Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 35 of 279
Found at i:11931937 original size:13 final size:13
Alignment explanation
Indices: 11931919--11931944 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11931909 CTCAACAGGA
11931919 ACACGCCCGTGTG
1 ACACGCCCGTGTG
11931932 ACACGCCCGTGTG
1 ACACGCCCGTGTG
11931945 CGATATCTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
ACACGCCCGTGTG
Found at i:11935357 original size:13 final size:14
Alignment explanation
Indices: 11935331--11935359 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
11935321 ACTAACGATG
11935331 AATTAAACCATTAT
1 AATTAAACCATTAT
11935345 AATTAAA-CATTAT
1 AATTAAACCATTAT
11935358 AA
1 AA
11935360 ATATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:11938297 original size:244 final size:244
Alignment explanation
Indices: 11937868--11938355 Score: 967
Period size: 244 Copynumber: 2.0 Consensus size: 244
11937858 ACGACAATAA
11937868 GACGTCATTTGCATAGGAACCTAAACACGATATACAACATTATCAAAAGTTATAATTAAAGGTAT
1 GACGTCATTTGCATAGGAACCTAAACACGATATACAACATTATCAAAAGTTATAATTAAAGGTAT
11937933 AGAGGTGAATGAATGAATACGTTACAAATAAATTAGCACCTTTCTATAGGATACATCCATCGATA
66 AGAGGTGAATGAATGAATACGTTACAAATAAATTAGCACCTTTCTATAGGATACATCCATCGATA
11937998 GAAAATTGGTCCACCAAGTATTGCTTCACAAGGGAGATGGATTAGCAAGTGCACCATAATAGTGA
131 GAAAATTGGTCCACCAAGTATTGCTTCACAAGGGAGATGGATTAGCAAGTGCACCATAATAGTGA
*
11938063 AGAAGGAAGGTGGAAAGATCTTCTTCAAATTGCAAAAAGTCAAAGCGGC
196 AGAAGGAAGGTGGAAAGATCTTCTCCAAATTGCAAAAAGTCAAAGCGGC
11938112 GACGTCATTTGCATAGGAACCTAAACACGATATACAACATTATCAAAAGTTATAATTAAAGGTAT
1 GACGTCATTTGCATAGGAACCTAAACACGATATACAACATTATCAAAAGTTATAATTAAAGGTAT
11938177 AGAGGTGAATGAATGAATACGTTACAAATAAATTAGCACCTTTCTATAGGATACATCCATCGATA
66 AGAGGTGAATGAATGAATACGTTACAAATAAATTAGCACCTTTCTATAGGATACATCCATCGATA
11938242 GAAAATTGGTCCACCAAGTATTGCTTCACAAGGGAGATGGATTAGCAAGTGCACCATAATAGTGA
131 GAAAATTGGTCCACCAAGTATTGCTTCACAAGGGAGATGGATTAGCAAGTGCACCATAATAGTGA
11938307 AGAAGGAAGGTGGAAAGATCTTCTCCAAATTGCAAAAAGTCAAAGCGGC
196 AGAAGGAAGGTGGAAAGATCTTCTCCAAATTGCAAAAAGTCAAAGCGGC
11938356 TCAATCTTGT
Statistics
Matches: 243, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
244 243 1.00
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (244 bp):
GACGTCATTTGCATAGGAACCTAAACACGATATACAACATTATCAAAAGTTATAATTAAAGGTAT
AGAGGTGAATGAATGAATACGTTACAAATAAATTAGCACCTTTCTATAGGATACATCCATCGATA
GAAAATTGGTCCACCAAGTATTGCTTCACAAGGGAGATGGATTAGCAAGTGCACCATAATAGTGA
AGAAGGAAGGTGGAAAGATCTTCTCCAAATTGCAAAAAGTCAAAGCGGC
Found at i:11941187 original size:29 final size:30
Alignment explanation
Indices: 11941154--11941222 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 30
11941144 AAACCCTAAC
* *
11941154 CCCTAAACTCCTAAATCTTAAA-C-CACAAA
1 CCCTAAACTCATAAATCCTAAATCTCA-AAA
*
11941183 TCCTAAACT-ATAAATCCTAAATCTCAAAA
1 CCCTAAACTCATAAATCCTAAATCTCAAAA
11941212 CCCTAAACTCA
1 CCCTAAACTCA
11941223 AACCCTTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
28 10 0.30
29 20 0.61
30 3 0.09
ACGTcount: A:0.45, C:0.32, G:0.00, T:0.23
Consensus pattern (30 bp):
CCCTAAACTCATAAATCCTAAATCTCAAAA
Found at i:11941204 original size:21 final size:20
Alignment explanation
Indices: 11941155--11941205 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 20
11941145 AACCCTAACC
11941155 CCTAAACTCCTAAATCTTAAA
1 CCTAAA-TCCTAAATCTTAAA
*
11941176 CCACAAATCCTAAA-CTATAAA
1 CC-TAAATCCTAAATCT-TAAA
11941197 TCCTAAATC
1 -CCTAAATC
11941206 TCAAAACCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 2 0.08
21 18 0.72
22 5 0.20
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.25
Consensus pattern (20 bp):
CCTAAATCCTAAATCTTAAA
Found at i:11942311 original size:115 final size:116
Alignment explanation
Indices: 11942190--11942443 Score: 286
Period size: 115 Copynumber: 2.2 Consensus size: 116
11942180 GTTGAGCAAA
* * *
11942190 TTTTTTTGCGGCGTTTTT-GAAAAAGCGCCGCTAATGCTCAATCTATAGCAGCAATTTTCAAAAC
1 TTTTTTTGCAGCATTTTTCG-AAAAGCGCCGCTAATGCTCAATCTATAGCAGCAATTTTCAAAAA
* * *
11942254 G-TCGCTAA-AGCCACTAAAGCTCGACATAAAACAAAGGACGTTGTGTTTAAT
65 GCACCCTAATA-CCACTAAAGCTCAACATAAAACAAAGGACGTTGTGTTTAAT
* * * **
11942305 TTTTTTTGCAGCATTTTTCGAAAAGCGCCGCTAATGGTCAATTTATAGCGGCGTTTTTCAAAAAG
1 TTTTTTTGCAGCATTTTTCGAAAAGCGCCGCTAATGCTCAATCTATAGCAGCAATTTTCAAAAAG
* * * * *
11942370 CACCCTAATACCACTAAAGCTCAACATAAAAC-GACGTCATTGTGCTTAAT
66 CACCCTAATACCACTAAAGCTCAACATAAAACAAAGGACGTTGTGTTTAAT
* *
11942420 TTTTTTCG-A-CATTTTTCAAAAAGC
1 TTTTTTTGCAGCATTTTTCGAAAAGC
11942444 ACGTCGACCT
Statistics
Matches: 118, Mismatches: 18, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
113 14 0.12
114 1 0.01
115 75 0.64
116 27 0.23
117 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.32
Consensus pattern (116 bp):
TTTTTTTGCAGCATTTTTCGAAAAGCGCCGCTAATGCTCAATCTATAGCAGCAATTTTCAAAAAG
CACCCTAATACCACTAAAGCTCAACATAAAACAAAGGACGTTGTGTTTAAT
Found at i:11943777 original size:26 final size:26
Alignment explanation
Indices: 11943748--11943985 Score: 404
Period size: 26 Copynumber: 9.2 Consensus size: 26
11943738 TTATACAAAT
*
11943748 TGATAATGGGTTAGGCAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
11943774 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11943800 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
11943826 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11943852 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
11943878 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
11943904 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11943930 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
11943956 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11943982 TGAT
1 TGAT
11943986 GGGAATTTCA
Statistics
Matches: 200, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 200 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:11946337 original size:55 final size:56
Alignment explanation
Indices: 11946252--11946365 Score: 194
Period size: 55 Copynumber: 2.1 Consensus size: 56
11946242 TTTTCAAAAA
*
11946252 AAAAAAACAACAATTGATATCAAAATAACACGACAACAAGCAAAGCTTCCGCAATG
1 AAAAAAACAACAATTGATATCAAAACAACACGACAACAAGCAAAGCTTCCGCAATG
* *
11946308 AAAAAAA-AACAATTGATTTCAAAACAACACGACAATAAGCAAAGCTTCCGCAATG
1 AAAAAAACAACAATTGATATCAAAACAACACGACAACAAGCAAAGCTTCCGCAATG
11946363 AAA
1 AAA
11946366 GTATTTTCCA
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
55 48 0.87
56 7 0.13
ACGTcount: A:0.54, C:0.20, G:0.11, T:0.15
Consensus pattern (56 bp):
AAAAAAACAACAATTGATATCAAAACAACACGACAACAAGCAAAGCTTCCGCAATG
Found at i:11949564 original size:53 final size:53
Alignment explanation
Indices: 11949484--11949589 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
11949474 GTAGGGAAAT
11949484 GTCTGACATGCCAACAAGTGAAAGCTGAGCATCAATTACCCTCTGGACTGTTA
1 GTCTGACATGCCAACAAGTGAAAGCTGAGCATCAATTACCCTCTGGACTGTTA
*
11949537 GTCTGACATGCCAGCAAGTGAAAGCTGAGCATCAATTACCCTCTGGACTGTTA
1 GTCTGACATGCCAACAAGTGAAAGCTGAGCATCAATTACCCTCTGGACTGTTA
11949590 CAGTCAGTGA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.25
Consensus pattern (53 bp):
GTCTGACATGCCAACAAGTGAAAGCTGAGCATCAATTACCCTCTGGACTGTTA
Found at i:11954776 original size:14 final size:15
Alignment explanation
Indices: 11954757--11954785 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
11954747 AAATCTTATT
11954757 TGAATATATG-CATG
1 TGAATATATGTCATG
11954771 TGAATATATGTCATG
1 TGAATATATGTCATG
11954786 AACTTGGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.34, C:0.07, G:0.21, T:0.38
Consensus pattern (15 bp):
TGAATATATGTCATG
Found at i:11956157 original size:13 final size:13
Alignment explanation
Indices: 11956139--11956170 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
11956129 TTATTATTTG
11956139 ACCTATGAATTGA
1 ACCTATGAATTGA
11956152 ACCTATGAATTGA
1 ACCTATGAATTGA
*
11956165 GCCTAT
1 ACCTAT
11956171 AAATAGGCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (13 bp):
ACCTATGAATTGA
Found at i:11957388 original size:60 final size:59
Alignment explanation
Indices: 11957261--11957404 Score: 157
Period size: 60 Copynumber: 2.4 Consensus size: 59
11957251 TTTAGTGTTA
* *
11957261 ACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTAACAGAGTAT
1 ACTGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGT-ACAGAGTAT
* * *
11957322 ACTGGGCCTAGCCCATGTCAGTATCAATCTGGGCCGTAGCCCTATTACAAGT-C-GAGATAT
1 ACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTAC-AGTACAGAG-TAT
* * *
11957382 ATTGGGCCTTGCCCATATTAATA
1 ACTGGGCCTAGCCCATATCAATA
11957405 CAGTTGGACC
Statistics
Matches: 70, Mismatches: 10, Indels: 7
0.80 0.11 0.08
Matches are distributed among these distances:
59 3 0.04
60 52 0.74
61 12 0.17
62 3 0.04
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (59 bp):
ACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGTACAGAGTAT
Found at i:11961170 original size:40 final size:40
Alignment explanation
Indices: 11961107--11961190 Score: 96
Period size: 40 Copynumber: 2.1 Consensus size: 40
11961097 AAAATAGAAT
* * * * *
11961107 AGATCGAGTATTAGAGGCGTTTTTATGAAAGCGCCACTAA
1 AGATCGAGCATTAGAGACATTTTTAAGAAAGCACCACTAA
* * *
11961147 AGATCGAGCATTAGCGACATTTTTAAGGAAGCACCGCTAA
1 AGATCGAGCATTAGAGACATTTTTAAGAAAGCACCACTAA
11961187 AGAT
1 AGAT
11961191 TGACCTATAG
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.25
Consensus pattern (40 bp):
AGATCGAGCATTAGAGACATTTTTAAGAAAGCACCACTAA
Found at i:11962076 original size:14 final size:14
Alignment explanation
Indices: 11962057--11962144 Score: 52
Period size: 14 Copynumber: 6.3 Consensus size: 14
11962047 AATAACCCTT
*
11962057 TAAATCTTAAACCC
1 TAAATCTTAAACCA
* *
11962071 TAAATC-TATAATCG
1 TAAATCTTA-AACCA
* **
11962085 TAAATCATAAATTA
1 TAAATCTTAAACCA
* *
11962099 TAAACCTTAAACCC
1 TAAATCTTAAACCA
* *
11962113 TAAATATTAAACCT
1 TAAATCTTAAACCA
* *
11962127 TGAATCCTAAACCA
1 TAAATCTTAAACCA
11962141 TAAA
1 TAAA
11962145 ACCCTAAACT
Statistics
Matches: 55, Mismatches: 17, Indels: 4
0.72 0.22 0.05
Matches are distributed among these distances:
13 2 0.04
14 51 0.93
15 2 0.04
ACGTcount: A:0.48, C:0.20, G:0.02, T:0.30
Consensus pattern (14 bp):
TAAATCTTAAACCA
Found at i:11962088 original size:21 final size:21
Alignment explanation
Indices: 11962057--11962117 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
11962047 AATAACCCTT
11962057 TAAATCTTAAACCCTAAATCTA
1 TAAATCTTAAACCCTAAAT-TA
* * *
11962079 T-AATCGTAAATCATAAATTA
1 TAAATCTTAAACCCTAAATTA
*
11962099 TAAACCTTAAACCCTAAAT
1 TAAATCTTAAACCCTAAAT
11962118 ATTAAACCTT
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
20 3 0.10
21 27 0.87
22 1 0.03
ACGTcount: A:0.48, C:0.20, G:0.02, T:0.31
Consensus pattern (21 bp):
TAAATCTTAAACCCTAAATTA
Found at i:11962123 original size:21 final size:21
Alignment explanation
Indices: 11962056--11962188 Score: 63
Period size: 21 Copynumber: 6.0 Consensus size: 21
11962046 CAATAACCCT
*
11962056 TTAAATCTTAAACCCTAAAT-
1 TTAAACCTTAAACCCTAAATA
* * * * *
11962076 CTATAATCGTAAATCATAAAT-
1 TTA-AACCTTAAACCCTAAATA
11962097 TATAAACCTTAAACCCTAAATA
1 T-TAAACCTTAAACCCTAAATA
* * *
11962119 TTAAACCTTGAATCCTAAACCA
1 TTAAACCTTAAACCCTAAA-TA
* * **
11962141 TAAAACCCTAAACTATAAATA
1 TTAAACCTTAAACCCTAAATA
11962162 GTACTAAACCCTTAAACCCTTAAATA
1 -T--TAAA-CCTTAAACCC-TAAATA
11962188 T
1 T
11962189 AGATTCCTAA
Statistics
Matches: 81, Mismatches: 23, Indels: 13
0.69 0.20 0.11
Matches are distributed among these distances:
20 2 0.02
21 44 0.54
22 18 0.22
24 3 0.04
25 8 0.10
26 6 0.07
ACGTcount: A:0.47, C:0.22, G:0.02, T:0.29
Consensus pattern (21 bp):
TTAAACCTTAAACCCTAAATA
Found at i:11962280 original size:21 final size:21
Alignment explanation
Indices: 11962245--11962302 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
11962235 ATTATAAAAC
*
11962245 ATCTTAAAACTATAAACCCTAA
1 ATCTT-AAACCATAAACCCTAA
11962267 ATCTTAAACCATAAACCCTAA
1 ATCTTAAACCATAAACCCTAA
**
11962288 ATCCAAAACCATAAA
1 ATCTTAAACCATAAA
11962303 ACCTTAAACT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
21 28 0.85
22 5 0.15
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.22
Consensus pattern (21 bp):
ATCTTAAACCATAAACCCTAA
Found at i:11962666 original size:3 final size:3
Alignment explanation
Indices: 11962658--11962689 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
11962648 ATTAATAGTA
11962658 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
11962690 AAGAGAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:11963068 original size:188 final size:187
Alignment explanation
Indices: 11962790--11963148 Score: 483
Period size: 188 Copynumber: 1.9 Consensus size: 187
11962780 TTGAAGCTTT
* *
11962790 GTTATTAGTGGCGTTTCTAAAAAACGCCACAAAACATCTATTAAGAGAATGTAAAACGGCATCGT
1 GTTATTAGTGGCGCTTCTAAAAAACGCCACAAAACATCTA-TAAGAGAATCTAAAACGGCATCGT
* * * ** *
11962855 TTACATCCTTCTTATTAGTGGCGCTTCTATAAACGCCGCAAAAGGTGTGATTTACCGGCGTTTTC
65 TTACAGCCTTCTTATTAGTGGCGCTTCTATAAACGCCACAAAAGATGTGAAATACAGGCGTTTTC
* * *
11962920 ACTAGAAAACGCCACAAACATCTATTAGTAGATTGCA-AAACGACGTTGTTATTACCAA
130 ACTAG-AAACACCACAAAAATCTATTAATAGATTGCAGAAACGACGTTGTTATTACCAA
* *
11962978 GTTATTAGTGGCGCTTCTTGGAAAAACGCCACAAAACATCTA-AAGAG-ATCTCAAAACGTCATC
1 GTTATTAGTGGCGCTTC-T-AAAAAACGCCACAAAACATCTATAAGAGAATCT-AAAACGGCATC
* * *
11963041 ATTTTATAGCCTT-TTATTAGTGGCGCTTTTATAAACGCCACAAAAGATGTGAAATACAGGCGTT
63 -GTTTACAGCCTTCTTATTAGTGGCGCTTCTATAAACGCCACAAAAGATGTGAAATACAGGCGTT
*
11963105 TTCGCTAGAAACACCACAAAAATCTATTAATAGATTGCAGAAAC
127 TTCACTAGAAACACCACAAAAATCTATTAATAGATTGCAGAAAC
11963149 TGCGTCATTT
Statistics
Matches: 149, Mismatches: 17, Indels: 10
0.85 0.10 0.06
Matches are distributed among these distances:
187 31 0.21
188 87 0.58
189 10 0.07
190 21 0.14
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (187 bp):
GTTATTAGTGGCGCTTCTAAAAAACGCCACAAAACATCTATAAGAGAATCTAAAACGGCATCGTT
TACAGCCTTCTTATTAGTGGCGCTTCTATAAACGCCACAAAAGATGTGAAATACAGGCGTTTTCA
CTAGAAACACCACAAAAATCTATTAATAGATTGCAGAAACGACGTTGTTATTACCAA
Found at i:11965923 original size:2 final size:2
Alignment explanation
Indices: 11965916--11965951 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
11965906 CTGAAAGACA
* *
11965916 AT AT AT AT AA AT AT AT AT AT TT 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
11965952 TACCTTTCGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11966914 original size:22 final size:23
Alignment explanation
Indices: 11966881--11966927 Score: 87
Period size: 22 Copynumber: 2.1 Consensus size: 23
11966871 CAATCTTATT
11966881 TTAATTAATATAATTTGGATTAA
1 TTAATTAATATAATTTGGATTAA
11966904 TTAA-TAATATAATTTGGATTAA
1 TTAATTAATATAATTTGGATTAA
11966926 TT
1 TT
11966928 TATTTAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 20 0.83
23 4 0.17
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.49
Consensus pattern (23 bp):
TTAATTAATATAATTTGGATTAA
Found at i:11966943 original size:15 final size:15
Alignment explanation
Indices: 11966925--11966979 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
11966915 ATTTGGATTA
*
11966925 ATTTATTTAAATATT
1 ATTTAATTAAATATT
11966940 ATTTAATTAATATAATT
1 ATTTAATTAA-AT-ATT
11966957 -TTT-A-TAAATATT
1 ATTTAATTAAATATT
11966969 ATTTAATTAAA
1 ATTTAATTAAA
11966980 ATAAATTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
12 3 0.09
13 5 0.15
14 4 0.12
15 14 0.41
16 5 0.15
17 3 0.09
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTTAATTAAATATT
Found at i:11966951 original size:14 final size:14
Alignment explanation
Indices: 11966934--11966978 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
11966924 AATTTATTTA
11966934 AATATTATTTAATT
1 AATATTATTTAATT
* * *
11966948 AATATAATTTTTATA
1 AATATTA-TTTAATT
11966963 AATATTATTTAATT
1 AATATTATTTAATT
11966977 AA
1 AA
11966979 AATAAATTTT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
AATATTATTTAATT
Found at i:11966957 original size:29 final size:29
Alignment explanation
Indices: 11966923--11966989 Score: 100
Period size: 29 Copynumber: 2.3 Consensus size: 29
11966913 TAATTTGGAT
*
11966923 TAATTTATT-TAAATATTATTTAATTAATA
1 TAATTT-TTATAAATATTATTTAATTAAAA
11966952 TAATTTTTATAAATATTATTTAATTAAAA
1 TAATTTTTATAAATATTATTTAATTAAAA
11966981 TAAATTTTT
1 T-AATTTTT
11966990 TTCCATGTGA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
28 2 0.06
29 26 0.74
30 7 0.20
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (29 bp):
TAATTTTTATAAATATTATTTAATTAAAA
Found at i:11967276 original size:9 final size:9
Alignment explanation
Indices: 11967259--11967488 Score: 241
Period size: 9 Copynumber: 26.7 Consensus size: 9
11967249 TATATACTTG
11967259 AACTTACAT
1 AACTTACAT
*
11967268 AACTCACAT
1 AACTTACAT
11967277 AACTTACAT
1 AACTTACAT
11967286 AACTTACAT
1 AACTTACAT
*
11967295 AACTCACAT
1 AACTTACAT
11967304 AAC-T---T
1 AACTTACAT
11967309 -ACTTACAT
1 AACTTACAT
*
11967317 AACTCACAT
1 AACTTACAT
11967326 AACTTACAT
1 AACTTACAT
11967335 AACTTACAT
1 AACTTACAT
11967344 AACTTACAT
1 AACTTACAT
11967353 -ACTTACAT
1 AACTTACAT
*
11967361 AAACTTATAT
1 -AACTTACAT
11967371 AACTTACAT
1 AACTTACAT
*
11967380 AACTCACAT
1 AACTTACAT
*
11967389 AACTCACAT
1 AACTTACAT
11967398 AACTTACAT
1 AACTTACAT
11967407 AACTT--AT
1 AACTTACAT
*
11967414 -ATTTACAT
1 AACTTACAT
11967422 AACTTACAT
1 AACTTACAT
*
11967431 AATTTACAT
1 AACTTACAT
11967440 AACTTACAT
1 AACTTACAT
*
11967449 TA--TACAT
1 AACTTACAT
* *
11967456 AA-ATATAT
1 AACTTACAT
* *
11967464 ATCATATCAT
1 AACTTA-CAT
11967474 AACTTACAT
1 AACTTACAT
11967483 AACTTA
1 AACTTA
11967489 ATTAGAGTTA
Statistics
Matches: 187, Mismatches: 21, Indels: 26
0.80 0.09 0.11
Matches are distributed among these distances:
4 2 0.01
5 2 0.01
6 3 0.02
7 8 0.04
8 16 0.09
9 143 0.76
10 13 0.07
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.34
Consensus pattern (9 bp):
AACTTACAT
Found at i:11976308 original size:371 final size:371
Alignment explanation
Indices: 11975901--11976643 Score: 1486
Period size: 371 Copynumber: 2.0 Consensus size: 371
11975891 TTTAATGATT
11975901 TGGAAATTTAAGTTTTACTTTTACTTTTTTTATGGTTTGAGAATTTAGGTTTTACTTTTAGTTTT
1 TGGAAATTTAAGTTTTACTTTTACTTTTTTTATGGTTTGAGAATTTAGGTTTTACTTTTAGTTTT
11975966 TTATTATTAATGTTCAATGTTATTATTATCATTATCTTTATATTAATTTTTAATTTAAAATTGTT
66 TTATTATTAATGTTCAATGTTATTATTATCATTATCTTTATATTAATTTTTAATTTAAAATTGTT
11976031 TTATTTTTTATTTAGGTTGAGTTTTAAATAAATATTAAATTGGGCCTAGGTTTGAGTTTGGGTTT
131 TTATTTTTTATTTAGGTTGAGTTTTAAATAAATATTAAATTGGGCCTAGGTTTGAGTTTGGGTTT
11976096 AGTTGGTATTGGGTTTGAGTTTAAATACATATTATATTTAATAAGTGTAAAGTTGGTTAATTTAC
196 AGTTGGTATTGGGTTTGAGTTTAAATACATATTATATTTAATAAGTGTAAAGTTGGTTAATTTAC
11976161 TTTAAACGATTTTAAATTTTAAAATTAAAATCGAACCGACAACATCAGATCAACTAGTTACCTAA
261 TTTAAACGATTTTAAATTTTAAAATTAAAATCGAACCGACAACATCAGATCAACTAGTTACCTAA
11976226 CCTTACCTTGATCTATATATATAAACTATTAATATATTATATATAA
326 CCTTACCTTGATCTATATATATAAACTATTAATATATTATATATAA
11976272 TGGAAATTTAAGTTTTACTTTTACTTTTTTTATGGTTTGAGAATTTAGGTTTTACTTTTAGTTTT
1 TGGAAATTTAAGTTTTACTTTTACTTTTTTTATGGTTTGAGAATTTAGGTTTTACTTTTAGTTTT
11976337 TTATTATTAATGTTCAATGTTATTATTATCATTATCTTTATATTAATTTTTAATTTAAAATTGTT
66 TTATTATTAATGTTCAATGTTATTATTATCATTATCTTTATATTAATTTTTAATTTAAAATTGTT
11976402 TTATTTTTTATTTAGGTTGAGTTTTAAATAAATATTAAATTGGGCCTAGGTTTGAGTTTGGGTTT
131 TTATTTTTTATTTAGGTTGAGTTTTAAATAAATATTAAATTGGGCCTAGGTTTGAGTTTGGGTTT
11976467 AGTTGGTATTGGGTTTGAGTTTAAATACATATTATATTTAATAAGTGTAAAGTTGGTTAATTTAC
196 AGTTGGTATTGGGTTTGAGTTTAAATACATATTATATTTAATAAGTGTAAAGTTGGTTAATTTAC
11976532 TTTAAACGATTTTAAATTTTAAAATTAAAATCGAACCGACAACATCAGATCAACTAGTTACCTAA
261 TTTAAACGATTTTAAATTTTAAAATTAAAATCGAACCGACAACATCAGATCAACTAGTTACCTAA
11976597 CCTTACCTTGATCTATATATATAAACTATTAATATATTATATATAA
326 CCTTACCTTGATCTATATATATAAACTATTAATATATTATATATAA
11976643 T
1 T
11976644 ATGATAGCAT
Statistics
Matches: 372, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
371 372 1.00
ACGTcount: A:0.32, C:0.07, G:0.12, T:0.48
Consensus pattern (371 bp):
TGGAAATTTAAGTTTTACTTTTACTTTTTTTATGGTTTGAGAATTTAGGTTTTACTTTTAGTTTT
TTATTATTAATGTTCAATGTTATTATTATCATTATCTTTATATTAATTTTTAATTTAAAATTGTT
TTATTTTTTATTTAGGTTGAGTTTTAAATAAATATTAAATTGGGCCTAGGTTTGAGTTTGGGTTT
AGTTGGTATTGGGTTTGAGTTTAAATACATATTATATTTAATAAGTGTAAAGTTGGTTAATTTAC
TTTAAACGATTTTAAATTTTAAAATTAAAATCGAACCGACAACATCAGATCAACTAGTTACCTAA
CCTTACCTTGATCTATATATATAAACTATTAATATATTATATATAA
Found at i:11977988 original size:3 final size:3
Alignment explanation
Indices: 11977980--11978035 Score: 85
Period size: 3 Copynumber: 18.7 Consensus size: 3
11977970 TAAATGAGAA
* *
11977980 AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT AAC AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
11978028 AAC AAT AA
1 AAT AAT AA
11978036 CGAGAAAGAT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:11978115 original size:3 final size:3
Alignment explanation
Indices: 11978102--11978144 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
11978092 ATCATAGTAT
* * * *
11978102 ATA AAA ATA ATA ATA ATA ATA ATA GTA GTA ATA ATA TTA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
11978145 AAAAAGTGTA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:11979081 original size:177 final size:177
Alignment explanation
Indices: 11978776--11979732 Score: 1583
Period size: 177 Copynumber: 5.4 Consensus size: 177
11978766 CGGGCTCTCT
* * * ** * *
11978776 TACATAGAGATAAGACTCGCCATCTTTGATCTACTCCATTACTGCTTAGGGAGATAAGATCTGTA
1 TACATGGAAATAAGACTCGCCATCTTTGATCTGCTCCGCTACTGCTCAGGGAGATAAGATCTATA
* * * *
11978841 ATTTTCAGTCTGCTTCCTTGCTACCTCAAGAAGATAAGACTTGTATCTTCAACATACTCTCTTGC
66 ATTTTCAGTCCGCTTCTTTGCTACCTCAAGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGC
11978906 TACATCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATACCCGA
131 TACATCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATACCCGA
11978953 TACATGGAAATAAGACTCGCCATCTTTGATCTGCTCCGCTACTGCTCAGGGAGATAAGATCTATA
1 TACATGGAAATAAGACTCGCCATCTTTGATCTGCTCCGCTACTGCTCAGGGAGATAAGATCTATA
11979018 ATTTTCAGTCCGCTTCTTTGCTACCTCAAGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGC
66 ATTTTCAGTCCGCTTCTTTGCTACCTCAAGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGC
11979083 TACATCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATACCCGA
131 TACATCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATACCCGA
11979130 TACATGGAAATAAGACTCGCCATCTTTGATCTGCTCCGCTACTGCTCAGGGAGATAAGATCTATA
1 TACATGGAAATAAGACTCGCCATCTTTGATCTGCTCCGCTACTGCTCAGGGAGATAAGATCTATA
11979195 ATTTTCAGTCCGCTTCTTTGCTACCTCAAGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGC
66 ATTTTCAGTCCGCTTCTTTGCTACCTCAAGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGC
11979260 TACATCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATACCCGA
131 TACATCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATACCCGA
11979307 TACATGGAAATAAGACTCGCCATCTTTGATCTGCTCCGCTACTGCTCAGGGAGATAAGATCTATA
1 TACATGGAAATAAGACTCGCCATCTTTGATCTGCTCCGCTACTGCTCAGGGAGATAAGATCTATA
11979372 ATTTTCAGTCCGCTTCTTTGCTACCTCAAGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGC
66 ATTTTCAGTCCGCTTCTTTGCTACCTCAAGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGC
* * *
11979437 TACATCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTTCATAGCTGA
131 TACATCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATACCCGA
* * * * *
11979484 TACATGGAGATAAGACTCGCCATCTTTGATCTGCTCCGCTACTGCTTAGAGAGATGAGATCTGTA
1 TACATGGAAATAAGACTCGCCATCTTTGATCTGCTCCGCTACTGCTCAGGGAGATAAGATCTATA
* ** * *
11979549 ATTTTCAATTAGCTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGC
66 ATTTTCAGTCCGCTTCTTTGCTACCTCAAGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGC
* * * * *
11979614 TACATCAGAGAGATAAGGTTGGCGGCTAAAATTTGCTTCATAGCCGA
131 TACATCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATACCCGA
* * * * * *
11979661 TACATGGAGATAAGACTTGCCAT-TTTCTATCTGCTCCACTACTGCTTAGGGAGATAAGATATAT
1 TACATGGAAATAAGACTCGCCATCTTT-GATCTGCTCCGCTACTGCTCAGGGAGATAAGATCTAT
11979725 AATTTTCA
65 AATTTTCA
11979733 CCGATGTTGC
Statistics
Matches: 744, Mismatches: 35, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
176 3 0.00
177 741 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (177 bp):
TACATGGAAATAAGACTCGCCATCTTTGATCTGCTCCGCTACTGCTCAGGGAGATAAGATCTATA
ATTTTCAGTCCGCTTCTTTGCTACCTCAAGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGC
TACATCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATACCCGA
Found at i:11979451 original size:44 final size:44
Alignment explanation
Indices: 11979389--11979630 Score: 112
Period size: 44 Copynumber: 5.5 Consensus size: 44
11979379 GTCCGCTTCT
*
11979389 TTGCTACCTCA-AGAAGATAAGACTTGTATCTTCAACCTGCTCTC
1 TTGCTACATCAGAG-AGATAAGACTTGTATCTTCAACCTGCTCTC
* * ** ** *
11979433 TTGCTACATCAGAGAGATAAGGCTGGTGGCTAAAATCTGCT-TC
1 TTGCTACATCAGAGAGATAAGACTTGTATCTTCAACCTGCTCTC
* * * * ** *
11979476 ATAGCT-GATACATG-GAGATAAGACTCGCCATCTTTGATCTGCTC-C
1 -TTGCTACAT-CA-GAGAGATAAGACTTG-TATCTTCAACCTGCTCTC
* * *
11979521 --GCTAC-TGCTTAGAGAGATGAGA-TCTGTAATTTTCAA-TTAGCT-TCC
1 TTGCTACAT-C--AGAGAGATAAGACT-TGT-ATCTTCAACCT-GCTCT-C
*
11979566 TTGCTACCTCAG-GAAGATAAGACTTGTATCTTCAACCTGCTCTC
1 TTGCTACATCAGAG-AGATAAGACTTGTATCTTCAACCTGCTCTC
11979610 TTGCTACATCAGAGAGATAAG
1 TTGCTACATCAGAGAGATAAG
11979631 GTTGGCGGCT
Statistics
Matches: 144, Mismatches: 31, Indels: 46
0.65 0.14 0.21
Matches are distributed among these distances:
42 5 0.03
43 7 0.05
44 95 0.66
45 29 0.20
46 1 0.01
47 6 0.04
48 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (44 bp):
TTGCTACATCAGAGAGATAAGACTTGTATCTTCAACCTGCTCTC
Found at i:11983275 original size:79 final size:81
Alignment explanation
Indices: 11983173--11983356 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
11983163 GCTCCTCGTT
* *
11983173 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
*
11983235 CGGAT-TTAGTAAC-TCGCA
63 CGGATATT-GTAACTTAGCA
**
11983253 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
*
11983317 ATATTGTCACTTAGCA
66 ATATTGTAACTTAGCA
11983333 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
11983357 CATCATTCAA
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 14 0.15
79 56 0.61
80 22 0.24
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATTGTAACTTAGCA
Found at i:11983290 original size:39 final size:41
Alignment explanation
Indices: 11983173--11983356 Score: 199
Period size: 40 Copynumber: 4.6 Consensus size: 41
11983163 GCTCCTCGTT
* *
11983173 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAATCTCGCA
* *
11983213 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAA-CTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
11983253 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
* * *
11983292 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAATC-TCGCA
11983333 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
11983357 CATCATTCAA
Statistics
Matches: 128, Mismatches: 7, Indels: 19
0.83 0.05 0.12
Matches are distributed among these distances:
38 3 0.02
39 48 0.38
40 66 0.52
41 11 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
Found at i:11988560 original size:25 final size:25
Alignment explanation
Indices: 11988531--11988578 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
11988521 TTATAATATG
* *
11988531 AAAATGACCATTTTTCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
11988556 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
11988579 GTTTATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:11988629 original size:9 final size:9
Alignment explanation
Indices: 11988617--11988673 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
11988607 TTTGATAAAC
11988617 ATGATATGT
1 ATGATATGT
*
11988626 ATGATATGCAC
1 ATGATATG--T
*
11988637 ATGACATGT
1 ATGATATGT
*
11988646 ATGATATGCAC
1 ATGATATG--T
11988657 ATGATATGT
1 ATGATATGT
11988666 ATGATATG
1 ATGATATG
11988674 CACACGACAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:11988640 original size:20 final size:20
Alignment explanation
Indices: 11988615--11988677 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
11988605 ATTTTGATAA
11988615 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
11988635 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
11988655 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
11988675 ACA
1 ACA
11988678 CGACATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:11988685 original size:20 final size:20
Alignment explanation
Indices: 11988615--11988685 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
11988605 ATTTTGATAA
*
11988615 ACATGATATGTATGATATGC
1 ACATGACATGTATGATATGC
11988635 ACATGACATGTATGATATGC
1 ACATGACATGTATGATATGC
*
11988655 ACATGATATGTATGATATGC
1 ACATGACATGTATGATATGC
*
11988675 ACACGACATGT
1 ACATGACATGT
11988686 TCATAAATGC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (20 bp):
ACATGACATGTATGATATGC
Found at i:11988758 original size:24 final size:24
Alignment explanation
Indices: 11988731--11988825 Score: 140
Period size: 24 Copynumber: 4.0 Consensus size: 24
11988721 GAGGAAGTGC
11988731 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
11988755 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
11988779 -AAAGGGCTTATGCCCCAGCTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
11988802 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
11988826 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
23 22 0.34
24 33 0.51
25 10 0.15
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:11988786 original size:23 final size:23
Alignment explanation
Indices: 11988732--11988804 Score: 128
Period size: 23 Copynumber: 3.1 Consensus size: 23
11988722 AGGAAGTGCA
11988732 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
11988755 AAAAGGGCTTATGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
*
11988779 AAAGGGCTTATGCCCCAGCTATT
1 AAAGGGCTTATGCCCCAGTTATT
11988802 AAA
1 AAA
11988805 AGAGGCTAGG
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
23 25 0.52
24 23 0.48
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:11988802 original size:47 final size:48
Alignment explanation
Indices: 11988732--11988825 Score: 147
Period size: 47 Copynumber: 2.0 Consensus size: 48
11988722 AGGAAGTGCA
* *
11988732 AAAGGGCTTATGCCCCAGTTATTAAAAG-GGCTTATGCC-CCAGTTATT
1 AAAGGGCTTATGCCCCAGCTATTAAAAGAGGC-TAGGCCTCCAGTTATT
11988779 AAAGGGCTTATGCCCCAGCTATTAAAAGAGGCTAGGCCTCCAGTTAT
1 AAAGGGCTTATGCCCCAGCTATTAAAAGAGGCTAGGCCTCCAGTTAT
11988826 ATGATAAAGC
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
47 32 0.74
48 11 0.26
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (48 bp):
AAAGGGCTTATGCCCCAGCTATTAAAAGAGGCTAGGCCTCCAGTTATT
Found at i:11989056 original size:31 final size:31
Alignment explanation
Indices: 11989018--11989081 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
11989008 CGTTTACAGT
*
11989018 AAAGGCTTCGGCTCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
11989049 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
11989080 AA
1 AA
11989082 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:11993213 original size:21 final size:21
Alignment explanation
Indices: 11993187--11993239 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
11993177 GACCCATAAA
*
11993187 GTGCCTAAAATGACACACGAG
1 GTGCCTGAAATGACACACGAG
* *
11993208 GTGCCTGATACGACACACGAG
1 GTGCCTGAAATGACACACGAG
11993229 GTGCCTGAAAT
1 GTGCCTGAAAT
11993240 ACGACACATA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.32, C:0.25, G:0.26, T:0.17
Consensus pattern (21 bp):
GTGCCTGAAATGACACACGAG
Found at i:11993241 original size:23 final size:21
Alignment explanation
Indices: 11993198--11993247 Score: 82
Period size: 21 Copynumber: 2.3 Consensus size: 21
11993188 TGCCTAAAAT
11993198 GACACACGAGGTGCCTGATAC
1 GACACACGAGGTGCCTGATAC
11993219 GACACACGAGGTGCCTGAAATAC
1 GACACACGAGGTGCCTG--ATAC
11993242 GACACA
1 GACACA
11993248 TAAAGTGCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 17 0.63
23 10 0.37
ACGTcount: A:0.34, C:0.28, G:0.26, T:0.12
Consensus pattern (21 bp):
GACACACGAGGTGCCTGATAC
Found at i:11993255 original size:23 final size:23
Alignment explanation
Indices: 11993173--11993259 Score: 74
Period size: 21 Copynumber: 4.0 Consensus size: 23
11993163 CCTGATCAGT
* *
11993173 ATACGACCCATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* * *
11993195 A-ATGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
11993215 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
11993238 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
11993260 TCAGTAAAGC
Statistics
Matches: 52, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
20 1 0.02
21 31 0.60
22 1 0.02
23 19 0.37
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.16
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:11994734 original size:16 final size:17
Alignment explanation
Indices: 11994699--11994734 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
11994689 CCTAATTCTC
11994699 CCTT-TTTCTTTTCTTT
1 CCTTCTTTCTTTTCTTT
11994715 -CTTCTTTC-TTTCTTT
1 CCTTCTTTCTTTTCTTT
11994730 CCTTC
1 CCTTC
11994735 CCCTGCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (17 bp):
CCTTCTTTCTTTTCTTT
Found at i:12000426 original size:21 final size:22
Alignment explanation
Indices: 12000383--12000429 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
12000373 TTATCAAAAG
* *
12000383 TTTAGGAAATCTTTTAGAAATT
1 TTTAAGAAATCTTTCAGAAATT
12000405 TTTAAGAAATCTTTCA-AAATT
1 TTTAAGAAATCTTTCAGAAATT
12000426 TTTA
1 TTTA
12000430 GTCTCTAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (22 bp):
TTTAAGAAATCTTTCAGAAATT
Found at i:12004276 original size:16 final size:17
Alignment explanation
Indices: 12004239--12004273 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
12004229 AATATTTTGC
12004239 AATTTCATAATTTTTAT
1 AATTTCATAATTTTTAT
12004256 AATTTC-TAATTTTATAT
1 AATTTCATAATTTT-TAT
12004273 A
1 A
12004274 TTTTTTATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (17 bp):
AATTTCATAATTTTTAT
Found at i:12008891 original size:37 final size:37
Alignment explanation
Indices: 12008850--12008952 Score: 149
Period size: 37 Copynumber: 2.8 Consensus size: 37
12008840 CGGATTTGAG
*
12008850 CTTATCTGATCAAGTGACAAAGTGATAAGTGGCTACA
1 CTTATCTGATCAAGAGACAAAGTGATAAGTGGCTACA
*
12008887 CTTATCTGATCAAGAAACAAAGTGAT-AGTTGGCTACA
1 CTTATCTGATCAAGAGACAAAGTGATAAG-TGGCTACA
*
12008924 CTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 CTTATCTGATCAAGAGACAAAGTGATAAGTG
12008953 ATCATACGTA
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
35 9 0.15
36 8 0.13
37 43 0.72
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (37 bp):
CTTATCTGATCAAGAGACAAAGTGATAAGTGGCTACA
Found at i:12015492 original size:44 final size:43
Alignment explanation
Indices: 12015427--12015560 Score: 153
Period size: 44 Copynumber: 3.0 Consensus size: 43
12015417 CATCATGACG
* *
12015427 AATCTTATCTCCCTAAAGTTGCAATGAAGCAGATTGAAGCCAC
1 AATCTTATCTCCCTGAAGTTGCAATGAAGCAGATTGAAGCTAC
* * *
12015470 AAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGATAGC
1 AA-TCTTATCTCCCTGAAGTTGCAATGAAGCAGATTGAAGCTA-C
* * *
12015515 GAATCTTATTTCCCTGAAGTTACAGTGGAA-CAGATTGAAGCTAC
1 -AATCTTATCTCCCTGAAGTTGCAAT-GAAGCAGATTGAAGCTAC
12015559 AA
1 AA
12015561 ATGATGGCGG
Statistics
Matches: 76, Mismatches: 11, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
43 4 0.05
44 36 0.47
45 32 0.42
46 4 0.05
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.27
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAATGAAGCAGATTGAAGCTAC
Found at i:12015623 original size:44 final size:43
Alignment explanation
Indices: 12015574--12015711 Score: 134
Period size: 44 Copynumber: 3.1 Consensus size: 43
12015564 ATGGCGGATC
*
12015574 TTATCTTCCTGAAGTTGCAGTGAAGCAAGTTGAAGTCACTAACT
1 TTATCTTCCTGAAGTTGCAGTGGAGCAAGTTGAAGT-ACTAACT
* * *** * *
12015618 TTATCTTCCTGAAGTTTCAATGGAGCAAAAAGATA-TACAAACC
1 TTATCTTCCTGAAGTTGCAGTGGAGCAAGTTGA-AGTACTAACT
* * *
12015661 TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACTAATT
1 TTATCTTCCTGAAGTTGCAGTGGAGCAAGTTGAAG-TACTAACT
12015705 CTTATCT
1 -TTATCT
12015712 CCTTTAAGCT
Statistics
Matches: 72, Mismatches: 18, Indels: 7
0.74 0.19 0.07
Matches are distributed among these distances:
42 1 0.01
43 31 0.43
44 33 0.46
45 7 0.10
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (43 bp):
TTATCTTCCTGAAGTTGCAGTGGAGCAAGTTGAAGTACTAACT
Found at i:12015685 original size:43 final size:44
Alignment explanation
Indices: 12015573--12015687 Score: 126
Period size: 43 Copynumber: 2.6 Consensus size: 44
12015563 GATGGCGGAT
* *** *
12015573 CTTATCTTCCTGAAGTTGCAGTGAAGCAAGTTGAAGTCACTAAC
1 CTTATCTTCCTGAAGTTGCAGTGGAGCAAAAAGAAGTCACAAAC
* * *
12015617 TTTATCTTCCTGAAGTTTCAATGGAGCAAAAAGATA-T-ACAAAC
1 CTTATCTTCCTGAAGTTGCAGTGGAGCAAAAAGA-AGTCACAAAC
*
12015660 CTTATCTCCCTGAAGTTGCAGTGGAGCA
1 CTTATCTTCCTGAAGTTGCAGTGGAGCA
12015688 GGTTGAAGTT
Statistics
Matches: 58, Mismatches: 12, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
43 29 0.50
44 28 0.48
45 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (44 bp):
CTTATCTTCCTGAAGTTGCAGTGGAGCAAAAAGAAGTCACAAAC
Found at i:12024333 original size:16 final size:16
Alignment explanation
Indices: 12024312--12024358 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
12024302 GAAAAACTAT
12024312 ATTTTCTATTATTCTA
1 ATTTTCTATTATTCTA
*
12024328 ATTTTCTATCACTT-TA
1 ATTTTCTATTA-TTCTA
* *
12024344 ATTTTTTATTTTTCT
1 ATTTTCTATTATTCT
12024359 TTTTTATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 2 0.08
16 21 0.84
17 2 0.08
ACGTcount: A:0.21, C:0.13, G:0.00, T:0.66
Consensus pattern (16 bp):
ATTTTCTATTATTCTA
Found at i:12024363 original size:13 final size:13
Alignment explanation
Indices: 12024345--12024370 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12024335 ATCACTTTAA
12024345 TTTTTTATTTTTC
1 TTTTTTATTTTTC
12024358 TTTTTTATTTTTC
1 TTTTTTATTTTTC
12024371 ACTTTACCGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTTATTTTTC
Found at i:12029841 original size:47 final size:47
Alignment explanation
Indices: 12029790--12030358 Score: 868
Period size: 47 Copynumber: 11.7 Consensus size: 47
12029780 CTCGGCCCTG
12029790 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
* *
12029837 TCACATATATAAACTTTCACATTCATCACATCGGCTATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
12029884 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
* *
12029931 TCACATATATAAACTTTCACATTCATCACATCGGCTATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
12029978 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
* *
12030025 TCACATATATAAACTTTCACATTCATCACATCGGCTATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
12030072 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
* *
12030119 TCACATATATAAACTTTCACATTCATCACTATCGGCCATTAGACCTTA
1 TCACATATATACACTTTCACATTCATCAC-ATCGGCCATTAGGCCTTA
*
12030167 TCACATATATATACACTTTCACATTCATCACATCGGCCATTAGTCCTTA
1 TCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
12030216 TCACATATATATACACTTTCACTCATCAACATTCATCACATCGGCCATTAGGCCTTA
1 TCAC--ATATATACAC--T---T--TC-ACATTCATCACATCGGCCATTAGGCCTTA
12030273 TCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
12030324 TCACATATATATATACACTTTCACATTCATCACAT
1 TCAC----ATATATACACTTTCACATTCATCACAT
12030359 AGAATCCTAA
Statistics
Matches: 492, Mismatches: 17, Indels: 22
0.93 0.03 0.04
Matches are distributed among these distances:
47 298 0.61
48 21 0.04
49 33 0.07
50 24 0.05
51 65 0.13
52 2 0.00
54 2 0.00
56 2 0.00
57 33 0.07
59 12 0.02
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.33
Consensus pattern (47 bp):
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
Found at i:12030336 original size:108 final size:108
Alignment explanation
Indices: 12030137--12030347 Score: 363
Period size: 108 Copynumber: 1.9 Consensus size: 108
12030127 ATAAACTTTC
12030137 ACATTCATCACTATCGGCCATTAGACCTTATCACATATATATACACTTTCACATTCATCACATCG
1 ACATTCATCACTATCGGCCATTAGACCTTATCACATATATATACACTTTCACATTCATCACATCG
*
12030202 GCCATTAGTCCTTATCAC-ATATATATACACTTTCACTCATCA
66 GCCATTAGGCCTTATCACAATATATATACACTTTCACTCATCA
*
12030244 ACATTCATCAC-ATCGGCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCACAT
1 ACATTCATCACTATCGGCCATTAGACCTTATCAC--ATATATATACACTTTCACATTCATCACAT
12030308 CGGCCATTAGGCCTTATCACATATATATATACACTTTCAC
64 CGGCCATTAGGCCTTATCACA-ATATATATACACTTTCAC
12030348 ATTCATCACA
Statistics
Matches: 98, Mismatches: 2, Indels: 5
0.93 0.02 0.05
Matches are distributed among these distances:
106 21 0.21
107 11 0.11
108 48 0.49
110 18 0.18
ACGTcount: A:0.32, C:0.28, G:0.07, T:0.33
Consensus pattern (108 bp):
ACATTCATCACTATCGGCCATTAGACCTTATCACATATATATACACTTTCACATTCATCACATCG
GCCATTAGGCCTTATCACAATATATATACACTTTCACTCATCA
Found at i:12040992 original size:18 final size:19
Alignment explanation
Indices: 12040953--12040996 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
12040943 ATTTTTAAAA
*
12040953 TTTTTAA-TTTATATATAG
1 TTTTTAATTTTATAAATAG
*
12040971 TTTTTAATTTTA-AAATAT
1 TTTTTAATTTTATAAATAG
12040989 TTTTTAAT
1 TTTTTAAT
12040997 ATTCATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTTTAATTTTATAAATAG
Found at i:12045549 original size:16 final size:16
Alignment explanation
Indices: 12045530--12045560 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12045520 CTTCTTCACT
12045530 TACTTACTTACTTAAA
1 TACTTACTTACTTAAA
*
12045546 TACTTTCTTACTTAA
1 TACTTACTTACTTAA
12045561 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.19, G:0.00, T:0.48
Consensus pattern (16 bp):
TACTTACTTACTTAAA
Found at i:12045566 original size:20 final size:20
Alignment explanation
Indices: 12045527--12045566 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
12045517 AAACTTCTTC
* *
12045527 ACTTACTTACTTACTTAAAT
1 ACTTACTTACTTAATCAAAT
*
12045547 ACTTTCTTACTTAATCAAAT
1 ACTTACTTACTTAATCAAAT
12045567 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.35, C:0.20, G:0.00, T:0.45
Consensus pattern (20 bp):
ACTTACTTACTTAATCAAAT
Found at i:12045924 original size:55 final size:54
Alignment explanation
Indices: 12045742--12045996 Score: 219
Period size: 55 Copynumber: 4.8 Consensus size: 54
12045732 ACACGGGTAC
* * * *
12045742 CTTACCATTGCCATGACTTGTCATGGTCTTAC-GTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATTGGTATCCTTGCCTTATG-AA
* *
12045791 CTTACCATTGCCATGTCTCGACATGGTCTTACA-TGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATTGGTATCCTTGCCTTATGAA
* * * *
12045844 CTTACCAATGACATGCCTTGGCATGGTCTTACATTGG-A-CCTTTGCGTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATTGGTATCC-TTGCCTTAT-G-AA
* *
12045899 CTTATCAATGCCATGTCTTGACATGGTCTTACA-TGGTATCTTTGCCTTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATTGGTATCCTTGCCTTATG-AA
** * *
12045952 CCTTACCAATTTTCATGCCTTGGCATGGTCTTACA-TGGTATCCTT
1 -CTTACCAA-TGCCATGTCTTGACATGGTCTTACATTGGTATCCTT
12045997 AAACCCTAAT
Statistics
Matches: 170, Mismatches: 22, Indels: 22
0.79 0.10 0.10
Matches are distributed among these distances:
49 37 0.22
50 1 0.01
52 2 0.01
53 44 0.26
54 16 0.09
55 69 0.41
56 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.37
Consensus pattern (54 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATTGGTATCCTTGCCTTATGAA
Found at i:12045925 original size:108 final size:110
Alignment explanation
Indices: 12045789--12045987 Score: 314
Period size: 108 Copynumber: 1.8 Consensus size: 110
12045779 ATCCTTTTGA
*
12045789 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTTACCAA
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTA-GAAACCTTACCAA
12045852 -TGACATGCCTTGGCATGGTCTTACATTGGACCTTTGCGTTATAGT
65 TTGACATGCCTTGGCATGGTCTTACATTGGACCTTTGCGTTATAGT
* * *
12045897 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCTTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTAGAAACCTTACCAAT
**
12045962 TTTCATGCCTTGGCATGGTCTTACAT
66 TGACATGCCTTGGCATGGTCTTACAT
12045988 GGTATCCTTA
Statistics
Matches: 82, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.60
109 8 0.10
110 24 0.29
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTAGAAACCTTACCAAT
TGACATGCCTTGGCATGGTCTTACATTGGACCTTTGCGTTATAGT
Found at i:12049975 original size:27 final size:25
Alignment explanation
Indices: 12049941--12049998 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
12049931 ATTTCATGAT
12049941 AAAT-TTTAAATAATATTTTTATTAA
1 AAATATTTAAATAATA-TTTTATTAA
** *
12049966 ATAATATTTATTTAATATTTTATTTA
1 A-AATATTTAAATAATATTTTATTAA
12049992 AAATATT
1 AAATATT
12049999 AGTATTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
25 7 0.25
26 12 0.43
27 9 0.32
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
AAATATTTAAATAATATTTTATTAA
Found at i:12050015 original size:18 final size:20
Alignment explanation
Indices: 12049981--12050017 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
12049971 ATTTATTTAA
12049981 TATTTTATTTAAAATATTAG
1 TATTTTATTTAAAATATTAG
12050001 TATTTTA-TT-AAATATTA
1 TATTTTATTTAAAATATTA
12050018 TTATAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 2 0.12
20 7 0.41
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (20 bp):
TATTTTATTTAAAATATTAG
Found at i:12054372 original size:29 final size:30
Alignment explanation
Indices: 12054325--12054392 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
12054315 TGGCCCAAGA
* * *
12054325 GTAAATACTCAAAATTTGAGGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
12054355 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
12054385 GCAAATAT
1 GTAAATAT
12054393 TTTAAGGGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.46, C:0.06, G:0.21, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:12055593 original size:21 final size:21
Alignment explanation
Indices: 12055547--12055594 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
12055537 GTAGTGATTT
*
12055547 TAAATTTGATTGGACAATAAA
1 TAAATTTGATTGAACAATAAA
* *
12055568 AAAATTTGAATTGAATAA-AAA
1 TAAATTTG-ATTGAACAATAAA
12055589 TAAATT
1 TAAATT
12055595 AAATTATGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.54, C:0.02, G:0.10, T:0.33
Consensus pattern (21 bp):
TAAATTTGATTGAACAATAAA
Found at i:12055627 original size:17 final size:17
Alignment explanation
Indices: 12055594--12055629 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
12055584 AAAAATAAAT
12055594 TAAATTATGAATATGTG
1 TAAATTATGAATATGTG
12055611 TAAATATATGAAT-TGTG
1 TAAAT-TATGAATATGTG
12055628 TA
1 TA
12055630 TTGATTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.42
Consensus pattern (17 bp):
TAAATTATGAATATGTG
Found at i:12057466 original size:27 final size:27
Alignment explanation
Indices: 12057435--12057612 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
12057425 TAAATTGTAC
12057435 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
12057462 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
12057488 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
12057516 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
12057544 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
12057571 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
12057598 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
12057613 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:12057549 original size:82 final size:81
Alignment explanation
Indices: 12057436--12057591 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
12057426 AAATTGTACA
* *
12057436 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
12057500 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
12057517 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
12057582 TGCGAGTTGA
65 TGCGAATTGA
12057592 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:12057603 original size:82 final size:81
Alignment explanation
Indices: 12057432--12057612 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
12057422 GATTAAATTG
* *
12057432 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
12057497 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
12057513 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
12057577 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
12057595 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
12057613 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:12065562 original size:27 final size:27
Alignment explanation
Indices: 12065528--12065705 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
12065518 TAAATTGTAC
12065528 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
12065555 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
12065581 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
12065609 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* **
12065637 AGCACTAAGTGTGCGATTTGATTACAT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
12065664 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
12065691 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
12065706 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:12065642 original size:82 final size:81
Alignment explanation
Indices: 12065529--12065684 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
12065519 AAATTGTACA
* *
12065529 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATA-CATAGCACTAAGTG
12065593 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
12065610 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACATAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACATAGCACTAAGTG
*
12065675 TGCGAGTTGA
65 TGCGAATTGA
12065685 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 17 0.25
82 50 0.75
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACATAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:12065696 original size:82 final size:81
Alignment explanation
Indices: 12065525--12065705 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
12065515 AATTAAATTG
* *
12065525 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATCATGCACTAA
12065590 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
12065606 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTA-CATAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATCAT-GCACT
* **
12065670 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
12065688 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
12065706 GGCTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 19 0.23
82 65 0.77
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATCATGCACTAA
GTGTGCGAATTGACCA
Found at i:12065716 original size:27 final size:27
Alignment explanation
Indices: 12065610--12065716 Score: 79
Period size: 27 Copynumber: 3.9 Consensus size: 27
12065600 TGACCATGCG
* * * *
12065610 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * *
12065638 GCACTAAGTGTGCGATTTGATTACATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
12065665 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
12065692 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
12065717 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:12067032 original size:72 final size:72
Alignment explanation
Indices: 12066915--12067057 Score: 277
Period size: 72 Copynumber: 2.0 Consensus size: 72
12066905 ACTGATTTTT
*
12066915 GAGTTACGAAACTCAAGATATGATTTTTAAAACGACTAGTACACAGATTGGGCAGTGTCTGGAAA
1 GAGTTACGAAACTCAAGATATGATTTTTAAAACGACTACTACACAGATTGGGCAGTGTCTGGAAA
12066980 ATAAATC
66 ATAAATC
12066987 GAGTTACGAAACTCAAGATATGATTTTTAAAACGACTACTACACAGATTGGGCAGTGTCTGGAAA
1 GAGTTACGAAACTCAAGATATGATTTTTAAAACGACTACTACACAGATTGGGCAGTGTCTGGAAA
12067052 ATAAAT
66 ATAAAT
12067058 TTTATAAGGG
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (72 bp):
GAGTTACGAAACTCAAGATATGATTTTTAAAACGACTACTACACAGATTGGGCAGTGTCTGGAAA
ATAAATC
Found at i:12085428 original size:28 final size:29
Alignment explanation
Indices: 12085351--12085429 Score: 83
Period size: 28 Copynumber: 2.7 Consensus size: 29
12085341 TATTAATTAT
12085351 TAATAATTTATATAAATTTTTTATAATTTTA
1 TAATAATTT-T-TAAATTTTTTATAATTTTA
* * *
12085382 TAA-AA-ATTAAAATAATTTTATAA-TTTA
1 TAATAATTTTTAAAT-TTTTTATAATTTTA
12085409 TAATAATTTTTAAATTTTTTA
1 TAATAATTTTTAAATTTTTTA
12085430 GTAAGAAATT
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
27 11 0.28
28 16 0.41
29 7 0.18
30 2 0.05
31 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (29 bp):
TAATAATTTTTAAATTTTTTATAATTTTA
Found at i:12085429 original size:48 final size:52
Alignment explanation
Indices: 12085344--12085440 Score: 118
Period size: 48 Copynumber: 1.9 Consensus size: 52
12085334 TATTAATTAT
12085344 TAATTATTAATAATTTATATAAATTTTTTATAATTTTA-TAA-AAATTAAAA
1 TAATTATTAATAATTTATATAAATTTTTTATAATTTTAGTAAGAAATTAAAA
12085394 TAATT-TT-ATAATTTATA-ATAA-TTTTTA-AATTTTTTAGTAAGAAATTA
1 TAATTATTAATAATTTATATA-AATTTTTTATAA--TTTTAGTAAGAAATTA
12085441 CTCTTCCTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
46 2 0.05
47 7 0.17
48 17 0.40
49 5 0.12
50 11 0.26
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (52 bp):
TAATTATTAATAATTTATATAAATTTTTTATAATTTTAGTAAGAAATTAAAA
Found at i:12098935 original size:93 final size:95
Alignment explanation
Indices: 12098692--12098941 Score: 251
Period size: 93 Copynumber: 2.6 Consensus size: 95
12098682 TTCCAAACAT
** * *
12098692 GGTCTTACACTAGCTCTCAC-ATCTAAGTCGATGCCATGTCCTAGACAAGTCTTACACTGACTTC
1 GGTCTTACACTAGCTCTCACTATCTGGGCCGATGCCATGTCCTAGACAAGTCTTACACTGA--TA
* * *
12098756 CATACATCGAGGCTGATGCCATGTCCCAGACA
64 CACACATCGAAGCTGATGCCAAGTCCCAGACA
* * * * * * *
12098788 GGTCTTACACTGGCTCTCACTTATCTGTGTCGATGCCATGTCCCAAATAGGTCTTACACT-A-AC
1 GGTCTTACACTAGCTCTCAC-TATCTGGGCCGATGCCATGTCCTAGACAAGTCTTACACTGATAC
* *
12098851 ACACCTC-AAGCTGATGCCAAGTCCTAGACA
65 ACACATCGAAGCTGATGCCAAGTCCCAGACA
*
12098881 GGTCTTCCACTAGCT-TGCA-TATCTTGAGGCCGATGCCATGTCCTAGACAAGTCTTACACTG
1 GGTCTTACACTAGCTCT-CACTATC-TG-GGCCGATGCCATGTCCTAGACAAGTCTTACACTG
12098942 GCTCTCATCT
Statistics
Matches: 127, Mismatches: 21, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
91 4 0.03
92 3 0.02
93 62 0.49
94 6 0.05
96 19 0.15
97 1 0.01
98 32 0.25
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (95 bp):
GGTCTTACACTAGCTCTCACTATCTGGGCCGATGCCATGTCCTAGACAAGTCTTACACTGATACA
CACATCGAAGCTGATGCCAAGTCCCAGACA
Found at i:12098962 original size:49 final size:47
Alignment explanation
Indices: 12098666--12098989 Score: 194
Period size: 49 Copynumber: 6.8 Consensus size: 47
12098656 ACTTAAGGTA
* * *
12098666 CGATGCCGACGCCATGTTCC-AAACATGGTCTTACACTAGCTCTCACAT
1 CGATGCCGATGCCATG-TCCTAGACA-GGTCTTACACTGGCTCTCACAT
* * * * *
12098714 CTAAGTCGATGCCATGTCCTAGACAAGTCTTACACTGACT-TCCATACAT
1 CGATGCCGATGCCATGTCCTAGACAGGTCTTACACTGGCTCT-C--ACAT
* * *
12098763 CGAGGCTGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCACTTAT
1 CGATGCCGATGCCATGTCCTAGACAGGTCTTACACTGGCTCTCAC--AT
* * * * ** * *
12098812 CTG-TGTCGATGCCATGTCCCAAATAGGTCTTACACT--AACACACCT
1 C-GATGCCGATGCCATGTCCTAGACAGGTCTTACACTGGCTCTCACAT
* * * * * *
12098857 C-AAGCTGATGCCAAGTCCTAGACAGGTCTTCCACTAGCT-TGCATAT
1 CGATGCCGATGCCATGTCCTAGACAGGTCTTACACTGGCTCT-CACAT
* *
12098903 CTTGAGGCCGATGCCATGTCCTAGACAAGTCTTACACTGGCTCTCATCTAT
1 C--GATGCCGATGCCATGTCCTAGACAGGTCTTACACTGGCTCTCA-C-AT
* * * * *
12098954 CGATGCCGATTCTATGTCCCAGGCAGGTCCTACACT
1 CGATGCCGATGCCATGTCCTAGACAGGTCTTACACT
12098990 AGCACTCATA
Statistics
Matches: 207, Mismatches: 51, Indels: 35
0.71 0.17 0.12
Matches are distributed among these distances:
44 25 0.12
45 2 0.01
46 5 0.02
47 22 0.11
48 16 0.08
49 131 0.63
50 3 0.01
51 3 0.01
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.27
Consensus pattern (47 bp):
CGATGCCGATGCCATGTCCTAGACAGGTCTTACACTGGCTCTCACAT
Found at i:12098982 original size:142 final size:142
Alignment explanation
Indices: 12098721--12098990 Score: 341
Period size: 142 Copynumber: 1.9 Consensus size: 142
12098711 CATCTAAGTC
* *
12098721 GATGCCATGTCCTAGACAAGTCTTACACTGACTTCCATACATCGAGGCTGATGCCATGTCCCAGA
1 GATGCCAAGTCCTAGACAAGTCTTACACTGACTTCCATACATCGAGGCCGATGCCATGTCCCAGA
* * * *
12098786 CAGGTCTTACACTGGCTCTCACTTATCTGTGTCGATGCCATGTCCCAAATAGGTCTTACACTAAC
66 CAAGTCTTACACTGGCTCTCACTTATCTGTGCCGATGCCATGTCCCAAACAGGTCCTACACTAAC
12098851 ACACCTCAAGCT
131 ACACCTCAAGCT
* * * * *
12098863 GATGCCAAGTCCTAGACAGGTCTTCCACT-AGCTTGCATATC-TTGAGGCCGATGCCATGTCCTA
1 GATGCCAAGTCCTAGACAAGTCTTACACTGA-CTTCCATA-CATCGAGGCCGATGCCATGTCCCA
* * **
12098926 GACAAGTCTTACACTGGCTCTCA-TCTATC-GATGCCGATTCTATGTCCCAGGCAGGTCCTACAC
64 GACAAGTCTTACACTGGCTCTCACT-TATCTG-TGCCGATGCCATGTCCCAAACAGGTCCTACAC
12098989 TA
127 TA
12098991 GCACTCATAT
Statistics
Matches: 109, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
141 3 0.03
142 105 0.96
143 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (142 bp):
GATGCCAAGTCCTAGACAAGTCTTACACTGACTTCCATACATCGAGGCCGATGCCATGTCCCAGA
CAAGTCTTACACTGGCTCTCACTTATCTGTGCCGATGCCATGTCCCAAACAGGTCCTACACTAAC
ACACCTCAAGCT
Found at i:12101834 original size:15 final size:15
Alignment explanation
Indices: 12101814--12101845 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
12101804 CGCCTCTGTC
12101814 GAGTGATCTGGAGAT
1 GAGTGATCTGGAGAT
12101829 GAGTGATCTGGAGAT
1 GAGTGATCTGGAGAT
12101844 GA
1 GA
12101846 CTTCTCTGTC
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:0.28, C:0.06, G:0.41, T:0.25
Consensus pattern (15 bp):
GAGTGATCTGGAGAT
Found at i:12102656 original size:19 final size:19
Alignment explanation
Indices: 12102632--12102668 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
12102622 GTGTTCATAT
12102632 TGTGCGTTTGGGTCATAGA
1 TGTGCGTTTGGGTCATAGA
12102651 TGTGCGTTTGGGTCATAG
1 TGTGCGTTTGGGTCATAG
12102669 CGCTATTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.14, C:0.11, G:0.38, T:0.38
Consensus pattern (19 bp):
TGTGCGTTTGGGTCATAGA
Found at i:12105559 original size:71 final size:71
Alignment explanation
Indices: 12105441--12105583 Score: 216
Period size: 71 Copynumber: 2.0 Consensus size: 71
12105431 TCACTAAACC
** * *
12105441 ATTATCCTCATCGCCTTTTTGCCAGTTCCGGGAGAAACTTCATGTCACAATGCAGTAGTAGATGG
1 ATTATCCTCATCGCCTTTTTGCCAGTTCAAGGAGAAACTTCAGGTCACAATACAGTAGTAGATGG
*
12105506 GTGAAT
66 GTAAAT
*
12105512 ATTATCCTCATCTCCTTTTTGTCC-GTTCAAGGAGAAACTTCAGGTCACAATACAGTAGTAGATG
1 ATTATCCTCATCGCCTTTTTG-CCAGTTCAAGGAGAAACTTCAGGTCACAATACAGTAGTAGATG
12105576 GGTAAAT
65 GGTAAAT
12105583 A
1 A
12105584 GTTGAGTTAG
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
71 63 0.97
72 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31
Consensus pattern (71 bp):
ATTATCCTCATCGCCTTTTTGCCAGTTCAAGGAGAAACTTCAGGTCACAATACAGTAGTAGATGG
GTAAAT
Found at i:12113394 original size:13 final size:13
Alignment explanation
Indices: 12113376--12113406 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
12113366 TTATTTTTTT
12113376 CCATCAAACGTAA
1 CCATCAAACGTAA
12113389 CCATCAAACGTAA
1 CCATCAAACGTAA
12113402 CCATC
1 CCATC
12113407 CTTAAAATGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.42, C:0.35, G:0.06, T:0.16
Consensus pattern (13 bp):
CCATCAAACGTAA
Found at i:12115359 original size:31 final size:31
Alignment explanation
Indices: 12115321--12115394 Score: 139
Period size: 31 Copynumber: 2.4 Consensus size: 31
12115311 TTAATTATGA
*
12115321 CATGCATTATGTGTTTTTCATTAAATAAAGT
1 CATGCATTATGTGTTTTTCATTAAATAAAGC
12115352 CATGCATTATGTGTTTTTCATTAAATAAAGC
1 CATGCATTATGTGTTTTTCATTAAATAAAGC
12115383 CATGCATTATGT
1 CATGCATTATGT
12115395 AACTCTCATG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (31 bp):
CATGCATTATGTGTTTTTCATTAAATAAAGC
Found at i:12115427 original size:50 final size:52
Alignment explanation
Indices: 12115369--12115501 Score: 180
Period size: 50 Copynumber: 2.6 Consensus size: 52
12115359 TATGTGTTTT
* * *
12115369 TCATTAAATAAAGCCATGCATTATGTAACTCTCATGTTAGTT-AAGTTTGCC
1 TCATTAAATTAAGACATGCATTATGTAACTCTCATGTTAGTTAAAGTTTGCA
* **
12115420 TCA-TAAATTATGACATGTTTTATGTAACTCTCATGTTAGTTAAAGTTTGCA
1 TCATTAAATTAAGACATGCATTATGTAACTCTCATGTTAGTTAAAGTTTGCA
* *
12115471 TCATTAAATTAAGTCATGCATTAAGTAACTC
1 TCATTAAATTAAGACATGCATTATGTAACTC
12115502 ATCTATTCAT
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
50 33 0.48
51 14 0.20
52 22 0.32
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (52 bp):
TCATTAAATTAAGACATGCATTATGTAACTCTCATGTTAGTTAAAGTTTGCA
Found at i:12117794 original size:44 final size:45
Alignment explanation
Indices: 12117743--12117837 Score: 147
Period size: 44 Copynumber: 2.1 Consensus size: 45
12117733 GCATGTAACT
12117743 ACATATATCGATGCCAACATCCCAGACATGGCCTTACAC-AAAAC
1 ACATATATCGATGCCAACATCCCAGACATGGCCTTACACGAAAAC
* ** *
12117787 ACATATATCGATGCCAACGTCCCAGATGTGGTCTTACACGAAAAC
1 ACATATATCGATGCCAACATCCCAGACATGGCCTTACACGAAAAC
12117832 ACATAT
1 ACATAT
12117838 CGGAATCCTA
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
44 35 0.76
45 11 0.24
ACGTcount: A:0.37, C:0.28, G:0.14, T:0.21
Consensus pattern (45 bp):
ACATATATCGATGCCAACATCCCAGACATGGCCTTACACGAAAAC
Found at i:12121991 original size:40 final size:40
Alignment explanation
Indices: 12121897--12122041 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
12121887 TACTCGAATG
*
12121897 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
12121938 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
12121978 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
12122018 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
12122042 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:12129680 original size:71 final size:71
Alignment explanation
Indices: 12129557--12129700 Score: 236
Period size: 71 Copynumber: 2.0 Consensus size: 71
12129547 GAGACAGAAC
* ** *
12129557 GAAATGTCGATATTGCGGTAAATGGCATTCGGGGAGTTGTAGATTCCCTGACCGCTCCTGTTACA
1 GAAATGCCGATATTGCAATAAATGGCATTCAGGGAGTTGTAGATTCCCTGACCGCTCCTGTTACA
12129622 AGTGCG
66 AGTGCG
12129628 GAAATGCCGATATTGCAATAAATGGCATTCAGGGAGTTGTAGA-TCCCATGACCGCTCCTGTTAC
1 GAAATGCCGATATTGCAATAAATGGCATTCAGGGAGTTGTAGATTCCC-TGACCGCTCCTGTTAC
12129692 AAGTGCG
65 AAGTGCG
12129699 GA
1 GA
12129701 TCAGTTGACC
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
70 4 0.06
71 64 0.94
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (71 bp):
GAAATGCCGATATTGCAATAAATGGCATTCAGGGAGTTGTAGATTCCCTGACCGCTCCTGTTACA
AGTGCG
Found at i:12134775 original size:56 final size:56
Alignment explanation
Indices: 12134689--12134799 Score: 204
Period size: 56 Copynumber: 2.0 Consensus size: 56
12134679 TTGTTTAATT
12134689 AAGCTCAAGAGCAAAGGGGAACTAAATCCGATAAAAGGAAGGAAAAAGTGGTCGAG
1 AAGCTCAAGAGCAAAGGGGAACTAAATCCGATAAAAGGAAGGAAAAAGTGGTCGAG
* *
12134745 AAGCTCAAGAGCAAAGGGGATCTAAATCCGATAAAGGGAAGGAAAAAGTGGTCGA
1 AAGCTCAAGAGCAAAGGGGAACTAAATCCGATAAAAGGAAGGAAAAAGTGGTCGA
12134800 ATAGCCATCG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.45, C:0.13, G:0.31, T:0.12
Consensus pattern (56 bp):
AAGCTCAAGAGCAAAGGGGAACTAAATCCGATAAAAGGAAGGAAAAAGTGGTCGAG
Found at i:12135168 original size:79 final size:81
Alignment explanation
Indices: 12135032--12135214 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
12135022 TCGAATGATG
* *
12135032 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
12135096 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
12135111 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
12135173 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
12135191 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
12135215 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:12135230 original size:40 final size:40
Alignment explanation
Indices: 12135033--12135216 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
12135023 CGAATGATGT
* * * *
12135033 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
12135073 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
12135113 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
12135151 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
12135192 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
12135217 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:12135238 original size:79 final size:79
Alignment explanation
Indices: 12135085--12135251 Score: 214
Period size: 79 Copynumber: 2.1 Consensus size: 79
12135075 GGACTAAGAT
* **
12135085 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
12135150 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
12135164 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
12135227 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
12135243 CCGAAGGCA
1 CCGAAGGCA
12135252 CGTGATTCAG
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 51 0.66
80 24 0.31
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:12145327 original size:119 final size:119
Alignment explanation
Indices: 12145097--12145436 Score: 405
Period size: 119 Copynumber: 2.9 Consensus size: 119
12145087 AACATTGGAT
* * ** * * * * *
12145097 AGGAAAGCCTTTGTAGTGAGTACTAAATTTTAAGGAATGCCTTTGCGGTAAAACTTATGAAAGGT
1 AGGAAAACCTTTGTGGCAAGTACTGAATGTTAAGGAATGCCTTTGTGGAAAAACTCATGAAAGGT
* * ** * ** *
12145162 AAGCCTACGTGGCAAACCTATGAAAGGAAATTACTCTATGTTAAAACTCTGGACA
66 AAGCCTATGTGGCGAACCTATGAAAGGAAATGCCTCTACGGAAAAACTCTAGA-A
* *
12145217 A-GAAAACCTTTGTGGCAAGTACTGAATGTTAAGGAACGCCTTTGTGGAAAAACTCAATAAAAGG
1 AGGAAAACCTTTGTGGCAAGTACTGAATGTTAAGGAATGCCTTTGTGGAAAAACTC-ATGAAAGG
* * * *
12145281 TAAACCTATGTTGCGAACCTTTGAAA-GAAATGCCTTTACGGAAAAACTCTAGAA
65 TAAGCCTATGTGGCGAACCTATGAAAGGAAATGCCTCTACGGAAAAACTCTAGAA
* * *
12145335 AGGAAAGCCTTTGTGGCGAGTACTGAATGTTAAGGAATGCCTTTGTGGATAAACTCATGAAAGGT
1 AGGAAAACCTTTGTGGCAAGTACTGAATGTTAAGGAATGCCTTTGTGGAAAAACTCATGAAAGGT
*
12145400 AAGCCTATGTGGCGAACCTCTGAAAGGAAATGCCTCT
66 AAGCCTATGTGGCGAACCTATGAAAGGAAATGCCTCT
12145437 GTCACAAAAA
Statistics
Matches: 185, Mismatches: 32, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
118 32 0.17
119 124 0.67
120 29 0.16
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (119 bp):
AGGAAAACCTTTGTGGCAAGTACTGAATGTTAAGGAATGCCTTTGTGGAAAAACTCATGAAAGGT
AAGCCTATGTGGCGAACCTATGAAAGGAAATGCCTCTACGGAAAAACTCTAGAA
Found at i:12145390 original size:61 final size:61
Alignment explanation
Indices: 12145204--12145414 Score: 179
Period size: 61 Copynumber: 3.5 Consensus size: 61
12145194 ACTCTATGTT
* * * * *
12145204 AAAACTCTGGACAA-GAAAACCTTTGTGGCAAGTACTGAATGTTAAGGAACGCCTTTGTGGA
1 AAAACTCTAGA-AAGGAAAGCCTATGTGGCGAGTACTGAATGTTAAGGAATGCCTTTGTGGA
* * * * **
12145265 AAAACTCAATA-AAAGGTAAA-CCTATGTTGCGA--ACCT--TTG-AAAGAAATGCCTTTACGGA
1 AAAACTC--TAGAAAGG-AAAGCCTATGTGGCGAGTA-CTGAATGTTAAGGAATGCCTTTGTGGA
*
12145323 AAAACTCTAGAAAGGAAAGCCTTTGTGGCGAGTACTGAATGTTAAGGAATGCCTTTGTGGA
1 AAAACTCTAGAAAGGAAAGCCTATGTGGCGAGTACTGAATGTTAAGGAATGCCTTTGTGGA
* *
12145384 TAAACTC-ATGAAAGGTAAGCCTATGTGGCGA
1 AAAACTCTA-GAAAGGAAAGCCTATGTGGCGA
12145415 ACCTCTGAAA
Statistics
Matches: 117, Mismatches: 20, Indels: 26
0.72 0.12 0.16
Matches are distributed among these distances:
56 5 0.04
57 15 0.13
58 23 0.20
59 3 0.03
60 4 0.03
61 52 0.44
62 11 0.09
63 4 0.03
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.25
Consensus pattern (61 bp):
AAAACTCTAGAAAGGAAAGCCTATGTGGCGAGTACTGAATGTTAAGGAATGCCTTTGTGGA
Found at i:12145434 original size:29 final size:29
Alignment explanation
Indices: 12145366--12145434 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
12145356 ACTGAATGTT
* *
12145366 AAGGAATGCCTTTGTGGATAAACTCATGA
1 AAGGAATGCCTATGTGGAGAAACTCATGA
* *
12145395 AAGGTAA-GCCTATGTGGCGAACCTC-TGA
1 AAGG-AATGCCTATGTGGAGAAACTCATGA
12145423 AAGGAAATGCCT
1 AAGG-AATGCCT
12145435 CTGTCACAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
28 9 0.27
29 22 0.67
30 2 0.06
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.23
Consensus pattern (29 bp):
AAGGAATGCCTATGTGGAGAAACTCATGA
Found at i:12146736 original size:38 final size:38
Alignment explanation
Indices: 12146693--12146768 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
12146683 TTCATCCTTT
12146693 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
12146731 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
12146769 GGAGTTCTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:12149216 original size:40 final size:40
Alignment explanation
Indices: 12149122--12149266 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
12149112 TACTCGAATG
* *
12149122 ATATCCAGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
12149163 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
12149203 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
12149243 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
12149267 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.68
41 27 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:12159151 original size:43 final size:42
Alignment explanation
Indices: 12159058--12159158 Score: 114
Period size: 43 Copynumber: 2.4 Consensus size: 42
12159048 TGACTATCCT
* * *
12159058 AGACAAGGTCTTACAC-GAATCAAATACAATGCCGATGTCCC
1 AGACATGGTCTTACACAGAATCAAATACAATGCCAATGTCCA
* * *
12159099 AGACATGGTCTTACACATAATCACATATCGATGCCAATGTCCA
1 AGACATGGTCTTACACAGAATCAAATA-CAATGCCAATGTCCA
**
12159142 AGATGTGGTCTTACACA
1 AGACATGGTCTTACACA
12159159 AGAACACATA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
41 15 0.30
42 8 0.16
43 27 0.54
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.24
Consensus pattern (42 bp):
AGACATGGTCTTACACAGAATCAAATACAATGCCAATGTCCA
Found at i:12159167 original size:43 final size:43
Alignment explanation
Indices: 12159004--12159168 Score: 106
Period size: 43 Copynumber: 3.9 Consensus size: 43
12158994 ATATCATACA
* * * *** *
12159004 ATGCCAACGTCCCAGATATGGTCTTACATGCAATCACATATCG
1 ATGCCAATGTCCAAGACATGGTCTTACACATAAACACATATCG
* * * * * * * *
12159047 ATG--ACTATCCTAGACAAGGTCTTACAC-GAATCAAATA-CA
1 ATGCCAATGTCCAAGACATGGTCTTACACATAAACACATATCG
* * *
12159086 ATGCCGATGTCCCAGACATGGTCTTACACATAATCACATATCG
1 ATGCCAATGTCCAAGACATGGTCTTACACATAAACACATATCG
**
12159129 ATGCCAATGTCCAAGATGTGGTCTTACACA-AGAACACATA
1 ATGCCAATGTCCAAGACATGGTCTTACACATA-AACACATA
12159169 CAGAAAATCC
Statistics
Matches: 94, Mismatches: 23, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
39 4 0.04
40 8 0.09
41 36 0.38
42 9 0.10
43 37 0.39
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCAAGACATGGTCTTACACATAAACACATATCG
Found at i:12162713 original size:24 final size:27
Alignment explanation
Indices: 12162666--12162717 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 27
12162656 AATCGAAGTA
12162666 AGTTCGTATGTTAAATAAGCTTTAATAT
1 AGTTCGTATGTTAAAT-AGCTTTAATAT
12162694 AGTT-GTAT-TTAAAT-GCTTTAATAT
1 AGTTCGTATGTTAAATAGCTTTAATAT
12162718 TGCATGAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 10 0.42
26 6 0.25
27 4 0.17
28 4 0.17
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.46
Consensus pattern (27 bp):
AGTTCGTATGTTAAATAGCTTTAATAT
Found at i:12165982 original size:29 final size:29
Alignment explanation
Indices: 12165941--12166020 Score: 110
Period size: 29 Copynumber: 2.8 Consensus size: 29
12165931 ATGAGCATGA
*
12165941 ATAT-AATGTGATTTGGGTCTAAAGGG-T
1 ATATAAATGTGATTTGGGCCTAAAGGGCT
*
12165968 CATATAAATGTGATTTGGACCTAAAGGGCT
1 -ATATAAATGTGATTTGGGCCTAAAGGGCT
*
12165998 ATAAAAATGTGATTTGGGCCTAA
1 ATATAAATGTGATTTGGGCCTAA
12166021 TAGGCCATGT
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
28 4 0.09
29 41 0.89
30 1 0.02
ACGTcount: A:0.34, C:0.09, G:0.25, T:0.33
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAAAGGGCT
Found at i:12172709 original size:28 final size:28
Alignment explanation
Indices: 12172634--12172701 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
12172624 GAAGTAGTTA
*
12172634 GGCCTAATGGGCCATATGAATGTGATTG
1 GGCCTAATGGGCCATATGAAAGTGATTG
12172662 GGCCTAATGGGCCATATGAAAGTGATTG
1 GGCCTAATGGGCCATATGAAAGTGATTG
*
12172690 GGCCTGATGGGC
1 GGCCTAATGGGC
12172702 AATGTGAACA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.24, C:0.16, G:0.35, T:0.25
Consensus pattern (28 bp):
GGCCTAATGGGCCATATGAAAGTGATTG
Found at i:12172716 original size:28 final size:28
Alignment explanation
Indices: 12172634--12172724 Score: 94
Period size: 28 Copynumber: 3.2 Consensus size: 28
12172624 GAAGTAGTTA
* * *
12172634 GGCCTAATGGGCCATATGAATGTGATTG
1 GGCCTAATGGGCAATATGAAAGAGATTG
* *
12172662 GGCCTAATGGGCCATATGAAAGTGATTG
1 GGCCTAATGGGCAATATGAAAGAGATTG
* * *
12172690 GGCCTGATGGGCAATGTGAACA-AGATTC
1 GGCCTAATGGGCAATATGAA-AGAGATTG
12172718 GGCCTAA
1 GGCCTAA
12172725 AGGGGCCAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
28 54 0.98
29 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.24
Consensus pattern (28 bp):
GGCCTAATGGGCAATATGAAAGAGATTG
Found at i:12173098 original size:27 final size:27
Alignment explanation
Indices: 12173039--12173430 Score: 363
Period size: 27 Copynumber: 14.7 Consensus size: 27
12173029 TAATAAAGAG
*
12173039 AAATTACCGAAATACCCTCGATTATG--
1 AAATTACTGAAATACCCTCGATT-TGTA
* * *
12173065 AAATTACTAAAAAACTCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * * *
12173092 AAATTACCGACATATCCTCGA-TTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
* *
12173118 AAATTACTAAAATACCCTAGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
** *
12173145 AAATTACCAAAATACCCTCGA-TTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
* * * *
12173171 AAATCAATGAAAAACCCTAGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
12173198 AAATTATTGAAATACCCCCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
12173225 AAATTACCGAAATACCCTCGA-TTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
12173251 AAATTACTGAAATACCCTTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
12173278 AAATTA-TCGAAATACCCTCGATTTGTG
1 AAATTACT-GAAATACCCTCGATTTGTA
* * *
12173305 TAATTA-TCGAAATACCCTCAATTTATA
1 AAATTACT-GAAATACCCTCGATTTGTA
*
12173332 AAATTA-TCGAAATACCCTCAATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* *
12173359 AAATTACCGAAACACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
12173386 AAATTA-TCAAAATACCCT-TATAGTGTA
1 AAATTACT-GAAATACCCTCGAT-TTGTA
**
12173413 AAATTACCAAAATACCCT
1 AAATTACTGAAATACCCT
12173431 TGTAGTGTAA
Statistics
Matches: 302, Mismatches: 54, Indels: 19
0.81 0.14 0.05
Matches are distributed among these distances:
25 2 0.01
26 85 0.28
27 215 0.71
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:12173202 original size:80 final size:79
Alignment explanation
Indices: 12173039--12173403 Score: 353
Period size: 80 Copynumber: 4.6 Consensus size: 79
12173029 TAATAAAGAG
* * * * **
12173039 AAATTACCGAAATACCCTCGATTATG--AAATTACTAAAAAACTCTCGATTTGTAAAATTACCGA
1 AAATTACTGAAATACCCTCGATT-TGTAAAATTACCAAAATACCCTCGA-TTGTAAAA-TAATGA
* * * *
12173102 CATATCCTCGA-TTGTG
63 AATACCCTAGATTTGTA
* * *
12173118 AAATTACTAAAATACCCTAGATTTGTAAAATTACCAAAATACCCTCGATTGTGAAATCAATGAAA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGATTGTAAAAT-AATGAAA
*
12173183 AACCCTAGATTTGTA
65 TACCCTAGATTTGTA
* * * *
12173198 AAATTATTGAAATACCCCCGATTTGTAAAATTACCGAAATACCCTCGATTGTAAAATTACTGAAA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGATTGTAAAA-TAATGAAA
*
12173263 TACCCTTGATTTGTA
65 TACCCTAGATTTGTA
** * * * * *
12173278 AAATTA-TCGAAATACCCTCGATTTGTGTAATTATCGAAATACCCTCAATTTATAAAATTATCGA
1 AAATTACT-GAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGA-TTGTAAAATAAT-GA
12173342 AATACCCTCA-ATTTGTA
63 AATACCCT-AGATTTGTA
* * *
12173359 AAATTACCGAAACACCCTCGATTTGTAAAATTATCAAAATACCCT
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAATACCCT
12173404 TATAGTGTAA
Statistics
Matches: 239, Mismatches: 37, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
78 3 0.01
79 38 0.16
80 134 0.56
81 64 0.27
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (79 bp):
AAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGATTGTAAAATAATGAAAT
ACCCTAGATTTGTA
Found at i:12173334 original size:54 final size:54
Alignment explanation
Indices: 12173039--12173430 Score: 406
Period size: 53 Copynumber: 7.3 Consensus size: 54
12173029 TAATAAAGAG
* * *
12173039 AAATTACCGAAATACCCTCGATTATG--AAATTA-CTAAAAAACTCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATT-TGTAAAATTATC-GAAATACCCTCGATTTGTA
* * * * *
12173092 AAATTACCGACATATCCTCGA-TTGTGAAATTA-CTAAAATACCCTAGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTATC-GAAATACCCTCGATTTGTA
* * * * *
12173145 AAATTACCAAAATACCCTCGA-TTGTGAAATCAAT-GAAAAACCCTAGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAAT-TATCGAAATACCCTCGATTTGTA
** * *
12173198 AAATTATTGAAATACCCCCGATTTGTAAAATTACCGAAATACCCTCGA-TTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTA
* * *
12173251 AAATTACTGAAATACCCTTGATTTGTAAAATTATCGAAATACCCTCGATTTGTG
1 AAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTA
* * * * *
12173305 TAATTATCGAAATACCCTCAATTTATAAAATTATCGAAATACCCTCAATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTA
* * * *
12173359 AAATTACCGAAACACCCTCGATTTGTAAAATTATCAAAATACCCT-TATAGTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGAT-TTGTA
*
12173413 AAATTACCAAAATACCCT
1 AAATTACCGAAATACCCT
12173431 TGTAGTGTAA
Statistics
Matches: 288, Mismatches: 43, Indels: 15
0.83 0.12 0.04
Matches are distributed among these distances:
51 2 0.01
52 1 0.00
53 156 0.54
54 129 0.45
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (54 bp):
AAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTA
Found at i:12173945 original size:11 final size:11
Alignment explanation
Indices: 12173929--12173956 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
12173919 ATTGCATGTA
12173929 TGATATTATTG
1 TGATATTATTG
12173940 TGATATTATTG
1 TGATATTATTG
12173951 TGATAT
1 TGATAT
12173957 GGGCTTTGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.54
Consensus pattern (11 bp):
TGATATTATTG
Found at i:12176331 original size:28 final size:28
Alignment explanation
Indices: 12176291--12176351 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
12176281 GTAGTAGTTA
* *
12176291 GGCCTGATGGGCCATATGAATGTGATTG
1 GGCCTGATGGGCCATATGAACGAGATTG
*
12176319 GGCCTGATGGGCCATGTGAACGAGATTG
1 GGCCTGATGGGCCATATGAACGAGATTG
12176347 GGCCT
1 GGCCT
12176352 AAAGGGGCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.20, C:0.18, G:0.38, T:0.25
Consensus pattern (28 bp):
GGCCTGATGGGCCATATGAACGAGATTG
Found at i:12176697 original size:27 final size:27
Alignment explanation
Indices: 12176667--12177004 Score: 361
Period size: 27 Copynumber: 12.7 Consensus size: 27
12176657 TAATGAAGAG
*
12176667 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
12176694 AAATTATTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * * * *
12176721 AAACTACCGAAATGCCATCGA-TTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
12176747 AAATTACTGAAA-ACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
12176773 AAATTATTGAAATACCCACAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
12176800 AAA-TA-TCAAAATACCCTCGA-TTGTG
1 AAATTACT-GAAATACCCTCGATTTGTA
**
12176825 AAATTACTGAAATACCCTTAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
12176852 AAAATACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
12176879 AAATTA-TCGAAATACCCTCGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* * *
12176906 AAATTACCGAAATACCTTCTATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
12176933 AAATTA-TCGAAATACCCTCGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* * *
12176960 AAATTA-TCAAAATACCCT-TATAGTGTA
1 AAATTACT-GAAATACCCTCGAT-TTGTA
**
12176987 AAATTACCAAAATACCCT
1 AAATTACTGAAATACCCT
12177005 TGTAGTGTAA
Statistics
Matches: 262, Mismatches: 38, Indels: 22
0.81 0.12 0.07
Matches are distributed among these distances:
25 14 0.05
26 56 0.21
27 192 0.73
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:12176798 original size:79 final size:79
Alignment explanation
Indices: 12176666--12176977 Score: 428
Period size: 79 Copynumber: 3.9 Consensus size: 79
12176656 ATAATGAAGA
* *
12176666 GAAATTACTAAAATACCCTCGATTTGTAAAATTATTGAAATACCCTCGATTTGTAAAACTACCGA
1 GAAATTACTGAAATACCCTCGATTTGTAAAATTATTGAAATACCCTCGATTTGTAAAA-TATCGA
* *
12176731 AATGCCATCGATTGT
65 AATACCCTCGATTGT
* * *
12176746 GAAATTACTGAAA-ACCCTCGATTTGTAAAATTATTGAAATACCCACAATTTGTAAAATATCAAA
1 GAAATTACTGAAATACCCTCGATTTGTAAAATTATTGAAATACCCTCGATTTGTAAAATATCGAA
12176810 ATACCCTCGATTGT
66 ATACCCTCGATTGT
** * *
12176824 GAAATTACTGAAATACCCTTAATTTGTAAAAATACTGAAATACCCTCGATTTGTAAAATTATCGA
1 GAAATTACTGAAATACCCTCGATTTGTAAAATTATTGAAATACCCTCGATTTGTAAAA-TATCGA
12176889 AATACCCTCGATTTGT
65 AATACCCTCGA-TTGT
* * * * * *
12176905 AAAATTACCGAAATACCTTCTATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTATCAA
1 GAAATTACTGAAATACCCTCGATTTGTAAAATTATTGAAATACCCTCGATTTGTAAAA-TATCGA
12176970 AATACCCT
65 AATACCCT
12176978 TATAGTGTAA
Statistics
Matches: 206, Mismatches: 23, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
78 30 0.15
79 80 0.39
80 28 0.14
81 68 0.33
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.32
Consensus pattern (79 bp):
GAAATTACTGAAATACCCTCGATTTGTAAAATTATTGAAATACCCTCGATTTGTAAAATATCGAA
ATACCCTCGATTGT
Found at i:12176933 original size:81 final size:80
Alignment explanation
Indices: 12176667--12177004 Score: 430
Period size: 81 Copynumber: 4.2 Consensus size: 80
12176657 TAATGAAGAG
* * * *
12176667 AAATTACTAAAATACCCTCGATTTGTAAAATTATTGAAATACCCTCGATTTGTAAAACTACCGAA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTATTGAAATACCCTCGATTTGTAAAATTATCAAA
* * *
12176732 ATGCCATCGATTGTG
66 ATACCCTCGATTGTA
* *
12176747 AAATTACTGAAA-ACCCTCGATTTGTAAAATTATTGAAATACCCACAATTTGTAAAA-TATCAAA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTATTGAAATACCCTCGATTTGTAAAATTATCAAA
*
12176810 ATACCCTCGATTGTG
66 ATACCCTCGATTGTA
** * * *
12176825 AAATTACTGAAATACCCTTAATTTGTAAAAATACTGAAATACCCTCGATTTGTAAAATTATCGAA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTATTGAAATACCCTCGATTTGTAAAATTATCAAA
12176890 ATACCCTCGATTTGTA
66 ATACCCTCGA-TTGTA
* * * *
12176906 AAATTACCGAAATACCTTCTATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTATCAAA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTATTGAAATACCCTCGATTTGTAAAATTATCAAA
*
12176971 ATACCCT-TATAGTGTA
66 ATACCCTCGAT--TGTA
**
12176987 AAATTACCAAAATACCCT
1 AAATTACTGAAATACCCT
12177005 TGTAGTGTAA
Statistics
Matches: 227, Mismatches: 26, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
78 30 0.13
79 81 0.36
80 28 0.12
81 88 0.39
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (80 bp):
AAATTACTGAAATACCCTCGATTTGTAAAATTATTGAAATACCCTCGATTTGTAAAATTATCAAA
ATACCCTCGATTGTA
Found at i:12181240 original size:27 final size:27
Alignment explanation
Indices: 12181210--12181387 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
12181200 ATATTGAGTC
* * * *
12181210 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
12181237 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
12181264 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
12181292 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
12181319 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
12181346 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
12181373 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
12181388 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:12181349 original size:82 final size:81
Alignment explanation
Indices: 12181231--12181386 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
12181221 TGCTATATAA
* *
12181231 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
12181296 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
12181313 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
12181377 CACTTAGTGC
65 CACTTAGTGC
12181387 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:12189619 original size:23 final size:24
Alignment explanation
Indices: 12189575--12189619 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
12189565 CTTGAATGTT
*
12189575 CATGAGATGGTTAATGTGATATAC
1 CATGAGATGGATAATGTGATATAC
12189599 CATGA-ATGGATATATGT-ATAT
1 CATGAGATGGATA-ATGTGATAT
12189620 GGCCAAATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.36, C:0.07, G:0.22, T:0.36
Consensus pattern (24 bp):
CATGAGATGGATAATGTGATATAC
Found at i:12194659 original size:28 final size:28
Alignment explanation
Indices: 12194619--12194673 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
12194609 AAGCGAGTTA
12194619 GTCTTCCATTTTTAGATTTGATTGAATT
1 GTCTTCCATTTTTAGATTTGATTGAATT
12194647 GTCTTCCATTTTTAGATTTGATTGAAT
1 GTCTTCCATTTTTAGATTTGATTGAAT
12194674 CGACAAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.22, C:0.11, G:0.15, T:0.53
Consensus pattern (28 bp):
GTCTTCCATTTTTAGATTTGATTGAATT
Found at i:12208595 original size:46 final size:46
Alignment explanation
Indices: 12208526--12208688 Score: 131
Period size: 46 Copynumber: 3.5 Consensus size: 46
12208516 TCCATAAGCA
*
12208526 AACTCGGACTCAACTCAATGAGCTTGGGCGTTCGCATCCACAAGTG
1 AACTCGGACTCAACTCAACGAGCTTGGGCGTTCGCATCCACAAGTG
* * *
12208572 AACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT-CTC---TCG
1 AACTCGGACTCAACTCAACGAGCTTGG--G-C--GTTCGCATCCACAAGT-G
* * * *
12208619 AACTCGGACTCAACTCAACGAG-TTCAGACATTCGCATCCATAAGTG
1 AACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCACAAGTG
* *
12208665 AACTTGGACTCAAATCAACGAGCT
1 AACTCGGACTCAACTCAACGAGCT
12208689 CGGATGCCTA
Statistics
Matches: 91, Mismatches: 13, Indels: 25
0.71 0.10 0.19
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
46 48 0.53
47 26 0.29
48 1 0.01
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
AACTCGGACTCAACTCAACGAGCTTGGGCGTTCGCATCCACAAGTG
Found at i:12208635 original size:47 final size:47
Alignment explanation
Indices: 12208571--12208733 Score: 172
Period size: 47 Copynumber: 3.5 Consensus size: 47
12208561 ATCCACAAGT
*
12208571 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATATCTC
* * * * **
12208618 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGC-A--TCCATAAGT-
1 GAACTCGGACTCAACTCAACGAGCTC-G-GATGC-CTAGTTACATATCTC
* *
12208664 GAACTTGGACTCAAATCAACGAGCTCGGATGCCTAGTTACATATCTC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATATCTC
**
12208711 GAACTAAGACTCAACTCAACGAG
1 GAACTCGGACTCAACTCAACGAG
12208734 TTCAGACATT
Statistics
Matches: 91, Mismatches: 18, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 1 0.01
46 29 0.32
47 50 0.55
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.22
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATATCTC
Found at i:12208654 original size:93 final size:93
Alignment explanation
Indices: 12208526--12208789 Score: 404
Period size: 93 Copynumber: 2.8 Consensus size: 93
12208516 TCCATAAGCA
* * * * *
12208526 AACTCGGACTCAACTCAATGAGCTT-GGGCGTTCGCATCCACAAGTGAACTCGGACTCAACTCAA
1 AACTCGGACTCAACTCAACGAG-TTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
12208590 CGAGCTCGGATGCCTAGTTACATCTCTCG
65 CGAGCTCGGATGCCTAGTTACATATCTCG
* *
12208619 AACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTTGGACTCAAATCAAC
1 AACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
12208684 GAGCTCGGATGCCTAGTTACATATCTCG
66 GAGCTCGGATGCCTAGTTACATATCTCG
** *
12208712 AACTAAGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
12208777 GAGTTCGGATGCC
66 GAGCTCGGATGCC
12208790 CAAATATCCT
Statistics
Matches: 156, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
92 2 0.01
93 154 0.99
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATATCTCG
Found at i:12208771 original size:46 final size:46
Alignment explanation
Indices: 12208618--12208782 Score: 158
Period size: 46 Copynumber: 3.6 Consensus size: 46
12208608 TACATCTCTC
*
12208618 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGT
1 GAACTCGAACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGT
* * * * * * * **
12208664 GAACTTGGACTCAAATCAACGAGCTC-G-GATGC-CTAGTTACATATCT
1 GAACTCGAACTCAACTCAACGAGTTCAGACATTCGC-A--TCCATAAGT
*
12208710 CGAACT-AAGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGT
1 -GAACTCGA-ACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGT
12208757 GAACTCGAACTCAACTCAACGAGTTC
1 GAACTCGAACTCAACTCAACGAGTTC
12208783 GGATGCCCAA
Statistics
Matches: 92, Mismatches: 18, Indels: 18
0.72 0.14 0.14
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 1 0.01
46 52 0.57
47 28 0.30
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.22
Consensus pattern (46 bp):
GAACTCGAACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGT
Found at i:12212880 original size:17 final size:17
Alignment explanation
Indices: 12212854--12212887 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
12212844 TATATAATGG
*
12212854 AAATATGTTATAATATA
1 AAATAAGTTATAATATA
12212871 AAATAAGTTATAATATA
1 AAATAAGTTATAATATA
12212888 TTAAGTGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (17 bp):
AAATAAGTTATAATATA
Found at i:12214151 original size:24 final size:24
Alignment explanation
Indices: 12214060--12214151 Score: 103
Period size: 24 Copynumber: 3.8 Consensus size: 24
12214050 GAAATGATTT
* *
12214060 TGGCACTATGTGTGCGAATTTGTA
1 TGGCACTATGTGTACGGATTTGTA
* *
12214084 CGACACTATGTGTACGGATTTGTA
1 TGGCACTATGTGTACGGATTTGTA
* * * *
12214108 TGTCTCTATATGTACAGATTTGTA
1 TGGCACTATGTGTACGGATTTGTA
*
12214132 TGGCACTATGTGTGCGGATT
1 TGGCACTATGTGTACGGATT
12214152 GGAATGTCAA
Statistics
Matches: 54, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 54 1.00
ACGTcount: A:0.22, C:0.14, G:0.26, T:0.38
Consensus pattern (24 bp):
TGGCACTATGTGTACGGATTTGTA
Found at i:12222488 original size:42 final size:42
Alignment explanation
Indices: 12222441--12222532 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
12222431 TGGCCCTTAG
* ** *
12222441 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
12222483 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
12222525 GCCCATTT
1 GCCCATTT
12222533 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Done.