Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008162.1 Hibiscus syriacus cultivar Beakdansim tig00110733_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3688897
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 16
Found at i:614101 original size:2 final size:2
Alignment explanation
Indices: 614094--614124 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
614084 TTAACATTAT
614094 TA TA TA 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 TA TA TA T
614125 GTTTGAAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:620598 original size:36 final size:36
Alignment explanation
Indices: 620558--620856 Score: 228
Period size: 36 Copynumber: 8.6 Consensus size: 36
620548 CGCTTATTGC
*
620558 TAATGATTATATGCATGATATACATGCCCCTGCTAA
1 TAATGATTATATGCATGATATACATGCGCCTGCTAA
* *
620594 TAATGATCATATGCATGATATACATGTGCCTG--AA
1 TAATGATTATATGCATGATATACATGCGCCTGCTAA
* **
620628 TAATGATTATATGC---ATATGCATGCGCCTATTAA
1 TAATGATTATATGCATGATATACATGCGCCTGCTAA
* *
620661 TAATGATTATATGCAT-TTATACATGTG-CTGCTAA
1 TAATGATTATATGCATGATATACATGCGCCTGCTAA
*** * * *
620695 TAATGAGCGTATGCATGATATCCATGTGCTTGCTAA
1 TAATGATTATATGCATGATATACATGCGCCTGCTAA
* * * * **
620731 TGATGA-T-TA--CATGATATTCTTGC-CCTTGTTGC
1 TAATGATTATATGCATGATATACATGCGCC-TGCTAA
** * * *
620763 TAATGATTATATATACGATATACATGCACCTGCCAA
1 TAATGATTATATGCATGATATACATGCGCCTGCTAA
* ** *
620799 TAATGATTATATGCATGATACACATATGCTTGCTAA
1 TAATGATTATATGCATGATATACATGCGCCTGCTAA
*
620835 TAATGATCATA-GCATGATATAC
1 TAATGATTATATGCATGATATAC
620857 CTGAGCTTAC
Statistics
Matches: 204, Mismatches: 47, Indels: 25
0.74 0.17 0.09
Matches are distributed among these distances:
31 13 0.06
32 19 0.09
33 17 0.08
34 37 0.18
35 27 0.13
36 89 0.44
37 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (36 bp):
TAATGATTATATGCATGATATACATGCGCCTGCTAA
Found at i:620700 original size:67 final size:68
Alignment explanation
Indices: 620558--620688 Score: 176
Period size: 67 Copynumber: 1.9 Consensus size: 68
620548 CGCTTATTGC
*
620558 TAATGATTATATGCATGATATACATGCCCCTGCTAATAATGATCATATGCATGATATACATGTGC
1 TAATGATTATATGCA--ATATACATGCCCCTACTAATAATGATCATATGCATGATATACATGTGC
620623 CTGAA
64 CTGAA
* * * * *
620628 TAATGATTATATGC-ATATGCATGCGCCTATTAATAATGATTATATGCAT-TTATACATGTGC
1 TAATGATTATATGCAATATACATGCCCCTACTAATAATGATCATATGCATGATATACATGTGC
620689 TGCTAATAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
66 11 0.20
67 30 0.55
70 14 0.25
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (68 bp):
TAATGATTATATGCAATATACATGCCCCTACTAATAATGATCATATGCATGATATACATGTGCCT
GAA
Found at i:645840 original size:27 final size:26
Alignment explanation
Indices: 645804--645854 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
645794 TATTATTATT
645804 TTTTAATTTTAAATTTTTTATATTAA
1 TTTTAATTTTAAATTTTTTATATTAA
* *
645830 TTTTAAGTTTTAATTTTTTTTTATT
1 TTTTAA-TTTTAAATTTTTTATATT
645855 TTTGATGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (26 bp):
TTTTAATTTTAAATTTTTTATATTAA
Found at i:651576 original size:23 final size:23
Alignment explanation
Indices: 651548--651592 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
651538 TATCGCTACA
* *
651548 CTTTGAATGTGTATCGATACCCT
1 CTTTGAATATATATCGATACCCT
651571 CTTTGAATATATATCGATACCC
1 CTTTGAATATATATCGATACCC
651593 CTAGAGGGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (23 bp):
CTTTGAATATATATCGATACCCT
Found at i:657133 original size:18 final size:19
Alignment explanation
Indices: 657088--657137 Score: 66
Period size: 18 Copynumber: 2.6 Consensus size: 19
657078 ATCCTATTAA
*
657088 GAGTATCGATACTCTACCCT
1 GAGTATCGATACTC-ACCAT
*
657108 GGGTATCGATACTC-CCAT
1 GAGTATCGATACTCACCAT
657126 GAGTATCGATAC
1 GAGTATCGATAC
657138 CAAATTTGCT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 14 0.52
20 13 0.48
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (19 bp):
GAGTATCGATACTCACCAT
Found at i:657194 original size:102 final size:102
Alignment explanation
Indices: 657006--657200 Score: 227
Period size: 102 Copynumber: 1.9 Consensus size: 102
656996 TGACCCATTA
* * * * ***
657006 GGTATCGATATTCACCTGAGTATCGATACCAAAATTTGTTTCAATGTTTTGAAAAATACCTTGGT
1 GGTATCGATACTCACCTGAGTATCGATACCAAAATTTGCTTCAATATTTTAAAAAATACCTCAAT
* *
657071 ATCGATAATCCTATTAAGAGTATCGATACTCTACCCTG
66 ATCGATAAGCCTACT-AGAGTATCGATACTCTACCCTG
*
657109 GGTATCGATACTC-CCATGAGTATCGATACC-AAATTTGCTTCAATATTTTAAAAAATGCCTCAA
1 GGTATCGATACTCACC-TGAGTATCGATACCAAAATTTGCTTCAATATTTTAAAAAATACCTCAA
657172 TATCGATATTGAGCCT-CT-GAGTATCGATA
65 TATCGATA---AGCCTACTAGAGTATCGATA
657201 TTAGGCCCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 9
0.80 0.10 0.09
Matches are distributed among these distances:
102 47 0.60
103 26 0.33
104 1 0.01
105 4 0.05
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (102 bp):
GGTATCGATACTCACCTGAGTATCGATACCAAAATTTGCTTCAATATTTTAAAAAATACCTCAAT
ATCGATAAGCCTACTAGAGTATCGATACTCTACCCTG
Found at i:657215 original size:20 final size:21
Alignment explanation
Indices: 657172--657220 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
657162 AATGCCTCAA
*
657172 TATCGATATTGAGCCTCTGAG
1 TATCGATATTGAGCCTCCGAG
657193 TATCGATATT-AGGCC-CCGAG
1 TATCGATATTGA-GCCTCCGAG
*
657213 TATTGATA
1 TATCGATA
657221 CTCCTTGAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (21 bp):
TATCGATATTGAGCCTCCGAG
Found at i:664407 original size:18 final size:19
Alignment explanation
Indices: 664362--664411 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
664352 TTCATATGGG
*
664362 GAGTATCGATACTCTACCT
1 GAGTATCGATACTCTACAT
*
664381 TAGGTATCGATACTCT-CAT
1 GA-GTATCGATACTCTACAT
664400 GAGTATCGATAC
1 GAGTATCGATAC
664412 CAAATTTGGC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 10 0.37
19 4 0.15
20 13 0.48
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (19 bp):
GAGTATCGATACTCTACAT
Found at i:668602 original size:65 final size:65
Alignment explanation
Indices: 668479--668632 Score: 159
Period size: 65 Copynumber: 2.4 Consensus size: 65
668469 CCCTAATTCG
* * * * * * *
668479 AATGCATTTTGTGTACCGATGCATAAACCATGCATCGATGCCCTCATAATTTTATTGAAACATCA
1 AATGTATTTTATGTAACGATGCACAAACCATGAATCGATGCACTCATAATCTTATTGAAACATCA
* * * *
668544 AATGTATTTTATGTATCGATGCACAAACCATGAATCGATGTACTCCTGACTCTT-TTGAAACATC
1 AATGTATTTTATGTAACGATGCACAAACCATGAATCGATGCACTCAT-AATCTTATTGAAACATC
*
668608 G
65 A
*
668609 AATGTA-ATTAGTGTAACGATGCAC
1 AATGTATTTTA-TGTAACGATGCAC
668633 TAGGTCTTAT
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
64 3 0.04
65 67 0.91
66 4 0.05
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32
Consensus pattern (65 bp):
AATGTATTTTATGTAACGATGCACAAACCATGAATCGATGCACTCATAATCTTATTGAAACATCA
Found at i:673684 original size:44 final size:44
Alignment explanation
Indices: 673590--673691 Score: 125
Period size: 44 Copynumber: 2.3 Consensus size: 44
673580 TTTTTTTCAC
*
673590 TATGCATCGATACACTATGAAAGTATACCGATGCATCCCTTGAA
1 TATGCATCGATACACTATGAAAGTATACCGATGCATCCCTTAAA
* * * **
673634 TATGCATCAATACACTATGAAGGT-TAACTGATGCATGTCTTAAA
1 TATGCATCGATACACTATGAAAGTAT-ACCGATGCATCCCTTAAA
*
673678 TGTGCATCGATACA
1 TATGCATCGATACA
673692 GTATATAGTG
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 1 0.02
44 48 0.98
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (44 bp):
TATGCATCGATACACTATGAAAGTATACCGATGCATCCCTTAAA
Found at i:676015 original size:14 final size:14
Alignment explanation
Indices: 675993--676033 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
675983 GGGGACTAAT
*
675993 AATTTATTTTCAAA
1 AATTGATTTTCAAA
676007 AATTGA-TTTCAAA
1 AATTGATTTTCAAA
676020 AA-TGATTTTTCAAA
1 AATTGA-TTTTCAAA
676034 TAAGATACAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
12 3 0.12
13 9 0.38
14 12 0.50
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (14 bp):
AATTGATTTTCAAA
Found at i:677130 original size:96 final size:96
Alignment explanation
Indices: 676965--677149 Score: 291
Period size: 96 Copynumber: 1.9 Consensus size: 96
676955 CAGTAGATTT
* *
676965 CATGATCCATAAATCAGCAACGATCATATTTTCCAGTGAAAATAGGAAATCCGATAACACATTTC
1 CATGATCCATAAATCAGCAACGATCATATTTT-CAGTGAAAACAGGAAACCCGATAACACATTTC
677030 AGGTAACCATAGTTCATAAAACCAATAGGTTC
65 AGGTAACCATAGTTCATAAAACCAATAGGTTC
* * * *
677062 CATGATCCATAAATCAGTAATGATCATGCTTTT-AGTGAAAACATGAAACCCGATAACACATTTC
1 CATGATCCATAAATCAGCAACGATCAT-ATTTTCAGTGAAAACAGGAAACCCGATAACACATTTC
677126 AGGTAACCATAGTTCATAAAACCA
65 AGGTAACCATAGTTCATAAAACCA
677150 TTAGATCAGG
Statistics
Matches: 81, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
96 52 0.64
97 25 0.31
98 4 0.05
ACGTcount: A:0.41, C:0.21, G:0.13, T:0.26
Consensus pattern (96 bp):
CATGATCCATAAATCAGCAACGATCATATTTTCAGTGAAAACAGGAAACCCGATAACACATTTCA
GGTAACCATAGTTCATAAAACCAATAGGTTC
Found at i:678985 original size:22 final size:22
Alignment explanation
Indices: 678947--679028 Score: 78
Period size: 22 Copynumber: 3.7 Consensus size: 22
678937 TTTTTTGTCA
*
678947 AAGTCAACAATCAACGGTCTGAC
1 AAGTCAA-AGTCAACGGTCTGAC
*
678970 AAGTCAAAGTCAACGGGCAT-AC
1 AAGTCAAAGTCAACGGTC-TGAC
**
678992 CGGTCAAAGTCAACGGT-TGAC
1 AAGTCAAAGTCAACGGTCTGAC
*
679013 TTAGTCAAAGTCAACG
1 -AAGTCAAAGTCAACG
679029 AGTTAACTCA
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
20 1 0.02
21 2 0.04
22 38 0.78
23 8 0.16
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (22 bp):
AAGTCAAAGTCAACGGTCTGAC
Found at i:680834 original size:5 final size:5
Alignment explanation
Indices: 680824--680959 Score: 54
Period size: 5 Copynumber: 27.0 Consensus size: 5
680814 TGAAAGAACA
*
680824 AAAAT AAAAT AATAA- AAGAT AAAAT GGAAAAT ATTAACAT -AAAT AAAAT
1 AAAAT AAAAT AA-AAT AAAAT AAAAT --AAAAT A--AA-AT AAAAT AAAAT
* * *
680873 AAAAAAT CAAAT AAATT AAAAT --AAT AAAAT -AAAT AAAAGT GAAAT
1 --AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA-T AAAAT
* * * * *
680918 AAAAC AAAAT -TAAT AGAAT -AAAT AAAAT -TAAT AAAAC AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
680960 TAATAAAAGG
Statistics
Matches: 97, Mismatches: 17, Indels: 34
0.66 0.11 0.23
Matches are distributed among these distances:
3 3 0.03
4 16 0.16
5 58 0.60
6 6 0.06
7 12 0.12
8 2 0.02
ACGTcount: A:0.71, C:0.03, G:0.04, T:0.22
Consensus pattern (5 bp):
AAAAT
Found at i:680876 original size:22 final size:21
Alignment explanation
Indices: 680824--680909 Score: 68
Period size: 22 Copynumber: 4.0 Consensus size: 21
680814 TGAAAGAACA
* *
680824 AAAATAAAATAATAAA-AGAT
1 AAAATAAAATATTAAATAAAT
680844 AAAATGGAAAATATTAACATAAAT
1 AAAAT--AAAATATTAA-ATAAAT
* *
680868 AAAATAAAAAATCAAATAAATT
1 AAAATAAAATATTAAATAAA-T
*
680890 AAAATAATAA-AATAAATAAA
1 AAAATAA-AATATTAAATAAA
680910 AGTGAAATAA
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
20 5 0.09
21 5 0.09
22 33 0.61
23 3 0.06
24 8 0.15
ACGTcount: A:0.72, C:0.02, G:0.03, T:0.22
Consensus pattern (21 bp):
AAAATAAAATATTAAATAAAT
Found at i:680879 original size:31 final size:30
Alignment explanation
Indices: 680828--680905 Score: 86
Period size: 31 Copynumber: 2.6 Consensus size: 30
680818 AGAACAAAAA
* * * *
680828 TAAAATAATAAAAGATAAAATGGAAA-ATAT
1 TAAAATAATAAAATAAAAAAT-CAAATAAAT
*
680858 TAACATAAATAAAATAAAAAATCAAATAAAT
1 TAAAAT-AATAAAATAAAAAATCAAATAAAT
680889 TAAAATAATAAAATAAA
1 TAAAATAATAAAATAAA
680906 TAAAAGTGAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
30 19 0.47
31 21 0.52
ACGTcount: A:0.71, C:0.03, G:0.04, T:0.23
Consensus pattern (30 bp):
TAAAATAATAAAATAAAAAATCAAATAAAT
Found at i:680884 original size:17 final size:18
Alignment explanation
Indices: 680824--680959 Score: 82
Period size: 18 Copynumber: 7.3 Consensus size: 18
680814 TGAAAGAACA
680824 AAAATAAAATAATAAAAGAT
1 AAAATAAAATAAT-AAA-AT
* *
680844 AAAATGGAAAATATTAACAT
1 AAAAT--AAAATAATAAAAT
680864 -AAATAAAATAA-AAAAT
1 AAAATAAAATAATAAAAT
* *
680880 CAAATAAATTAA-AATAAT
1 AAAATAAAATAATAA-AAT
* *
680898 AAAATAAATAAAAGTGAAAT
1 AAAATAAA-ATAA-TAAAAT
* *
680918 AAAACAAAATTAATAGAAT
1 AAAATAAAA-TAATAAAAT
*
680937 -AAATAAAATTAATAAAAC
1 AAAATAAAA-TAATAAAAT
680955 AAAAT
1 AAAAT
680960 TAATAAAAGG
Statistics
Matches: 91, Mismatches: 16, Indels: 19
0.72 0.13 0.15
Matches are distributed among these distances:
16 4 0.04
17 18 0.20
18 25 0.27
19 15 0.16
20 19 0.21
21 3 0.03
22 7 0.08
ACGTcount: A:0.71, C:0.03, G:0.04, T:0.22
Consensus pattern (18 bp):
AAAATAAAATAATAAAAT
Found at i:680900 original size:34 final size:35
Alignment explanation
Indices: 680862--680966 Score: 98
Period size: 33 Copynumber: 3.1 Consensus size: 35
680852 AAATATTAAC
**
680862 ATAAATAAAATAAAAAATCAAATAAATTAAAA-TA
1 ATAAATAAAATAAAAAATCAAATAAAACAAAATTA
* *
680896 ATAAA-ATAAAT-AAAAGTGAAATAAAACAAAATTA
1 ATAAATA-AAATAAAAAATCAAATAAAACAAAATTA
*
680930 ATAGAAT-AAAT--AAAAT-TAATAAAACAAAATTA
1 ATA-AATAAAATAAAAAATCAAATAAAACAAAATTA
680962 ATAAA
1 ATAAA
680967 AGGAAAAAGA
Statistics
Matches: 61, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
31 2 0.03
32 18 0.30
33 21 0.34
34 18 0.30
35 2 0.03
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (35 bp):
ATAAATAAAATAAAAAATCAAATAAAACAAAATTA
Found at i:680917 original size:23 final size:22
Alignment explanation
Indices: 680862--680921 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 22
680852 AAATATTAAC
680862 ATAAA-TAAAATAAAAAATCAA
1 ATAAAGTAAAATAAAAAATCAA
*
680883 ATAAATTAAAATAATAAAAT-AA
1 ATAAAGTAAAATAA-AAAATCAA
*
680905 ATAAAAGTGAAATAAAA
1 AT-AAAGTAAAATAAAA
680922 CAAAATTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 5 0.15
22 14 0.41
23 15 0.44
ACGTcount: A:0.73, C:0.02, G:0.03, T:0.22
Consensus pattern (22 bp):
ATAAAGTAAAATAAAAAATCAA
Found at i:680919 original size:11 final size:9
Alignment explanation
Indices: 680862--680953 Score: 51
Period size: 9 Copynumber: 9.1 Consensus size: 9
680852 AAATATTAAC
680862 ATAAATAAA
1 ATAAATAAA
*
680871 ATAAAAAATCAA
1 AT---AAATAAA
680883 ATAAATTAAA
1 ATAAA-TAAA
680893 AT-AATAAA
1 ATAAATAAA
680901 ATAAATAAA
1 ATAAATAAA
680910 AGTGAAATAAA
1 A-T-AAATAAA
*
680921 ACAAAATTAATAGA
1 A-TAAA-T-A-A-A
680935 ATAAATAAA
1 ATAAATAAA
*
680944 ATTAATAAA
1 ATAAATAAA
680953 A
1 A
680954 CAAAATTAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 22
0.70 0.06 0.23
Matches are distributed among these distances:
8 6 0.09
9 24 0.36
10 10 0.15
11 10 0.15
12 10 0.15
13 4 0.06
14 2 0.03
ACGTcount: A:0.72, C:0.02, G:0.03, T:0.23
Consensus pattern (9 bp):
ATAAATAAA
Found at i:685293 original size:21 final size:21
Alignment explanation
Indices: 685270--685402 Score: 171
Period size: 21 Copynumber: 6.3 Consensus size: 21
685260 CCAAGGATGA
*
685270 GAAGACCGTTCATAAAGACGA-
1 GAAGACCATTCATAAAGAC-AT
* * *
685291 GAAAACCATTCACCAAGGACGA-
1 GAAGACCATTCA-TAAAGAC-AT
685313 GAAGACCATTCATAAAGACAT
1 GAAGACCATTCATAAAGACAT
685334 GAAGACCATTCATAAAGACAT
1 GAAGACCATTCATAAAGACAT
*
685355 GAAGAACATTCATAAAGACAT
1 GAAGACCATTCATAAAGACAT
*
685376 GAAGACCCTTCATAAAGACAT
1 GAAGACCATTCATAAAGACAT
685397 GAAGAC
1 GAAGAC
685403 AGGTAAGAAT
Statistics
Matches: 100, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
20 1 0.01
21 81 0.81
22 18 0.18
ACGTcount: A:0.47, C:0.20, G:0.17, T:0.16
Consensus pattern (21 bp):
GAAGACCATTCATAAAGACAT
Found at i:685314 original size:22 final size:22
Alignment explanation
Indices: 685259--685345 Score: 81
Period size: 21 Copynumber: 4.0 Consensus size: 22
685249 ATACAGTCAT
* *
685259 ACCAAGGATGAGAAGACCGTTC
1 ACCAAGGACGAGAAGACCATTC
* * *
685281 A-TAAAGACGAGAAAACCATTC
1 ACCAAGGACGAGAAGACCATTC
685302 ACCAAGGACGAGAAGACCATTC
1 ACCAAGGACGAGAAGACCATTC
* *
685324 A-TAAAGAC-ATGAAGACCATTC
1 ACCAAGGACGA-GAAGACCATTC
685345 A
1 A
685346 TAAAGACATG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
20 1 0.02
21 33 0.62
22 19 0.36
ACGTcount: A:0.45, C:0.22, G:0.20, T:0.14
Consensus pattern (22 bp):
ACCAAGGACGAGAAGACCATTC
Found at i:685325 original size:43 final size:43
Alignment explanation
Indices: 685259--685387 Score: 147
Period size: 43 Copynumber: 3.0 Consensus size: 43
685249 ATACAGTCAT
* *
685259 ACCAAGGATGAGAAGACCGTTCATAAAGACGA-GAAAACCATTC
1 ACCAAGGACGAGAAGACCATTCATAAAGAC-ATGAAAACCATTC
*
685302 ACCAAGGACGAGAAGACCATTCATAAAGACATGAAGACCATTC
1 ACCAAGGACGAGAAGACCATTCATAAAGACATGAAAACCATTC
* * * * *
685345 A-TAAAGAC-ATGAAGAACATTCATAAAGACATGAAGACCCTTC
1 ACCAAGGACGA-GAAGACCATTCATAAAGACATGAAAACCATTC
685387 A
1 A
685388 TAAAGACATG
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
41 1 0.01
42 37 0.48
43 39 0.51
ACGTcount: A:0.46, C:0.21, G:0.18, T:0.16
Consensus pattern (43 bp):
ACCAAGGACGAGAAGACCATTCATAAAGACATGAAAACCATTC
Found at i:688007 original size:13 final size:13
Alignment explanation
Indices: 687991--688037 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
687981 AGAGAAATGT
*
687991 AGAAAAAAGAAGA
1 AGAAAAAAGAAAA
688004 AGAAAAAA-AAACA
1 AGAAAAAAGAAA-A
688017 TAGAAAAAAGAGAAA
1 -AGAAAAAAGA-AAA
688032 AGAAAA
1 AGAAAA
688038 TTGGAAATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
12 2 0.07
13 9 0.31
14 14 0.48
15 2 0.07
16 2 0.07
ACGTcount: A:0.79, C:0.02, G:0.17, T:0.02
Consensus pattern (13 bp):
AGAAAAAAGAAAA
Found at i:689540 original size:125 final size:125
Alignment explanation
Indices: 689284--689554 Score: 368
Period size: 125 Copynumber: 2.2 Consensus size: 125
689274 AGAACATTCA
* * ** *
689284 AGTTATGAT-ATGTTGGGGCACGTCTGTACCCACACCATGTTGAGATGACAAGATTCAGACCAAG
1 AGTTAAGATAATGTTGGGGCACGACTAAACCCACACCATGTTGAGATGACAAGATACAGACCAAG
*
689348 GAGGCATGAAGAATGAGCCTTACAATTTGAGGTAATGGGGGCATTTTGAAGGCCCGTACC
66 AAGGCATGAAGAATGAGCCTTACAATTTGAGGTAATGGGGGCATTTTGAAGGCCCGTACC
* *
689408 AGTTAAGATAATGTTGGGGCATGACTAAACCCACATCATGTTGAGATGACAAGATACAGACCAAG
1 AGTTAAGATAATGTTGGGGCACGACTAAACCCACACCATGTTGAGATGACAAGATACAGACCAAG
* * **
689473 AAGGCCTTG-AGAATGAGCCTTACAATTTGAGGT-GTTTGGGCATTTTGAAGGCCCGTACC
66 AAGG-CATGAAGAATGAGCCTTACAATTTGAGGTAATGGGGGCATTTTGAAGGCCCGTACC
* * *
689532 GGTATAAGATGATGTTGCGGCAC
1 AGT-TAAGATAATGTTGGGGCAC
689555 TAGTGAAGGC
Statistics
Matches: 128, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
124 33 0.26
125 92 0.72
126 3 0.02
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.25
Consensus pattern (125 bp):
AGTTAAGATAATGTTGGGGCACGACTAAACCCACACCATGTTGAGATGACAAGATACAGACCAAG
AAGGCATGAAGAATGAGCCTTACAATTTGAGGTAATGGGGGCATTTTGAAGGCCCGTACC
Found at i:691133 original size:54 final size:54
Alignment explanation
Indices: 691068--691719 Score: 808
Period size: 54 Copynumber: 12.1 Consensus size: 54
691058 AAGATTATTT
* * * * *
691068 GAGTTCCATACTCCTTA-AGGAAAGAAGGAGCGATCTCGTTTGAAGAAGACGTTC
1 GAGTTCCATACTCCCTAGA-GAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* *
691122 GAGTTCTATACTCCCT-GAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCC
1 GAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * * *
691176 GGGTTCCATACTCCCTGGAGAAAGAGGGAACGAACCCGTTTGAAGAAGATGTCC
1 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * * **
691230 GAGTTTCATACTCCCTAGATAAAGAGGGAGCAAACCCGTAAGAAGAAGATG-TC
1 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * * *
691283 AAGTTCCATACTCCTTAGAGCAAGAGGGAGCGAACCCATTTGAAGAAGATG-TC
1 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
*
691336 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCAAACCCGTTTGAAGAAGATGTTC
1 -GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* *** *
691391 GAGTTCCATACTCCCTAGAGAAAAAGGGAGCGAACCCGTAAAAAGAAGATGTTT
1 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
** *
691445 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTAAGAAGAAGATGTTT
1 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * * * * * *
691499 GATTTTCATACTCCCTAGAGAAAAAGGGAGTGAACCCGTTGGAAGAATATGTTT
1 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
** **
691553 GAGTTTTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTAAGAAGAAGATGTTC
1 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* *
691607 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCAAACCCGTTTGAAGAAGATGTCC
1 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * * * **
691661 GAGTTTCATACTCCCTAGAGAAAGAGGGAGTGAATCCATAAGAAGAAGATTGTTC
1 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGA-TGTTC
691716 GAGT
1 GAGT
691720 CTTATACTCT
Statistics
Matches: 522, Mismatches: 70, Indels: 11
0.87 0.12 0.02
Matches are distributed among these distances:
53 45 0.09
54 465 0.89
55 12 0.02
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (54 bp):
GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
Found at i:691771 original size:55 final size:55
Alignment explanation
Indices: 691705--691918 Score: 261
Period size: 55 Copynumber: 3.9 Consensus size: 55
691695 TCCATAAGAA
*
691705 GAAGATTGTTCGAGTCTTATACTCTCTGAACGAATAGAGAGCGGACATGATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAACGAATAGAGAGCAGACATGATTGTT
* * * * *
691760 CAAGACTGTTCGAGTCTTATACTCTTTGAACGAATAGAGAG-AGGACACGATTATT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAACGAATAGAGAGCA-GACATGATTGTT
* * * *
691815 GAAGATTATTCGAGTCTCATACTCTCTGAA-GAAATAGGGAGCATACATGATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAACG-AATAGAGAGCAGACATGATTGTT
* * * * *
691870 GAAGATTGATCAAGTCCTATACTCTCTGAAAGAATAGGGAGCAGACATG
1 GAAGATTGTTCGAGTCTTATACTCTCTGAACGAATAGAGAGCAGACATG
691919 TTTTCCGAAA
Statistics
Matches: 134, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
54 1 0.01
55 131 0.98
56 2 0.01
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (55 bp):
GAAGATTGTTCGAGTCTTATACTCTCTGAACGAATAGAGAGCAGACATGATTGTT
Found at i:692136 original size:18 final size:18
Alignment explanation
Indices: 692113--692172 Score: 66
Period size: 18 Copynumber: 3.2 Consensus size: 18
692103 TGACTATTAC
692113 ATTATAATAATAATTATT
1 ATTATAATAATAATTATT
*
692131 ATTATAATCATAATTATT
1 ATTATAATAATAATTATT
* * *
692149 ACAATAAAATTATAATTATT
1 --ATTATAATAATAATTATT
692169 ATTA
1 ATTA
692173 GTAGTATTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
18 20 0.57
20 15 0.43
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTATAATAATAATTATT
Found at i:692137 original size:15 final size:15
Alignment explanation
Indices: 692113--692161 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
692103 TGACTATTAC
* *
692113 ATTATAATAATAATT
1 ATTATTATAATAATA
*
692128 ATTATTATAATCATA
1 ATTATTATAATAATA
*
692143 ATTATTACAATAA-A
1 ATTATTATAATAATA
692157 ATTAT
1 ATTAT
692162 AATTATTATT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 6 0.21
15 23 0.79
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTATTATAATAATA
Found at i:719570 original size:11 final size:11
Alignment explanation
Indices: 719554--719578 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
719544 TATAACCTAC
719554 ATGCAACTAAA
1 ATGCAACTAAA
719565 ATGCAACTAAA
1 ATGCAACTAAA
719576 ATG
1 ATG
719579 TTGTGCATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.16, G:0.12, T:0.20
Consensus pattern (11 bp):
ATGCAACTAAA
Found at i:720345 original size:6 final size:6
Alignment explanation
Indices: 720329--720386 Score: 57
Period size: 6 Copynumber: 9.3 Consensus size: 6
720319 ACCCACCTTA
*
720329 TTTTC- TTTTCT TTTTCT TTTTATT TTTTCT CTTTT-T CTTTTCT TTTTCTT
1 TTTTCT TTTTCT TTTTCT TTTT-CT TTTTCT -TTTTCT -TTTTCT TTTTC-T
720379 TTTTCT TT
1 TTTTCT TT
720387 CAATTTAGGG
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
5 5 0.11
6 25 0.54
7 16 0.35
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTCT
Found at i:720357 original size:13 final size:12
Alignment explanation
Indices: 720329--720386 Score: 64
Period size: 13 Copynumber: 4.7 Consensus size: 12
720319 ACCCACCTTA
*
720329 TTTTC-TTTTCT
1 TTTTCTTTTTTT
720340 TTTTCTTTTTATT
1 TTTTCTTTTT-TT
*
720353 TTTTCTCTTTTTC
1 TTTTCT-TTTTTT
720366 TTTTCTTTTTCTT
1 TTTTCTTTTT-TT
720379 TTTTCTTT
1 TTTTCTTT
720387 CAATTTAGGG
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
11 5 0.12
12 8 0.20
13 23 0.57
14 4 0.10
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTCTTTTTTT
Found at i:720363 original size:26 final size:26
Alignment explanation
Indices: 720334--720384 Score: 84
Period size: 26 Copynumber: 1.9 Consensus size: 26
720324 CCTTATTTTC
720334 TTTTCTTTTTCTTTTTATTTTTTCTCT
1 TTTTC-TTTTCTTTTTATTTTTTCTCT
*
720361 TTTTCTTTTCTTTTTCTTTTTTCT
1 TTTTCTTTTCTTTTTATTTTTTCT
720385 TTCAATTTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (26 bp):
TTTTCTTTTCTTTTTATTTTTTCTCT
Found at i:720387 original size:11 final size:11
Alignment explanation
Indices: 720329--720380 Score: 72
Period size: 11 Copynumber: 4.8 Consensus size: 11
720319 ACCCACCTTA
720329 TTTTCTTTTCT
1 TTTTCTTTTCT
720340 TTTTCTTTT-T
1 TTTTCTTTTCT
*
720350 ATTTT-TTCTCT
1 -TTTTCTTTTCT
720361 TTTTCTTTTCT
1 TTTTCTTTTCT
720372 TTTTCTTTT
1 TTTTCTTTT
720381 TTCTTTCAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
10 8 0.22
11 28 0.78
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTCTTTTCT
Found at i:720441 original size:6 final size:6
Alignment explanation
Indices: 720425--720484 Score: 66
Period size: 6 Copynumber: 9.0 Consensus size: 6
720415 CCCTAAACGT
720425 TTTTCTC TTTTTC TTTTTC TTTTTTTC TTTTTC TTTTTCTC TCTTTTC
1 TTTT-TC TTTTTC TTTTTC --TTTTTC TTTTTC -TTTT-TC T-TTTTC
720473 TTTTTC TTTTTC
1 TTTTTC TTTTTC
720485 GACTTAGGAC
Statistics
Matches: 48, Mismatches: 0, Indels: 11
0.81 0.00 0.19
Matches are distributed among these distances:
6 25 0.52
7 12 0.25
8 11 0.23
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTC
Found at i:720443 original size:14 final size:14
Alignment explanation
Indices: 720424--720484 Score: 81
Period size: 14 Copynumber: 4.4 Consensus size: 14
720414 ACCCTAAACG
720424 TTTTTCTCTTTTTC
1 TTTTTCTCTTTTTC
*
720438 TTTTTCTTTTTTTC
1 TTTTTCTCTTTTTC
720452 TTTTTCT-TTTTCTC
1 TTTTTCTCTTTT-TC
*
720466 TCTTT-TCTTTTTC
1 TTTTTCTCTTTTTC
720479 TTTTTC
1 TTTTTC
720485 GACTTAGGAC
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
13 11 0.27
14 30 0.73
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTTCTCTTTTTC
Found at i:720456 original size:21 final size:21
Alignment explanation
Indices: 720424--720484 Score: 97
Period size: 21 Copynumber: 2.9 Consensus size: 21
720414 ACCCTAAACG
720424 TTTTTCTCTTTTTCTTTTTCT-
1 TTTTT-TCTTTTTCTTTTTCTC
720445 TTTTTTCTTTTTCTTTTTCTC
1 TTTTTTCTTTTTCTTTTTCTC
*
720466 TCTTTTCTTTTTCTTTTTC
1 TTTTTTCTTTTTCTTTTTC
720485 GACTTAGGAC
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
20 15 0.39
21 23 0.61
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTTTTCTTTTTCTTTTTCTC
Found at i:727308 original size:5 final size:5
Alignment explanation
Indices: 727298--727422 Score: 80
Period size: 5 Copynumber: 25.6 Consensus size: 5
727288 ATATTAACAT
* * * * * *
727298 AAATA AAATA AAGAAA AAATC AAACA AATTA AAAT- ACATA AAAT- ACATAA
1 AAATA AAATA AA-ATA AAATA AAATA AAATA AAATA AAATA AAATA AAAT-A
* * *
727348 AAATA AAATA AAATA AAATA AAATA AAAT- GAATA GAA-A AAATT AAAT-
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA
* * * *
727395 TAATA AAACA AAATT AAATA AAACA AAA
1 AAATA AAATA AAATA AAATA AAATA AAA
727423 AATGAAAAAG
Statistics
Matches: 91, Mismatches: 22, Indels: 14
0.72 0.17 0.11
Matches are distributed among these distances:
4 15 0.16
5 69 0.76
6 7 0.08
ACGTcount: A:0.74, C:0.05, G:0.02, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:727329 original size:35 final size:35
Alignment explanation
Indices: 727290--727389 Score: 103
Period size: 35 Copynumber: 2.8 Consensus size: 35
727280 AAGGGAAAAT
* *
727290 ATTAACATAAATAAAATAAAGAAAAAATCAAACAA
1 ATTAAAATAAATAAAATAAAGAAAAAATAAAACAA
* * * *
727325 ATTAAAATACATAAAATACA-TAAAAATAAAATAA
1 ATTAAAATAAATAAAATAAAGAAAAAATAAAACAA
*
727359 AATAAAATAAAATAAAATGAATAGAAAAAAT
1 ATTAAAAT-AAATAAAAT-AA-AGAAAAAAT
727390 TAAATTAATA
Statistics
Matches: 51, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
34 18 0.35
35 25 0.49
36 1 0.02
37 1 0.02
38 6 0.12
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.20
Consensus pattern (35 bp):
ATTAAAATAAATAAAATAAAGAAAAAATAAAACAA
Found at i:727339 original size:9 final size:9
Alignment explanation
Indices: 727296--727416 Score: 65
Period size: 9 Copynumber: 13.6 Consensus size: 9
727286 AAATATTAAC
727296 ATAAATAAA
1 ATAAATAAA
*
727305 ATAAA-GAA
1 ATAAATAAA
*
727313 A-AAATCAA
1 ATAAATAAA
*
727321 ACAAATTAAA
1 ATAAA-TAAA
*
727331 ATACATAAA
1 ATAAATAAA
*
727340 ATACAT--A
1 ATAAATAAA
727347 A-AAATAAA
1 ATAAATAAA
727355 ATAAAATAAA
1 AT-AAATAAA
727365 ATAAAATAAA
1 AT-AAATAAA
*
727375 ATGAATAGAA
1 ATAAATA-AA
*
727385 A-AAATTAA
1 ATAAATAAA
*
727393 ATTAATAAA
1 ATAAATAAA
* *
727402 ACAAAATTAA
1 A-TAAATAAA
727412 ATAAA
1 ATAAA
727417 ACAAAAAATG
Statistics
Matches: 87, Mismatches: 15, Indels: 20
0.71 0.12 0.16
Matches are distributed among these distances:
6 3 0.03
7 5 0.06
8 11 0.13
9 34 0.39
10 34 0.39
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.21
Consensus pattern (9 bp):
ATAAATAAA
Found at i:727394 original size:18 final size:19
Alignment explanation
Indices: 727359--727413 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
727349 AATAAAATAA
* *
727359 AATAAAATAAAATAAAATG
1 AATAAAACAAAATTAAATG
* *
727378 AATAGAA-AAAATTAAATT
1 AATAAAACAAAATTAAATG
727396 AATAAAACAAAATTAAAT
1 AATAAAACAAAATTAAAT
727414 AAAACAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
18 15 0.48
19 16 0.52
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.24
Consensus pattern (19 bp):
AATAAAACAAAATTAAATG
Found at i:727413 original size:19 final size:18
Alignment explanation
Indices: 727359--727425 Score: 66
Period size: 18 Copynumber: 3.7 Consensus size: 18
727349 AATAAAATAA
*
727359 AATAAAATAAAATAAAATG
1 AATAAAA-AAAATTAAATG
* *
727378 AATAGAAAAAATTAAATT
1 AATAAAAAAAATTAAATG
727396 AATAAAACAAAATTAAAT-
1 AATAAAA-AAAATTAAATG
727414 AA-AACAAAAAAT
1 AATAA-AAAAAAT
727426 GAAAAAGAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
17 7 0.17
18 19 0.45
19 16 0.38
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.21
Consensus pattern (18 bp):
AATAAAAAAAATTAAATG
Found at i:727537 original size:13 final size:14
Alignment explanation
Indices: 727514--727542 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
727504 AATGTACTAT
727514 TAAATAAATAAAAA
1 TAAATAAATAAAAA
727528 TAAA-AAATAAAAA
1 TAAATAAATAAAAA
727541 TA
1 TA
727543 GACTATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAATAAATAAAAA
Found at i:727582 original size:2 final size:2
Alignment explanation
Indices: 727575--727607 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
727565 AAAGTAGATA
727575 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
727608 ATGCTAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:728801 original size:14 final size:14
Alignment explanation
Indices: 728777--728813 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
728767 ACGTAATATA
728777 ATACATATATACTAT
1 ATAC-TATATACTAT
728792 ATACTATATACTAT
1 ATACTATATACTAT
728806 ATACTATA
1 ATACTATA
728814 AAGAATAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 18 0.82
15 4 0.18
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.41
Consensus pattern (14 bp):
ATACTATATACTAT
Found at i:738643 original size:2 final size:2
Alignment explanation
Indices: 738638--738666 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
738628 TTAGGGTGTG
738638 TA TA 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 TA TA T
738667 TTATCAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:741383 original size:21 final size:23
Alignment explanation
Indices: 741358--741416 Score: 68
Period size: 21 Copynumber: 2.6 Consensus size: 23
741348 AGAGTGAACT
741358 TTTTATCCTTTTTTGG-GGTT-C
1 TTTTATCCTTTTTTGGTGGTTAC
* *
741379 TTTTATTCATTTTTGGTGGTTAC
1 TTTTATCCTTTTTTGGTGGTTAC
*
741402 TTTTCATCTTTTTTT
1 TTTT-ATCCTTTTTT
741417 TTTAATCTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 14 0.47
22 4 0.13
23 5 0.17
24 7 0.23
ACGTcount: A:0.08, C:0.12, G:0.14, T:0.66
Consensus pattern (23 bp):
TTTTATCCTTTTTTGGTGGTTAC
Found at i:743581 original size:70 final size:70
Alignment explanation
Indices: 743468--743646 Score: 358
Period size: 70 Copynumber: 2.6 Consensus size: 70
743458 TTTAAAATAA
743468 AAAACAATCTCACATGGCTAAGAAACATAGAAGAGCATCCCAAAAGTTTAAAGAGTAAAAATATG
1 AAAACAATCTCACATGGCTAAGAAACATAGAAGAGCATCCCAAAAGTTTAAAGAGTAAAAATATG
743533 AGAAC
66 AGAAC
743538 AAAACAATCTCACATGGCTAAGAAACATAGAAGAGCATCCCAAAAGTTTAAAGAGTAAAAATATG
1 AAAACAATCTCACATGGCTAAGAAACATAGAAGAGCATCCCAAAAGTTTAAAGAGTAAAAATATG
743603 AGAAC
66 AGAAC
743608 AAAACAATCTCACATGGCTAAGAAACATAGAAGAGCATC
1 AAAACAATCTCACATGGCTAAGAAACATAGAAGAGCATC
743647 ACAACTTACT
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 109 1.00
ACGTcount: A:0.51, C:0.17, G:0.16, T:0.17
Consensus pattern (70 bp):
AAAACAATCTCACATGGCTAAGAAACATAGAAGAGCATCCCAAAAGTTTAAAGAGTAAAAATATG
AGAAC
Found at i:746668 original size:71 final size:72
Alignment explanation
Indices: 746473--746666 Score: 282
Period size: 71 Copynumber: 2.7 Consensus size: 72
746463 TTTAATTTTT
* * *
746473 GTTTTTTTATAAAAGCACTAACTTTTGGTAATAAAAAATATTATATTTAAAATCTCATGTCTCCA
1 GTTTTTTTATAATAGCACTAACTTTTGTTAATAAAAAATAATATATTTAAAATCTCATGTCTCCA
746538 CTTTCAA
66 CTTTCAA
* * *
746545 GTTTTTTT-TAATAGCACTAACTTTTGTTAATAAAAAATACTATATTTAAAATCTCATGTTTGCA
1 GTTTTTTTATAATAGCACTAACTTTTGTTAATAAAAAATAATATATTTAAAATCTCATGTCTCCA
746609 CTTTCAA
66 CTTTCAA
* * * **
746616 TTTTTTTTATAATAGCACTAATTTTTGTTCATAAAATTTAATATATTTAAA
1 GTTTTTTTATAATAGCACTAACTTTTGTTAATAAAAAATAATATATTTAAA
746667 TCATAATCTC
Statistics
Matches: 110, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
71 65 0.59
72 45 0.41
ACGTcount: A:0.37, C:0.11, G:0.06, T:0.46
Consensus pattern (72 bp):
GTTTTTTTATAATAGCACTAACTTTTGTTAATAAAAAATAATATATTTAAAATCTCATGTCTCCA
CTTTCAA
Found at i:750328 original size:15 final size:15
Alignment explanation
Indices: 750308--750339 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
750298 TATCAACATC
750308 TTTTGCATACATTCA
1 TTTTGCATACATTCA
750323 TTTTGCATACATTCA
1 TTTTGCATACATTCA
750338 TT
1 TT
750340 ATTCATTACA
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:0.25, C:0.19, G:0.06, T:0.50
Consensus pattern (15 bp):
TTTTGCATACATTCA
Found at i:757684 original size:10 final size:10
Alignment explanation
Indices: 757669--757706 Score: 51
Period size: 9 Copynumber: 3.7 Consensus size: 10
757659 ATGCTTGAAG
757669 AAAAAAATT-
1 AAAAAAATTA
757678 AAAAAAATTA
1 AAAAAAATTA
757688 AAAAAAATTGA
1 AAAAAAATT-A
757699 AAATAAAA
1 AAA-AAAA
757707 AGAAGGGTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.35
10 9 0.35
11 4 0.15
12 4 0.15
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (10 bp):
AAAAAAATTA
Found at i:758098 original size:21 final size:23
Alignment explanation
Indices: 758063--758108 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
758053 ATAAATTCTC
*
758063 AAATTCCATTTTATTCTTTT-TA
1 AAATTCCAATTTATTCTTTTATA
758085 AAATT-CAATTTATTCTTTTATA
1 AAATTCCAATTTATTCTTTTATA
758107 AA
1 AA
758109 TATTTTATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.35, C:0.11, G:0.00, T:0.54
Consensus pattern (23 bp):
AAATTCCAATTTATTCTTTTATA
Found at i:758799 original size:123 final size:123
Alignment explanation
Indices: 758580--759159 Score: 959
Period size: 123 Copynumber: 4.7 Consensus size: 123
758570 CACTCGATGG
* *
758580 ATCAACATTTCCAGAAGAAGTTCGTAATAAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGAAGAAGTTCGTAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
758645 ATGAGAAGAACTTGTTCAACCTTTCGCTTGATTCTATCACAGAAGGAGATAGATCAAC
66 ATGAGAAGAACTTGTTCAACCTTTCGCTTGATTCTATCACAGAAGGAGATAGATCAAC
* *
758703 ATCAACATTTCCAGAAGAAGTTCGTAATGAGAAGAACTCATCTGAAAAGGAAGAAAAAGTT-A-A
1 ATCAACATTTCCAGAAGAAGTTCGTAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* * * **
758766 CATGAAGAAAAACTTGTTCAACCTTTCGCTTGATTCTATCATATAAGGAGCCAGATCAAC
66 -ATG-AGAAGAACTTGTTCAACCTTTCGCTTGATTCTATCACAGAAGGAGATAGATCAAC
758826 ATCAACATTTCCAGAAGAAGTTCGTAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGAAGAAGTTCGTAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* * *
758891 ATGAGAAGAACTTATTCAACCTTTCGCTTGATTCTATAACAGAAGGAGATAGATTAAC
66 ATGAGAAGAACTTGTTCAACCTTTCGCTTGATTCTATCACAGAAGGAGATAGATCAAC
758949 ATCAACATTTCCAGAAGAAGTTCGTAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGAAGAAGTTCGTAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
759014 ATGAGAAGAACTTGTTCAACCTTTCGCTTGATTCTATCACAGAAGGAGATAGATCAAC
66 ATGAGAAGAACTTGTTCAACCTTTCGCTTGATTCTATCACAGAAGGAGATAGATCAAC
* * *
759072 ATCAACATTTCCAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAAAGGAAGAAGAAGTTAAT-
1 ATCAACATTTCCAGAAGAAGTTCGTAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* *
759136 CTGAAGAAGAACTCGTTCAACCTT
66 ATG-AGAAGAACTTGTTCAACCTT
759160 AGATTGATTC
Statistics
Matches: 425, Mismatches: 27, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
121 1 0.00
122 6 0.01
123 413 0.97
124 4 0.01
125 1 0.00
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.24
Consensus pattern (123 bp):
ATCAACATTTCCAGAAGAAGTTCGTAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
ATGAGAAGAACTTGTTCAACCTTTCGCTTGATTCTATCACAGAAGGAGATAGATCAAC
Found at i:760639 original size:71 final size:71
Alignment explanation
Indices: 760494--760685 Score: 257
Period size: 73 Copynumber: 2.7 Consensus size: 71
760484 TTTAATTTTT
*
760494 ATTTTTTTA-TAAAAGCACTAACTTTTGTTAAT-AAAAA-ATATATTTAAAATCTCATGTCTCCA
1 ATTTTTTTATTAATAGCACTAACTTTTGTTAATAAAAAATATATATTTAAAATCTCATGTCTCCA
760556 CTTTCA
66 CTTTCA
*
760562 A-GTTTTTATTAATAGCACTAACTTTTGTTAATAAAAAATATTATATTTAAAATCTCATGTCTCC
1 ATTTTTTTATTAATAGCACTAACTTTTGTTAATAAAAAATA-TATATTTAAAATCTCATGTCTCC
760626 ACTTTCA
65 ACTTTCA
* ** * **
760633 ATTTTTTTTTATAATAGCACTATTTTTTGTTCATAAAATTTAATATATTTAAA
1 ATTTTTTTAT-TAATAGCACTAACTTTTGTTAATAAAAAAT-ATATATTTAAA
760686 TCATAATCTC
Statistics
Matches: 108, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
67 6 0.06
68 23 0.21
69 5 0.05
70 1 0.01
71 31 0.29
72 6 0.06
73 35 0.32
74 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.05, T:0.46
Consensus pattern (71 bp):
ATTTTTTTATTAATAGCACTAACTTTTGTTAATAAAAAATATATATTTAAAATCTCATGTCTCCA
CTTTCA
Found at i:760683 original size:73 final size:70
Alignment explanation
Indices: 760495--760685 Score: 260
Period size: 71 Copynumber: 2.7 Consensus size: 70
760485 TTAATTTTTA
*
760495 TTTTTTTATAAAAGCACTAACTTTTGTTAATAAAA-AATATATTTAAAATCTCATGTCTCCACTT
1 TTTTTTTATAATAGCACTAACTTTTGTTAATAAAATAATATATTTAAAATCTCATGTCTCCACTT
760559 TCAAG
66 TCAAG
* *
760564 TTTTTAT-TAATAGCACTAACTTTTGTTAATAAAAAATATTATATTTAAAATCTCATGTCTCCAC
1 TTTTTTTATAATAGCACTAACTTTTGTTAAT--AAAATAATATATTTAAAATCTCATGTCTCCAC
*
760628 TTTCAATT
64 TTTCAA-G
** *
760636 TTTTTTTATAATAGCACTATTTTTTGTTCATAAAATTTAATATATTTAAA
1 TTTTTTTATAATAGCACTAACTTTTGTTAATAAAA--TAATATATTTAAA
760686 TCATAATCTC
Statistics
Matches: 106, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
68 22 0.21
69 6 0.06
70 4 0.04
71 36 0.34
72 6 0.06
73 32 0.30
ACGTcount: A:0.37, C:0.12, G:0.05, T:0.47
Consensus pattern (70 bp):
TTTTTTTATAATAGCACTAACTTTTGTTAATAAAATAATATATTTAAAATCTCATGTCTCCACTT
TCAAG
Found at i:761676 original size:13 final size:14
Alignment explanation
Indices: 761656--761683 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
761646 TTTATAAAAT
761656 TAAAAAAAGTTAAA
1 TAAAAAAAGTTAAA
761670 TAAAAAAAGTTAAA
1 TAAAAAAAGTTAAA
761684 CAAGTACCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.21
Consensus pattern (14 bp):
TAAAAAAAGTTAAA
Found at i:762967 original size:6 final size:6
Alignment explanation
Indices: 762956--762990 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
762946 CTTTCTCAGC
762956 CCAAAT CCAAAT CCAAAT CCAAAT CCAAAT CCAAA
1 CCAAAT CCAAAT CCAAAT CCAAAT CCAAAT CCAAA
762991 AAACCCTAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.51, C:0.34, G:0.00, T:0.14
Consensus pattern (6 bp):
CCAAAT
Found at i:766538 original size:3 final size:3
Alignment explanation
Indices: 766530--766562 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
766520 TTTTTGTCCC
766530 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
766563 CAGGCTTTAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:775557 original size:196 final size:197
Alignment explanation
Indices: 775178--775566 Score: 516
Period size: 196 Copynumber: 2.0 Consensus size: 197
775168 TTTGAAAAAC
*
775178 TAAACTATTTCCCAAAATCAGTAAGTCCTTCAGGCCATCAACAAGTCTTTCGAGCGTGATGATTA
1 TAAACTATTTCCCAAAATCAGTAAGTCCTTCAGGCCATCAACAAGTCTTTCGAGCATGATGATTA
* *
775243 AATCCTTTGGGTCATCTATAAGAATTTCGAGCAAGATGATAATTCCTTCGAGCCATCCATAATAC
66 AATCCTTTCGGTCATCTATAAGAATTTCGAGCAAGATGATAAGTCCTTCGAGCCATCCATAATAC
* *
775308 CATCATGCAGGTTGTTTTCACATGTTTTTCGAAAAGTAAGAAAACGATTCCAAAGTTTATTACCT
131 CATCATGCAGGATGTTTTCACATGTTTTTCGAAAAGTAAAAAAACGATTCCAAAGTTTATTACCT
775373 AT
196 AT
* * ** * * **
775375 TAAACTATTTTCCAACATTGGTAAGTCCTTCGGGCCATTAGA-AAGTCTTTTTAGCATGATGATT
1 TAAACTATTTCCCAAAATCAGTAAGTCCTTCAGGCCATCA-ACAAGTCTTTCGAGCATGATGATT
** * **
775439 AAATCC-TTCGGTCATCTATAAGTTTTTCGAGCAAGATGATAAGTCCTTCGGGTTATCCATAA-A
65 AAATCCTTTCGGTCATCTATAAGAATTTCGAGCAAGATGATAAGTCCTTCGAGCCATCCATAATA
* * * * *
775502 CCTTCGA-GCATGATGTTTTCACATGTTTTTTGAAAAGTAAAAAAATGATTTCCAAAGTTTCTTA
130 CCATC-ATGCAGGATGTTTTCACATGTTTTTCGAAAAGTAAAAAAACGA-TTCCAAAGTTTATTA
775566 C
193 C
775567 TTAGTAAGTC
Statistics
Matches: 166, Mismatches: 23, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
195 41 0.25
196 65 0.39
197 59 0.36
198 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (197 bp):
TAAACTATTTCCCAAAATCAGTAAGTCCTTCAGGCCATCAACAAGTCTTTCGAGCATGATGATTA
AATCCTTTCGGTCATCTATAAGAATTTCGAGCAAGATGATAAGTCCTTCGAGCCATCCATAATAC
CATCATGCAGGATGTTTTCACATGTTTTTCGAAAAGTAAAAAAACGATTCCAAAGTTTATTACCT
AT
Found at i:775613 original size:175 final size:176
Alignment explanation
Indices: 775395--775713 Score: 430
Period size: 175 Copynumber: 1.8 Consensus size: 176
775385 TCCAACATTG
* **
775395 GTAAGTCCTTCGGGCCATTAGAAAGTCTTTTTAGCATGATGATTAAATCCTTC-GGTCA-TCTAT
1 GTAAGTCCTTCGGGCCATCAGAAAGTCTTTCGAGCATGATGATTAAAT-CTTCGGGTCACT-TAT
** * * * *
775458 AAGTTTTTCGAGCAAGATGATAAGTCCTTCGGGT-TATCCATAA-ACCTTCGAGCATGATGTTTT
64 AAGCCTTTCGAGCAAGATGATAAGTCCTTC-GATCCATCCATAAGACCTTCGAGCAGGATGCTTT
*
775521 CACATGTTTTTTGAAAAGTAAAAAAATGATTTCCAAAGTTTCTTACTTA
128 CACATGTTTTTCGAAAAGTAAAAAAATGATTTCCAAAGTTTCTTACTTA
* ** *
775570 GTAAGTCCTTCGGGTCATCATTAAGTCTTTCGAGCATGATGATTAAATCTTCGGGTTACTTATAA
1 GTAAGTCCTTCGGGCCATCAGAAAGTCTTTCGAGCATGATGATTAAATCTTCGGGTCACTTATAA
* * *
775635 GCCTTTCGAGCAAGATGATAAGTCCTTCGATCCATCCATAAGACCTTCGGGTAGGTTGCTTTCAC
66 GCCTTTCGAGCAAGATGATAAGTCCTTCGATCCATCCATAAGACCTTCGAGCAGGATGCTTTCAC
775700 ATGTTTTTCGAAAA
131 ATGTTTTTCGAAAA
775714 AATAAGAAAA
Statistics
Matches: 123, Mismatches: 17, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
174 6 0.05
175 85 0.69
176 32 0.26
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.35
Consensus pattern (176 bp):
GTAAGTCCTTCGGGCCATCAGAAAGTCTTTCGAGCATGATGATTAAATCTTCGGGTCACTTATAA
GCCTTTCGAGCAAGATGATAAGTCCTTCGATCCATCCATAAGACCTTCGAGCAGGATGCTTTCAC
ATGTTTTTCGAAAAGTAAAAAAATGATTTCCAAAGTTTCTTACTTA
Found at i:775663 original size:41 final size:42
Alignment explanation
Indices: 775571--775663 Score: 111
Period size: 41 Copynumber: 2.3 Consensus size: 42
775561 TCTTACTTAG
* *
775571 TAAGTCCTTCGGGTCATCATTAAGTCTTTCGAGCATGATGAT
1 TAAGTCCTTCGGGTCATCATTAAGCCTTTCGAGCAAGATGAT
* * *
775613 TAAAT-CTTCGGGTTA-CTTATAAGCCTTTCGAGCAAGATGA-
1 TAAGTCCTTCGGGTCATCAT-TAAGCCTTTCGAGCAAGATGAT
775653 TAAGTCCTTCG
1 TAAGTCCTTCG
775664 ATCCATCCAT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
40 6 0.14
41 33 0.77
42 4 0.09
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.34
Consensus pattern (42 bp):
TAAGTCCTTCGGGTCATCATTAAGCCTTTCGAGCAAGATGAT
Found at i:775916 original size:42 final size:42
Alignment explanation
Indices: 775811--775916 Score: 106
Period size: 42 Copynumber: 2.5 Consensus size: 42
775801 TGGTAAGTCC
* * * * *
775811 TTCGGGCCATCAATAAGTCTTTCGAGCATGATGCTTAAATCA
1 TTCGGGTCATCCATAAGCCTTTCGAGCAAGATGCATAAATCA
** * *
775853 TTCGGGTCATCTGTAAGCCTTTCGAGCAAGATG-ATAAGTTA
1 TTCGGGTCATCCATAAGCCTTTCGAGCAAGATGCATAAATCA
*
775894 TTTGGGTCATCCATAAGACCTTT
1 TTCGGGTCATCCATAAG-CCTTT
775917 AGACAGGATG
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
41 19 0.37
42 33 0.63
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (42 bp):
TTCGGGTCATCCATAAGCCTTTCGAGCAAGATGCATAAATCA
Found at i:776161 original size:231 final size:232
Alignment explanation
Indices: 775570--776233 Score: 895
Period size: 231 Copynumber: 2.9 Consensus size: 232
775560 TTCTTACTTA
* * * * * *
775570 GTAAGTCCTTCGGGTCATCATTAAGTCTTTCGAGCATGATGATTAAAT-CTTCGGGTTACTTATA
1 GTAAGTCCTTCGGGACATCAATAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATTTGTA
* * ** * * * *
775634 AGCCTTTCGAGCAAGATGATAAGTCCTTCGATCCATCCATAAGACCTTCGGGTAGGTTGCTTTCA
66 AGCCTTTCGAGCAAGATGATAAGTCTTTTGGGCCATCCATAAGACCTTCAGGCAGGATGTTTTCA
* *
775699 CATGTTTTTCGAAAAAATAAGAAAAGTTTCTCATTTAAATCTAAAAAATGAAAATTTTGAAAAGT
131 CATGTTTTTCG-AAAAATGAGAAAAGTTTCTCATTTAAATCTAAAAATTG-AAATTTTGAAAAGT
*
775764 AAGAAAAGTTTCTTACCTAGTAAACTATTTTCAAAATTG
194 AAGAAAAGTTTCTTACCTAGTAAACTATTTGCAAAATTG
* * *
775803 GTAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGCTTAAATCATTCGGGTCATCTGTA
1 GTAAGTCCTTCGGGACATCAATAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATTTGTA
* * *
775868 AGCCTTTCGAGCAAGATGATAAGT-TATTTGGGTCATCCATAAGACCTTTAGACAGGATGTTTTC
66 AGCCTTTCGAGCAAGATGATAAGTCT-TTTGGGCCATCCATAAGACCTTCAGGCAGGATGTTTTC
* * * * *
775932 ATATGTCTCTCGAAAAATGAGAAAAGTTTCTCGTTTAAATCTGAAAATTGAAATTTTGAAAAGTA
130 ACATGTTTTTCGAAAAATGAGAAAAGTTTCTCATTTAAATCTAAAAATTGAAATTTTGAAAAGTA
775997 AGAAAAGTTTCTTACCTAGTAAACTATTTGCAAAATTG
195 AGAAAAGTTTCTTACCTAGTAAACTATTTGCAAAATTG
** * *
776035 GTAAGTCCTTTTGGACATCAGT-AGTCTTTCGAGCAGGATGCTTAAATCCTTCGGGTCATTTGTA
1 GTAAGTCCTTCGGGACATCAATAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATTTGTA
* * * *
776099 AGTCTTACGAGCAAGATAATAAGTCTTTTGGGCCATCCATAAGACCTTCAGGCAGAATGTTTTCA
66 AGCCTTTCGAGCAAGATGATAAGTCTTTTGGGCCATCCATAAGACCTTCAGGCAGGATGTTTTCA
* * * **
776164 CATGTTTTTTGAAAAATGAGAAAA-TTTCTCATTTAAATTTCAAAATTGATGTTTTTGAAAAGTA
131 CATGTTTTTCGAAAAATGAGAAAAGTTTCTCATTTAAATCTAAAAATTGA-AATTTTGAAAAGTA
776228 AGAAAA
195 AGAAAA
776234 CAATTTCCAA
Statistics
Matches: 377, Mismatches: 50, Indels: 10
0.86 0.11 0.02
Matches are distributed among these distances:
230 22 0.06
231 133 0.35
232 71 0.19
233 79 0.21
234 72 0.19
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (232 bp):
GTAAGTCCTTCGGGACATCAATAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATTTGTA
AGCCTTTCGAGCAAGATGATAAGTCTTTTGGGCCATCCATAAGACCTTCAGGCAGGATGTTTTCA
CATGTTTTTCGAAAAATGAGAAAAGTTTCTCATTTAAATCTAAAAATTGAAATTTTGAAAAGTAA
GAAAAGTTTCTTACCTAGTAAACTATTTGCAAAATTG
Found at i:777108 original size:132 final size:133
Alignment explanation
Indices: 776679--777164 Score: 607
Period size: 134 Copynumber: 3.6 Consensus size: 133
776669 AATCGAACTT
* * ** * *
776679 GATTCAATCTTCCCTGAAGAAAAGTAGAATGAAT-AAGCATTTCCATATCTGACTTTCCCTCAAG
1 GATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAA-CATCCCCAGATCTGATTTTCCCTCAAG
* * * * * * *
776743 AAGTAGTGGAACATATCCCTCTTTTTCCAGATTTGATCTTCCCTGAGAAACAATGGAACGAGTCT
65 AAGCAGCGGAACATATCCCTCTTTTTCCATATTTGATCTT-CCTAAGGAACAGTGGAACAAGTCT
776808 ACCTC
129 ACCTC
** *
776813 GATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAATGTCCCCAGATCTAATTTTCCCTCAAGA
1 GATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACATCCCCAGATCTGATTTTCCCTCAAGA
* * * * * ** * *
776878 AGTAGCGGAATAAATCCCTATTTTTCCATATTTGATATTTATTAAGGAATAGTGAAACAAGTCTA
66 AGCAGCGGAACATATCCCTCTTTTTCCATATTTGAT-CTTCCTAAGGAACAGTGGAACAAGTCTA
776943 CCTC
130 CCTC
* * * *
776947 AATTCAATCTTCCCTGAATAACAGTGGAATGAATCAACATCCCCATATATGATTTTCCCTCAAGA
1 GATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACATCCCCAGATCTGATTTTCCCTCAAGA
*
777012 AACAGCGG-ACATATCCCTCTTTTTCCATATTTGATCTTCCTAAGGAACAGTGGAACAAGTCTAC
66 AGCAGCGGAACATATCCCTCTTTTTCCATATTTGATCTTCCTAAGGAACAGTGGAACAAGTCTAC
777076 CTC
131 CTC
* * * * * *
777079 GATTCAATCTTGCCTGAAGAATAGTGGAATTAATCAACGTCCCCAGATCTGATTTTTCCTCAGGA
1 GATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACATCCCCAGATCTGATTTTCCCTCAAGA
777144 AGCAGCGGAACATATCCCTCT
66 AGCAGCGGAACATATCCCTCT
777165 CTTTAGAGAT
Statistics
Matches: 298, Mismatches: 51, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
132 89 0.30
133 36 0.12
134 169 0.57
135 4 0.01
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (133 bp):
GATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACATCCCCAGATCTGATTTTCCCTCAAGA
AGCAGCGGAACATATCCCTCTTTTTCCATATTTGATCTTCCTAAGGAACAGTGGAACAAGTCTAC
CTC
Found at i:777123 original size:266 final size:268
Alignment explanation
Indices: 776680--777162 Score: 711
Period size: 266 Copynumber: 1.8 Consensus size: 268
776670 ATCGAACTTG
** *
776680 ATTCAATCTTCCCTGAAGAAAAGTAGAATGAATAAGCATTTCCATATCTGACTTTCCCTCAAGAA
1 ATTCAATCTTCCCTGAAGAAAAGTAGAATGAATAAGCATCCCCATATATGACTTTCCCTCAAGAA
** * * *
776745 GTAGTGGAACATATCCCTCTTTTTCCAGATTTGATCTTCCCTGAGAAACAATGGAACGAGTCTAC
66 ACAGCGGAACATATCCCTCTTTTTCCAGATTTGATCTTCCCTAAGAAACAATGGAACAAGTCTAC
*
776810 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAATGTCCCCAGATCTAATTTTCCCTCA
131 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCCCCAGATCTAATTTTCCCTCA
* *
776875 AGAAGTAGCGGAATAAATCCCTATTTTTCCATATTTGATATTTATTAAGGAATAGTGAAACAAGT
196 AGAAGCAGCGGAACAAATCCCTATTTTTCCATATTTGATATTTATTAAGGAATAGTGAAACAAGT
776940 CTACCTCA
261 CTACCTCA
* * * *
776948 ATTCAATCTTCCCTGAATAACAGTGGAATGAATCAA-CATCCCCATATATGATTTTCCCTCAAGA
1 ATTCAATCTTCCCTGAAGAAAAGTAGAATGAAT-AAGCATCCCCATATATGACTTTCCCTCAAGA
* * *
777012 AACAGCGG-ACATATCCCTCTTTTTCCATATTTGATCTT-CCTAAGGAACAGTGGAACAAGTCTA
65 AACAGCGGAACATATCCCTCTTTTTCCAGATTTGATCTTCCCTAAGAAACAATGGAACAAGTCTA
* * * * *
777075 CCTCGATTCAATCTTGCCTGAAGAATAGTGGAATTAATCAACGTCCCCAGATCTGATTTTTCCTC
130 CCTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCCCCAGATCTAATTTTCCCTC
* *
777140 AGGAAGCAGCGGAACATATCCCT
195 AAGAAGCAGCGGAACAAATCCCT
777163 CTCTTTAGAG
Statistics
Matches: 189, Mismatches: 25, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
266 99 0.52
267 29 0.15
268 59 0.31
269 2 0.01
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (268 bp):
ATTCAATCTTCCCTGAAGAAAAGTAGAATGAATAAGCATCCCCATATATGACTTTCCCTCAAGAA
ACAGCGGAACATATCCCTCTTTTTCCAGATTTGATCTTCCCTAAGAAACAATGGAACAAGTCTAC
CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCCCCAGATCTAATTTTCCCTCA
AGAAGCAGCGGAACAAATCCCTATTTTTCCATATTTGATATTTATTAAGGAATAGTGAAACAAGT
CTACCTCA
Found at i:800400 original size:2 final size:2
Alignment explanation
Indices: 800393--800431 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
800383 TCCTTTTATG
800393 TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA T
800432 TAATATAACC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:801185 original size:20 final size:21
Alignment explanation
Indices: 801160--801199 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
801150 AATTCAAAAT
801160 TCATATTTT-CTTTAAATAAG
1 TCATATTTTGCTTTAAATAAG
*
801180 TCATATTTTGTTTTAAATAA
1 TCATATTTTGCTTTAAATAA
801200 ATTGTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (21 bp):
TCATATTTTGCTTTAAATAAG
Found at i:804706 original size:20 final size:21
Alignment explanation
Indices: 804681--804729 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
804671 TGTGGTTTTC
804681 AAAACAAT-ATAATT-AAATCA
1 AAAACAATAAT-ATTAAAATCA
* *
804701 AAAACAACAATTTTAAAATCA
1 AAAACAATAATATTAAAATCA
804722 AAAACAAT
1 AAAACAAT
804730 TTTTTTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.22
Consensus pattern (21 bp):
AAAACAATAATATTAAAATCA
Found at i:808688 original size:26 final size:26
Alignment explanation
Indices: 808642--808694 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
808632 ATGACCAAGA
*
808642 ATATCATCAAACTCTAGAATGATTGG
1 ATATCATCAAACTCTAGAATGAATGG
* *
808668 ATATCCTCAAGCTCT-GAAATGAATGG
1 ATATCATCAAACTCTAG-AATGAATGG
808694 A
1 A
808695 AATAAAATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 1 0.04
26 22 0.96
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (26 bp):
ATATCATCAAACTCTAGAATGAATGG
Found at i:817417 original size:27 final size:27
Alignment explanation
Indices: 817387--817452 Score: 66
Period size: 27 Copynumber: 2.4 Consensus size: 27
817377 AATCTTGTAG
*
817387 TTCTTTGAATATC-GAATGAATTATAGA
1 TTCTTTGAATATCTCAA-GAATTATAGA
*
817414 TTCTTTTAAT-TCTTCAAGAATTATAGA
1 TTCTTTGAATATC-TCAAGAATTATAGA
817441 TT-TTTGACATAT
1 TTCTTTGA-ATAT
817453 GGCAAGATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
26 6 0.19
27 23 0.72
28 3 0.09
ACGTcount: A:0.33, C:0.09, G:0.11, T:0.47
Consensus pattern (27 bp):
TTCTTTGAATATCTCAAGAATTATAGA
Found at i:818228 original size:26 final size:27
Alignment explanation
Indices: 818187--818239 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
818177 AAAAAAGGCA
**
818187 AAGAAAAAATGGAAAAGTGAAGAAAAAG
1 AAGAAAAAA-GGAAAAGAAAAGAAAAAG
818215 AAGAAAAAA-GAAAAGAAAAGAAAAA
1 AAGAAAAAAGGAAAAGAAAAGAAAAA
818240 AACATACCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 14 0.61
28 9 0.39
ACGTcount: A:0.75, C:0.00, G:0.21, T:0.04
Consensus pattern (27 bp):
AAGAAAAAAGGAAAAGAAAAGAAAAAG
Found at i:820791 original size:31 final size:31
Alignment explanation
Indices: 820735--820821 Score: 106
Period size: 31 Copynumber: 2.8 Consensus size: 31
820725 ACAAAGTTTA
* *
820735 TATCACGTAGACATATCA-TTTCCATACCTT
1 TATCACATAGACATATAATTTTCCATACCTT
820765 TATCACATAGACATATAATTTTCCATACCTT
1 TATCACATAGACATATAATTTTCCATACCTT
*
820796 TAT-ACAATAGCAAATATAACTTTTCC
1 TATCAC-ATAG-ACATATAA-TTTTCC
820822 TGCATATTCA
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
30 18 0.36
31 19 0.38
32 7 0.14
33 6 0.12
ACGTcount: A:0.36, C:0.23, G:0.05, T:0.37
Consensus pattern (31 bp):
TATCACATAGACATATAATTTTCCATACCTT
Found at i:827902 original size:30 final size:31
Alignment explanation
Indices: 827868--827931 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
827858 TTATATCGCG
827868 TAGACATATCATTTCT-ATACCTTTATCACA
1 TAGACATATCATTTCTCATACCTTTATCACA
*
827898 TAGACATATCATTTTTCATACCTTTATCACA
1 TAGACATATCATTTCTCATACCTTTATCACA
827929 TAG
1 TAG
827932 CTCATATAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 15 0.47
31 17 0.53
ACGTcount: A:0.33, C:0.22, G:0.05, T:0.41
Consensus pattern (31 bp):
TAGACATATCATTTCTCATACCTTTATCACA
Found at i:827946 original size:32 final size:32
Alignment explanation
Indices: 827879--827946 Score: 93
Period size: 31 Copynumber: 2.1 Consensus size: 32
827869 AGACATATCA
* *
827879 TTTCTATACCTTTATCACATAGACATATCATT
1 TTTCTATACCTTTATCACATAGACATATAACT
*
827911 TTTC-ATACCTTTATCACATAGCTCATATAACT
1 TTTCTATACCTTTATCACATAG-ACATATAACT
827943 TTTC
1 TTTC
827947 CTGCATATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
31 17 0.53
32 15 0.47
ACGTcount: A:0.29, C:0.24, G:0.03, T:0.44
Consensus pattern (32 bp):
TTTCTATACCTTTATCACATAGACATATAACT
Found at i:839357 original size:3 final size:3
Alignment explanation
Indices: 839349--839384 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
839339 TATAAATATA
* *
839349 AAT AAT AAT AAT AAT ATT TAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
839385 TTAAGTAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
AAT
Found at i:839364 original size:18 final size:18
Alignment explanation
Indices: 839343--839382 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
839333 TATATATATA
839343 AATATAAATAATAATAAT
1 AATATAAATAATAATAAT
**
839361 AATATTTATAATAATAAT
1 AATATAAATAATAATAAT
839379 AATA
1 AATA
839383 ATTTAAGTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AATATAAATAATAATAAT
Found at i:841229 original size:45 final size:44
Alignment explanation
Indices: 841178--841356 Score: 134
Period size: 43 Copynumber: 4.1 Consensus size: 44
841168 GCTGCTAAAG
* *
841178 TTAGCGGCTTTTTTTAACAAAAAACACTGCAATAGGTGTTGTTAT
1 TTAGCGGC-TTTTTTAACAAAAAACGCTGCAATAGGTGTTGATAT
* * * * * *
841223 TTAGCGGCGTTTGTCAC-AAAAACGCAGCAATAGGTTTTGATGT
1 TTAGCGGCTTTTTTAACAAAAAACGCTGCAATAGGTGTTGATAT
* ** * * *
841266 TTAGCGGC-GTTTTCCCTACAAACGCTGCAGTAGGTGTTGATAT
1 TTAGCGGCTTTTTTAACAAAAAACGCTGCAATAGGTGTTGATAT
* * * *
841309 TTTGCGGCGTTTTTT--CAACAAACGCCGCAATAGGT-TATGATGT
1 TTAGCGGC-TTTTTTAACAAAAAACGCTGCAATAGGTGT-TGATAT
841352 TTAGC
1 TTAGC
841357 AGCGTTTCTC
Statistics
Matches: 107, Mismatches: 23, Indels: 10
0.76 0.16 0.07
Matches are distributed among these distances:
42 6 0.06
43 83 0.78
44 6 0.06
45 12 0.11
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (44 bp):
TTAGCGGCTTTTTTAACAAAAAACGCTGCAATAGGTGTTGATAT
Found at i:841253 original size:43 final size:42
Alignment explanation
Indices: 841197--841406 Score: 170
Period size: 43 Copynumber: 4.9 Consensus size: 42
841187 TTTTTTAACA
* *
841197 AAAAACACTGCAATAGGTGTTGTTATTTAGCGGCGTTTGTCAC
1 AAAAACGCTGCAATAGGTGTTGATATTTAGCGGCGTTT-TCAC
* * * *
841240 AAAAACGCAGCAATAGGTTTTGATGTTTAGCGGCGTTTTCCC
1 AAAAACGCTGCAATAGGTGTTGATATTTAGCGGCGTTTTCAC
* * * **
841282 TACAAACGCTGCAGTAGGTGTTGATATTTTGCGGCGTTTTTTC
1 -AAAAACGCTGCAATAGGTGTTGATATTTAGCGGCGTTTTCAC
* * * *
841325 AACAAACGCCGCAATAGGT-TATGATGTTTAGCAGCGTTTCTCCC
1 AA-AAACGCTGCAATAGGTGT-TGATATTTAGCGGCGTTT-TCAC
* * * * * * *
841369 ACAAACGTTGCAGTAGGTTTTCAGATTAAGCGGCGTTT
1 AAAAACGCTGCAATAGGTGTTGATATTTAGCGGCGTTT
841407 GTATCGAAAA
Statistics
Matches: 131, Mismatches: 31, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
42 5 0.04
43 122 0.93
44 4 0.03
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (42 bp):
AAAAACGCTGCAATAGGTGTTGATATTTAGCGGCGTTTTCAC
Found at i:841310 original size:86 final size:85
Alignment explanation
Indices: 841199--841408 Score: 260
Period size: 86 Copynumber: 2.4 Consensus size: 85
841189 TTTTAACAAA
* * * *
841199 AAACACTGCAATAGGTGTTGTTATTTAGCGGCGTTTGTCACAAAAACGCAGCAATAGGTTTTGAT
1 AAACGCTGCAGTAGGTGTTGATATTTAGCGGCGTTTGTCA-AAAAACGCAGCAATAGGTTATGAT
*
841264 GTTTAGCGGCGTTT-TCCCTAC
65 GTTTAGCAGCGTTTCTCCC-AC
* * * *
841285 AAACGCTGCAGTAGGTGTTGATATTTTGCGGCGTTTTTTCAACAAACGCCGCAATAGGTTATGAT
1 AAACGCTGCAGTAGGTGTTGATATTTAGCGGCG-TTTGTCAAAAAACGCAGCAATAGGTTATGAT
841350 GTTTAGCAGCGTTTCTCCCAC
65 GTTTAGCAGCGTTTCTCCCAC
* * * * *
841371 AAACGTTGCAGTAGGTTTTCAGATTAAGCGGCGTTTGT
1 AAACGCTGCAGTAGGTGTTGATATTTAGCGGCGTTTGT
841409 ATCGAAAATG
Statistics
Matches: 106, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
85 4 0.04
86 92 0.87
87 10 0.09
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (85 bp):
AAACGCTGCAGTAGGTGTTGATATTTAGCGGCGTTTGTCAAAAAACGCAGCAATAGGTTATGATG
TTTAGCAGCGTTTCTCCCAC
Found at i:841572 original size:44 final size:42
Alignment explanation
Indices: 841481--841597 Score: 123
Period size: 44 Copynumber: 2.8 Consensus size: 42
841471 TGTTGAGCTT
**
841481 TAGCGGCGTTTTTCA-TAA-AAACGCCGCTAAA-GTTCGGTATA
1 TAGCGGCG-TTTT-AGTAACAAACGCCGCTAAATGTAAGGTATA
*
841522 TAGCGGCGTTTATAGTATACAAACACCGCTAAATGTAAGGTATA
1 TAGCGGCGTTT-TAGTA-ACAAACGCCGCTAAATGTAAGGTATA
* **
841566 TTGCGGCGTTTTTTTAACAAACGCCGCTAAAT
1 TAGCGGCGTTTTAGTAACAAACGCCGCTAAAT
841598 AACACAAAAT
Statistics
Matches: 64, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
40 4 0.06
41 11 0.17
42 16 0.25
43 15 0.23
44 18 0.28
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.30
Consensus pattern (42 bp):
TAGCGGCGTTTTAGTAACAAACGCCGCTAAATGTAAGGTATA
Found at i:841925 original size:21 final size:21
Alignment explanation
Indices: 841900--841963 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 21
841890 ATTCTTCACA
*
841900 TCTCTGCTGATAT-GTTGCTTC
1 TCTCTG-TGATATCGCTGCTTC
*
841921 TCTCTGTGCTATCGCTGCTTC
1 TCTCTGTGATATCGCTGCTTC
* *
841942 TCTCTGTGTTACCGCTGCTTC
1 TCTCTGTGATATCGCTGCTTC
841963 T
1 T
841964 TTCTCTGCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.13
21 33 0.87
ACGTcount: A:0.06, C:0.30, G:0.19, T:0.45
Consensus pattern (21 bp):
TCTCTGTGATATCGCTGCTTC
Found at i:841945 original size:23 final size:21
Alignment explanation
Indices: 841915--841981 Score: 89
Period size: 21 Copynumber: 3.2 Consensus size: 21
841905 GCTGATATGT
*
841915 TGCTTCTCTCTGTGCTATCGC
1 TGCTTCTCTCTGTGCTACCGC
*
841936 TGCTTCTCTCTGTGTTACCGC
1 TGCTTCTCTCTGTGCTACCGC
* * *
841957 TGCTTCTTTCTCTGCTTCCGC
1 TGCTTCTCTCTGTGCTACCGC
841978 TGCT
1 TGCT
841982 GCTTTGGTTG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.03, C:0.34, G:0.18, T:0.45
Consensus pattern (21 bp):
TGCTTCTCTCTGTGCTACCGC
Found at i:841977 original size:21 final size:21
Alignment explanation
Indices: 841915--842024 Score: 88
Period size: 21 Copynumber: 5.3 Consensus size: 21
841905 GCTGATATGT
841915 TGCTTCTCTCTGTGCTAT-CGC
1 TGCTTCTCTCTGTGCT-TCCGC
841936 TGCTTCTCTCTGTG-TTACCGC
1 TGCTTCTCTCTGTGCTT-CCGC
* *
841957 TGCTTCTTTCTCTGCTTCCGC
1 TGCTTCTCTCTGTGCTTCCGC
*
841978 TGCTGCT-T-TGGTTGCTT-CGC
1 TGCTTCTCTCT-G-TGCTTCCGC
* *
841998 TGCTGCTCTCTTTGCTTCC-C
1 TGCTTCTCTCTGTGCTTCCGC
842018 TTGCTTC
1 -TGCTTC
842025 ATTTTCCGCT
Statistics
Matches: 74, Mismatches: 6, Indels: 18
0.76 0.06 0.18
Matches are distributed among these distances:
19 2 0.03
20 18 0.24
21 51 0.69
22 3 0.04
ACGTcount: A:0.02, C:0.34, G:0.19, T:0.45
Consensus pattern (21 bp):
TGCTTCTCTCTGTGCTTCCGC
Found at i:842359 original size:21 final size:21
Alignment explanation
Indices: 842333--842378 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
842323 AATAATTAAT
842333 TAAAATA-AAA-AAATGTCATGG
1 TAAAATATAAATAAA-GTCA-GG
842354 TAAAATATAAATAAAGTCAGG
1 TAAAATATAAATAAAGTCAGG
842375 TAAA
1 TAAA
842379 TTTAAAACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 13 0.57
22 7 0.30
23 3 0.13
ACGTcount: A:0.59, C:0.04, G:0.13, T:0.24
Consensus pattern (21 bp):
TAAAATATAAATAAAGTCAGG
Found at i:852752 original size:20 final size:20
Alignment explanation
Indices: 852702--852752 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
852692 CTTACCTTTG
* *
852702 GTATCAGTACCATATGAACA
1 GTATCAGTACTATAAGAACA
* *
852722 ATATC-GATACTGTAAGAACA
1 GTATCAG-TACTATAAGAACA
852742 GTATCAGTACT
1 GTATCAGTACT
852753 TCTTGTCCAG
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
19 1 0.04
20 22 0.92
21 1 0.04
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (20 bp):
GTATCAGTACTATAAGAACA
Found at i:860094 original size:20 final size:20
Alignment explanation
Indices: 860071--860184 Score: 79
Period size: 20 Copynumber: 5.6 Consensus size: 20
860061 CAAGCCTTTA
*
860071 GTATGGATACCAACACTCTG
1 GTATCGATACCAACACTCTG
* * * *
860091 GTATGGATACTAGTTCATTC-G
1 GTATCGATACCA--ACACTCTG
*
860112 GTATGGATACCAACACT-TCG
1 GTATCGATACCAACACTCT-G
* * *
860132 ATATCAATACCAACACTCTA
1 GTATCGATACCAACACTCTG
* *
860152 GTATCGATACCAAAACCTTTG
1 GTATCGATACCAACA-CTCTG
860173 GTATCGATACCA
1 GTATCGATACCA
860185 TTTCATCCAG
Statistics
Matches: 73, Mismatches: 15, Indels: 11
0.74 0.15 0.11
Matches are distributed among these distances:
19 3 0.04
20 38 0.52
21 28 0.38
22 4 0.05
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (20 bp):
GTATCGATACCAACACTCTG
Found at i:866165 original size:367 final size:368
Alignment explanation
Indices: 865478--866212 Score: 1436
Period size: 367 Copynumber: 2.0 Consensus size: 368
865468 CTTGGGATTC
865478 CTTAAAACTTTGATCTTTACTAGGGAAAAGATATTGAGAAAAATAGTCTAAAGAAGAATAAAATA
1 CTTAAAACTTTGATCTTTACTAGGGAAAAGATATTGAGAAAAATAGTCTAAAGAAGAATAAAATA
865543 GGAAGATACTTTTGGGGAAATGGCTCGGGTTAAGGGGTTTTTAACCTTTAAAACAACTATGGGTA
66 GGAAGATACTTTTGGGGAAATGGCTCGGGTTAAGGGGTTTTTAACCTTTAAAACAACTATGGGTA
865608 AACTACACTTTTGGTCCTCTCCTTTTTACCCCAACCTAAAACCATCACTTACCTCAACTCTTTGG
131 AACTACACTTTTGGTCCTCTCCTTTTTACCCCAACCTAAAACCATCACTTACCTCAACTCTTTGG
865673 CCTACCTTTAGCCCAATACTATTATAAACTGGTCCAAACCATCTTAGGAGGTCTAACTGGCTTGA
196 CCTACCTTTAGCCCAATACTATTATAAACTGGTCCAAACCATCTTAGGAGGTCTAACTGGCTTGA
865738 CCTAAGGATCTCGGATTGGCTCGCATTATTGACGCGAGATTCGGGGTATTACAAATAAATTTATT
261 CCTAAGGATCTCGGATTGGCTCGCATTATTGACGCGAGATTCGGGGTATTACAAATAAATTTATT
865803 ATTTTCTAAATTAAAATTTATTTAATGTAATTTATAAATGTTA
326 ATTTTCTAAATTAAAATTTATTTAATGTAATTTATAAATGTTA
865846 CTTAAAACTTTGATCTTTACTAGGGAAAAGATATTGAGAAAAATAGTCTAAAGAAGAATAAAATA
1 CTTAAAACTTTGATCTTTACTAGGGAAAAGATATTGAGAAAAATAGTCTAAAGAAGAATAAAATA
865911 GGAAGATACTTTTGGGGAAATGGCTCGGGTTAAGGGGTTTTTAACCTTTAAAACAACTATGGGTA
66 GGAAGATACTTTTGGGGAAATGGCTCGGGTTAAGGGGTTTTTAACCTTTAAAACAACTATGGGTA
865976 AACTACACTTTTGGTCCTCTCCTTTTTA-CCCAACCTAAAACCATCACTTACCTCAACTCTTTGG
131 AACTACACTTTTGGTCCTCTCCTTTTTACCCCAACCTAAAACCATCACTTACCTCAACTCTTTGG
866040 CCTACCTTTAGCCCAATACTATTATAAACTGGTCCAAACCATCTTAGGAGGTCTAACTGGCTTGA
196 CCTACCTTTAGCCCAATACTATTATAAACTGGTCCAAACCATCTTAGGAGGTCTAACTGGCTTGA
*
866105 CCTAAGGATCTCGGATTGGCTCGCATTATTGATGCGAGATTCGGGGTATTACAAATAAATTTATT
261 CCTAAGGATCTCGGATTGGCTCGCATTATTGACGCGAGATTCGGGGTATTACAAATAAATTTATT
* *
866170 ATTTTTTAAATTAAAATTTATTTAATGTAATTTATAAGTGTTA
326 ATTTTCTAAATTAAAATTTATTTAATGTAATTTATAAATGTTA
866213 AAAGTTAAAT
Statistics
Matches: 364, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
367 206 0.57
368 158 0.43
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Consensus pattern (368 bp):
CTTAAAACTTTGATCTTTACTAGGGAAAAGATATTGAGAAAAATAGTCTAAAGAAGAATAAAATA
GGAAGATACTTTTGGGGAAATGGCTCGGGTTAAGGGGTTTTTAACCTTTAAAACAACTATGGGTA
AACTACACTTTTGGTCCTCTCCTTTTTACCCCAACCTAAAACCATCACTTACCTCAACTCTTTGG
CCTACCTTTAGCCCAATACTATTATAAACTGGTCCAAACCATCTTAGGAGGTCTAACTGGCTTGA
CCTAAGGATCTCGGATTGGCTCGCATTATTGACGCGAGATTCGGGGTATTACAAATAAATTTATT
ATTTTCTAAATTAAAATTTATTTAATGTAATTTATAAATGTTA
Found at i:866742 original size:18 final size:18
Alignment explanation
Indices: 866721--866765 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
866711 TTCCATCAAT
* * *
866721 AATTTCTTTTTTTTTTAC
1 AATTTCTTTATCTTTTAA
*
866739 AATTTCCTTATCTTTTAA
1 AATTTCTTTATCTTTTAA
866757 AATTTCTTT
1 AATTTCTTT
866766 GTAGTTTTTC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.22, C:0.13, G:0.00, T:0.64
Consensus pattern (18 bp):
AATTTCTTTATCTTTTAA
Found at i:867335 original size:2 final size:2
Alignment explanation
Indices: 867330--867433 Score: 130
Period size: 2 Copynumber: 54.0 Consensus size: 2
867320 AGTTGCACCG
867330 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
867372 TA TA TA TA TA TA TA GTA TT TA TA T- TT TA TA T- TA TA T- TA T-
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
867411 TA -A TA TA TA GTA TA TA TA T- TA TA
1 TA TA TA TA TA -TA TA TA TA TA TA TA
867434 ATAATATGTA
Statistics
Matches: 91, Mismatches: 3, Indels: 16
0.83 0.03 0.15
Matches are distributed among these distances:
1 6 0.07
2 81 0.89
3 4 0.04
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (2 bp):
TA
Found at i:870648 original size:17 final size:19
Alignment explanation
Indices: 870620--870668 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
870610 TATTTTGAAA
870620 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
870638 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
870657 CATCGATGCACT
1 CATCGATGCACT
870669 AAGGGTCCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 7 0.25
18 7 0.25
19 14 0.50
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:873993 original size:410 final size:410
Alignment explanation
Indices: 873233--874050 Score: 1564
Period size: 410 Copynumber: 2.0 Consensus size: 410
873223 AAGAGAGTAA
*
873233 TCTGGATCAAGTTCGTTGCAACTAAGGATATGTTCACCCCCTGACTATGAGGTCTGGAGGAAAAA
1 TCTGGATCAAGTTCGTTGCAACTAAGGATATGTCCACCCCCTGACTATGAGGTCTGGAGGAAAAA
873298 GAGAGAAAATGATAATGTTTCAGTACTGTGTTTTGAGGACACTCGATCTATGGAGGAACACCTTA
66 GAGAGAAAATGATAATGTTTCAGTACTGTGTTTTGAGGACACTCGATCTATGGAGGAACACCTTA
873363 AAATTGTCTTATCAGAATTAGAAATAACGAAGAATGAGTTTGAAGTTGAAAGAAATGAATGGGAT
131 AAATTGTCTTATCAGAATTAGAAATAACGAAGAATGAGTTTGAAGTTGAAAGAAATGAATGGGAT
*
873428 GAAAAGCTAAGGAATTTGATGCAGATACTCAGAAGGATCGAGCGGGTAAAGTTAAGAAAGAGCAA
196 GAAAAGCTAAGGAATTTGATGCAGATACTCAGAAAGATCGAGCGGGTAAAGTTAAGAAAGAGCAA
* * *
873493 AAGAAGGTCTGTGAAGAGTTTAAGAATCTAAGAAAAAGTATCAAGAGAAAGTCTGAAAGAATACT
261 AAGAAGGTATGTGAAGAGTTGAAGAATCTAAGAAAAAGTATCAAGAGAAAGTCCGAAAGAATACT
* *
873558 AGTTTAAAGAGATCTGAAAAAATGTGGAAGGTTGAAGTAGTTAGTCTGAAGAGGAAAGTTAAAGA
326 AGTTTAAAGAGATCTGAAAAAATGTGGAAGGATGAAGCAGTTAGTCTGAAGAGGAAAGTTAAAGA
873623 ACAATGTGATAGGGAGGTAT
391 ACAATGTGATAGGGAGGTAT
873643 TCTGGATCAAGTTCGTTGCAACTAAGGATATGTCCACCCCCTGACTATGAGGTCTGGAGGAAAAA
1 TCTGGATCAAGTTCGTTGCAACTAAGGATATGTCCACCCCCTGACTATGAGGTCTGGAGGAAAAA
873708 GAGAGAAAATGATAATGTTTCAGTACTGTGTTTTGAGGACACTCGATCTATGGAGGAACACCTTA
66 GAGAGAAAATGATAATGTTTCAGTACTGTGTTTTGAGGACACTCGATCTATGGAGGAACACCTTA
873773 AAATTGTCTTATCAGAATTAGAAATAACGAAGAATGAGTTTGAAGTTGAAAGAAATGAATGGGAT
131 AAATTGTCTTATCAGAATTAGAAATAACGAAGAATGAGTTTGAAGTTGAAAGAAATGAATGGGAT
*
873838 GAAAAGCTAAGGAATTTGATGCAGATACTCAGAAAGATCGAGTGGGTAAAGTTAAGAAAGAGCAA
196 GAAAAGCTAAGGAATTTGATGCAGATACTCAGAAAGATCGAGCGGGTAAAGTTAAGAAAGAGCAA
873903 AAGAAGGTATGTGAAGAGTTGAAGAATCTAAGAAAAAGTATCAAGAGAAAGTCCGAAAGAATACT
261 AAGAAGGTATGTGAAGAGTTGAAGAATCTAAGAAAAAGTATCAAGAGAAAGTCCGAAAGAATACT
873968 AGTTTAAAGAGATCTGAAAAAATGTGGAAGGATGAAGCAGTTAGTCTGAAGAGGAAAGTTAAAGA
326 AGTTTAAAGAGATCTGAAAAAATGTGGAAGGATGAAGCAGTTAGTCTGAAGAGGAAAGTTAAAGA
874033 ACAATGTGATAGGGAGGT
391 ACAATGTGATAGGGAGGT
874051 GTTGAAAGAT
Statistics
Matches: 400, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
410 400 1.00
ACGTcount: A:0.40, C:0.10, G:0.26, T:0.24
Consensus pattern (410 bp):
TCTGGATCAAGTTCGTTGCAACTAAGGATATGTCCACCCCCTGACTATGAGGTCTGGAGGAAAAA
GAGAGAAAATGATAATGTTTCAGTACTGTGTTTTGAGGACACTCGATCTATGGAGGAACACCTTA
AAATTGTCTTATCAGAATTAGAAATAACGAAGAATGAGTTTGAAGTTGAAAGAAATGAATGGGAT
GAAAAGCTAAGGAATTTGATGCAGATACTCAGAAAGATCGAGCGGGTAAAGTTAAGAAAGAGCAA
AAGAAGGTATGTGAAGAGTTGAAGAATCTAAGAAAAAGTATCAAGAGAAAGTCCGAAAGAATACT
AGTTTAAAGAGATCTGAAAAAATGTGGAAGGATGAAGCAGTTAGTCTGAAGAGGAAAGTTAAAGA
ACAATGTGATAGGGAGGTAT
Found at i:879054 original size:19 final size:20
Alignment explanation
Indices: 879022--879059 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
879012 GAATTTCCTT
879022 TAGCACTAACATTA-GTATA
1 TAGCACTAACATTATGTATA
**
879041 TAGCACTATTATTATGTAT
1 TAGCACTAACATTATGTAT
879060 TTATATAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (20 bp):
TAGCACTAACATTATGTATA
Found at i:879140 original size:19 final size:18
Alignment explanation
Indices: 879097--879196 Score: 81
Period size: 17 Copynumber: 5.9 Consensus size: 18
879087 ATAGTGTTTA
879097 TATTATATATATATATAG-
1 TATTATATATATATAT-GT
* *
879115 TAGTATAGTATGTATATGT
1 TATTATA-TATATATATGT
879134 TATTATATA-ATATATGT
1 TATTATATATATATATGT
* *
879151 GATTATATATA-GTA--T
1 TATTATATATATATATGT
*
879166 TA-TATATATATATAT-A
1 TATTATATATATATATGT
879182 TA-TATATATATATAT
1 TATTATATATATATAT
879197 TAATATATAA
Statistics
Matches: 68, Mismatches: 9, Indels: 12
0.76 0.10 0.13
Matches are distributed among these distances:
14 8 0.12
15 4 0.06
16 15 0.22
17 17 0.25
18 10 0.15
19 14 0.21
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (18 bp):
TATTATATATATATATGT
Found at i:879158 original size:12 final size:12
Alignment explanation
Indices: 879047--879205 Score: 87
Period size: 12 Copynumber: 13.9 Consensus size: 12
879037 TATATAGCAC
879047 TATTAT-TAT-G
1 TATTATATATAG
*
879057 TATT-TATATAA
1 TATTATATATAG
879068 T-TTATATATAG
1 TATTATATATAG
* *
879079 TAGTATCTATAG
1 TATTATATATAG
*
879091 TGTT-TATATTA-
1 TATTATATA-TAG
879102 TATATATATATAG
1 TAT-TATATATAG
*
879115 TAGTATAGTAT-G
1 TATTATA-TATAG
* *
879127 TA-TATGT-TAT
1 TATTATATATAG
879137 TA-TATAATATATG
1 TATTAT-ATATA-G
879150 TGATTATATATAG
1 T-ATTATATATAG
879163 TATTATATATA-
1 TATTATATATAG
879174 TA-TATATATA-
1 TATTATATATAG
879184 TA-TATATATA-
1 TATTATATATAG
879194 TATTAATATATA
1 TATT-ATATATA
879206 AATATAGTGT
Statistics
Matches: 119, Mismatches: 13, Indels: 32
0.73 0.08 0.20
Matches are distributed among these distances:
9 2 0.02
10 35 0.29
11 20 0.17
12 41 0.34
13 12 0.10
14 6 0.05
15 3 0.03
ACGTcount: A:0.40, C:0.01, G:0.08, T:0.51
Consensus pattern (12 bp):
TATTATATATAG
Found at i:879223 original size:2 final size:2
Alignment explanation
Indices: 879095--879211 Score: 97
Period size: 2 Copynumber: 60.0 Consensus size: 2
879085 CTATAGTGTT
* *
879095 TA TA T- TA TA TA TA TA TA TA GTA GTA TA GTA TG TA TA TG T- TA
1 TA TA TA TA TA TA TA TA TA TA -TA -TA TA -TA TA TA TA TA TA TA
*
879136 T- TA TA TA -A TA TA TG TGA T- TA TA TA TA GTA T- TA TA TA TA TA
1 TA TA TA TA TA TA TA TA T-A TA TA TA TA TA -TA TA TA TA TA TA TA
*
879176 TA TA TA TA TA TA TA TA TA TA T- TA -A TA TA TA AA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
879212 GTGTTTATAT
Statistics
Matches: 96, Mismatches: 7, Indels: 24
0.76 0.06 0.19
Matches are distributed among these distances:
1 8 0.08
2 78 0.81
3 10 0.10
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (2 bp):
TA
Found at i:879620 original size:38 final size:40
Alignment explanation
Indices: 879578--879668 Score: 123
Period size: 40 Copynumber: 2.3 Consensus size: 40
879568 CATAATTATG
879578 ACGAAAAT-A-TTGTCACTAGGCTTAGTAGGTGATTTGTA
1 ACGAAAATAATTTGTCACTAGGCTTAGTAGGTGATTTGTA
* * *
879616 ACGAAAATAATTTGTCACTAGTCTTAGTTGGTGATTTGTG
1 ACGAAAATAATTTGTCACTAGGCTTAGTAGGTGATTTGTA
* *
879656 ACGATAATTATTT
1 ACGAAAATAATTT
879669 ATGTCAGTTG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
38 8 0.17
39 1 0.02
40 37 0.80
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (40 bp):
ACGAAAATAATTTGTCACTAGGCTTAGTAGGTGATTTGTA
Found at i:881563 original size:21 final size:20
Alignment explanation
Indices: 881531--881569 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
881521 TGATTGATTG
881531 AAAATAAATAAAATAAAAAT
1 AAAATAAATAAAATAAAAAT
* *
881551 AAAAGTAAGTAAATTAAAA
1 AAAA-TAAATAAAATAAAA
881570 TTCTAATTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (20 bp):
AAAATAAATAAAATAAAAAT
Found at i:882178 original size:19 final size:20
Alignment explanation
Indices: 882147--882188 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
882137 ATTTTAAAAG
882147 AAAATAAATAAAAA-CTTGA
1 AAAATAAATAAAAACCTTGA
882166 AAAAGTAAA-AAAAACCTTGA
1 AAAA-TAAATAAAAACCTTGA
882186 AAA
1 AAA
882189 GAAAAGTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.17
Consensus pattern (20 bp):
AAAATAAATAAAAACCTTGA
Found at i:882189 original size:19 final size:18
Alignment explanation
Indices: 882146--882193 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 18
882136 CATTTTAAAA
882146 GAAAA-TAAATAAAAACTT
1 GAAAAGTAAA-AAAAACTT
882164 GAAAAAGTAAAAAAAACCTT
1 G-AAAAGTAAAAAAAA-CTT
882184 GAAAAG-AAAA
1 GAAAAGTAAAA
882194 GTAAAATCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
18 5 0.19
19 14 0.52
20 8 0.30
ACGTcount: A:0.69, C:0.06, G:0.10, T:0.15
Consensus pattern (18 bp):
GAAAAGTAAAAAAAACTT
Found at i:882338 original size:23 final size:22
Alignment explanation
Indices: 882312--882369 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
882302 AAAAATGCCC
882312 AAGATAATTCCTAATAAATACAA
1 AAGATAATTCCTAA-AAATACAA
* * *
882335 AAGATAATCCCCTAAAATTGCAA
1 AAGATAAT-TCCTAAAAATACAA
*
882358 AATATAATTCCT
1 AAGATAATTCCT
882370 TTAATTATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
22 3 0.10
23 21 0.72
24 5 0.17
ACGTcount: A:0.50, C:0.17, G:0.05, T:0.28
Consensus pattern (22 bp):
AAGATAATTCCTAAAAATACAA
Found at i:888176 original size:19 final size:19
Alignment explanation
Indices: 888132--888176 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
888122 AATCCGCTGA
888132 AAAAAAATAAAACAAGAAC
1 AAAAAAATAAAACAAGAAC
* * *
888151 GAAAAAATTAAACAATAAC
1 AAAAAAATAAAACAAGAAC
888170 AAAAAAA
1 AAAAAAA
888177 ACTCAAGCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.78, C:0.09, G:0.04, T:0.09
Consensus pattern (19 bp):
AAAAAAATAAAACAAGAAC
Found at i:888266 original size:22 final size:23
Alignment explanation
Indices: 888240--888313 Score: 80
Period size: 23 Copynumber: 3.3 Consensus size: 23
888230 CTTCCTAAAA
* **
888240 CCCTAAAAATTCTCAAGATAATT
1 CCCTAAAAATACAAAAGATAATT
888263 -CCTAATAAATACAAAAGATAATT
1 CCCTAA-AAATACAAAAGATAATT
* *
888286 CCCTAAAATTGCAAAA-ATAATT
1 CCCTAAAAATACAAAAGATAATT
888308 CCCTAA
1 CCCTAA
888314 TTGTTTGAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
22 17 0.39
23 22 0.50
24 5 0.11
ACGTcount: A:0.49, C:0.20, G:0.04, T:0.27
Consensus pattern (23 bp):
CCCTAAAAATACAAAAGATAATT
Found at i:889582 original size:7 final size:7
Alignment explanation
Indices: 889545--889571 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
889535 GTGCGTGTAT
889545 TAATATA
1 TAATATA
889552 TAATATA
1 TAATATA
889559 TAATATA
1 TAATATA
889566 TAATAT
1 TAATAT
889572 TTATATATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
TAATATA
Found at i:896412 original size:2 final size:2
Alignment explanation
Indices: 896405--896449 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
896395 CTACCTGATA
896405 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
896447 AT A
1 AT A
896450 CATTCATTTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:904270 original size:20 final size:20
Alignment explanation
Indices: 904242--904282 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
904232 TTAAATCCTA
*
904242 AATCATAAAACCTAAAATAG
1 AATCATAAAACCCAAAATAG
* *
904262 AATCCTAAACCCCAAAATAG
1 AATCATAAAACCCAAAATAG
904282 A
1 A
904283 GCTAAAAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.56, C:0.22, G:0.05, T:0.17
Consensus pattern (20 bp):
AATCATAAAACCCAAAATAG
Found at i:906861 original size:39 final size:39
Alignment explanation
Indices: 906800--906976 Score: 191
Period size: 39 Copynumber: 4.6 Consensus size: 39
906790 ACACAACATA
* * *
906800 AGGA-CCTGCGATAA-GACTTACCCTGTGTACAAAGCAG
1 AGGAGCCTACGATAAGGACTTACCCTGAGCACAAAGCAG
* *
906837 AGGAGCCTACGATAAGGACTTACCCTGAGTACAAAGCTG
1 AGGAGCCTACGATAAGGACTTACCCTGAGCACAAAGCAG
* * *
906876 AGGAGCTTGC-AGTAAGGACTTACCCTGAGCACAAAG-ATA
1 AGGAGCCTACGA-TAAGGACTTACCCTGAGCACAAAGCA-G
* * * *
906915 AGGAACCTATGGTAAGGACTTACCCTGAGCACAAAGCGG
1 AGGAGCCTACGATAAGGACTTACCCTGAGCACAAAGCAG
*
906954 AGGAGCCTACGATAAGGTCTTAC
1 AGGAGCCTACGATAAGGACTTAC
906977 AAGTCATAGA
Statistics
Matches: 115, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
37 4 0.03
38 10 0.09
39 101 0.88
ACGTcount: A:0.33, C:0.23, G:0.26, T:0.18
Consensus pattern (39 bp):
AGGAGCCTACGATAAGGACTTACCCTGAGCACAAAGCAG
Found at i:907641 original size:15 final size:16
Alignment explanation
Indices: 907621--907661 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
907611 GTTTGATTCA
*
907621 GGTCGGGTCGAA-ATG
1 GGTCGGGTCGAAGACG
907636 GGTC-GGTCGGAAGACG
1 GGTCGGGTC-GAAGACG
907652 GGTCGGGTCG
1 GGTCGGGTCG
907662 GCCCATTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
14 4 0.18
15 7 0.32
16 7 0.32
17 4 0.18
ACGTcount: A:0.15, C:0.17, G:0.51, T:0.17
Consensus pattern (16 bp):
GGTCGGGTCGAAGACG
Found at i:913739 original size:39 final size:39
Alignment explanation
Indices: 913650--913857 Score: 274
Period size: 39 Copynumber: 5.4 Consensus size: 39
913640 TAAGGATCTA
* *** *
913650 CGGTAAGGACTTACCCTGTGCACAAAGAATA-GAGCATG
1 CGGTAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCTG
* *
913688 CGGTAAGGACTTACCATGAGCAAAAAGCCGAGGAGCCTG
1 CGGTAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCTG
* *
913727 CGGTAAGGACTTACCCTGAGCACAAAACCGAGGAGCCTA
1 CGGTAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCTG
* *
913766 CAGTAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCTA
1 CGGTAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCTG
* **
913805 CAGTAAGGACTTACCCTGAGCACAAAGTTGAGGAGCCTG
1 CGGTAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCTG
*
913844 CGGTAAGGTCTTAC
1 CGGTAAGGACTTAC
913858 AAGTCATAGA
Statistics
Matches: 151, Mismatches: 18, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
38 25 0.17
39 126 0.83
ACGTcount: A:0.32, C:0.25, G:0.27, T:0.16
Consensus pattern (39 bp):
CGGTAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCTG
Found at i:914625 original size:11 final size:11
Alignment explanation
Indices: 914609--914702 Score: 76
Period size: 11 Copynumber: 10.0 Consensus size: 11
914599 CCGATCAACG
914609 GTCAACGATCA
1 GTCAACGATCA
914620 GTCAACG---A
1 GTCAACGATCA
914628 -TCAACGATCA
1 GTCAACGATCA
914638 GTCAACG---A
1 GTCAACGATCA
914646 -TCAACGATCA
1 GTCAACGATCA
914656 GTCAACG---A
1 GTCAACGATCA
914664 -TCAACGATCA
1 GTCAACGATCA
914674 GTCAACG---A
1 GTCAACGATCA
914682 -TCAACGATCA
1 GTCAACGATCA
914692 GTCAACGATCA
1 GTCAACGATCA
914703 ATGATCAGTC
Statistics
Matches: 67, Mismatches: 0, Indels: 32
0.68 0.00 0.32
Matches are distributed among these distances:
7 24 0.36
8 4 0.06
10 4 0.06
11 35 0.52
ACGTcount: A:0.38, C:0.28, G:0.17, T:0.17
Consensus pattern (11 bp):
GTCAACGATCA
Found at i:914626 original size:18 final size:18
Alignment explanation
Indices: 914603--914714 Score: 206
Period size: 18 Copynumber: 6.2 Consensus size: 18
914593 TCAACGCCGA
*
914603 TCAACGGTCAACGATCAG
1 TCAACGATCAACGATCAG
914621 TCAACGATCAACGATCAG
1 TCAACGATCAACGATCAG
914639 TCAACGATCAACGATCAG
1 TCAACGATCAACGATCAG
914657 TCAACGATCAACGATCAG
1 TCAACGATCAACGATCAG
914675 TCAACGATCAACGATCAG
1 TCAACGATCAACGATCAG
*
914693 TCAACGATCAATGATCAG
1 TCAACGATCAACGATCAG
914711 TCAA
1 TCAA
914715 TCAATGGTTA
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
18 92 1.00
ACGTcount: A:0.38, C:0.27, G:0.17, T:0.18
Consensus pattern (18 bp):
TCAACGATCAACGATCAG
Found at i:924949 original size:37 final size:39
Alignment explanation
Indices: 924900--924991 Score: 109
Period size: 37 Copynumber: 2.4 Consensus size: 39
924890 AAAAATAAAG
* *
924900 AAAAATATATATAAATAAAATAATAATA-ATAAAAA-GGT
1 AAAAATATATATAAATAAAA-AATAAAACATAAAAATAGT
* *
924938 AAAAATA-ATATATATAATAAATAAAACATAAAAATAGT
1 AAAAATATATATAAATAAAAAATAAAACATAAAAATAGT
*
924976 AAATATATATATAAAT
1 AAAAATATATATAAAT
924992 TAATAAAACA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
36 6 0.13
37 17 0.38
38 15 0.33
39 7 0.16
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.28
Consensus pattern (39 bp):
AAAAATATATATAAATAAAAAATAAAACATAAAAATAGT
Found at i:924968 original size:23 final size:22
Alignment explanation
Indices: 924892--924968 Score: 67
Period size: 23 Copynumber: 3.5 Consensus size: 22
924882 TAAATAAAAA
924892 AAATAAAGAA-AA-ATATAT-AT
1 AAATAAA-AATAATATATATAAT
924912 AAAT-AAAATAATA-ATAATAA-
1 AAATAAAAATAATATAT-ATAAT
924932 AAAGGTAAAAATAATATATATAAT
1 AAA--TAAAAATAATATATATAAT
924956 AAATAAAACATAA
1 AAATAAAA-ATAA
924969 AAATAGTAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 17
0.73 0.00 0.27
Matches are distributed among these distances:
18 2 0.04
19 6 0.13
20 10 0.21
21 1 0.02
22 6 0.13
23 17 0.36
24 5 0.11
ACGTcount: A:0.70, C:0.01, G:0.04, T:0.25
Consensus pattern (22 bp):
AAATAAAAATAATATATATAAT
Found at i:924969 original size:29 final size:29
Alignment explanation
Indices: 924912--924991 Score: 85
Period size: 29 Copynumber: 2.7 Consensus size: 29
924902 AAATATATAT
924912 AAATAAAATA-ATAAT-AATAAAAAGGTAA
1 AAATAAAATATATAATAAATAAAAA-GTAA
*
924940 AAATAATATATATAATAAATAAAACA-TAA
1 AAATAAAATATATAATAAATAAAA-AGTAA
924969 AAATAGTAAATATATATATAAAT
1 AAATA--AAATATATA-ATAAAT
924992 TAATAAAACA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
28 9 0.20
29 13 0.30
30 7 0.16
31 9 0.20
32 6 0.14
ACGTcount: A:0.68, C:0.01, G:0.04, T:0.28
Consensus pattern (29 bp):
AAATAAAATATATAATAAATAAAAAGTAA
Found at i:925022 original size:36 final size:37
Alignment explanation
Indices: 924890--925024 Score: 118
Period size: 36 Copynumber: 3.6 Consensus size: 37
924880 AATAAATAAA
*
924890 AAAAATAAAGAAA-AATATATATAAATAAAATAATAATAAT
1 AAAAATAAA-AAATAATATATATAAAT-AAATAA-AA-CAT
924930 AAAAAGGT-AAAAATAATATATAT-AATAAATAAAACAT
1 AAAAA--TAAAAAATAATATATATAAATAAATAAAACAT
** *
924967 AAAAATAGTAAAT-ATATATATAAATTAATAAAACA-
1 AAAAATAAAAAATAATATATATAAATAAATAAAACAT
* * *
925002 GATAATAAAAAATAACATATATA
1 AAAAATAAAAAATAATATATATA
925025 TATATATGTA
Statistics
Matches: 80, Mismatches: 9, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
35 18 0.22
36 24 0.30
37 7 0.09
38 2 0.03
39 6 0.08
40 11 0.14
41 11 0.14
42 1 0.01
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (37 bp):
AAAAATAAAAAATAATATATATAAATAAATAAAACAT
Found at i:925022 original size:40 final size:36
Alignment explanation
Indices: 924879--925028 Score: 112
Period size: 39 Copynumber: 4.0 Consensus size: 36
924869 ATAGTAAGTA
*
924879 AAATAAATAAAA-A-AAATAAAGA-AAA-ATATATAT
1 AAATAAATAAAACATAAA-AAAAATAAATATATATAT
* * *
924912 AAATAAAATAATA-ATAATAAAAAGGTAAAAATAATATAT
1 AAAT-AAATAAAACATAA-AAAAA-ATAAATAT-ATATAT
* *
924951 ATAATAAATAAAACATAAAAATAGTAAATATATATAT
1 A-AATAAATAAAACATAAAAAAAATAAATATATATAT
*
924988 AAATTAATAAAACAGATAATAAAAAATAACATATATATAT
1 AAATAAATAAAAC--ATAA-AAAAAATAA-ATATATATAT
925028 A
1 A
925029 TATGTAATCT
Statistics
Matches: 95, Mismatches: 9, Indels: 19
0.77 0.07 0.15
Matches are distributed among these distances:
33 4 0.04
34 8 0.08
35 5 0.05
36 12 0.13
37 10 0.11
38 13 0.14
39 25 0.26
40 18 0.19
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.26
Consensus pattern (36 bp):
AAATAAATAAAACATAAAAAAAATAAATATATATAT
Found at i:925910 original size:38 final size:42
Alignment explanation
Indices: 925824--925950 Score: 117
Period size: 40 Copynumber: 3.2 Consensus size: 42
925814 ATTTTTTTAG
* * * * *
925824 ATTACATATATA-TATGTTA-TTTTTTATTATCTGTTTTATTA
1 ATTATATATATATTATTTTACTATTTTATCAT-TGTTTTATTT
925865 ATT-TATATATA-TA-TTTACTATTTT-TCA-TGTTTTATTT
1 ATTATATATATATTATTTTACTATTTTATCATTGTTTTATTT
* *
925902 ATTATATATATATTATTTTTACTTTTTTATTATTGTTTTATTT
1 ATTATATATATATTA-TTTTACTATTTTATCATTGTTTTATTT
925945 A-TATAT
1 ATTATAT
925951 TTTTTTCTTC
Statistics
Matches: 72, Mismatches: 7, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
37 12 0.17
38 8 0.11
39 7 0.10
40 14 0.19
41 13 0.18
42 7 0.10
43 11 0.15
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.65
Consensus pattern (42 bp):
ATTATATATATATTATTTTACTATTTTATCATTGTTTTATTT
Found at i:925942 original size:25 final size:23
Alignment explanation
Indices: 925914--925998 Score: 59
Period size: 25 Copynumber: 3.5 Consensus size: 23
925904 TATATATATA
925914 TTATTTTTACTTTTTTATTATTGTT
1 TTATTTTTACTTTTTTATT-TT-TT
*
925939 TTATTTATATA-TTTTTT-TCTTCTT
1 TTATTT-T-TACTTTTTTAT-TTTTT
* *
925963 TT-TCTTTATTTTCTTTATTTTTT
1 TTATTTTTACTTT-TTTATTTTTT
925986 TTATTTTTTACTT
1 TTA-TTTTTACTT
925999 ACTATTTTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 16
0.69 0.07 0.24
Matches are distributed among these distances:
21 2 0.04
22 4 0.09
23 11 0.23
24 5 0.11
25 15 0.32
26 8 0.17
27 2 0.04
ACGTcount: A:0.14, C:0.07, G:0.01, T:0.78
Consensus pattern (23 bp):
TTATTTTTACTTTTTTATTTTTT
Found at i:925955 original size:34 final size:34
Alignment explanation
Indices: 925865--926008 Score: 84
Period size: 34 Copynumber: 4.1 Consensus size: 34
925855 TGTTTTATTA
* *
925865 ATTTATATATATATTTACTATTTTTCATGTTTTATTTATT
1 ATTTATATAT-TTTTTACT-TTTTT-AT-CTTTA-TT-TT
* *
925905 ATATATATATTATTTTTACTTTTTTAT-TATTGTTTT
1 ATTTATATA-T-TTTTTACTTTTTTATCT-TTATTTT
*
925941 ATTTATATATTTTTTTCTTCTTTT-TCTTTATTTT
1 ATTTATATATTTTTTACTT-TTTTATCTTTATTTT
*
925975 CTTTAT-T-TTTTTTA-TTTTTTA-CTTACTATTTT
1 ATTTATATATTTTTTACTTTTTTATCTT--TATTTT
926007 AT
1 AT
926009 CTTTGCTTTC
Statistics
Matches: 88, Mismatches: 9, Indels: 22
0.74 0.08 0.18
Matches are distributed among these distances:
30 7 0.08
31 2 0.02
32 13 0.15
33 1 0.01
34 20 0.23
35 6 0.07
36 10 0.11
37 3 0.03
38 2 0.02
39 2 0.02
40 13 0.15
41 9 0.10
ACGTcount: A:0.22, C:0.06, G:0.01, T:0.71
Consensus pattern (34 bp):
ATTTATATATTTTTTACTTTTTTATCTTTATTTT
Found at i:925982 original size:38 final size:36
Alignment explanation
Indices: 925843--925964 Score: 95
Period size: 41 Copynumber: 3.2 Consensus size: 36
925833 ATATATGTTA
* *
925843 TTTTTTATTATCTGTTTTATTAATTTATATATATATTTAC
1 TTTTTTATTAT-TGTTTTATT--TATATAT-TATTTTTAC
* * *
925883 TATTTTTCATGTTTTATTTATTATATATATATTATTTTTAC
1 T-TTTTT-AT-TATT-GTT-TTATTTATATATTATTTTTAC
925924 TTTTTTATTATTGTTTTATTTATATATT-TTTTT-C
1 TTTTTTATTATTGTTTTATTTATATATTATTTTTAC
925958 TTCTTTT
1 TT-TTTT
925965 TCTTTATTTT
Statistics
Matches: 68, Mismatches: 8, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
34 3 0.04
35 9 0.13
36 12 0.18
37 2 0.03
38 3 0.04
39 2 0.03
40 6 0.09
41 14 0.21
42 9 0.13
43 4 0.06
44 4 0.06
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (36 bp):
TTTTTTATTATTGTTTTATTTATATATTATTTTTAC
Done.