Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold446
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: 3567220
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 22
Found at i:772623 original size:20 final size:20
Alignment explanation
Indices: 772576--772630 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
772566 GCCAATAACC
*
772576 TGTATCGATACATTCATTTCA
1 TGTATCGATACATT-ATGTCA
*
772597 AGTATCGATACATT-TGGTCA
1 TGTATCGATACATTAT-GTCA
772617 TGTATCGATACATT
1 TGTATCGATACATT
772631 GTATCGATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 1 0.03
20 16 0.53
21 13 0.43
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (20 bp):
TGTATCGATACATTATGTCA
Found at i:776575 original size:15 final size:15
Alignment explanation
Indices: 776555--776584 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
776545 GACTGTATTT
776555 GGACTATTTAGTTTG
1 GGACTATTTAGTTTG
*
776570 GGACTATTTATTTTG
1 GGACTATTTAGTTTG
776585 TAACAAATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.07, G:0.23, T:0.50
Consensus pattern (15 bp):
GGACTATTTAGTTTG
Found at i:777379 original size:33 final size:33
Alignment explanation
Indices: 777332--777407 Score: 107
Period size: 33 Copynumber: 2.3 Consensus size: 33
777322 TTATGTGCAT
* * *
777332 TAGGCTTAACCTTATCTCATGTGCTACCTTAAC
1 TAGGCTTAAACTTATCTCATGTGCCAACTTAAC
*
777365 TGGGCTTAAACTTATCTCATGTGCCAACTTAAC
1 TAGGCTTAAACTTATCTCATGTGCCAACTTAAC
*
777398 TAAGCTTAAA
1 TAGGCTTAAA
777408 ATAATTATTA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (33 bp):
TAGGCTTAAACTTATCTCATGTGCCAACTTAAC
Found at i:779673 original size:13 final size:13
Alignment explanation
Indices: 779655--779694 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
779645 TACAATGAAC
*
779655 ATGTATTGATACA
1 ATGTATCGATACA
779668 ATGTATCGATACA
1 ATGTATCGATACA
*
779681 ATGTATCGGTACA
1 ATGTATCGATACA
779694 A
1 A
779695 AGCATAATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:785062 original size:31 final size:28
Alignment explanation
Indices: 785007--785064 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
784997 TTCACAGTCG
*
785007 GGGATACTCCAACCCCGTTATTTCCAAT
1 GGGATACTCCAACCCCCTTATTTCCAAT
785035 GGGATACTCCAACCCCATTCTTATTTCCAA
1 GGGATACTCCAACCCC---CTTATTTCCAA
785065 AACACTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 16 0.62
31 10 0.38
ACGTcount: A:0.26, C:0.33, G:0.12, T:0.29
Consensus pattern (28 bp):
GGGATACTCCAACCCCCTTATTTCCAAT
Found at i:785394 original size:237 final size:237
Alignment explanation
Indices: 784947--785524 Score: 689
Period size: 237 Copynumber: 2.4 Consensus size: 237
784937 ATTCATGTTT
* * * * * * *
784947 TTATTTCCGAGGGGAT--TCCAACCCCGGTTTTATTTCCAAAATACCAATTTTTCACAGTCGGGG
1 TTATTTTCGAGGGGATACTCCAACCCTGATTTTATTTCCAAAACACTAATTTTTCACAATAGGGG
* ** * *
785010 ATACTCCAACCCCGTTATTTCCAATGGGATACTCCAACCCCATTCTTATTTCCAAAACACTAATT
66 ATACTCCAACCCCATTATTTCTGAGGGGATACTCCAACCCCAGTCTTATTTCCAAAACACTAATT
* * ** * *
785075 TTTCATAATCGGGGATACTCCAACCATGTTATTTCCGAAGGGATACTCCGACCTCGGTTTTATTT
131 TTTCACAAACGAAGATACTCCAACCATGTTATTTCCGAAGGGATACTCCAACCTCAGTTTTATTT
* *
785140 CCAAAACACCAATTTTTCACAATCGGGGATAGTCTAACCCCG
196 CCAAAACACCAATTTTTCACAATCGAGGATACTCTAACCCCG
* * *
785182 TTATTTTCGAGGGGATACTCCAACCTTGATTTTATTTCCAAAACACTAATTTTTCATAATAGGAG
1 TTATTTTCGAGGGGATACTCCAACCCTGATTTTATTTCCAAAACACTAATTTTTCACAATAGGGG
***
785247 ATACTCCAACCCCATTATTTCTGAGGGGATACTCCAACCTTGGTCTTATTTCCAAAACA-TCAAT
66 ATACTCCAACCCCATTATTTCTGAGGGGATACTCCAACCCCAGTCTTATTTCCAAAACACT-AAT
* ** *
785311 TTTTCGCAAACGAAGATACTCCAACC-TCGTTATTTTTGAAGGGATACTTCAACCTCAGTTTTAT
130 TTTTCACAAACGAAGATACTCCAACCAT-GTTATTTCCGAAGGGATACTCCAACCTCAGTTTTAT
* * * * * *
785375 TTCTAATATATCGATTTTTCACAATCGAGGATACTCTAACCCTG
194 TTCCAAAACACCAATTTTTCACAATCGAGGATACTCTAACCCCG
* * * * * *
785419 TTATTTTCGAGGGCATACTCCAACCCTGATTTTATTTCTAAAACA-TCGATTTTCCACCATTGGG
1 TTATTTTCGAGGGGATACTCCAACCCTGATTTTATTTCCAAAACACT-AATTTTTCACAATAGGG
* * *
785483 GATACTCTAACCCCATTATTTCTGAGGGGGTACTCCGACCCC
65 GATACTCCAACCCCATTATTTCTGAGGGGATACTCCAACCCC
785525 GTTTTTATCT
Statistics
Matches: 288, Mismatches: 50, Indels: 8
0.83 0.14 0.02
Matches are distributed among these distances:
235 15 0.05
236 3 0.01
237 270 0.94
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (237 bp):
TTATTTTCGAGGGGATACTCCAACCCTGATTTTATTTCCAAAACACTAATTTTTCACAATAGGGG
ATACTCCAACCCCATTATTTCTGAGGGGATACTCCAACCCCAGTCTTATTTCCAAAACACTAATT
TTTCACAAACGAAGATACTCCAACCATGTTATTTCCGAAGGGATACTCCAACCTCAGTTTTATTT
CCAAAACACCAATTTTTCACAATCGAGGATACTCTAACCCCG
Found at i:785531 original size:79 final size:79
Alignment explanation
Indices: 784947--785532 Score: 549
Period size: 79 Copynumber: 7.4 Consensus size: 79
784937 ATTCATGTTT
* * * * *
784947 TTATTTCCGAGGGGAT--TCCAACCCCGGTTTTATTTCCAAAATACCAATTTTTCACAGTCGGGG
1 TTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTTCACAATCGGGG
785010 ATACTCCAACCCCG
66 ATACTCCAACCCCG
** * *
785024 TTATTTCCAATGGGATACTCCAACCCC-ATTCTTATTTCCAAAACA-CTAATTTTTCATAATCGG
1 TTATTTCTGAGGGGATACTCCAACCCCGATT-TTATTTCCAAAACATC-AATTTTTCACAATCGG
**
785087 GGATACTCCAACCATG
64 GGATACTCCAACCCCG
* * * * * *
785103 TTATTTCCGAAGGGATACTCCGACCTCGGTTTTATTTCCAAAACACCAATTTTTCACAATCGGGG
1 TTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTTCACAATCGGGG
* *
785168 ATAGTCTAACCCCG
66 ATACTCCAACCCCG
** * *
785182 TTATTT-TCGAGGGGATACTCCAACCTTGATTTTATTTCCAAAACA-CTAATTTTTCATAATAGG
1 TTATTTCT-GAGGGGATACTCCAACCCCGATTTTATTTCCAAAACATC-AATTTTTCACAATCGG
* *
785245 AGATACTCCAACCCCA
64 GGATACTCCAACCCCG
** * * * * **
785261 TTATTTCTGAGGGGATACTCCAACCTTGGTCTTATTTCCAAAACATCAATTTTTCGCAAACGAAG
1 TTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTTCACAATCGGGG
*
785326 ATACTCCAACCTCG
66 ATACTCCAACCCCG
* * * * * * * * *
785340 TTATTTTTGAAGGGATACTTCAACCTC-AGTTTTATTTCTAATATATCGATTTTTCACAATCGAG
1 TTATTTCTGAGGGGATACTCCAACCCCGA-TTTTATTTCCAAAACATCAATTTTTCACAATCGGG
* *
785404 GATACTCTAACCCTG
65 GATACTCCAACCCCG
* * * * * * *
785419 TTATTT-TCGAGGGCATACTCCAACCCTGATTTTATTTCTAAAACATCGATTTTCCACCATTGGG
1 TTATTTCT-GAGGGGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTTCACAATCGGG
* *
785483 GATACTCTAACCCCA
65 GATACTCCAACCCCG
* * *
785498 TTATTTCTGAGGGGGTACTCCGACCCCGTTTTTAT
1 TTATTTCTGAGGGGATACTCCAACCCCGATTTTAT
785533 CTCTAAAATA
Statistics
Matches: 423, Mismatches: 72, Indels: 26
0.81 0.14 0.05
Matches are distributed among these distances:
77 14 0.03
78 5 0.01
79 397 0.94
80 7 0.02
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (79 bp):
TTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTTCACAATCGGGG
ATACTCCAACCCCG
Found at i:791002 original size:3 final size:3
Alignment explanation
Indices: 790994--791027 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
790984 TCCGAGTCGA
* *
790994 CAT CAT CAT CAT CAT CAT CAC CAT CAT CTT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
791028 GTCTTTGATG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.29, C:0.38, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:792729 original size:19 final size:19
Alignment explanation
Indices: 792682--792737 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
792672 CTACCAGTTT
792682 CATGTATCGATACAATTGTGAA
1 CATGTATCGATACAA---TGAA
792704 C--GTATCGATACAATGAA
1 CATGTATCGATACAATGAA
792721 CATGTATCGATACAATG
1 CATGTATCGATACAATG
792738 TATCGATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
17 5 0.16
19 14 0.44
20 12 0.38
22 1 0.03
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:793867 original size:31 final size:31
Alignment explanation
Indices: 793822--793890 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
793812 ATTATACTTA
* * *
793822 ATTTAAGTTTAAATTATTTCAAATTCGAATT
1 ATTTAAATTCAAATTATTTCAAATTCAAATT
* *
793853 ATTTAAATTCAAATTATTTTAAATTTAAATT
1 ATTTAAATTCAAATTATTTCAAATTCAAATT
793884 ATTTAAA
1 ATTTAAA
793891 ATTTTGGATA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.49
Consensus pattern (31 bp):
ATTTAAATTCAAATTATTTCAAATTCAAATT
Found at i:793894 original size:16 final size:15
Alignment explanation
Indices: 793822--793890 Score: 84
Period size: 16 Copynumber: 4.5 Consensus size: 15
793812 ATTATACTTA
*
793822 ATTTAAGTTTAAATT
1 ATTTAAATTTAAATT
**
793837 ATTTCAAATTCGAATT
1 ATTT-AAATTTAAATT
*
793853 ATTTAAATTCAAATT
1 ATTTAAATTTAAATT
793868 ATTTTAAATTTAAATT
1 A-TTTAAATTTAAATT
793884 ATTTAAA
1 ATTTAAA
793891 ATTTTGGATA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
15 21 0.45
16 26 0.55
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.49
Consensus pattern (15 bp):
ATTTAAATTTAAATT
Found at i:794428 original size:19 final size:19
Alignment explanation
Indices: 794386--794428 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
794376 AAATTAAATA
794386 TAAATATGTAATATGATCTT
1 TAAATATGTAATA-GATCTT
*
794406 TAAATATGTGAATA-ATTTT
1 TAAATATGT-AATAGATCTT
794425 TAAA
1 TAAA
794429 AAAAATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 8 0.38
20 9 0.43
21 4 0.19
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.44
Consensus pattern (19 bp):
TAAATATGTAATAGATCTT
Found at i:795037 original size:21 final size:21
Alignment explanation
Indices: 794996--795038 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
794986 TGTAGACAAA
*
794996 TTTTATTAAATATATATTTAT
1 TTTTATTAAATATATAATTAT
795017 TTTTATTAAATA-ATAAATTAT
1 TTTTATTAAATATAT-AATTAT
795038 T
1 T
795039 AAAAAAGCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TTTTATTAAATATATAATTAT
Found at i:795313 original size:23 final size:22
Alignment explanation
Indices: 795254--795315 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 22
795244 TCTCATTTTT
* *
795254 AACACAACATGAAAAGTAACACT
1 AACACAA-ATGAAAAATAACACC
**
795277 AACACGAAGGGAAAAATAACACC
1 AACAC-AAATGAAAAATAACACC
795300 AACACAATATGAAAAA
1 AACACAA-ATGAAAAA
795316 ATAATGTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
22 2 0.06
23 27 0.87
24 2 0.06
ACGTcount: A:0.60, C:0.19, G:0.11, T:0.10
Consensus pattern (22 bp):
AACACAAATGAAAAATAACACC
Found at i:795608 original size:20 final size:20
Alignment explanation
Indices: 795583--795648 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
795573 CTACCACTGT
795583 TTGTATCAATACATGGTACA
1 TTGTATCAATACATGGTACA
*
795603 TTGTATCGATAC-----A-A
1 TTGTATCAATACATGGTACA
795617 -TGTATCAATACATGGTACA
1 TTGTATCAATACATGGTACA
*
795636 TTGTATCGATACA
1 TTGTATCAATACA
795649 ATGTATCAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 14
0.68 0.06 0.26
Matches are distributed among these distances:
13 10 0.28
14 1 0.03
15 1 0.03
18 1 0.03
19 1 0.03
20 22 0.61
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (20 bp):
TTGTATCAATACATGGTACA
Found at i:795626 original size:33 final size:33
Alignment explanation
Indices: 795584--795681 Score: 171
Period size: 33 Copynumber: 3.0 Consensus size: 33
795574 TACCACTGTT
795584 TGTATCAATACATGGTACATTGTATCGATACAA
1 TGTATCAATACATGGTACATTGTATCGATACAA
795617 TGTATCAATACATGGTACATTGTATCGATACAA
1 TGTATCAATACATGGTACATTGTATCGATACAA
*
795650 TGTATCAATACATGATGA-ATTGTATCGATACA
1 TGTATCAATACATGGT-ACATTGTATCGATACA
795682 TTGCTTAAAA
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
33 62 0.98
34 1 0.02
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (33 bp):
TGTATCAATACATGGTACATTGTATCGATACAA
Found at i:797783 original size:21 final size:21
Alignment explanation
Indices: 797741--797793 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
797731 GAATTAGAGG
797741 AGAAAATGAATGAGTTAGAAA
1 AGAAAATGAATGAGTTAGAAA
797762 AGAAAA-GAAATGAGTT-GCAAA
1 AGAAAATG-AATGAGTTAG-AAA
797783 ATGAAAATGAA
1 A-GAAAATGAA
797794 GGGCTAGCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
20 2 0.07
21 18 0.64
22 7 0.25
23 1 0.04
ACGTcount: A:0.58, C:0.02, G:0.23, T:0.17
Consensus pattern (21 bp):
AGAAAATGAATGAGTTAGAAA
Found at i:806080 original size:16 final size:16
Alignment explanation
Indices: 806061--806129 Score: 68
Period size: 16 Copynumber: 4.4 Consensus size: 16
806051 CTATATTTAA
806061 AACAATTTTTGTTCAG
1 AACAATTTTTGTTCAG
* *
806077 AACAACTTGTGTTCAG
1 AACAATTTTTGTTCAG
* * **
806093 ACCAA-TCTACTTCAG
1 AACAATTTTTGTTCAG
*
806108 AACAATTTTTTTTCAG
1 AACAATTTTTGTTCAG
806124 AACAAT
1 AACAAT
806130 CTGCGTTCAA
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
15 10 0.24
16 31 0.76
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.36
Consensus pattern (16 bp):
AACAATTTTTGTTCAG
Found at i:806110 original size:31 final size:32
Alignment explanation
Indices: 806071--806157 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 32
806061 AACAATTTTT
* *
806071 GTTCAGAACAACTTGTGTTCAGACCAATCTAC
1 GTTCAGAACAACTTCTGTTCAGAACAATCTAC
* * * *
806103 -TTCAGAACAATTTTTTTTCAGAACAATCTGC
1 GTTCAGAACAACTTCTGTTCAGAACAATCTAC
* *
806134 GTTCAAAACAACCTCTGTTCAGAA
1 GTTCAGAACAACTTCTGTTCAGAA
806158 TAATTTTTAT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
31 26 0.59
32 18 0.41
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.31
Consensus pattern (32 bp):
GTTCAGAACAACTTCTGTTCAGAACAATCTAC
Found at i:806138 original size:16 final size:16
Alignment explanation
Indices: 806071--806157 Score: 54
Period size: 16 Copynumber: 5.5 Consensus size: 16
806061 AACAATTTTT
*
806071 GTTCAGAACAA-CTTGT
1 GTTCAGAACAATC-TGC
* *
806087 GTTCAGACCAATCTAC
1 GTTCAGAACAATCTGC
* **
806103 -TTCAGAACAATTTTT
1 GTTCAGAACAATCTGC
*
806118 TTTCAGAACAATCTGC
1 GTTCAGAACAATCTGC
* *
806134 GTTCAAAACAACCT-C
1 GTTCAGAACAATCTGC
806149 TGTTCAGAA
1 -GTTCAGAA
806158 TAATTTTTAT
Statistics
Matches: 54, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
15 12 0.22
16 41 0.76
17 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.31
Consensus pattern (16 bp):
GTTCAGAACAATCTGC
Found at i:807214 original size:427 final size:428
Alignment explanation
Indices: 806430--807674 Score: 1701
Period size: 427 Copynumber: 2.9 Consensus size: 428
806420 CTTGACTTGA
* * * * * *
806430 TGAATTAAACATAAAAGTAATTAAGATGTTTTCTTTTAACTTTTCGCTAAAACATGATTGCTTTT
1 TGAATTAAACATAAAAGTAATTAAGAGGCTTTCTCTTAACTTTTCCCTAAAATATGATTGCTTCT
* * * * * *
806495 TCTTTGCTTTGAGAACAAGAGGTGAATTCATGTGAATTCATATTCATCACTCACCATTATCAATA
66 TATTTTCTTTAAAAACAAGAGGTGAATTC-T-T--ATTC--A--C-T-ACTCACCATAACCAATA
* * * *
806560 AATTTCCAACAATAGTACTTATTAACTTACAATCTTTTTTATTATTCTTATTAAATGACAATATT
121 AATTTCCAACATTAATACTTATTAACTTACAATCTTCTTTATTATACTTATTAAATGACAATATT
* *
806625 TTGTAACTCCTATTTAAGGACTTATAAATAAGAGTCTTTGCAATTGATTTAGGTACTTTTGGACT
186 TTGTAACTCCTATTTAAGGACTTATAAATAAGAGTCTTTGCAACTGATTTGGGTACTTTTGGACT
* * * *
806690 TTTAGCATTTTATCAGATTTCTTACATTTAAGTTCTCTTTGCAAATCTCCATTCCTTAATTTCTT
251 TTTAGCATTTTATTAGATTTCTTACACTTAAGTTCTCTTTGCAAATCTCCACTCCTTAATTTCCT
* *
806755 TTTCAGCAATACTCAACCTTAATCCAACTTGCCAACCACCACTTGTCGCTACACTTAGTATTTTT
316 TCTCAGCAATACTCAACCTTAATCCAACTTGCCAACCACCACTTGTCGCTACACTCAGTATTTTT
806820 GTTCTTGGGTTAGTTTCACTATTC-ATATATTTTGGAGAGCTTAGCTTCG
381 GTTCTT-GGTTAGTTTCACTATTCGA-ATATTTTGGAGAGCTTAGCTTCG
* * * * * * *
806869 TTATTTAAACATGAAGGTAATTAAGAGGCTTTCTCTTAAGTTTTCCTTGAAATATGATTGCTTCT
1 TGAATTAAACATAAAAGTAATTAAGAGGCTTTCTCTTAACTTTTCCCTAAAATATGATTGCTTCT
* * * *
806934 TATTTTCTTTGAGAACAAGAGGTGAA-TCTTTATTCACTACTCACTATAACTAATAAATTTCCAA
66 TATTTTCTTTAAAAACAAGAGGTGAATTC-TTATTCACTACTCACCATAACCAATAAATTTCCAA
*
806998 CATTAATAC-T-TTAACTTACAATCTTCTTTATTATAATTATTAAATGACAATATTTTGTAACTC
130 CATTAATACTTATTAACTTACAATCTTCTTTATTATACTTATTAAATGACAATATTTTGTAACTC
* * * *
807061 TTATTTAAGGATTTATAAATAAGAGTCTTTGCAACTGATTTGGGTATTTTTGGACTTTTAACATT
195 CTATTTAAGGACTTATAAATAAGAGTCTTTGCAACTGATTTGGGTACTTTTGGACTTTTAGCATT
*
807126 TTATTAGATTT-TATACACTTAAGTTCTCTTTGCAAATCTCCACTCCTTAGTTTCCTTCTCAGCA
260 TTATTAGATTTCT-TACACTTAAGTTCTCTTTGCAAATCTCCACTCCTTAATTTCCTTCTCAGCA
* * *
807190 ATACTTAACCTTAATCCAACTTGCCAACCACCACTTGTCGCTACACTCAATATCTTTGTTCTTGG
324 ATACTCAACCTTAATCCAACTTGCCAACCACCACTTGTCGCTACACTCAGTATTTTTGTTCTTGG
* * *
807255 TTAGTTTCACTATTCGAATGTTTTGGAGAGCTTGGCTTGG
389 TTAGTTTCACTATTCGAATATTTTGGAGAGCTTAGCTTCG
* * * *
807295 TGAATTAAACATAAAAGTAGTTAAGAGGTTTTCTTTTAACTTTTCCCTAAAATATGATTGCTTTT
1 TGAATTAAACATAAAAGTAATTAAGAGGCTTTCTCTTAACTTTTCCCTAAAATATGATTGCTTCT
* * * *
807360 TCTTTTCTTTAAAAACAAGAGGTGAATTCTTATTCACTACTCACCATTACCCATAAATTTACAAC
66 TATTTTCTTTAAAAACAAGAGGTGAATTCTTATTCACTACTCACCATAACCAATAAATTTCCAAC
* * * **
807425 ATTAATACTTATTAACTTACAATTTTCCTCATTATACTTATTAAATGGTAATATTTTGTAACTCC
131 ATTAATACTTATTAACTTACAATCTTCTTTATTATACTTATTAAATGACAATATTTTGTAACTCC
* * * * *
807490 TATTTAATGACTTATAAATAGGAGTCTTTGCAAGTAATTTGGGTACTTTTGGACTTTTAGC-TTA
196 TATTTAAGGACTTATAAATAAGAGTCTTTGCAACTGATTTGGGTACTTTTGGACTTTTAGCATTT
*
807554 TATTAGATTTCTTACACTTAAGTTCTCTTTGCAAATCTCCACTCTTTAATTTCCTTCTCAGCAAT
261 TATTAGATTTCTTACACTTAAGTTCTCTTTGCAAATCTCCACTCCTTAATTTCCTTCTCAGCAAT
* * *
807619 ACTCAACCTTAATCCAACTTGTCAACCACCATTTGTCGCTATACTCAGTATTTTTG
326 ACTCAACCTTAATCCAACTTGCCAACCACCACTTGTCGCTACACTCAGTATTTTTG
807675 AGTTTGCCCT
Statistics
Matches: 714, Mismatches: 86, Indels: 24
0.87 0.10 0.03
Matches are distributed among these distances:
426 154 0.22
427 341 0.48
428 103 0.14
429 29 0.04
430 1 0.00
431 1 0.00
433 1 0.00
435 4 0.01
437 1 0.00
438 3 0.00
439 76 0.11
ACGTcount: A:0.30, C:0.18, G:0.11, T:0.42
Consensus pattern (428 bp):
TGAATTAAACATAAAAGTAATTAAGAGGCTTTCTCTTAACTTTTCCCTAAAATATGATTGCTTCT
TATTTTCTTTAAAAACAAGAGGTGAATTCTTATTCACTACTCACCATAACCAATAAATTTCCAAC
ATTAATACTTATTAACTTACAATCTTCTTTATTATACTTATTAAATGACAATATTTTGTAACTCC
TATTTAAGGACTTATAAATAAGAGTCTTTGCAACTGATTTGGGTACTTTTGGACTTTTAGCATTT
TATTAGATTTCTTACACTTAAGTTCTCTTTGCAAATCTCCACTCCTTAATTTCCTTCTCAGCAAT
ACTCAACCTTAATCCAACTTGCCAACCACCACTTGTCGCTACACTCAGTATTTTTGTTCTTGGTT
AGTTTCACTATTCGAATATTTTGGAGAGCTTAGCTTCG
Found at i:809719 original size:21 final size:21
Alignment explanation
Indices: 809703--809750 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
809693 ATAAAATTAT
809703 TATTATTATTATAAAAATAAAA
1 TATT-TTATTATAAAAATAAAA
*
809725 TATTTTATTATAAAAATATAA
1 TATTTTATTATAAAAATAAAA
809746 T-TTTT
1 TATTTT
809751 GCAATAGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 4 0.16
21 17 0.68
22 4 0.16
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TATTTTATTATAAAAATAAAA
Found at i:814663 original size:17 final size:16
Alignment explanation
Indices: 814641--814676 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
814631 AAATTACTAT
814641 AAATTTAATTTTTTATA
1 AAATTTAA-TTTTTATA
*
814658 AAATTTTATTTTTATA
1 AAATTTAATTTTTATA
814674 AAA
1 AAA
814677 GATCAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
AAATTTAATTTTTATA
Found at i:815357 original size:21 final size:21
Alignment explanation
Indices: 815326--815370 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
815316 TAAAATTATT
815326 ATTATTATTATA-AATATATATA
1 ATTATTATTATAGAA-ATATA-A
815348 ATTA-TATTATAGAAATATAA
1 ATTATTATTATAGAAATATAA
815368 ATT
1 ATT
815371 TTGTAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.18
21 12 0.55
22 6 0.27
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
ATTATTATTATAGAAATATAA
Found at i:815880 original size:16 final size:16
Alignment explanation
Indices: 815861--815896 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
815851 ATTTTTGAGG
815861 TTTAGATTTTTTCAGA
1 TTTAGATTTTTTCAGA
*
815877 TTTAGATTTTTTTAGA
1 TTTAGATTTTTTCAGA
815893 TTTA
1 TTTA
815897 AACCATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.25, C:0.03, G:0.11, T:0.61
Consensus pattern (16 bp):
TTTAGATTTTTTCAGA
Found at i:816702 original size:55 final size:56
Alignment explanation
Indices: 816586--816710 Score: 143
Period size: 56 Copynumber: 2.2 Consensus size: 56
816576 GATAAATCTA
*
816586 ATTTTTTATAAAAAGTTAATTACTATTAAATTTAATTACTTTTTAAAAATAATTAT
1 ATTTTTTATAAAAAGTTAATTAATATTAAATTTAATTACTTTTTAAAAATAATTAT
** *
816642 -TTTTTTATAAAAAGTTAAATTAATCACTATAAATTTAA-T-CTTTTTGTAAA-AGTT-T
1 ATTTTTTATAAAAAGTT-AATTAAT-A-T-TAAATTTAATTACTTTTTAAAAATAATTAT
816697 ATTTTTTATAAAAA
1 ATTTTTTATAAAAA
816711 ATCAAATTTA
Statistics
Matches: 60, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
55 17 0.28
56 22 0.37
57 10 0.17
58 2 0.03
59 9 0.15
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.50
Consensus pattern (56 bp):
ATTTTTTATAAAAAGTTAATTAATATTAAATTTAATTACTTTTTAAAAATAATTAT
Found at i:818701 original size:85 final size:82
Alignment explanation
Indices: 818606--818759 Score: 215
Period size: 85 Copynumber: 1.8 Consensus size: 82
818596 GTTTATAATA
*
818606 TATAATTTAAAATTACA-CT-AATACTT-AATAAATAATAAATTTAATTTTTTAATAAAAAATTA
1 TATAATTTAAAATTA-ATCTGAATACTTCAA-AAA-AATAAATCT-ATTTTTT-AT-AAAAATTA
818668 ATTACTATTATATTCAAATAACG
60 ATTACTATTATATTCAAATAACG
*
818691 TATAATTTAAAATTAATTTGAATACTTCAAAAAAATAAATCTATTTTTTATAAAAATTAATTACT
1 TATAATTTAAAATTAATCTGAATACTTCAAAAAAATAAATCTATTTTTTATAAAAATTAATTACT
818756 ATTA
66 ATTA
818760 AATTAATAAC
Statistics
Matches: 64, Mismatches: 2, Indels: 9
0.85 0.03 0.12
Matches are distributed among these distances:
82 18 0.28
83 2 0.03
84 8 0.12
85 24 0.38
86 10 0.16
87 2 0.03
ACGTcount: A:0.50, C:0.06, G:0.01, T:0.42
Consensus pattern (82 bp):
TATAATTTAAAATTAATCTGAATACTTCAAAAAAATAAATCTATTTTTTATAAAAATTAATTACT
ATTATATTCAAATAACG
Found at i:819644 original size:20 final size:19
Alignment explanation
Indices: 819575--819645 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 19
819565 GTAAGTAGTA
* * *
819575 ATATAAAATTATAACTATT
1 ATATAAAAATATAAATTTT
* *
819594 ATTATAAATATATATAATTAT
1 A-TATAAAAATATA-AATTTT
819615 ACTATAAAAATATAAATTTT
1 A-TATAAAAATATAAATTTT
819635 ATAATAAAAAT
1 AT-ATAAAAAT
819646 CTTATTCGGG
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
19 2 0.05
20 24 0.59
21 15 0.37
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (19 bp):
ATATAAAAATATAAATTTT
Found at i:820147 original size:17 final size:16
Alignment explanation
Indices: 820127--820165 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
820117 AGATTTGAAC
820127 TTTTTAGGATTTAAATT
1 TTTTTA-GATTTAAATT
*
820144 TTTTTATATTTAAATT
1 TTTTTAGATTTAAATT
*
820160 ATTTTA
1 TTTTTA
820166 AACTCGAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (16 bp):
TTTTTAGATTTAAATT
Found at i:820225 original size:21 final size:20
Alignment explanation
Indices: 820184--820226 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
820174 CTAAATTAAA
* *
820184 TTTAACTATTAAATTATTTT
1 TTTAACTATTAAATAAATTT
*
820204 TTTAACTTTTTAAATAAATTT
1 TTTAAC-TATTAAATAAATTT
820225 TT
1 TT
820227 AAATTTAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTAACTATTAAATAAATTT
Found at i:832044 original size:16 final size:16
Alignment explanation
Indices: 832023--832053 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
832013 TGTTAATTTG
832023 TAGTTATATATATATA
1 TAGTTATATATATATA
832039 TAGTTATATATATAT
1 TAGTTATATATATAT
832054 CCATCAGCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (16 bp):
TAGTTATATATATATA
Found at i:836210 original size:33 final size:33
Alignment explanation
Indices: 836163--836229 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
836153 AAGCTTTTAA
*
836163 TTTCCAAAGGTATCAAATTACAAAAGTACACTC
1 TTTCCAAAGATATCAAATTACAAAAGTACACTC
*
836196 TTTCCAAAGATATCAAATTACAAAAGTATACTC
1 TTTCCAAAGATATCAAATTACAAAAGTACACTC
836229 T
1 T
836230 AATTTATTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.30
Consensus pattern (33 bp):
TTTCCAAAGATATCAAATTACAAAAGTACACTC
Found at i:842030 original size:14 final size:15
Alignment explanation
Indices: 841997--842033 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
841987 GTTCTCAACT
841997 AGAAAAAACTAGAAA
1 AGAAAAAACTAGAAA
842012 AGAAAAAA-TA-AAA
1 AGAAAAAACTAGAAA
842025 AGGAAAAAA
1 A-GAAAAAA
842034 AGAGAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.19
14 9 0.43
15 8 0.38
ACGTcount: A:0.78, C:0.03, G:0.14, T:0.05
Consensus pattern (15 bp):
AGAAAAAACTAGAAA
Found at i:842913 original size:60 final size:59
Alignment explanation
Indices: 842795--842923 Score: 150
Period size: 60 Copynumber: 2.2 Consensus size: 59
842785 TTTGTAAATC
* * * *
842795 TCATGCATTTTAGGGTCATTTAGAACATTTTTTATGTTATAAAGCCTACTATGAAATTT
1 TCATGCATTTCAGGCTCATTTAGAACATTTTCTATGTTATAAAGACTACTATGAAATTT
* ** * * *
842854 TCATGTATTTCAGGCTCATTTTAGAACATTTTCTATGTTATAGGGATTATTATGCAATTT
1 TCATGCATTTCAGGCTCA-TTTAGAACATTTTCTATGTTATAAAGACTACTATGAAATTT
*
842914 TGATGCATTT
1 TCATGCATTT
842924 TAAGGTTATT
Statistics
Matches: 57, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
59 15 0.26
60 42 0.74
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.46
Consensus pattern (59 bp):
TCATGCATTTCAGGCTCATTTAGAACATTTTCTATGTTATAAAGACTACTATGAAATTT
Found at i:843209 original size:20 final size:22
Alignment explanation
Indices: 843186--843236 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 22
843176 GTTATGTTAT
843186 TTTATTTTTATTTTAA-TT-AG-
1 TTTATTTTT-TTTTAACTTCAGA
843206 TTTATTTGTTTTTTAACTTCAGA
1 TTTATTT-TTTTTTAACTTCAGA
843229 TTTATTTT
1 TTTATTTT
843237 GGAGAATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
20 13 0.48
21 4 0.15
22 3 0.11
23 7 0.26
ACGTcount: A:0.22, C:0.04, G:0.06, T:0.69
Consensus pattern (22 bp):
TTTATTTTTTTTTAACTTCAGA
Found at i:844168 original size:41 final size:40
Alignment explanation
Indices: 844106--844198 Score: 168
Period size: 41 Copynumber: 2.3 Consensus size: 40
844096 ACTAAATCTA
844106 AAGAGCTTATTTAGGTTAGTTAATAGTTAGGGATTAAATG
1 AAGAGCTTATTTAGGTTAGTTAATAGTTAGGGATTAAATG
*
844146 AAGAGCTTATTCTAGGTTAGTTAATAGTTAGGGATTATATG
1 AAGAGCTTATT-TAGGTTAGTTAATAGTTAGGGATTAAATG
844187 AAGAGCTTATTT
1 AAGAGCTTATTT
844199 TATTTAACAA
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
40 12 0.24
41 39 0.76
ACGTcount: A:0.33, C:0.04, G:0.24, T:0.39
Consensus pattern (40 bp):
AAGAGCTTATTTAGGTTAGTTAATAGTTAGGGATTAAATG
Found at i:846507 original size:22 final size:22
Alignment explanation
Indices: 846478--846539 Score: 99
Period size: 22 Copynumber: 2.8 Consensus size: 22
846468 TGTTCATGAA
846478 TAAA-CTTATTTATAAATTGTT
1 TAAAGCTTATTTATAAATTGTT
846499 TAAAGCTTATTTATAAATTGTT
1 TAAAGCTTATTTATAAATTGTT
*
846521 TAAAGCTCATTTAATAAAT
1 TAAAGCTTATTT-ATAAAT
846540 AATTTAAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
21 4 0.11
22 28 0.74
23 6 0.16
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.47
Consensus pattern (22 bp):
TAAAGCTTATTTATAAATTGTT
Found at i:846545 original size:23 final size:22
Alignment explanation
Indices: 846485--846547 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
846475 GAATAAACTT
** *
846485 ATTTATAAATTGTTTAAAGCTT
1 ATTTATAAATAATTTAAAGCTC
**
846507 ATTTATAAATTGTTTAAAGCTC
1 ATTTATAAATAATTTAAAGCTC
846529 ATTTAATAAATAATTTAAA
1 ATTT-ATAAATAATTTAAA
846548 AATCGTTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
22 25 0.68
23 12 0.32
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.46
Consensus pattern (22 bp):
ATTTATAAATAATTTAAAGCTC
Found at i:850645 original size:114 final size:114
Alignment explanation
Indices: 850445--850672 Score: 411
Period size: 114 Copynumber: 2.0 Consensus size: 114
850435 TGCTGATGGG
* *
850445 ATTTTGTCATAGACAATCCCAAATTCAATAGTTGACTCCAACTTATTTAACCACATGAACTGAAA
1 ATTTTGTCACAAACAATCCCAAATTCAATAGTTGACTCCAACTTATTTAACCACATGAACTGAAA
*
850510 CTAAGCATTAATTAGATTTCTAATGCTTAGTAGTGATCTATGTGCTAAT
66 CTAAGCATTAATTAGATTTCTAATGCTTAGCAGTGATCTATGTGCTAAT
850559 ATTTTGTCACAAACAATCCCAAATTCAATAGTTGACTCCAACTTATTTAACCACATGAACTGAAA
1 ATTTTGTCACAAACAATCCCAAATTCAATAGTTGACTCCAACTTATTTAACCACATGAACTGAAA
* *
850624 CTAGGCATTAATTGGATTTCTAATGCTTAGCAGTGATCTATGTGCTAAT
66 CTAAGCATTAATTAGATTTCTAATGCTTAGCAGTGATCTATGTGCTAAT
850673 CTCCACATAA
Statistics
Matches: 109, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
114 109 1.00
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (114 bp):
ATTTTGTCACAAACAATCCCAAATTCAATAGTTGACTCCAACTTATTTAACCACATGAACTGAAA
CTAAGCATTAATTAGATTTCTAATGCTTAGCAGTGATCTATGTGCTAAT
Found at i:851266 original size:188 final size:187
Alignment explanation
Indices: 850777--851311 Score: 671
Period size: 188 Copynumber: 2.8 Consensus size: 187
850767 GCTACCAGTT
* * *
850777 GCTTTTCCTGCAAACTGGTGAAGGGGAAAATCTAATCAAACTTAAATCTAATGT-AAGATCCAAA
1 GCTTTTCCTGCAAACTGGTG-AGGGAAAAATCTAATCAGACTTAAATCAAATGTAAAG-TCCAAA
* *
850841 TTAAAGAGTGTATGGTCACATTTTCATCATTGCCTTCCCTTCATCATCACACTCTAGGGCTGATA
64 TTAAAGAGTGTATTGTCACATTTTCATCATTGCCTTCTCTTCATCATCACA--CTAGGGCTGATA
* * * * * *
850906 AGCATGCAATTCACCCAACCAATCTTCTGCTATCTACTGCACAATACTGTTGTTGCTAGCA
127 AGCATGCAATTCACCCAACCAACCCTCTGCTATCTACTGCACAACACTATTGCTGCTAACA
* * * * * *
850967 ACTTTTTCTACAAACTGGTGGAGGGAAATATCTAAT-AGACTTGAATCAAATGTAAGGTCCAAAT
1 GCTTTTCCTGCAAACTGGT-GAGGGAAAAATCTAATCAGACTTAAATCAAATGTAAAGTCCAAAT
* * * * * *
851031 CAAAGAGTATATTGTCACATTTTCATCATTGTCTTTTTTTCATCATCACACTAGGGCTAATAAGC
65 TAAAGAGTGTATTGTCACATTTTCATCATTGCCTTCTCTTCATCATCACACTAGGGCTGATAAGC
* * * *
851096 ATGCAATTCACCCAACCAACCCTCTGTTGTCTGCTGCATAACACTATTGCTGCTAACA
130 ATGCAATTCACCCAACCAACCCTCTGCTATCTACTGCACAACACTATTGCTGCTAACA
* * * *
851154 GCTTTTCCTGCAAACTAGTAGAGGGAAAAATTTGATCAGACTTAAATCAAATGTAAAGTCTAAAT
1 GCTTTTCCTGCAAACTGGT-GAGGGAAAAATCTAATCAGACTTAAATCAAATGTAAAGTCCAAAT
* * * *
851219 TAAAAAATGTATTGTCACATTTTCATCACTGCCTTCTCTTCATCATCACA-TCAGGGCTGATAAA
65 TAAAGAGTGTATTGTCACATTTTCATCATTGCCTTCTCTTCATCATCACACT-AGGGCTGATAAG
851283 CATGCAATTCACCCAACCAACCCTCTGCT
129 CATGCAATTCACCCAACCAACCCTCTGCT
851312 CGGCATTTAA
Statistics
Matches: 292, Mismatches: 49, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
187 91 0.31
188 105 0.36
189 64 0.22
190 31 0.11
191 1 0.00
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (187 bp):
GCTTTTCCTGCAAACTGGTGAGGGAAAAATCTAATCAGACTTAAATCAAATGTAAAGTCCAAATT
AAAGAGTGTATTGTCACATTTTCATCATTGCCTTCTCTTCATCATCACACTAGGGCTGATAAGCA
TGCAATTCACCCAACCAACCCTCTGCTATCTACTGCACAACACTATTGCTGCTAACA
Found at i:856144 original size:15 final size:14
Alignment explanation
Indices: 856107--856148 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
856097 TTAACATGTT
856107 TTATTTCAA-TTAAA
1 TTATTT-AATTTAAA
*
856121 TTGTTTAATTTAACA
1 TTATTTAATTTAA-A
856136 TTATTTAATTTAA
1 TTATTTAATTTAA
856149 TTGAAATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 2 0.08
14 9 0.38
15 13 0.54
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (14 bp):
TTATTTAATTTAAA
Found at i:859059 original size:13 final size:13
Alignment explanation
Indices: 859041--859066 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
859031 ACATACAAGA
859041 TGTATCGATACAT
1 TGTATCGATACAT
859054 TGTATCGATACAT
1 TGTATCGATACAT
859067 GACCAAATGT
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:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:859082 original size:33 final size:32
Alignment explanation
Indices: 859021--859088 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
859011 CCTTAACTGT
859021 TTGTATCGATACATACAAGATGTATCGATACA
1 TTGTATCGATACATACAAGATGTATCGATACA
859053 TTGTATCGATACATGACCAA-ATGTATCGATACA
1 TTGTATCGATACAT-A-CAAGATGTATCGATACA
859086 TTG
1 TTG
859089 GCTTGTAACG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
32 14 0.41
33 17 0.50
34 3 0.09
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (32 bp):
TTGTATCGATACATACAAGATGTATCGATACA
Found at i:865264 original size:13 final size:13
Alignment explanation
Indices: 865246--865280 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
865236 CATTCTCTGT
*
865246 ATCGATACATTGA
1 ATCGATACAGTGA
*
865259 ATCGATACAGTGG
1 ATCGATACAGTGA
865272 ATCGATACA
1 ATCGATACA
865281 AAGGGTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (13 bp):
ATCGATACAGTGA
Found at i:867110 original size:12 final size:12
Alignment explanation
Indices: 867093--867117 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
867083 AAGGGGGAGA
867093 AAGAAACATGTG
1 AAGAAACATGTG
867105 AAGAAACATGTG
1 AAGAAACATGTG
867117 A
1 A
867118 TTAAAGGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.24, T:0.16
Consensus pattern (12 bp):
AAGAAACATGTG
Found at i:867197 original size:27 final size:26
Alignment explanation
Indices: 867128--867179 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
867118 TTAAAGGAAA
867128 TTGTTTTAAGGGGGAGAAATTTGTTT
1 TTGTTTTAAGGGGGAGAAATTTGTTT
867154 TTGTTTTAAGGGGGAGAAATTT-TTT
1 TTGTTTTAAGGGGGAGAAATTTGTTT
867179 T
1 T
867180 ATTTGATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 4 0.15
26 22 0.85
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.48
Consensus pattern (26 bp):
TTGTTTTAAGGGGGAGAAATTTGTTT
Found at i:867884 original size:13 final size:13
Alignment explanation
Indices: 867866--867891 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
867856 ACATACAAGA
867866 TGTATCGATACAT
1 TGTATCGATACAT
867879 TGTATCGATACAT
1 TGTATCGATACAT
867892 GACCAAATGT
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:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:867907 original size:33 final size:32
Alignment explanation
Indices: 867846--867913 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
867836 CCTTAACTGT
867846 TTGTATCGATACATACAAGATGTATCGATACA
1 TTGTATCGATACATACAAGATGTATCGATACA
867878 TTGTATCGATACATGACCAA-ATGTATCGATACA
1 TTGTATCGATACAT-A-CAAGATGTATCGATACA
867911 TTG
1 TTG
867914 GCTTGTAACG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
32 14 0.41
33 17 0.50
34 3 0.09
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (32 bp):
TTGTATCGATACATACAAGATGTATCGATACA
Found at i:874220 original size:40 final size:40
Alignment explanation
Indices: 874160--874240 Score: 126
Period size: 40 Copynumber: 2.0 Consensus size: 40
874150 AGTGTATTAA
* * *
874160 AATTTAACAAATTGATATTACAAATATTGTAGTTTAAGCT
1 AATTTAACAAATTGACATTACAAATAGTGGAGTTTAAGCT
*
874200 AATTTAACAAATTGGCATTACAAATAGTGGAGTTTAAGCT
1 AATTTAACAAATTGACATTACAAATAGTGGAGTTTAAGCT
874240 A
1 A
874241 TTTTGTCCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.36
Consensus pattern (40 bp):
AATTTAACAAATTGACATTACAAATAGTGGAGTTTAAGCT
Found at i:875185 original size:23 final size:23
Alignment explanation
Indices: 875159--875205 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
875149 TATGATAATC
875159 ATAAATTAAAATTTTAAA-ATTAA
1 ATAAATTAAAA-TTTAAATATTAA
* *
875182 ATAAATTTATATTTAAATATTAA
1 ATAAATTAAAATTTAAATATTAA
875205 A
1 A
875206 AATATTACAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
ATAAATTAAAATTTAAATATTAA
Found at i:876975 original size:26 final size:24
Alignment explanation
Indices: 876930--877001 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 24
876920 ATTTGATCTA
* *
876930 AATATATATTCTATTATTAATTTT
1 AATATATATTATAATATTAATTTT
876954 AATATATCATTATAATATTTAA-TTT
1 AATATAT-ATTATAATA-TTAATTTT
876979 --TAT-TATTATAATAATTAATTTT
1 AATATATATTATAAT-ATTAATTTT
877001 A
1 A
877002 TCATTATCAT
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
21 12 0.29
22 5 0.12
23 3 0.07
24 7 0.17
25 10 0.24
26 4 0.10
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (24 bp):
AATATATATTATAATATTAATTTT
Found at i:876986 original size:21 final size:21
Alignment explanation
Indices: 876942--877008 Score: 84
Period size: 21 Copynumber: 3.2 Consensus size: 21
876932 TATATATTCT
*
876942 ATTATTAAT-TTTAA-TATATC
1 ATTA-TAATATTTAATTTTATC
*
876962 ATTATAATATTTAATTTTATT
1 ATTATAATATTTAATTTTATC
*
876983 ATTATAATAATTAATTTTATC
1 ATTATAATATTTAATTTTATC
877004 ATTAT
1 ATTAT
877009 CATTACTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
19 4 0.10
20 9 0.22
21 28 0.68
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTATAATATTTAATTTTATC
Found at i:877723 original size:18 final size:19
Alignment explanation
Indices: 877689--877727 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
877679 ATATTTACGG
*
877689 ATCGTTATTATTATTATTT
1 ATCGTTATTACTATTATTT
877708 ATCGTTA-TACTATTATTT
1 ATCGTTATTACTATTATTT
877726 AT
1 AT
877728 GATTGTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.28, C:0.08, G:0.05, T:0.59
Consensus pattern (19 bp):
ATCGTTATTACTATTATTT
Found at i:878364 original size:18 final size:19
Alignment explanation
Indices: 878331--878366 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
878321 CAATACAGTG
878331 GCCAAATTTAAGTCAACAT
1 GCCAAATTTAAGTCAACAT
*
878350 GCCAATTTTAA-TCAACA
1 GCCAAATTTAAGTCAACA
878367 AATAATGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (19 bp):
GCCAAATTTAAGTCAACAT
Found at i:881406 original size:149 final size:146
Alignment explanation
Indices: 881132--881427 Score: 396
Period size: 149 Copynumber: 2.0 Consensus size: 146
881122 CTTCGCTCCT
** * *
881132 AGTTATATGGAGTCATGAGCATAATATGTAAAATGTTTGGTGAAAAGTTTTTTTCCACTTAAAAG
1 AGTTATATGGAGTCAAAAGCATAATATGTAAAATGTTTAGTGAAAAGTTTTTTTCCACCTAAAAG
* * *
881197 AAAGTTATTTGGATTGAATTAGGGAGAAAGTACTAAAAACCAAGGTAGGAACTTACAGATTTTAT
66 AAAGTTACTTGGATTGAATTAGGGAGAAAGCACTAAAAACCAAGGAAGGAACTTACAGATTTTAT
881262 CCAACATTTTAAGGAA
131 CCAACATTTTAAGGAA
* * *
881278 AGTTTTATGGAGTCAAAAGCCA-AATCTGTAGAATGTTTAGTGAAAAGTTTTTTTTTTCCACCTA
1 AGTTATATGGAGTCAAAAG-CATAATATGTAAAATGTTTAGTGAAAAG---TTTTTTTCCACCTA
* * * * * *
881342 GAAGAAAGTTACTTGGATTGATTTAGGGAGAGAGCACTAAAAACCAAGGAATGATCTTATAGATT
62 AAAGAAAGTTACTTGGATTGAATTAGGGAGAAAGCACTAAAAACCAAGGAAGGAACTTACAGATT
*
881407 TTATCCAACATTTTAGGGAA
127 TTATCCAACATTTTAAGGAA
881427 A
1 A
881428 AGGTGTTAGA
Statistics
Matches: 129, Mismatches: 17, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
146 38 0.29
147 2 0.02
149 89 0.69
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.32
Consensus pattern (146 bp):
AGTTATATGGAGTCAAAAGCATAATATGTAAAATGTTTAGTGAAAAGTTTTTTTCCACCTAAAAG
AAAGTTACTTGGATTGAATTAGGGAGAAAGCACTAAAAACCAAGGAAGGAACTTACAGATTTTAT
CCAACATTTTAAGGAA
Found at i:883816 original size:1 final size:1
Alignment explanation
Indices: 883810--883890 Score: 81
Period size: 1 Copynumber: 81.0 Consensus size: 1
883800 AAATCTTCAC
* * ** * * * *
883810 TTTTTTTTTGTTTTTTTTTTTTGTTTTTTTTTTTGGTTTTTTTCTTTTTTTTTTGTTTTGTTTTG
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
883875 TTTTGTTTTTTTTTTT
1 TTTTTTTTTTTTTTTT
883891 CCAATTGCCA
Statistics
Matches: 64, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 64 1.00
ACGTcount: A:0.00, C:0.01, G:0.10, T:0.89
Consensus pattern (1 bp):
T
Found at i:887365 original size:21 final size:21
Alignment explanation
Indices: 887339--887380 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
887329 CGTTTTGTCC
887339 TGATCTTCCTGTGCAATAGGA
1 TGATCTTCCTGTGCAATAGGA
887360 TGATCTTCCTGTGCAATAGGA
1 TGATCTTCCTGTGCAATAGGA
887381 ATTTGATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (21 bp):
TGATCTTCCTGTGCAATAGGA
Found at i:893635 original size:130 final size:128
Alignment explanation
Indices: 893364--893676 Score: 323
Period size: 130 Copynumber: 2.4 Consensus size: 128
893354 TATTTTGGAG
* * * * *
893364 ATAATAAC-GGGGTTAGAGTATCCTCTCGAAAATAACGGGATTGGAGTATCCCCGATTGCGAAAA
1 ATAA-AACTGGGGTTGGAGTATCCCCT-GAAAATAATGGG-TTGGAGTATCCCCAATTACGAAAA
*
893428 ATCAATGATTTAGAAATAAGGCAAGGGTTGAAGTGTCCCTGATTATAGAAAATAGATGTTTCAAA
63 ATCAATGATTTAGAAATAAGGCAAGGGTTGAAGTATCCCTGATTATAGAAAATAGATGTTTCAAA
893493 A
128 A
* * *
893494 ATAAAATTGGGGTTGGAGTATCCCCGTGAAAATAATGGAGTTGGAGTATCCCCAATTATGAGAAA
1 ATAAAACTGGGGTTGGAGTATCCCC-TGAAAATAATGG-GTTGGAGTATCCCCAATTACGAAAAA
* * * *
893559 TCAAT-ATTTTAGAAATAAGGTC-GGGGTTGAGGTATCCCTGATTGT-GAGAAATCA-ATATTTT
64 TCAATGA-TTTAGAAATAAGG-CAAGGGTTGAAGTATCCCTGATTATAGA-AAAT-AGAT-GTTT
**
893620 GGAAA
124 CAAAA
* *
893625 A-AAAGCTGGGGTTGGAGTATCCCCTTGGAAATAACTGGGTTGGAGTATCCCC
1 ATAAAACTGGGGTTGGAGTATCCCC-TGAAAATAA-TGGGTTGGAGTATCCCC
893677 GATGAAATAA
Statistics
Matches: 155, Mismatches: 19, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
129 5 0.03
130 136 0.88
131 14 0.09
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.27
Consensus pattern (128 bp):
ATAAAACTGGGGTTGGAGTATCCCCTGAAAATAATGGGTTGGAGTATCCCCAATTACGAAAAATC
AATGATTTAGAAATAAGGCAAGGGTTGAAGTATCCCTGATTATAGAAAATAGATGTTTCAAAA
Found at i:893667 original size:28 final size:28
Alignment explanation
Indices: 893632--893707 Score: 118
Period size: 28 Copynumber: 2.7 Consensus size: 28
893622 AAAAAAAGCT
*
893632 GGGGTTGGAGTATCCCC-TTGGAAATAAC
1 GGGGTTGGAGTATCCCCGAT-GAAATAAC
*
893660 TGGGTTGGAGTATCCCCGATGAAATAAC
1 GGGGTTGGAGTATCCCCGATGAAATAAC
893688 GGGGTTGGAGTATCCCCGAT
1 GGGGTTGGAGTATCCCCGAT
893708 TGTGAAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
28 43 0.98
29 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.25
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCGATGAAATAAC
Found at i:893760 original size:51 final size:51
Alignment explanation
Indices: 893691--893806 Score: 133
Period size: 51 Copynumber: 2.3 Consensus size: 51
893681 AAATAACGGG
* * *
893691 GTTGGAGTATCCCCGATTGTGAAAAATTAGCGTTTTAGAAATAAGATCAGA
1 GTTGGAATATCCCCGATTGTGAAAAATTAGCGTTTTAGAAATAAAACCAGA
** * * * * * *
893742 GTTGGAATATCCTTGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCGGG
1 GTTGGAATATCCCCGATTGTGAAAAATTAGCGTTTTAGAAATAAAACCAGA
893793 GTTGGAATATCCCC
1 GTTGGAATATCCCC
893807 TCGAAAATAA
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (51 bp):
GTTGGAATATCCCCGATTGTGAAAAATTAGCGTTTTAGAAATAAAACCAGA
Found at i:893794 original size:158 final size:159
Alignment explanation
Indices: 893501--893837 Score: 380
Period size: 158 Copynumber: 2.1 Consensus size: 159
893491 AAAATAAAAT
* * *
893501 TGGGGTTGGAGTATCCCCG-TGAAAATAATGGAGTTGGAGTATCCCCAATTATGAGAAATCAATA
1 TGGGGTTGGAGTATCCCCGATGAAAATAACGGAGTTGGAGTATCCCCAATTATGAAAAATCAACA
* * * * *
893565 TTTTAGAAATAAGGTCGGGGTTGAGGTATCCCTGATTGTGAGAAATCAATATTTTGGAAAAAAAG
66 TTTTAGAAATAAGATCAGAGTTGAGATATCCCTGATTGTGAGAAATCAATATTTTAGAAAAAAAG
* * * *
893630 CTGGGGTTGGAGTATCCCCTTGGAAATAA
131 CCGGGGTTGGAATATCCCCTCGAAAATAA
* * * * *
893659 CT-GGGTTGGAGTATCCCCGATG-AAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGC
1 -TGGGGTTGGAGTATCCCCGATGAAAATAACGGAGTTGGAGTATCCCCAATTATGAAAAATCAAC
* * *** *
893722 GTTTTAGAAATAAGATCAGAGTTG-GAATATCCTTGATTGTG-GAGAATTGGTGTTTTAGAAATA
65 ATTTTAGAAATAAGATCAGAGTTGAG-ATATCCCTGATTGTGAGA-AATCAATATTTTAGAAA-A
893785 AAA-CCGGGGTTGGAATATCCCCTCGAAAATAA
127 AAAGCCGGGGTTGGAATATCCCCTCGAAAATAA
*
893817 TGGGGTTAGAGTATCCCCGAT
1 TGGGGTTGGAGTATCCCCGAT
893838 TATGAAAAAT
Statistics
Matches: 149, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
157 4 0.03
158 138 0.93
159 7 0.05
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.28
Consensus pattern (159 bp):
TGGGGTTGGAGTATCCCCGATGAAAATAACGGAGTTGGAGTATCCCCAATTATGAAAAATCAACA
TTTTAGAAATAAGATCAGAGTTGAGATATCCCTGATTGTGAGAAATCAATATTTTAGAAAAAAAG
CCGGGGTTGGAATATCCCCTCGAAAATAA
Found at i:893947 original size:75 final size:75
Alignment explanation
Indices: 893766--893991 Score: 326
Period size: 75 Copynumber: 2.9 Consensus size: 75
893756 GATTGTGGAG
* * * * *
893766 AATTGGTGTTTTAGAAATAAAACCGGGGTTGGAATATCCCCTCGAAAATAATGGGGTTAGAGTAT
1 AATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTGTCCCCTTGAAAATAA-CGGGTTGGAGTAT
893831 CCCCGATTATGAAA
65 CCCCG---ATGAAA
* *
893845 AATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTGTCCCCTTGAAAATAACGGGTTGGAGTATC
1 AATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTGTCCCCTTGAAAATAACGGGTTGGAGTATC
893910 CCCGATGAAA
66 CCCGATGAAA
* *
893920 AATTGGTGTTTTCGAAATAAAACCGGGGTTGGAGTGTCCCCTTGGAAATAACGGTGTTGGAGTAT
1 AATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTGTCCCCTTGAAAATAACGG-GTTGGAGTAT
893985 CCCCGAT
65 CCCCGAT
893992 TGTGAAAAGT
Statistics
Matches: 135, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
75 56 0.41
76 17 0.13
78 16 0.12
79 46 0.34
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.28
Consensus pattern (75 bp):
AATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTGTCCCCTTGAAAATAACGGGTTGGAGTATC
CCCGATGAAA
Found at i:894039 original size:79 final size:77
Alignment explanation
Indices: 893766--894039 Score: 338
Period size: 79 Copynumber: 3.5 Consensus size: 77
893756 GATTGTGGAG
* * *
893766 AATTGGTGTTTTAGAAATAAAACCGGGGTTGGAATATCCCCTCGAAAATAATGGGGTTAGAGTAT
1 AATTGGTGTTTTAGAAATAAAACCGGGGTTGGAATATCCCCTTGAAAATAA-CGGGTTGGAGTAT
893831 CCCCGATTATGAAA
65 CCCCGATT-TGAAA
* * * *
893845 AATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTGTCCCCTTGAAAATAACGGGTTGGAGTATC
1 AATTGGTGTTTTAGAAATAAAACCGGGGTTGGAATATCCCCTTGAAAATAACGGGTTGGAGTATC
893910 CCCGA--TGAAA
66 CCCGATTTGAAA
* * * *
893920 AATTGGTGTTTTCGAAATAAAACCGGGGTTGGAGTGTCCCCTTGGAAATAACGGTGTTGGAGTAT
1 AATTGGTGTTTTAGAAATAAAACCGGGGTTGGAATATCCCCTTGAAAATAACGG-GTTGGAGTAT
893985 CCCCGATTGTGAAA
65 CCCCGATT-TGAAA
* * * * *
893999 AGTCGGTGTTTT-GAAAATAAAATCGGAGTTAGAATATCCCC
1 AATTGGTGTTTTAG-AAATAAAACCGGGGTTGGAATATCCCC
894040 GATTATGGAA
Statistics
Matches: 172, Mismatches: 18, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
75 55 0.32
76 16 0.09
78 18 0.10
79 83 0.48
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.28
Consensus pattern (77 bp):
AATTGGTGTTTTAGAAATAAAACCGGGGTTGGAATATCCCCTTGAAAATAACGGGTTGGAGTATC
CCCGATTTGAAA
Found at i:894136 original size:51 final size:51
Alignment explanation
Indices: 893979--894154 Score: 203
Period size: 51 Copynumber: 3.5 Consensus size: 51
893969 AACGGTGTTG
* * *
893979 GAGTATCCCCGATTGTGAAAAGTCGGTGTTTTGAAAATAAAATCGGAGTTA
1 GAGTATCCCCGATTATGAAAAATCGGTGTTTTGGAAATAAAATCGGAGTTA
* * * *
894030 GAATATCCCCGATTATGGAAAATGGGTGTTTTAGAAATAAAATCGGAGTTA
1 GAGTATCCCCGATTATGAAAAATCGGTGTTTTGGAAATAAAATCGGAGTTA
* * * * * *
894081 GAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATGAAACCGG-GATTG
1 GAGTATCCCCGATTATGAAAAATCGGTGTTTTGGAAATAAAATCGGAG-TTA
*
894132 GAGTATCCCCGA-GATGAAAAATC
1 GAGTATCCCCGATTATGAAAAATC
894155 TAGAAATTTA
Statistics
Matches: 105, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
50 9 0.09
51 96 0.91
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.27
Consensus pattern (51 bp):
GAGTATCCCCGATTATGAAAAATCGGTGTTTTGGAAATAAAATCGGAGTTA
Found at i:896513 original size:60 final size:60
Alignment explanation
Indices: 896420--896533 Score: 174
Period size: 60 Copynumber: 1.9 Consensus size: 60
896410 AAAATGTCTG
* ** *
896420 AATGTATCGATACATTGTAAAATGTATCGATACAATGAGCAATGTATCGATACAATGAGC
1 AATGTATCGATACAATACAAAATGTATCGATACAATGAACAATGTATCGATACAATGAGC
* *
896480 AATGTATCGATACAATACAAAATGTATCGATACATTGAATAATGTATCGATACA
1 AATGTATCGATACAATACAAAATGTATCGATACAATGAACAATGTATCGATACA
896534 TTTCCTTGAC
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 48 1.00
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (60 bp):
AATGTATCGATACAATACAAAATGTATCGATACAATGAACAATGTATCGATACAATGAGC
Found at i:896535 original size:20 final size:20
Alignment explanation
Indices: 896420--896533 Score: 142
Period size: 20 Copynumber: 5.7 Consensus size: 20
896410 AAAATGTCTG
*
896420 AATGTATCGATACATTGTAA-
1 AATGTATCGATACAATG-AAC
*
896440 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGAAC
*
896460 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGAAC
*
896480 AATGTATCGATACAAT-ACAA
1 AATGTATCGATACAATGA-AC
* *
896500 AATGTATCGATACATTGAAT
1 AATGTATCGATACAATGAAC
896520 AATGTATCGATACA
1 AATGTATCGATACA
896534 TTTCCTTGAC
Statistics
Matches: 85, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
19 2 0.02
20 82 0.96
21 1 0.01
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (20 bp):
AATGTATCGATACAATGAAC
Found at i:899115 original size:21 final size:21
Alignment explanation
Indices: 899058--899118 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 21
899048 TGTAATCTTC
* *
899058 TTTTCT-TTATTCTCCTTTTTT
1 TTTTCTCTTAGTCT-CTTTTAT
899079 TTCTTCTCTT-GT-TCTTTTAT
1 TT-TTCTCTTAGTCTCTTTTAT
899099 TTTTCTCTTAGTCTCTTTTA
1 TTTTCTCTTAGTCTCTTTTA
899119 ATTCTGATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
19 7 0.21
20 10 0.29
21 10 0.29
22 5 0.15
23 2 0.06
ACGTcount: A:0.07, C:0.20, G:0.03, T:0.70
Consensus pattern (21 bp):
TTTTCTCTTAGTCTCTTTTAT
Found at i:899474 original size:23 final size:25
Alignment explanation
Indices: 899443--899488 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
899433 ACAAACATAA
899443 ATAATCAAAATAAAGA-TAGAAAAC
1 ATAATCAAAATAAAGAGTAGAAAAC
* *
899467 ATAA-CAAAGTTAAGAGTAGAAA
1 ATAATCAAAATAAAGAGTAGAAA
899489 GTGTATAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.63, C:0.07, G:0.13, T:0.17
Consensus pattern (25 bp):
ATAATCAAAATAAAGAGTAGAAAAC
Found at i:900908 original size:2 final size:2
Alignment explanation
Indices: 900871--900895 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
900861 TTCCAATTAT
900871 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
900896 CAAATTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:907326 original size:6 final size:6
Alignment explanation
Indices: 907315--907343 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
907305 CACTTTGACA
907315 TTTTTG TTTTTG TTTTTG TTTTTG TTTTT
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTT
907344 AAATAATGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (6 bp):
TTTTTG
Found at i:910176 original size:19 final size:19
Alignment explanation
Indices: 910152--910203 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
910142 ATAATTGTCA
910152 ATGTACCGATACAATGAGC
1 ATGTACCGATACAATGAGC
910171 ATGTACCGATACAATGAGC
1 ATGTACCGATACAATGAGC
*
910190 ATGTATCGATACAA
1 ATGTACCGATACAA
910204 AGCATAATGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (19 bp):
ATGTACCGATACAATGAGC
Found at i:910833 original size:21 final size:21
Alignment explanation
Indices: 910788--910837 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 21
910778 ATAAAATAAT
*
910788 AAAAAAA--TTCTTCCCCTAG
1 AAAAAAATTTTCTCCCCCTAG
*
910807 ATAAAAGATTTTCTCCCCCTA-
1 A-AAAAAATTTTCTCCCCCTAG
910828 AAAAAAATTT
1 AAAAAAATTT
910838 ATTTTCAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 1 0.04
20 13 0.52
21 1 0.04
22 10 0.40
ACGTcount: A:0.44, C:0.22, G:0.04, T:0.30
Consensus pattern (21 bp):
AAAAAAATTTTCTCCCCCTAG
Found at i:912170 original size:13 final size:13
Alignment explanation
Indices: 912152--912177 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
912142 TACAGCAAGT
912152 ATGTATCGATACA
1 ATGTATCGATACA
912165 ATGTATCGATACA
1 ATGTATCGATACA
912178 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:914428 original size:21 final size:21
Alignment explanation
Indices: 914395--914439 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
914385 TTGCAAGTTG
*
914395 AAATAAATAAGTTGGCTAATGA
1 AAATAAATAAGTTAGCTAA-GA
*
914417 AAAT-AATGAGTTAGCTAAGA
1 AAATAAATAAGTTAGCTAAGA
914437 AAA
1 AAA
914440 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 12 0.57
22 4 0.19
ACGTcount: A:0.53, C:0.04, G:0.18, T:0.24
Consensus pattern (21 bp):
AAATAAATAAGTTAGCTAAGA
Found at i:916263 original size:15 final size:15
Alignment explanation
Indices: 916243--916273 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
916233 TAAAAATGTC
*
916243 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
916258 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
916273 C
1 C
916274 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:918370 original size:13 final size:13
Alignment explanation
Indices: 918352--918390 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
918342 CATTTTTTCT
918352 TTGTATCGATACA
1 TTGTATCGATACA
918365 TTGTATCGATACA
1 TTGTATCGATACA
918378 TTGTATCGATACA
1 TTGTATCGATACA
918391 GGGTGATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:920955 original size:13 final size:13
Alignment explanation
Indices: 920937--920962 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
920927 TACAGCAAGT
920937 ATGTATCGATACA
1 ATGTATCGATACA
920950 ATGTATCGATACA
1 ATGTATCGATACA
920963 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:928944 original size:33 final size:32
Alignment explanation
Indices: 928882--928949 Score: 102
Period size: 32 Copynumber: 2.1 Consensus size: 32
928872 CCATTGCAAG
*
928882 CAATGTATCGATACATTCGTCATGTATCGATA
1 CAATGTATCAATACATTCGTCATGTATCGATA
928914 CAATGTATCAATACATT-GTACCATGTATCGATA
1 CAATGTATCAATACATTCGT--CATGTATCGATA
928947 CAA
1 CAA
928950 ATAGTGATAG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
31 2 0.06
32 16 0.48
33 15 0.45
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.32
Consensus pattern (32 bp):
CAATGTATCAATACATTCGTCATGTATCGATA
Found at i:929022 original size:19 final size:19
Alignment explanation
Indices: 928978--929033 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
928968 CTTCCAGTTT
*
928978 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAC
*
928998 CATGTATCGATACAATGAG
1 CATGTATCGATACAATGAC
*
929017 CATGTATCGAAACAATG
1 CATGTATCGATACAATG
929034 TATCGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (19 bp):
CATGTATCGATACAATGAC
Found at i:930178 original size:68 final size:68
Alignment explanation
Indices: 930095--930234 Score: 192
Period size: 68 Copynumber: 2.1 Consensus size: 68
930085 CTCTAAAATT
* * *
930095 TCTTAGTAATGCTTTAGGTACCTCCTACTGCTATTGTTCCATATCAGTTATCAG-CTGCAAGAAT
1 TCTTAGTAATACTTTAGGTACCTCATACTGCTATTGATCCATATCAGTTATCAGCCT-CAAGAAT
930159 TCGA
65 TCGA
* * * **
930163 TCTTAGTAATACTTTAGGTACTTGATGCTGCTATTGATCCATATTTGTTATCAGCCTCAAGAATT
1 TCTTAGTAATACTTTAGGTACCTCATACTGCTATTGATCCATATCAGTTATCAGCCTCAAGAATT
930228 CGA
66 CGA
930231 TCTT
1 TCTT
930235 TAAATTGTAG
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
68 61 0.97
69 2 0.03
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (68 bp):
TCTTAGTAATACTTTAGGTACCTCATACTGCTATTGATCCATATCAGTTATCAGCCTCAAGAATT
CGA
Found at i:939964 original size:13 final size:13
Alignment explanation
Indices: 939946--939971 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
939936 TACAGCAAGT
939946 ATGTATCGATACA
1 ATGTATCGATACA
939959 ATGTATCGATACA
1 ATGTATCGATACA
939972 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:943614 original size:13 final size:13
Alignment explanation
Indices: 943596--943620 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
943586 TTTTCCAGAT
943596 TGTATCGATACAA
1 TGTATCGATACAA
943609 TGTATCGATACA
1 TGTATCGATACA
943621 TTGCTTCAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:944331 original size:33 final size:32
Alignment explanation
Indices: 944294--944356 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 32
944284 GCCCTTATAT
944294 TTGCATATTTTATTAATATGCATATTTTATTAA
1 TTGCATATTTTATTAAT-TGCATATTTTATTAA
944327 TTGCATATTTTATTAATTGCATATTTTATT
1 TTGCATATTTTATTAATTGCATATTTTATT
944357 TGCATATTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 13 0.43
33 17 0.57
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.57
Consensus pattern (32 bp):
TTGCATATTTTATTAATTGCATATTTTATTAA
Found at i:944333 original size:16 final size:16
Alignment explanation
Indices: 944294--944356 Score: 117
Period size: 16 Copynumber: 3.9 Consensus size: 16
944284 GCCCTTATAT
944294 TTGCATATTTTATTAA
1 TTGCATATTTTATTAA
944310 TATGCATATTTTATTAA
1 T-TGCATATTTTATTAA
944327 TTGCATATTTTATTAA
1 TTGCATATTTTATTAA
944343 TTGCATATTTTATT
1 TTGCATATTTTATT
944357 TGCATATTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 30 0.65
17 16 0.35
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.57
Consensus pattern (16 bp):
TTGCATATTTTATTAA
Found at i:945502 original size:13 final size:13
Alignment explanation
Indices: 945484--945509 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
945474 TACAGCAAGT
945484 ATGTATCGATACA
1 ATGTATCGATACA
945497 ATGTATCGATACA
1 ATGTATCGATACA
945510 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:948678 original size:21 final size:21
Alignment explanation
Indices: 948654--948698 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
948644 GACTTAAGTT
948654 TTAGTTTTTCAAATTCGACAC
1 TTAGTTTTTCAAATTCGACAC
948675 TTAGTTTTTCAAATTCGACAC
1 TTAGTTTTTCAAATTCGACAC
948696 TTA
1 TTA
948699 CACCCTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.18, G:0.09, T:0.44
Consensus pattern (21 bp):
TTAGTTTTTCAAATTCGACAC
Found at i:956000 original size:116 final size:117
Alignment explanation
Indices: 955832--956108 Score: 319
Period size: 117 Copynumber: 2.4 Consensus size: 117
955822 TTAGAACCAC
* *
955832 GTCCTAAGTTTTATTTTCACTTTTAGGAGTTAAATCAAGTCTATAAGAATTAGTTTCACA-CTTT
1 GTCCTAAGTCTCATTTTCACTTTTAGGAGTTAAATCAAGTCTATAAGAATTAGTTTCACATCTTT
** ** * * *
955896 TTATCAAAACTGAATTGCTTAGGATTACTTTTGTACCTTT-TGTTAAAA-CTGG
66 TTATCAAAACAAAATCACTTAGGATTACTTTTGCA-CTTTCTATTAAAATC-AG
* * * * * * *
955948 GTCCTAAGTCTCATTTTCACTTTTAGTAGTTAAATCGAGTTTGTTAAG-ATTAGTTTTAGATTTT
1 GTCCTAAGTCTCATTTTCACTTTTAGGAGTTAAATCAAGTCT-ATAAGAATTAGTTTCACATCTT
* * *
956012 TTTATCAAAACAAAATCATTTAGGATTAGTTTTGCACTTTCTATTCAAATCAG
65 TTTATCAAAACAAAATCACTTAGGATTACTTTTGCACTTTCTATTAAAATCAG
*
956065 GTCCTACGTCTCATTTTCACTTTTAGGAGTTAAATCAAGTCTAT
1 GTCCTAAGTCTCATTTTCACTTTTAGGAGTTAAATCAAGTCTAT
956109 TATTAGTAGT
Statistics
Matches: 133, Mismatches: 24, Indels: 8
0.81 0.15 0.05
Matches are distributed among these distances:
116 52 0.39
117 80 0.60
118 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.43
Consensus pattern (117 bp):
GTCCTAAGTCTCATTTTCACTTTTAGGAGTTAAATCAAGTCTATAAGAATTAGTTTCACATCTTT
TTATCAAAACAAAATCACTTAGGATTACTTTTGCACTTTCTATTAAAATCAG
Found at i:956494 original size:13 final size:13
Alignment explanation
Indices: 956476--956503 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
956466 AAAACCTTTA
956476 ATTGTATCGATAC
1 ATTGTATCGATAC
956489 ATTGTATCGATAC
1 ATTGTATCGATAC
956502 AT
1 AT
956504 AAAACTGGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (13 bp):
ATTGTATCGATAC
Found at i:958659 original size:21 final size:21
Alignment explanation
Indices: 958635--958677 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
958625 TAATATTCTC
* *
958635 GAAAAGAAATTAAGTGAATTA
1 GAAAAGAAAATAAATGAATTA
958656 GAAAAGAAAATAAATGAATTA
1 GAAAAGAAAATAAATGAATTA
958677 G
1 G
958678 TGGAGAAAAG
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:0.60, C:0.00, G:0.19, T:0.21
Consensus pattern (21 bp):
GAAAAGAAAATAAATGAATTA
Found at i:959419 original size:13 final size:13
Alignment explanation
Indices: 959401--959460 Score: 57
Period size: 13 Copynumber: 4.1 Consensus size: 13
959391 ACACACATTA
959401 TGTATCGATACAT
1 TGTATCGATACAT
959414 TGTATCGATACAT
1 TGTATCGATACAT
959427 CCCAAAATGTATCGATACAT
1 -------TGTATCGATACAT
959447 TGTATCGATACAT
1 TGTATCGATACAT
959460 T
1 T
959461 TGGCTTGTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 27 0.68
20 13 0.32
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:959442 original size:33 final size:33
Alignment explanation
Indices: 959381--959459 Score: 124
Period size: 33 Copynumber: 2.4 Consensus size: 33
959371 CCTTAACTAT
**
959381 TTGTATCGATACA-CACATTATGTATCGATACA
1 TTGTATCGATACATCACAAAATGTATCGATACA
*
959413 TTGTATCGATACATCCCAAAATGTATCGATACA
1 TTGTATCGATACATCACAAAATGTATCGATACA
959446 TTGTATCGATACAT
1 TTGTATCGATACAT
959460 TTGGCTTGTA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
32 13 0.30
33 30 0.70
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (33 bp):
TTGTATCGATACATCACAAAATGTATCGATACA
Found at i:961793 original size:10 final size:10
Alignment explanation
Indices: 961778--961804 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
961768 CGAGTTAAGA
961778 TGTTCATCAC
1 TGTTCATCAC
961788 TGTTCATCAC
1 TGTTCATCAC
961798 TGTTCAT
1 TGTTCAT
961805 ATATCACTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.26, G:0.11, T:0.44
Consensus pattern (10 bp):
TGTTCATCAC
Found at i:966064 original size:41 final size:41
Alignment explanation
Indices: 966019--966143 Score: 205
Period size: 41 Copynumber: 3.0 Consensus size: 41
966009 CCTGAAATCA
* **
966019 AATTCAGAAGCAAGCTCACTACCCAAAAATTGACTAGCCTT
1 AATTCAGAATCAAGCTCACTACCCACCAATTGACTAGCCTT
*
966060 AATTCAGAATCAAGCTCACTGCCCACCAATTGACTAGCCTT
1 AATTCAGAATCAAGCTCACTACCCACCAATTGACTAGCCTT
*
966101 AATTCAGAATCAAGCTCACTACCCTCCAATTGACTAGCCTT
1 AATTCAGAATCAAGCTCACTACCCACCAATTGACTAGCCTT
966142 AA
1 AA
966144 ACAATTAGTG
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 78 1.00
ACGTcount: A:0.35, C:0.30, G:0.11, T:0.24
Consensus pattern (41 bp):
AATTCAGAATCAAGCTCACTACCCACCAATTGACTAGCCTT
Found at i:971198 original size:59 final size:59
Alignment explanation
Indices: 971127--971382 Score: 190
Period size: 58 Copynumber: 4.4 Consensus size: 59
971117 TATCAAATAT
* * * *
971127 TATTGTGT-ATTTTCATGCATTTTTAGGACATTTAAGTCATTTTTCATGATTTAGGTAC
1 TATTTTGTCATTTTCATGCATTTTTAGGCCATTTAAGTCATTTTTCATGACTTAGGGAC
* * * ** * *
971185 TATTATGTCATTTT-AAGTA-TTTTAGGGTTATTTTAGTCAATTTTCATGACTTAGGGAC
1 TATTTTGTCATTTTCATGCATTTTTA-GGCCATTTAAGTCATTTTTCATGACTTAGGGAC
* * * *
971243 CATTTTGTCA-TTTCATGCATTCTATA-GCCATTTTAA-TCATTTTCCATGACTTCGGGAC
1 TATTTTGTCATTTTCATGCATT-TTTAGGCCA-TTTAAGTCATTTTTCATGACTTAGGGAC
* * * * *
971301 TATTTTTGT-GTTTTCATGCA-TTTAAGGTCCATTTCAGTCA-TTTTCAATGATTTACGGAC
1 TA-TTTTGTCATTTTCATGCATTTTTAGG-CCATTTAAGTCATTTTTC-ATGACTTAGGGAC
* *
971360 TATTTTG-CAATTCCATGCATTTT
1 TATTTTGTCATTTTCATGCATTTT
971383 AACATCATTT
Statistics
Matches: 152, Mismatches: 32, Indels: 27
0.72 0.15 0.13
Matches are distributed among these distances:
57 10 0.07
58 93 0.61
59 46 0.30
60 3 0.02
ACGTcount: A:0.23, C:0.14, G:0.14, T:0.48
Consensus pattern (59 bp):
TATTTTGTCATTTTCATGCATTTTTAGGCCATTTAAGTCATTTTTCATGACTTAGGGAC
Found at i:978521 original size:13 final size:13
Alignment explanation
Indices: 978481--978535 Score: 59
Period size: 13 Copynumber: 4.7 Consensus size: 13
978471 CCGTTACAAG
978481 CAATGTATCGATA
1 CAATGTATCGATA
978494 CAA--T-TC-AT-
1 CAATGTATCGATA
978502 C-ATGTATCGATA
1 CAATGTATCGATA
978514 CAATGTATCGATA
1 CAATGTATCGATA
*
978527 CATTGTATC
1 CAATGTATC
978536 ATGTATCGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.09
10 4 0.11
11 3 0.09
12 1 0.03
13 22 0.63
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.35
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:978521 original size:33 final size:33
Alignment explanation
Indices: 978481--978549 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
978471 CCGTTACAAG
978481 CAATGTATCGATACAATT-CATCATGTATCGATA
1 CAATGTATCGATAC-ATTGCATCATGTATCGATA
*
978514 CAATGTATCGATACATTGTATCATGTATCGATA
1 CAATGTATCGATACATTGCATCATGTATCGATA
978547 CAA
1 CAA
978550 ATAGTGGTAG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
32 3 0.09
33 31 0.91
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.33
Consensus pattern (33 bp):
CAATGTATCGATACATTGCATCATGTATCGATA
Found at i:978612 original size:19 final size:20
Alignment explanation
Indices: 978578--978631 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
978568 CTGCCAATCT
* * **
978578 CATGTATTGGTACAATTGTC
1 CATGTATCGATACAATTGAA
978598 CATGTATC-ATACAA-TGAA
1 CATGTATCGATACAATTGAA
978616 CATGTATCGATACAAT
1 CATGTATCGATACAAT
978632 GTATCGATAC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 10 0.36
19 11 0.39
20 7 0.25
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:978635 original size:13 final size:13
Alignment explanation
Indices: 978617--978643 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
978607 TACAATGAAC
978617 ATGTATCGATACA
1 ATGTATCGATACA
978630 ATGTATCGATACA
1 ATGTATCGATACA
978643 A
1 A
978644 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:979238 original size:20 final size:22
Alignment explanation
Indices: 979186--979261 Score: 63
Period size: 22 Copynumber: 3.5 Consensus size: 22
979176 AGTTTTCGTT
*
979186 TTTCTCCCCCTTAATTAAAGAAA
1 TTTCTCCCCTTTAA-TAAAGAAA
*
979209 -TTCTCTCCTTTAA-AAA-AAA
1 TTTCTCCCCTTTAATAAAGAAA
*
979228 TTTCTCCCC-TTAATCAAAG-CA
1 TTTCTCCCCTTTAAT-AAAGAAA
979249 TTTCTCCTCCTTT
1 TTTCTCC-CCTTT
979262 GTCAAATATT
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
19 7 0.16
20 10 0.23
21 11 0.26
22 13 0.30
23 2 0.05
ACGTcount: A:0.29, C:0.29, G:0.03, T:0.39
Consensus pattern (22 bp):
TTTCTCCCCTTTAATAAAGAAA
Found at i:984894 original size:13 final size:13
Alignment explanation
Indices: 984876--984903 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
984866 ATACAAAGAT
984876 CAATGTATCGATA
1 CAATGTATCGATA
984889 CAATGTATCGATA
1 CAATGTATCGATA
984902 CA
1 CA
984904 TTTGAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:984983 original size:33 final size:33
Alignment explanation
Indices: 984946--985010 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
984936 TAGCTTAAAA
984946 TGTATCGATACAAAAAAATATGTATCGATACAT
1 TGTATCGATACAAAAAAATATGTATCGATACAT
* ***
984979 TGTATCGATACAACATTTTATGTATCGATACA
1 TGTATCGATACAAAAAAATATGTATCGATACA
985011 AATTGTTGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAAAAAAATATGTATCGATACAT
Found at i:984984 original size:13 final size:13
Alignment explanation
Indices: 984966--984990 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
984956 CAAAAAAATA
984966 TGTATCGATACAT
1 TGTATCGATACAT
984979 TGTATCGATACA
1 TGTATCGATACA
984991 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:989645 original size:13 final size:13
Alignment explanation
Indices: 989605--989652 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
989595 CCGTTACAAG
989605 CAATGTATCGATA
1 CAATGTATCGATA
989618 CAA--T-TC-AT-
1 CAATGTATCGATA
989626 C-ATGTATCGATA
1 CAATGTATCGATA
989638 CAATGTATCGATA
1 CAATGTATCGATA
989651 CA
1 CA
989653 TTATACCACG
Statistics
Matches: 29, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.10
10 4 0.14
11 3 0.10
12 1 0.03
13 16 0.55
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:989645 original size:33 final size:32
Alignment explanation
Indices: 989605--989673 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 32
989595 CCGTTACAAG
*
989605 CAATGTATCGATACAATTCAT-CATGTATCGATA
1 CAATGTATCGATAC-ATT-ATACACGTATCGATA
989638 CAATGTATCGATACATTATACCACGTATCGATA
1 CAATGTATCGATACATTATA-CACGTATCGATA
989671 CAA
1 CAA
989674 ATAGTGGTAG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
31 2 0.06
32 3 0.09
33 28 0.85
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (32 bp):
CAATGTATCGATACATTATACACGTATCGATA
Found at i:989658 original size:20 final size:20
Alignment explanation
Indices: 989635--989672 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
989625 TCATGTATCG
*
989635 ATACAATGTATCGATACATT
1 ATACAACGTATCGATACATT
*
989655 ATACCACGTATCGATACA
1 ATACAACGTATCGATACA
989673 AATAGTGGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (20 bp):
ATACAACGTATCGATACATT
Found at i:989741 original size:13 final size:13
Alignment explanation
Indices: 989723--989749 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
989713 ATAATTGTCC
989723 ATGTATCGATACA
1 ATGTATCGATACA
989736 ATGTATCGATACA
1 ATGTATCGATACA
989749 A
1 A
989750 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:991835 original size:29 final size:29
Alignment explanation
Indices: 991803--991911 Score: 98
Period size: 29 Copynumber: 3.8 Consensus size: 29
991793 AGTTATCTTG
991803 TGTGTTTTAGCTGACTTTTAATTTCATTT
1 TGTGTTTTAGCTGACTTTTAATTTCATTT
*
991832 TGTG-TTTA-CTTGACTTTTAA-TTCCTTT
1 TGTGTTTTAGC-TGACTTTTAATTTCATTT
** * ** *
991859 CAATATTTTATTTGACTTTTAATTTCTTTT
1 -TGTGTTTTAGCTGACTTTTAATTTCATTT
* *
991889 TGTGGTTTAGTTGACTTTTAATT
1 TGTGTTTTAGCTGACTTTTAATT
991912 CTTTAGCTTT
Statistics
Matches: 64, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
27 7 0.11
28 15 0.23
29 36 0.56
30 6 0.09
ACGTcount: A:0.18, C:0.10, G:0.12, T:0.60
Consensus pattern (29 bp):
TGTGTTTTAGCTGACTTTTAATTTCATTT
Found at i:993541 original size:27 final size:27
Alignment explanation
Indices: 993503--993568 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
993493 TTAAAAGTGG
* * *
993503 GGTTAGAGTATCTCCTCGGAAGGATGA
1 GGTTGGAGTATCTCCTCGGAAAGACGA
*
993530 GGTTGGAGTATCTCCTCGGAAAGACGG
1 GGTTGGAGTATCTCCTCGGAAAGACGA
993557 GGTTGGAGTATC
1 GGTTGGAGTATC
993569 CCCGATGAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.23, C:0.15, G:0.36, T:0.26
Consensus pattern (27 bp):
GGTTGGAGTATCTCCTCGGAAAGACGA
Found at i:996433 original size:52 final size:51
Alignment explanation
Indices: 996287--996980 Score: 274
Period size: 52 Copynumber: 13.9 Consensus size: 51
996277 GGAGAATGAT
* * * * *** * * *
996287 AAAGGTGCCAATATACTAATTTAAGACCATTAACATTGGACTTGAAGATGAC
1 AAAGGTGCCAATATGCTAATTCAAGGCTAGCGACATTGGACTT-AAAAAGAA
* * *
996339 AAAGGTGCCAATATGCTGATT--AGAGCTAGCAATATTGGACTTAAGAAAGAA
1 AAAGGTGCCAATATGCTAATTCAAG-GCTAGCGACATTGGACTTAA-AAAGAA
* * *
996390 AAAGGTGCCAATGTGCTAATTCAAGGCTAGCGACATTAGACTTAAAGATGACA
1 AAAGGTGCCAATATGCTAATTCAAGGCTAGCGACATTGGACTTAAA-AAGA-A
* *
996443 AAA-GCGCCAATATGC-AGATTCAAGGCTAGCGATATTGGACTTAACAAAGAA
1 AAAGGTGCCAATATGCTA-ATTCAAGGCTAGCGACATTGGACTTAA-AAAGAA
* * * * * * * * **
996494 GAAGGTGCCAATGTGTTGATTCAAGGCCAGCCACATTGGACTTAATGATGGC
1 AAAGGTGCCAATATGCTAATTCAAGGCTAGCGACATTGGACTTAA-AAAGAA
* * * * * *
996546 AAAGGCGCTAATATGCTTATTCAAGGCCT-GTGATATTGGGCTT--------
1 AAAGGTGCCAATATGCTAATTCAAGG-CTAGCGACATTGGACTTAAAAAGAA
* * * *
996589 ----GTGCTAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAGAAAGAA
1 AAAGGTGCCAATATGCTAATTCAAGGCTAGCGACATTGGACTTAA-AAAGAA
* * * * * * * * *
996637 AAATGTGTCAATGTGCTGATTTAAGGCCAGTGACATTAGACTT--AAAGAT
1 AAAGGTGCCAATATGCTAATTCAAGGCTAGCGACATTGGACTTAAAAAGAA
* * * * * *
996686 GAAGATGCCAATGTGCTGATTCAAGGCTAGCGACATTGGAGTT--AAAGAT
1 AAAGGTGCCAATATGCTAATTCAAGGCTAGCGACATTGGACTTAAAAAGAA
* * * * * * ** **
996735 GAAGTTGCTAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGTTGGT
1 AAAGGTGCCAATATGCTAATTCAAGGCTAGCGACATTGGACTTAAA-AAGAA
* ** * * **
996787 AAAGGTGTCAATATGCCGATTCAAGGCTAGTGATATTAAACTT---AAG-A
1 AAAGGTGCCAATATGCTAATTCAAGGCTAGCGACATTGGACTTAAAAAGAA
* * * * * * * *
996834 AAA--TACCAATGTGTTGATTCAAGGCCAGTGACATTGGACTTAAAGATGAC
1 AAAGGTGCCAATATGCTAATTCAAGGCTAGCGACATTGGACTTAAA-AAGAA
* * * * * *
996884 CAAGGTGCCAACATGCTGATTCAAGGCCAGCGATATTGGACTTAAGAA-AA
1 AAAGGTGCCAATATGCTAATTCAAGGCTAGCGACATTGGACTTAAAAAGAA
* * * ** *
996934 AAAGATGCCAATGTGATAATTCAAGGCTAATGACATTGGGCTTAAAA
1 AAAGGTGCCAATATGCTAATTCAAGGCTAGCGACATTGGACTTAAAA
996981 GAAGATGCCA
Statistics
Matches: 484, Mismatches: 123, Indels: 72
0.71 0.18 0.11
Matches are distributed among these distances:
38 1 0.00
39 30 0.06
45 29 0.06
47 3 0.01
48 1 0.00
49 86 0.18
50 42 0.09
51 42 0.09
52 242 0.50
53 8 0.02
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.26
Consensus pattern (51 bp):
AAAGGTGCCAATATGCTAATTCAAGGCTAGCGACATTGGACTTAAAAAGAA
Found at i:996506 original size:104 final size:104
Alignment explanation
Indices: 996287--996572 Score: 342
Period size: 104 Copynumber: 2.8 Consensus size: 104
996277 GGAGAATGAT
* * * * *** * *
996287 AAAGGTGCCAATATACTAATTTAAGACCATTAACATTGGACTTGAAGATGACAAAGGTGCCAATA
1 AAAGGTGCCAATGTGCTAATTCAAGGCCAGCCACATTGGACTTAAAGATGACAAAGGCGCCAATA
*
996352 TGCTGATT--AGAGCTAGCAATATTGGACTTAAGAAAGAA
66 TGCTGATTCAAG-GCTAGCAATATTGGACTTAACAAAGAA
* * * *
996390 AAAGGTGCCAATGTGCTAATTCAAGGCTAGCGACATTAGACTTAAAGATGACAAAAGCGCCAATA
1 AAAGGTGCCAATGTGCTAATTCAAGGCCAGCCACATTGGACTTAAAGATGACAAAGGCGCCAATA
* *
996455 TGCAGATTCAAGGCTAGCGATATTGGACTTAACAAAGAA
66 TGCTGATTCAAGGCTAGCAATATTGGACTTAACAAAGAA
* * * * * *
996494 GAAGGTGCCAATGTGTTGATTCAAGGCCAGCCACATTGGACTTAATGATGGCAAAGGCGCTAATA
1 AAAGGTGCCAATGTGCTAATTCAAGGCCAGCCACATTGGACTTAAAGATGACAAAGGCGCCAATA
*
996559 TGCTTATTCAAGGC
66 TGCTGATTCAAGGC
996573 CTGTGATATT
Statistics
Matches: 154, Mismatches: 27, Indels: 3
0.84 0.15 0.02
Matches are distributed among these distances:
103 60 0.39
104 92 0.60
105 2 0.01
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (104 bp):
AAAGGTGCCAATGTGCTAATTCAAGGCCAGCCACATTGGACTTAAAGATGACAAAGGCGCCAATA
TGCTGATTCAAGGCTAGCAATATTGGACTTAACAAAGAA
Found at i:996703 original size:49 final size:49
Alignment explanation
Indices: 996594--996990 Score: 304
Period size: 52 Copynumber: 8.0 Consensus size: 49
996584 GGCTTGTGCT
* * * * * *
996594 AATGTGCTAATTCAAGGCCAGCGACATTGGTCTT-AAGAAAGAAAAATGTGTC
1 AATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAG-ATG-AAGA--TGCC
* *
996646 AATGTGCTGATTTAAGGCCAGTGACATTAGACTTAAAGATGAAGATGCC
1 AATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATGAAGATGCC
* * * * *
996695 AATGTGCTGATTCAAGGCTAGCGACATTGGAGTTAAAGATGAAGTTGCT
1 AATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATGAAGATGCC
* * * *
996744 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGTTGGTAAAGGTGTC
1 AATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAGAT-G--AAGATGCC
* * * * ** *
996796 AATATGCCGATTCAAGGCTAGTGATATTAAACTT-AAGA--AA-ATACC
1 AATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATGAAGATGCC
* *
996841 AATGTGTTGATTCAAGGCCAGTGACATTGGACTTAAAGATGACCAAGGTGCC
1 AATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATG---AAGATGCC
** * * * **
996893 AACATGCTGATTCAAGGCCAGCGATATTGGACTTAAGAAAAAAAGATGCC
1 AATGTGCTGATTCAAGGCCAGTGACATTGGACTTAA-AGATGAAGATGCC
* * * * *
996943 AATGTGATAATTCAAGGCTAATGACATTGGGCTTAAA-A-GAAGATGCC
1 AATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATGAAGATGCC
996990 A
1 A
996991 CCAACTTATG
Statistics
Matches: 273, Mismatches: 60, Indels: 29
0.75 0.17 0.08
Matches are distributed among these distances:
45 29 0.11
46 6 0.02
47 9 0.03
48 1 0.00
49 83 0.30
50 35 0.13
51 8 0.03
52 97 0.36
53 5 0.02
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.25
Consensus pattern (49 bp):
AATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATGAAGATGCC
Found at i:996857 original size:247 final size:242
Alignment explanation
Indices: 996372--996985 Score: 642
Period size: 247 Copynumber: 2.5 Consensus size: 242
996362 AGCTAGCAAT
* *
996372 ATTGGACTTAAGAAAGAAAAAGGTGCCAATGTGCTAATTCAAGGCTAGCGACATTAGACTTAAAG
1 ATTGGACTTAAGAAAGAAAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAG
* * * * *
996437 ATGACAAAAGCGCCAATATGCAGATTCAAGGCTAGCGATATTGGACTTAACAAAGAAGAAGGTGC
66 ATG--AAGA-TGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTT-A-AAAGAAGAAGGTGC
* * **
996502 CAATGTGTTGATTCAAGGCCAGCCACATTGGACTTAATGATGGCAAAGGCGCTAATATGCTTATT
126 CAATGTGCTGATTCAAGGCCAGCCACATTGGACTTAAAGATGGCAAAGGCGCTAATATGCCGATT
*** * *
996567 CAAGGCCTGTGATATTGGGCTTGTGCTAATGTGCTAATTCAAGGCCAGCGAC
191 CAAGGCCTGTGATATTAAACTTGTACCAATGTGCTAATTCAAGGCCAGCGAC
* * * * *
996619 ATTGGTCTTAAGAAAGAAAAATGTGTCAATGTGCTGATTTAAGGCCAGTGACATTAGACTTAAAG
1 ATTGGACTTAAGAAAGAAAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAG
* * * *
996684 ATGAAGATGCCAATGTGCTGATTCAAGGCTAGCGACATTGGAGTT-AAAGATGAAGTTGCTAATG
66 ATGAAGATGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAAGAAGAAGGTGCCAATG
* * * *
996748 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGTTGGTAAAGGTG-TCAATATGCCGATTCAAG
131 TGCTGATTCAAGGCCAGCCACATTGGACTTAAAGATGGCAAAGGCGCT-AATATGCCGATTCAAG
* * *
996812 G-CTAGTGATATTAAACTTAAGAAAATACCAATGTGTTGATTCAAGGCCAGTGAC
195 GCCT-GTGATATTAAACTT--G----TACCAATGTGCTAATTCAAGGCCAGCGAC
* ** ** * *
996866 ATTGGACTTAA-AGATGACCAAGGTGCCAACATGCTGATTCAAGGCCAGCGATATTGGACTTAAG
1 ATTGGACTTAAGA-AAGAAAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAA-
* ** * * ** *
996930 AAAAAAAGATGCCAATGTGATAATTCAAGGCTAATGACATTGGGCTTAAAAGAAGA
64 AGATGAAGATGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAAGAAGA
996986 TGCCACCAAC
Statistics
Matches: 302, Mismatches: 54, Indels: 20
0.80 0.14 0.05
Matches are distributed among these distances:
240 3 0.01
241 82 0.27
243 1 0.00
244 33 0.11
245 3 0.01
246 1 0.00
247 134 0.44
248 38 0.13
249 7 0.02
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.25
Consensus pattern (242 bp):
ATTGGACTTAAGAAAGAAAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAG
ATGAAGATGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAAGAAGAAGGTGCCAATG
TGCTGATTCAAGGCCAGCCACATTGGACTTAAAGATGGCAAAGGCGCTAATATGCCGATTCAAGG
CCTGTGATATTAAACTTGTACCAATGTGCTAATTCAAGGCCAGCGAC
Found at i:996990 original size:97 final size:99
Alignment explanation
Indices: 996598--996990 Score: 345
Period size: 97 Copynumber: 4.0 Consensus size: 99
996588 TGTGCTAATG
* * * *
996598 TGCTAATTCAAGGCCAGCGACATTGGTCTTAAGAAAGAAAAATGTGTCAATGTGCTGATTTAAGG
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAGAAA-AAAAA--TGCCAATGTGCTGATTCAAGG
* *
996663 CCAGTGACATTAGACTTAAAGATG-AAGATGCCAATG
63 CCAGTGACATTGGACTTAAAGATGAAAGATGCCAATA
* * ** ** *
996699 TGCTGATTCAAGGCTAGCGACATTGGAGTTAA-AGATGAAGTTGCTAATGTGCTGATTCAAGGCC
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAGA-AAAAAAATGCCAATGTGCTGATTCAAGGCC
* * * *
996763 AGCGACATTGGACTTAAAGTTGGTAAAGGTGTCAATA
65 AGTGACATTGGACTTAAAGAT-G-AAAGATGCCAATA
* * * * ** * *
996800 TGCCGATTCAAGGCTAGTGATATTAAACTTAAG----AAAATACCAATGTGTTGATTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAGAAAAAAAATGCCAATGTGCTGATTCAAGGCCA
* *
996861 GTGACATTGGACTTAAAGATGACCAAGGTGCCAACA
66 GTGACATTGGACTTAAAGATGA--AAGATGCCAATA
* * * *
996897 TGCTGATTCAAGGCCAGCGATATTGGACTTAAGAAAAAAAGATGCCAATGTGATAATTCAAGGCT
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAGAAAAAAA-ATGCCAATGTGCTGATTCAAGGCC
* *
996962 AATGACATTGGGCTTAAA-A-G-AAGATGCCA
65 AGTGACATTGGACTTAAAGATGAAAGATGCCA
996991 CCAACTTATG
Statistics
Matches: 236, Mismatches: 44, Indels: 28
0.77 0.14 0.09
Matches are distributed among these distances:
95 1 0.00
96 1 0.00
97 87 0.37
98 38 0.16
99 1 0.00
100 4 0.02
101 68 0.29
102 36 0.15
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.25
Consensus pattern (99 bp):
TGCTGATTCAAGGCCAGCGACATTGGACTTAAGAAAAAAAATGCCAATGTGCTGATTCAAGGCCA
GTGACATTGGACTTAAAGATGAAAGATGCCAATA
Found at i:997317 original size:27 final size:27
Alignment explanation
Indices: 997279--997338 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
997269 CTTTGAAAAG
* * *
997279 AAAAAGGTGCCACAGAGTTATGGATTT
1 AAAAGGGTGCCACAGAGTTATGAACTT
* *
997306 AAAAGGGTGCCACGGAGTTGTGAACTT
1 AAAAGGGTGCCACAGAGTTATGAACTT
997333 AAAAGG
1 AAAAGG
997339 AAAAACGGTG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.37, C:0.12, G:0.30, T:0.22
Consensus pattern (27 bp):
AAAAGGGTGCCACAGAGTTATGAACTT
Found at i:997358 original size:34 final size:32
Alignment explanation
Indices: 997274--998056 Score: 413
Period size: 34 Copynumber: 24.5 Consensus size: 32
997264 TTGGGCTTTG
* *
997274 AAAAGAAAAAGGTGCCACAGAGTTATGGATTT
1 AAAAGAAAAAGGTGCCACAGAGTTGTGGACTT
* *
997306 AAAAG-----GGTGCCACGGAGTTGTGAACTT
1 AAAAGAAAAAGGTGCCACAGAGTTGTGGACTT
*
997333 AAAAGGAAAAACGGTGCCACAGAGTTATAGG-CTTT
1 AAAA-GAAAAA-GGTGCCACAGAGTTGT-GGAC-TT
997368 GAAAAGAAAAAGGTGCCAC-GAAGTTGTGGACTT
1 -AAAAGAAAAAGGTGCCACAG-AGTTGTGGACTT
* * *
997401 AAAAG-----GGTGCCATAGAATTGTGAACTTTT
1 AAAAGAAAAAGGTGCCACAGAGTTGTGGAC--TT
* * * *
997430 AGAAGAAAAAGGGTGCCACGGAATTAT-GAGCTTT
1 AAAAGAAAAA-GGTGCCACAGAGTTGTGGA-C-TT
* * *
997464 GAAAAGAAAAAGGTGTCACGGAGTTATGGACTT
1 -AAAAGAAAAAGGTGCCACAGAGTTGTGGACTT
* * *
997497 AAAAGGAAAAGAGTGCCACAGAGTTATGGGCTTT
1 AAAAGAAAAAG-GTGCCACAGAGTTGTGGAC-TT
* *
997531 GAAAAGAAAAAGGTACCACAGTGTTGTGGACTT
1 -AAAAGAAAAAGGTGCCACAGAGTTGTGGACTT
*
997564 AAAAGGAAAAAGGTGCTACAGAGTTGTGGACTT
1 AAAA-GAAAAAGGTGCCACAGAGTTGTGGACTT
* * *
997597 ----G-AATAGGTGCCACAGAGTTATGGATTTTT
1 AAAAGAAAAAGGTGCCACAGAGTTGTGGA--CTT
* * * *
997626 AGAGGAAAAAAGGTGCCACAAAGTTGTGGGCTTT
1 AAAAG-AAAAAGGTGCCACAGAGTTGTGGAC-TT
*
997660 GAAAAGAAAAAGGTGCCATAGAGTTGTGGACTT
1 -AAAAGAAAAAGGTGCCACAGAGTTGTGGACTT
* * * *
997693 AAAAG-----GGTGCCACAAAATTGTGGGCAT
1 AAAAGAAAAAGGTGCCACAGAGTTGTGGACTT
* * *
997720 AAAAGAAACAAGGTTCCATAGAGTTGTAGACTT
1 AAAAGAAA-AAGGTGCCACAGAGTTGTGGACTT
* *
997753 -----AAAAAGGTGCCACAGAATTGTGGGCTTT
1 AAAAGAAAAAGGTGCCACAGAGTTGTGGAC-TT
* * *
997781 GAAAAGAAAAAGGTGTCACGGAGTTATGGACTT
1 -AAAAGAAAAAGGTGCCACAGAGTTGTGGACTT
* *
997814 AAAAG-----GGTGCCACGGAGTTATGGACTT
1 AAAAGAAAAAGGTGCCACAGAGTTGTGGACTT
*
997841 AAAAG-----GGTGCCACGGAGTTGTGGACTTTT
1 AAAAGAAAAAGGTGCCACAGAGTTGTGGAC--TT
** * * *
997870 GGAAGAGAAAATGTGCCAC-GAAGTTATGGGCTTT
1 AAAAGA-AAAAGGTGCCACAG-AGTTGTGGAC-TT
*
997904 GAAAAGAAAAAAGTGCCACAGAGTTGTGGACTT
1 -AAAAGAAAAAGGTGCCACAGAGTTGTGGACTT
* * *
997937 AAAGGGAAAAAGGGTGCCACGGAGTTGTGGGCTTT
1 AAA-AGAAAAA-GGTGCCACAGAGTTGTGGAC-TT
* * *
997972 GAAAAGAAAAAAGTGCCACAGAGTTATGGACAT
1 -AAAAGAAAAAGGTGCCACAGAGTTGTGGACTT
*
998005 AAAAGGAAAAAGGATGCCACTA-AGTCGTGGACTT
1 AAAA-GAAAAAGG-TGCCAC-AGAGTTGTGGACTT
**
998039 GGAAGAAAAAGGATGCCA
1 AAAAGAAAAAGG-TGCCA
998057 TTGAGTCATG
Statistics
Matches: 587, Mismatches: 95, Indels: 137
0.72 0.12 0.17
Matches are distributed among these distances:
27 141 0.24
28 8 0.01
29 13 0.02
32 41 0.07
33 100 0.17
34 182 0.31
35 95 0.16
36 7 0.01
ACGTcount: A:0.37, C:0.12, G:0.29, T:0.21
Consensus pattern (32 bp):
AAAAGAAAAAGGTGCCACAGAGTTGTGGACTT
Found at i:997421 original size:27 final size:27
Alignment explanation
Indices: 997374--997427 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
997364 CTTTGAAAAG
* *
997374 AAAAAGGTGCCACGAAGTTGTGGACTT
1 AAAAAGGTGCCAAGAAGTTGTGAACTT
*
997401 AAAAGGGTGCCATAGAA-TTGTGAACTT
1 AAAAAGGTGCCA-AGAAGTTGTGAACTT
997428 TTAGAAGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 20 0.87
28 3 0.13
ACGTcount: A:0.35, C:0.13, G:0.28, T:0.24
Consensus pattern (27 bp):
AAAAAGGTGCCAAGAAGTTGTGAACTT
Found at i:997447 original size:35 final size:35
Alignment explanation
Indices: 997401--997551 Score: 130
Period size: 35 Copynumber: 4.4 Consensus size: 35
997391 TTGTGGACTT
* * * *
997401 AAAAGGGTGCCATAGAATTGTGAACTTTTAGAAGA
1 AAAAGGGTGCCACAGAATTATGAACTTTGAAAAGA
* *
997436 AAAAGGGTGCCACGGAATTATGAGCTTTGAAAAGA
1 AAAAGGGTGCCACAGAATTATGAACTTTGAAAAGA
* * * * *
997471 AAAA-GGTGTCACGGAGTTATGGAC-TT-AAAAGG
1 AAAAGGGTGCCACAGAATTATGAACTTTGAAAAGA
* * **
997503 AAAAGAGTGCCACAGAGTTATGGGCTTTGAAAAGA
1 AAAAGGGTGCCACAGAATTATGAACTTTGAAAAGA
*
997538 AAAA-GGTACCACAG
1 AAAAGGGTGCCACAG
997552 TGTTGTGGAC
Statistics
Matches: 95, Mismatches: 18, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
32 9 0.09
33 18 0.19
34 26 0.27
35 42 0.44
ACGTcount: A:0.40, C:0.11, G:0.28, T:0.21
Consensus pattern (35 bp):
AAAAGGGTGCCACAGAATTATGAACTTTGAAAAGA
Found at i:997494 original size:96 final size:95
Alignment explanation
Indices: 997223--997714 Score: 365
Period size: 96 Copynumber: 5.1 Consensus size: 95
997213 TACCGCGAAG
* *
997223 TTGTGGACTTAAAAGGAAAAA-GGTGCCACAGAGTTATGGACTTGGGCTTTGAAAAGAAAAAGGT
1 TTGTGAACTTAAAAGGAAAAACGGTGCCACAGAATTAT--A----GGCTTTGAAAAGAAAAAGGT
* * * *
997287 GCCACAGAGTTATGGATTTAAAAGGGTGCCACGGAG
60 GCCACGGAGTTATGGACTTAAAAGGGTGCCACAGAA
*
997323 TTGTGAACTTAAAAGGAAAAACGGTGCCACAGAGTTATAGGCTTTGAAAAGAAAAAGGTGCCACG
1 TTGTGAACTTAAAAGGAAAAACGGTGCCACAGAATTATAGGCTTTGAAAAGAAAAAGGTGCCACG
* * *
997388 AAGTTGTGGACTTAAAAGGGTGCCATAGAA
66 GAGTTATGGACTTAAAAGGGTGCCACAGAA
* * * *
997418 TTGTGAACTTTTAGAA-GAAAAAGGGTGCCACGGAATTAT-GAGCTTTGAAAAGAAAAAGGTGTC
1 TTGTGAAC--TTAAAAGGAAAAACGGTGCCACAGAATTATAG-GCTTTGAAAAGAAAAAGGTGCC
*
997481 ACGGAGTTATGGACTTAAAAGGAAAAGAGTGCCACAGAG
63 ACGGAGTTATGGACTTAAAA-G----G-GTGCCACAGAA
* ** * ** *
997520 TTATGGGCTTTGAAAA-GAAAAA-GGTACCACAGTGTTGT-GGAC-TT-AAAAGGAAAAAGGTGC
1 TTGTGAAC-TT-AAAAGGAAAAACGGTGCCACAGAATTATAGG-CTTTGAAAA-GAAAAAGGTGC
* * * * *
997580 TACAGAGTTGTGGACTTGAATA-GGTGCCACAGAG
62 CACGGAGTTATGGACTT-AAAAGGGTGCCACAGAA
* ** * * * * *
997614 TTATGGATTTTTAGAGGAAAAAAGGTGCCACA-AAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCA
1 TTGT-GAACTTAAAAGGAAAAACGGTGCCACAGAA-TTATAGGCTTTGAAAAGAAAAAGGTGCCA
** * *
997678 TAGAGTTGTGGACTTAAAAGGGTGCCACAAAA
64 CGGAGTTATGGACTTAAAAGGGTGCCACAGAA
997710 TTGTG
1 TTGTG
997715 GGCATAAAAG
Statistics
Matches: 325, Mismatches: 45, Indels: 49
0.78 0.11 0.12
Matches are distributed among these distances:
93 2 0.01
94 23 0.07
95 77 0.24
96 102 0.31
97 10 0.03
99 5 0.02
100 47 0.14
101 36 0.11
102 23 0.07
ACGTcount: A:0.37, C:0.11, G:0.29, T:0.23
Consensus pattern (95 bp):
TTGTGAACTTAAAAGGAAAAACGGTGCCACAGAATTATAGGCTTTGAAAAGAAAAAGGTGCCACG
GAGTTATGGACTTAAAAGGGTGCCACAGAA
Found at i:997608 original size:196 final size:192
Alignment explanation
Indices: 997268--997706 Score: 484
Period size: 196 Copynumber: 2.3 Consensus size: 192
997258 ATGGACTTGG
* * *
997268 GCTTTGAAAAGAAAAAGGTGCCACAGAGTTATGGATTTAAAA-GGGTGCCACGGAGTTGTGAACT
1 GCTTTGAAAAGAAAAAGGTGCCACAGAGTTATGGACTTAAAAGGGGTGCCACAGAGTTATGAACT
*
997332 TAAAAGGAAAAACGGTGCCACAGAGTTATAGGCTTTGAAAAGAAAAAGGTGCCACGAAGTTGTGG
66 TAAAAGGAAAAACGGTACCACAGAGTTATAGGCTTTGAAAAGAAAAAGGTGCCACGAAGTTGTGG
* * * *
997397 ACTTAAAAGGGTGCCATAGAATTGTGAACTTTTAGAAGAAAAAGGGTGCCACGGAA-TTATGA
131 ACTTAAAAGGGTGCCACAGAATTATGAACTTTTAGAAGAAAAAAGGTGCCAC-AAAGTTATGA
* *
997459 GCTTTGAAAAGAAAAAGGTGTCACGGAGTTATGGACTTAAAAGGAAAAGAGTGCCACAGAGTTAT
1 GCTTTGAAAAGAAAAAGGTGCCACAGAGTTATGGACTTAAAAGG----G-GTGCCACAGAGTTAT
** * * *
997524 GGGCTTTGAAAA-GAAAAA-GGTACCACAGTGTTGT-GGAC-TT-AAAAGGAAAAAGGTGCTAC-
61 GAAC-TT-AAAAGGAAAAACGGTACCACAGAGTTATAGG-CTTTGAAAA-GAAAAAGGTGCCACG
* * * * *
997583 AGAGTTGTGGACTTGAATA-GGTGCCACAGAGTTATGGATTTTTAGAGGAAAAAAGGTGCCACAA
122 A-AGTTGTGGACTT-AAAAGGGTGCCACAGAATTATGAACTTTTAGAAGAAAAAAGGTGCCACAA
* *
997647 AGTTGTGG
185 AGTTATGA
* *
997655 GCTTTGAAAAGAAAAAGGTGCCATAGAGTTGTGGACTTAAAA-GGGTGCCACA
1 GCTTTGAAAAGAAAAAGGTGCCACAGAGTTATGGACTTAAAAGGGGTGCCACA
997707 AAATTGTGGG
Statistics
Matches: 209, Mismatches: 26, Indels: 27
0.80 0.10 0.10
Matches are distributed among these distances:
190 8 0.04
191 40 0.19
192 1 0.00
195 8 0.04
196 108 0.52
197 32 0.15
198 8 0.04
199 4 0.02
ACGTcount: A:0.37, C:0.12, G:0.29, T:0.22
Consensus pattern (192 bp):
GCTTTGAAAAGAAAAAGGTGCCACAGAGTTATGGACTTAAAAGGGGTGCCACAGAGTTATGAACT
TAAAAGGAAAAACGGTACCACAGAGTTATAGGCTTTGAAAAGAAAAAGGTGCCACGAAGTTGTGG
ACTTAAAAGGGTGCCACAGAATTATGAACTTTTAGAAGAAAAAAGGTGCCACAAAGTTATGA
Found at i:997704 original size:27 final size:27
Alignment explanation
Indices: 997666--997867 Score: 125
Period size: 27 Copynumber: 7.0 Consensus size: 27
997656 CTTTGAAAAG
* *
997666 AAAAAGGTGCCATAGAGTTGTGGACTT
1 AAAAGGGTGCCACAGAGTTGTGGACTT
* * * *
997693 AAAAGGGTGCCACAAAATTGTGGGCAT
1 AAAAGGGTGCCACAGAGTTGTGGACTT
* * *
997720 AAAAGAAACAAGGTTCCATAGAGTTGTAGACTT
1 AAAAG------GGTGCCACAGAGTTGTGGACTT
* * *
997753 AAAAAGGTGCCACAGAATTGTGGGCTTT
1 AAAAGGGTGCCACAGAGTTGTGGAC-TT
* * *
997781 GAAAAGAAAAAGGTGTCACGGAGTTATGGACTT
1 -AAAAG-----GGTGCCACAGAGTTGTGGACTT
* *
997814 AAAAGGGTGCCACGGAGTTATGGACTT
1 AAAAGGGTGCCACAGAGTTGTGGACTT
*
997841 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACAGAGTTGTGGACTT
997868 TTGGAAGAGA
Statistics
Matches: 135, Mismatches: 27, Indels: 26
0.72 0.14 0.14
Matches are distributed among these distances:
27 88 0.65
28 2 0.01
29 4 0.03
32 5 0.04
33 21 0.16
34 15 0.11
ACGTcount: A:0.35, C:0.13, G:0.30, T:0.23
Consensus pattern (27 bp):
AAAAGGGTGCCACAGAGTTGTGGACTT
Done.