Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 4 of 310
Found at i:787392 original size:29 final size:30
Alignment explanation
Indices: 787353--787495 Score: 74
Period size: 35 Copynumber: 4.4 Consensus size: 30
787343 TGCGGAATAA
787353 ATACATATATTTAATTTCATATTGAATTAAT
1 ATACAT-TATTTAATTTCATATTGAATTAAT
* * *
787384 ATA-ATTATTTATTTATTCAATATATCAATGTAAA
1 ATACATTATTTA-AT-TTC-ATAT-TGAAT-TAAT
** * * *
787418 ATTATTTTGATTTAACTTGCATATTTAAATGAAT
1 A-TACATT-ATTTAA-TTTCATA-TTGAATTAAT
*
787452 AAATACATATATTTAATTTTATATTGAATTAAT
1 --ATACAT-TATTTAATTTCATATTGAATTAAT
787485 ATA-ATTATTTA
1 ATACATTATTTA
787496 TTTATTCAAT
Statistics
Matches: 84, Mismatches: 15, Indels: 28
0.66 0.12 0.22
Matches are distributed among these distances:
29 12 0.14
30 5 0.06
31 9 0.11
32 4 0.05
33 12 0.14
34 11 0.13
35 18 0.21
36 7 0.08
37 6 0.07
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.49
Consensus pattern (30 bp):
ATACATTATTTAATTTCATATTGAATTAAT
Found at i:789024 original size:14 final size:14
Alignment explanation
Indices: 788993--789036 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
788983 TAATAGGGTG
788993 TATTATAATTTAAA
1 TATTATAATTTAAA
* **
789007 TATTTTAATTTATC
1 TATTATAATTTAAA
789021 TATTATAATTTTAAA
1 TATTATAA-TTTAAA
789036 T
1 T
789037 TATCTTTATA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
14 18 0.78
15 5 0.22
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (14 bp):
TATTATAATTTAAA
Found at i:789052 original size:19 final size:19
Alignment explanation
Indices: 789006--789054 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
788996 TATAATTTAA
*
789006 ATATTTTAATTTATCTATT
1 ATATTTTAAATTATCTATT
789025 ATAATTTTAAATTATCT-TT
1 AT-ATTTTAAATTATCTATT
789044 ATATCTTTAAA
1 ATAT-TTTAAA
789055 AAAAAAGCTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 2 0.07
19 12 0.44
20 13 0.48
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (19 bp):
ATATTTTAAATTATCTATT
Found at i:792538 original size:20 final size:20
Alignment explanation
Indices: 792515--792554 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
792505 CTGTAAGATT
792515 TTATAAAAAT-CATAAAAAAA
1 TTAT-AAAATGCATAAAAAAA
792535 TTATAAAATGCATAAAAAAA
1 TTATAAAATGCATAAAAAAA
792555 GGCCCTCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.25
Consensus pattern (20 bp):
TTATAAAATGCATAAAAAAA
Found at i:796477 original size:14 final size:16
Alignment explanation
Indices: 796446--796480 Score: 56
Period size: 14 Copynumber: 2.3 Consensus size: 16
796436 TGAATTGATG
796446 TTATTTTTACTATTTT
1 TTATTTTTACTATTTT
796462 TTATTTTTA-T-TTTT
1 TTATTTTTACTATTTT
796476 TTATT
1 TTATT
796481 ATTCTAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 1 0.05
16 9 0.47
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (16 bp):
TTATTTTTACTATTTT
Found at i:803933 original size:18 final size:18
Alignment explanation
Indices: 803910--803961 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
803900 TAAGTAAACC
*
803910 ATTAATACAAATGATACA
1 ATTAATATAAATGATACA
*
803928 ATTAATATAAA-CATTACA
1 ATTAATATAAATGA-TACA
*
803946 AATAATATAAATGATA
1 ATTAATATAAATGATA
803962 TGATAAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 1 0.04
18 26 0.93
19 1 0.04
ACGTcount: A:0.58, C:0.08, G:0.04, T:0.31
Consensus pattern (18 bp):
ATTAATATAAATGATACA
Found at i:805808 original size:176 final size:176
Alignment explanation
Indices: 805516--806480 Score: 1449
Period size: 176 Copynumber: 5.5 Consensus size: 176
805506 TGACTGGTTT
* * * ** * *
805516 AAATCTGCTCCATTGCCTATACATAGAGCTAAGATTTGCCCTCTTCGATCTG-----CTGCAACT
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATTTTCGATCTGCTCCACTGCAACT
* * ** * * *
805576 TCAGGGAAATAAGATCTTCAATCTTCAGTCTGCTCCCTTGTTACCTCAGGAAGATAAGACTCATT
66 TCAGGGAGATAAGATCTTCAATCTTCAGTCTGTTTTCTTGCTACCTCAGAAAGATAAGACTTATT
* * * *
805641 CTTCAACCTGTTCTCTTGCTACCTTAGAAAGATAAGGCTGGTGGTA
131 CTTCAACCTGCTCTCTTGCTACCTCAGAGAGATGAGGCTGGTGGTA
805687 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATTTTCGATCTGCTCCACTGCAACT
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATTTTCGATCTGCTCCACTGCAACT
* *
805752 TCAGGGAGATAAGATCTTCAATCTTCAATC-GTTTTTCTTGCTACCTCAGAAAGATAAGACTCAT
66 TCAGGGAGATAAGATCTTCAATCTTCAGTCTG-TTTTCTTGCTACCTCAGAAAGATAAGACTTAT
805816 TCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATGAGG-TGGGTGGTA
130 TCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATGAGGCT-GGTGGTA
* * *
805863 AAATCTACTCCATTGTCGATACATGGAGATGAGATTCACCATTTTCGATCTGCTCCACTGCAACT
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATTTTCGATCTGCTCCACTGCAACT
* *
805928 TCAGGGAGATAAGATCTTCAATCTTCAGTTTGCTTTCTTGCTACCTCAGAAAGATAAGACTTATT
66 TCAGGGAGATAAGATCTTCAATCTTCAGTCTGTTTTCTTGCTACCTCAGAAAGATAAGACTTATT
*
805993 CTTCAACCTGCTCTCTTGCTACTTCAGAGAGATGAGGCTGGTGGTA
131 CTTCAACCTGCTCTCTTGCTACCTCAGAGAGATGAGGCTGGTGGTA
* * * * *
806039 AAATCTACTCCATTGCTGATACATGAAGATAAGATTCACCATTTTTGATCTGCTTCACTGCAACT
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATTTTCGATCTGCTCCACTGCAACT
* *
806104 TCAGGGAGATATGATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACTTATT
66 TCAGGGAGATAAGATCTTCAATCTTCAGTCTGTTTTCTTGCTACCTCAGAAAGATAAGACTTATT
*
806169 CTTCAACCTGCTCTCTTGCTACCTCAAAGAGATGAGGCTGGTGGTA
131 CTTCAACCTGCTCTCTTGCTACCTCAGAGAGATGAGGCTGGTGGTA
* ** *
806215 AAATCTGCTCCATTGCGGATACATGGAGATAAGATTCACCATTTTTTATCTGCTCCATTGCAACT
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATTTTCGATCTGCTCCACTGCAACT
806280 TCAGGGAGATAAGATCTTCAATCTTCAGTCTGTTTTCTTGCTACCTCAGAAAGATAAGACTTATT
66 TCAGGGAGATAAGATCTTCAATCTTCAGTCTGTTTTCTTGCTACCTCAGAAAGATAAGACTTATT
* *
806345 CTTCAACCTGCTTTCTTGCTACCTCAGAGAGATGAGGCTAGTGGTA
131 CTTCAACCTGCTCTCTTGCTACCTCAGAGAGATGAGGCTGGTGGTA
* * * * *
806391 AAATTTGCTCCATTGTCGATACATGGGGATAAGATTCACCATTTTCGATCTACTCCACTACAACT
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATTTTCGATCTGCTCCACTGCAACT
*
806456 TCAGGGAGATAAAATCTTCAATCTT
66 TCAGGGAGATAAGATCTTCAATCTT
806481 TACTAATGTC
Statistics
Matches: 728, Mismatches: 57, Indels: 13
0.91 0.07 0.02
Matches are distributed among these distances:
171 45 0.06
175 2 0.00
176 679 0.93
177 2 0.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (176 bp):
AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATTTTCGATCTGCTCCACTGCAACT
TCAGGGAGATAAGATCTTCAATCTTCAGTCTGTTTTCTTGCTACCTCAGAAAGATAAGACTTATT
CTTCAACCTGCTCTCTTGCTACCTCAGAGAGATGAGGCTGGTGGTA
Found at i:806360 original size:43 final size:45
Alignment explanation
Indices: 806286--806377 Score: 125
Period size: 43 Copynumber: 2.1 Consensus size: 45
806276 AACTTCAGGG
** *
806286 AGATAAGATCTTCAATCTTCAGTCTGTTTTCTTGCTACCTCAGAA
1 AGATAAGATCTTCAATCTTCAACCTGCTTTCTTGCTACCTCAGAA
* *
806331 AGATAAGA-CTT-ATTCTTCAACCTGCTTTCTTGCTACCTCAGAG
1 AGATAAGATCTTCAATCTTCAACCTGCTTTCTTGCTACCTCAGAA
806374 AGAT
1 AGAT
806378 GAGGCTAGTG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
43 31 0.74
44 3 0.07
45 8 0.19
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (45 bp):
AGATAAGATCTTCAATCTTCAACCTGCTTTCTTGCTACCTCAGAA
Found at i:806522 original size:16 final size:16
Alignment explanation
Indices: 806497--806535 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
806487 TGTCGCTACA
*
806497 CTGTCTTCTGGGGAAC
1 CTGTCCTCTGGGGAAC
*
806513 CTGTCCTCTGGGGATC
1 CTGTCCTCTGGGGAAC
806529 CTGTCCT
1 CTGTCCT
806536 GTAGACTCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.08, C:0.31, G:0.28, T:0.33
Consensus pattern (16 bp):
CTGTCCTCTGGGGAAC
Found at i:812514 original size:43 final size:43
Alignment explanation
Indices: 812453--812540 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
812443 CATCATTGAA
812453 AAAGATGAAGTTGTCTGCACTTATGTTATCAACCAATCGATCC
1 AAAGATGAAGTTGTCTGCACTTATGTTATCAACCAATCGATCC
* *
812496 AAAGATGAAGTTGTCTGCACTTATGTTGTCAGCCAATCGATCC
1 AAAGATGAAGTTGTCTGCACTTATGTTATCAACCAATCGATCC
812539 AA
1 AA
812541 CTTATTAACG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (43 bp):
AAAGATGAAGTTGTCTGCACTTATGTTATCAACCAATCGATCC
Found at i:815018 original size:19 final size:19
Alignment explanation
Indices: 814994--815033 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
814984 TATGATCTTT
*
814994 AATGCATATG-ATGTAATGC
1 AATGCAAATGCATG-AATGC
815013 AATGCAAATGCATGAATGC
1 AATGCAAATGCATGAATGC
815032 AA
1 AA
815034 AGGAGGCATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 16 0.84
20 3 0.16
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.25
Consensus pattern (19 bp):
AATGCAAATGCATGAATGC
Found at i:817654 original size:22 final size:22
Alignment explanation
Indices: 817626--817669 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
817616 ACAGGTATAG
817626 CCACAGCGGTCATGCAATGTAA
1 CCACAGCGGTCATGCAATGTAA
817648 CCACAGCGGTCATGCAATGTAA
1 CCACAGCGGTCATGCAATGTAA
817670 TATAGTACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.27, G:0.23, T:0.18
Consensus pattern (22 bp):
CCACAGCGGTCATGCAATGTAA
Found at i:819038 original size:41 final size:42
Alignment explanation
Indices: 818982--819113 Score: 139
Period size: 41 Copynumber: 3.2 Consensus size: 42
818972 CGTTTGCAAT
* *
818982 AAAACGCCGCAAAAAACTGAGCAATAGCGGCGCTTTTGA-TC
1 AAAACGCCGCTAAAAACTGAGCAATAGCGGCGCTTTTGAGTA
* * * *
819023 CAAACGCCGCTAAAAA-TAGAGTAATAGTGGCG-TTTTTAGTA
1 AAAACGCCGCTAAAAACT-GAGCAATAGCGGCGCTTTTGAGTA
* * *
819064 AAAACGCAGCTAAAATCTGAACAATAGCGGCGCTTTTGA--A
1 AAAACGCCGCTAAAAACTGAGCAATAGCGGCGCTTTTGAGTA
819104 AAAACGCCGC
1 AAAACGCCGC
819114 CATAGGTCGA
Statistics
Matches: 73, Mismatches: 14, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
40 16 0.22
41 51 0.70
42 6 0.08
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (42 bp):
AAAACGCCGCTAAAAACTGAGCAATAGCGGCGCTTTTGAGTA
Found at i:819107 original size:40 final size:40
Alignment explanation
Indices: 818966--819113 Score: 131
Period size: 41 Copynumber: 3.6 Consensus size: 40
818956 TATTATACAT
* *
818966 TAGCGGCG--TTTGCAATAAAACGCCGCAAAAAACTGAGCAA
1 TAGCGGCGCTTTTG-AA-AAAACGCCGCTAAAATCTGAGCAA
** * *
819006 TAGCGGCGCTTTTGATCCAAACGCCGCTAAAAAT-AGAGTAA
1 TAGCGGCGCTTTTGA-AAAAACGCCGCT-AAAATCTGAGCAA
* * * * *
819047 TAGTGGCGTTTTTAGTAAAAACGCAGCTAAAATCTGAACAA
1 TAGCGGCGCTTTT-GAAAAAACGCCGCTAAAATCTGAGCAA
819088 TAGCGGCGCTTTTGAAAAAACGCCGC
1 TAGCGGCGCTTTTGAAAAAACGCCGC
819114 CATAGGTCGA
Statistics
Matches: 83, Mismatches: 19, Indels: 12
0.73 0.17 0.11
Matches are distributed among these distances:
40 24 0.29
41 50 0.60
42 9 0.11
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (40 bp):
TAGCGGCGCTTTTGAAAAAACGCCGCTAAAATCTGAGCAA
Found at i:819139 original size:41 final size:40
Alignment explanation
Indices: 819088--819312 Score: 208
Period size: 41 Copynumber: 5.6 Consensus size: 40
819078 ATCTGAACAA
* * *
819088 TAGCGGCGCTTTTGAAAAAACGCCGCCATAGGTCGAGCTTT
1 TAGCGGCGCTTTTG-AAAAACGCCGCTATAGATCGAGGTTT
* * * **
819129 TAGCGACGCTTTTTGAAAAACGCCGCTATTGCTC-AATTTT
1 TAGCGGCGC-TTTTGAAAAACGCCGCTATAGATCGAGGTTT
* * *
819169 TAGCAGCGCTTTTGGAAAAATGCCACTATAGATCGAGGTTT
1 TAGCGGCGCTTTT-GAAAAACGCCGCTATAGATCGAGGTTT
*
819210 TAGCGGCGCTTTT----AATGCCGCTATAGATCGAGGTTT
1 TAGCGGCGCTTTTGAAAAACGCCGCTATAGATCGAGGTTT
** * *
819246 TATAGGCGCTTTTGAAAAAATGCCGCTATAGATCTAGGTTT
1 TAGCGGCGCTTTTG-AAAAACGCCGCTATAGATCGAGGTTT
* *
819287 TAGTGGCGCTTTTGGGAAAACGCCGC
1 TAGCGGCGCTTTT-GAAAAACGCCGC
819313 AAAAAATTAA
Statistics
Matches: 152, Mismatches: 23, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
36 33 0.22
39 4 0.03
40 27 0.18
41 82 0.54
42 6 0.04
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (40 bp):
TAGCGGCGCTTTTGAAAAACGCCGCTATAGATCGAGGTTT
Found at i:819234 original size:36 final size:37
Alignment explanation
Indices: 819186--819299 Score: 140
Period size: 36 Copynumber: 3.0 Consensus size: 37
819176 GCTTTTGGAA
* *
819186 AAATGCCACTATAGATCGAGGTTTTAGCGGCGCTTTT
1 AAATGCCGCTATAGATCGAGGTTTTAGAGGCGCTTTT
*
819223 -AATGCCGCTATAGATCGAGGTTTTATAGGCGCTTTT
1 AAATGCCGCTATAGATCGAGGTTTTAGAGGCGCTTTT
* *
819259 GAAAAAATGCCGCTATAGATCTAGGTTTTAGTGGCGCTTTT
1 ----AAATGCCGCTATAGATCGAGGTTTTAGAGGCGCTTTT
819300 GGGAAAACGC
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
36 33 0.50
41 33 0.50
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.34
Consensus pattern (37 bp):
AAATGCCGCTATAGATCGAGGTTTTAGAGGCGCTTTT
Found at i:819730 original size:21 final size:21
Alignment explanation
Indices: 819684--819735 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
819674 TTAATTATCA
* *
819684 TTATAGTTTAGGGTTTATGGT
1 TTATGGTTAAGGGTTTATGGT
*
819705 ATATGGTTAAGGGTTTAAT-GT
1 TTATGGTTAAGGGTTT-ATGGT
819726 TTATGAGTTA
1 TTATG-GTTA
819736 CTATTTTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.48
Consensus pattern (21 bp):
TTATGGTTAAGGGTTTATGGT
Found at i:819780 original size:22 final size:21
Alignment explanation
Indices: 819755--819800 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
819745 GCTTTATAAA
* *
819755 TTATGGGTTTAGGGATTATGGT
1 TTATGGGTTAAGGG-TTAGGGT
819777 TTATGGGTTAAGGGTTAGGGT
1 TTATGGGTTAAGGGTTAGGGT
819798 TTA
1 TTA
819801 AGTTTTAGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.43
Consensus pattern (21 bp):
TTATGGGTTAAGGGTTAGGGT
Found at i:819820 original size:23 final size:23
Alignment explanation
Indices: 819788--819852 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 23
819778 TATGGGTTAA
*
819788 GGGTTAGGGTTTAAGTTTTAGAG
1 GGGTTAGGGTTTAAGGTTTAGAG
*
819811 GGGTTGGGGTTTAAGGTTT--AG
1 GGGTTAGGGTTTAAGGTTTAGAG
819832 GGGTTAAGGG-TTAAGGGTTTA
1 GGGTT-AGGGTTTAA-GGTTTA
819853 TGTTTTATGA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
21 11 0.31
22 8 0.22
23 17 0.47
ACGTcount: A:0.20, C:0.00, G:0.43, T:0.37
Consensus pattern (23 bp):
GGGTTAGGGTTTAAGGTTTAGAG
Found at i:819835 original size:21 final size:21
Alignment explanation
Indices: 819760--819878 Score: 87
Period size: 21 Copynumber: 5.5 Consensus size: 21
819750 ATAAATTATG
* * *
819760 GGTTTAGGGATTATGGTTTAT
1 GGTTTAGGGGTTAGGGTTTAA
* *
819781 GGGTTAAGGGTTAGGGTTTAA
1 GGTTTAGGGGTTAGGGTTTAA
* *
819802 GTTTTAGAGGGGTTGGGGTTTAA
1 GGTTT--AGGGGTTAGGGTTTAA
819825 GGTTTAGGGGTTAAGGG-TTAA
1 GGTTTAGGGGTT-AGGGTTTAA
* ** * *
819846 GGGTTTATGTTTTATGATTTAA
1 -GGTTTAGGGGTTAGGGTTTAA
819868 GGTTTAGGGGT
1 GGTTTAGGGGT
819879 CAGAGGTTAG
Statistics
Matches: 74, Mismatches: 19, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
21 40 0.54
22 16 0.22
23 18 0.24
ACGTcount: A:0.20, C:0.00, G:0.39, T:0.41
Consensus pattern (21 bp):
GGTTTAGGGGTTAGGGTTTAA
Found at i:819898 original size:8 final size:7
Alignment explanation
Indices: 819759--819903 Score: 69
Period size: 7 Copynumber: 20.1 Consensus size: 7
819749 TATAAATTAT
819759 GGGTTTA
1 GGGTTTA
*
819766 GGGATTA
1 GGGTTTA
*
819773 TGGTTTA
1 GGGTTTA
*
819780 TGGGTTAA
1 -GGGTTTA
819788 GGG-TTA
1 GGGTTTA
819794 GGGTTTA
1 GGGTTTA
* *
819801 AGTTTTAGA
1 GGGTTT--A
* *
819810 GGGGTTG
1 GGGTTTA
819817 GGGTTTA
1 GGGTTTA
*
819824 AGGTTTA
1 GGGTTTA
*
819831 GGGGTTAA
1 -GGGTTTA
*
819839 GGGTTAA
1 GGGTTTA
819846 GGGTTTA
1 GGGTTTA
* *
819853 TGTTTTA
1 GGGTTTA
* *
819860 TGATTTA
1 GGGTTTA
*
819867 AGGTTTA
1 GGGTTTA
* *
819874 GGGGTCA
1 GGGTTTA
819881 GAGG-TTA
1 G-GGTTTA
819888 GGGATTTA
1 GGG-TTTA
819896 GGGTTTA
1 GGGTTTA
819903 G
1 G
819904 ATTAATTAGT
Statistics
Matches: 103, Mismatches: 27, Indels: 16
0.71 0.18 0.11
Matches are distributed among these distances:
6 7 0.07
7 74 0.72
8 18 0.17
9 4 0.04
ACGTcount: A:0.21, C:0.01, G:0.39, T:0.39
Consensus pattern (7 bp):
GGGTTTA
Found at i:822022 original size:23 final size:24
Alignment explanation
Indices: 821996--822043 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 24
821986 AGAGAACATC
821996 TGTTAAATCAGATTAGGTGG-ATT
1 TGTTAAATCAGATTAGGTGGCATT
*
822019 TGTTAAATCGGATTAGGTGGCATT
1 TGTTAAATCAGATTAGGTGGCATT
822043 T
1 T
822044 AAAAAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.27, C:0.06, G:0.27, T:0.40
Consensus pattern (24 bp):
TGTTAAATCAGATTAGGTGGCATT
Found at i:825139 original size:22 final size:23
Alignment explanation
Indices: 825097--825139 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
825087 TTTCAAAAAT
*
825097 TAAACATAATATAATATTTAACA
1 TAAAAATAATATAATATTTAACA
*
825120 TAAAAATAA-ATATTATTTAA
1 TAAAAATAATATAATATTTAA
825140 TTAAAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (23 bp):
TAAAAATAATATAATATTTAACA
Found at i:825331 original size:18 final size:18
Alignment explanation
Indices: 825308--825359 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
825298 TAAGTAAACC
*
825308 ATTAATACAAATGATACA
1 ATTAATATAAATGATACA
*
825326 ATTAATATAAA-CATTACA
1 ATTAATATAAATGA-TACA
*
825344 AATAATATAAATGATA
1 ATTAATATAAATGATA
825360 TGATAAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 1 0.04
18 26 0.93
19 1 0.04
ACGTcount: A:0.58, C:0.08, G:0.04, T:0.31
Consensus pattern (18 bp):
ATTAATATAAATGATACA
Found at i:826586 original size:29 final size:30
Alignment explanation
Indices: 826544--826611 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
826534 GGGCCCAAGA
* *
826544 GTAAATACTCAAAATTTGAGGGATTAA-AGT
1 GTAAATA-TCAAAATTTGAAGGACTAATAGT
*
826574 GTAAATATGAAAATTTGAAGGACTAATAGT
1 GTAAATATCAAAATTTGAAGGACTAATAGT
*
826604 GCAAATAT
1 GTAAATAT
826612 TTTAAGGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.46, C:0.06, G:0.19, T:0.29
Consensus pattern (30 bp):
GTAAATATCAAAATTTGAAGGACTAATAGT
Found at i:832986 original size:26 final size:26
Alignment explanation
Indices: 832957--833142 Score: 336
Period size: 26 Copynumber: 7.2 Consensus size: 26
832947 TAAAAAAAAT
832957 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
832983 TGATAATGGGTTACGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
833009 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
833035 TGATAATGGGTTACGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
833061 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
833087 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
833113 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
833139 TGAT
1 TGAT
833143 GGGAATTTCA
Statistics
Matches: 152, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 152 1.00
ACGTcount: A:0.31, C:0.08, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:835187 original size:3 final size:3
Alignment explanation
Indices: 835068--835167 Score: 71
Period size: 3 Copynumber: 33.3 Consensus size: 3
835058 GTTATTAACA
* * * * *
835068 TAT TAT TAT TCT TAAT GTAT TAT CAT TAC TAT TAT TTT TAT TTT TAT
1 TAT TAT TAT TAT T-AT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
835115 T-T T-T TAC TAT CAT CAT T-T TTT TAAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
835158 TAT TAT TAT T
1 TAT TAT TAT T
835168 TGTTGTTTAA
Statistics
Matches: 77, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
2 6 0.08
3 65 0.84
4 5 0.06
5 1 0.01
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:835398 original size:19 final size:18
Alignment explanation
Indices: 835361--835411 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
835351 TACCATTGTT
*
835361 ACTGTTATTATTA-TTATC
1 ACTGTTATTA-TACTCATC
835379 ACTTGTTATTATACTCATC
1 AC-TGTTATTATACTCATC
*
835398 ACTATTATTATACT
1 ACTGTTATTATACT
835412 TTATTATTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 15 0.52
19 14 0.48
ACGTcount: A:0.29, C:0.16, G:0.04, T:0.51
Consensus pattern (18 bp):
ACTGTTATTATACTCATC
Found at i:835406 original size:3 final size:3
Alignment explanation
Indices: 835400--835474 Score: 50
Period size: 3 Copynumber: 26.0 Consensus size: 3
835390 TACTCATCAC
* * *
835400 TAT TAT TA- TAC T-T TAT TAT TGT TACT TAT TAT T-T TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
* * * *
835443 TAT TAT T-G TAT TCT TAC TAT TAT TGT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
835475 ATTTCCTTTT
Statistics
Matches: 54, Mismatches: 13, Indels: 10
0.70 0.17 0.13
Matches are distributed among these distances:
2 6 0.11
3 45 0.83
4 3 0.06
ACGTcount: A:0.27, C:0.07, G:0.04, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:835418 original size:13 final size:13
Alignment explanation
Indices: 835400--835448 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
835390 TACTCATCAC
835400 TATTATTATACTT
1 TATTATTATACTT
*
835413 TATTATTGTTAC-T
1 TATTATT-ATACTT
*
835426 TATTATTTTACTAT
1 TATTATTATACT-T
835440 TATTATTAT
1 TATTATTAT
835449 TGTATTCTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 4 0.13
13 15 0.48
14 12 0.39
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (13 bp):
TATTATTATACTT
Found at i:835462 original size:23 final size:22
Alignment explanation
Indices: 835400--835478 Score: 81
Period size: 23 Copynumber: 3.6 Consensus size: 22
835390 TACTCATCAC
* * *
835400 TATTATTATACTTTATTATTGT
1 TATTATTATATTTTACTATTAT
835422 TACTTA-T-TATTTTACTATTAT
1 TA-TTATTATATTTTACTATTAT
*
835443 TATTATTGTATTCTTACTATTAT
1 TATTATTATATT-TTACTATTAT
*
835466 TGTTATTATATTT
1 TATTATTATATTT
835479 CCTTTTTTTA
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
20 3 0.06
21 14 0.29
22 8 0.17
23 23 0.48
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.63
Consensus pattern (22 bp):
TATTATTATATTTTACTATTAT
Found at i:835830 original size:3 final size:3
Alignment explanation
Indices: 835635--835810 Score: 62
Period size: 3 Copynumber: 58.0 Consensus size: 3
835625 TAAATTTTAG
* * **
835635 ATT ACTT ATT ATT -TGT ATT ATT GTT ATT ACT ATT -TGT ATTT ACC ATT
1 ATT A-TT ATT ATT AT-T ATT ATT ATT ATT ATT ATT AT-T A-TT ATT ATT
* * * *
835682 ATT ATT ACT ATT ATT -TT CACTT -TT ATT ACT ATT ACT ATT ATC ATT
1 ATT ATT ATT ATT ATT ATT -A-TT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
835727 -TCT -TT ATT ATT TTCT ATT ACT ATT ATT ATT ATT AAT ATA AAT ATT
1 AT-T ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
835772 GA-T ATT CTT ATT ACT ACTT -TT ATT ATT ATT AAT ATT ATT
1 -ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT
835811 GTTTTACCAC
Statistics
Matches: 124, Mismatches: 32, Indels: 34
0.65 0.17 0.18
Matches are distributed among these distances:
2 11 0.09
3 100 0.81
4 10 0.08
5 3 0.02
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:838148 original size:38 final size:38
Alignment explanation
Indices: 838058--838188 Score: 129
Period size: 38 Copynumber: 3.4 Consensus size: 38
838048 TCTCGAGTCA
* * * *
838058 ATGAGACACTGGGTGTCATACTGTTACTTCGGATAGATTCG
1 ATGAGACACTGGGTATCA-ACT-TTACTTTGGCTAGA-CCG
** *
838099 ATGAGGTACTGGGTACCAACTTTACTTTGGCTAGACCG
1 ATGAGACACTGGGTATCAACTTTACTTTGGCTAGACCG
* * *
838137 ATGAGACACTGGGTATCAACTTTGCTTTGAACTA-TCCG
1 ATGAGACACTGGGTATCAACTTTACTTTG-GCTAGACCG
838175 ATGAGACACTGGGT
1 ATGAGACACTGGGT
838189 GCCATTCTGG
Statistics
Matches: 76, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
38 44 0.58
39 15 0.20
40 3 0.04
41 14 0.18
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (38 bp):
ATGAGACACTGGGTATCAACTTTACTTTGGCTAGACCG
Found at i:838793 original size:24 final size:24
Alignment explanation
Indices: 838766--838812 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
838756 AGATATAGAA
* *
838766 ATGAAATTTATGAAATGGTTATTG
1 ATGAAATGTATGAAATGGATATTG
838790 ATGAAATGTATGAAATGGATATT
1 ATGAAATGTATGAAATGGATATT
838813 AATGTAGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.21, T:0.38
Consensus pattern (24 bp):
ATGAAATGTATGAAATGGATATTG
Found at i:844304 original size:40 final size:40
Alignment explanation
Indices: 844249--844330 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
844239 AAGTAATTTC
844249 AGATGTCCTCTTAGTATCTGAGATAGATTAGAATCTCCTT
1 AGATGTCCTCTTAGTATCTGAGATAGATTAGAATCTCCTT
844289 AGATGTCCTCTTAGTATCTGAGATAGATTAGAATCTCCTT
1 AGATGTCCTCTTAGTATCTGAGATAGATTAGAATCTCCTT
844329 AG
1 AG
844331 CATTGGTCAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (40 bp):
AGATGTCCTCTTAGTATCTGAGATAGATTAGAATCTCCTT
Found at i:845175 original size:37 final size:37
Alignment explanation
Indices: 845123--845200 Score: 138
Period size: 37 Copynumber: 2.1 Consensus size: 37
845113 ACCAAAACTG
*
845123 TAAAAGAAAAGACTCCATTCAAAACATGGTTTGGAAA
1 TAAAAGAAAAAACTCCATTCAAAACATGGTTTGGAAA
*
845160 TAAAAGAAAAAACTCCTTTCAAAACATGGTTTGGAAA
1 TAAAAGAAAAAACTCCATTCAAAACATGGTTTGGAAA
845197 TAAA
1 TAAA
845201 CTCTATGTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.50, C:0.13, G:0.14, T:0.23
Consensus pattern (37 bp):
TAAAAGAAAAAACTCCATTCAAAACATGGTTTGGAAA
Found at i:847057 original size:105 final size:104
Alignment explanation
Indices: 846865--847074 Score: 296
Period size: 105 Copynumber: 2.0 Consensus size: 104
846855 CCCCTTCTAA
*
846865 CATTCCCAAGAAACCAAAACCTTTTCCTCAGCCGTGTAACAAGAAAATAAACAAATGGGTCAAGA
1 CATTCCCAAGAAACCAAAACATTTTCCTCAGCCGTGTAACAAGAAAATAAACAAATGGGTCAAGA
* *
846930 AGAACCCATATTTTCTTACTCCACAAAAACT-AATTCCTG
66 AAAACCCAGATTTTCTTACTCCACAAAAA-TAAATTCCTG
* * * *
846969 NCATTTCCAAGAAACCAAAACATTTTCCTCAGCTGTGTTATAAGAAAATAAACAAATGGGTCAAG
1 -CATTCCCAAGAAACCAAAACATTTTCCTCAGCCGTGTAACAAGAAAATAAACAAATGGGTCAAG
* * * *
847034 AAAAATCTAGATTTTCTTGCTCCACGAAAATAAATTCCTG
65 AAAAACCCAGATTTTCTTACTCCACAAAAATAAATTCCTG
847074 C
1 C
847075 TGTGTGTATG
Statistics
Matches: 93, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
104 2 0.02
105 91 0.98
ACGTcount: A:0.40, C:0.23, G:0.11, T:0.25
Consensus pattern (104 bp):
CATTCCCAAGAAACCAAAACATTTTCCTCAGCCGTGTAACAAGAAAATAAACAAATGGGTCAAGA
AAAACCCAGATTTTCTTACTCCACAAAAATAAATTCCTG
Found at i:860933 original size:17 final size:17
Alignment explanation
Indices: 860907--860971 Score: 69
Period size: 17 Copynumber: 3.8 Consensus size: 17
860897 AGCTCATTTG
*
860907 AAGTTTTGAGCTCATCA
1 AAGTTGTGAGCTCATCA
*
860924 AAGTTGTGAGCTCACCCA
1 AAGTTGTGAGCTCA-TCA
***
860942 AAGACATGAGCTCATCA
1 AAGTTGTGAGCTCATCA
860959 AAGTTG-GAGCTCA
1 AAGTTGTGAGCTCA
860972 ACTTAAGTTG
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
16 7 0.18
17 18 0.47
18 13 0.34
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.25
Consensus pattern (17 bp):
AAGTTGTGAGCTCATCA
Found at i:863242 original size:25 final size:25
Alignment explanation
Indices: 863213--863286 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 25
863203 TTAGTGACTT
863213 TGTTAATTTTATGAATTTCATGATG
1 TGTTAATTTTATGAATTTCATGATG
* * *
863238 TGTT-ATTTCAT--ATGT-AT--TT
1 TGTTAATTTTATGAATTTCATGATG
863257 TGTTAATTTTATGAATTTCATGATG
1 TGTTAATTTTATGAATTTCATGATG
863282 TGTTA
1 TGTTA
863287 TTTCATATGT
Statistics
Matches: 37, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
19 5 0.14
20 6 0.16
21 2 0.05
22 6 0.16
23 2 0.05
24 6 0.16
25 10 0.27
ACGTcount: A:0.26, C:0.04, G:0.15, T:0.55
Consensus pattern (25 bp):
TGTTAATTTTATGAATTTCATGATG
Found at i:863274 original size:44 final size:44
Alignment explanation
Indices: 863211--863299 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
863201 TTTTAGTGAC
863211 TTTGTTAATTTTATGAATTTCATGATGTGTTATTTCATATGTAT
1 TTTGTTAATTTTATGAATTTCATGATGTGTTATTTCATATGTAT
863255 TTTGTTAATTTTATGAATTTCATGATGTGTTATTTCATATGTAT
1 TTTGTTAATTTTATGAATTTCATGATGTGTTATTTCATATGTAT
863299 T
1 T
863300 GATGATAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.25, C:0.04, G:0.13, T:0.57
Consensus pattern (44 bp):
TTTGTTAATTTTATGAATTTCATGATGTGTTATTTCATATGTAT
Found at i:863492 original size:50 final size:51
Alignment explanation
Indices: 863415--863543 Score: 224
Period size: 50 Copynumber: 2.5 Consensus size: 51
863405 GACCATGGCA
863415 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
863466 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
863516 ACAAGTGAAAAGTGGTAGCTTCGACTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
863544 CTGATCAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
50 50 0.68
51 24 0.32
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:863557 original size:31 final size:31
Alignment explanation
Indices: 863519--863636 Score: 157
Period size: 31 Copynumber: 3.8 Consensus size: 31
863509 ACAAATGACA
*
863519 AGTGAAAAGTGGTAGCTTCGACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
863550 AGTGAAAAGTGGTAGCTCCGGCTACCTGATT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
863581 AGTGAAAAATGGTATC-TCTGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTC-GGCTACCTGATC
* *
863612 AGTGAATAGTGGTAGCTTTGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
863637 AAGTGACAAG
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
30 1 0.01
31 72 0.97
32 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:863724 original size:47 final size:46
Alignment explanation
Indices: 863654--863867 Score: 193
Period size: 47 Copynumber: 4.7 Consensus size: 46
863644 AAGTGATTTC
** * *
863654 CGTATAAGACCATATTTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATA
* * * *
863700 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATA
* * *
863747 CGTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTA
1 CGTATAAGACCATAGCTGGGATATGGCATCG--GTGTGATATGTGA-TA
* * * *
863796 CGTGTAAGACCATAGCTGGGCTATGGCATC-G-AT-ATATG-AATA
1 CGTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATA
* * * *
863838 TGTGTAAGACCATAGTTGGGCTATGGCATC
1 CGTATAAGACCATAGCTGGGATATGGCATC
863868 ATTATGTGAA
Statistics
Matches: 146, Mismatches: 18, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
42 30 0.21
43 1 0.01
44 5 0.03
45 1 0.01
46 27 0.18
47 40 0.27
48 11 0.08
49 31 0.21
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.30
Consensus pattern (46 bp):
CGTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATA
Found at i:863809 original size:49 final size:48
Alignment explanation
Indices: 863705--863876 Score: 209
Period size: 49 Copynumber: 3.7 Consensus size: 48
863695 TGCTACTGTA
* * * *
863705 TAAGACCATATCTGGGATATGGCATC-A-GTGAGATATGTGATTCGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTCGTG
863751 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATT-CGTG
*
863800 TAAGACCATAGCTGGGCTATGGCATCGATATATGA-A--T-A-T-GTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTCGTG
*
863842 TAAGACCATAGTTGGGCTATGGCATC-ATTATGTGA
1 TAAGACCATAGCTGGGCTATGGCATCGA-TATGTGA
863877 AGATGTGTAA
Statistics
Matches: 115, Mismatches: 7, Indels: 12
0.86 0.05 0.09
Matches are distributed among these distances:
41 1 0.01
42 34 0.30
44 1 0.01
45 1 0.01
46 25 0.22
47 1 0.01
48 14 0.12
49 38 0.33
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.30
Consensus pattern (48 bp):
TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTCGTG
Found at i:863895 original size:42 final size:42
Alignment explanation
Indices: 863797--863911 Score: 160
Period size: 42 Copynumber: 2.7 Consensus size: 42
863787 ATGTGATTAC
* *
863797 GTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAATAT
1 GTGTAAGACCATAGTTGGGCTATGGCATCGATATATGAAGAT
*
863839 GTGTAAGACCATAGTTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGTTGGGCTATGGCATCGA-TATATGAAGAT
***
863881 GTGTAAGACCATAGTTAAACTATGGCATCGA
1 GTGTAAGACCATAGTTGGGCTATGGCATCGA
863912 GAAAACGAAC
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
41 1 0.02
42 63 0.97
43 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATAGTTGGGCTATGGCATCGATATATGAAGAT
Found at i:871848 original size:43 final size:43
Alignment explanation
Indices: 871787--871874 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
871777 GTCTAGAGTG
871787 TGTTTCATTTGGATGTAAAATCAACTTTCTTGAATGGAGAGCT
1 TGTTTCATTTGGATGTAAAATCAACTTTCTTGAATGGAGAGCT
871830 TGTTTCATTTGGATGTAAAATCAACTTTCTTGAATGGAGAGCT
1 TGTTTCATTTGGATGTAAAATCAACTTTCTTGAATGGAGAGCT
871873 TG
1 TG
871875 AAAAAGATAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.40
Consensus pattern (43 bp):
TGTTTCATTTGGATGTAAAATCAACTTTCTTGAATGGAGAGCT
Found at i:878404 original size:19 final size:19
Alignment explanation
Indices: 878380--878419 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
878370 GTTCAATTGC
*
878380 AAGTATTTCTTGGATTTTT
1 AAGTATTTCTTGGACTTTT
878399 AAGTATTTCTTGGACTTTT
1 AAGTATTTCTTGGACTTTT
878418 AA
1 AA
878420 CCCAATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.25, C:0.07, G:0.15, T:0.53
Consensus pattern (19 bp):
AAGTATTTCTTGGACTTTT
Found at i:884732 original size:5 final size:5
Alignment explanation
Indices: 884722--884753 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
884712 TTGTGTGTTC
884722 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
884754 TCACAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:884736 original size:9 final size:9
Alignment explanation
Indices: 884722--884752 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
884712 TTGTGTGTTC
884722 TTTATTTTA
1 TTTATTTTA
884731 TTTATTTTA
1 TTTATTTTA
884740 TTTTATTTTA
1 -TTTATTTTA
884750 TTT
1 TTT
884753 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:889181 original size:5 final size:5
Alignment explanation
Indices: 889171--889210 Score: 64
Period size: 5 Copynumber: 8.0 Consensus size: 5
889161 AATTTGTGTG
889171 TTATT TTATT TT-TCT TTATT TTATT TTATT TTATT TTATT
1 TTATT TTATT TTAT-T TTATT TTATT TTATT TTATT TTATT
889211 CACAAGATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 1 0.03
5 31 0.94
6 1 0.03
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:892939 original size:20 final size:20
Alignment explanation
Indices: 892903--892940 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
892893 ATCCTTCTAC
*
892903 TTTATAATTACTGAATTTAA
1 TTTATAATTACTCAATTTAA
892923 TTTATAATATA-TCAATTT
1 TTTATAAT-TACTCAATTT
892941 TTTATAGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.88
21 2 0.12
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (20 bp):
TTTATAATTACTCAATTTAA
Found at i:893460 original size:21 final size:18
Alignment explanation
Indices: 893425--893470 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
893415 AGTTAAAAAT
893425 ATTTTTATTATTATTTAAA
1 ATTTTTATTATTATTT-AA
*
893444 ATTTTTATTATAATATTTGA
1 ATTTTTATTAT--TATTTAA
893464 ATTTTTA
1 ATTTTTA
893471 AAAAAGTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 11 0.46
20 8 0.33
21 5 0.21
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (18 bp):
ATTTTTATTATTATTTAA
Found at i:898887 original size:11 final size:11
Alignment explanation
Indices: 898871--898901 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
898861 GAGAAGAGAT
*
898871 GATGAATGAGG
1 GATGAACGAGG
898882 GATGAACGAGG
1 GATGAACGAGG
898893 GATGAACGA
1 GATGAACGA
898902 AATGAGTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.39, C:0.06, G:0.42, T:0.13
Consensus pattern (11 bp):
GATGAACGAGG
Found at i:911314 original size:26 final size:26
Alignment explanation
Indices: 911254--911305 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
911244 AGAATTCAAC
911254 GATAATTAAACTTAATCACTCTAATA
1 GATAATTAAACTTAATCACTCTAATA
911280 GATAATTAAACTTAATCACTCTAATA
1 GATAATTAAACTTAATCACTCTAATA
911306 TTAAATTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.46, C:0.15, G:0.04, T:0.35
Consensus pattern (26 bp):
GATAATTAAACTTAATCACTCTAATA
Found at i:913245 original size:21 final size:22
Alignment explanation
Indices: 913219--913275 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 22
913209 GTGAAGGGTA
913219 GCACACGGTCGTGTGT-TAGAG
1 GCACACGGTCGTGTGTATAGAG
*
913240 GCACACGCTCGTGTGGTATAGAG
1 GCACACGGTCGTGT-GTATAGAG
913263 GCACA--GTCGTGTG
1 GCACACGGTCGTGTG
913276 ATCAGGCCGT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 1 0.03
21 19 0.59
22 2 0.06
23 10 0.31
ACGTcount: A:0.19, C:0.21, G:0.37, T:0.23
Consensus pattern (22 bp):
GCACACGGTCGTGTGTATAGAG
Found at i:913909 original size:21 final size:20
Alignment explanation
Indices: 913871--913925 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
913861 CCATCGATTC
*
913871 CAAAAAGCAAAAAGAAGAACA
1 CAAAAA-CAAAAACAAGAACA
*
913892 CAAAAACAAAAACCAAGAAGA
1 CAAAAACAAAAA-CAAGAACA
*
913913 AACAAAACAAAAA
1 CA-AAAACAAAAA
913926 ATAACGTGCC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.21
21 13 0.45
22 10 0.34
ACGTcount: A:0.75, C:0.16, G:0.09, T:0.00
Consensus pattern (20 bp):
CAAAAACAAAAACAAGAACA
Found at i:921131 original size:22 final size:22
Alignment explanation
Indices: 921106--921170 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 22
921096 TGCTTGCAAA
921106 TTGAAGCTCTAAATACAAAGAT
1 TTGAAGCTCTAAATACAAAGAT
*
921128 TTGAGAG-TC---AGA-AAAGA-
1 TTGA-AGCTCTAAATACAAAGAT
921145 TTGAAGCTCTAAATACAAAGAT
1 TTGAAGCTCTAAATACAAAGAT
921167 TTGA
1 TTGA
921171 GAGTCAGAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 14
0.68 0.04 0.28
Matches are distributed among these distances:
16 2 0.06
17 6 0.18
18 5 0.15
19 2 0.06
20 2 0.06
21 5 0.15
22 10 0.29
23 2 0.06
ACGTcount: A:0.45, C:0.11, G:0.18, T:0.26
Consensus pattern (22 bp):
TTGAAGCTCTAAATACAAAGAT
Found at i:921145 original size:18 final size:18
Alignment explanation
Indices: 921122--921184 Score: 58
Period size: 18 Copynumber: 3.3 Consensus size: 18
921112 CTCTAAATAC
921122 AAAGATTTGAGAGTCAGA
1 AAAGATTTGAGAGTCAGA
*
921140 AAAGA-TTGA-AGCTCTAAATA
1 AAAGATTTGAGAG-TC---AGA
921160 CAAAGATTTGAGAGTCAGA
1 -AAAGATTTGAGAGTCAGA
921179 AAAGAT
1 AAAGAT
921185 ATTACAATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
16 2 0.06
17 6 0.17
18 11 0.31
19 2 0.06
20 2 0.06
21 5 0.14
22 6 0.17
23 2 0.06
ACGTcount: A:0.48, C:0.08, G:0.22, T:0.22
Consensus pattern (18 bp):
AAAGATTTGAGAGTCAGA
Found at i:921159 original size:39 final size:39
Alignment explanation
Indices: 921105--921184 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
921095 GTGCTTGCAA
921105 ATTGAAGCTCTAAATACAAAGATTTGAGAGTCAGAAAAG
1 ATTGAAGCTCTAAATACAAAGATTTGAGAGTCAGAAAAG
921144 ATTGAAGCTCTAAATACAAAGATTTGAGAGTCAGAAAAG
1 ATTGAAGCTCTAAATACAAAGATTTGAGAGTCAGAAAAG
921183 AT
1 AT
921185 ATTACAATAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.46, C:0.10, G:0.20, T:0.24
Consensus pattern (39 bp):
ATTGAAGCTCTAAATACAAAGATTTGAGAGTCAGAAAAG
Found at i:921166 original size:21 final size:21
Alignment explanation
Indices: 921105--921167 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
921095 GTGCTTGCAA
921105 ATTGAAGCTCTAAATACAAAG
1 ATTGAAGCTCTAAATACAAAG
*
921126 ATTTGAGAG-TC---AGA-AAAG
1 A-TTGA-AGCTCTAAATACAAAG
921144 ATTGAAGCTCTAAATACAAAG
1 ATTGAAGCTCTAAATACAAAG
921165 ATT
1 ATT
921168 TGAGAGTCAG
Statistics
Matches: 33, Mismatches: 2, Indels: 14
0.67 0.04 0.29
Matches are distributed among these distances:
16 2 0.06
17 6 0.18
18 5 0.15
19 2 0.06
20 2 0.06
21 8 0.24
22 6 0.18
23 2 0.06
ACGTcount: A:0.46, C:0.11, G:0.17, T:0.25
Consensus pattern (21 bp):
ATTGAAGCTCTAAATACAAAG
Found at i:925808 original size:52 final size:52
Alignment explanation
Indices: 925730--925909 Score: 342
Period size: 52 Copynumber: 3.5 Consensus size: 52
925720 CTATACCCTA
*
925730 AGGGATAGCATCAAGCTCTGTATTCCTTAATATTTGAATATTCTAAAAGAAG
1 AGGGATAGCATCATGCTCTGTATTCCTTAATATTTGAATATTCTAAAAGAAG
925782 AGGGATAGCATCATGCTCTGTATTCCTTAATATTTGAATATTCTAAAAGAAG
1 AGGGATAGCATCATGCTCTGTATTCCTTAATATTTGAATATTCTAAAAGAAG
*
925834 AGGGATAGCATCATGCTCTGTATTCCTTAATATTTGAGTATTCTAAAAGAAG
1 AGGGATAGCATCATGCTCTGTATTCCTTAATATTTGAATATTCTAAAAGAAG
925886 AGGGATAGCATCATGCTCTGTATT
1 AGGGATAGCATCATGCTCTGTATT
925910 TATAGATAAA
Statistics
Matches: 126, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 126 1.00
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.34
Consensus pattern (52 bp):
AGGGATAGCATCATGCTCTGTATTCCTTAATATTTGAATATTCTAAAAGAAG
Found at i:934837 original size:3 final size:3
Alignment explanation
Indices: 934829--934854 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
934819 TCTCCTGATT
934829 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
934855 TTAGAATTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:935323 original size:6 final size:7
Alignment explanation
Indices: 935304--935339 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
935294 TTGAACCTTC
935304 GCTTTTT
1 GCTTTTT
935311 GCTTTTT
1 GCTTTTT
935318 GCTTTTT
1 GCTTTTT
935325 GCTTTTT
1 GCTTTTT
*
935332 GCCTTTT
1 GCTTTTT
935339 G
1 G
935340 TCTTCTCTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.00, C:0.17, G:0.17, T:0.67
Consensus pattern (7 bp):
GCTTTTT
Found at i:937326 original size:121 final size:121
Alignment explanation
Indices: 937166--937406 Score: 448
Period size: 121 Copynumber: 2.0 Consensus size: 121
937156 TGGAATTATT
937166 TACTATAACGACAAATTTTTGGGAGATCTTTCACTGCCTATTTAACTGCTTCCATATAGATTGCT
1 TACTATAACGACAAATTTTTGGGAGATCTTTCACTGCCTATTTAACTGCTTCCATATAGATTGCT
* *
937231 TGCTCATGAGCAAAGGTTATATCAACTTGGTCTCCTGTGTATCATAGCCATTGTTG
66 TGCTCATAAGCAAAGGTTATATCAACTTGATCTCCTGTGTATCATAGCCATTGTTG
937287 TACTAT-ACTGACAAATTTTTGGGAGATCTTTCACTGCCTATTTAACTGCTTCCATATAGATTGC
1 TACTATAAC-GACAAATTTTTGGGAGATCTTTCACTGCCTATTTAACTGCTTCCATATAGATTGC
937351 TTGCTCATAAGCAAAGGTTATATCAACTTGATCTCCTGTGTATCATAGCCATTGTT
65 TTGCTCATAAGCAAAGGTTATATCAACTTGATCTCCTGTGTATCATAGCCATTGTT
937407 TGTTGTAATT
Statistics
Matches: 117, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
120 2 0.02
121 115 0.98
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (121 bp):
TACTATAACGACAAATTTTTGGGAGATCTTTCACTGCCTATTTAACTGCTTCCATATAGATTGCT
TGCTCATAAGCAAAGGTTATATCAACTTGATCTCCTGTGTATCATAGCCATTGTTG
Found at i:940923 original size:25 final size:25
Alignment explanation
Indices: 940884--940937 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
940874 AAATTTTCTC
940884 AAAATTTTATCAATTT-TTTTTGTTT
1 AAAATTTTATCAATTTATTTTT-TTT
* *
940909 AAAATTTTTTGAATTTAATTTTTTTT
1 AAAATTTTATCAATTT-ATTTTTTTT
940935 AAA
1 AAA
940938 TTAAAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 14 0.56
26 6 0.24
27 5 0.20
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (25 bp):
AAAATTTTATCAATTTATTTTTTTT
Found at i:941146 original size:48 final size:48
Alignment explanation
Indices: 941036--941171 Score: 168
Period size: 48 Copynumber: 2.8 Consensus size: 48
941026 AGTGATAATT
* * *
941036 TTAAATTTTCAATACTATTCGATATTTTTTTTAATTTATGCAAATTTAA
1 TTAAAATTTCAATACTATTTGATA-TTTTTTTCATTTATGCAAATTTAA
*
941085 TT-AAATTTGCAATACTATTTGATATTTTATTCATTTATGC-AATTATAA
1 TTAAAATTT-CAATACTATTTGATATTTTTTTCATTTATGCAAATT-TAA
** *
941133 TTAAAATTTCAATACTGCTTGATTTTTTTTTCATTTATG
1 TTAAAATTTCAATACTATTTGATATTTTTTTCATTTATG
941172 ATGTTTGCAT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
47 4 0.05
48 50 0.66
49 22 0.29
ACGTcount: A:0.32, C:0.09, G:0.06, T:0.53
Consensus pattern (48 bp):
TTAAAATTTCAATACTATTTGATATTTTTTTCATTTATGCAAATTTAA
Found at i:942164 original size:7 final size:7
Alignment explanation
Indices: 942153--942184 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
942143 AGTCGTTTCA
*
942153 TATTTAA
1 TATTTAG
942160 TATTTAG
1 TATTTAG
942167 TATTTAG
1 TATTTAG
942174 TATTTAG
1 TATTTAG
942181 TATT
1 TATT
942185 ATGTATTATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.59
Consensus pattern (7 bp):
TATTTAG
Found at i:942802 original size:18 final size:18
Alignment explanation
Indices: 942779--942821 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
942769 TGCCAGGTGC
* *
942779 GTATCCTAGCCTTTATAT
1 GTATCCTAACCCTTATAT
942797 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
942815 GTTTCCT
1 GTATCCT
942822 TTTCCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.21, C:0.26, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:946537 original size:126 final size:126
Alignment explanation
Indices: 946312--946818 Score: 861
Period size: 126 Copynumber: 4.0 Consensus size: 126
946302 TTATAGCCTC
946312 ATTTTTCTATGAACTACCGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
1 ATTTTTCTATGAACTACCGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
*
946377 ACAGTGCATCCTACTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGCTTACTCAGAATT
66 ACAGTGCATCCTACTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTTTACTCAGAATT
946438 ATTTTTCTATGAACTACCGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
1 ATTTTTCTATGAACTACCGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
946503 ACAGTGCATCCTACTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTTTACTCAGAATT
66 ACAGTGCATCCTACTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTTTACTCAGAATT
** * *
946564 ATTTTTCTATGAACTATTGTAACAAAAGAGCGTCCATGTGGGAGCTTTTTTCAGAAATTTTGCTG
1 ATTTTTCTATGAACTACCGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
** * * *
946629 ACAGTTTATCCTGCTTGAAGCGTTTTCGACAATATTTGTTCAGAAACGTTTATTCAGAATT
66 ACAGTGCATCCTACTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTTTACTCAGAATT
* *
946690 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
1 ATTTTTCTATGAACTACCGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
* * * * *
946755 ACAGTGCATCCTGCTTCAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTTAAAATT
66 ACAGTGCATCCTACTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTTTACTCAGAATT
946816 ATT
1 ATT
946819 CTTGCAGAAA
Statistics
Matches: 359, Mismatches: 22, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
126 359 1.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (126 bp):
ATTTTTCTATGAACTACCGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
ACAGTGCATCCTACTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTTTACTCAGAATT
Found at i:947365 original size:19 final size:19
Alignment explanation
Indices: 947343--947427 Score: 104
Period size: 19 Copynumber: 4.6 Consensus size: 19
947333 ACCATTATGT
947343 ATCAATTAACCCTAAATTA
1 ATCAATTAACCCTAAATTA
* *
947362 ATCAATTAGCCTTAAATTTA
1 ATCAATTAACCCTAAA-TTA
*
947382 ATCAATTAACCCTAATTTA
1 ATCAATTAACCCTAAATTA
*
947401 ATCAA-T--CCCTAATTTA
1 ATCAATTAACCCTAAATTA
947417 ATCAATTAACC
1 ATCAATTAACC
947428 TTAATACCCT
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
16 15 0.26
17 1 0.02
18 1 0.02
19 24 0.42
20 16 0.28
ACGTcount: A:0.42, C:0.21, G:0.01, T:0.35
Consensus pattern (19 bp):
ATCAATTAACCCTAAATTA
Found at i:947412 original size:16 final size:17
Alignment explanation
Indices: 947351--947422 Score: 74
Period size: 16 Copynumber: 4.0 Consensus size: 17
947341 GTATCAATTA
*
947351 ACCCTAAATTAATCAATT
1 ACCCTAATTTAATCAA-T
*
947369 AGCCTTAAATTTAATCAATT
1 A-CCCT-AATTTAATCAA-T
947389 AACCCTAATTTAATCAAT
1 -ACCCTAATTTAATCAAT
947407 -CCCTAATTTAATCAAT
1 ACCCTAATTTAATCAAT
947423 TAACCTTAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
16 16 0.33
18 2 0.04
19 14 0.29
20 15 0.31
21 1 0.02
ACGTcount: A:0.42, C:0.21, G:0.01, T:0.36
Consensus pattern (17 bp):
ACCCTAATTTAATCAAT
Found at i:947422 original size:35 final size:38
Alignment explanation
Indices: 947343--947432 Score: 123
Period size: 39 Copynumber: 2.4 Consensus size: 38
947333 ACCATTATGT
* *
947343 ATCAATTAACCCTAAATTAATCAATTAGCCTTAAATTTA
1 ATCAATTAACCCTAATTTAATCAATTA-CCCTAAATTTA
947382 ATCAATTAACCCTAATTTAATCAA-T-CCCT-AATTTA
1 ATCAATTAACCCTAATTTAATCAATTACCCTAAATTTA
*
947417 ATCAATTAACCTTAAT
1 ATCAATTAACCCTAAT
947433 ACCCTAAACT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
35 21 0.44
36 3 0.06
38 1 0.02
39 23 0.48
ACGTcount: A:0.42, C:0.20, G:0.01, T:0.37
Consensus pattern (38 bp):
ATCAATTAACCCTAATTTAATCAATTACCCTAAATTTA
Found at i:948534 original size:13 final size:13
Alignment explanation
Indices: 948505--948539 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
948495 ATTTAATGTT
*
948505 TAATTATATATGGA
1 TAATTAT-TAAGGA
948519 TAATTATTAAGGA
1 TAATTATTAAGGA
948532 TAATTATT
1 TAATTATT
948540 TAGATTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 13 0.65
14 7 0.35
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (13 bp):
TAATTATTAAGGA
Found at i:948571 original size:10 final size:10
Alignment explanation
Indices: 948556--948615 Score: 68
Period size: 10 Copynumber: 6.0 Consensus size: 10
948546 TAAATTTAAG
*
948556 ATTTATTTTT
1 ATTTATCTTT
948566 ATTTATCTTT
1 ATTTATCTTT
*
948576 AATTATCTTT
1 ATTTATCTTT
*
948586 AATTATCTTT
1 ATTTATCTTT
948596 ATTTAT-TTGT
1 ATTTATCTT-T
*
948606 GTTTATCTTT
1 ATTTATCTTT
948616 TAGAATTTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
9 2 0.05
10 40 0.91
11 2 0.05
ACGTcount: A:0.22, C:0.07, G:0.03, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:955596 original size:7 final size:7
Alignment explanation
Indices: 955586--955637 Score: 52
Period size: 7 Copynumber: 7.3 Consensus size: 7
955576 TCTTTTTCTT
955586 TTATTTA
1 TTATTTA
955593 TTATTTA
1 TTATTTA
955600 TTATTTTA
1 TTA-TTTA
*
955608 TT-TTAA
1 TTATTTA
*
955614 TTACTTA
1 TTATTTA
*
955621 TTACTTAA
1 TTA-TTTA
955629 TTATTTA
1 TTATTTA
955636 TT
1 TT
955638 TTATTTTGGA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
6 5 0.14
7 20 0.56
8 11 0.31
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (7 bp):
TTATTTA
Found at i:958359 original size:99 final size:100
Alignment explanation
Indices: 958230--958416 Score: 295
Period size: 99 Copynumber: 1.9 Consensus size: 100
958220 TTTTTAAGAA
* * *
958230 TATGTTGGGTTGAGTAACTGGGGTGAGGTGCTTGGCTATCATCTCTCTTCGCGTCAAAAGGTTCG
1 TATGTTGGGTTGAGTAACCGAGGTGAGGTGCTTGGCTATCATCTCTCTTCGCGTCAAAAGGTTCA
*
958295 ATATGTTCTTAAG-AAAATAAAAAAAAATTAGGAG
66 ATATATTCTTAAGAAAAATAAAAAAAAATTAGGAG
* * *
958329 TATGTTGGTTTGAGTAACCGAGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTCA
1 TATGTTGGGTTGAGTAACCGAGGTGAGGTGCTTGGCTATCATCTCTCTTCGCGTCAAAAGGTTCA
958394 ATATATTCTTAAGTAAAAATAAA
66 ATATATTCTTAAG-AAAAATAAA
958417 TTAAATTAAA
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
99 71 0.90
101 8 0.10
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (100 bp):
TATGTTGGGTTGAGTAACCGAGGTGAGGTGCTTGGCTATCATCTCTCTTCGCGTCAAAAGGTTCA
ATATATTCTTAAGAAAAATAAAAAAAAATTAGGAG
Found at i:958454 original size:12 final size:11
Alignment explanation
Indices: 958430--958471 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
958420 AATTAAATTT
*
958430 AAAAAACAAAG
1 AAAAAAGAAAG
958441 AAAGAAAGAAAG
1 AAA-AAAGAAAG
958453 AAAAAAAGAAA-
1 -AAAAAAGAAAG
958464 AAAAAAGA
1 AAAAAAGA
958472 TATATTAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 8 0.29
11 3 0.11
12 14 0.50
13 3 0.11
ACGTcount: A:0.83, C:0.02, G:0.14, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAG
Found at i:958638 original size:10 final size:10
Alignment explanation
Indices: 958623--958674 Score: 59
Period size: 10 Copynumber: 5.1 Consensus size: 10
958613 TAAATTTTGG
958623 ATTTATTTTT
1 ATTTATTTTT
*
958633 ATTTATCTTT
1 ATTTATTTTT
* *
958643 AATTATCTTT
1 ATTTATTTTT
*
958653 ATTTATTTGT
1 ATTTATTTTT
958663 ATTTATCTTTT
1 ATTTAT-TTTT
958674 A
1 A
958675 GAATTTAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
10 31 0.89
11 4 0.11
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.69
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:962706 original size:12 final size:11
Alignment explanation
Indices: 962686--962728 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
962676 TTAGCTTTGC
962686 ATTATTATTACT
1 ATTA-TATTACT
962698 ATTACTATTACT
1 ATTA-TATTACT
*
962710 ATTATATTTCT
1 ATTATATTACT
*
962721 TTTATATT
1 ATTATATT
962729 TATTAGGCTC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
11 13 0.46
12 15 0.54
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.60
Consensus pattern (11 bp):
ATTATATTACT
Found at i:962807 original size:19 final size:21
Alignment explanation
Indices: 962777--962817 Score: 68
Period size: 19 Copynumber: 2.0 Consensus size: 21
962767 AAAAATGATG
962777 TCTGGAAAATGATTTA-TTTT
1 TCTGGAAAATGATTTACTTTT
962797 TCTGG-AAATGATTTACTTTT
1 TCTGGAAAATGATTTACTTTT
962817 T
1 T
962818 TGGTGTTTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.27, C:0.07, G:0.15, T:0.51
Consensus pattern (21 bp):
TCTGGAAAATGATTTACTTTT
Found at i:965713 original size:3 final size:3
Alignment explanation
Indices: 965705--965731 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
965695 TCAATCTTTA
965705 CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT
965732 TATTATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:966579 original size:22 final size:22
Alignment explanation
Indices: 966531--966583 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 22
966521 TTTCGTAGAC
*
966531 CAAAATTATTTTTTTAATAAAAT
1 CAAAA-TATTTTATTAATAAAAT
966554 -AAAATATTTTATTAA-AACAAT
1 CAAAATATTTTATTAATAA-AAT
966575 CAAAATATT
1 CAAAATATT
966584 AGGTGATCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 2 0.07
21 13 0.48
22 12 0.44
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (22 bp):
CAAAATATTTTATTAATAAAAT
Found at i:978858 original size:23 final size:23
Alignment explanation
Indices: 978831--978879 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
978821 ATAACTAAAG
978831 ATTTTTATTTCTTGAATTATTCT
1 ATTTTTATTTCTTGAATTATTCT
*
978854 ATTTTTATTTTTTGAATTATTCT
1 ATTTTTATTTCTTGAATTATTCT
978877 ATT
1 ATT
978880 GTAAGTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.22, C:0.06, G:0.04, T:0.67
Consensus pattern (23 bp):
ATTTTTATTTCTTGAATTATTCT
Found at i:982932 original size:3 final size:3
Alignment explanation
Indices: 982924--982973 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
982914 AAAGTTAAAG
982924 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
982972 AA
1 AA
982974 GAGATAAAAG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:985780 original size:43 final size:43
Alignment explanation
Indices: 985719--985835 Score: 180
Period size: 43 Copynumber: 2.7 Consensus size: 43
985709 GTTTGTGGCG
*
985719 CTTTTCCCACAAACGCCGCTACAGGTCATGACCTTTAGCGGCA
1 CTTTTCCCACAAACGCCGCTAAAGGTCATGACCTTTAGCGGCA
* * *
985762 CTTTTGCCACAAATGCCGCTAAAGGTCATGACCTTTAGCGGCG
1 CTTTTCCCACAAACGCCGCTAAAGGTCATGACCTTTAGCGGCA
* *
985805 CTTTTCCCACAAACGCCACTAAAGGTAATGA
1 CTTTTCCCACAAACGCCGCTAAAGGTCATGA
985836 AATTTTTAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 66 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (43 bp):
CTTTTCCCACAAACGCCGCTAAAGGTCATGACCTTTAGCGGCA
Found at i:985890 original size:27 final size:28
Alignment explanation
Indices: 985843--985896 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
985833 TGAAATTTTT
*
985843 AAAAAAATAAAATATTATAAAAGTCATG
1 AAAAAAATAAAAAATTATAAAAGTCATG
* *
985871 AAAAATATAAAAAATT-TAAAATTCAT
1 AAAAAAATAAAAAATTATAAAAGTCAT
985897 TATCAAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.28
Consensus pattern (28 bp):
AAAAAAATAAAAAATTATAAAAGTCATG
Found at i:986001 original size:19 final size:21
Alignment explanation
Indices: 985960--986007 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
985950 TTAAATTTTT
985960 AACTAAAAATATTAAAATAAA
1 AACTAAAAATATTAAAATAAA
* *
985981 AA-TAAAAAT-TTAGAATCAA
1 AACTAAAAATATTAAAATAAA
986000 AACTAAAA
1 AACTAAAA
986008 TAAATAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.42
20 12 0.50
21 2 0.08
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.23
Consensus pattern (21 bp):
AACTAAAAATATTAAAATAAA
Found at i:987495 original size:17 final size:17
Alignment explanation
Indices: 987470--987502 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
987460 TTATTTTTTC
*
987470 TTTCTGAAAACCCATTG
1 TTTCAGAAAACCCATTG
987487 TTTCAGAAAACCCATT
1 TTTCAGAAAACCCATT
987503 TCTTCTTCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.24, G:0.09, T:0.33
Consensus pattern (17 bp):
TTTCAGAAAACCCATTG
Found at i:988998 original size:7 final size:7
Alignment explanation
Indices: 988986--989049 Score: 56
Period size: 7 Copynumber: 9.0 Consensus size: 7
988976 CCCATGGCCA
988986 TTAAACC
1 TTAAACC
988993 TTAAACC
1 TTAAACC
*
989000 ATAAAACC
1 -TTAAACC
*
989008 CTAAACC
1 TTAAACC
* *
989015 ATAGACC
1 TTAAACC
989022 TTAAACC
1 TTAAACC
**
989029 TTAAATA
1 TTAAACC
989036 TTAAACC
1 TTAAACC
*
989043 GTAAACC
1 TTAAACC
989050 AAAAAATAAA
Statistics
Matches: 44, Mismatches: 12, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
7 38 0.86
8 6 0.14
ACGTcount: A:0.47, C:0.27, G:0.03, T:0.23
Consensus pattern (7 bp):
TTAAACC
Found at i:989006 original size:15 final size:15
Alignment explanation
Indices: 988983--989033 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
988973 ATACCCATGG
*
988983 CCATTAAACCTTAAA
1 CCATAAAACCTTAAA
*
988998 CCATAAAACCCTAAA
1 CCATAAAACCTTAAA
*
989013 CCAT-AGACCTTAAA
1 CCATAAAACCTTAAA
*
989027 CCTTAAA
1 CCATAAA
989034 TATTAAACCG
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
14 11 0.38
15 18 0.62
ACGTcount: A:0.47, C:0.29, G:0.02, T:0.22
Consensus pattern (15 bp):
CCATAAAACCTTAAA
Found at i:989524 original size:41 final size:41
Alignment explanation
Indices: 989272--989512 Score: 333
Period size: 41 Copynumber: 5.9 Consensus size: 41
989262 GGGGTTATAT
* *
989272 GACTTTTAGCGGCGTTTTATCAAAAGCGCCGCTAATGCTCC
1 GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCC
*
989313 GACTTTTAGCGGCGTTTTACCGAAAGCGCCGCTATTGCTCC
1 GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCC
* * *
989354 GACTTTCAGCGGCGTTTTATCGAAAGCGCCGCTATTGCTCC
1 GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCC
* *
989395 GACTTTTAGCGGCGTTTAACCAAAAGCGCCGCTATTGCTCT
1 GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCC
* * *
989436 G-TTTTTAGCGGCGTTTTAACAAAAAGCGCCGCTATTGCTCT
1 GACTTTTAGCGGCGTTTT-ACCAAAAGCGCCGCTATTGCTCC
* * *
989477 G-TTTTTAGTGGCGTTTTACCAAAAACGCCGCTATTG
1 GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTG
989513 ATCTGTGTTT
Statistics
Matches: 183, Mismatches: 16, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
40 31 0.17
41 152 0.83
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (41 bp):
GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCC
Found at i:993301 original size:13 final size:13
Alignment explanation
Indices: 993280--993324 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
993270 AAATTTTTCC
*
993280 AAAGCACTTCTCA
1 AAAGTACTTCTCA
993293 AAAGTACTTCTCA
1 AAAGTACTTCTCA
* *
993306 AAAGTATTTCTTA
1 AAAGTACTTCTCA
993319 AAAGTA
1 AAAGTA
993325 TTTTTCCACA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (13 bp):
AAAGTACTTCTCA
Found at i:993309 original size:26 final size:27
Alignment explanation
Indices: 993280--993350 Score: 65
Period size: 26 Copynumber: 2.7 Consensus size: 27
993270 AAATTTTTCC
993280 AAAGCACTTCTCAAAAGTACTTCT-CA
1 AAAGCACTTCTCAAAAGTACTTCTCCA
* * * * *
993306 AAAGTATTTCTTAAAAGTATTTTTCCA
1 AAAGCACTTCTCAAAAGTACTTCTCCA
* *
993333 CAA-CACTTTTCAAAAGTA
1 AAAGCACTTCTCAAAAGTA
993351 ATGAAAAACT
Statistics
Matches: 34, Mismatches: 10, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
26 30 0.88
27 4 0.12
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.34
Consensus pattern (27 bp):
AAAGCACTTCTCAAAAGTACTTCTCCA
Found at i:993325 original size:13 final size:13
Alignment explanation
Indices: 993287--993327 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
993277 TCCAAAGCAC
*
993287 TTCTCAAAAGTAC
1 TTCTCAAAAGTAT
993300 TTCTCAAAAGTAT
1 TTCTCAAAAGTAT
*
993313 TTCTTAAAAGTAT
1 TTCTCAAAAGTAT
993326 TT
1 TT
993328 TTCCACAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (13 bp):
TTCTCAAAAGTAT
Found at i:993667 original size:15 final size:14
Alignment explanation
Indices: 993639--993665 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
993629 TGAATTATGT
993639 TTTTTTAATATTTA
1 TTTTTTAATATTTA
993653 TTTTTTAATATTT
1 TTTTTTAATATTT
993666 TAATATATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTTTAATATTTA
Found at i:993669 original size:22 final size:21
Alignment explanation
Indices: 993641--993684 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 21
993631 AATTATGTTT
993641 TTTTAATATTTATTTTT-TAATA
1 TTTTAATA--TATTTTTATAATA
993663 TTTTAATATATTTTTATAATA
1 TTTTAATATATTTTTATAATA
993684 T
1 T
993685 ATTTGTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.33
21 6 0.29
22 8 0.38
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTTAATATATTTTTATAATA
Found at i:996953 original size:14 final size:14
Alignment explanation
Indices: 996936--996965 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
996926 GGGGTCCACG
*
996936 TGTCATTTCTATTT
1 TGTCATTTCCATTT
996950 TGTCATTTCCATTT
1 TGTCATTTCCATTT
996964 TG
1 TG
996966 GCATCCCACG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.13, C:0.17, G:0.10, T:0.60
Consensus pattern (14 bp):
TGTCATTTCCATTT
Found at i:999451 original size:12 final size:12
Alignment explanation
Indices: 999434--999474 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
999424 AAGAAGAGAA
999434 AAGAAAGAAAAT
1 AAGAAAGAAAAT
999446 AAGAAAGAAAAT
1 AAGAAAGAAAAT
* *
999458 AAGAAAAAAAAG
1 AAGAAAGAAAAT
999470 AAGAA
1 AAGAA
999475 GAACAAGAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (12 bp):
AAGAAAGAAAAT
Found at i:999482 original size:21 final size:22
Alignment explanation
Indices: 999423--999482 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 22
999413 ATTTAGTGTT
999423 TAAGAAG-AGAAAAGAAAGAAAA
1 TAAGAAGAAGAAAAG-AAGAAAA
999445 TAAGAAAGAA-AATAAGAA-AAAA
1 TAAG-AAGAAGAA-AAGAAGAAAA
999467 -AAGAAGAAGAACAAGA
1 TAAGAAGAAGAA-AAGA
999483 GGAGAAGAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
20 5 0.15
21 9 0.27
22 8 0.24
23 7 0.21
24 4 0.12
ACGTcount: A:0.73, C:0.02, G:0.20, T:0.05
Consensus pattern (22 bp):
TAAGAAGAAGAAAAGAAGAAAA
Found at i:999497 original size:12 final size:12
Alignment explanation
Indices: 999459--999507 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
999449 AAAGAAAATA
* *
999459 AGAAAAAAAAGA
1 AGAAGAAAAAGG
999471 AGAAGAACAAGAGG
1 AGAAGAA-AA-AGG
999485 AGAAGAAAAAGG
1 AGAAGAAAAAGG
999497 AGAAGAGAAAA
1 AGAAGA-AAAA
999508 ATGGAGATAC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 15 0.47
13 8 0.25
14 9 0.28
ACGTcount: A:0.69, C:0.02, G:0.29, T:0.00
Consensus pattern (12 bp):
AGAAGAAAAAGG
Found at i:1000238 original size:20 final size:21
Alignment explanation
Indices: 1000208--1000249 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
1000198 ATCCAATGTG
1000208 GCAAGTTAACTGGCCACATCA
1 GCAAGTTAACTGGCCACATCA
*
1000229 GCAA-TTAACTTGCCACATCA
1 GCAAGTTAACTGGCCACATCA
1000249 G
1 G
1000250 TTGTCTCGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (21 bp):
GCAAGTTAACTGGCCACATCA
Found at i:1001411 original size:17 final size:19
Alignment explanation
Indices: 1001384--1001423 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
1001374 TATTATTAAA
*
1001384 ATTGATTAATTTTATT-TT
1 ATTGATTAATTCTATTATT
1001402 ATTG-TTAATTCTATTATT
1 ATTGATTAATTCTATTATT
1001420 ATTG
1 ATTG
1001424 GTATTATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.28, C:0.03, G:0.07, T:0.62
Consensus pattern (19 bp):
ATTGATTAATTCTATTATT
Found at i:1001421 original size:3 final size:3
Alignment explanation
Indices: 1001413--1001787 Score: 131
Period size: 3 Copynumber: 126.3 Consensus size: 3
1001403 TTGTTAATTC
** *
1001413 TAT TAT TAT TGG TAT TAT TAT TAT TAT TACT T-T TAT TCT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
* * ** * * *
1001457 TAC TAT TAT TGT TGC TAT T-T CTCT TAT TGT TTT TAT TAT TATT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TA-T TAT
* * * * *
1001503 T-T TAT TGT TAG TAT TAT TAG TAT TCCT TAG T-T TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
* * * * * *
1001547 TAT T-T CAT CAT TAT TTT CTAT TAT TGT TAT TAT TAA TA- TAC TAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
1001591 TAT TAT TCT TAT TAAT GTAT TAT TGT TAT TAT TTT CTAC T-T TAT TAT
1 TAT TAT TAT TAT T-AT -TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
** * * * *
1001638 TA- TAT TAT TAT TAT TGC TAT CA- TCT TAT TAT TA- AACT AAT TAAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT T-AT
* * * *
1001682 T-T TA- TAT TGAT T-T TGT CA- CAT TAT ATAT T-T TCT T-T T-T GTATT
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT -TA-T
* ** *
1001724 TAT T-T ACAT TAT TAT TGC TAT TAC TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1001769 TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT T
1001788 TTTGAACATA
Statistics
Matches: 277, Mismatches: 62, Indels: 66
0.68 0.15 0.16
Matches are distributed among these distances:
2 29 0.10
3 217 0.78
4 29 0.10
5 2 0.01
ACGTcount: A:0.27, C:0.07, G:0.05, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:1001622 original size:20 final size:23
Alignment explanation
Indices: 1001564--1001623 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
1001554 TCATTATTTT
1001564 CTATTATTGTTATTATTAATATA
1 CTATTATTGTTATTATTAATATA
* *
1001587 CTATTATTATTCTTATT-A-AT-
1 CTATTATTGTTATTATTAATATA
*
1001607 GTATTATTGTTATTATT
1 CTATTATTGTTATTATT
1001624 TTCTACTTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 14 0.44
21 2 0.06
22 1 0.03
23 15 0.47
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (23 bp):
CTATTATTGTTATTATTAATATA
Found at i:1001852 original size:27 final size:26
Alignment explanation
Indices: 1001821--1001910 Score: 69
Period size: 27 Copynumber: 3.3 Consensus size: 26
1001811 ATTATTATCA
1001821 ATTTTAAATATTTTACATATGTTATTT
1 ATTTTAAATATTTTACATAT-TTATTT
* * *
1001848 CTTTTAAACTATTATACGTA-TTATTT
1 ATTTTAAA-TATTTTACATATTTATTT
*
1001874 ATTTTGAAAT-TTTTATATATATCT-TTGT
1 ATTTT-AAATATTTTACATAT-T-TATT-T
1001902 ATTTTAAAT
1 ATTTTAAAT
1001911 TATTATGTAT
Statistics
Matches: 50, Mismatches: 7, Indels: 12
0.72 0.10 0.17
Matches are distributed among these distances:
25 6 0.12
26 11 0.22
27 17 0.34
28 16 0.32
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (26 bp):
ATTTTAAATATTTTACATATTTATTT
Found at i:1002176 original size:25 final size:27
Alignment explanation
Indices: 1002148--1002199 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 27
1002138 TTTATATGCA
*
1002148 ATTTTAAATTATT-TTTTTAT-TTATT
1 ATTTTAAATTATTCTATTTATATTATT
*
1002173 ATTTTAAGTTATTCTATTTATATTATT
1 ATTTTAAATTATTCTATTTATATTATT
1002200 TTGTTATCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 12 0.52
26 6 0.26
27 5 0.22
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (27 bp):
ATTTTAAATTATTCTATTTATATTATT
Found at i:1004758 original size:17 final size:16
Alignment explanation
Indices: 1004711--1004758 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
1004701 GGCCTATAAT
*
1004711 ATTTGGATAGATTATTG
1 ATTT-GATAGATTATTA
*
1004728 ATTTGATAAAATTAGTTA
1 ATTTGAT-AGATTA-TTA
1004746 ATTTGATAGATTA
1 ATTTGATAGATTA
1004759 ACTAATTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 3 0.12
17 14 0.54
18 9 0.35
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.46
Consensus pattern (16 bp):
ATTTGATAGATTATTA
Found at i:1006132 original size:14 final size:14
Alignment explanation
Indices: 1006094--1006133 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
1006084 CATGATGACT
1006094 AATTAATTTAATTTC
1 AATT-ATTTAATTTC
*
1006109 -ATTTTTTAATTTC
1 AATTATTTAATTTC
1006122 AATTATTTAATT
1 AATTATTTAATT
1006134 ATAATTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 9 0.41
14 13 0.59
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (14 bp):
AATTATTTAATTTC
Found at i:1006139 original size:14 final size:13
Alignment explanation
Indices: 1006093--1006145 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 13
1006083 TCATGATGAC
1006093 TAATTAATTTAATT
1 TAATT-ATTTAATT
* *
1006107 TCATTTTTTAATT
1 TAATTATTTAATT
1006120 TCAATTATTTAATT
1 T-AATTATTTAATT
*
1006134 ATAATTAATTAA
1 -TAATTATTTAA
1006146 ATAATAATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
13 8 0.25
14 23 0.72
15 1 0.03
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.57
Consensus pattern (13 bp):
TAATTATTTAATT
Found at i:1006297 original size:43 final size:43
Alignment explanation
Indices: 1006196--1006281 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
1006186 TTATAGTGAG
1006196 AAAACACATTCATTTTTTAACACGACCCAATTTTTAACATCAT
1 AAAACACATTCATTTTTTAACACGACCCAATTTTTAACATCAT
1006239 AAAACACATTCATTTTTTAACACGACCCAATTTTTAACATCAT
1 AAAACACATTCATTTTTTAACACGACCCAATTTTTAACATCAT
1006282 CATTTCTATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.40, C:0.23, G:0.02, T:0.35
Consensus pattern (43 bp):
AAAACACATTCATTTTTTAACACGACCCAATTTTTAACATCAT
Found at i:1008337 original size:16 final size:16
Alignment explanation
Indices: 1008316--1008349 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
1008306 GGACGGAGTT
1008316 GGTGTGTAACAAATGG
1 GGTGTGTAACAAATGG
1008332 GGTGTGTAACAAATGG
1 GGTGTGTAACAAATGG
1008348 GG
1 GG
1008350 GTAGGAGTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.06, G:0.41, T:0.24
Consensus pattern (16 bp):
GGTGTGTAACAAATGG
Found at i:1013222 original size:26 final size:25
Alignment explanation
Indices: 1013193--1013266 Score: 69
Period size: 26 Copynumber: 2.9 Consensus size: 25
1013183 AAAATTATGT
*
1013193 TAAATTATTTATATTTAAAATATTAA
1 TAAA-TATTTATATTTAAAATATAAA
* ** *
1013219 TAAAAATATTATATTGCAAATAAAAA
1 TAAATAT-TTATATTTAAAATATAAA
*
1013245 TAAATA-TTATTTTTAAAATATA
1 TAAATATTTATATTTAAAATATA
1013267 TAAAAAAGGT
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
24 12 0.32
25 2 0.05
26 23 0.62
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (25 bp):
TAAATATTTATATTTAAAATATAAA
Found at i:1014618 original size:42 final size:41
Alignment explanation
Indices: 1014559--1014682 Score: 128
Period size: 42 Copynumber: 3.0 Consensus size: 41
1014549 ATTTATATGC
*
1014559 CACACGACTTGGACACACACCTATGTCCTTGGCCGTGTGGCT
1 CACACGACTTGGACACACGCC-ATGTCCTTGGCCGTGTGGCT
** *
1014601 CACACGACTTGGACACACGCCCATGT-CTCTACCCGTGTGACT
1 CACACGACTTGGACACACG-CCATGTCCT-TGGCCGTGTGGCT
*
1014643 CACAC-AGCTTGCG-CGCACGCGCATGTCCTTGGCCGTGTGG
1 CACACGA-CTTG-GACACACGC-CATGTCCTTGGCCGTGTGG
1014683 TCCTAAGTCA
Statistics
Matches: 68, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
41 4 0.06
42 59 0.87
43 5 0.07
ACGTcount: A:0.18, C:0.35, G:0.25, T:0.22
Consensus pattern (41 bp):
CACACGACTTGGACACACGCCATGTCCTTGGCCGTGTGGCT
Found at i:1018483 original size:15 final size:15
Alignment explanation
Indices: 1018463--1018494 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
1018453 AATTCTGAAC
1018463 AGACTTTCATTTCAA
1 AGACTTTCATTTCAA
1018478 AGACTTTCATTTCAA
1 AGACTTTCATTTCAA
1018493 AG
1 AG
1018495 TTAATCATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (15 bp):
AGACTTTCATTTCAA
Found at i:1023945 original size:14 final size:16
Alignment explanation
Indices: 1023919--1023952 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
1023909 TAAAGCACGA
1023919 AAATTTCACACAT-AT
1 AAATTTCACACATAAT
1023934 AAATTT-ACACATAAT
1 AAATTTCACACATAAT
1023949 AAAT
1 AAAT
1023953 ACAGAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATTTCACACATAAT
Found at i:1025237 original size:50 final size:48
Alignment explanation
Indices: 1025166--1025261 Score: 156
Period size: 50 Copynumber: 2.0 Consensus size: 48
1025156 TTTCCAAAAA
*
1025166 AATATTATTTTAATAGTTTAATATTAAATTTAATTTAATATTTATCTT
1 AATATTATTTTAATAGTTTAATATTAAATTTAATCTAATATTTATCTT
*
1025214 AATATTATTTTGATAAGATTTAATATTAAATTTAATCTAATATTTATC
1 AATATTATTTTAAT-AG-TTTAATATTAAATTTAATCTAATATTTATC
1025262 GTGATAAATA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
48 13 0.30
49 2 0.05
50 29 0.66
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (48 bp):
AATATTATTTTAATAGTTTAATATTAAATTTAATCTAATATTTATCTT
Found at i:1031043 original size:5 final size:5
Alignment explanation
Indices: 1031033--1031076 Score: 61
Period size: 5 Copynumber: 8.8 Consensus size: 5
1031023 TGTAAAACAA
* * *
1031033 TTGAT TTGAT TTGAT TTGAC TTGAC TTGAC TTGAC TTGAC TTGA
1 TTGAC TTGAC TTGAC TTGAC TTGAC TTGAC TTGAC TTGAC TTGA
1031077 TTTAAGATAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.20, C:0.11, G:0.20, T:0.48
Consensus pattern (5 bp):
TTGAC
Found at i:1035862 original size:21 final size:19
Alignment explanation
Indices: 1035837--1035888 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 19
1035827 GCCCTTTTTC
*
1035837 AAGAGTAGAAATCGGTAATGG
1 AAGAG-AGAAAT-GGAAATGG
*
1035858 AAGAG-GACAAAGGAAATGG
1 AAGAGAGA-AATGGAAATGG
1035877 AAGAGAGAAATG
1 AAGAGAGAAATG
1035889 AAGAAATGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
19 17 0.65
20 4 0.15
21 5 0.19
ACGTcount: A:0.50, C:0.04, G:0.35, T:0.12
Consensus pattern (19 bp):
AAGAGAGAAATGGAAATGG
Found at i:1036494 original size:22 final size:22
Alignment explanation
Indices: 1036469--1036513 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
1036459 GAAAATTTAT
1036469 TATAAAAATAATTTAAATTCAA
1 TATAAAAATAATTTAAATTCAA
**
1036491 TATATTAATAATTTAAATTCAA
1 TATAAAAATAATTTAAATTCAA
1036513 T
1 T
1036514 TTAGTTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.42
Consensus pattern (22 bp):
TATAAAAATAATTTAAATTCAA
Found at i:1050584 original size:35 final size:35
Alignment explanation
Indices: 1050532--1050610 Score: 144
Period size: 35 Copynumber: 2.3 Consensus size: 35
1050522 ATATGGGCAA
1050532 GGCCCA-A-TATATCTCGACTTGTAATAGGGCTAC
1 GGCCCAGATTATATCTCGACTTGTAATAGGGCTAC
1050565 GGCCCAGATTATATCTCGACTTGTAATAGGGCTAC
1 GGCCCAGATTATATCTCGACTTGTAATAGGGCTAC
1050600 GGCCCAGATTA
1 GGCCCAGATTA
1050611 ATACTGATAT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
33 6 0.14
34 1 0.02
35 37 0.84
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.27
Consensus pattern (35 bp):
GGCCCAGATTATATCTCGACTTGTAATAGGGCTAC
Done.