCCGAAAAGCCGAAAT
*
11409308 GCCGAAATGCCGAAAT
1 GCCGAAAAGCCGAAAT
11409324 GCCGAAAA
1 GCCGAAAA
11409332 TTCAGCATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.42, C:0.25, G:0.25, T:0.07
Consensus pattern (16 bp):
GCCGAAAAGCCGAAAT
Found at i:11409639 original size:26 final size:26
Alignment explanation
Indices: 11409582--11409644 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
11409572 TTTTACTAAA
*
11409582 ATACCCCTAAGTATGAAAATTACCATT
1 ATACCCCT-AGTATGAAAATGACCATT
* *
11409609 TTACCCCTAG-ATGCAAAATGACCGTT
1 ATACCCCTAGTATG-AAAATGACCATT
11409635 ATACCCCTAG
1 ATACCCCTAG
11409645 GGTTAATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
25 3 0.10
26 21 0.68
27 7 0.23
ACGTcount: A:0.35, C:0.27, G:0.11, T:0.27
Consensus pattern (26 bp):
ATACCCCTAGTATGAAAATGACCATT
Found at i:11414374 original size:27 final size:27
Alignment explanation
Indices: 11414334--11414479 Score: 166
Period size: 27 Copynumber: 5.4 Consensus size: 27
11414324 TGGATAAGTT
* * *
11414334 GTAGAACTATCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
11414361 GTAGAATTACCGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
11414388 GTAGAATTACTGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
11414415 ATAGAATTATCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * * *
11414442 GTAGAATTATCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
11414469 GTAAAATTACC
1 GTAGAATTACC
11414480 ATTTTGCCCC
Statistics
Matches: 104, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 104 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:11414728 original size:17 final size:17
Alignment explanation
Indices: 11414706--11414740 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
11414696 GGTAAAAGCT
*
11414706 GAAATATCGAAACGTTG
1 GAAATACCGAAACGTTG
11414723 GAAATACCGAAACGTTG
1 GAAATACCGAAACGTTG
11414740 G
1 G
11414741 TATTTTGTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.40, C:0.14, G:0.26, T:0.20
Consensus pattern (17 bp):
GAAATACCGAAACGTTG
Found at i:11415216 original size:32 final size:32
Alignment explanation
Indices: 11415180--11415246 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
11415170 TTATGGTGAC
*
11415180 TTCGTCACAATATCTGGCAGCCTCGCTGCAAT
1 TTCGTCACAATATCTAGCAGCCTCGCTGCAAT
11415212 TTCGTCACAATATCTAGCAGCCTCGCTGCAAT
1 TTCGTCACAATATCTAGCAGCCTCGCTGCAAT
11415244 TTC
1 TTC
11415247 TGTGGTGTGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.22, C:0.31, G:0.16, T:0.30
Consensus pattern (32 bp):
TTCGTCACAATATCTAGCAGCCTCGCTGCAAT
Found at i:11420801 original size:40 final size:40
Alignment explanation
Indices: 11420742--11420887 Score: 143
Period size: 40 Copynumber: 3.7 Consensus size: 40
11420732 TCAAAAGCAT
* * * * *
11420742 GTATATGCATTTACGGGTACCGAAGTACAAAAAAGGGTAT
1 GTATATGCATTCAGGGGTACCAAAGTACAAAAAAGGGCAC
* * *** *
11420782 GTATGTGCATTCAGAGGTACCAAAGT-GTGAACAGCGGCAC
1 GTATATGCATTCAGGGGTACCAAAGTACAAAAAAG-GGCAC
* * *
11420822 GTATGTGCATTCAGGGGTACCAAAGTACACAAAGGGGCAC
1 GTATATGCATTCAGGGGTACCAAAGTACAAAAAAGGGCAC
11420862 GTATATGCATTCAGGGGTA-CAAAGTA
1 GTATATGCATTCAGGGGTACCAAAGTA
11420888 TAAACAGAGA
Statistics
Matches: 86, Mismatches: 18, Indels: 5
0.79 0.17 0.05
Matches are distributed among these distances:
39 11 0.13
40 72 0.84
41 3 0.03
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (40 bp):
GTATATGCATTCAGGGGTACCAAAGTACAAAAAAGGGCAC
Found at i:11420849 original size:80 final size:78
Alignment explanation
Indices: 11420742--11420952 Score: 206
Period size: 80 Copynumber: 2.7 Consensus size: 78
11420732 TCAAAAGCAT
* * * * *
11420742 GTATATGCATTTACGGGTACCGAAGTACAAAAAAGGGTATGTATGTGCATTCAGAGGTACCAAAG
1 GTATGTGCA-TTAGGGGTACCGAAGTACAAAAAAGGGCACGTATATGCATTCAGAGGTA-CAAAG
* * * *
11420807 TGTGAACAGCGGCAC
64 TATAAACAGAGACAC
* * * *
11420822 GTATGTGCATTCAGGGGTACCAAAGTACACAAAGGGGCACGTATATGCATTCAGGGGTACAAAGT
1 GTATGTGCATT-AGGGGTACCGAAGTACAAAAAAGGGCACGTATATGCATTCAGAGGTACAAAGT
11420887 ATAAACAGAGACAC
65 ATAAACAGAGACAC
* * * * * * * *
11420901 ATATGTACATTAGGTGTACCGAAGTATAAACAGGGGCACGTATGTGCTTTCA
1 GTATGTGCATTAGGGGTACCGAAGTACAAAAAAGGGCACGTATATGCATTCA
11420953 TACAATAATT
Statistics
Matches: 108, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
78 34 0.31
79 27 0.25
80 47 0.44
ACGTcount: A:0.34, C:0.17, G:0.27, T:0.23
Consensus pattern (78 bp):
GTATGTGCATTAGGGGTACCGAAGTACAAAAAAGGGCACGTATATGCATTCAGAGGTACAAAGTA
TAAACAGAGACAC
Found at i:11420945 original size:39 final size:40
Alignment explanation
Indices: 11420782--11420952 Score: 195
Period size: 40 Copynumber: 4.3 Consensus size: 40
11420772 AAAAGGGTAT
* * * *
11420782 GTATGTGCATTCAGAGGTACCAAAGTGTGAACAGCGGCAC
1 GTATGTGCATTCAGGGGTACCAAAGTATAAACAGGGGCAC
*
11420822 GTATGTGCATTCAGGGGTACCAAAGTACACAA-AGGGGCAC
1 GTATGTGCATTCAGGGGTACCAAAGTATA-AACAGGGGCAC
* * *
11420862 GTATATGCATTCAGGGGTA-CAAAGTATAAACAGAGACAC
1 GTATGTGCATTCAGGGGTACCAAAGTATAAACAGGGGCAC
* * * *
11420901 ATATGTACATT-AGGTGTACCGAAGTATAAACAGGGGCAC
1 GTATGTGCATTCAGGGGTACCAAAGTATAAACAGGGGCAC
*
11420940 GTATGTGCTTTCA
1 GTATGTGCATTCA
11420953 TACAATAATT
Statistics
Matches: 108, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
38 8 0.07
39 47 0.44
40 51 0.47
41 2 0.02
ACGTcount: A:0.33, C:0.18, G:0.27, T:0.22
Consensus pattern (40 bp):
GTATGTGCATTCAGGGGTACCAAAGTATAAACAGGGGCAC
Found at i:11425680 original size:16 final size:16
Alignment explanation
Indices: 11425659--11425694 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
11425649 TCCTTCGATA
11425659 ATTAAACTATCAAATC
1 ATTAAACTATCAAATC
11425675 ATTAAACTATCAAATC
1 ATTAAACTATCAAATC
11425691 ATTA
1 ATTA
11425695 CAATTCAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTAAACTATCAAATC
Found at i:11442798 original size:34 final size:34
Alignment explanation
Indices: 11442755--11442824 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
11442745 GTCGTTGCCT
*
11442755 AAGAACTTTCACTAAAGCTATGTTTTTATTTCTC
1 AAGAACTTTCACTAAAGCTATGTTTTTATTGCTC
11442789 AAGAACTTTCACTAAAGCTATGTTTTTATTGCTC
1 AAGAACTTTCACTAAAGCTATGTTTTTATTGCTC
11442823 AA
1 AA
11442825 TTCTTTGACC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.41
Consensus pattern (34 bp):
AAGAACTTTCACTAAAGCTATGTTTTTATTGCTC
Found at i:11444087 original size:51 final size:49
Alignment explanation
Indices: 11444009--11444204 Score: 221
Period size: 50 Copynumber: 3.9 Consensus size: 49
11443999 TCTATTGTGA
*
11444009 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA-TT
* * * **
11444059 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT
* * * ** *
11444109 AGGTCACGTGTGTAGTACTAAGTCCAGGCTACTACGTGTACTGGAGAATT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT
* * * *
11444159 GGTCGCATGTGTAGTACTAAGTGAAGGCTACTATGCATACCAGATA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
11444205 GCTTTGACTA
Statistics
Matches: 119, Mismatches: 26, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
49 36 0.30
50 42 0.35
51 41 0.34
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT
Found at i:11447666 original size:38 final size:38
Alignment explanation
Indices: 11447599--11447711 Score: 138
Period size: 38 Copynumber: 2.9 Consensus size: 38
11447589 ACTTGATGTG
*
11447599 TATCCGGGCTTAAAGACCCGCAGTG-TTCGTGCTGGTAAAA
1 TATCCGGG-TTAAA-TCCCGCAG-GCTTCGTGCTGGTAAAA
**
11447639 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
* * *
11447677 TATCCGGGATAAATCCCGCAGGCCTAGTGCTGGTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
11447712 TTATATTCGG
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.02
38 52 0.79
39 5 0.08
40 8 0.12
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
Found at i:11447712 original size:38 final size:38
Alignment explanation
Indices: 11447627--11447722 Score: 138
Period size: 38 Copynumber: 2.5 Consensus size: 38
11447617 CGCAGTGTTC
** * * *
11447627 GTGCTGGTAAAATATCCGGGTTAAATCCCGCAGGCTTC
1 GTGCTGGTATTATATCCGGGATAAATCCCGCAGGCCTA
11447665 GTGCTGGTATTATATCCGGGATAAATCCCGCAGGCCTA
1 GTGCTGGTATTATATCCGGGATAAATCCCGCAGGCCTA
*
11447703 GTGCTGGTATTATATTCGGG
1 GTGCTGGTATTATATCCGGG
11447723 CCTTCGTGCC
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 52 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (38 bp):
GTGCTGGTATTATATCCGGGATAAATCCCGCAGGCCTA
Found at i:11447763 original size:43 final size:43
Alignment explanation
Indices: 11447715--11447869 Score: 292
Period size: 43 Copynumber: 3.6 Consensus size: 43
11447705 GCTGGTATTA
11447715 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
11447758 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
11447801 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGTCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
11447844 TATTCGGGTCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
11447870 GTAATGCCAG
Statistics
Matches: 110, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 110 1.00
ACGTcount: A:0.10, C:0.25, G:0.34, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:11449494 original size:48 final size:47
Alignment explanation
Indices: 11449400--11449503 Score: 113
Period size: 48 Copynumber: 2.2 Consensus size: 47
11449390 TGGGCTAAGC
* * *
11449400 GTAAGACCTATCTAGGATAGGCATCGGCACAGCCCAGTGAGTGCTAGT
1 GTAAGACCTATCTAGGATAGGCATCAGCACAG-CCAGAGAGAGCTAGT
*
11449448 GTAAGACCTATC-GGGAATAGGCATCAGCACGAG-CAGAGCAGAGCTAGT
1 GTAAGACCTATCTAGG-ATAGGCATCAGCAC-AGCCAGAG-AGAGCTAGT
*
11449496 ATAAGACC
1 GTAAGACC
11449504 ATAGTTGGAC
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
47 6 0.12
48 40 0.83
49 2 0.04
ACGTcount: A:0.32, C:0.22, G:0.29, T:0.17
Consensus pattern (47 bp):
GTAAGACCTATCTAGGATAGGCATCAGCACAGCCAGAGAGAGCTAGT
Found at i:11452181 original size:39 final size:39
Alignment explanation
Indices: 11452154--11452277 Score: 194
Period size: 39 Copynumber: 3.2 Consensus size: 39
11452144 TGTCCAGCAC
*
11452154 ATAGCCTGCGGACCTAAAGTCCGGATATAATTCTCGCAT
1 ATAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCAT
* *
11452193 ATAGCTTGCAGACCTGAAGTCCGGATATAATTCTCGCAT
1 ATAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCAT
* * *
11452232 AGAGCCTGCGGACATGAAGTCCGGATATAATTCTCGCTT
1 ATAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCAT
11452271 ATAGCCT
1 ATAGCCT
11452278 NNNNNNNNNN
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 76 1.00
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (39 bp):
ATAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCAT
Found at i:11457208 original size:40 final size:40
Alignment explanation
Indices: 11457112--11457216 Score: 115
Period size: 40 Copynumber: 2.6 Consensus size: 40
11457102 TGAATGATGT
*
11457112 CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAA
* * * *
11457152 CCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTATAA
1 CCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACCATAA
*
11457192 CCGGGCTATGTCCCGAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGC-TTTG
11457217 AACGAGTAGC
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
39 1 0.02
40 45 0.83
41 8 0.15
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAA
Found at i:11461596 original size:74 final size:74
Alignment explanation
Indices: 11461475--11461622 Score: 296
Period size: 74 Copynumber: 2.0 Consensus size: 74
11461465 TTTAGTGCAA
11461475 CCCGAATCAGGCAAAGGGTTTGTCATTTATAGTGACGCATCCCTACTTGGGTTGGGTTGCGTATT
1 CCCGAATCAGGCAAAGGGTTTGTCATTTATAGTGACGCATCCCTACTTGGGTTGGGTTGCGTATT
11461540 GATGCAAGG
66 GATGCAAGG
11461549 CCCGAATCAGGCAAAGGGTTTGTCATTTATAGTGACGCATCCCTACTTGGGTTGGGTTGCGTATT
1 CCCGAATCAGGCAAAGGGTTTGTCATTTATAGTGACGCATCCCTACTTGGGTTGGGTTGCGTATT
11461614 GATGCAAGG
66 GATGCAAGG
11461623 AGGTCGAGTG
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (74 bp):
CCCGAATCAGGCAAAGGGTTTGTCATTTATAGTGACGCATCCCTACTTGGGTTGGGTTGCGTATT
GATGCAAGG
Found at i:11465361 original size:39 final size:40
Alignment explanation
Indices: 11465266--11465527 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
11465256 TTGAATGATG
*
11465266 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
11465304 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
11465345 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
11465384 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
11465423 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
11465462 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
11465501 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
11465528 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:11473008 original size:75 final size:75
Alignment explanation
Indices: 11472862--11473011 Score: 178
Period size: 75 Copynumber: 2.0 Consensus size: 75
11472852 TTCTGAAATG
* * *
11472862 GATCAATCGGTTTCCTTGGGGTAATTCCTTACCCTCTATTCTCCATCTCCTTTTTCTCCTCTTCT
1 GATCAATCGGCTTCCTTGGAGTAATTCCTTACCCTCTATTCTCCATCTCATTTTTCTCCTCTTCT
*
11472927 AGGGTGTATT
66 AAGGTGTATT
* * * * * *
11472937 GATCAATCGGCTTCCTTGGAGTAATTCCTTACTGC-CTATTCTTCGTGTCATTTTCTTTCTTC-T
1 GATCAATCGGCTTCCTTGGAGTAATTCCTTAC-CCTCTATTCTCCATCTCATTTT-TCTCCTCTT
11473000 CTAAGGTGTATT
64 CTAAGGTGTATT
11473012 TATAGGCTTT
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
75 57 0.90
76 6 0.10
ACGTcount: A:0.15, C:0.25, G:0.15, T:0.45
Consensus pattern (75 bp):
GATCAATCGGCTTCCTTGGAGTAATTCCTTACCCTCTATTCTCCATCTCATTTTTCTCCTCTTCT
AAGGTGTATT
Found at i:11478241 original size:12 final size:13
Alignment explanation
Indices: 11478224--11478261 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
11478214 ATCCTGGAAT
11478224 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
11478236 ATTAAGAACACATA
1 ATTAAGAACA-AGA
11478250 ATTAAGAACAAG
1 ATTAAGAACAAG
11478262 TCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:11502912 original size:43 final size:43
Alignment explanation
Indices: 11502864--11503034 Score: 170
Period size: 43 Copynumber: 4.0 Consensus size: 43
11502854 AGATCGTACA
* *
11502864 ATGCCAACATCCCAGACGTGGTCTTACATGTAACCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAACCAAATATCG
** * *
11502907 ATGCCATTGTCCCAGACAG-GGTCTTACATGAAATCAAAGAT-G
1 ATGCCAACGTCCCAGAC-GTGGTCTTACATGAAACCAAATATCG
** * * *
11502949 ATGCTTATGTCCTAGACATGGTCTTACATGTAAATCTC-AA-ATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATG-AAA-C-CAAATATCG
*
11502993 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAAATATC
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAACCAAATATC
11503035 AGAAAACCTA
Statistics
Matches: 102, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
41 1 0.01
42 27 0.26
43 44 0.43
44 29 0.28
45 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGAAACCAAATATCG
Found at i:11504724 original size:48 final size:48
Alignment explanation
Indices: 11504667--11504796 Score: 190
Period size: 48 Copynumber: 2.7 Consensus size: 48
11504657 GCGAGTTATT
* *
11504667 CCTTGATTTGGCTTCGGGACATGGTATAGGTATTTCAGAGATAAGTTA
1 CCTTGATTTGGCTTCGGGACATGGTATAGGTACTCCAGAGATAAGTTA
* *
11504715 CCTTGATTTGGCTTC-GAACCATGGTATAGGTACTCCAGGGATAAGTTA
1 CCTTGATTTGGCTTCGGGA-CATGGTATAGGTACTCCAGAGATAAGTTA
* *
11504763 CCTTGATTTGGCTTTGGGCCATGGTATAGGTACT
1 CCTTGATTTGGCTTCGGGACATGGTATAGGTACT
11504797 TATTGTGTGA
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
47 2 0.03
48 70 0.96
49 1 0.01
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (48 bp):
CCTTGATTTGGCTTCGGGACATGGTATAGGTACTCCAGAGATAAGTTA
Found at i:11507814 original size:17 final size:17
Alignment explanation
Indices: 11507792--11507827 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
11507782 GAATTTATTA
*
11507792 AACTAATTAACTAAACT
1 AACTAACTAACTAAACT
*
11507809 AACTAACTAATTAAACT
1 AACTAACTAACTAAACT
11507826 AA
1 AA
11507828 AGCAAAGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.56, C:0.17, G:0.00, T:0.28
Consensus pattern (17 bp):
AACTAACTAACTAAACT
Found at i:11508699 original size:21 final size:22
Alignment explanation
Indices: 11508668--11508725 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
11508658 CACTCTCGTG
*
11508668 TGCCACGGCCGTGTGACGT-ATT
1 TGCCA-GGCCGTGTGACGTCAAT
*
11508690 TGCCAGGCCGTGTG-GGTCAAT
1 TGCCAGGCCGTGTGACGTCAAT
*
11508711 GGCCAGGCCGTGTGA
1 TGCCAGGCCGTGTGA
11508726 ATCGTGAAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 2 0.06
21 24 0.77
22 5 0.16
ACGTcount: A:0.14, C:0.26, G:0.38, T:0.22
Consensus pattern (22 bp):
TGCCAGGCCGTGTGACGTCAAT
Found at i:11512156 original size:28 final size:27
Alignment explanation
Indices: 11512113--11512165 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
11512103 TAAAACTAGT
*
11512113 ATATAGAAAATCCTAAAACAATATTCAA
1 ATATAGAAAATACTAAAACAA-ATTCAA
*
11512141 ATATAGAAAATACTAAAGCAAATTC
1 ATATAGAAAATACTAAAACAAATTC
11512166 CTAACTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.57, C:0.13, G:0.06, T:0.25
Consensus pattern (27 bp):
ATATAGAAAATACTAAAACAAATTCAA
Found at i:11515353 original size:19 final size:19
Alignment explanation
Indices: 11515326--11515371 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
11515316 TTTGTTCCCA
*
11515326 AGTAGTGATAGACCCTCGT
1 AGTAATGATAGACCCTCGT
11515345 AGTAATGATAGACCCTCGT
1 AGTAATGATAGACCCTCGT
*
11515364 GGTAATGA
1 AGTAATGA
11515372 GTTCAACCAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (19 bp):
AGTAATGATAGACCCTCGT
Found at i:11531428 original size:93 final size:93
Alignment explanation
Indices: 11531315--11531486 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
11531305 GCCCATAAGT
* *
11531315 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
11531380 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
11531408 GAACTC-GAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTTGGACTCAACTCA
1 GAACTCAG-ACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
11531472 ACGAGTTCGGATGCC
65 ACGAGCTCGGATGCC
11531487 CAAATATCCT
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 1 0.01
93 72 0.99
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:11531482 original size:46 final size:46
Alignment explanation
Indices: 11531307--11531482 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
11531297 TGTAACCCGC
* * *
11531307 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
11531353 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** * *
11531399 ACATCTCTCGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
11531446 CCATAAGTGAACTTGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
11531483 TGCCCAAATA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 67 0.63
47 31 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:11539911 original size:3 final size:3
Alignment explanation
Indices: 11539892--11540024 Score: 81
Period size: 3 Copynumber: 43.7 Consensus size: 3
11539882 TAGTTTTAAC
* * * *
11539892 ATT ATT TTT ATTT ATT ATT ATT ACT ATT ATT ACT ACT ATT -TT CATT
1 ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT
* * * * * * *
11539938 ATT ATT ACT ATT ACT ATT -TT TTT ATT ACT ATT TTT ATT ACT ATT TTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
11539985 GTT ATT ATT ATT ATT ACT ATT GAATA ATT ACT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT --ATT ATT ATT ATT ATT AT
11540025 ATTTTCTTTC
Statistics
Matches: 98, Mismatches: 26, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
2 4 0.04
3 87 0.89
4 5 0.05
5 2 0.02
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:11539919 original size:12 final size:12
Alignment explanation
Indices: 11539904--11540024 Score: 109
Period size: 12 Copynumber: 9.8 Consensus size: 12
11539894 TATTTTTATT
11539904 TATTATTATTAC
1 TATTATTATTAC
*
11539916 TATTATTACTAC
1 TATTATTATTAC
*
11539928 TATT-TTCATTAT
1 TATTATT-ATTAC
*
11539940 TATTACTATTAC
1 TATTATTATTAC
*
11539952 TATTTTTTTATTAC
1 TA--TTATTATTAC
*
11539966 TATTTTTATTAC
1 TATTATTATTAC
* * *
11539978 TATTTTTGTTAT
1 TATTATTATTAC
11539990 TATTATTATTAC
1 TATTATTATTAC
*
11540002 TATTGAATAATTAC
1 TATT--ATTATTAC
11540016 TATTATTAT
1 TATTATTAT
11540025 ATTTTCTTTC
Statistics
Matches: 89, Mismatches: 14, Indels: 12
0.77 0.12 0.10
Matches are distributed among these distances:
11 2 0.02
12 65 0.73
13 1 0.01
14 21 0.24
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (12 bp):
TATTATTATTAC
Found at i:11539966 original size:50 final size:50
Alignment explanation
Indices: 11539900--11540023 Score: 149
Period size: 50 Copynumber: 2.4 Consensus size: 50
11539890 ACATTATTTT
11539900 TATTTATTATTATTACTATTATTACTACTATTTTCATTATTATTACTATTAC
1 TATTT-TT-TTATTACTATTATTACTACTATTTTCATTATTATTACTATTAC
* * ** *
11539952 TATTTTTTTATTACTATTTTTATTACTATTTTTGTTATTATTATTATTAC
1 TATTTTTTTATTACTATTATTACTACTATTTTCATTATTATTACTATTAC
*** *
11540002 TATTGAATAATTACTATTATTA
1 TATTTTTTTATTACTATTATTA
11540024 TATTTTCTTT
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
50 55 0.89
51 2 0.03
52 5 0.08
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (50 bp):
TATTTTTTTATTACTATTATTACTACTATTTTCATTATTATTACTATTAC
Found at i:11543144 original size:24 final size:24
Alignment explanation
Indices: 11543117--11543171 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
11543107 TAGAAACATT
*
11543117 AGAACAGATGC-AGAAGGAAATGCA
1 AGAACAGATGCAAGAA-CAAATGCA
* *
11543141 AGAACAAATGCAAGCACAAATGCA
1 AGAACAGATGCAAGAACAAATGCA
11543165 AGAACAG
1 AGAACAG
11543172 TTGGCAAAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.53, C:0.16, G:0.24, T:0.07
Consensus pattern (24 bp):
AGAACAGATGCAAGAACAAATGCA
Found at i:11543149 original size:12 final size:12
Alignment explanation
Indices: 11543134--11543170 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
11543124 ATGCAGAAGG
11543134 AAATGCAAGAAC
1 AAATGCAAGAAC
*
11543146 AAATGCAAGCAC
1 AAATGCAAGAAC
11543158 AAATGCAAGAAC
1 AAATGCAAGAAC
11543170 A
1 A
11543171 GTTGGCAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.57, C:0.19, G:0.16, T:0.08
Consensus pattern (12 bp):
AAATGCAAGAAC
Found at i:11549040 original size:45 final size:45
Alignment explanation
Indices: 11548974--11549061 Score: 115
Period size: 45 Copynumber: 2.0 Consensus size: 45
11548964 TTCTCCTTAT
* * *
11548974 TCATTTTGTATTTTGGAAAAATGC-GATATCTTGATTAATTTATCC
1 TCATTTTGTACTTTAGAAAAAT-CTGATATCGTGATTAATTTATCC
* *
11549019 TCATTTTGTACTTTAGCAAAATCTGCTATCGTGATTAATTTAT
1 TCATTTTGTACTTTAGAAAAATCTGATATCGTGATTAATTTAT
11549062 TTCGAGCTTG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
44 1 0.03
45 36 0.97
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (45 bp):
TCATTTTGTACTTTAGAAAAATCTGATATCGTGATTAATTTATCC
Found at i:11549877 original size:89 final size:89
Alignment explanation
Indices: 11549758--11550249 Score: 246
Period size: 89 Copynumber: 5.4 Consensus size: 89
11549748 ATGGCGAATA
* * * *
11549758 TTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAGCCACAAGTCTTATTTCCTTGAAATTGAAGC
1 TTATCTCCCTAAAGTTGCAGTGGAACAGATTGAAGCTACAAGTCTTATTTCCTTGAAGTTGAAGC
11549823 GGAGCAGACTGAAGATAGCAAATC
66 GGAGCAGACTGAAGATAGCAAATC
* * * * *
11549847 TTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAGTTACAGATCTTATCTCTCTGAAG
1 TTATCTCCCTAAAGTTGCAGTGGAACAGATTGAAGCTACAAG-T-C--TTATT-TC-CT-TGAAG
* ** * *
11549912 TTGCAGTAGAGCAGA-T---CATAGCAAACC
59 TTGAAGCGGAGCAGACTGAAGATAGCAAATC
* * ** * * * * *
11549939 TTATCTCCATAAAGTAGCAGTGGAGTAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGTAGC
1 TTATCTCCCTAAAGTTGCAGTGGAACAGATTGAAGCTACAAGTCTTATTTCCTTGAAGTTGAAGC
* **
11550004 GGAGTAGACTGAAGATAGTGAATC
66 GGAGCAGACTGAAGATAGCAAATC
* * * * * * *
11550028 TCATTTCCTTGAAGTTGCAGTGGAATAGATTGAAGCTATAAAT-TATAGATCTTATCTCTCTGAA
1 TTATCTCCCTAAAGTTGCAGTGGAACAGATTGAAGCTACAAGTCT-T--A--TT-TC-CT-TGAA
* ** * * *
11550092 GTTGCAGTAGAGCAGA-T---CATAGTAAACC
58 GTTGAAGCGGAGCAGACTGAAGATAGCAAATC
* * * * * * * * * * *
11550120 TTATCTCCCTGAAGTAGCAGTGGAGCAGGTTGAAGTTCCCAAGTTTTATCTCCCTAAAGTTGCAG
1 TTATCTCCCTAAAGTTGCAGTGGAACAGATTGAAGCT-ACAAGTCTTATTTCCTTGAAGTTGAAG
* * *
11550185 TGGAGAAGACTGAAGATAGCGAATC
65 CGGAGCAGACTGAAGATAGCAAATC
* * * * * *
11550210 TCATTTCCCTGAAGTTGCAGTGGAGCATATTAAAGCTACA
1 TTATCTCCCTAAAGTTGCAGTGGAACAGATTGAAGCTACA
11550250 TAAAGAAAAG
Statistics
Matches: 296, Mismatches: 82, Indels: 50
0.69 0.19 0.12
Matches are distributed among these distances:
85 16 0.05
86 19 0.06
87 4 0.01
88 5 0.02
89 80 0.27
90 39 0.13
91 4 0.01
92 79 0.27
93 8 0.03
94 5 0.02
95 5 0.02
96 32 0.11
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (89 bp):
TTATCTCCCTAAAGTTGCAGTGGAACAGATTGAAGCTACAAGTCTTATTTCCTTGAAGTTGAAGC
GGAGCAGACTGAAGATAGCAAATC
Found at i:11549881 original size:45 final size:45
Alignment explanation
Indices: 11549758--11550236 Score: 276
Period size: 45 Copynumber: 10.6 Consensus size: 45
11549748 ATGGCGAATA
* * ** *
11549758 TTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAGCCA-CAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATC
* * * * * *
11549802 TTATTTCCTTGAAATTGAAGCGGAGCAGACTGAAGATAGCAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATC
* * *
11549847 TTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAGTTACAGATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT-AG---CAAATC
* * * *
11549898 TTATCTCTCTGAAGTTGCAGTAGAGCAGA-T---CATAGCAAACC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATC
* * * * * * *
11549939 TTATCTCCATAAAGTAGCAGTGGAGTAGGTTGAAGTTA-CAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATC
* * * * **
11549983 TTATCTCCCTGAAGTTGTAGCGGAGTAGACTGAAGATAGTGAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATC
* * * ** **
11550028 TCATTTCCTTGAAGTTGCAGTGGAATAGATTGAAGCTATAAATTATAGATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT--AGCA-A-ATC
* * * * *
11550079 TTATCTCTCTGAAGTTGCAGTAGAGCAGA-T---CATAGTAAACC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATC
* * * ** * *
11550120 TTATCTCCCTGAAGTAGCAGTGGAGCAGGTTGAAGTTCCCAAGTT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATC
* * * *
11550165 TTATCTCCCTAAAGTTGCAGTGGAGAAGACTGAAGATAGCGAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATC
* *
11550210 TCATTTCCCTGAAGTTGCAGTGGAGCA
1 TTATCTCCCTGAAGTTGCAGTGGAGCA
11550237 TATTAAAGCT
Statistics
Matches: 321, Mismatches: 92, Indels: 43
0.70 0.20 0.09
Matches are distributed among these distances:
41 53 0.17
42 3 0.01
43 3 0.01
44 65 0.20
45 131 0.41
47 4 0.01
48 2 0.01
49 2 0.01
50 3 0.01
51 55 0.17
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (45 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATC
Found at i:11549960 original size:92 final size:90
Alignment explanation
Indices: 11549837--11550154 Score: 297
Period size: 92 Copynumber: 3.5 Consensus size: 90
11549827 CAGACTGAAG
* * *
11549837 ATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAGTTACAGATCTTAT
1 ATAGCAAACCTTATCTCCCTGAAGTAGCAGTGGAACAGATTGAAGCTATAA-TTA-AGATCTTAT
11549902 CTCTCTGAAGTTGCAGTAGAGCAGATC
64 CTCTCTGAAGTTGCAGTAGAGCAGATC
* * ** * *
11549929 ATAGCAAACCTTATCTCCATAAAGTAGCAGTGGAGTAGGTTGAAG-T-T-A-CAAG-TCTTATCT
1 ATAGCAAACCTTATCTCCCTGAAGTAGCAGTGGAACAGATTGAAGCTATAATTAAGATCTTATCT
* * **
11549989 CCCTGAAGTTGTAGCGGAGTAGA-CTGAAG
66 CTCTGAAG-T-T-GC--AGTAGAGCAGATC
** * * * * * *
11550018 ATAGTGAATCTCATTTCCTTGAAGTTGCAGTGGAATAGATTGAAGCTATAAATTATAGATCTTAT
1 ATAGCAAACCTTATCTCCCTGAAGTAGCAGTGGAACAGATTGAAGCTAT-AATTA-AGATCTTAT
11550083 CTCTCTGAAGTTGCAGTAGAGCAGATC
64 CTCTCTGAAGTTGCAGTAGAGCAGATC
* * *
11550110 ATAGTAAACCTTATCTCCCTGAAGTAGCAGTGGAGCAGGTTGAAG
1 ATAGCAAACCTTATCTCCCTGAAGTAGCAGTGGAACAGATTGAAG
11550155 TTCCCAAGTT
Statistics
Matches: 176, Mismatches: 37, Indels: 26
0.74 0.15 0.11
Matches are distributed among these distances:
85 15 0.09
86 3 0.02
87 2 0.01
88 2 0.01
89 39 0.22
90 8 0.05
91 8 0.05
92 76 0.43
93 3 0.02
94 2 0.01
95 3 0.02
96 15 0.09
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (90 bp):
ATAGCAAACCTTATCTCCCTGAAGTAGCAGTGGAACAGATTGAAGCTATAATTAAGATCTTATCT
CTCTGAAGTTGCAGTAGAGCAGATC
Found at i:11550062 original size:181 final size:181
Alignment explanation
Indices: 11549758--11550247 Score: 701
Period size: 181 Copynumber: 2.7 Consensus size: 181
11549748 ATGGCGAATA
* * * ** * * *
11549758 TTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAGCCACAAGTCTTATTTCCTTGAAATTGAAGC
1 TTATCTCCCTAAAGTAGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGAAGC
* * *
11549823 GGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAA
66 GGAGAAGACTGAAGATAGCGAATCTCATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAA
*
11549888 GTTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACC
131 ATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACC
* * *
11549939 TTATCTCCATAAAGTAGCAGTGGAGTAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGTAGC
1 TTATCTCCCTAAAGTAGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGAAGC
* * * *
11550004 GGAGTAGACTGAAGATAGTGAATCTCATTTCCTTGAAGTTGCAGTGGAATAGATTGAAGCTATAA
66 GGAGAAGACTGAAGATAGCGAATCTCATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAA
* *
11550069 ATTATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGTAAACC
131 ATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACC
* * * * *
11550120 TTATCTCCCTGAAGTAGCAGTGGAGCAGGTTGAAGTTCCCAAGTTTTATCTCCCTAAAGTTGCAG
1 TTATCTCCCTAAAGTAGCAGTGGAGCAGGTTGAAGTT-ACAAGTCTTATCTCCCTGAAGTTGAAG
* * * *
11550185 TGGAGAAGACTGAAGATAGCGAATCTCATTTCCCTGAAGTTGCAGTGGAGCATATTAAAGCTA
65 CGGAGAAGACTGAAGATAGCGAATCTCATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTA
11550248 CATAAAGAAA
Statistics
Matches: 273, Mismatches: 35, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
181 195 0.71
182 78 0.29
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (181 bp):
TTATCTCCCTAAAGTAGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGAAGC
GGAGAAGACTGAAGATAGCGAATCTCATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAA
ATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACC
Found at i:11551643 original size:3 final size:3
Alignment explanation
Indices: 11551635--11551772 Score: 102
Period size: 3 Copynumber: 46.7 Consensus size: 3
11551625 TAATTTTAAC
* * *
11551635 ATT ATT ATT ATT -GT ATT ATT ATT -GT ATT ATT ATT ATT ACT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * *
11551681 TTT ATT ACT ATT ATT ACT ACT ATT -TT CGTT ATT ATT ACT ATT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT
* * * * * *
11551726 ATT ATT TTT ATT ACT ATT TTT ATT ACT ATT TTT GTT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
11551773 AGTGATATTT
Statistics
Matches: 103, Mismatches: 28, Indels: 8
0.74 0.20 0.06
Matches are distributed among these distances:
2 4 0.04
3 97 0.94
4 2 0.02
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:11551653 original size:11 final size:11
Alignment explanation
Indices: 11551637--11551668 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
11551627 ATTTTAACAT
11551637 TATTATTATTG
1 TATTATTATTG
11551648 TATTATTATTG
1 TATTATTATTG
11551659 TATTATTATT
1 TATTATTATT
11551669 ATTACTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (11 bp):
TATTATTATTG
Found at i:11551701 original size:27 final size:26
Alignment explanation
Indices: 11551662--11551772 Score: 120
Period size: 27 Copynumber: 4.2 Consensus size: 26
11551652 ATTATTGTAT
11551662 TATTATTATTACTATTATTTTTATTAC
1 TATTATTATTACTATT-TTTTTATTAC
* *
11551689 TATTATTACTACTATTTTCGTTA-T--
1 TATTATTATTACTATTTT-TTTATTAC
*
11551713 TATTACTATTACTATTATTTTTATTAC
1 TATTATTATTACTATT-TTTTTATTAC
* *
11551740 TATTTTTATTACTATTTTTGTTATTAT
1 TATTATTATTACTATTTTT-TTATTAC
11551767 TATTAT
1 TATTAT
11551773 AGTGATATTT
Statistics
Matches: 69, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
24 17 0.25
25 3 0.04
26 6 0.09
27 43 0.62
ACGTcount: A:0.27, C:0.08, G:0.02, T:0.63
Consensus pattern (26 bp):
TATTATTATTACTATTTTTTTATTAC
Found at i:11551723 original size:51 final size:51
Alignment explanation
Indices: 11551659--11551768 Score: 184
Period size: 51 Copynumber: 2.2 Consensus size: 51
11551649 ATTATTATTG
*
11551659 TATTATTATTATTACTATTATTTTTATTACTATTATTACTACTATTTTCGT
1 TATTATTACTATTACTATTATTTTTATTACTATTATTACTACTATTTTCGT
* * *
11551710 TATTATTACTATTACTATTATTTTTATTACTATTTTTATTACTATTTTTGT
1 TATTATTACTATTACTATTATTTTTATTACTATTATTACTACTATTTTCGT
11551761 TATTATTA
1 TATTATTA
11551769 TTATAGTGAT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.27, C:0.08, G:0.02, T:0.63
Consensus pattern (51 bp):
TATTATTACTATTACTATTATTTTTATTACTATTATTACTACTATTTTCGT
Found at i:11554093 original size:18 final size:18
Alignment explanation
Indices: 11554015--11554094 Score: 62
Period size: 18 Copynumber: 4.6 Consensus size: 18
11554005 AACTCCATAT
11554015 ATATATATATGTTTTGTAA
1 ATATAT-TATGTTTTGTAA
* *
11554034 ATCTATTATG---TGTAT
1 ATATATTATGTTTTGTAA
* *
11554049 ATATATATAT-TTATGTAT
1 ATATAT-TATGTTTTGTAA
11554067 ATATA-TATGTTTTGTAA
1 ATATATTATGTTTTGTAA
*
11554084 ATCTATTATGT
1 ATATATTATGT
11554095 GTATAGCTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
15 9 0.18
16 6 0.12
17 10 0.20
18 19 0.39
19 5 0.10
ACGTcount: A:0.34, C:0.03, G:0.10, T:0.54
Consensus pattern (18 bp):
ATATATTATGTTTTGTAA
Found at i:11555954 original size:42 final size:42
Alignment explanation
Indices: 11555864--11555957 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 42
11555854 TAGTTTTTCC
* * * *
11555864 GAGCTTCAGATTAACCTTTATAGGTTTTTGTTTAGCTCCTAT
1 GAGCTTCTGTTTAACCCTTATAGGTTTTCGTTTAGCTCCTAT
* *
11555906 GAGCTTCTGTTTAACCCTTATGGGTTTTCGTTTAG-TACTTAT
1 GAGCTTCTGTTTAACCCTTATAGGTTTTCGTTTAGCT-CCTAT
*
11555948 GTGCTTCTGT
1 GAGCTTCTGT
11555958 GTAGGTATAC
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 1 0.02
42 43 0.98
ACGTcount: A:0.17, C:0.17, G:0.19, T:0.47
Consensus pattern (42 bp):
GAGCTTCTGTTTAACCCTTATAGGTTTTCGTTTAGCTCCTAT
Found at i:11560181 original size:76 final size:77
Alignment explanation
Indices: 11560089--11560248 Score: 223
Period size: 76 Copynumber: 2.1 Consensus size: 77
11560079 GTTACATTTG
** ** * * *
11560089 TGTGCAAGTGTGAGACCATAGCTAAGCTATGGCAAAGTGGTAAAGTTTGTGATCATGGCAAGGCC
1 TGTGCAAGTGCAAGACCATAGCTAAGCTATGGCAAAGTAATAAAGTGTGTGAACATGGCAAAGCC
*
11560154 ATGGT-AAAATA
66 ATGATAAAAATA
* *
11560165 TGTGCAAGTGCAAGACCATAGCTAAGCTATGGCAATGTAATAAAGTGTGTGAACATGGTAAAGCC
1 TGTGCAAGTGCAAGACCATAGCTAAGCTATGGCAAAGTAATAAAGTGTGTGAACATGGCAAAGCC
11560230 ATGATAAAAATA
66 ATGATAAAAATA
11560242 TGTGCAA
1 TGTGCAA
11560249 AACCAAAGTG
Statistics
Matches: 73, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
76 60 0.82
77 13 0.18
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.24
Consensus pattern (77 bp):
TGTGCAAGTGCAAGACCATAGCTAAGCTATGGCAAAGTAATAAAGTGTGTGAACATGGCAAAGCC
ATGATAAAAATA
Found at i:11567244 original size:37 final size:37
Alignment explanation
Indices: 11567192--11567320 Score: 91
Period size: 37 Copynumber: 3.4 Consensus size: 37
11567182 ATTTGTGTGC
11567192 AAGTGTGAGACCATGGCTAAGCTATGGCAAAGTGATA
1 AAGTGTGAGACCATGGCTAAGCTATGGCAAAGTGATA
* * * * * *
11567229 AAGTGTGTGATCATGGC-AAGGCGATGGTAAAAT-ATGTGC
1 AAGTGTGAGACCATGGCTAA-GCTATGGCAAAGTGA--T-A
** ** *
11567268 AAGTGCAAGACCATATCTAAGCTATGGCAATGTGATA
1 AAGTGTGAGACCATGGCTAAGCTATGGCAAAGTGATA
* *
11567305 AAGTGTGTGATCATGG
1 AAGTGTGAGACCATGG
11567321 TAAAGCCATG
Statistics
Matches: 63, Mismatches: 23, Indels: 12
0.64 0.23 0.12
Matches are distributed among these distances:
36 3 0.05
37 35 0.56
38 2 0.03
39 20 0.32
40 3 0.05
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.25
Consensus pattern (37 bp):
AAGTGTGAGACCATGGCTAAGCTATGGCAAAGTGATA
Found at i:11567336 original size:76 final size:77
Alignment explanation
Indices: 11567187--11567346 Score: 223
Period size: 76 Copynumber: 2.1 Consensus size: 77
11567177 GTTACATTTG
** * * *
11567187 TGTGCAAGTGTGAGACCATGGCTAAGCTATGGCAAAGTGATAAAGTGTGTGATCATGGCAAGGCG
1 TGTGCAAGTGCAAGACCATAGCTAAGCTATGGCAAAGTGATAAAGTGTGTGATCATGGCAAAGCC
*
11567252 ATGGT-AAAATA
66 ATGATAAAAATA
* * *
11567263 TGTGCAAGTGCAAGACCATATCTAAGCTATGGCAATGTGATAAAGTGTGTGATCATGGTAAAGCC
1 TGTGCAAGTGCAAGACCATAGCTAAGCTATGGCAAAGTGATAAAGTGTGTGATCATGGCAAAGCC
11567328 ATGATAAAAATA
66 ATGATAAAAATA
*
11567340 TATGCAA
1 TGTGCAA
11567347 AACCAAAGTG
Statistics
Matches: 73, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
76 61 0.84
77 12 0.16
ACGTcount: A:0.36, C:0.12, G:0.27, T:0.25
Consensus pattern (77 bp):
TGTGCAAGTGCAAGACCATAGCTAAGCTATGGCAAAGTGATAAAGTGTGTGATCATGGCAAAGCC
ATGATAAAAATA
Found at i:11570527 original size:66 final size:65
Alignment explanation
Indices: 11570407--11570530 Score: 153
Period size: 66 Copynumber: 1.9 Consensus size: 65
11570397 ATCCCCTTTG
* * *
11570407 GTCTCAAGGCGCCCTTTGCAGGTTTTCACTTTGCCTCTCATTTTTTTTCTTTTTTATTTTTATTG
1 GTCTCAAAGCGCCCTTTGCAGGTTTTCACTTTGCCTCT-ATTTTTTTCCATTTTTATTTTTATTG
11570472 A
65 A
* *
11570473 GTCTCAAAGCGTCCTTTGCGGGTTTTCACTTTGGCC-CT-TTATCTTTTCCATTTTTATT
1 GTCTCAAAGCGCCCTTTGCAGGTTTTCACTTT-GCCTCTATT-T-TTTTCCATTTTTATT
11570531 AGGTCACAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
64 2 0.04
65 1 0.02
66 44 0.88
67 3 0.06
ACGTcount: A:0.12, C:0.23, G:0.15, T:0.51
Consensus pattern (65 bp):
GTCTCAAAGCGCCCTTTGCAGGTTTTCACTTTGCCTCTATTTTTTTCCATTTTTATTTTTATTGA
Found at i:11577729 original size:36 final size:36
Alignment explanation
Indices: 11577689--11577757 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
11577679 TCATCATCTC
* *
11577689 TCTTTGGGGCTCCATCATTTTTTCCTTCATCTCCTG
1 TCTTTGGGACTCCATCATTTGTTCCTTCATCTCCTG
*
11577725 TCTTTGGGACTCCATCATTTGTTCTTTCATCTC
1 TCTTTGGGACTCCATCATTTGTTCCTTCATCTC
11577758 TTGCTGAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.10, C:0.29, G:0.13, T:0.48
Consensus pattern (36 bp):
TCTTTGGGACTCCATCATTTGTTCCTTCATCTCCTG
Found at i:11578497 original size:19 final size:19
Alignment explanation
Indices: 11578473--11578510 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
11578463 ATTCAACTTG
11578473 TTCATTTTTACTCTCTGAC
1 TTCATTTTTACTCTCTGAC
11578492 TTCATTTTTACTCTCTGAC
1 TTCATTTTTACTCTCTGAC
11578511 AAACTTTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.05, T:0.53
Consensus pattern (19 bp):
TTCATTTTTACTCTCTGAC
Found at i:11582896 original size:21 final size:21
Alignment explanation
Indices: 11582870--11582912 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
11582860 TTAATTTTCT
*
11582870 ACTCCTACTAACAATCTAACA
1 ACTCCTACTAACAAGCTAACA
*
11582891 ACTCCTACTAATAAGCTAACA
1 ACTCCTACTAACAAGCTAACA
11582912 A
1 A
11582913 ATCTCCCTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.30, G:0.02, T:0.23
Consensus pattern (21 bp):
ACTCCTACTAACAAGCTAACA
Found at i:11586271 original size:19 final size:19
Alignment explanation
Indices: 11586241--11586311 Score: 72
Period size: 19 Copynumber: 3.6 Consensus size: 19
11586231 AAAAAAATAT
* *
11586241 AAAATTTTATAAAGTCGTAA
1 AAAATTATA-AAAATCGTAA
11586261 GAAAATTATAAAAAAT-GTAA
1 -AAAATTAT-AAAAATCGTAA
* *
11586281 AAAATTATAAAATTCATAA
1 AAAATTATAAAAATCGTAA
11586300 AAAATTATAAAA
1 AAAATTATAAAA
11586312 TTTATTGTAC
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
18 5 0.11
19 23 0.52
20 4 0.09
21 11 0.25
22 1 0.02
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.30
Consensus pattern (19 bp):
AAAATTATAAAAATCGTAA
Found at i:11586289 original size:38 final size:38
Alignment explanation
Indices: 11586232--11586311 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 38
11586222 GAAATATAAA
** *
11586232 AAAAAATATAAAATTTTAT-AAAGTCGTAAGAAAATTAT
1 AAAAAATATAAAAAATTATAAAAGTCATAA-AAAATTAT
* *
11586270 AAAAAATGTAAAAAATTATAAAATTCATAAAAAATTAT
1 AAAAAATATAAAAAATTATAAAAGTCATAAAAAATTAT
11586308 AAAA
1 AAAA
11586312 TTTATTGTAC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
38 28 0.78
39 8 0.22
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.29
Consensus pattern (38 bp):
AAAAAATATAAAAAATTATAAAAGTCATAAAAAATTAT
Found at i:11586291 original size:10 final size:10
Alignment explanation
Indices: 11586262--11586311 Score: 61
Period size: 10 Copynumber: 5.2 Consensus size: 10
11586252 AAGTCGTAAG
11586262 AAAATTATAA
1 AAAATTATAA
*
11586272 AAAA-TGTAA
1 AAAATTATAA
11586281 AAAATTAT--
1 AAAATTATAA
11586289 AAAATTCATAA
1 AAAATT-ATAA
11586300 AAAATTATAA
1 AAAATTATAA
11586310 AA
1 AA
11586312 TTTATTGTAC
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
8 6 0.18
9 10 0.29
10 12 0.35
11 6 0.18
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (10 bp):
AAAATTATAA
Found at i:11586292 original size:9 final size:9
Alignment explanation
Indices: 11586262--11586316 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
11586252 AAGTCGTAAG
11586262 AAAATTATAA
1 AAAATTAT-A
11586272 AAAATGTA-A
1 AAAAT-TATA
11586281 AAAATTAT-
1 AAAATTATA
11586289 AAAATTCATAA
1 AAAATT-AT-A
11586300 AAAATTATA
1 AAAATTATA
*
11586309 AAATTTAT
1 AAAATTAT
11586317 TGTACCAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
8 8 0.21
9 16 0.41
10 7 0.18
11 8 0.21
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (9 bp):
AAAATTATA
Found at i:11586316 original size:28 final size:27
Alignment explanation
Indices: 11586262--11586313 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
11586252 AAGTCGTAAG
11586262 AAAATTATAAAAAATGTAAAAAATTAT
1 AAAATTATAAAAAATGTAAAAAATTAT
*
11586289 AAAATTCATAAAAAAT-TATAAAATT
1 AAAATT-ATAAAAAATGTAAAAAATT
11586314 TATTGTACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 14 0.61
28 9 0.39
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (27 bp):
AAAATTATAAAAAATGTAAAAAATTAT
Found at i:11586509 original size:45 final size:45
Alignment explanation
Indices: 11586440--11586532 Score: 168
Period size: 45 Copynumber: 2.1 Consensus size: 45
11586430 AATTGGGGTC
* *
11586440 TTTAACTTTAACAGTCAACGGTTAAAGTTAATGGTTAAAGGGCAT
1 TTTAACTTTAACAGTCAACAGTTAAAGCTAATGGTTAAAGGGCAT
11586485 TTTAACTTTAACAGTCAACAGTTAAAGCTAATGGTTAAAGGGCAT
1 TTTAACTTTAACAGTCAACAGTTAAAGCTAATGGTTAAAGGGCAT
11586530 TTT
1 TTT
11586533 TTATGCATTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.34
Consensus pattern (45 bp):
TTTAACTTTAACAGTCAACAGTTAAAGCTAATGGTTAAAGGGCAT
Found at i:11586589 original size:29 final size:29
Alignment explanation
Indices: 11586528--11586589 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
11586518 GTTAAAGGGC
* *
11586528 ATTTTTTATGCATTTTATAATTTTTTTTT
1 ATTTTTTATGCATTTTATAATTTTTTCTA
*
11586557 ATTTTTTATG-ATATTTATACTTTTTTCTA
1 ATTTTTTATGCAT-TTTATAATTTTTTCTA
11586586 ATTT
1 ATTT
11586590 ATAATAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 2 0.07
29 27 0.93
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (29 bp):
ATTTTTTATGCATTTTATAATTTTTTCTA
Found at i:11591120 original size:20 final size:20
Alignment explanation
Indices: 11591095--11591146 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
11591085 ATTAAATCAT
11591095 AAGTATCGATACCCTACTCA
1 AAGTATCGATACCCTACTCA
* * *
11591115 AAGTATCAATACCTTACTCT
1 AAGTATCGATACCCTACTCA
11591135 AAGTATCGATAC
1 AAGTATCGATAC
11591147 TATGCCCCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.29
Consensus pattern (20 bp):
AAGTATCGATACCCTACTCA
Found at i:11593562 original size:20 final size:20
Alignment explanation
Indices: 11593537--11593580 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
11593527 AAAGTAAAAT
11593537 TCTTTAATCTATTCACTTTC
1 TCTTTAATCTATTCACTTTC
11593557 TCTTTAATCTATTCACTTTC
1 TCTTTAATCTATTCACTTTC
11593577 TCTT
1 TCTT
11593581 CAACTTTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.18, C:0.25, G:0.00, T:0.57
Consensus pattern (20 bp):
TCTTTAATCTATTCACTTTC
Found at i:11595821 original size:42 final size:42
Alignment explanation
Indices: 11595708--11595856 Score: 156
Period size: 43 Copynumber: 3.5 Consensus size: 42
11595698 ATGTGATATA
* * *
11595708 GTGTAAGACCATGTCTGGGACATTGGCATCAATTTAAGATTTAC
1 GTGTAAGACCATGTCTGGGACATTGGCATC-GTATATGATTT-C
* *
11595752 GTGTACGACCATGTCTGGGGCATTGGCATCGTATATGATTTC
1 GTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATTTC
* * * *
11595794 GTGTAAGATCC-TGTCTAGGACAGTGGCATCGATATTTGATATC
1 GTGTAAGA-CCATGTCTGGGACATTGGCATCG-TATATGATTTC
* *
11595837 ATGTAAGACCATATCTGGGA
1 GTGTAAGACCATGTCTGGGA
11595857 TATAGCATTG
Statistics
Matches: 88, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
42 27 0.31
43 33 0.38
44 28 0.32
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATTTC
Found at i:11599470 original size:13 final size:13
Alignment explanation
Indices: 11599454--11599486 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
11599444 TTTAATTAAA
*
11599454 TTAGTTAATTAGT
1 TTAGATAATTAGT
11599467 TTAGATAATTAGT
1 TTAGATAATTAGT
11599480 TTA-ATAA
1 TTAGATAA
11599487 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:11602818 original size:22 final size:23
Alignment explanation
Indices: 11602787--11602829 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
11602777 GGGTGAACTT
11602787 GATAGGAAAAACACGGGTGTGGG
1 GATAGGAAAAACACGGGTGTGGG
* *
11602810 GATA-GAAAACCACTGGTGTG
1 GATAGGAAAAACACGGGTGTG
11602830 TTAAGGACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.35, C:0.12, G:0.37, T:0.16
Consensus pattern (23 bp):
GATAGGAAAAACACGGGTGTGGG
Found at i:11604877 original size:5 final size:5
Alignment explanation
Indices: 11604835--11604933 Score: 53
Period size: 6 Copynumber: 18.8 Consensus size: 5
11604825 ATCCTCCTTT
* *
11604835 TTTTA -TTTA TTCTTA TTTT- TATTA TATTA TATTTA TTTTA TTTTTA
1 TTTTA TTTTA TT-TTA TTTTA TTTTA TTTTA T-TTTA TTTTA -TTTTA
* *
11604881 TTTTTC TTTTGA TTTTTA TTTTTA TTTTCA TTTCAA TTTTA --TTA TTTTA
1 -TTTTA TTTT-A -TTTTA -TTTTA TTTT-A TTT-TA TTTTA TTTTA TTTTA
11604930 TTTT
1 TTTT
11604934 GAAAGACATA
Statistics
Matches: 77, Mismatches: 6, Indels: 22
0.73 0.06 0.21
Matches are distributed among these distances:
3 3 0.04
4 7 0.09
5 29 0.38
6 34 0.44
7 4 0.05
ACGTcount: A:0.20, C:0.04, G:0.01, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:11604897 original size:7 final size:6
Alignment explanation
Indices: 11604840--11604913 Score: 78
Period size: 6 Copynumber: 12.2 Consensus size: 6
11604830 CCTTTTTTTA
* * *
11604840 TTTATT CTTATT TTTATT ATATTATA TTTA-T TTTATT TTTATT TTTCTT
1 TTTATT TTTATT TTTATT -T-TTATT TTTATT TTTATT TTTATT TTTATT
* *
11604889 TTGATT TTTATT TTTATT TTCATT T
1 TTTATT TTTATT TTTATT TTTATT T
11604914 CAATTTTATT
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
5 4 0.07
6 46 0.82
7 2 0.04
8 4 0.07
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.76
Consensus pattern (6 bp):
TTTATT
Found at i:11604897 original size:18 final size:17
Alignment explanation
Indices: 11604834--11604933 Score: 82
Period size: 18 Copynumber: 5.9 Consensus size: 17
11604824 AATCCTCCTT
*
11604834 TTTTTA-TTTATTCTTA
1 TTTTTATTTTATTTTTA
*
11604850 TTTTTA--TTA-TATTA
1 TTTTTATTTTATTTTTA
*
11604864 TATTTATTTTATTTTTA
1 TTTTTATTTTATTTTTA
*
11604881 TTTTTCTTTTGATTTTTA
1 TTTTTATTTT-ATTTTTA
**
11604899 TTTTTATTTTCATTTCAA
1 TTTTTATTTT-ATTTTTA
11604917 TTTTATTATTTTATTTT
1 -TTT-TTATTTTATTTT
11604934 GAAAGACATA
Statistics
Matches: 68, Mismatches: 10, Indels: 9
0.78 0.11 0.10
Matches are distributed among these distances:
14 9 0.13
15 3 0.04
16 9 0.13
17 12 0.18
18 21 0.31
19 7 0.10
20 7 0.10
ACGTcount: A:0.20, C:0.04, G:0.01, T:0.75
Consensus pattern (17 bp):
TTTTTATTTTATTTTTA
Found at i:11604919 original size:24 final size:22
Alignment explanation
Indices: 11604869--11604933 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 22
11604859 TATTATATTT
*
11604869 ATTTTATTTTTATTTTTCTTTTGA
1 ATTTTATTTTTA-TTTTC-TTTCA
*
11604893 TTTTTATTTTTATTTTCATTTCA
1 ATTTTATTTTTATTTTC-TTTCA
11604916 ATTTTATTATTTTATTTT
1 ATTTTA-T-TTTTATTTT
11604934 GAAAGACATA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 14 0.40
24 12 0.34
25 9 0.26
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (22 bp):
ATTTTATTTTTATTTTCTTTCA
Found at i:11611506 original size:26 final size:26
Alignment explanation
Indices: 11611470--11611524 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
11611460 CATGAACTAC
11611470 CCCGATTCATGGAACTTGTAGACAAG
1 CCCGATTCATGGAACTTGTAGACAAG
11611496 CCCGATTCATGGAACTTGTAGACAAG
1 CCCGATTCATGGAACTTGTAGACAAG
11611522 CCC
1 CCC
11611525 ATCTACTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (26 bp):
CCCGATTCATGGAACTTGTAGACAAG
Found at i:11621533 original size:22 final size:22
Alignment explanation
Indices: 11621499--11621553 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
11621489 TATTTTAAAT
*
11621499 AATTAA-TATTTTGAGAATATA
1 AATTAATTATTTTGAGAATAGA
11621520 AATTAATTATTTTGAGAATAGA
1 AATTAATTATTTTGAGAATAGA
11621542 AATTAATTATTT
1 AATTAATTATTT
11621554 AGTTGAATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 6 0.19
22 26 0.81
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (22 bp):
AATTAATTATTTTGAGAATAGA
Found at i:11639829 original size:13 final size:13
Alignment explanation
Indices: 11639811--11639836 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11639801 ACGTTTGCTT
11639811 ATCGTAGAATGCC
1 ATCGTAGAATGCC
11639824 ATCGTAGAATGCC
1 ATCGTAGAATGCC
11639837 TTTTGGATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (13 bp):
ATCGTAGAATGCC
Found at i:11643496 original size:14 final size:14
Alignment explanation
Indices: 11643477--11643504 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
11643467 TCTATATAAC
11643477 TATGATAAAATCAA
1 TATGATAAAATCAA
11643491 TATGATAAAATCAA
1 TATGATAAAATCAA
11643505 GAACTTTTTA
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:0.57, C:0.07, G:0.07, T:0.29
Consensus pattern (14 bp):
TATGATAAAATCAA
Found at i:11648183 original size:41 final size:40
Alignment explanation
Indices: 11648107--11648362 Score: 185
Period size: 41 Copynumber: 6.1 Consensus size: 40
11648097 GCAAAAATTA
* **
11648107 TAAAACACAGAGCAATAGCGG-TGTTTTGACAAAAACGCCGC
1 TAAAA-ACAGAGCAATAGCGGCTCTTTTG-GTAAAACGCCGC
* * * *
11648148 TAAAAACTGAGCAATAGCGGCATTTTTTGTTAAAACGCGCAAAAAAC
1 TAAAAACAGAGCAATAGCGGC-TCTTTTGGTAAAACGC-C-----GC
* **
11648195 ATAAAACACAGAGCAATAGCGG-TGTTTTGACAAAAACGCCGC
1 -TAAAA-ACAGAGCAATAGCGGCTCTTTTG-GTAAAACGCCGC
* * *
11648237 TAAAAACTGAGCAATAGCGGCATTTTTTGTTAAAACG-CGC
1 TAAAAACAGAGCAATAGCGGC-TCTTTTGGTAAAACGCCGC
* * * *
11648277 AAAAAACAGAGCATTAGCGGCGCTTTTGGTGAAACGCCGC
1 TAAAAACAGAGCAATAGCGGCTCTTTTGGTAAAACGCCGC
* * *
11648317 TAAAGACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
1 TAAA-AACAGAGCAATAGCGGCTCTTTTGGTAAAACGCCGC
11648358 TAAAA
1 TAAAA
11648363 GTCATGTAAC
Statistics
Matches: 176, Mismatches: 24, Indels: 31
0.76 0.10 0.13
Matches are distributed among these distances:
39 11 0.06
40 56 0.32
41 61 0.35
42 14 0.08
47 8 0.05
48 12 0.07
49 14 0.08
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (40 bp):
TAAAAACAGAGCAATAGCGGCTCTTTTGGTAAAACGCCGC
Found at i:11648203 original size:89 final size:89
Alignment explanation
Indices: 11648096--11648284 Score: 360
Period size: 89 Copynumber: 2.1 Consensus size: 89
11648086 CAAAAAATGC
**
11648096 CGCAAAAATTATAAAACACAGAGCAATAGCGGTGTTTTGACAAAAACGCCGCTAAAAACTGAGCA
1 CGCAAAAAACATAAAACACAGAGCAATAGCGGTGTTTTGACAAAAACGCCGCTAAAAACTGAGCA
11648161 ATAGCGGCATTTTTTGTTAAAACG
66 ATAGCGGCATTTTTTGTTAAAACG
11648185 CGCAAAAAACATAAAACACAGAGCAATAGCGGTGTTTTGACAAAAACGCCGCTAAAAACTGAGCA
1 CGCAAAAAACATAAAACACAGAGCAATAGCGGTGTTTTGACAAAAACGCCGCTAAAAACTGAGCA
11648250 ATAGCGGCATTTTTTGTTAAAACG
66 ATAGCGGCATTTTTTGTTAAAACG
11648274 CGCAAAAAACA
1 CGCAAAAAACA
11648285 GAGCATTAGC
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
89 98 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.20
Consensus pattern (89 bp):
CGCAAAAAACATAAAACACAGAGCAATAGCGGTGTTTTGACAAAAACGCCGCTAAAAACTGAGCA
ATAGCGGCATTTTTTGTTAAAACG
Found at i:11648428 original size:48 final size:47
Alignment explanation
Indices: 11648369--11648483 Score: 122
Period size: 47 Copynumber: 2.4 Consensus size: 47
11648359 AAAAGTCATG
* * *
11648369 TAACTCCTAAAATCTTAAACCCCAAAAAAAACATAAAACACTAATCTA
1 TAACCCCTAAAATCCTAAACCCCAAAAAAAACAT-AAACACTAAACTA
* ** * * ** *
11648417 TAACCCTTAAAATAGTAAACCCCTAACAAGCCCTAAACACTAAACTA
1 TAACCCCTAAAATCCTAAACCCCAAAAAAAACATAAACACTAAACTA
11648464 TAACCCCTAAAATCCTAAAC
1 TAACCCCTAAAATCCTAAAC
11648484 GCCGCAATAG
Statistics
Matches: 54, Mismatches: 13, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
47 29 0.54
48 25 0.46
ACGTcount: A:0.50, C:0.29, G:0.02, T:0.20
Consensus pattern (47 bp):
TAACCCCTAAAATCCTAAACCCCAAAAAAAACATAAACACTAAACTA
Found at i:11649515 original size:9 final size:8
Alignment explanation
Indices: 11649499--11649608 Score: 52
Period size: 8 Copynumber: 13.9 Consensus size: 8
11649489 TTTATATGTT
11649499 AATTTAAA
1 AATTTAAA
11649507 AATTATAAA
1 AATT-TAAA
11649516 AATATTCAAAAA
1 AAT-TT---AAA
*
11649528 AAATT-AA
1 AATTTAAA
11649535 AATTTAAA
1 AATTTAAA
11649543 AA--TAAA
1 AATTTAAA
**
11649549 AAAATAAA
1 AATTTAAA
*
11649557 AA-ATAAA
1 AATTTAAA
* *
11649564 AAATAAAA
1 AATTTAAA
11649572 AATTT-AA
1 AATTTAAA
*
11649579 AATTTAGA
1 AATTTAAA
*
11649587 AA-TAAAA
1 AATTTAAA
*
11649594 AACTTAAA
1 AATTTAAA
11649602 AATTTAA
1 AATTTAA
11649609 TATTTAATAT
Statistics
Matches: 80, Mismatches: 11, Indels: 22
0.71 0.10 0.19
Matches are distributed among these distances:
6 6 0.08
7 25 0.31
8 33 0.41
9 8 0.10
10 1 0.01
11 2 0.03
12 5 0.06
ACGTcount: A:0.70, C:0.02, G:0.01, T:0.27
Consensus pattern (8 bp):
AATTTAAA
Found at i:11649541 original size:7 final size:7
Alignment explanation
Indices: 11649526--11649605 Score: 61
Period size: 7 Copynumber: 11.0 Consensus size: 7
11649516 AATATTCAAA
11649526 AAAAATT
1 AAAAATT
*
11649533 AAAATTT
1 AAAAATT
*
11649540 AAAAATAA
1 AAAAAT-T
*
11649548 AAAAATA
1 AAAAATT
*
11649555 AAAAATA
1 AAAAATT
*
11649562 AAAAATA
1 AAAAATT
11649569 AAAAATTT
1 AAAAA-TT
*
11649577 AAAATTT
1 AAAAATT
* *
11649584 AGAAATA
1 AAAAATT
11649591 AAAAACTT
1 AAAAA-TT
11649599 AAAAATT
1 AAAAATT
11649606 TAATATTTAA
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
7 43 0.72
8 17 0.28
ACGTcount: A:0.72, C:0.01, G:0.01, T:0.25
Consensus pattern (7 bp):
AAAAATT
Found at i:11649549 original size:22 final size:22
Alignment explanation
Indices: 11649524--11649608 Score: 107
Period size: 22 Copynumber: 3.8 Consensus size: 22
11649514 AAAATATTCA
11649524 AAAAAAATTAAAATTTAAAAAT
1 AAAAAAATTAAAATTTAAAAAT
* * *
11649546 AAAAAAATAAAAAATAAAAAAT
1 AAAAAAATTAAAATTTAAAAAT
* *
11649568 AAAAAATTTAAAATTTAGAAAT
1 AAAAAAATTAAAATTTAAAAAT
*
11649590 AAAAAACTTAAAAATTTAA
1 AAAAAAATT-AAAATTTAA
11649609 TATTTAATAT
Statistics
Matches: 52, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
22 44 0.85
23 8 0.15
ACGTcount: A:0.73, C:0.01, G:0.01, T:0.25
Consensus pattern (22 bp):
AAAAAAATTAAAATTTAAAAAT
Found at i:11649550 original size:6 final size:7
Alignment explanation
Indices: 11649525--11649574 Score: 64
Period size: 7 Copynumber: 7.0 Consensus size: 7
11649515 AAATATTCAA
11649525 AAAAAAT
1 AAAAAAT
* *
11649532 TAAAATT
1 AAAAAAT
*
11649539 TAAAAAT
1 AAAAAAT
11649546 AAAAAAAT
1 -AAAAAAT
11649554 AAAAAAT
1 AAAAAAT
11649561 AAAAAAT
1 AAAAAAT
11649568 AAAAAAT
1 AAAAAAT
11649575 TTAAAATTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
7 32 0.84
8 6 0.16
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (7 bp):
AAAAAAT
Found at i:11649605 original size:30 final size:29
Alignment explanation
Indices: 11649557--11649614 Score: 89
Period size: 30 Copynumber: 2.0 Consensus size: 29
11649547 AAAAAATAAA
11649557 AAATAAAAAATAAAAAATTTAAAATTTAG
1 AAATAAAAAATAAAAAATTTAAAATTTAG
* *
11649586 AAATAAAAAACTTAAAAATTTAATATTTA
1 AAATAAAAAA-TAAAAAATTTAAAATTTA
11649615 ATATTTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 10 0.38
30 16 0.62
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (29 bp):
AAATAAAAAATAAAAAATTTAAAATTTAG
Found at i:11649615 original size:15 final size:15
Alignment explanation
Indices: 11649525--11649615 Score: 58
Period size: 15 Copynumber: 6.1 Consensus size: 15
11649515 AAATATTCAA
*
11649525 AAAAAATTAAAATTT
1 AAAAATTTAAAATTT
* **
11649540 AAAAA-TAAAAAAAT
1 AAAAATTTAAAATTT
* * * *
11649554 AAAAAATAAAAAATA
1 AAAAATTTAAAATTT
11649569 AAAAATTTAAAATTT
1 AAAAATTTAAAATTT
* ** *
11649584 AGAAATAAAAAACTT
1 AAAAATTTAAAATTT
*
11649599 AAAAATTTAATATTT
1 AAAAATTTAAAATTT
11649614 AA
1 AA
11649616 TATTTTAATT
Statistics
Matches: 57, Mismatches: 18, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
14 11 0.19
15 46 0.81
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.27
Consensus pattern (15 bp):
AAAAATTTAAAATTT
Found at i:11649701 original size:17 final size:18
Alignment explanation
Indices: 11649667--11649708 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
11649657 ATTTAAAAAT
*
11649667 AAATAAAAAAAATGTTAA
1 AAATAAAAAAAATATTAA
11649685 AAATAAAAAAAA-ATTAA
1 AAATAAAAAAAATATTAA
*
11649702 AATTAAA
1 AAATAAA
11649709 CAATAGTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (18 bp):
AAATAAAAAAAATATTAA
Found at i:11652777 original size:4 final size:4
Alignment explanation
Indices: 11652768--11652792 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
11652758 GTTGGCTGTT
11652768 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
11652793 GAATATACAG
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:11653244 original size:21 final size:21
Alignment explanation
Indices: 11653199--11653244 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
11653189 CATTTCATTG
*
11653199 TGTTTGGAAGAAACAAAGAAG
1 TGTTTGGAAGAAACAAAGAAA
* * *
11653220 TGTTTGGAATAAATAAATAAA
1 TGTTTGGAAGAAACAAAGAAA
11653241 TGTT
1 TGTT
11653245 GTCAACATGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.46, C:0.02, G:0.22, T:0.30
Consensus pattern (21 bp):
TGTTTGGAAGAAACAAAGAAA
Found at i:11654909 original size:30 final size:30
Alignment explanation
Indices: 11654875--11654942 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
11654865 ATTCTTCTCA
*
11654875 ATATTTTGATAATGAATTTTA-AAT-TTTTTT
1 ATATTTT--TAATGAATTTTATAATATTTTAT
* *
11654905 ATATTTTTCATGATTTTTATAATATTTTAT
1 ATATTTTTAATGAATTTTATAATATTTTAT
11654935 ATATTTTT
1 ATATTTTT
11654943 TTAAATTTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 10 0.30
29 3 0.09
30 20 0.61
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.63
Consensus pattern (30 bp):
ATATTTTTAATGAATTTTATAATATTTTAT
Found at i:11654920 original size:20 final size:19
Alignment explanation
Indices: 11654897--11654950 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
11654887 TGAATTTTAA
11654897 ATTTTTTTATATTTT-TCAT
1 ATTTTTTTATATTTTAT-AT
*
11654916 GATTTTTATAATATTTTATAT
1 -ATTTTT-TTATATTTTATAT
*
11654937 ATTTTTTTAAATTT
1 ATTTTTTTATATTT
11654951 CATTATCTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 6 0.21
20 12 0.41
21 10 0.34
22 1 0.03
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (19 bp):
ATTTTTTTATATTTTATAT
Found at i:11654922 original size:28 final size:30
Alignment explanation
Indices: 11654886--11654942 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
11654876 TATTTTGATA
*
11654886 ATGAATTTTA-AAT-TTTTTTATATTTTTC
1 ATGAATTTTATAATATTTTATATATTTTTC
*
11654914 ATGATTTTTATAATATTTTATATATTTTT
1 ATGAATTTTATAATATTTTATATATTTTT
11654943 TTAAATTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 9 0.36
29 3 0.12
30 13 0.52
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.65
Consensus pattern (30 bp):
ATGAATTTTATAATATTTTATATATTTTTC
Found at i:11656118 original size:14 final size:15
Alignment explanation
Indices: 11656094--11656123 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
11656084 GGATATCAAA
11656094 ACATGAATTAAGAAC
1 ACATGAATTAAGAAC
11656109 ACAT-AATTAAGAAC
1 ACATGAATTAAGAAC
11656123 A
1 A
11656124 TGTCAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.57, C:0.13, G:0.10, T:0.20
Consensus pattern (15 bp):
ACATGAATTAAGAAC
Found at i:11657731 original size:21 final size:21
Alignment explanation
Indices: 11657693--11657732 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
11657683 ATTACTCCAA
*
11657693 AGAAGCCGATTGATCCATCTT
1 AGAAGCCGATTCATCCATCTT
11657714 AGAAGCCTGATTCA-CCATC
1 AGAAGCC-GATTCATCCATC
11657733 AAGACTGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (21 bp):
AGAAGCCGATTCATCCATCTT
Found at i:11668007 original size:46 final size:46
Alignment explanation
Indices: 11667954--11668123 Score: 161
Period size: 46 Copynumber: 3.7 Consensus size: 46
11667944 GGTATCCGAA
**
11667954 CTCGTTGAGTTGAGTTTGAGTTCACTTATGGATACGAATGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATGCCTGAG
* * * * *
11668000 CTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATA-TAACTAGGCATACGAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAA-T--GCCT--GAG
*
11668047 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATGCCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATGCCTGAG
* *
11668093 CTCATTGAGTTGAGGT-CGAGTTCGCTTATGG
1 CTCGTTGAGTTGA-GTCCGAGTTCACTTATGG
11668124 GCGAGTTACA
Statistics
Matches: 99, Mismatches: 15, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 49 0.49
47 27 0.27
48 4 0.04
50 5 0.05
51 2 0.02
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (46 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATGCCTGAG
Found at i:11672257 original size:39 final size:39
Alignment explanation
Indices: 11672213--11672291 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
11672203 TTAAGTAGTA
11672213 TTACGTGGTCAGATCATAATACAAAAAGATAACTTATAT
1 TTACGTGGTCAGATCATAATACAAAAAGATAACTTATAT
* * *
11672252 TTACGTGGTCGGATTATAATACATAAAGATAACTTATAT
1 TTACGTGGTCAGATCATAATACAAAAAGATAACTTATAT
11672291 T
1 T
11672292 AGTAGACGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (39 bp):
TTACGTGGTCAGATCATAATACAAAAAGATAACTTATAT
Found at i:11675326 original size:39 final size:39
Alignment explanation
Indices: 11675283--11675405 Score: 210
Period size: 39 Copynumber: 3.2 Consensus size: 39
11675273 CACAAAGCCC
* *
11675283 GAATAATCACCGGCACAAAGCCTGCTAGGCACTTAGCCT
1 GAATAATCACCGACACAAAGCCTGCTAGGCACTTAACCT
*
11675322 GAATAATCACCGACACAAAGCTTGCTAGGCACTTAACCT
1 GAATAATCACCGACACAAAGCCTGCTAGGCACTTAACCT
*
11675361 GAATAATCACCGACACAAAGCCTGCTAGGTACTTAACCT
1 GAATAATCACCGACACAAAGCCTGCTAGGCACTTAACCT
11675400 GAATAA
1 GAATAA
11675406 GCCTGCTAGG
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 79 1.00
ACGTcount: A:0.36, C:0.28, G:0.17, T:0.20
Consensus pattern (39 bp):
GAATAATCACCGACACAAAGCCTGCTAGGCACTTAACCT
Found at i:11675414 original size:26 final size:26
Alignment explanation
Indices: 11675378--11675431 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
11675368 CACCGACACA
11675378 AAGCCTGCTAGGTACTTAACCTGAAT
1 AAGCCTGCTAGGTACTTAACCTGAAT
*
11675404 AAGCCTGCTAGGTACTTAGCCTGAAT
1 AAGCCTGCTAGGTACTTAACCTGAAT
11675430 AA
1 AA
11675432 TCACCGTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.26
Consensus pattern (26 bp):
AAGCCTGCTAGGTACTTAACCTGAAT
Found at i:11679269 original size:11 final size:11
Alignment explanation
Indices: 11679253--11679297 Score: 54
Period size: 11 Copynumber: 3.8 Consensus size: 11
11679243 TATCCCATAC
11679253 TATAATATTAT
1 TATAATATTAT
11679264 TATAATATTCATAT
1 TATAATA-T--TAT
*
11679278 TACAATATTAT
1 TATAATATTAT
11679289 TATAATATT
1 TATAATATT
11679298 TAATTTTACG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
11 18 0.62
12 1 0.03
13 1 0.03
14 9 0.31
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (11 bp):
TATAATATTAT
Found at i:11679276 original size:25 final size:25
Alignment explanation
Indices: 11679248--11679297 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
11679238 ATTTTTATCC
*
11679248 CATACTATAATATTATTATAATATT
1 CATACTACAATATTATTATAATATT
*
11679273 CATATTACAATATTATTATAATATT
1 CATACTACAATATTATTATAATATT
11679298 TAATTTTACG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (25 bp):
CATACTACAATATTATTATAATATT
Found at i:11680617 original size:3 final size:3
Alignment explanation
Indices: 11680609--11680638 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
11680599 ATGCTATGAT
11680609 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
11680639 ACATGCATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:11681777 original size:24 final size:24
Alignment explanation
Indices: 11681740--11681831 Score: 87
Period size: 24 Copynumber: 3.8 Consensus size: 24
11681730 CAGTAGAAAA
*
11681740 CCTGGAGGCATGCCTGGTGGGTTT
1 CCTGGAGGAATGCCTGGTGGGTTT
* * *
11681764 CCAGGTGGAATGCCCGG-GGGTTTT
1 CCTGGAGGAATGCCTGGTGGG-TTT
* * *
11681788 CCTGGAGGTATGCCTGGAGGTTTT
1 CCTGGAGGAATGCCTGGTGGGTTT
* *
11681812 CCTGGAGGCATGCCAGGTGG
1 CCTGGAGGAATGCCTGGTGG
11681832 CATGCCTGGA
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
23 3 0.06
24 49 0.91
25 2 0.04
ACGTcount: A:0.12, C:0.21, G:0.41, T:0.26
Consensus pattern (24 bp):
CCTGGAGGAATGCCTGGTGGGTTT
Done.