Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01013778.1 Kokia drynarioides strain JFW-HI SEQ_128806, 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: 107991
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Warning! 12 characters in sequence are not A, C, G, or T
Found at i:947 original size:58 final size:59
Alignment explanation
Indices: 766--1090 Score: 373
Period size: 58 Copynumber: 5.6 Consensus size: 59
756 CCCTAAACTA
* * *
766 TCCAAAAATTACATTTTTACCCTCAAAC-TTCCAAAATTCCATTTTTGACCCCAATTTCT
1 TCCAAAAATTACATTTTTACCCTCGAACTTTCCAAAATTCCATTTTTGACCTCGATTT-T
* * * *
825 T-CAAAATTTACATTTCTACCCTCGAACTTTCTAAAATTCCATTTTTGACCTCGACTTT
1 TCCAAAAATTACATTTTTACCCTCGAACTTTCCAAAATTCCATTTTTGACCTCGATTTT
* *
883 TCCAAAAATTACATTTTTACCCTCGAAC-TTCCAAAATTCCATTTTTAACC-CTAATTTT
1 TCCAAAAATTACATTTTTACCCTCGAACTTTCCAAAATTCCATTTTTGACCTC-GATTTT
* * *
941 TCC-AAAATTACATTTTTACCCTCGAACTTTTCAAAATTCCATTTTTAAGCTCGATTTT
1 TCCAAAAATTACATTTTTACCCTCGAACTTTCCAAAATTCCATTTTTGACCTCGATTTT
* * ** *
999 TCCAAAAATTACCA--TTTACCCCCAAACTTTTAAAAATTCTATTTTTGACCTCGATTTT
1 TCCAAAAATTA-CATTTTTACCCTCGAACTTTCCAAAATTCCATTTTTGACCTCGATTTT
* *
1057 TCC-AAAATGATCA-TTTTACCCCCGAAC-TTCCAAA
1 TCCAAAAATTA-CATTTTTACCCTCGAACTTTCCAAA
1091 CACTTTTCCA
Statistics
Matches: 231, Mismatches: 27, Indels: 18
0.84 0.10 0.07
Matches are distributed among these distances:
57 38 0.16
58 133 0.58
59 58 0.25
60 2 0.01
ACGTcount: A:0.31, C:0.26, G:0.04, T:0.39
Consensus pattern (59 bp):
TCCAAAAATTACATTTTTACCCTCGAACTTTCCAAAATTCCATTTTTGACCTCGATTTT
Found at i:993 original size:29 final size:29
Alignment explanation
Indices: 770--994 Score: 183
Period size: 29 Copynumber: 7.8 Consensus size: 29
760 AAACTATCCA
* * *
770 AAAATTACATTTTTACCCTCAAAC-TTCC
1 AAAATTACATTTTTAACCTCGAACTTTTC
* * * *
798 AAAATTCCATTTTTGACC-CCAATTTCTTC
1 AAAATTACATTTTTAACCTCGAACTT-TTC
* *
827 AAAATTTACATTTCTACCCTCGAAC-TTTC
1 AAAA-TTACATTTTTAACCTCGAACTTTTC
* *
856 TAAAATTCCATTTTTGACCTCG-ACTTTTCC
1 -AAAATTACATTTTTAACCTCGAACTTTT-C
* *
886 AAAAATTACATTTTTACCCTCGAAC-TTCC
1 -AAAATTACATTTTTAACCTCGAACTTTTC
* * *
915 AAAATTCCATTTTTAACC-CTAATTTTTCC
1 AAAATTACATTTTTAACCTCGAACTTTT-C
*
944 AAAATTACATTTTTACCCTCGAACTTTTC
1 AAAATTACATTTTTAACCTCGAACTTTTC
* *
973 AAAATTCCATTTTTAAGCTCGA
1 AAAATTACATTTTTAACCTCGA
995 TTTTTCCAAA
Statistics
Matches: 153, Mismatches: 33, Indels: 21
0.74 0.16 0.10
Matches are distributed among these distances:
27 6 0.04
28 36 0.24
29 63 0.41
30 43 0.28
31 5 0.03
ACGTcount: A:0.31, C:0.26, G:0.04, T:0.40
Consensus pattern (29 bp):
AAAATTACATTTTTAACCTCGAACTTTTC
Found at i:1004 original size:29 final size:29
Alignment explanation
Indices: 794--1064 Score: 178
Period size: 29 Copynumber: 9.3 Consensus size: 29
784 ACCCTCAAAC
* * *
794 TTCCAAAATTCCATTTTTGACCCCAATTT
1 TTCCAAAATTCCATTTTTAACCTCGATTT
* * * **
823 CTT-CAAAATTTACATTTCTACCCTCGAACT
1 -TTCCAAAA-TTCCATTTTTAACCTCGATTT
* * *
853 TTCTAAAATTCCATTTTTGACCTCGACTT
1 TTCCAAAATTCCATTTTTAACCTCGATTT
* * **
882 TTCCAAAAATTACATTTTTACCCTCGA-AC
1 TTCC-AAAATTCCATTTTTAACCTCGATTT
*
911 TTCCAAAATTCCATTTTTAACC-CTAATTT
1 TTCCAAAATTCCATTTTTAACCTC-GATTT
* * *
940 TTCCAAAATTACATTTTTACCCTCGAACTT
1 TTCCAAAATTCCATTTTTAACCTCG-ATTT
*
970 TT-CAAAATTCCATTTTTAAGCTCGATTT
1 TTCCAAAATTCCATTTTTAACCTCGATTT
* * * *
998 TTCCAAAAATTACCA--TTTACCCCCAAACTT
1 TTCC-AAAATT-CCATTTTTAACCTC-GATTT
* * *
1028 TT-AAAAATTCTATTTTTGACCTCGATTT
1 TTCCAAAATTCCATTTTTAACCTCGATTT
1056 TTCCAAAAT
1 TTCCAAAAT
1065 GATCATTTTA
Statistics
Matches: 180, Mismatches: 47, Indels: 29
0.70 0.18 0.11
Matches are distributed among these distances:
27 3 0.02
28 33 0.18
29 86 0.48
30 55 0.31
31 3 0.02
ACGTcount: A:0.31, C:0.25, G:0.04, T:0.41
Consensus pattern (29 bp):
TTCCAAAATTCCATTTTTAACCTCGATTT
Found at i:12943 original size:50 final size:49
Alignment explanation
Indices: 12859--13015 Score: 142
Period size: 50 Copynumber: 3.2 Consensus size: 49
12849 ACGAAACATG
* * * *
12859 AAGGGAAAGATCTAAGCCGCAACGGCGGATCTAGTACTGTAAAGATACAA
1 AAGGGAAAGATCTAAGTCGCAACGACGAACCTAGTACTGTAAAGA-ACAA
* * * * *
12909 AACGGAAAGGTTTAAGTCGCAACGACGAACCTAGTAC-CT-CAGAAGCATA
1 AAGGGAAAGATCTAAGTCGCAACGACGAACCTAGTACTGTAAAGAA-CA-A
*
12958 AAGGGAAAGATCTAAG-CGGCAACGACGAATCC-AGTACTGCAAAGACACAA
1 AAGGGAAAGATCTAAGTC-GCAACGACGAA-CCTAGTACTGTAAAGA-ACAA
13008 AAGGGAAA
1 AAGGGAAA
13016 TGTTTAAGTT
Statistics
Matches: 85, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
47 1 0.01
48 6 0.07
49 31 0.36
50 41 0.48
51 5 0.06
52 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.25, T:0.13
Consensus pattern (49 bp):
AAGGGAAAGATCTAAGTCGCAACGACGAACCTAGTACTGTAAAGAACAA
Found at i:12982 original size:49 final size:50
Alignment explanation
Indices: 12843--13275 Score: 286
Period size: 49 Copynumber: 8.8 Consensus size: 50
12833 TACAAGTCTC
* * * * *
12843 AGTACCAC-GAA-ACATGAAGGGAAAGATCTAAGCCGCAACGGCGGATCT
1 AGTACCACAGAAGACATAAAGGGAAAGATTTAAGCCGCAACGACGAACCT
* * * * * *
12891 AGTACTGTAAAG-ATACA-AAACGGAAAGGTTTAAGTCGCAACGACGAACCT
1 AGTAC--CACAGAAGACATAAAGGGAAAGATTTAAGCCGCAACGACGAACCT
* * *
12941 AGTACCTCAGAAG-CATAAAGGGAAAGATCTAAGCGGCAACGACGAATCC-
1 AGTACCACAGAAGACATAAAGGGAAAGATTTAAGCCGCAACGACGAA-CCT
** * ** * * *
12990 AGTACTGCA-AAGACACAAAAGGGAAATG-TTTAAGTTGTAATGGCGAACCT
1 AGTACCACAGAAGACA-TAAAGGGAAA-GATTTAAGCCGCAACGACGAACCT
* * * * *
13040 TGTACCACA-AAGACATGAAGGGAAAGATTTAAGCCACAAAGGCGAATCC-
1 AGTACCACAGAAGACATAAAGGGAAAGATTTAAGCCGCAACGACGAA-CCT
* * *
13089 ACTACCACAG-AGACATAAAGGGAAAGATTTAAGCCGCAACGGCGGATCC-
1 AGTACCACAGAAGACATAAAGGGAAAGATTTAAGCCGCAACGAC-GAACCT
* * *
13138 AATACCACA-AAGATACA-AAAGGGAAAGGTTTAAGTCGCAACGACGAACCT
1 AGTACCACAGAAG--ACATAAAGGGAAAGATTTAAGCCGCAACGACGAACCT
* * ** * *
13188 AGTACCTCAG-AGACATGAAGGGAAAGATTTAAGATGCAACGATGAATCT
1 AGTACCACAGAAGACATAAAGGGAAAGATTTAAGCCGCAACGACGAACCT
* * * *
13237 AGTACCGC-GAAGACATAAGGGGAAGGATTTAAGTCGCAA
1 AGTACCACAGAAGACATAAAGGGAAAGATTTAAGCCGCAA
13276 TGGCAAAACT
Statistics
Matches: 300, Mismatches: 63, Indels: 43
0.74 0.16 0.11
Matches are distributed among these distances:
48 17 0.06
49 170 0.57
50 105 0.35
51 8 0.03
ACGTcount: A:0.41, C:0.19, G:0.24, T:0.16
Consensus pattern (50 bp):
AGTACCACAGAAGACATAAAGGGAAAGATTTAAGCCGCAACGACGAACCT
Found at i:13037 original size:99 final size:99
Alignment explanation
Indices: 12843--13275 Score: 310
Period size: 99 Copynumber: 4.4 Consensus size: 99
12833 TACAAGTCTC
* * * * * * *
12843 AGTACCACGAA-ACATGAAGGGAAAGATCTAAGCCGCAACGGCGGATCTAGTACTGTAAAGATAC
1 AGTACCACAAAGACATAAAGGGAAAGATCTAAGCCGCAACGACGAATCCAGTACTGCAAAGACAC
12907 AAAACGGAAAGGTTTAAGTCGCAACGACGAACCT
66 AAAACGGAAAGGTTTAAGTCGCAACGACGAACCT
* *
12941 AGTACCTCAGAAG-CATAAAGGGAAAGATCTAAGCGGCAACGACGAATCCAGTACTGCAAAGACA
1 AGTACCACA-AAGACATAAAGGGAAAGATCTAAGCCGCAACGACGAATCCAGTACTGCAAAGACA
* * * * * *
13005 CAAAAGGGAAATGTTTAAGTTGTAATGGCGAACCT
65 CAAAACGGAAAGGTTTAAGTCGCAACGACGAACCT
* * * * * * * * *
13040 TGTACCACAAAGACATGAAGGGAAAGATTTAAGCCACAAAGGCGAATCCACTAC--CACAGAGAC
1 AGTACCACAAAGACATAAAGGGAAAGATCTAAGCCGCAACGACGAATCCAGTACTGCAAAGACAC
* * * * *
13103 ATAAAGGGAAAGATTTAAGCCGCAACGGCGGATCC-
66 A-AAACGGAAAGGTTTAAGTCGCAACGAC-GAACCT
* * * * *
13138 AATACCACAAAGATACA-AAAGGGAAAGGTTTAAGTCGCAACGACGAA-CCTAGTACCT-CAGAG
1 AGTACCACAAAG--ACATAAAGGGAAAGATCTAAGCCGCAACGACGAATCC-AGTA-CTGCAAAG
** * * * *
13200 ACA-TGAAGGGAAAGATTTAAGAT-GCAACGATGAATCT
62 ACACAAAACGGAAAGGTTTAAG-TCGCAACGACGAACCT
* * * * * *
13237 AGTACCGCGAAGACATAAGGGGAAGGATTTAAGTCGCAA
1 AGTACCACAAAGACATAAAGGGAAAGATCTAAGCCGCAA
13276 TGGCAAAACT
Statistics
Matches: 265, Mismatches: 57, Indels: 26
0.76 0.16 0.07
Matches are distributed among these distances:
97 11 0.04
98 66 0.25
99 178 0.67
100 4 0.02
101 6 0.02
ACGTcount: A:0.41, C:0.19, G:0.24, T:0.16
Consensus pattern (99 bp):
AGTACCACAAAGACATAAAGGGAAAGATCTAAGCCGCAACGACGAATCCAGTACTGCAAAGACAC
AAAACGGAAAGGTTTAAGTCGCAACGACGAACCT
Found at i:13235 original size:148 final size:147
Alignment explanation
Indices: 12912--13275 Score: 392
Period size: 148 Copynumber: 2.5 Consensus size: 147
12902 GATACAAAAC
* * *
12912 GGAAAGGTTTAAGTCGCAACGACGAA-CCTAGTACCTCAGA-AGCATAAAGGGAAAGATCTAAGC
1 GGAAAGATTTAAGT-GCAACGACGAATCC-AGTACCACAGAGA-CATAAAGGGAAAGATTTAAGC
* * ** * * * * *
12975 GGCAACGACGAATCCAGTACTGCAAAGACACAAAAGGGAAATGTTTAAGTTGTAATGGCGAACCT
63 CGCAACGACGAATCCAATACCACAAAGACACAAAAGGGAAAGGTTTAAGTCGCAACGACGAACCT
*
13040 TGTACCACAAAGACATGAAG
128 AGTACCACAAAGACATGAAG
** * * *
13060 GGAAAGATTTAAGCCACAAAGGCGAATCCACTACCACAGAGACATAAAGGGAAAGATTTAAGCCG
1 GGAAAGATTTAAG-TGCAACGACGAATCCAGTACCACAGAGACATAAAGGGAAAGATTTAAGCCG
* * *
13125 CAACGGCGGATCCAATACCACAAAGATACAAAAGGGAAAGGTTTAAGTCGCAACGACGAACCTAG
65 CAACGACGAATCCAATACCACAAAGACACAAAAGGGAAAGGTTTAAGTCGCAACGACGAACCTAG
* *
13190 TACCTCAGAGACATGAAG
130 TACCACAAAGACATGAAG
* * * * * *
13208 GGAAAGATTTAAGATGCAACGATGAATCTAGTACCGC-GAAGACATAAGGGGAAGGATTTAAGTC
1 GGAAAGATTTAAG-TGCAACGACGAATCCAGTACCACAG-AGACATAAAGGGAAAGATTTAAGCC
13272 GCAA
64 GCAA
13276 TGGCAAAACT
Statistics
Matches: 177, Mismatches: 35, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
147 1 0.01
148 173 0.98
149 3 0.02
ACGTcount: A:0.41, C:0.19, G:0.24, T:0.16
Consensus pattern (147 bp):
GGAAAGATTTAAGTGCAACGACGAATCCAGTACCACAGAGACATAAAGGGAAAGATTTAAGCCGC
AACGACGAATCCAATACCACAAAGACACAAAAGGGAAAGGTTTAAGTCGCAACGACGAACCTAGT
ACCACAAAGACATGAAG
Found at i:14344 original size:3 final size:3
Alignment explanation
Indices: 14336--14411 Score: 82
Period size: 3 Copynumber: 25.0 Consensus size: 3
14326 AGTAGGGCAC
* *
14336 TAA TAA TAA TAA TTAA TAA TAA TAA TAAA TAA TAT TAA TAA CAA TAA
1 TAA TAA TAA TAA -TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
* **
14383 TAA TAA TAC TTT TAA TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
14412 AAAATCTGAA
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
2 2 0.03
3 53 0.87
4 6 0.10
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:14979 original size:28 final size:30
Alignment explanation
Indices: 14932--15304 Score: 178
Period size: 29 Copynumber: 12.7 Consensus size: 30
14922 GAGGTCCTTA
*
14932 AACTATCCAAAAATTACATTTTT-ACCCTCG
1 AACTTTCC-AAAATTACATTTTTGACCCTCG
* *
14962 AACATTCC-AAATTCCATTTTTGA-CCTCG
1 AACTTTCCAAAATTACATTTTTGACCCTCG
* * * *
14990 -ATTTTCCAAAAATTACATTTCT-ACCCCCA
1 AACTTTCC-AAAATTACATTTTTGACCCTCG
* *
15019 AACTTTCCAAAATTCCATTTTTAACCCT--
1 AACTTTCCAAAATTACATTTTTGACCCTCG
* *
15047 AATTTTCCAAAAATTACATTTTT-ACCCTTG
1 AACTTTCC-AAAATTACATTTTTGACCCTCG
15077 AACTTTCCAAAATT-CTATTTTTGACCC-C-
1 AACTTTCCAAAATTAC-ATTTTTGACCCTCG
* **
15105 AATTTTTCCAAAAATTACCA-TTTT-ACCCTTA
1 AA-CTTTCC-AAAATTA-CATTTTTGACCCTCG
* *
15136 AACTTTCCAAAGTTCCATTTTTGA-CCTCG
1 AACTTTCCAAAATTACATTTTTGACCCTCG
** * *
15165 ATTTTTCCAAAAATGACCA-TTTT-ACCC-CC
1 AACTTTCC-AAAATTA-CATTTTTGACCCTCG
* * *
15194 AACTTCCCAAAACTCCATTTTTGACCC-CG
1 AACTTTCCAAAATTACATTTTTGACCCTCG
* * *
15223 ATTCTTTCAAAAAGTACCATTTTT-ACCCTCG
1 A-ACTTTCCAAAATTA-CATTTTTGACCCTCG
* * * * *
15254 GA-TGTCTAAAAATTCCA-TTTTGACCC-CC
1 AACTTTC-CAAAATTACATTTTTGACCCTCG
*
15282 AACTTTCCCAGAATTACCATTTT
1 AACTTT-CCAAAATTA-CATTTT
15305 GGCCTCGAGT
Statistics
Matches: 257, Mismatches: 53, Indels: 65
0.69 0.14 0.17
Matches are distributed among these distances:
27 7 0.03
28 49 0.19
29 108 0.42
30 75 0.29
31 17 0.07
32 1 0.00
ACGTcount: A:0.31, C:0.28, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTCCAAAATTACATTTTTGACCCTCG
Found at i:15140 original size:59 final size:59
Alignment explanation
Indices: 14937--15252 Score: 367
Period size: 58 Copynumber: 5.4 Consensus size: 59
14927 CCTTAAACTA
* * *
14937 TCCAAAAATTACATTTTTACCCTCGAACATTCC-AAATTCCATTTTTGACCTCGA-TTT
1 TCCAAAAATTACATTTTTACCCTCAAACTTTCCAAAATTCCATTTTTGACCCCGATTTT
* * * * *
14994 TCCAAAAATTACATTTCTACCCCCAAACTTTCCAAAATTCCATTTTT-AACCCTAATTT
1 TCCAAAAATTACATTTTTACCCTCAAACTTTCCAAAATTCCATTTTTGACCCCGATTTT
** * *
15052 TCCAAAAATTACATTTTTACCCTTGAACTTTCCAAAATTCTATTTTTGACCCCAATTTT
1 TCCAAAAATTACATTTTTACCCTCAAACTTTCCAAAATTCCATTTTTGACCCCGATTTT
* * *
15111 TCCAAAAATTACCA-TTTTACCCTTAAACTTTCCAAAGTTCCATTTTTGACCTCGATTTT
1 TCCAAAAATTA-CATTTTTACCCTCAAACTTTCCAAAATTCCATTTTTGACCCCGATTTT
* * * *
15170 TCCAAAAATGACCA-TTTTACCC-CCAACTTCCCAAAACTCCATTTTTGACCCCGATTCTT
1 TCCAAAAATTA-CATTTTTACCCTCAAACTTTCCAAAATTCCATTTTTGACCCCGATT-TT
*
15229 T-CAAAAAGTACCATTTTTACCCTC
1 TCCAAAAATTA-CATTTTTACCCTC
15253 GGATGTCTAA
Statistics
Matches: 223, Mismatches: 29, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
57 33 0.15
58 96 0.43
59 91 0.41
60 3 0.01
ACGTcount: A:0.31, C:0.28, G:0.04, T:0.37
Consensus pattern (59 bp):
TCCAAAAATTACATTTTTACCCTCAAACTTTCCAAAATTCCATTTTTGACCCCGATTTT
Found at i:15144 original size:117 final size:118
Alignment explanation
Indices: 14937--15252 Score: 403
Period size: 117 Copynumber: 2.7 Consensus size: 118
14927 CCTTAAACTA
* *
14937 TCCAAAAATTACATTTTTACCCTCGAACATTCC-AAATTCCATTTTTGACCTCGA-TTTTCCAAA
1 TCCAAAAATTACATTTTTACCCTCGAACTTTCCAAAATTCCATTTTTGACCCCGATTTTTCCAAA
* *
15000 AATTA-CATTTCTACCCCCAAACTTTCCAAAATTCCATTTTTAACC-CTAATTT
66 AATTACCATTT-TACCCTCAAACTTTCCAAAATTCCATTTTTAACCTCGAATTT
* * *
15052 TCCAAAAATTACATTTTTACCCTTGAACTTTCCAAAATTCTATTTTTGACCCCAATTTTTCCAAA
1 TCCAAAAATTACATTTTTACCCTCGAACTTTCCAAAATTCCATTTTTGACCCCGATTTTTCCAAA
* * * *
15117 AATTACCATTTTACCCTTAAACTTTCCAAAGTTCCATTTTTGACCTCGATTTT
66 AATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCTCGAATTT
* * * *
15170 TCCAAAAATGACCA-TTTTACCC-CCAACTTCCCAAAACTCCATTTTTGACCCCGATTCTTT-CA
1 TCCAAAAATTA-CATTTTTACCCTCGAACTTTCCAAAATTCCATTTTTGACCCCGATT-TTTCCA
*
15232 AAAAGTACCATTTTTACCCTC
64 AAAATTACCA-TTTTACCCTC
15253 GGATGTCTAA
Statistics
Matches: 174, Mismatches: 20, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
115 31 0.18
116 18 0.10
117 83 0.48
118 40 0.23
119 2 0.01
ACGTcount: A:0.31, C:0.28, G:0.04, T:0.37
Consensus pattern (118 bp):
TCCAAAAATTACATTTTTACCCTCGAACTTTCCAAAATTCCATTTTTGACCCCGATTTTTCCAAA
AATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCTCGAATTT
Found at i:21177 original size:20 final size:20
Alignment explanation
Indices: 21140--21178 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
21130 ATAGACAACA
*
21140 AAATAATAAAATACATAAAT
1 AAATAATAAAATAAATAAAT
21160 AAATAAT-AAATAAAATAAA
1 AAATAATAAAAT-AAATAAA
21179 AATGGGGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (20 bp):
AAATAATAAAATAAATAAAT
Found at i:21181 original size:11 final size:12
Alignment explanation
Indices: 21144--21181 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
21134 ACAACAAAAT
21144 AATAAAATACATA
1 AATAAAATA-ATA
21157 AAT-AAATAATA
1 AATAAAATAATA
21168 AATAAAATAA-A
1 AATAAAATAATA
21179 AAT
1 AAT
21182 GGGGATATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 10 0.42
12 11 0.46
13 3 0.12
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (12 bp):
AATAAAATAATA
Found at i:22991 original size:50 final size:50
Alignment explanation
Indices: 22895--23000 Score: 133
Period size: 50 Copynumber: 2.1 Consensus size: 50
22885 GACCTCAGGA
* * * *
22895 AGATAGGATTCGATGTTGTAGCTTTATCCTTCTCAATTATATCTTTATGG
1 AGATAAGATTCGATGTTGTAGCTTTATCCTTCTCAATTACAACTTTAGGG
* * *
22945 AGATAAGATTTGATGTTGTAGCTTTAT-CTTGCTCCATTGCAACTTTAGGG
1 AGATAAGATTCGATGTTGTAGCTTTATCCTT-CTCAATTACAACTTTAGGG
22995 AGATAA
1 AGATAA
23001 ATATTTTCTT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
49 3 0.06
50 45 0.94
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.41
Consensus pattern (50 bp):
AGATAAGATTCGATGTTGTAGCTTTATCCTTCTCAATTACAACTTTAGGG
Found at i:25936 original size:39 final size:38
Alignment explanation
Indices: 25882--25956 Score: 141
Period size: 39 Copynumber: 1.9 Consensus size: 38
25872 GAGACACCGT
25882 GCACGATGGCCAGGTAAGTCAAAAATCTCTTTTTTTAA
1 GCACGATGGCCAGGTAAGTCAAAAATCTCTTTTTTTAA
25920 NGCACGATGGCCAGGTAAGTCAAAAATCTCTTTTTTT
1 -GCACGATGGCCAGGTAAGTCAAAAATCTCTTTTTTT
25957 TTTAAAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.32
Consensus pattern (38 bp):
GCACGATGGCCAGGTAAGTCAAAAATCTCTTTTTTTAA
Found at i:27133 original size:48 final size:48
Alignment explanation
Indices: 27053--27183 Score: 199
Period size: 48 Copynumber: 2.7 Consensus size: 48
27043 GGAAGACGGA
* * * *
27053 TTTGGTCCACTTCTCTGTATCTTATCAGGAGGATGACTTCTTTATTGC
1 TTTGATCCACTTCTCTGTATCTCATCAAGAGGATGACCTCTTTATTGC
27101 TTTGATCCACTTCTCTGTATCTCATCAAGAGGATGACCTCTTTATTGC
1 TTTGATCCACTTCTCTGTATCTCATCAAGAGGATGACCTCTTTATTGC
* * *
27149 TTTGACCCACTTCTCTGTATATCATCAAGAAGATG
1 TTTGATCCACTTCTCTGTATCTCATCAAGAGGATG
27184 GAGTTTGAAG
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 76 1.00
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.40
Consensus pattern (48 bp):
TTTGATCCACTTCTCTGTATCTCATCAAGAGGATGACCTCTTTATTGC
Found at i:27534 original size:209 final size:208
Alignment explanation
Indices: 27101--27949 Score: 1132
Period size: 209 Copynumber: 4.1 Consensus size: 208
27091 TCTTTATTGC
* * *
27101 TTTGATCCACTTCTCTGTATCTCATCAAGAGGATGACCTCTTTATTGCTTTGACCCACTTCTCTG
1 TTTGATTCACTTCTCTGTATCTCATCAAGAAGATGACCACTTTATTGCTTTGACCCACTTCTCTG
* * ** ** * * *
27166 TATATCATCAAGAAGAT-GGAGTTTGAAGTTTTGCTCGTATTGAGCTTTGTTTCATTGATTTGGT
66 TATCTCATCAGGAAGATGGGAGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCATTAATTTGGT
* * * * *
27230 CTACTTCTCTGTATCTTATCAGAAAGATGATCGCCTCATTGATCTAATCCACTTCTCTGTATCTC
131 CTACTTCTCAGTAT-TTATCAGGAAGATGACCGCCTCATTGTTTTAATCCACTTCTCTGTATCTC
* *
27295 ATCAGGAAGATGGGG
195 ATCAGGAAGA-CGGA
* *
27310 TTTGATTCACTTCTCTGTATCTCATCAAGAA-AGTGACCACTTTATTGCTTTTACCTACTTCTCT
1 TTTGATTCACTTCTCTGTATCTCATCAAGAAGA-TGACCACTTTATTGCTTTGACCCACTTCTCT
* *
27374 ATATCTCATCAGGAAGATGAGAGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCATTAATTTGG
65 GTATCTCATCAGGAAGATGGGAGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCATTAATTTGG
27439 TCTACTTCTCAGTATTTCATCAGGAAGATGACCGCCTCATTGTTTTAA-CTCACTTCTCTGTATC
130 TCTACTTCTCAGTATTT-ATCAGGAAGATGACCGCCTCATTGTTTTAATC-CACTTCTCTGTATC
*
27503 TCATCAAGAAGACGGA
193 TCATCAGGAAGACGGA
* * *
27519 TTTGGTTCACTTCTCTGTATCTCATCAGGAAGGTGACCACTTTATTGCTTTGACCCACTTCTCTG
1 TTTGATTCACTTCTCTGTATCTCATCAAGAAGATGACCACTTTATTGCTTTGACCCACTTCTCTG
* * * *
27584 TATCTCATCAGGAAGATGGGGGTTTGAAGTTTCGCTAACATTGAGCTTCGCTTCATTGATTTGGT
66 TATCTCATCAGGAAGATGGGAGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCATTAATTTGGT
* * * * *
27649 CTACTTCTTAGTATCTCATCAGGAAGATGACCGCCTCATTATTTTAATTCACTTCTCTGTATCTA
131 CTACTTCTCAGTAT-TTATCAGGAAGATGACCGCCTCATTGTTTTAATCCACTTCTCTGTATCTC
27714 ATCAGGAAGACGGA
195 ATCAGGAAGACGGA
** * *
27728 TTTGATTCACTTCTCTGCGTCTCGTCAAGAAGATGACCACTTTATTGCTTCGACCCACTTCTCTG
1 TTTGATTCACTTCTCTGTATCTCATCAAGAAGATGACCACTTTATTGCTTTGACCCACTTCTCTG
* * *
27793 TATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTTACATTGAGCTTCACTTCA-TAGATTTGG
66 TATCTCATCAGGAAGATGGGAGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCATTA-ATTTGG
* * * * *
27857 TTTACTTCTCTA-TAACTTATCAAGAAGATGACTGCCTCATTGTTTTAATCCACTTCTCTATATC
130 TCTACTTCTC-AGT-ATTTATCAGGAAGATGACCGCCTCATTGTTTTAATCCACTTCTCTGTATC
*
27921 TCATCAGGAAGATGGA
193 TCATCAGGAAGACGGA
*
27937 TTTGGTTCACTTC
1 TTTGATTCACTTC
27950 ACTCAATTGC
Statistics
Matches: 566, Mismatches: 64, Indels: 20
0.87 0.10 0.03
Matches are distributed among these distances:
208 2 0.00
209 458 0.81
210 106 0.19
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (208 bp):
TTTGATTCACTTCTCTGTATCTCATCAAGAAGATGACCACTTTATTGCTTTGACCCACTTCTCTG
TATCTCATCAGGAAGATGGGAGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCATTAATTTGGT
CTACTTCTCAGTATTTATCAGGAAGATGACCGCCTCATTGTTTTAATCCACTTCTCTGTATCTCA
TCAGGAAGACGGA
Found at i:27578 original size:85 final size:85
Alignment explanation
Indices: 27433--27599 Score: 228
Period size: 85 Copynumber: 2.0 Consensus size: 85
27423 CGCTTCATTA
* * * *
27433 ATTTGGTCTACTTCTCAGTATTTCATCAGGAAGATGACCGCCTCATTGTTTTAACTCACTTCTCT
1 ATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCACCTCATTGCTTTAACCCACTTCTCT
27498 GTATCTCATCAAGAAGACGG
66 GTATCTCATCAAGAAGACGG
* * * * *
27518 ATTTGGT-TCACTTCTCTGTATCTCATCAGGAAGGTGACCACTTTATTGCTTTGACCCACTTCTC
1 ATTTGGTCT-ACTTCTCAGTATCTCATCAGGAAGATGACCACCTCATTGCTTTAACCCACTTCTC
*
27582 TGTATCTCATCAGGAAGA
65 TGTATCTCATCAAGAAGA
27600 TGGGGGTTTG
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
84 1 0.01
85 70 0.99
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (85 bp):
ATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCACCTCATTGCTTTAACCCACTTCTCT
GTATCTCATCAAGAAGACGG
Found at i:40681 original size:24 final size:24
Alignment explanation
Indices: 40637--40682 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
40627 TCATGTGGGA
* *
40637 GTTGTCATTGGTAGTCTATTCAGT
1 GTTGTCAATGGTAGTCCATTCAGT
40661 GTTGTCAATGGTAG-CACATTCA
1 GTTGTCAATGGTAGTC-CATTCA
40683 AAGCAGAACC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 1 0.05
24 18 0.95
ACGTcount: A:0.22, C:0.15, G:0.24, T:0.39
Consensus pattern (24 bp):
GTTGTCAATGGTAGTCCATTCAGT
Found at i:48897 original size:409 final size:410
Alignment explanation
Indices: 48132--48949 Score: 1480
Period size: 409 Copynumber: 2.0 Consensus size: 410
48122 GACATCTTTG
* *
48132 AACTTTTGAAGCAACTCGATAAGATCTTTTCTGGTTTCTACGGAGATGCTTGTCCCAATTTTCAC
1 AACTCTTGAAGCAACTCAATAAGATCTTTTCTGGTTTCTACGGAGATGCTTGTCCCAATTTTCAC
* *
48197 TTCTTTCTTTTCATCTTCATTCTCCAAACTTATAACTTCCACCGATTCTTTATGAGGGAGGATTT
66 TTCTTTCTTTTCATCTTCATTCCCCAAACTTATAACTTCCACCGATTCTTTATGAGGCAGGATTT
*
48262 TTTTTTTCTTCTTACTCCACCATCCTTAACAAATTAGGAGACAACTTACAATCCTGACATTTTCA
131 TGTTTTTCTTCTTACTCCACCATCCTTAACAAATTAGGAGACAACTTACAATCCTGACATTTTCA
48327 AAGTCCTGAAGTTCTTCTAAACACATATCTTGCTCAAAATGAGGCTCTAAGTTAGCATCAGTGTT
196 AAGTCCTGAAGTTCTTCTAAACACATATCTTGCTCAAAATGAGGCTCTAAGTTAGCATCAGTGTT
* *
48392 ACTCATATCATTTATATCCAAGGACCTGTCAAAGGAGTAAAAAATGTCCAAAGAATAAAATAAAT
261 ACTCATATCATTGATATCCAAGGACCTGTCAAAGGAGTAAAAAATGTCCAAAAAATAAAATAAAT
*
48457 TTACGAATGAATGATTGTATGGTATGAGTATAAATGTTTGTCAAATTGGACAAGAATGTATGTAT
326 TTACGAATGAATAATTGTATGGTATGAGTATAAATGTTTGTCAAATTGGACAAGAATGTATGTAT
48522 TTAAAGAATGATCAATTTTA
391 TTAAAGAATGATCAATTTTA
* *
48542 AACTCTTGAAGCAACTCAATAAGATTTTTTCTGGTTTCTACGGAGATGTTTGTCCCAATTTTCAC
1 AACTCTTGAAGCAACTCAATAAGATCTTTTCTGGTTTCTACGGAGATGCTTGTCCCAATTTTCAC
48607 TTCTTTCTTTTCATCTTCATTCCCCAAACTTATAACTTCCACCGATTCTTTATGAGGCAGGA-TT
66 TTCTTTCTTTTCATCTTCATTCCCCAAACTTATAACTTCCACCGATTCTTTATGAGGCAGGATTT
*
48671 TGTTTTTCTTCTTGCTCCACCATCCTTAACAAATTAGGAGACAACTTACAATCCTGATCATCTTT
131 TGTTTTTCTTCTTACTCCACCATCCTTAACAAATTAGGAGACAACTTACAATCCTGA-CAT-TTT
*
48736 -AAAGTCCTG-AGTTCTTCTAAACACATATCTTGCTCAAAATGAGGCTTTAAGTTAGCATCAGTG
194 CAAAGTCCTGAAGTTCTTCTAAACACATATCTTGCTCAAAATGAGGCTCTAAGTTAGCATCAGTG
48799 TTACTCATATCATTGATATCCAAGGACCTGTCAAAGGAGTAAAAAATGTCCAAAAAATAAAATAA
259 TTACTCATATCATTGATATCCAAGGACCTGTCAAAGGAGTAAAAAATGTCCAAAAAATAAAATAA
*
48864 ATTTACGAATGAATAATTGTATGGTATGAGTATAAATGTTTGTCAAATTGGACAATAATGTATGT
324 ATTTACGAATGAATAATTGTATGGTATGAGTATAAATGTTTGTCAAATTGGACAAGAATGTATGT
48929 ATTTAAAGAATGATCAATTTT
389 ATTTAAAGAATGATCAATTTT
48950 GTATCTGAAA
Statistics
Matches: 393, Mismatches: 13, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
409 257 0.65
410 133 0.34
411 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (410 bp):
AACTCTTGAAGCAACTCAATAAGATCTTTTCTGGTTTCTACGGAGATGCTTGTCCCAATTTTCAC
TTCTTTCTTTTCATCTTCATTCCCCAAACTTATAACTTCCACCGATTCTTTATGAGGCAGGATTT
TGTTTTTCTTCTTACTCCACCATCCTTAACAAATTAGGAGACAACTTACAATCCTGACATTTTCA
AAGTCCTGAAGTTCTTCTAAACACATATCTTGCTCAAAATGAGGCTCTAAGTTAGCATCAGTGTT
ACTCATATCATTGATATCCAAGGACCTGTCAAAGGAGTAAAAAATGTCCAAAAAATAAAATAAAT
TTACGAATGAATAATTGTATGGTATGAGTATAAATGTTTGTCAAATTGGACAAGAATGTATGTAT
TTAAAGAATGATCAATTTTA
Found at i:60200 original size:27 final size:25
Alignment explanation
Indices: 60144--60193 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
60134 ATAAAAAACC
* * *
60144 AAAACATATAATTTTTAGAAATTAA
1 AAAATATATAATATTTAAAAATTAA
60169 AAAATATATATATATTTAAAAATTA
1 AAAATATATA-ATATTTAAAAATTA
60194 TGAAAATTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (25 bp):
AAAATATATAATATTTAAAAATTAA
Found at i:61360 original size:9 final size:9
Alignment explanation
Indices: 61348--61395 Score: 50
Period size: 8 Copynumber: 5.7 Consensus size: 9
61338 AAATTTCTTG
61348 TATTTTTTA
1 TATTTTTTA
61357 TA-TTTTTA
1 TATTTTTTA
*
61365 GGATTTTTTA
1 -TATTTTTTA
61375 -A-TTTTTA
1 TATTTTTTA
61382 -ATTTTTTA
1 TATTTTTTA
61390 TATTTT
1 TATTTT
61396 AAAGGAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
7 7 0.21
8 13 0.38
9 8 0.24
10 6 0.18
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.73
Consensus pattern (9 bp):
TATTTTTTA
Found at i:61404 original size:27 final size:27
Alignment explanation
Indices: 61374--61425 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
61364 AGGATTTTTT
*
61374 AATTTTTAATTTTTTATATTTTAAAGG
1 AATTTTGAATTTTTTATATTTTAAAGG
* * *
61401 AATTTTGATTTTTTTTTTTTTTAAA
1 AATTTTGAATTTTTTATATTTTAAA
61426 TGTGGCAGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (27 bp):
AATTTTGAATTTTTTATATTTTAAAGG
Found at i:61421 original size:33 final size:33
Alignment explanation
Indices: 61349--61413 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
61339 AATTTCTTGT
* *
61349 ATTTTTTATATTTTTAGGATTTTTTAATTTTTA
1 ATTTTTTATATTTTAAGGATATTTTAATTTTTA
*
61382 ATTTTTTATATTTTAAAGGA-ATTTTGATTTTT
1 ATTTTTTATATTTT-AAGGATATTTTAATTTTT
61414 TTTTTTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 24 0.86
34 4 0.14
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.66
Consensus pattern (33 bp):
ATTTTTTATATTTTAAGGATATTTTAATTTTTA
Found at i:63143 original size:2 final size:2
Alignment explanation
Indices: 63136--63164 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
63126 TAAAAGTTTA
63136 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 A
63165 AACGTAACGT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:65540 original size:97 final size:96
Alignment explanation
Indices: 65364--65551 Score: 245
Period size: 97 Copynumber: 1.9 Consensus size: 96
65354 TGGAAAATGA
* * * * *
65364 TATTTGATTATCTCGATTGAAGAAAAGTCGCACCTAGTAAGTTAAGGCACAAATTTTCAGAATTA
1 TATTCGATTATCTCGATTGAAGAAAAATCGCACCTAATAAGTTAAGGCACAAATTTTCAAAACTA
*
65429 CAGATAAAGAAATATTGCCTCGATTTAAGGG
66 CAAATAAAGAAATATTGCCTCGATTTAAGGG
* * *
65460 TATTCGATTATTTCGATTTGAGGAAAAATTGCACCTAATAAGTTAAGGCACAAATTTTCAAAACT
1 TATTCGATTATCTCGA-TTGAAGAAAAATCGCACCTAATAAGTTAAGGCACAAATTTTCAAAACT
*
65525 -CGAAATAAA-ATAATATTGTCTCGATTT
65 AC-AAATAAAGA-AATATTGCCTCGATTT
65552 TAAAGTTTTC
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
96 16 0.20
97 63 0.80
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.32
Consensus pattern (96 bp):
TATTCGATTATCTCGATTGAAGAAAAATCGCACCTAATAAGTTAAGGCACAAATTTTCAAAACTA
CAAATAAAGAAATATTGCCTCGATTTAAGGG
Found at i:65853 original size:29 final size:29
Alignment explanation
Indices: 65807--65948 Score: 121
Period size: 29 Copynumber: 4.8 Consensus size: 29
65797 TTAGACATTT
* * *
65807 AGGGTAAATTGGTAATTTTGGGAAAGTTTG
1 AGGGTAAAATGG-AATTTTTGGAAAGTTCG
* * *
65837 -GGGTCAAAATGGAATTTATAGACA-TTCG
1 AGGGT-AAAATGGAATTTTTGGAAAGTTCG
* *
65865 AGGGTAAAATGGTAATTTTTAGAAAGTTTG
1 AGGGTAAAATGG-AATTTTTGGAAAGTTCG
65895 -GGGTCAAAAATGGAATTTTTGG-AAGTTCG
1 AGGGT--AAAATGGAATTTTTGGAAAGTTCG
*
65924 AGGGTAAAATGATAATTTTTGGAAA
1 AGGGTAAAATG-GAATTTTTGGAAA
65949 AAATTAGGGT
Statistics
Matches: 91, Mismatches: 12, Indels: 18
0.75 0.10 0.15
Matches are distributed among these distances:
28 16 0.18
29 45 0.49
30 23 0.25
31 7 0.08
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.33
Consensus pattern (29 bp):
AGGGTAAAATGGAATTTTTGGAAAGTTCG
Found at i:65881 original size:58 final size:57
Alignment explanation
Indices: 65780--65948 Score: 218
Period size: 59 Copynumber: 2.9 Consensus size: 57
65770 TGGATACCCA
* * *
65780 GGGG-CAAAATGGTAATTTTAGACATT-TAGGGTAAATTGGTAATTTTGGGAAAGTTT
1 GGGGTCAAAATGG-AATTTTAGACATTCGAGGGTAAAATGGTAATTTTTGGAAAGTTT
*
65836 GGGGTCAAAATGGAATTTATAGACATTCGAGGGTAAAATGGTAATTTTTAGAAAGTTT
1 GGGGTCAAAATGGAATTT-TAGACATTCGAGGGTAAAATGGTAATTTTTGGAAAGTTT
* *
65894 GGGGTCAAAAATGGAATTTTTGGA-AGTTCGAGGGTAAAATGATAATTTTTGGAAA
1 GGGGTC-AAAATGGAA-TTTTAGACA-TTCGAGGGTAAAATGGTAATTTTTGGAAA
65949 AAATTAGGGT
Statistics
Matches: 100, Mismatches: 7, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
56 9 0.09
57 16 0.16
58 33 0.33
59 39 0.39
60 3 0.03
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.33
Consensus pattern (57 bp):
GGGGTCAAAATGGAATTTTAGACATTCGAGGGTAAAATGGTAATTTTTGGAAAGTTT
Found at i:65934 original size:59 final size:59
Alignment explanation
Indices: 65807--66065 Score: 256
Period size: 58 Copynumber: 4.4 Consensus size: 59
65797 TTAGACATTT
* * ** * *
65807 AGGGTAAATTGGTAATTTTGGGAAAGTTTGGGGTC-AAAATGGAATTTATAGACA-TTCG
1 AGGGTAAAATGGTAATTTTTGGAAAAATTGGGGTCAAAAATGGAATTTTTGGA-AGTTCG
* **
65865 AGGGTAAAATGGTAATTTTTAGAAAGTTTGGGGTCAAAAATGGAATTTTTGGAAGTTCG
1 AGGGTAAAATGGTAATTTTTGGAAAAATTGGGGTCAAAAATGGAATTTTTGGAAGTTCG
* * * *
65924 AGGGTAAAATGATAATTTTTGGAAAAAATTAGGGTCAAAAAATAGAGTTTTTGGAAGTTCG
1 AGGGTAAAATGGTAATTTTTGG-AAAAATTGGGGTC-AAAAATGGAATTTTTGGAAGTTCG
* * * * *
65985 GGGGGAAAATGGTAA-TTTTGGAAAAATCGGGGTCAAAAA-GTGAAATTTTGGAAGATCG
1 AGGGTAAAATGGTAATTTTTGGAAAAATTGGGGTCAAAAATG-GAATTTTTGGAAGTTCG
* ** *
66043 GGGGTAAAAAAGTAATTCTTGGA
1 AGGGTAAAATGGTAATTTTTGGA
66066 TAGTTTAAGG
Statistics
Matches: 170, Mismatches: 25, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
58 64 0.38
59 56 0.33
60 16 0.09
61 34 0.20
ACGTcount: A:0.37, C:0.04, G:0.29, T:0.30
Consensus pattern (59 bp):
AGGGTAAAATGGTAATTTTTGGAAAAATTGGGGTCAAAAATGGAATTTTTGGAAGTTCG
Found at i:66014 original size:29 final size:29
Alignment explanation
Indices: 65982--66065 Score: 80
Period size: 29 Copynumber: 2.9 Consensus size: 29
65972 TTTTGGAAGT
* *
65982 TCGGGGGGAAAATGGTAATTTTGGAAAAA
1 TCGGGGGCAAAAAGGTAATTTTGGAAAAA
* * *
66011 TCGGGGTCAAAAAGTGAAATTTTGG-AAGA
1 TCGGGGGCAAAAAG-GTAATTTTGGAAAAA
* *
66040 TCGGGGGTAAAAAAGTAATTCTTGGA
1 TCGGGGGCAAAAAGGTAATT-TTGGA
66066 TAGTTTAAGG
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
28 5 0.12
29 29 0.67
30 9 0.21
ACGTcount: A:0.37, C:0.06, G:0.32, T:0.25
Consensus pattern (29 bp):
TCGGGGGCAAAAAGGTAATTTTGGAAAAA
Found at i:66034 original size:30 final size:30
Alignment explanation
Indices: 65998--66055 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
65988 GGAAAATGGT
*
65998 AATTTTGGAAAAATC-GGGGTCAAAAAGTGA
1 AATTTTGG-AAAATCGGGGGTAAAAAAGTGA
*
66028 AATTTTGGAAGATCGGGGGTAAAAAAGT
1 AATTTTGGAAAATCGGGGGTAAAAAAGT
66056 AATTCTTGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.41, C:0.05, G:0.29, T:0.24
Consensus pattern (30 bp):
AATTTTGGAAAATCGGGGGTAAAAAAGTGA
Found at i:67965 original size:17 final size:16
Alignment explanation
Indices: 67938--67985 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 16
67928 GTTCAAAATT
67938 ATTTCAAATTTAAACTAA
1 ATTT-AAATTTAAAC-AA
67956 ATTTAAATTTAAAACAA
1 ATTTAAATTT-AAACAA
67973 ATTTAAATTTAAA
1 ATTTAAATTTAAA
67986 TTTAAAGTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.10
17 18 0.62
18 8 0.28
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (16 bp):
ATTTAAATTTAAACAA
Found at i:67996 original size:17 final size:17
Alignment explanation
Indices: 67976--68008 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
67966 AAAACAAATT
67976 TAAATTTAAATTTAAAG
1 TAAATTTAAATTTAAAG
67993 TAAATTTAAATTTAAA
1 TAAATTTAAATTTAAA
68009 AATAAATCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (17 bp):
TAAATTTAAATTTAAAG
Found at i:68014 original size:23 final size:23
Alignment explanation
Indices: 67953--68008 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
67943 AAATTTAAAC
67953 TAAATTTAAATTTAAAACAAATT
1 TAAATTTAAATTTAAAACAAATT
**
67976 TAAATTTAAATTTAAAGTAAATT
1 TAAATTTAAATTTAAAACAAATT
67999 TAAATTTAAA
1 TAAATTTAAA
68009 AATAAATCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (23 bp):
TAAATTTAAATTTAAAACAAATT
Found at i:68020 original size:6 final size:6
Alignment explanation
Indices: 67911--68008 Score: 80
Period size: 6 Copynumber: 16.8 Consensus size: 6
67901 GACTTTGAAA
* * * *
67911 TTAAAT TTAAAGT TTAAGT TCAAAA TT--AT TTCAAAT TTAAA- CTAAAT
1 TTAAAT TTAAA-T TTAAAT TTAAAT TTAAAT TT-AAAT TTAAAT TTAAAT
** *
67958 TTAAAT TTAAA- ACAAAT TTAAAT TTAAAT TTAAA- GTAAAT TTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
68004 TTAAA
1 TTAAA
68009 AATAAATCTA
Statistics
Matches: 71, Mismatches: 14, Indels: 14
0.72 0.14 0.14
Matches are distributed among these distances:
4 3 0.04
5 11 0.15
6 48 0.68
7 9 0.13
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (6 bp):
TTAAAT
Found at i:68767 original size:147 final size:146
Alignment explanation
Indices: 68595--69027 Score: 516
Period size: 146 Copynumber: 2.9 Consensus size: 146
68585 TTTGTTTTAT
* * *
68595 GGTACTAGGTTCGCCATTGCGACTTATACCTTTTCCTT-TGTCTTTGTGGTACTAGATCCACCGT
1 GGTACTAGGTTCGCCATTGCGACTTAAACCTTTCCCTTGTGTCTTTGTGGTACTAGATCTACCGT
* * * *
68659 TGTAGCTTAGATCATTCCCTTCATGTCTTTGTGGTACTGGATTCACCGTTGCGGCTTTAAATCTT
66 TG-AGCTTAAATCTTTCCCTTCATGTCTTCGTGGTACTGGATTCGCCGTTGCGGC-TTAAATCTT
68724 TTCCCTTCAAGTCTCCGA
129 TTCCCTTCAAGTCTCCGA
* * * *
68742 GGTACTAGGTTCGCCATTTCGACTTAAACCTTTCCCTTCGTGTCTCTT-AGGTACTAGATTTTCC
1 GGTACTAGGTTCGCCATTGCGACTTAAACCTTTCCCTT-GTGTCT-TTGTGGTACTAGATCTACC
* * *
68806 ATTGCGACTTAAACCTTTCCCTT-ATGTCTTCGTGGTACTGGATTCGCCGTTGCGGCTTAAATC-
64 GTTGAG-CTTAAATCTTTCCCTTCATGTCTTCGTGGTACTGGATTCGCCGTTGCGGCTTAAATCT
* * **
68869 TTTCCCTTCATGTTTTTGA
128 TTTCCCTTCAAGTCTCCGA
* * * * *
68888 GGTACT-GGTTTCGTCATTGCGACTTAAACCTTTCCCTTTGTGTCTTCGTGGTACTGGATCTGCT
1 GGTACTAGG-TTCGCCATTGCGACTTAAACCTTTCCC-TTGTGTCTTTGTGGTACTAGATCTACC
* *
68952 GTTGCGGCTTAAATCTTTCCCTTCATGTCTTCGTGGTACTGGATTCGCCGTTGCGGCCTTAAATT
64 GTTG-AGCTTAAATCTTTCCCTTCATGTCTTCGTGGTACTGGATTCGCCGTTGCGG-CTTAAATC
*
69017 TTTTCCGTTCA
127 TTTTCCCTTCA
69028 TGTTTCACGA
Statistics
Matches: 244, Mismatches: 31, Indels: 20
0.83 0.11 0.07
Matches are distributed among these distances:
145 3 0.01
146 81 0.33
147 77 0.32
148 39 0.16
149 42 0.17
150 2 0.01
ACGTcount: A:0.15, C:0.25, G:0.20, T:0.40
Consensus pattern (146 bp):
GGTACTAGGTTCGCCATTGCGACTTAAACCTTTCCCTTGTGTCTTTGTGGTACTAGATCTACCGT
TGAGCTTAAATCTTTCCCTTCATGTCTTCGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTT
CCCTTCAAGTCTCCGA
Found at i:68873 original size:97 final size:97
Alignment explanation
Indices: 68474--69006 Score: 442
Period size: 98 Copynumber: 5.5 Consensus size: 97
68464 ATCCGGCGTT
* * * *
68474 GCTTAAA--TTTCCTTTCATG-CTTCTGAGGTACAAGGTTTGCCATTGCGACTTAAACCTTTCTC
1 GCTTAAATCTTTCCCTTCATGTCTT-TGAGGTACTAGATTTGCCATTGCGACTTAAACCTTTCCC
* * * * * *
68536 TTCGTATTTTCGCGGTACTGGATTTGCCATTGCG
65 TT-ATGTCTTCGTGGTACTGGATTCGCCGTTGCG
* * * * *
68570 GCTTAAATCTTT-CCTT-TTGT-TTT-ATGGTACTAGGTTCGCCATTGCGACTTATACCTTTTCC
1 GCTTAAATCTTTCCCTTCATGTCTTTGA-GGTACTAGATTTGCCATTGCGACTTAAACCTTTCCC
* * * * **
68631 TT-TGTCTTTGTGGTACTAGATCCACCGTTGTA
65 TTATGTCTTCGTGGTACTGGATTCGCCGTTGCG
* * * * ** * * *
68663 GCTTAGATCATTCCCTTCATGTCTTTGTGGTACTGGATTCACCGTTGCGGCTTTAAATCTTTTCC
1 GCTTAAATCTTTCCCTTCATGTCTTTGAGGTACTAGATTTGCCATTGCGAC-TTAAA-CCTTTCC
* * * * *
68728 CTTCAAGTCTCCGAGGTACTAGG-TTCGCCATTTCG
64 CTT-ATGTCTTCGTGGTACT-GGATTCGCCGTTGCG
* * * *
68763 ACTTAAACCTTTCCCTTCGTGTCTCTT-AGGTACTAGATTTTCCATTGCGACTTAAACCTTTCCC
1 GCTTAAATCTTTCCCTTCATGTCT-TTGAGGTACTAGATTTGCCATTGCGACTTAAACCTTTCCC
68827 TTATGTCTTCGTGGTACTGGATTCGCCGTTGCG
65 TTATGTCTTCGTGGTACTGGATTCGCCGTTGCG
* * *
68860 GCTTAAATCTTTCCCTTCATGTTTTTGAGGTACT-GGTTTCGTCATTGCGACTTAAACCTTTCCC
1 GCTTAAATCTTTCCCTTCATGTCTTTGAGGTACTAGATTT-GCCATTGCGACTTAAACCTTTCCC
* *
68924 TTTGTGTCTTCGTGGTACTGGA-TCTGCTGTTGCG
65 -TTATGTCTTCGTGGTACTGGATTC-GCCGTTGCG
* * * * *
68958 GCTTAAATCTTTCCCTTCATGTCTTCGTGGTACTGGATTCGCCGTTGCG
1 GCTTAAATCTTTCCCTTCATGTCTTTGAGGTACTAGATTTGCCATTGCG
69007 GCCTTAAATT
Statistics
Matches: 343, Mismatches: 74, Indels: 38
0.75 0.16 0.08
Matches are distributed among these distances:
93 29 0.08
94 5 0.01
95 37 0.11
96 40 0.12
97 81 0.24
98 86 0.25
99 8 0.02
100 54 0.16
101 3 0.01
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.41
Consensus pattern (97 bp):
GCTTAAATCTTTCCCTTCATGTCTTTGAGGTACTAGATTTGCCATTGCGACTTAAACCTTTCCCT
TATGTCTTCGTGGTACTGGATTCGCCGTTGCG
Found at i:69007 original size:49 final size:49
Alignment explanation
Indices: 68512--69030 Score: 401
Period size: 49 Copynumber: 10.6 Consensus size: 49
68502 TACAAGGTTT
* * * * * * * *
68512 GCCATTGCGACTTAAACCTTTCTCTTCGTATTTTCGCGGTACTGGATTT
1 GCCATTGCGGCTTAAATCTTTCCCTTCATGTCTTCGTGGTACTGGATTC
* **
68561 GCCATTGCGGCTTAAATCTTT-CCTT-TTGT-TTTATGGTACTAGG-TTC
1 GCCATTGCGGCTTAAATCTTTCCCTTCATGTCTTCGTGGTACT-GGATTC
* * * * * * *
68607 GCCATTGCGACTTATACCTTTTCCTT--TGTCTTTGTGGTACTAGATCC
1 GCCATTGCGGCTTAAATCTTTCCCTTCATGTCTTCGTGGTACTGGATTC
* * ** * * *
68654 ACCGTTGTAGCTTAGATCATTCCCTTCATGTCTTTGTGGTACTGGATTC
1 GCCATTGCGGCTTAAATCTTTCCCTTCATGTCTTCGTGGTACTGGATTC
* * * * *
68703 ACCGTTGCGGCTTTAAATCTTTTCCCTTCAAGTCTCCGAGGTACTAGG-TTC
1 GCCATTGCGGC-TTAAATC-TTTCCCTTCATGTCTTCGTGGTACT-GGATTC
* * * * * * *
68754 GCCATTTCGACTTAAACCTTTCCCTTCGTGTC-TCTTAGGTACTAGATTT
1 GCCATTGCGGCTTAAATCTTTCCCTTCATGTCTTCGT-GGTACTGGATTC
* * *
68803 TCCATTGCGACTTAAACCTTTCCCTT-ATGTCTTCGTGGTACTGGATTC
1 GCCATTGCGGCTTAAATCTTTCCCTTCATGTCTTCGTGGTACTGGATTC
* * * * *
68851 GCCGTTGCGGCTTAAATCTTTCCCTTCATGTTTTTGAGGTACTGGTTTC
1 GCCATTGCGGCTTAAATCTTTCCCTTCATGTCTTCGTGGTACTGGATTC
* * * **
68900 GTCATTGCGACTTAAACCTTTCCCTTTGTGTCTTCGTGGTACTGGA-TC
1 GCCATTGCGGCTTAAATCTTTCCCTTCATGTCTTCGTGGTACTGGATTC
**
68948 TGCTGTTGCGGCTTAAATCTTTCCCTTCATGTCTTCGTGGTACTGGATTC
1 -GCCATTGCGGCTTAAATCTTTCCCTTCATGTCTTCGTGGTACTGGATTC
* * *
68998 GCCGTTGCGGCCTTAAATTTTTTCCGTTCATGT
1 GCCATTGCGG-CTTAAA-TCTTTCCCTTCATGT
69031 TTCACGATAC
Statistics
Matches: 373, Mismatches: 80, Indels: 32
0.77 0.16 0.07
Matches are distributed among these distances:
46 32 0.09
47 37 0.10
48 43 0.12
49 196 0.53
50 20 0.05
51 43 0.12
52 2 0.01
ACGTcount: A:0.15, C:0.24, G:0.19, T:0.41
Consensus pattern (49 bp):
GCCATTGCGGCTTAAATCTTTCCCTTCATGTCTTCGTGGTACTGGATTC
Found at i:69487 original size:18 final size:18
Alignment explanation
Indices: 69461--69495 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
69451 AAAATTGTAG
* *
69461 AATATTTACATGGAACAA
1 AATAATTACAAGGAACAA
69479 AATAATTACAAGGAACA
1 AATAATTACAAGGAACA
69496 GTATTAGATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.11, G:0.11, T:0.23
Consensus pattern (18 bp):
AATAATTACAAGGAACAA
Found at i:80598 original size:28 final size:28
Alignment explanation
Indices: 80557--80628 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
80547 ATCGGAGTTT
* * *
80557 AAAATGAGATTTTTGGATACCCGAGGGC
1 AAAATGATAATTTTGGATACCCAAGGGC
**
80585 AAAATGATAATTTTGGATATTCAAGGGC
1 AAAATGATAATTTTGGATACCCAAGGGC
*
80613 AAAATGGTAATTTTGG
1 AAAATGATAATTTTGG
80629 GAAAGTTCGG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.36, C:0.08, G:0.25, T:0.31
Consensus pattern (28 bp):
AAAATGATAATTTTGGATACCCAAGGGC
Found at i:80715 original size:30 final size:29
Alignment explanation
Indices: 80668--80744 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 29
80658 GACATCTGGG
*
80668 GGTAAAATAGTAATTTTTAGAAAGTTCAG-
1 GGTAAAATGGTAATTTTT-GAAAGTTCAGA
* *
80697 GGTCAAAAATGG-AATTTTTGGAAGTTCGGA
1 GGT--AAAATGGTAATTTTTGAAAGTTCAGA
80727 GGTAAAATGGTAATTTTT
1 GGTAAAATGGTAATTTTT
80745 CAAAAAAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
28 7 0.17
29 18 0.44
30 10 0.24
31 6 0.15
ACGTcount: A:0.36, C:0.04, G:0.25, T:0.35
Consensus pattern (29 bp):
GGTAAAATGGTAATTTTTGAAAGTTCAGA
Found at i:80764 original size:59 final size:59
Alignment explanation
Indices: 80701--80857 Score: 176
Period size: 59 Copynumber: 2.7 Consensus size: 59
80691 GTTCAGGGTC
*
80701 AAAAATGGAATTTTTGGAAGTTCGGAGGTAAAATGGTAATTTTTCAAAAAAAT-TAGGT-A
1 AAAAATGGAATTTTTGGAAGTTCGGAGGTAAAATGGTAA-TTTT-AAAAAAATCAAGGTAA
* * * * **
80760 AAAAATGGAGTTTTTGGAAGTTCAGAAGTAAAATGATAATTTTGGAAAAATCAAGGTAA
1 AAAAATGGAATTTTTGGAAGTTCGGAGGTAAAATGGTAATTTTAAAAAAATCAAGGTAA
* * *
80819 AAAAATGGAA-TTTTGGAAAGTTTGGGGGTAAATTGGTAA
1 AAAAATGGAATTTTTGG-AAGTTCGGAGGTAAAATGGTAA
80858 AATCAAGGTC
Statistics
Matches: 81, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
57 6 0.07
58 14 0.17
59 61 0.75
ACGTcount: A:0.43, C:0.03, G:0.24, T:0.31
Consensus pattern (59 bp):
AAAAATGGAATTTTTGGAAGTTCGGAGGTAAAATGGTAATTTTAAAAAAATCAAGGTAA
Found at i:80883 original size:49 final size:50
Alignment explanation
Indices: 80801--80899 Score: 137
Period size: 49 Copynumber: 2.0 Consensus size: 50
80791 AATGATAATT
* *
80801 TTGGAAAAATCAAGGTAAAAAAATGGAATTTTGGAAAGTTTGGGGGTAAA
1 TTGGAAAAATCAAGGTAAAAAAATGGAATTTTGGAAAGCTTAGGGGTAAA
* ** *
80851 TTGGTAAAATCAAGGT-CTAAAGTGGAATTTTGGAAAGCTTAGGGGTAAA
1 TTGGAAAAATCAAGGTAAAAAAATGGAATTTTGGAAAGCTTAGGGGTAAA
80900 AATGTAATTT
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
49 28 0.65
50 15 0.35
ACGTcount: A:0.40, C:0.04, G:0.28, T:0.27
Consensus pattern (50 bp):
TTGGAAAAATCAAGGTAAAAAAATGGAATTTTGGAAAGCTTAGGGGTAAA
Found at i:80908 original size:29 final size:26
Alignment explanation
Indices: 80876--81038 Score: 94
Period size: 29 Copynumber: 5.7 Consensus size: 26
80866 TCTAAAGTGG
80876 AATTTTGGAAAGCTTAGGGGTAAAAATGT
1 AATTTTGGAAA--TTA-GGGTAAAAATGT
*
80905 AATTTTGGAAAATAGGGTCAAAAAT-T
1 AATTTTGGAAATTAGGGT-AAAAATGT
* *
80931 GAATTTTGGAAAATTCAGGGGTAAAACTAT
1 -AATTTTGG-AAATT-A-GGGTAAAAATGT
* * * *
80961 AATTTTTGGAAAAATCAAGGTTAAAATGA
1 AA-TTTTGG--AAATTAGGGTAAAAATGT
*
80990 AATTTTAGAAAGTTCAAGGGTAAAAATGT
1 AATTTTGGAAA-TT--AGGGTAAAAATGT
81019 AATTTTTGGATAATTTAGGG
1 AA-TTTTGGA-AA-TTAGGG
81039 ACCTCTAAGG
Statistics
Matches: 105, Mismatches: 16, Indels: 26
0.71 0.11 0.18
Matches are distributed among these distances:
26 8 0.08
27 17 0.16
28 9 0.09
29 44 0.42
30 18 0.17
31 9 0.09
ACGTcount: A:0.42, C:0.04, G:0.22, T:0.33
Consensus pattern (26 bp):
AATTTTGGAAATTAGGGTAAAAATGT
Found at i:80928 original size:27 final size:26
Alignment explanation
Indices: 80875--80944 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 26
80865 GTCTAAAGTG
*
80875 GAATTTTGGAAAGCTTAGGGGTAAAAA-T
1 GAATTTTGGAAA--ATA-GGGTAAAAATT
80903 GTAATTTTGGAAAATAGGGTCAAAAATT
1 G-AATTTTGGAAAATAGGGT-AAAAATT
80931 GAATTTTGGAAAAT
1 GAATTTTGGAAAAT
80945 TCAGGGGTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
26 4 0.11
27 20 0.53
28 3 0.08
29 11 0.29
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (26 bp):
GAATTTTGGAAAATAGGGTAAAAATT
Found at i:81011 original size:58 final size:58
Alignment explanation
Indices: 80851--81028 Score: 204
Period size: 58 Copynumber: 3.1 Consensus size: 58
80841 TGGGGGTAAA
* *
80851 TTGGTAAAATCAAGGTCTAAAGTGGAATTTTGGAAAGCTT-AGGGGTAAAAATGTAA-TT
1 TTGGAAAAATCAAGGTCTAAAAT-GAATTTTGGAAAG-TTCAGGGGTAAAAATGTAATTT
* * * * *
80909 TTGG-AAAAT-AGGGTCAAAAATTGAATTTTGGAAAATTCAGGGGTAAAACTATAATTT
1 TTGGAAAAATCAAGGTCTAAAA-TGAATTTTGGAAAGTTCAGGGGTAAAAATGTAATTT
* *
80966 TTGGAAAAATCAAGGT-TAAAATGAAATTTTAGAAAGTTCAAGGGTAAAAATGTAATTT
1 TTGGAAAAATCAAGGTCTAAAATG-AATTTTGGAAAGTTCAGGGGTAAAAATGTAATTT
81024 TTGGA
1 TTGGA
81029 TAATTTAGGG
Statistics
Matches: 101, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
55 2 0.02
56 34 0.34
57 14 0.14
58 47 0.47
59 4 0.04
ACGTcount: A:0.42, C:0.04, G:0.22, T:0.31
Consensus pattern (58 bp):
TTGGAAAAATCAAGGTCTAAAATGAATTTTGGAAAGTTCAGGGGTAAAAATGTAATTT
Found at i:82891 original size:17 final size:16
Alignment explanation
Indices: 82863--82927 Score: 76
Period size: 17 Copynumber: 3.9 Consensus size: 16
82853 AAATTTAAAG
* **
82863 TTTAAGTTTAAAATTA
1 TTTAAATTTAAAAAAA
82879 TTTCAAATTTAAACAAAA
1 TTT-AAATTTAAA-AAAA
82897 TTTAAATTTAAAACAAA
1 TTTAAATTTAAAA-AAA
82914 TTTAAATTTAAAAA
1 TTTAAATTTAAAAA
82928 TAAATCTAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
16 5 0.12
17 33 0.77
18 5 0.12
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.40
Consensus pattern (16 bp):
TTTAAATTTAAAAAAA
Found at i:82905 original size:6 final size:6
Alignment explanation
Indices: 82851--82925 Score: 50
Period size: 6 Copynumber: 12.8 Consensus size: 6
82841 GACTTTGAAA
* * **
82851 TTAAAT TTAAAGT TTAAGT TTAAAA TT--AT TTCAAAT TTAAA- CAAAAT
1 TTAAAT TTAAA-T TTAAAT TTAAAT TTAAAT TT-AAAT TTAAAT TTAAAT
**
82898 TTAAAT TTAAA- ACAAAT TTAAAT TTAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAA
82926 AATAAATCTA
Statistics
Matches: 51, Mismatches: 12, Indels: 12
0.68 0.16 0.16
Matches are distributed among these distances:
4 3 0.06
5 6 0.12
6 33 0.65
7 9 0.18
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.41
Consensus pattern (6 bp):
TTAAAT
Found at i:82927 original size:18 final size:17
Alignment explanation
Indices: 82878--82937 Score: 75
Period size: 17 Copynumber: 3.4 Consensus size: 17
82868 GTTTAAAATT
*
82878 ATTTCAAATTTAAACAAA
1 ATTT-AAATTTAAAAAAA
*
82896 ATTTAAATTTAAAACAA
1 ATTTAAATTTAAAAAAA
82913 ATTTAAATTTAAAAATAA
1 ATTTAAATTTAAAAA-AA
*
82931 ATCTAAA
1 ATTTAAA
82938 ACCAACCTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
17 25 0.68
18 12 0.32
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (17 bp):
ATTTAAATTTAAAAAAA
Found at i:84797 original size:6 final size:6
Alignment explanation
Indices: 84771--84851 Score: 71
Period size: 6 Copynumber: 13.7 Consensus size: 6
84761 TGAATTTGTT
* * * *
84771 TTTAAA TTCAAA TTT-AT TTTAAG TTTAAT TTTAAA TTTAAA TTT-AA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
84817 TTTAAA GTTTAAA TTT--A TTATCAAA TTTAAA TTTA
1 TTTAAA -TTTAAA TTTAAA TT-T-AAA TTTAAA TTTA
84852 TCCTAAATAT
Statistics
Matches: 62, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
4 3 0.05
5 10 0.16
6 39 0.63
7 7 0.11
8 3 0.05
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (6 bp):
TTTAAA
Found at i:84852 original size:18 final size:16
Alignment explanation
Indices: 84771--84866 Score: 74
Period size: 17 Copynumber: 5.9 Consensus size: 16
84761 TGAATTTGTT
*
84771 TTTAAATTCAAATTTA
1 TTTAAATTTAAATTTA
*
84787 TTTTAAGTTT-AA--T-
1 -TTTAAATTTAAATTTA
84800 TTTAAATTTAAATTTAA
1 TTTAAATTTAAATTT-A
84817 TTTAAAGTTTAAATTTA
1 TTTAAA-TTTAAATTTA
84834 TTATCAAATTTAAATTTA
1 TT-T-AAATTTAAATTTA
* *
84852 TCCTAAATATAAATT
1 T-TTAAATTTAAATT
84867 AATAAAGTCT
Statistics
Matches: 65, Mismatches: 5, Indels: 18
0.74 0.06 0.20
Matches are distributed among these distances:
12 8 0.12
13 2 0.03
14 1 0.02
15 1 0.02
16 2 0.03
17 26 0.40
18 22 0.34
19 3 0.05
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (16 bp):
TTTAAATTTAAATTTA
Found at i:85526 original size:3 final size:3
Alignment explanation
Indices: 85508--85557 Score: 73
Period size: 3 Copynumber: 16.3 Consensus size: 3
85498 TTTAATAAAT
* *
85508 ATA ATTA ATG ATA ATA ATA ATA ATA ATA AGA ATA ATA ATA ATA ATA
1 ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
85554 ATA A
1 ATA A
85558 AGAAAAATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:86749 original size:58 final size:59
Alignment explanation
Indices: 86658--86839 Score: 187
Period size: 58 Copynumber: 3.1 Consensus size: 59
86648 AAAAGTCCCT
* * * *
86658 AAACTATCTAAAAATCATATTTTGACCCCTAAACTTTCC-AAAATT-ATATTTTAACCCC
1 AAACTTTCTAAAAATTACATTTTAACCCCTAAACTTTCCAAAAATTCAT-TTTTAACCCC
* * *
86716 AAACTTTCTAAAAATTACATTTTAACCCTTAAACTTTCCAAAAAATTCATTTTTGACCTC
1 AAACTTTCTAAAAATTACATTTTAACCCCTAAACTTTCC-AAAAATTCATTTTTAACCCC
* * * **
86776 GAAC-TTCTAAAAATTACATTTTTACCCC-AAAC-TTCAAAAAACCCATTTTT-ACCCTC
1 AAACTTTCTAAAAATTACATTTTAACCCCTAAACTTTCCAAAAATTCATTTTTAACCC-C
86832 AAACTTTC
1 AAACTTTC
86840 AAATTACCAT
Statistics
Matches: 104, Mismatches: 15, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
55 3 0.03
56 16 0.15
57 6 0.06
58 38 0.37
59 22 0.21
60 17 0.16
61 2 0.02
ACGTcount: A:0.38, C:0.25, G:0.02, T:0.35
Consensus pattern (59 bp):
AAACTTTCTAAAAATTACATTTTAACCCCTAAACTTTCCAAAAATTCATTTTTAACCCC
Found at i:86816 original size:29 final size:29
Alignment explanation
Indices: 86658--87032 Score: 147
Period size: 29 Copynumber: 13.0 Consensus size: 29
86648 AAAAGTCCCT
* * * * *
86658 AAACTATCTAAAAATCATATTTTGACCCC
1 AAACTTTCAAAAAATTACATTTTTACCCC
* * *
86687 TAAACTTTC-CAAAATTATATTTTAACCCC
1 -AAACTTTCAAAAAATTACATTTTTACCCC
* * *
86716 AAACTTTCTAAAAATTACATTTTAACCCTT
1 AAACTTTCAAAAAATTACATTTTTACCC-C
*
86746 AAACTTTCCAAAAAATT-CATTTTTGACCTC
1 AAACTTT-CAAAAAATTACATTTTT-ACCCC
* *
86776 GAAC-TTCTAAAAATTACATTTTTACCCC
1 AAACTTTCAAAAAATTACATTTTTACCCC
**
86804 AAAC-TTCAAAAAA-CCCATTTTTACCCTC
1 AAACTTTCAAAAAATTACATTTTTACCC-C
86832 AAACTTTC---AAATTACCA-TTTTACCCTC
1 AAACTTTCAAAAAATTA-CATTTTTACCC-C
* * * *
86859 AAA-TGTCTAAAAAA-TACAATTTTAATCCT
1 AAACTTTC-AAAAAATTAC-ATTTTTACCCC
* * *
86888 AATCTTTC-CAAAATTACCA-TTTCACCCCC
1 AAACTTTCAAAAAATTA-CATTTTTA-CCCC
* * * * *
86917 GAACTTCCAAAAAATAACAATTTTGACCTC
1 AAACTTTCAAAAAATTAC-ATTTTTACCCC
* *
86947 AAACTTTC-CAAAATTGCCA-TTTTACTCCC
1 AAACTTTCAAAAAATT-ACATTTTTAC-CCC
* * * * *
86976 GAA-TGTCCAAAAATTACAATTTTGACCCT
1 AAACTTTCAAAAAATTAC-ATTTTTACCCC
* *
87005 AAATTTTC-CAAAATTACCA-TTTTACCCC
1 AAACTTTCAAAAAATTA-CATTTTTACCCC
87033 TCGAATGTCC
Statistics
Matches: 261, Mismatches: 55, Indels: 60
0.69 0.15 0.16
Matches are distributed among these distances:
26 6 0.02
27 24 0.09
28 63 0.24
29 91 0.35
30 62 0.24
31 15 0.06
ACGTcount: A:0.38, C:0.26, G:0.03, T:0.34
Consensus pattern (29 bp):
AAACTTTCAAAAAATTACATTTTTACCCC
Found at i:86852 original size:27 final size:27
Alignment explanation
Indices: 86786--86861 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
86776 GAACTTCTAA
86786 AAATTA-CATTTTTACCC-CAAACTTC
1 AAATTACCATTTTTACCCTCAAACTTC
**
86811 AAAAAACCCATTTTTACCCTCAAACTTTC
1 AAATTA-CCATTTTTACCCTCAAAC-TTC
86840 AAATTACCA-TTTTACCCTCAAA
1 AAATTACCATTTTTACCCTCAAA
86862 TGTCTAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
25 4 0.09
27 24 0.56
28 8 0.19
29 7 0.16
ACGTcount: A:0.38, C:0.29, G:0.00, T:0.33
Consensus pattern (27 bp):
AAATTACCATTTTTACCCTCAAACTTC
Found at i:86929 original size:58 final size:58
Alignment explanation
Indices: 86840--87103 Score: 270
Period size: 59 Copynumber: 4.5 Consensus size: 58
86830 TCAAACTTTC
* * * *
86840 AAATTACCATTTTACCCTCAAATGTCTAAAAAATACAATTTTAATCCT-AATCTTTCCA
1 AAATTACCATTTTACCCCCGAATGTCCAAAAAATACAATTTTGA-CCTAAATCTTTCCA
*
86898 AAATTACCATTTCACCCCCGAACT-TCCAAAAAATAACAATTTTGACCTCAAA-CTTTCCA
1 AAATTACCATTTTACCCCCGAA-TGTCCAAAAAAT-ACAATTTTGACCT-AAATCTTTCCA
* * *
86957 AAATTGCCATTTTACTCCCGAATGTCCAAAAATTACAATTTTGACCCTAAAT-TTTCCA
1 AAATTACCATTTTACCCCCGAATGTCCAAAAAATACAATTTTGA-CCTAAATCTTTCCA
* * * * ** *
87015 AAATTACCATTTTACCCCTCGAATGTCCAAAAATTATATTTTTGCCCCTCGA-GTTTCCA
1 AAATTACCATTTTACCCC-CGAATGTCCAAAAAATACAATTTTG-ACCTAAATCTTTCCA
* *
87074 AAATTACCA-TTTACCCTCAAATGTCCAAAA
1 AAATTACCATTTTACCCCCGAATGTCCAAAA
87104 TTTACATTTT
Statistics
Matches: 178, Mismatches: 18, Indels: 21
0.82 0.08 0.10
Matches are distributed among these distances:
57 12 0.07
58 74 0.42
59 90 0.51
60 2 0.01
ACGTcount: A:0.36, C:0.26, G:0.05, T:0.33
Consensus pattern (58 bp):
AAATTACCATTTTACCCCCGAATGTCCAAAAAATACAATTTTGACCTAAATCTTTCCA
Found at i:86956 original size:59 final size:58
Alignment explanation
Indices: 86828--87165 Score: 300
Period size: 58 Copynumber: 5.8 Consensus size: 58
86818 CCATTTTTAC
* * * * *
86828 CCTCAAACTTT-C-AAATTACCATTTTACCCTCAAATGTCTAAAAAATACAATTTTAA
1 CCTCAAACTTTCCAAAATTACCATTTTACCCCCGAATGTCCAAAAATTACAATTTTGA
* * *
86884 TCCT-AATCTTTCCAAAATTACCATTTCACCCCCGAACT-TCCAAAAAATAACAATTTTGA
1 -CCTCAAACTTTCCAAAATTACCATTTTACCCCCGAA-TGTCC-AAAAATTACAATTTTGA
* *
86943 CCTCAAACTTTCCAAAATTGCCATTTTACTCCCGAATGTCCAAAAATTACAATTTTGA
1 CCTCAAACTTTCCAAAATTACCATTTTACCCCCGAATGTCCAAAAATTACAATTTTGA
* * * *
87001 CC-CTAAATTTTCCAAAATTACCATTTTACCCCTCGAATGTCCAAAAATTATATTTTTGCC
1 CCTC-AAACTTTCCAAAATTACCATTTTACCCC-CGAATGTCCAAAAATTACAATTTTG-A
* * * * * * *
87061 CCTC-GAGTTTCCAAAATTACCA-TTTACCCTCAAATGTCCAAAATTTACATTTTTGCC
1 CCTCAAACTTTCCAAAATTACCATTTTACCCCCGAATGTCCAAAAATTACAATTTTG-A
* * * *
87118 CCTC-AAGTGTCCAAAAATTACC-TTTTA-CCCCTACATCTCCAAAAATTA
1 CCTCAAACTTTCC-AAAATTACCATTTTACCCCCGA-ATGTCCAAAAATTA
87166 TCATTTTACC
Statistics
Matches: 237, Mismatches: 31, Indels: 25
0.81 0.11 0.09
Matches are distributed among these distances:
56 6 0.03
57 43 0.18
58 100 0.42
59 85 0.36
60 2 0.01
61 1 0.00
ACGTcount: A:0.35, C:0.27, G:0.05, T:0.33
Consensus pattern (58 bp):
CCTCAAACTTTCCAAAATTACCATTTTACCCCCGAATGTCCAAAAATTACAATTTTGA
Found at i:87033 original size:29 final size:28
Alignment explanation
Indices: 86840--87176 Score: 145
Period size: 29 Copynumber: 11.6 Consensus size: 28
86830 TCAAACTTTC
*
86840 AAATTACCATTTTA-CCCTCAAATGTCTAA
1 AAATTACCATTTTACCCCT-AAATGTC-CA
* * ** * *
86869 AAAATACAATTTTAATCCTAATCTTTCCA
1 AAATTACCATTTTACCCCTAA-ATGTCCA
* * *
86898 AAATTACCATTTCACCCCCGAACT-TCCAAA
1 AAATTACCATTTTA-CCCCTAAATGTCC--A
* * * *
86928 AAATAACAATTTTGACCTC-AAACTTTCCA
1 AAATTACCATTTT-ACCCCTAAA-TGTCCA
* *
86957 AAATTGCCATTTTACTCCC-GAATGTCCAA
1 AAATTACCATTTTAC-CCCTAAATGTCC-A
* *
86986 AAATTACAATTTTGA-CCCTAAATTTTCCA
1 AAATTACCATTTT-ACCCCTAAA-TGTCCA
*
87015 AAATTACCATTTTACCCCTCGAATGTCCAA
1 AAATTACCATTTTACCCCT-AAATGTCC-A
* * * * *
87045 AAATTA-TATTTTTGCCCCTCGAGTTTCCA
1 AAATTACCA-TTTTACCCCT-AAATGTCCA
87074 AAATTACCA-TTTA-CCCTCAAATGTCCA
1 AAATTACCATTTTACCCCT-AAATGTCCA
* *
87101 AAATTTA-CATTTTTGCCCCTCAAGTGTCCAA
1 AAA-TTACCA-TTTTACCCCT-AAATGTCC-A
* *
87132 AAATTACC-TTTTACCCCTACATCTCCAA
1 AAATTACCATTTTACCCCTAAATGTCC-A
*
87160 AAATTATCATTTTACCC
1 AAATTACCATTTTACCC
87177 TCGGGTATCC
Statistics
Matches: 237, Mismatches: 46, Indels: 50
0.71 0.14 0.15
Matches are distributed among these distances:
27 16 0.07
28 33 0.14
29 108 0.46
30 71 0.30
31 9 0.04
ACGTcount: A:0.35, C:0.27, G:0.05, T:0.34
Consensus pattern (28 bp):
AAATTACCATTTTACCCCTAAATGTCCA
Found at i:87048 original size:117 final size:118
Alignment explanation
Indices: 86828--87149 Score: 358
Period size: 117 Copynumber: 2.8 Consensus size: 118
86818 CCATTTTTAC
* * * *
86828 CCTCAAACTTT-C-AAATTACCATTTTACCCTCAAATGTCTAAAAAATACAATTTTAATCCTAAT
1 CCTCAAACTTTCCAAAATTACCATTTTACCCTCAAATGTCCAAAAATTACAATTTTGACCCTAAT
*
86891 CTTTCCAAAATTACCATTTCACCCC-CGAACTTCCAAAAAATAACAATTTTG-A
66 -TTTCCAAAATTACCATTTTACCCCTCGAACTTCCAAAAAATAACAATTTTGCA
* *
86943 CCTCAAACTTTCCAAAATTGCCATTTTACTCC-CGAATGTCCAAAAATTACAATTTTGACCCTAA
1 CCTCAAACTTTCCAAAATTACCATTTTAC-CCTCAAATGTCCAAAAATTACAATTTTGACCCT-A
* * * *
87007 ATTTTCCAAAATTACCATTTTACCCCTCGAA-TGTCC-AAAAATTATATTTTTGCC
64 ATTTTCCAAAATTACCATTTTACCCCTCGAACT-TCCAAAAAATAACAATTTTGCA
* * * * *
87061 CCTC-GAGTTTCCAAAATTACCA-TTTACCCTCAAATGTCCAAAATTTACATTTTTGCCCCTCAA
1 CCTCAAACTTTCCAAAATTACCATTTTACCCTCAAATGTCCAAAAATTACAATTTTGACCCT-AA
* *
87124 GTGTCCAAAAATTACC-TTTTACCCCT
65 TTTTCC-AAAATTACCATTTTACCCCT
87150 ACATCTCCAA
Statistics
Matches: 177, Mismatches: 21, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
115 13 0.07
116 48 0.27
117 100 0.56
118 16 0.09
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.34
Consensus pattern (118 bp):
CCTCAAACTTTCCAAAATTACCATTTTACCCTCAAATGTCCAAAAATTACAATTTTGACCCTAAT
TTTCCAAAATTACCATTTTACCCCTCGAACTTCCAAAAAATAACAATTTTGCA
Found at i:87189 original size:57 final size:59
Alignment explanation
Indices: 86956--87192 Score: 197
Period size: 57 Copynumber: 4.1 Consensus size: 59
86946 CAAACTTTCC
* * * * ** * *
86956 AAAATTGCCATTTTACTCCCGA-ATGTCCAAAAATTA-CAATTTTGACCCTAAATTTTCC-
1 AAAATTACC-TTTTAC-CCCTACATGTCCAAAAATTATCATTTTTGCCCCTCGAGTATCCA
*
87014 AAAATTACCATTTTACCCCT-CGAATGTCCAAAAATTAT-ATTTTTGCCCCTCGAGTTTCC-
1 AAAATTACC-TTTTACCCCTAC--ATGTCCAAAAATTATCATTTTTGCCCCTCGAGTATCCA
* * * * *
87073 AAAATTACCATTTA-CCCTCAAATGTCCAAAATTTA-CATTTTTGCCCCTCAAGTGTCCA
1 AAAATTACCTTTTACCCCT-ACATGTCCAAAAATTATCATTTTTGCCCCTCGAGTATCCA
* * *
87131 AAAATTACCTTTTACCCCTACATCTCCAAAAATTATCA-TTTT-ACCCTCGGGTATCCA
1 AAAATTACCTTTTACCCCTACATGTCCAAAAATTATCATTTTTGCCCCTCGAGTATCCA
87188 AAAAT
1 AAAAT
87193 CACTTTTTTA
Statistics
Matches: 149, Mismatches: 20, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
57 55 0.37
58 49 0.33
59 45 0.30
ACGTcount: A:0.33, C:0.27, G:0.07, T:0.34
Consensus pattern (59 bp):
AAAATTACCTTTTACCCCTACATGTCCAAAAATTATCATTTTTGCCCCTCGAGTATCCA
Found at i:92400 original size:9 final size:9
Alignment explanation
Indices: 92388--92436 Score: 57
Period size: 9 Copynumber: 5.4 Consensus size: 9
92378 AAATAAATAA
92388 AAAAGAAAG
1 AAAAGAAAG
92397 AAAAGAAAG
1 AAAAGAAAG
92406 -AAA-AAAG
1 AAAAGAAAG
*
92413 AAAAGAAAA
1 AAAAGAAAG
92422 AAAAGGGAAAG
1 AAAA--GAAAG
92433 AAAA
1 AAAA
92437 TAGAAAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
7 4 0.12
8 6 0.18
9 16 0.47
11 8 0.24
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:92400 original size:11 final size:11
Alignment explanation
Indices: 92375--92423 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
92365 TTCAATGAAC
* *
92375 AAAAAATAAAT
1 AAAAAAGAAAG
92386 AAAAAAGAAAG
1 AAAAAAGAAAG
92397 --AAAAGAAAG
1 AAAAAAGAAAG
92406 AAAAAAGAAAAG
1 AAAAAAG-AAAG
92418 AAAAAA
1 AAAAAA
92424 AAGGGAAAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
9 9 0.27
11 14 0.42
12 10 0.30
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.04
Consensus pattern (11 bp):
AAAAAAGAAAG
Found at i:92410 original size:21 final size:21
Alignment explanation
Indices: 92376--92426 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
92366 TCAATGAACA
*
92376 AAAAATAAATAAAAAAG-AAAG
1 AAAAA-AAAGAAAAAAGAAAAG
*
92397 AAAAGAAAGAAAAAAGAAAAG
1 AAAAAAAAGAAAAAAGAAAAG
92418 AAAAAAAAG
1 AAAAAAAAG
92427 GGAAAGAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 10 0.38
21 16 0.62
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (21 bp):
AAAAAAAAGAAAAAAGAAAAG
Found at i:92432 original size:15 final size:15
Alignment explanation
Indices: 92386--92436 Score: 66
Period size: 16 Copynumber: 3.3 Consensus size: 15
92376 AAAAATAAAT
92386 AAAAAAGAAAGAAAAG
1 AAAAAA-AAAGAAAAG
92402 AAAGAAAAAAGAAAAG
1 AAA-AAAAAAGAAAAG
* *
92418 AAAAAAAAGGGAAAG
1 AAAAAAAAAGAAAAG
92433 AAAA
1 AAAA
92437 TAGAAAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
15 14 0.44
16 15 0.47
17 3 0.09
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAGAAAAG
Found at i:92432 original size:20 final size:21
Alignment explanation
Indices: 92409--92452 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
92399 AAGAAAGAAA
92409 AAAGAAAAGA-AAAAAAAGGG
1 AAAGAAAAGAGAAAAAAAGGG
* *
92429 AAAGAAAATAGAAAAAATGGG
1 AAAGAAAAGAGAAAAAAAGGG
92450 AAA
1 AAA
92453 AAGAAAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.73, C:0.00, G:0.23, T:0.05
Consensus pattern (21 bp):
AAAGAAAAGAGAAAAAAAGGG
Found at i:92441 original size:27 final size:25
Alignment explanation
Indices: 92382--92443 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 25
92372 AACAAAAAAT
* *
92382 AAATAAAAAAGAAAGAAAAGAAAGA
1 AAATAGAAAAGAAAAAAAAGAAAGA
*
92407 AAAAAGAAAAGAAAAAAAAGGGAAAGA
1 AAATAGAAAAGAAAAAAAA--GAAAGA
92434 AAATAGAAAA
1 AAATAGAAAA
92444 AATGGGAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 16 0.52
27 15 0.48
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (25 bp):
AAATAGAAAAGAAAAAAAAGAAAGA
Found at i:92600 original size:202 final size:202
Alignment explanation
Indices: 92374--92782 Score: 800
Period size: 202 Copynumber: 2.0 Consensus size: 202
92364 ATTCAATGAA
92374 CAAAAAATAAATAAAAAAGAAAGAAAAGAAAGAAAAAAGAAAAGAAAAAAAAGGGAAAGAAAATA
1 CAAAAAATAAATAAAAAAGAAAGAAAAGAAAGAAAAAAGAAAAGAAAAAAAAGGGAAAGAAAATA
92439 GAAAAAATGGGAAAAAGAAAAAGAGAGGTCGAGGTGAAAAGTCGTAAAGGGCATCTCGAAACCTA
66 GAAAAAATGGGAAAAAGAAAAAGAGAGGTCGAGGTGAAAAGTCGTAAAGGGCATCTCGAAACCTA
92504 AGAAGACTTGAGTTGAAAACCTGAAAGGGCGGCTCAATTTTGAAGAAAGGAGCTTGAAATGGTTC
131 AGAAGACTTGAGTTGAAAACCTGAAAGGGCGGCTCAATTTTGAAGAAAGGAGCTTGAAATGGTTC
92569 TCTCTCT
196 TCTCTCT
*
92576 CAAAAAATAAATAAAAAAGAAAGAAAATAAAGAAAAAAGAAAAGAAAAAAAAGGGAAAGAAAATA
1 CAAAAAATAAATAAAAAAGAAAGAAAAGAAAGAAAAAAGAAAAGAAAAAAAAGGGAAAGAAAATA
92641 GAAAAAATGGGAAAAAGAAAAAGAGAGGTCGAGGTGAAAAGTCGTAAAGGGCATCTCGAAACCTA
66 GAAAAAATGGGAAAAAGAAAAAGAGAGGTCGAGGTGAAAAGTCGTAAAGGGCATCTCGAAACCTA
*
92706 AGAAGACTTGAGTTGAAAACCTGAAAGGGCGGCTCAATTTTGAAGAAATGAGCTTGAAATGGTTC
131 AGAAGACTTGAGTTGAAAACCTGAAAGGGCGGCTCAATTTTGAAGAAAGGAGCTTGAAATGGTTC
92771 TCTCTCT
196 TCTCTCT
92778 CAAAA
1 CAAAA
92783 GTAGCAAGGT
Statistics
Matches: 205, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
202 205 1.00
ACGTcount: A:0.52, C:0.10, G:0.23, T:0.15
Consensus pattern (202 bp):
CAAAAAATAAATAAAAAAGAAAGAAAAGAAAGAAAAAAGAAAAGAAAAAAAAGGGAAAGAAAATA
GAAAAAATGGGAAAAAGAAAAAGAGAGGTCGAGGTGAAAAGTCGTAAAGGGCATCTCGAAACCTA
AGAAGACTTGAGTTGAAAACCTGAAAGGGCGGCTCAATTTTGAAGAAAGGAGCTTGAAATGGTTC
TCTCTCT
Found at i:92602 original size:20 final size:21
Alignment explanation
Indices: 92579--92628 Score: 75
Period size: 20 Copynumber: 2.4 Consensus size: 21
92569 TCTCTCTCAA
*
92579 AAAATAAATAAAAAAG-AAAG
1 AAAATAAAGAAAAAAGAAAAG
92599 AAAATAAAGAAAAAAGAAAAG
1 AAAATAAAGAAAAAAGAAAAG
*
92620 AAAAAAAAG
1 AAAATAAAG
92629 GGAAAGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (21 bp):
AAAATAAAGAAAAAAGAAAAG
Found at i:92605 original size:16 final size:15
Alignment explanation
Indices: 92584--92627 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 15
92574 CTCAAAAAAT
92584 AAATAAAAAAGAAAGA
1 AAATAAAAAA-AAAGA
92600 AAATAAAGAAAAAAGA
1 AAATAAA-AAAAAAGA
*
92616 AAAGAAAAAAAA
1 AAATAAAAAAAA
92628 GGGAAAGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 5 0.19
16 18 0.69
17 3 0.12
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (15 bp):
AAATAAAAAAAAAGA
Found at i:92634 original size:20 final size:21
Alignment explanation
Indices: 92611--92654 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
92601 AATAAAGAAA
92611 AAAGAAAAGA-AAAAAAAGGG
1 AAAGAAAAGAGAAAAAAAGGG
* *
92631 AAAGAAAATAGAAAAAATGGG
1 AAAGAAAAGAGAAAAAAAGGG
92652 AAA
1 AAA
92655 AAGAAAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.73, C:0.00, G:0.23, T:0.05
Consensus pattern (21 bp):
AAAGAAAAGAGAAAAAAAGGG
Found at i:93664 original size:50 final size:50
Alignment explanation
Indices: 93610--93883 Score: 256
Period size: 50 Copynumber: 5.6 Consensus size: 50
93600 AAGATACGAA
* * * *
93610 GGGAAATGTTGAGGTCGCAATGACAAACTTGGTACCTAAGAAGATGTGAT
1 GGGAAAGGTTGAGGTCGCAACGGCAAACTCGGTACCTAAGAAGATGTGAT
* * * *
93660 GGGAAAGGTTGAGGTCGTAACGGCAAACCCAGTACCATGAA-AAGA--TGAA
1 GGGAAAGGTTGAGGTCGCAACGGCAAACTCGGTACC-T-AAGAAGATGTGAT
* *
93709 GGGAAAGGTTGAGGCCGCAA--GCGAACTCGGTACCTAAGAAGATGTGAT
1 GGGAAAGGTTGAGGTCGCAACGGCAAACTCGGTACCTAAGAAGATGTGAT
* * ** *
93757 GGGAAAGGTTGAGGCCGTAACGGTGAACTCGATACCTAAGAAGATGTGAT
1 GGGAAAGGTTGAGGTCGCAACGGCAAACTCGGTACCTAAGAAGATGTGAT
* * * * * * *
93807 GGAAAAGGTTGAGGTCGCAACGAG-GAACCCGGTAGC-ATGAAGATATGAA
1 GGGAAAGGTTGAGGTCGCAACG-GCAAACTCGGTACCTAAGAAGATGTGAT
* *
93856 GGGAAAGGTTGAGGCCGCAACGGTAAAC
1 GGGAAAGGTTGAGGTCGCAACGGCAAAC
93884 CCAATACCAT
Statistics
Matches: 186, Mismatches: 29, Indels: 19
0.79 0.12 0.08
Matches are distributed among these distances:
45 2 0.01
46 5 0.03
47 11 0.06
48 23 0.12
49 54 0.29
50 83 0.45
51 6 0.03
52 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.34, T:0.17
Consensus pattern (50 bp):
GGGAAAGGTTGAGGTCGCAACGGCAAACTCGGTACCTAAGAAGATGTGAT
Found at i:93885 original size:49 final size:49
Alignment explanation
Indices: 93640--93885 Score: 243
Period size: 49 Copynumber: 5.0 Consensus size: 49
93630 TGACAAACTT
* *
93640 GGTACCTAAGAAGATGTGATGGGAAAGGTTGAGGTCGTAACGGCAAACCC
1 GGTACCTAAGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGG-AAACCC
* * *
93690 AGTACCATGAA-AAGA--TGAAGGGAAAGGTTGAGGCCGCAA-GCG-AACTC
1 GGTACC-T-AAGAAGATGTGATGGGAAAGGTTGAGGCCGCAACG-GAAACCC
* * *
93737 GGTACCTAAGAAGATGTGATGGGAAAGGTTGAGGCCGTAACGGTGAACTC
1 GGTACCTAAGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGG-AAACCC
* * * *
93787 GATACCTAAGAAGATGTGATGGAAAAGGTTGAGGTCGCAACGAGGAACCC
1 GGTACCTAAGAAGATGTGATGGGAAAGGTTGAGGCCGCAACG-GAAACCC
* * * *
93837 GGTAGC-ATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGTAAACCC
1 GGTACCTAAGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGG-AAACCC
93886 AATACCATGA
Statistics
Matches: 164, Mismatches: 21, Indels: 23
0.79 0.10 0.11
Matches are distributed among these distances:
45 2 0.01
46 5 0.03
47 9 0.05
48 25 0.15
49 58 0.35
50 57 0.35
51 6 0.04
52 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.34, T:0.16
Consensus pattern (49 bp):
GGTACCTAAGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGAAACCC
Found at i:94305 original size:39 final size:38
Alignment explanation
Indices: 94225--94366 Score: 126
Period size: 38 Copynumber: 3.7 Consensus size: 38
94215 AAAGATTCCG
* * *
94225 ATCTCTTGCCCCGAGCTTGGGGCAGATCACCA-TCAACCA
1 ATCTCTT-ACCCGAGCCTGGGGCAGATCA-CAGCCAACCA
* **
94264 ATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCATTCA
1 ATCTCTTA-CCCGAGCCTGGGGCAGATCACAGCCAACCA
* * *
94303 ATCTTTTACCCGA-CCATGTGGCAGATCACAGCCACCCA
1 ATCTCTTACCCGAGCC-TGGGGCAGATCACAGCCAACCA
* * *
94341 ATCTCTTACCTGATCATGGGGCAGAT
1 ATCTCTTACCCGAGCCTGGGGCAGAT
94367 TGCAGTTATC
Statistics
Matches: 84, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
37 2 0.02
38 45 0.54
39 37 0.44
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (38 bp):
ATCTCTTACCCGAGCCTGGGGCAGATCACAGCCAACCA
Found at i:94954 original size:209 final size:209
Alignment explanation
Indices: 94385--95317 Score: 1180
Period size: 209 Copynumber: 4.5 Consensus size: 209
94375 TCCAAAACAG
* * * *
94385 TAAAGCGGTTACCTTCCTAATGAGATACAGAAAAGTGAACTAGATTCGTCTTCTTGATGAGACAC
1 TAAAGCGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATTCGTCTTCCTGATGAGACAC
*
94450 AGAGAAGTGGATCAAAACAAGTGATGCGGTCATCTTCTTGATGAGATACTGAGAAGTAGACCAAA
66 AGAGAAGTGGATCAAAACAAGTGATGCAGTCATCTTCTTGATGAGATACTGAGAAGTAGACCAAA
* * * * **
94515 TAAATGAAGCAAAGCTTGAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTAAGAA
131 TCAATAAAACCAAGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTAAGAA
94580 GCAGGTCGAAGCAA
196 GCAGGTCGAAGCAA
* * *
94594 TAAAGCAGTTACCTTCCTGATGAGATACAGAGAAGTG--TCAGA-TCTGTCTTCCTAATGAGACA
1 TAAAGCGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATTC-GTCTTCCTGATGAGACA
* *
94656 CAGAGAAGTGGATCAAAACAAGTGATGCTGTCATCTTCTTGATGAGATATTGAGAAGTAGACCAA
65 CAGAGAAGTGGATCAAAACAAGTGATGCAGTCATCTTCTTGATGAGATACTGAGAAGTAGACCAA
* * * * * *
94721 GTCAATAACACCAGGATCAAAGTGAGCAAATCTTCGAACCCTAGCTTCTTGATGAGATACTAAGA
130 ATCAATAAAACCAAGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTAAGA
94786 AGCAGGTCGAAGCAA
195 AGCAGGTCGAAGCAA
* *
94801 TAAAGTGGTTACCTTTCTGATGAGATACAGAGAAGTGAACCAGA-TCTGTCTTCCTGATGAGACA
1 TAAAGCGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATTC-GTCTTCCTGATGAGACA
* * * * *
94865 CAAAAAAGTGGAACAAAACAAGTGATGCAGTCATCTTCCTGATAAGATACTGAGAAGTAGACCAA
65 CAGAGAAGTGGATCAAAACAAGTGATGCAGTCATCTTCTTGATGAGATACTGAGAAGTAGACCAA
* * *
94930 ATCAATAAAACCAGGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATAAGATACTGAGA
130 ATCAATAAAACCAAGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTAAGA
*
94995 AGTAGGTCGAAGCAA
195 AGCAGGTCGAAGCAA
* * * * *
95010 TAAAGCGGTTACCTTCCTGATGAGATACAGAGAAGTGAATCAAATTCATCTTCCTGATGAGATAT
1 TAAAGCGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATTCGTCTTCCTGATGAGACAC
* *
95075 AGAGAAGTGGATCAAAATTACAAG-G-CG-A-TCATCTTCTTGATGAGATACTAAGAAGTAGACC
66 AGAGAAGTGGATC-AAA--ACAAGTGATGCAGTCATCTTCTTGATGAGATACTGAGAAGTAGACC
** * ** * * *
95136 AAATCAACGAAACCAAAGCTCGATCTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGACATTG
128 AAATCAATAAAACC-AAGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTA
95201 AGAAGCAGGTCGAAGCAA
192 AGAAGCAGGTCGAAGCAA
** * * * * * * * * *
95219 TAAAATGGTCAGCTTCTTGATGAGATACTGAGAAATGGACCAAATTCGTCTTCTTGATGAGATAC
1 TAAAGCGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATTCGTCTTCCTGATGAGACAC
* ** * *
95284 AGAGAAGCGGATTGAAACAAGTGAGGCGGTCATC
66 AGAGAAGTGGATCAAAACAAGTGATGCAGTCATC
95318 AAATAATCAA
Statistics
Matches: 630, Mismatches: 82, Indels: 23
0.86 0.11 0.03
Matches are distributed among these distances:
206 7 0.01
207 184 0.29
208 45 0.07
209 377 0.60
210 11 0.02
211 1 0.00
212 5 0.01
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (209 bp):
TAAAGCGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATTCGTCTTCCTGATGAGACAC
AGAGAAGTGGATCAAAACAAGTGATGCAGTCATCTTCTTGATGAGATACTGAGAAGTAGACCAAA
TCAATAAAACCAAGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTAAGAA
GCAGGTCGAAGCAA
Found at i:95335 original size:10 final size:10
Alignment explanation
Indices: 95320--95347 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
95310 CGGTCATCAA
95320 ATAATCAAGT
1 ATAATCAAGT
95330 ATAATCAAGT
1 ATAATCAAGT
95340 ATAATCAA
1 ATAATCAA
95348 CCAAATTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.54, C:0.11, G:0.07, T:0.29
Consensus pattern (10 bp):
ATAATCAAGT
Found at i:97722 original size:124 final size:124
Alignment explanation
Indices: 97501--97834 Score: 454
Period size: 124 Copynumber: 2.7 Consensus size: 124
97491 GGACCAAATT
* * * * * * * *
97501 CATCTTCCTGATGAGATACAAAGAAGTG-GATTAAAACAAATGATGCGGTCATCTTCTTGATGAG
1 CATCTTCTTGATGAGATACTAAGAAGTGAG-TCAAAGC-AATAAAGCGGTCGTCTTCCTGATGAG
*
97565 ATACAGAGAAGTAGACCAAATCAATAAAGTGAAGCTCAATGTGAGTGAAACTTCAAAACCC
64 ATACAGAGAAGTAGATCAAATCAATAAAGTGAAGCTCAATGTGAGTGAAACTTCAAAACCC
* * *
97626 CATCTTCTTGATGAGATACTGAGAAGTGAGTCAAAGCAATAAAGCGGTCGTCTTCCTAATAAGAT
1 CATCTTCTTGATGAGATACTAAGAAGTGAGTCAAAGCAATAAAGCGGTCGTCTTCCTGATGAGAT
* * * *
97691 GCAGAGAAGTAGATCAAATCGATAAAGTGAAGTTCAATGTGAGTGAAACTTCGAAACCC
66 ACAGAGAAGTAGATCAAATCAATAAAGTGAAGCTCAATGTGAGTGAAACTTCAAAACCC
* * *
97750 CATCTTCTTGATGAGATACTAAAAAGTGAGTCAAAGCAATAAAACGGTCGTATTCCTGATGAGAT
1 CATCTTCTTGATGAGATACTAAGAAGTGAGTCAAAGCAATAAAGCGGTCGTCTTCCTGATGAGAT
* *
97815 ACAAAGAAGTGGATCAAATC
66 ACAGAGAAGTAGATCAAATC
97835 CATCTTCCTG
Statistics
Matches: 183, Mismatches: 25, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
124 152 0.83
125 30 0.16
126 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (124 bp):
CATCTTCTTGATGAGATACTAAGAAGTGAGTCAAAGCAATAAAGCGGTCGTCTTCCTGATGAGAT
ACAGAGAAGTAGATCAAATCAATAAAGTGAAGCTCAATGTGAGTGAAACTTCAAAACCC
Found at i:97921 original size:210 final size:207
Alignment explanation
Indices: 97625--98794 Score: 1314
Period size: 210 Copynumber: 5.6 Consensus size: 207
97615 CTTCAAAACC
* * * * * ** * * *
97625 CCATCTTCTTGATGAGATACTGAGAAGT-GAGTCAAAGCAATAAAGCGGTCGTCTTCCTAATAAG
1 CCATCTTCCTGATGAGATACAGAGAAGTGGA-TTAAAACAAT-GAGAAGTCATCTTCCTGATGAG
* * * * *
97689 ATGCAGAGAAGTAGATCAAATCGATAAAGTGAAGTTCAATGTGAGTGAAACTTCGAAACCCCATC
64 ATACAGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTGAAACTTC-AAACCCCATC
* * * * * *
97754 TTCTTGATGAGATACTAAAAAGTGAGTCAAAGCAATAAAACGGTCGTATTCCTGATGAGATACAA
128 TTCTTGATGAGATACTAAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTCCTGATGAGATACAG
*
97819 AGAAGTGGATCAAAT
193 AGAAGTGGACCAAAT
* *
97834 CCATCTTCCTGATGAGATACAAAGAAGTGGATTAAAACAAATGATACAGTCATCTTCCTGATGAG
1 CCATCTTCCTGATGAGATACAGAGAAGTGGATTAAAAC-AATGAGA-AGTCATCTTCCTGATGAG
* * * * *
97899 ATACAGAGAAGTAGACCAAATCGATGAAGTGAAACTTAATATGAGTGAAACTTCAAATCCCTATC
64 ATACAGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTGAAACTTCAAA-CCCCATC
* * *
97964 TTCTTGATGAGATACTGAGAAGTGGGTCAAAGCAATAAAGCGATCATCTTCTTGATGAGATACAG
128 TTCTTGATGAGATACTAAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTCCTGATGAGATACAG
98029 AGAAGTGGACCAAAT
193 AGAAGTGGACCAAAT
* * * * * ** *
98044 TCGTCTTCCTAATGAGATACAGAGATGTCGATTAAAACAAGTGATGCGGTCATCATT-CTGATAA
1 CCATCTTCCTGATGAGATACAGAGAAGTGGATTAAAACAA-TGA-GAAGTCATC-TTCCTGATGA
*
98108 GATACAGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTGAAACTTCAAACCTCATC
63 GATACAGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTGAAACTTCAAACCCCATC
* * * * * *
98173 TTCCTGATGAGATA-TAGAGAAGTGGGTCGAA-TAATAAAGCGATCATCTTCCTAATGAAATACA
128 TTCTTGATGAGATACTA-AGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTCCTGATGAGATACA
* *
98236 GAAAAGTGGACTAAAT
192 GAGAAGTGGACCAAAT
* * * * ** * *
98252 CCATCTTCCTAATGAGATACAGAGAAGTGGATCACAATAAT--GAAGTGGTCTTCCTAATGAGAC
1 CCATCTTCCTGATGAGATACAGAGAAGTGGATTAAAACAATGAGAAGTCATCTTCCTGATGAGAT
*
98315 ACAGAGAAGTAGACCAAATC-ATTGAAGCGAAGCTCAATGTGAGTGAAACTTCAAACCCCATATT
66 ACAGAGAAGTAGACCAAATCGA-TGAAGCGAAGCTCAATGTGAGTGAAACTTCAAACCCCATCTT
* * * *
98379 CCTGATGAGATAC-AGAGAAGTGGGTCAAAGCAATAAAGAGGTCATCTTCCTGATAAGATATAGA
130 CTTGATGAGATACTA-AGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTCCTGATGAGATACAGA
98443 GAAGTGGACCAAAT
194 GAAGTGGACCAAAT
* * *
98457 CCATCTTCTTGATGAGATACAGAGAAATGGATTAAAACAATGAGATGATCATCTTCCTGATGAGA
1 CCATCTTCCTGATGAGATACAGAGAAGTGGATTAAAACAATGAGAAG-TCATCTTCCTGATGAGA
* * * ** * * *
98522 TACAGAGAAGTAGACCAAATCAATAAAGTGAAGCTCAATACGAATGAGACTTCAATCCCCATCTT
65 TACAGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTGAAACTTCAAACCCCATCTT
* * * * * * * * * *
98587 CTTGATGAGATACAAATAAATGAGTCGAATCAAT-AAGTGGTTATCTTCTTGATGAGATGCAGAG
130 CTTGATGAGATACTAAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTCCTGATGAGATACAGAG
*
98651 AAGTGAACCAAAT
195 AAGTGGACCAAAT
* * * * * *
98664 CCGTCTTCCTGATGAGATACAGATAAGTGAATTGAAACAATGAGGTAGTCATCTTCTTGATGAGA
1 CCATCTTCCTGATGAGATACAGAGAAGTGGATTAAAACAATGA-GAAGTCATCTTCCTGATGAGA
* * *
98729 TACAGAGAAGTAAACCAAATCAATGAAGCAAAGCTCAATGTGAGTGAAACTTCAAACCCCATCTT
65 TACAGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTGAAACTTCAAACCCCATCTT
98794 C
130 C
98795 CTGCTGAGGT
Statistics
Matches: 812, Mismatches: 131, Indels: 38
0.83 0.13 0.04
Matches are distributed among these distances:
203 3 0.00
204 99 0.12
205 74 0.09
207 150 0.18
208 172 0.21
209 69 0.08
210 243 0.30
211 2 0.00
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (207 bp):
CCATCTTCCTGATGAGATACAGAGAAGTGGATTAAAACAATGAGAAGTCATCTTCCTGATGAGAT
ACAGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTGAAACTTCAAACCCCATCTTC
TTGATGAGATACTAAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTCCTGATGAGATACAGAGA
AGTGGACCAAAT
Found at i:97967 original size:334 final size:334
Alignment explanation
Indices: 97339--98043 Score: 939
Period size: 334 Copynumber: 2.1 Consensus size: 334
97329 CTTAAAAAGG
* * * * * * * **
97339 TCATCTTCTTGATAAGATACAGAGAAGCAGACCAAAAT-AATGATGAGAAGCTT-AATACGAGTG
1 TCATCTTCCTAATAAGATACAGAGAAGTAGACC-AAATCGATAAAGTGAAG-TTCAATGTGAGTG
* * * * * * **
97402 AAACTTCAAAAATCTATTTTCCTGATGAGATATAGAGAAGTGGGTCGAAGCAATAAAGTGGTCAT
64 AAACTTCAAAAACCCATCTTCCTGATGAGATATAGAAAAGTGAGTCAAAGCAATAAAACGGTCAT
* ** * *
97467 CTTCCTGACGAGATGTAGAGAAGTGGACCAAATTCATCTTCCTGATGAGATACAAAGAAGTGGAT
129 ATTCCTGACGAGATACAAAGAAGTGGACCAAATCCATCTTCCTGATGAGATACAAAGAAGTGGAT
* * *
97532 TAAAACAAATGATGCGGTCATCTTCTTGATGAGATACAGAGAAGTAGACCAAATCAATAAAGTGA
194 TAAAACAAATGATACAGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATAAAGTGA
* *
97597 AGCTCAATGTGAGTGAAACTTCAAAACCCCATCTTCTTGATGAGATACTGAGAAGTGAGTCAAAG
259 AACTCAATATGAGTGAAACTTCAAAACCCCATCTTCTTGATGAGATACTGAGAAGTGAGTCAAAG
*
97662 CAATAAAGCGG
324 CAATAAAGCGA
* * *
97673 TCGTCTTCCTAATAAGATGCAGAGAAGTAGATCAAATCGATAAAGTGAAGTTCAATGTGAGTGAA
1 TCATCTTCCTAATAAGATACAGAGAAGTAGACCAAATCGATAAAGTGAAGTTCAATGTGAGTGAA
* * * *
97738 ACTTCGAAACCCCATCTTCTTGATGAGATACTA-AAAAGTGAGTCAAAGCAATAAAACGGTCGTA
66 ACTTCAAAAACCCATCTTCCTGATGAGATA-TAGAAAAGTGAGTCAAAGCAATAAAACGGTCATA
* *
97802 TTCCTGATGAGATACAAAGAAGTGGATCAAATCCATCTTCCTGATGAGATACAAAGAAGTGGATT
130 TTCCTGACGAGATACAAAGAAGTGGACCAAATCCATCTTCCTGATGAGATACAAAGAAGTGGATT
* *
97867 AAAACAAATGATACAGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCGATGAAGTGAA
195 AAAACAAATGATACAGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATAAAGTGAA
* * * *
97932 ACTTAATATGAGTGAAACTTCAAATCCCTATCTTCTTGATGAGATACTGAGAAGTGGGTCAAAGC
260 ACTCAATATGAGTGAAACTTCAAAACCCCATCTTCTTGATGAGATACTGAGAAGTGAGTCAAAGC
97997 AATAAAGCGA
325 AATAAAGCGA
* * * *
98007 TCATCTTCTTGATGAGATACAGAGAAGTGGACCAAAT
1 TCATCTTCCTAATAAGATACAGAGAAGTAGACCAAAT
98044 TCGTCTTCCT
Statistics
Matches: 318, Mismatches: 50, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
333 6 0.02
334 310 0.97
335 2 0.01
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.25
Consensus pattern (334 bp):
TCATCTTCCTAATAAGATACAGAGAAGTAGACCAAATCGATAAAGTGAAGTTCAATGTGAGTGAA
ACTTCAAAAACCCATCTTCCTGATGAGATATAGAAAAGTGAGTCAAAGCAATAAAACGGTCATAT
TCCTGACGAGATACAAAGAAGTGGACCAAATCCATCTTCCTGATGAGATACAAAGAAGTGGATTA
AAACAAATGATACAGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATAAAGTGAAA
CTCAATATGAGTGAAACTTCAAAACCCCATCTTCTTGATGAGATACTGAGAAGTGAGTCAAAGCA
ATAAAGCGA
Found at i:98334 original size:82 final size:83
Alignment explanation
Indices: 98169--98334 Score: 192
Period size: 82 Copynumber: 2.0 Consensus size: 83
98159 CTTCAAACCT
* * * * *
98169 CATCTTCCTGATGAGATATAGAGAAGTGGGTCGAATAATAAAGCGATCATCTTCCTAATGAAATA
1 CATCTTCCTAATGAGATACAGAGAAGTGGATCCAATAATAAA-CGATCATCTTCCTAATGAAACA
* *
98234 CAGAAAAGTGGACTAAATC
65 CAGAAAAGTAGACCAAATC
* ** *
98253 CATCTTCCTAATGAGATACAGAGAAGTGGATCACAATAATGAA-G-TGGTCTTCCTAATGAGACA
1 CATCTTCCTAATGAGATACAGAGAAGTGGATC-CAATAATAAACGATCATCTTCCTAATGAAACA
*
98316 CAGAGAAGTAGACCAAATC
65 CAGAAAAGTAGACCAAATC
98335 ATTGAAGCGA
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
82 31 0.45
83 1 0.01
84 29 0.42
85 8 0.12
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.23
Consensus pattern (83 bp):
CATCTTCCTAATGAGATACAGAGAAGTGGATCCAATAATAAACGATCATCTTCCTAATGAAACAC
AGAAAAGTAGACCAAATC
Found at i:98529 original size:85 final size:85
Alignment explanation
Indices: 98372--98542 Score: 227
Period size: 85 Copynumber: 2.0 Consensus size: 85
98362 ACTTCAAACC
* * * *
98372 CCATATTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGAGGTCATCTTCCTGATAAGA
1 CCATATTCCTGATGAGATACAGAGAAATGGATCAAAACAATAAAGAGATCATCTTCCTGATAAGA
* *
98437 TATAGAGAAGTGGACCAAAT
66 TACAGAGAAGTAGACCAAAT
* * * * *
98457 CCATCTTCTTGATGAGATACAGAGAAATGGATTAAAACAAT-GAGATGATCATCTTCCTGATGAG
1 CCATATTCCTGATGAGATACAGAGAAATGGATCAAAACAATAAAGA-GATCATCTTCCTGATAAG
98521 ATACAGAGAAGTAGACCAAAT
65 ATACAGAGAAGTAGACCAAAT
98542 C
1 C
98543 AATAAAGTGA
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
84 3 0.04
85 71 0.96
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (85 bp):
CCATATTCCTGATGAGATACAGAGAAATGGATCAAAACAATAAAGAGATCATCTTCCTGATAAGA
TACAGAGAAGTAGACCAAAT
Found at i:98683 original size:84 final size:85
Alignment explanation
Indices: 98583--98749 Score: 228
Period size: 85 Copynumber: 2.0 Consensus size: 85
98573 TCAATCCCCA
* * * * * *
98583 TCTTCTTGATGAGATACAAATAAATGAGTCGAATCAAT-AAGTGGTTATCTTCTTGATGAGATGC
1 TCTTCCTGATGAGATACAAATAAATGAATCGAAACAATGAAGTAGTCATCTTCTTGATGAGATAC
*
98647 AGAGAAGTGAACCAAATCCG
66 AGAGAAGTAAACCAAATCCG
* * * *
98667 TCTTCCTGATGAGATACAGATAAGTGAATTGAAACAATGAGGTAGTCATCTTCTTGATGAGATAC
1 TCTTCCTGATGAGATACAAATAAATGAATCGAAACAATGAAGTAGTCATCTTCTTGATGAGATAC
98732 AGAGAAGTAAACCAAATC
66 AGAGAAGTAAACCAAATC
98750 AATGAAGCAA
Statistics
Matches: 71, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
84 32 0.45
85 39 0.55
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (85 bp):
TCTTCCTGATGAGATACAAATAAATGAATCGAAACAATGAAGTAGTCATCTTCTTGATGAGATAC
AGAGAAGTAAACCAAATCCG
Found at i:98816 original size:41 final size:41
Alignment explanation
Indices: 98771--98855 Score: 161
Period size: 41 Copynumber: 2.1 Consensus size: 41
98761 GCTCAATGTG
98771 AGTGAAACTTCAAACCCCATCTTCCTGCTGAGGTACAGAGA
1 AGTGAAACTTCAAACCCCATCTTCCTGCTGAGGTACAGAGA
*
98812 AGTGAAACTTCAAACCCCATCTTCCTGCTGAGGTATAGAGA
1 AGTGAAACTTCAAACCCCATCTTCCTGCTGAGGTACAGAGA
98853 AGT
1 AGT
98856 ACACCGAGAG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.24
Consensus pattern (41 bp):
AGTGAAACTTCAAACCCCATCTTCCTGCTGAGGTACAGAGA
Found at i:100674 original size:30 final size:29
Alignment explanation
Indices: 100640--100991 Score: 136
Period size: 30 Copynumber: 11.9 Consensus size: 29
100630 TAAAATTTAT
* *
100640 ATTTTAACCCACGAACTTCTCCAAAATCAC
1 ATTTTAA-CCTCGAACTTTTCCAAAATCAC
* * *
100670 ATTTTGATCGTCGAACTTTTCCAAAATAAC
1 ATTTT-AACCTCGAACTTTTCCAAAATCAC
*
100700 ATTTTGAACCTCGAATTTTTCCAAAATCAC
1 ATTTT-AACCTCGAACTTTTCCAAAATCAC
* * * * * * *
100730 A-TTTATGCCCCTAAACCTTTCTAAAATTAT
1 ATTTTA-ACCTC-GAACTTTTCCAAAATCAC
* * * * * *
100760 ATTTTGACCCCAAACCTTTCTAAAATTAC
1 ATTTTAACCTCGAACTTTTCCAAAATCAC
* * *
100789 ATTTTAACCCTCAAACTTTTTCAAAATTAC
1 ATTTTAA-CCTCGAACTTTTCCAAAATCAC
** * * * *
100819 ATTTTAACCTTAAACTTTTTCAAACTTAT
1 ATTTTAACCTCGAACTTTTCCAAAATCAC
* ** * **
100848 ATTTTGACCTTTAAACTTCTT-TAAAATTGC
1 ATTTTAACC-TCGAACTT-TTCCAAAATCAC
* * * *
100878 A-TTTAACCCCAAAATTTTCCAAAATTAC
1 ATTTTAACCTCGAACTTTTCCAAAATCAC
**
100906 ATTTTAACCCTTAAACTTATT-CAAAATCAC
1 ATTTTAA-CCTCGAACTT-TTCCAAAATCAC
* * * * * *
100936 AATTTGACCCCAAACTTTTTCAAAATTAC
1 ATTTTAACCTCGAACTTTTCCAAAATCAC
* * *
100965 ATTTTTACCCCTAAACTTTTCCAAAAT
1 ATTTTAACCTC-GAACTTTTCCAAAAT
100992 TATGTTTTGA
Statistics
Matches: 258, Mismatches: 51, Indels: 26
0.77 0.15 0.08
Matches are distributed among these distances:
27 2 0.01
28 16 0.06
29 92 0.36
30 140 0.54
31 8 0.03
ACGTcount: A:0.36, C:0.24, G:0.03, T:0.38
Consensus pattern (29 bp):
ATTTTAACCTCGAACTTTTCCAAAATCAC
Found at i:100775 original size:29 final size:28
Alignment explanation
Indices: 100737--100993 Score: 167
Period size: 29 Copynumber: 8.7 Consensus size: 28
100727 CACATTTATG
* *
100737 CCCCTAAACCTTTCTAAAATTATATTTTGA
1 CCCC-AAA-CTTTCTAAAATTACATTTTAA
100767 CCCCAAACCTTTCTAAAATTACATTTTAA
1 CCCCAAA-CTTTCTAAAATTACATTTTAA
*
100796 CCCTCAAACTTTTTCAAAATTACATTTTAA
1 CCC-CAAACTTTCT-AAAATTACATTTTAA
** * * * *
100826 CCTTAAACTTTTTCAAACTTATATTTTGA
1 CCCCAAACTTTCT-AAAATTACATTTTAA
** * *
100855 CCTTTAAACTTCTTTAAAATTGCA-TTTAA
1 CC-CCAAACTT-TCTAAAATTACATTTTAA
* *
100884 CCCCAAAATTTTCCAAAATTACATTTTAA
1 CCCC-AAACTTTCTAAAATTACATTTTAA
* * * *
100913 CCCTTAAACTTAT-TCAAAATCACAATTTGA
1 CCC-CAAACTT-TCT-AAAATTACATTTTAA
* *
100943 CCCCAAACTTTTTCAAAATTACATTTTTA
1 CCCCAAACTTTCT-AAAATTACATTTTAA
*
100972 CCCCTAAACTTTTCCAAAATTA
1 CCCC-AAAC-TTTCTAAAATTA
100994 TGTTTTGACC
Statistics
Matches: 185, Mismatches: 30, Indels: 24
0.77 0.13 0.10
Matches are distributed among these distances:
28 10 0.05
29 103 0.56
30 66 0.36
31 6 0.03
ACGTcount: A:0.36, C:0.23, G:0.02, T:0.39
Consensus pattern (28 bp):
CCCCAAACTTTCTAAAATTACATTTTAA
Found at i:100815 original size:59 final size:59
Alignment explanation
Indices: 100747--101003 Score: 236
Period size: 59 Copynumber: 4.4 Consensus size: 59
100737 CCCCTAAACC
*
100747 TTTCTAAAATTATATTTTGACCCCAAACCTTTCT-AAAATTACATTTTAACCCTCAAACTT
1 TTTC-AAAATTACATTTTGACCCCAAA-CTTTCTCAAAATTACATTTTAACCCTCAAACTT
* ** * * * * * *
100807 TTTCAAAATTACATTTTAACCTTAAACTTTTTCAAACTTATATTTTGACCTTTAAACTT
1 TTTCAAAATTACATTTTGACCCCAAACTTTCTCAAAATTACATTTTAACCCTCAAACTT
* * * *
100866 CTTT-AAAATTGCA-TTTAACCCCAAAATTT-TCCAAAATTACATTTTAACCCTTAAACTT
1 -TTTCAAAATTACATTTTGACCCCAAACTTTCT-CAAAATTACATTTTAACCCTCAAACTT
* * * * *
100924 ATTCAAAATCACAATTTGACCCCAAACTTTTTCAAAATTACATTTTTACCC-CTAAACTT
1 TTTCAAAATTACATTTTGACCCCAAACTTTCTCAAAATTACATTTTAACCCTC-AAACTT
* **
100983 TTCCAAAATTATGTTTTGACC
1 TTTCAAAATTACATTTTGACC
101004 TCGCATTCTT
Statistics
Matches: 159, Mismatches: 31, Indels: 15
0.78 0.15 0.07
Matches are distributed among these distances:
57 3 0.02
58 48 0.30
59 100 0.63
60 8 0.05
ACGTcount: A:0.35, C:0.22, G:0.02, T:0.40
Consensus pattern (59 bp):
TTTCAAAATTACATTTTGACCCCAAACTTTCTCAAAATTACATTTTAACCCTCAAACTT
Found at i:100992 original size:30 final size:30
Alignment explanation
Indices: 100683--101003 Score: 248
Period size: 30 Copynumber: 10.9 Consensus size: 30
100673 TTGATCGTCG
* * *
100683 AACTTTTCCAAAATAACATTTTGA-ACCTCG
1 AACTTTTCCAAAATTACATTTTGACCCCT-A
* *
100713 AATTTTTCCAAAATCACATTTATG-CCCCTA
1 AACTTTTCCAAAATTACATTT-TGACCCCTA
* * *
100743 AACCTTTCTAAAATTATATTTTGACCCC-A
1 AACTTTTCCAAAATTACATTTTGACCCCTA
* * *
100772 AACCTTTCTAAAATTACATTTT-AACCCTCA
1 AACTTTTCCAAAATTACATTTTGACCCCT-A
* * *
100802 AACTTTTTCAAAATTACATTTT-AACCTTA
1 AACTTTTCCAAAATTACATTTTGACCCCTA
* * * **
100831 AACTTTTTCAAACTTATATTTTGACCTTTA
1 AACTTTTCCAAAATTACATTTTGACCCCTA
* * *
100861 AACTTCTT-TAAAATTGCA-TTTAACCCC-A
1 AACTT-TTCCAAAATTACATTTTGACCCCTA
* * *
100889 AAATTTTCCAAAATTACATTTTAACCCTTA
1 AACTTTTCCAAAATTACATTTTGACCCCTA
* *
100919 AACTTATT-CAAAATCACAATTTGACCCC-A
1 AACTT-TTCCAAAATTACATTTTGACCCCTA
* *
100948 AACTTTTTCAAAATTACATTTTTACCCCTA
1 AACTTTTCCAAAATTACATTTTGACCCCTA
**
100978 AACTTTTCCAAAATTATGTTTTGACC
1 AACTTTTCCAAAATTACATTTTGACC
101004 TCGCATTCTT
Statistics
Matches: 236, Mismatches: 42, Indels: 26
0.78 0.14 0.09
Matches are distributed among these distances:
27 2 0.01
28 19 0.08
29 82 0.35
30 124 0.53
31 9 0.04
ACGTcount: A:0.36, C:0.23, G:0.03, T:0.39
Consensus pattern (30 bp):
AACTTTTCCAAAATTACATTTTGACCCCTA
Found at i:103600 original size:60 final size:59
Alignment explanation
Indices: 103480--103640 Score: 162
Period size: 60 Copynumber: 2.7 Consensus size: 59
103470 ATCTTAAATA
* * ** * *
103480 TAAAATATTCAATAGATTTAGCCTTAATGTTTACAAGATTTATCATTTTAATTCGAATTC
1 TAAAA-ATTCAATAAATTTAGCCTCAAAATTTACAAAATTTATCAATTTAATTCGAATTC
* * *
103540 TAAAAGATTCAATAAAGTTAGCCTCAAAATTTACAAAATTTATCAATTTACTT-GTTATTC
1 TAAAA-ATTCAATAAATTTAGCCTCAAAATTTACAAAATTTATCAATTTAATTCG-AATTC
* * * *
103600 TAAAAAATCAATAAATTTAACTCTCAAATTTTATAAAATTT
1 TAAAAATTCAATAAATTTAGC-CTCAAAATTTACAAAATTT
103641 GACACATAAA
Statistics
Matches: 84, Mismatches: 15, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
59 14 0.17
60 70 0.83
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.40
Consensus pattern (59 bp):
TAAAAATTCAATAAATTTAGCCTCAAAATTTACAAAATTTATCAATTTAATTCGAATTC
Found at i:103766 original size:4 final size:4
Alignment explanation
Indices: 103759--103787 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
103749 CAAACGGATG
103759 GATA GATA GATA GATA GATA GATA GATA G
1 GATA GATA GATA GATA GATA GATA GATA G
103788 GTGTGTGAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.28, T:0.24
Consensus pattern (4 bp):
GATA
Found at i:104044 original size:14 final size:14
Alignment explanation
Indices: 104025--104068 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
104015 ATAAATTTTG
104025 TAAATTTTTAGGGA
1 TAAATTTTTAGGGA
104039 TAAA-TTTT---G-
1 TAAATTTTTAGGGA
104048 TAAATTTTTAGGGA
1 TAAATTTTTAGGGA
104062 TAAATTT
1 TAAATTT
104069 ATTGAATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 10
0.71 0.00 0.29
Matches are distributed among these distances:
9 4 0.16
10 5 0.20
13 5 0.20
14 11 0.44
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (14 bp):
TAAATTTTTAGGGA
Found at i:104079 original size:24 final size:23
Alignment explanation
Indices: 104014--104068 Score: 110
Period size: 23 Copynumber: 2.4 Consensus size: 23
104004 GAACTAAATT
104014 GATAAATTTTGTAAATTTTTAGG
1 GATAAATTTTGTAAATTTTTAGG
104037 GATAAATTTTGTAAATTTTTAGG
1 GATAAATTTTGTAAATTTTTAGG
104060 GATAAATTT
1 GATAAATTT
104069 ATTGAATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.47
Consensus pattern (23 bp):
GATAAATTTTGTAAATTTTTAGG
Found at i:104105 original size:84 final size:82
Alignment explanation
Indices: 103958--104112 Score: 224
Period size: 84 Copynumber: 1.9 Consensus size: 82
103948 ATAGTCAACA
* * *
103958 AAATTTTGTAAATTTTGAGTTAAATTTATTGAATTTTTTATAATTAGAACTAAATTGATAAATTT
1 AAATTTTGTAAATTTTGAGATAAATTTATTGAATTTTTTAGAATTAGAACTAAAATGATAAATTT
104023 TGTAAATTTTTAGGGAT
66 TGTAAATTTTTAGGGAT
*
104040 AAATTTTGTAAATTTTTAGGGATAAATTTATTGAATTTTTTAGAATTCA-AACTAAAATG-TCAA
1 AAATTTTGTAAA-TTTT-GAGATAAATTTATTGAATTTTTTAGAATT-AGAACTAAAATGAT-AA
104103 ATTTTGTAAA
62 ATTTTGTAAA
104113 CATTGAGTAC
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
82 12 0.18
83 5 0.08
84 47 0.72
85 1 0.02
ACGTcount: A:0.39, C:0.03, G:0.12, T:0.46
Consensus pattern (82 bp):
AAATTTTGTAAATTTTGAGATAAATTTATTGAATTTTTTAGAATTAGAACTAAAATGATAAATTT
TGTAAATTTTTAGGGAT
Found at i:105788 original size:7 final size:6
Alignment explanation
Indices: 105789--105826 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
105779 AACAAAGAAC
*
105789 AAAAAA AAAAAG AAAAA- AAAAAG AAAAAG AAAAA- AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA
105827 CTTCACAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
5 9 0.30
6 21 0.70
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:105806 original size:11 final size:11
Alignment explanation
Indices: 105790--105826 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
105780 ACAAAGAACA
105790 AAAAAAAAAAG
1 AAAAAAAAAAG
105801 AAAAAAAAAAG
1 AAAAAAAAAAG
105812 AAAAAGAAAAA-
1 AAAAA-AAAAAG
105823 AAAA
1 AAAA
105827 CTTCACAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 20 0.80
12 5 0.20
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:105815 original size:17 final size:17
Alignment explanation
Indices: 105776--105826 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
105766 TTACCGAATG
*
105776 AAGAACAAAG-AACAAAA
1 AAGAA-AAAGAAAAAAAA
105793 AA-AAAAAGAAAAAAAA
1 AAGAAAAAGAAAAAAAA
105809 AAGAAAAAGAAAAAAAA
1 AAGAAAAAGAAAAAAAA
105826 A
1 A
105827 CTTCACAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 4 0.13
16 10 0.32
17 17 0.55
ACGTcount: A:0.86, C:0.04, G:0.10, T:0.00
Consensus pattern (17 bp):
AAGAAAAAGAAAAAAAA
Done.