Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 134 of 167
Found at i:44855583 original size:14 final size:14
Alignment explanation
Indices: 44855563--44855607 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
44855553 TCCTACACCT
44855563 TAAACCCTAAACTA
1 TAAACCCTAAACTA
*
44855577 TATACCCTAAA-TCA
1 TAAACCCTAAACT-A
44855591 TAAACCCTAAACTA
1 TAAACCCTAAACTA
44855605 TAA
1 TAA
44855608 TGATAATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 1 0.04
14 25 0.93
15 1 0.04
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:44855892 original size:7 final size:7
Alignment explanation
Indices: 44855880--44855985 Score: 88
Period size: 7 Copynumber: 15.1 Consensus size: 7
44855870 AAAAATGCCA
44855880 CTAAACC
1 CTAAACC
44855887 CTAAACC
1 CTAAACC
*
44855894 CTAAACT
1 CTAAACC
44855901 CTAAACC
1 CTAAACC
*
44855908 CTTAACC
1 CTAAACC
* *
44855915 ATTAACC
1 CTAAACC
*
44855922 CCAAACC
1 CTAAACC
*
44855929 CTTACACC
1 C-TAAACC
* *
44855937 TTAAACT
1 CTAAACC
44855944 CT-AACC
1 CTAAACC
*
44855950 CTAACCC
1 CTAAACC
44855957 CTAAACC
1 CTAAACC
*
44855964 CTAAATC
1 CTAAACC
* *
44855971 ATAATCC
1 CTAAACC
44855978 CTAAACC
1 CTAAACC
44855985 C
1 C
44855986 ATAATTCATC
Statistics
Matches: 75, Mismatches: 22, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
6 5 0.07
7 66 0.88
8 4 0.05
ACGTcount: A:0.39, C:0.41, G:0.00, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:44866824 original size:44 final size:44
Alignment explanation
Indices: 44866766--44867755 Score: 948
Period size: 44 Copynumber: 22.6 Consensus size: 44
44866756 ATAGATCACC
* * * *
44866766 GATAGCAGATTTGGCGTCTCTATATTATCAGAAAGTAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTATCAGAGAGCAGATCGAA
* * **
44866810 GATAATAGGTTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTATCAGAGAGCAGATCGAA
* * * * * * * *
44866854 AATAACAAATTTGGCGTCTCTATATTAACAAAAAGCA-AAC--C
1 GATAACAGATTTGGCGTCTCTGTATTATCAGAGAGCAGATCGAA
* * * *
44866895 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAAATCGAT
1 GATAACAGATTTGGCGTCTCTGTATTATCAGAGAGCAGATCGAA
* * *
44866939 GATAACAGGTTTGGCGTCTCTATATTGAT-AGAGAGCAGATTGAA
1 GATAACAGATTTGGCGTCTCTGTATT-ATCAGAGAGCAGATCGAA
* * * *
44866983 AATAACAAATTTGGTGTCTCTATATTGA-CAGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATT-ATCAGAGAGCAGATCGAA
* * *
44867027 GATGACAGATTTGGCATCTCTGTATTGAT-AGAGAGCAGATTGAA
1 GATAACAGATTTGGCGTCTCTGTATT-ATCAGAGAGCAGATCGAA
* * * * * *
44867071 GATGACAGATTTGGCGTCTTTATATT-TCAGAAAGTAGATCAAA
1 GATAACAGATTTGGCGTCTCTGTATTATCAGAGAGCAGATCGAA
* * * * *
44867114 GATAGCCGATTTGACATCTCTGTATTGTCAGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTATCAGAGAGCAGATCGAA
** * *
44867158 GATAGTAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAA
1 GATAACAGATTTGGCGTCTCTGTATTATCAGAGAGCAGATCGAA
* * **
44867202 GATAACAGATTTGGCATTTCTGTATTGGCAGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTATCAGAGAGCAGATCGAA
* * * *
44867246 GATAGCAGATTTGGTGTCTCTGTATTGTCAGAGAGCAGATCAAA
1 GATAACAGATTTGGCGTCTCTGTATTATCAGAGAGCAGATCGAA
* * * *
44867290 GATAGCAGATTTGGCATTTCTGTATTGA-CAGAGAGCAGATCAAA
1 GATAACAGATTTGGCGTCTCTGTATT-ATCAGAGAGCAGATCGAA
* **
44867334 GATAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTATCAGAGAGCAGATCGAA
* * * *
44867378 GATAGCAGATTTGGTGTCTCTGTATTGTCAGAGAGCAGATCAAA
1 GATAACAGATTTGGCGTCTCTGTATTATCAGAGAGCAGATCGAA
* **
44867422 GATAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTATCAGAGAGCAGATCGAA
* * * *
44867466 GATAGCAGATTTGGTGTCTCTGTATTGA-CAAAAAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATT-ATCAGAGAGCAGATCGAA
* * *
44867510 GATAACAGATTTGTCGTCTCTGTATTGA-CAAAGAGTAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATT-ATCAGAGAGCAGATCGAA
* ** *
44867554 GATAACATATTTGTTGTC-CTGTATTGA-CAAAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATT-ATCAGAGAGCAGATCGAA
* * * * *
44867597 GATAACAGATTTAGCGTTTCTATATTGA-CAGAGGGCAGATTGAA
1 GATAACAGATTTGGCGTCTCTGTATT-ATCAGAGAGCAGATCGAA
* * * * *
44867641 GATGACAGGTTTGGCATCTCTGTATTAACAGAGAACAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTATCAGAGAGCAGATCGAA
* *
44867685 GATAACATATTTGGTGTCTCTGTATTGA-CAGAG-GACAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATT-ATCAGAGAG-CAGATCGAA
* * *
44867729 GATGACAGATTTGGCTTCTCCGTATTA
1 GATAACAGATTTGGCGTCTCTGTATTA
44867756 GGCAAGGAGT
Statistics
Matches: 794, Mismatches: 137, Indels: 31
0.83 0.14 0.03
Matches are distributed among these distances:
41 29 0.04
42 3 0.00
43 71 0.09
44 689 0.87
45 2 0.00
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.28
Consensus pattern (44 bp):
GATAACAGATTTGGCGTCTCTGTATTATCAGAGAGCAGATCGAA
Found at i:44867025 original size:88 final size:88
Alignment explanation
Indices: 44866766--44867754 Score: 1083
Period size: 88 Copynumber: 11.3 Consensus size: 88
44866756 ATAGATCACC
* * * * * *
44866766 GATAGCAGATTTGGCGTCTCTATATT-ATCAGAAAGTAGATCGAAGATAATAGGTTTGGCGTCTC
1 GATAACAGATTTGGCGTCTCTGTATTGA-CAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTC
*
44866830 TGTATTGGCAGAGAGCAGATCGAA
65 TGTATTGACAGAGAGCAGATCGAA
* * * * * * * * *
44866854 AATAACAAATTTGGCGTCTCTATATTAACAAAAAGCA-AAC--CGATAGCAGATTTGGCGTCTCT
1 GATAACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCT
* * *
44866916 GTATTGTCAGAGAGCAAATCGAT
66 GTATTGACAGAGAGCAGATCGAA
* * * * * * *
44866939 GATAACAGGTTTGGCGTCTCTATATTGATAGAGAGCAGATTGAAAATAACAAATTTGGTGTCTCT
1 GATAACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCT
*
44867004 ATATTGACAGAGAGCAGATCGAA
66 GTATTGACAGAGAGCAGATCGAA
* * * * * *
44867027 GATGACAGATTTGGCATCTCTGTATTGATAGAGAGCAGATTGAAGATGACAGATTTGGCGTCTTT
1 GATAACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCT
* * * * *
44867092 ATATT-TCAGAAAGTAGATCAAA
66 GTATTGACAGAGAGCAGATCGAA
* * * * * **
44867114 GATAGCCGATTTGACATCTCTGTATTGTCAGAGAGCAGATCGAAGATAGTAGATTTGGCGTCTCT
1 GATAACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCT
* *
44867179 GTATTGTCAGAGAGCAGATCAAA
66 GTATTGACAGAGAGCAGATCGAA
* * * * *
44867202 GATAACAGATTTGGCATTTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAGATTTGGTGTCTCT
1 GATAACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCT
* *
44867267 GTATTGTCAGAGAGCAGATCAAA
66 GTATTGACAGAGAGCAGATCGAA
* * * * *
44867290 GATAGCAGATTTGGCATTTCTGTATTGACAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCT
1 GATAACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCT
*
44867355 GTATTGGCAGAGAGCAGATCGAA
66 GTATTGACAGAGAGCAGATCGAA
* * * * *
44867378 GATAGCAGATTTGGTGTCTCTGTATTGTCAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCT
1 GATAACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCT
*
44867443 GTATTGGCAGAGAGCAGATCGAA
66 GTATTGACAGAGAGCAGATCGAA
* * * * *
44867466 GATAGCAGATTTGGTGTCTCTGTATTGACAAAAAGCAGATCGAAGATAACAGATTTGTCGTCTCT
1 GATAACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCT
* *
44867531 GTATTGACAAAGAGTAGATCGAA
66 GTATTGACAGAGAGCAGATCGAA
* ** * * *
44867554 GATAACATATTTGTTGTC-CTGTATTGACAAAGAGCAGATCGAAGATAACAGATTTAGCGTTTCT
1 GATAACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCT
* * *
44867618 ATATTGACAGAGGGCAGATTGAA
66 GTATTGACAGAGAGCAGATCGAA
* * * * * * *
44867641 GATGACAGGTTTGGCATCTCTGTATTAACAGAGAACAGATCGAAGATAACATATTTGGTGTCTCT
1 GATAACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCT
44867706 GTATTGACAGAG-GACAGATCGAA
66 GTATTGACAGAGAG-CAGATCGAA
* * *
44867729 GATGACAGATTTGGCTTCTCCGTATT
1 GATAACAGATTTGGCGTCTCTGTATT
44867755 AGGCAAGGAG
Statistics
Matches: 780, Mismatches: 114, Indels: 14
0.86 0.13 0.02
Matches are distributed among these distances:
85 68 0.09
86 1 0.00
87 146 0.19
88 564 0.72
89 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (88 bp):
GATAACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCT
GTATTGACAGAGAGCAGATCGAA
Found at i:44867095 original size:132 final size:131
Alignment explanation
Indices: 44866766--44867754 Score: 1058
Period size: 132 Copynumber: 7.5 Consensus size: 131
44866756 ATAGATCACC
* * * * *
44866766 GATAGCAGATTTGGCGTCTCTATATT-ATCAGAAAGTAGATCGAAGATAATAGGTTTGGCGTCTC
1 GATA-CAGATTTGGCGTCTCTGTATTGA-CAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTC
* * * * * * * * *
44866830 TGTATTGGCAGAGAGCAGATCGAAAATAACAAATTTGGCGTCTCTATATTAACAAAAAGCA-AAC
64 TGTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGTGTCTCTGTATTGACAGAGAGCAGATC
*
44866894 --C
129 GAA
* * * *
44866895 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAAATCGATGATAACAGGTTTGGCGTCTCT
1 GATA-CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCT
* * * * * *
44866960 ATATTGATAGAGAGCAGATTGAAAATAACAAATTTGGTGTCTCTATATTGACAGAGAGCAGATCG
65 GTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGTGTCTCTGTATTGACAGAGAGCAGATCG
44867025 AA
130 AA
* * * * *
44867027 GATGACAGATTTGGCATCTCTGTATTGATAGAGAGCAGATTGAAGATGACAGATTTGGCGTCTTT
1 GAT-ACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCT
* * * * * * * *** *
44867092 ATATT-TCAGAAAGTAGATCAAAGATAGCCGATTTGACATCTCTGTATTGTCAGAGAGCAGATCG
65 GTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGTGTCTCTGTATTGACAGAGAGCAGATCG
44867156 AA
130 AA
* * * * *
44867158 GATAGTAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAGATAACAGATTTGGCATTTCT
1 GATA-CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCT
* * * *
44867223 GTATTGGCAGAGAGCAGATCGAAGATAGCAGATTTGGTGTCTCTGTATTGTCAGAGAGCAGATCA
65 GTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGTGTCTCTGTATTGACAGAGAGCAGATCG
44867288 AA
130 AA
* * * *
44867290 GATAGCAGATTTGGCATTTCTGTATTGACAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCT
1 GATA-CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCT
* * * *
44867355 GTATTGGCAGAGAGCAGATCGAAGATAGCAGATTTGGTGTCTCTGTATTGTCAGAGAGCAGATCA
65 GTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGTGTCTCTGTATTGACAGAGAGCAGATCG
44867420 AA
130 AA
* * *
44867422 GATAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAGATTTGGTGTCTCT
1 GATA-CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCT
* * * *
44867487 GTATTGACAAAAAGCAGATCGAAGATAACAGATTT-GTCGTCTCTGTATTGACAAAGAGTAGATC
65 GTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGT-GTCTCTGTATTGACAGAGAGCAGATC
44867551 GAA
129 GAA
* ** * * *
44867554 GATAACATATTTGTTGTC-CTGTATTGACAAAGAGCAGATCGAAGATAACAGATTTAGCGTTTCT
1 GAT-ACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCT
* * * * * ** * *
44867618 ATATTGACAGAGGGCAGATTGAAGATGACAGGTTTGGCATCTCTGTATTAACAGAGAACAGATCG
65 GTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGTGTCTCTGTATTGACAGAGAGCAGATCG
44867683 AA
130 AA
* * * *
44867685 GATAACATATTTGGTGTCTCTGTATTGACAGAG-GACAGATCGAAGATGACAGATTTGGCTTCTC
1 GAT-ACAGATTTGGCGTCTCTGTATTGACAGAGAG-CAGATCGAAGATAACAGATTTGGCGTCTC
*
44867749 CGTATT
64 TGTATT
44867755 AGGCAAGGAG
Statistics
Matches: 737, Mismatches: 111, Indels: 21
0.85 0.13 0.02
Matches are distributed among these distances:
129 109 0.15
130 3 0.00
131 215 0.29
132 408 0.55
133 2 0.00
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (131 bp):
GATACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTG
TATTGACAGAGAGCAGATCGAAGATAACAGATTTGGTGTCTCTGTATTGACAGAGAGCAGATCGA
A
Found at i:44868794 original size:83 final size:83
Alignment explanation
Indices: 44868655--44868820 Score: 305
Period size: 83 Copynumber: 2.0 Consensus size: 83
44868645 CGGATTCACA
* *
44868655 TCAAAAAATGAAGCTTTCCAGCTTCCAGTCGCCGTATGTGGTGGAGTTGACTGCGGCACGTAGGC
1 TCAAAAAATGAAGCTTTCCAGCTTCCAGTCGCCGTATGTGGCGGAGTTGACGGCGGCACGTAGGC
44868720 GCGTGGGAGCCCAGGGAC
66 GCGTGGGAGCCCAGGGAC
*
44868738 TCAAAAAATGAAGCTTTCCAGCTTCCAGTCGCCGTATGTGGCGGAGTTGACGGCGGCGCGTAGGC
1 TCAAAAAATGAAGCTTTCCAGCTTCCAGTCGCCGTATGTGGCGGAGTTGACGGCGGCACGTAGGC
44868803 GCGTGGGAGCCCAGGGAC
66 GCGTGGGAGCCCAGGGAC
44868821 GGAGGCTCGA
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
83 80 1.00
ACGTcount: A:0.21, C:0.25, G:0.35, T:0.19
Consensus pattern (83 bp):
TCAAAAAATGAAGCTTTCCAGCTTCCAGTCGCCGTATGTGGCGGAGTTGACGGCGGCACGTAGGC
GCGTGGGAGCCCAGGGAC
Found at i:44876622 original size:14 final size:15
Alignment explanation
Indices: 44876603--44876633 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
44876593 TATAATTTTC
44876603 TTAAAATATTAT-TT
1 TTAAAATATTATGTT
44876617 TTAAAATATTATGTT
1 TTAAAATATTATGTT
44876632 TT
1 TT
44876634 TAATATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (15 bp):
TTAAAATATTATGTT
Found at i:44879026 original size:22 final size:22
Alignment explanation
Indices: 44879000--44879043 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
44878990 GAAAATGACC
*
44879000 AAAATTAATCAAAATTTATTAT
1 AAAATTAATCAAAATTCATTAT
*
44879022 AAAATTAATTAAAATTCATTAT
1 AAAATTAATCAAAATTCATTAT
44879044 GTTAATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAATTAATCAAAATTCATTAT
Found at i:44881680 original size:80 final size:80
Alignment explanation
Indices: 44881581--44881766 Score: 273
Period size: 80 Copynumber: 2.3 Consensus size: 80
44881571 TAGAGCATTC
* * * *
44881581 TTTCAATAGATTCAGTAGGTCTGGCTTGAAAGCGCATACGTTTTAGTAGATTCATTAGGCATGGC
1 TTTCAATAGATTCACTAGGTATGGCTTGAAAGCGCATACGTTTCAGTAGATTCACTAGGCATGGC
* *
44881646 TCGAAAGCGCATATG
66 TCGAAAGCACATACG
* * *
44881661 TTTCAATAGATTCACTAGGTATGGCTTGAAAGTGCATATGTTTCAGTAGATTCACTAGGTATGGC
1 TTTCAATAGATTCACTAGGTATGGCTTGAAAGCGCATACGTTTCAGTAGATTCACTAGGCATGGC
44881726 TCGAAAGCACATACG
66 TCGAAAGCACATACG
* *
44881741 TTTCAATAGATTCACTAAGTTTGGCT
1 TTTCAATAGATTCACTAGGTATGGCT
44881767 CGTCTAAGCA
Statistics
Matches: 95, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
80 95 1.00
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (80 bp):
TTTCAATAGATTCACTAGGTATGGCTTGAAAGCGCATACGTTTCAGTAGATTCACTAGGCATGGC
TCGAAAGCACATACG
Found at i:44881766 original size:40 final size:40
Alignment explanation
Indices: 44881581--44881768 Score: 241
Period size: 40 Copynumber: 4.7 Consensus size: 40
44881571 TAGAGCATTC
* * *
44881581 TTTCAATAGATTCAGTAGGTCTGGCTTGAAAGCGCATACG
1 TTTCAATAGATTCACTAGGTATGGCTCGAAAGCGCATACG
* * * * *
44881621 TTTTAGTAGATTCATTAGGCATGGCTCGAAAGCGCATATG
1 TTTCAATAGATTCACTAGGTATGGCTCGAAAGCGCATACG
* * *
44881661 TTTCAATAGATTCACTAGGTATGGCTTGAAAGTGCATATG
1 TTTCAATAGATTCACTAGGTATGGCTCGAAAGCGCATACG
* *
44881701 TTTCAGTAGATTCACTAGGTATGGCTCGAAAGCACATACG
1 TTTCAATAGATTCACTAGGTATGGCTCGAAAGCGCATACG
* *
44881741 TTTCAATAGATTCACTAAGTTTGGCTCG
1 TTTCAATAGATTCACTAGGTATGGCTCG
44881769 TCTAAGCACC
Statistics
Matches: 127, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 127 1.00
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.32
Consensus pattern (40 bp):
TTTCAATAGATTCACTAGGTATGGCTCGAAAGCGCATACG
Found at i:44883143 original size:25 final size:27
Alignment explanation
Indices: 44883106--44883158 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
44883096 TCAAACATGC
44883106 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
44883132 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
44883158 A
1 A
44883159 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:44884686 original size:26 final size:26
Alignment explanation
Indices: 44884648--44884705 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
44884638 CATGAAATTC
44884648 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
44884674 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
44884700 TTATCA
1 TTATCA
44884706 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:44888188 original size:27 final size:27
Alignment explanation
Indices: 44888122--44888179 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
44888112 ACAATCATAC
*
44888122 ATCACATAGGGGCATAACAGTCATTTT
1 ATCACATAGGGGTATAACAGTCATTTT
44888149 ATCACATAGGGGTATAACAGTCATTTT
1 ATCACATAGGGGTATAACAGTCATTTT
44888176 ATCA
1 ATCA
44888180 ATTGGGGGTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (27 bp):
ATCACATAGGGGTATAACAGTCATTTT
Found at i:44889832 original size:36 final size:37
Alignment explanation
Indices: 44889790--44889888 Score: 112
Period size: 36 Copynumber: 2.7 Consensus size: 37
44889780 TTTTTAACCT
* *
44889790 TCTTTTTTATTTAAACCTTAAACAAAGTCATCTAAT-C
1 TCTTTTTTATTTAAACCCTAAACAAA-CCATCTAATAC
* * * *
44889827 TTTTTTTTGTTTAAACCCTAAACAAACCTTTTAATAC
1 TCTTTTTTATTTAAACCCTAAACAAACCATCTAATAC
*
44889864 -CTTTTTTATTCAAACCCTAAACAAA
1 TCTTTTTTATTTAAACCCTAAACAAA
44889889 ATCCTCTTTT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
36 28 0.54
37 24 0.46
ACGTcount: A:0.35, C:0.20, G:0.02, T:0.42
Consensus pattern (37 bp):
TCTTTTTTATTTAAACCCTAAACAAACCATCTAATAC
Found at i:44894457 original size:17 final size:17
Alignment explanation
Indices: 44894426--44894483 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 17
44894416 TAATAGATTT
*
44894426 AAAATATAATATATAATA
1 AAAATAT-ATTTATAATA
*
44894444 AAAATATATTTATAAGA
1 AAAATATATTTATAATA
*
44894461 ATAATA-A-TTAT-AT-
1 AAAATATATTTATAATA
44894474 AAAATATATT
1 AAAATATATT
44894484 GGTTTAGAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
13 5 0.15
14 2 0.06
15 5 0.15
16 1 0.03
17 13 0.39
18 7 0.21
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (17 bp):
AAAATATATTTATAATA
Found at i:44894784 original size:3 final size:3
Alignment explanation
Indices: 44894776--44894999 Score: 51
Period size: 3 Copynumber: 72.3 Consensus size: 3
44894766 AAAAAATGAC
*
44894776 ATA ATA AT- ATA A-A ATA ATT ATA ATA TATA AT- ATGA A-A ATA TATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA AT-A ATA ATA -ATA
* *
44894820 TGTA AAA ATA ATA CATA AT- ATA TATAA ATA ATTA ATAA ATA TATA ATA
1 -ATA ATA ATA ATA -ATA ATA ATA -AT-A ATA A-TA AT-A ATA -ATA ATA
* * * *
44894868 CA-A GTA AAA AT- ATA ATA ATA ATA TATAA ATA ATG AT- GTA A-A ATA
1 -ATA ATA ATA ATA ATA ATA ATA ATA -AT-A ATA ATA ATA ATA ATA ATA
* * * *
44894912 ATA ATA ATTT GTGA AAA ATA ATA TATA ATAA ATA ATA ATA A-C ATAA
1 ATA ATA A-TA AT-A ATA ATA ATA -ATA AT-A ATA ATA ATA ATA AT-A
* * *
44894958 ATA ATA TATA A-A GTA ATT AT- ATA ATA TATA AT- ATA AAA ATA A
1 ATA ATA -ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA A
44895000 GGTTAAAAAT
Statistics
Matches: 163, Mismatches: 26, Indels: 64
0.64 0.10 0.25
Matches are distributed among these distances:
2 21 0.13
3 94 0.58
4 46 0.28
5 2 0.01
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:44894799 original size:59 final size:59
Alignment explanation
Indices: 44894734--44894998 Score: 201
Period size: 59 Copynumber: 4.4 Consensus size: 59
44894724 ACTTAAATGA
44894734 TAATAATATATAGATA-AAAAATATA-ATAGTATAAAA-AATGACATAATA-ATATAAAATAAT
1 TAATAATATATA-ATATAAAAATATATAT-GTA-AAAATAAT-ACATAATATATAT-AAATAAT
*
44894794 T-ATAATATATAATATGAAAATATATATGTAAAAATAATACATAATATATATAAATAAT
1 TAATAATATATAATATAAAAATATATATGTAAAAATAATACATAATATATATAAATAAT
* * * * * *
44894852 TAATAAATATATAATACAAGTAAAAATATA-ATAATAATATATAAATAATGATGTA-AAATAA-
1 TAAT-AATATATAATATAA--AAATATATATGTAAAAATA-ATACATAAT-ATATATAAATAAT
* * * *
44894913 TAATAATTTGTGAA-A-AATAATATATA-ATAAATAATAATAACATAAATAATATATAAAGTAAT
1 TAATAATATAT-AATATAAAAATATATATGTAAA-AATAAT-ACAT-AAT-ATATATAAA-TAAT
44894975 TATATAATATATAATATAAAAATA
1 TA-ATAATATATAATATAAAAATA
44894999 AGGTTAAAAA
Statistics
Matches: 166, Mismatches: 19, Indels: 36
0.75 0.09 0.16
Matches are distributed among these distances:
57 13 0.08
58 30 0.18
59 39 0.23
60 24 0.14
61 16 0.10
62 26 0.16
63 12 0.07
64 6 0.04
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (59 bp):
TAATAATATATAATATAAAAATATATATGTAAAAATAATACATAATATATATAAATAAT
Found at i:44894816 original size:13 final size:12
Alignment explanation
Indices: 44894779--44894899 Score: 56
Period size: 13 Copynumber: 9.8 Consensus size: 12
44894769 AAATGACATA
44894779 ATAATATAAAAT
1 ATAATATAAAAT
* *
44894791 A-ATTATAATAT
1 ATAATATAAAAT
44894802 ATAATATGAAAAT
1 ATAATAT-AAAAT
*
44894815 ATATATGTAAAA-
1 ATA-ATATAAAAT
44894827 ATAATACATAATATAT
1 ATAAT--ATAA-A-AT
44894843 ATAA-ATAATTAAT
1 ATAATATAA--AAT
*
44894856 A-AATATATAAT
1 ATAATATAAAAT
*
44894867 ACAAGTA-AAAAT
1 ATAA-TATAAAAT
*
44894879 ATAATAATAATAT
1 ATAAT-ATAAAAT
44894892 ATAA-ATAA
1 ATAATATAA
44894900 TGATGTAAAA
Statistics
Matches: 85, Mismatches: 10, Indels: 29
0.69 0.08 0.23
Matches are distributed among these distances:
11 20 0.24
12 20 0.24
13 34 0.40
14 6 0.07
15 1 0.01
16 4 0.05
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (12 bp):
ATAATATAAAAT
Found at i:44894848 original size:20 final size:19
Alignment explanation
Indices: 44894727--44895063 Score: 107
Period size: 20 Copynumber: 17.3 Consensus size: 19
44894717 AGTTAAAACT
*
44894727 TAAATGATAATAATATATAGA
1 TAAATAATAATAATATAT--A
*
44894748 TAAAAAAT-ATAATAGTATA
1 TAAATAATAATAATA-TATA
44894767 -AAA-AATGACATAATA-ATA
1 TAAATAAT-A-ATAATATATA
*
44894785 TAAAATAATTATAATATATA
1 T-AAATAATAATAATATATA
* *
44894805 -ATATGAA-AATATATATGTA
1 TAAAT-AATAATA-ATATATA
*
44894824 AAAATAATACATAATATATA
1 TAAATAATA-ATAATATATA
44894844 TAAATAATTAATAA-ATATA
1 TAAATAA-TAATAATATATA
* *
44894863 TAATACAAGTAAAAATATA-A
1 TAA-ATAA-TAATAATATATA
*
44894883 T-AATAATATATAAATAATGATG
1 TAAATAATA-AT-AAT-AT-ATA
* *
44894905 TAAAATAATAATAATTTGTGA
1 T-AAATAATAATAATATAT-A
*
44894926 AAAATAATATATAATA-A-A
1 TAAATAATA-ATAATATATA
44894944 T-AATAATAACATAAATAATATA
1 TAAATAAT-A-AT-AAT-ATATA
44894966 TAAAGTAATTATATAATATATA
1 TAAA-TAA-TA-ATAATATATA
* * **
44894988 -ATATAAAAATAAGGT-TA
1 TAAATAATAATAATATATA
* *
44895005 AAAATAA-AACAA-ATA-A
1 TAAATAATAATAATATATA
* * *
44895021 CAAATAA-AAAAATTTATA
1 TAAATAATAATAATATATA
* *
44895039 TATATAATAATAATATAAA
1 TAAATAATAATAATATATA
44895058 TAAATA
1 TAAATA
44895064 TATAGGGTTA
Statistics
Matches: 238, Mismatches: 40, Indels: 78
0.67 0.11 0.22
Matches are distributed among these distances:
16 12 0.05
17 19 0.08
18 36 0.15
19 46 0.19
20 63 0.26
21 30 0.13
22 11 0.05
23 7 0.03
24 13 0.05
25 1 0.00
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (19 bp):
TAAATAATAATAATATATA
Found at i:44894860 original size:45 final size:46
Alignment explanation
Indices: 44894781--44894999 Score: 119
Period size: 49 Copynumber: 4.5 Consensus size: 46
44894771 ATGACATAAT
* *
44894781 AATATAA-AATAATTATAATATATAATATGA-AAATATAT-AT-GTAAA
1 AATATAATAATAA-TAT-ATAAATAAT-TAATAAATATATAATAGTAAA
44894826 AATAATACATAAT-ATATATAAATAATTAATAAATATATAATACAAGTAAA
1 AAT-ATA-ATAATAATATATAAATAATTAATAAATATATAAT---AGTAAA
* * * *
44894876 AATATAATAATAATATATAAATAATGATGTAAAATAATAATAATTTGTGAA
1 AATATAATAATAATATATAAATAATTA-AT-AAAT-AT-ATAA-TAGTAAA
* * * *
44894927 AA-ATAATATATAATAAAT-AATAATAACATAAATAATATATAAAGTAAT
1 AATATAATA-ATAATATATAAATAATTA-ATAAAT-ATATA-ATAGTAAA
* *
44894975 TATATAATATATAATATAAAAATAA
1 AATATAATA-ATAATATATAAATAA
44895000 GGTTAAAAAT
Statistics
Matches: 138, Mismatches: 17, Indels: 33
0.73 0.09 0.18
Matches are distributed among these distances:
44 2 0.01
45 19 0.14
46 8 0.06
47 2 0.01
48 15 0.11
49 39 0.28
50 28 0.20
51 18 0.13
52 2 0.01
53 4 0.03
54 1 0.01
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (46 bp):
AATATAATAATAATATATAAATAATTAATAAATATATAATAGTAAA
Found at i:44894888 original size:58 final size:57
Alignment explanation
Indices: 44894736--44894995 Score: 149
Period size: 58 Copynumber: 4.3 Consensus size: 57
44894726 TTAAATGATA
* *
44894736 ATAATATATAGATAAAAAAT-ATAATAGTATAAAA-AATGACATAATAATATAAAATAATT
1 ATAATATATA-ATAGAAAATAAAAATA-TA-AAAATAAT-ACATAATAATATAAAATAATT
* * *
44894795 ATAATATATAATATGAAAATATATATGTAAAAATAATACATAAT-ATATATAAATAATT
1 ATAATATATAATA-GAAAATAAAAATATAAAAATAATACATAATAATATA-AAATAATT
* * * * *
44894853 AATAAATATATAATA-CAAGTAAAAATATAATAATAATATATAAATAATGATGTAAAATAATA
1 -AT-AATATATAATAGAAAATAAAAATATAAAAATAATACAT-AATAAT-A--TAAAATAATT
* *
44894915 ATAAT-T-T-GT-GAAAAATAATATATAATAAATAATAATAACATAAATAATATATAAAGTAATT
1 ATAATATATAATAG-AAAATAA-AAAT-ATAAA-AATAAT-ACAT-AATAATATA-AAA-TAA-T
44894976 AT
57 -T
*
44894978 ATAATATATAATATAAAA
1 ATAATATATAATAGAAAA
44894996 ATAAGGTTAA
Statistics
Matches: 154, Mismatches: 22, Indels: 43
0.70 0.10 0.20
Matches are distributed among these distances:
57 6 0.04
58 47 0.31
59 31 0.20
60 25 0.16
61 13 0.08
62 18 0.12
63 7 0.05
64 1 0.01
65 1 0.01
66 5 0.03
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (57 bp):
ATAATATATAATAGAAAATAAAAATATAAAAATAATACATAATAATATAAAATAATT
Found at i:44894900 original size:17 final size:17
Alignment explanation
Indices: 44894733--44894999 Score: 87
Period size: 17 Copynumber: 15.2 Consensus size: 17
44894723 AACTTAAATG
*
44894733 ATAATAATATATAGATAA
1 ATAATAATA-ATATATAA
*
44894751 AAAAT-ATAATAGTATAA
1 ATAATAATAATA-TATAA
*
44894768 AAAATGACATAATAATATAAA
1 ATAAT-A-ATAAT-ATAT-AA
*
44894789 ATAATTATAATATATAA
1 ATAATAATAATATATAA
*
44894806 TATGAA-AATATATATGTAA
1 -AT-AATAATA-ATATATAA
*
44894825 A-AATAATACATA-ATAT
1 ATAATAATA-ATATATAA
44894841 AT-ATAAATAAT-TAATAA
1 ATAAT-AATAATAT-ATAA
*
44894858 ATATATAATACA-AGTAAAA
1 ATA-ATAATA-ATA-TATAA
*
44894877 AT-ATAATAATA-ATAT
1 ATAATAATAATATATAA
* *
44894892 ATAAATAATGATGTA-AA
1 AT-AATAATAATATATAA
* *
44894909 ATAATAATAATTTGTGAA
1 ATAATAATAATATAT-AA
44894927 A-AATAAT-ATATAATAA
1 ATAATAATAATAT-ATAA
*
44894943 ATAATAAT-A-ACATAA
1 ATAATAATAATATATAA
*
44894958 ATAATATATAA-AGTAATTAT
1 ATAATA-ATAATA-T-A-TAA
*
44894978 ATAATATATAATATAAAA
1 ATAATA-ATAATATATAA
44894996 ATAA
1 ATAA
44895000 GGTTAAAAAT
Statistics
Matches: 190, Mismatches: 26, Indels: 66
0.67 0.09 0.23
Matches are distributed among these distances:
15 14 0.07
16 31 0.16
17 63 0.33
18 27 0.14
19 24 0.13
20 23 0.12
21 8 0.04
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.33
Consensus pattern (17 bp):
ATAATAATAATATATAA
Found at i:44894964 original size:27 final size:27
Alignment explanation
Indices: 44894829--44894999 Score: 99
Period size: 27 Copynumber: 6.2 Consensus size: 27
44894819 ATGTAAAAAT
44894829 AATACATAATATATATAAATAAT-TAATA
1 AATA-ATAATATA-ATAAATAATATAATA
*
44894857 AATATATAATACAAGTAAA-AATATAAT-
1 AATA-ATAATATAA-TAAATAATATAATA
* * *
44894884 AATAAT-ATATAA-ATAATGATGTAAAA
1 AATAATAATATAATA-AATAATATAATA
*
44894910 TAATAATAATTTGTGAA-AAATAATATATAATA
1 -AATAATAA--TAT-AATAAAT-A-ATATAATA
44894942 AATAATAATA-ACATAAATAATAT-ATA
1 AATAATAATATA-ATAAATAATATAATA
* *
44894968 AAGTAATTATATAATATATAATATAA-A
1 AA-TAATAATATAATAAATAATATAATA
44894995 AATAA
1 AATAA
44895000 GGTTAAAAAT
Statistics
Matches: 113, Mismatches: 13, Indels: 36
0.70 0.08 0.22
Matches are distributed among these distances:
23 1 0.01
24 2 0.02
25 10 0.09
26 10 0.09
27 39 0.35
28 24 0.21
29 5 0.04
30 5 0.04
31 11 0.10
32 6 0.05
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (27 bp):
AATAATAATATAATAAATAATATAATA
Found at i:44894989 original size:15 final size:15
Alignment explanation
Indices: 44894847--44894989 Score: 56
Period size: 14 Copynumber: 9.8 Consensus size: 15
44894837 ATATATATAA
* *
44894847 ATAATTAATAAATAT
1 ATAATAAATAATTAT
**
44894862 ATAATACAAGTAAAAAT
1 ATAATA-AA-TAATTAT
44894879 ATAAT-AATAA-TAT
1 ATAATAAATAATTAT
* *
44894892 ATAA-ATAATGATGTAAA
1 ATAATA-AATAAT-T-AT
44894909 ATAAT-AATAATT-T
1 ATAATAAATAATTAT
*
44894922 GTGAA-AAATAA-TAT
1 AT-AATAAATAATTAT
*
44894936 ATAATAAATAATAAT
1 ATAATAAATAATTAT
44894951 A-ACATAAATAA-TAT
1 ATA-ATAAATAATTAT
*
44894965 AT-A-AAGTAATTAT
1 ATAATAAATAATTAT
*
44894978 ATAATATATAAT
1 ATAATAAATAAT
44894990 ATAAAAATAA
Statistics
Matches: 96, Mismatches: 14, Indels: 36
0.66 0.10 0.25
Matches are distributed among these distances:
12 5 0.05
13 16 0.17
14 27 0.28
15 24 0.25
16 8 0.08
17 16 0.17
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.34
Consensus pattern (15 bp):
ATAATAAATAATTAT
Found at i:44895347 original size:9 final size:9
Alignment explanation
Indices: 44895335--44895362 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
44895325 GCAGTACCTG
44895335 CACACGCGC
1 CACACGCGC
44895344 CACACGCGC
1 CACACGCGC
44895353 CACACGCGC
1 CACACGCGC
44895362 C
1 C
44895363 GTCGTACACG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.21, C:0.57, G:0.21, T:0.00
Consensus pattern (9 bp):
CACACGCGC
Found at i:44899087 original size:32 final size:32
Alignment explanation
Indices: 44899035--44899115 Score: 110
Period size: 32 Copynumber: 2.5 Consensus size: 32
44899025 TGAAATTAGT
* *
44899035 TTGTTAGATTTTAAAATTATTATGTTTTAAAG-
1 TTGTTAGATATTGAAATTATTATGTTTT-AAGC
*
44899067 TTGTTAGATATTGAATTTATTATGTTTTAAGC
1 TTGTTAGATATTGAAATTATTATGTTTTAAGC
*
44899099 TTGTTGGATATTGAAAT
1 TTGTTAGATATTGAAAT
44899116 GATTGATAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
31 3 0.07
32 40 0.93
ACGTcount: A:0.31, C:0.01, G:0.16, T:0.52
Consensus pattern (32 bp):
TTGTTAGATATTGAAATTATTATGTTTTAAGC
Found at i:44903622 original size:21 final size:19
Alignment explanation
Indices: 44903585--44903630 Score: 65
Period size: 21 Copynumber: 2.3 Consensus size: 19
44903575 ACCCAGAATG
44903585 AAATAAAATAACAATAAAA
1 AAATAAAATAACAATAAAA
*
44903604 AAATAAATATAACCAATAACA
1 AAATAAA-ATAA-CAATAAAA
44903625 AAATAA
1 AAATAA
44903631 TTACTCACTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 7 0.29
20 4 0.17
21 13 0.54
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.17
Consensus pattern (19 bp):
AAATAAAATAACAATAAAA
Found at i:44904275 original size:11 final size:11
Alignment explanation
Indices: 44904256--44904301 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
44904246 GAAGATATTA
44904256 TTTTATTTTAT
1 TTTTATTTTAT
*
44904267 TTTTGTTTT-T
1 TTTTATTTTAT
*
44904277 ATTTA-TTTAT
1 TTTTATTTTAT
44904287 TATTTATTTTAT
1 T-TTTATTTTAT
44904299 TTT
1 TTT
44904302 ATTAAATTAG
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
9 3 0.11
10 5 0.18
11 14 0.50
12 6 0.21
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:44904444 original size:5 final size:5
Alignment explanation
Indices: 44904434--44904485 Score: 52
Period size: 5 Copynumber: 10.0 Consensus size: 5
44904424 TTAGAAGATA
* *
44904434 TTATT TTATT TTATT TT-TGT TTTTAT TTATT TTTTAT TTATT TTATT
1 TTATT TTATT TTATT TTAT-T TTAT-T TTATT TTAT-T TTATT TTATT
44904481 TTATT
1 TTATT
44904486 AAATTAGTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
4 1 0.03
5 30 0.75
6 9 0.22
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:44904456 original size:11 final size:10
Alignment explanation
Indices: 44904437--44904485 Score: 53
Period size: 11 Copynumber: 4.7 Consensus size: 10
44904427 GAAGATATTA
44904437 TTTTATTTTAT
1 TTTTATTTT-T
*
44904448 TTTTGTTTTT
1 TTTTATTTTT
*
44904458 ATTTATTTTT
1 TTTTATTTTT
*
44904468 TATTTATTTTA
1 T-TTTATTTTT
44904479 TTTTATT
1 TTTTATT
44904486 AAATTAGTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
10 15 0.47
11 17 0.53
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.82
Consensus pattern (10 bp):
TTTTATTTTT
Found at i:44904462 original size:16 final size:16
Alignment explanation
Indices: 44904437--44904482 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
44904427 GAAGATATTA
44904437 TTTTATTTTATTTTTGT
1 TTTTATTTTATTTTT-T
44904454 TTTTA-TTTATTTTTT
1 TTTTATTTTATTTTTT
*
44904469 ATTTATTTTATTTT
1 TTTTATTTTATTTT
44904483 ATTAAATTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 5 0.19
16 17 0.63
17 5 0.19
ACGTcount: A:0.15, C:0.00, G:0.02, T:0.83
Consensus pattern (16 bp):
TTTTATTTTATTTTTT
Found at i:44904549 original size:181 final size:181
Alignment explanation
Indices: 44904245--44904606 Score: 715
Period size: 181 Copynumber: 2.0 Consensus size: 181
44904235 GCCAAAAATA
44904245 AGAAGATATTATTTTATTTTATTTTTGTTTTTATTTATTTATTATTTATTTTATTTTATTAAATT
1 AGAAGATATTATTTTATTTTATTTTTGTTTTTATTTATTTATTATTTATTTTATTTTATTAAATT
44904310 AGTTAGGCTATTTTTAGTAAACCCCATGTATATAAATAGAGGTATTTTGTTCTTTGAAAAGGGTC
66 AGTTAGGCTATTTTTAGTAAACCCCATGTATATAAATAGAGGTATTTTGTTCTTTGAAAAGGGTC
44904375 AATTACTCTTGTATTCCTACTTCAATTTGGAATTGGATTATTCTCTCTTTT
131 AATTACTCTTGTATTCCTACTTCAATTTGGAATTGGATTATTCTCTCTTTT
*
44904426 AGAAGATATTATTTTATTTTATTTTTGTTTTTATTTATTTTTTATTTATTTTATTTTATTAAATT
1 AGAAGATATTATTTTATTTTATTTTTGTTTTTATTTATTTATTATTTATTTTATTTTATTAAATT
44904491 AGTTAGGCTATTTTTAGTAAACCCCATGTATATAAATAGAGGTATTTTGTTCTTTGAAAAGGGTC
66 AGTTAGGCTATTTTTAGTAAACCCCATGTATATAAATAGAGGTATTTTGTTCTTTGAAAAGGGTC
44904556 AATTACTCTTGTATTCCTACTTCAATTTGGAATTGGATTATTCTCTCTTTT
131 AATTACTCTTGTATTCCTACTTCAATTTGGAATTGGATTATTCTCTCTTTT
44904607 CCTACTTCCA
Statistics
Matches: 180, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
181 180 1.00
ACGTcount: A:0.27, C:0.09, G:0.12, T:0.53
Consensus pattern (181 bp):
AGAAGATATTATTTTATTTTATTTTTGTTTTTATTTATTTATTATTTATTTTATTTTATTAAATT
AGTTAGGCTATTTTTAGTAAACCCCATGTATATAAATAGAGGTATTTTGTTCTTTGAAAAGGGTC
AATTACTCTTGTATTCCTACTTCAATTTGGAATTGGATTATTCTCTCTTTT
Found at i:44905076 original size:3 final size:3
Alignment explanation
Indices: 44905048--44905175 Score: 62
Period size: 3 Copynumber: 43.3 Consensus size: 3
44905038 CTGTTACTAC
* * * * * * *
44905048 TAT TTT TAT TAG TAT TGT TCT TAT TAT TAT TAT TAC CAC TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * * * *
44905096 T-T TAT CAC TAC TGT CAT TAT TAT T-C TAG TAT TAT TAG TAT TAT TAG
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
44905142 TAT TAT TAT TAC TAC TAT TTT TAT TAT CAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
44905176 TTTTTTTAAA
Statistics
Matches: 91, Mismatches: 32, Indels: 4
0.72 0.25 0.03
Matches are distributed among these distances:
2 3 0.03
3 88 0.97
ACGTcount: A:0.28, C:0.09, G:0.05, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:44905151 original size:15 final size:15
Alignment explanation
Indices: 44905019--44905167 Score: 57
Period size: 15 Copynumber: 9.7 Consensus size: 15
44905009 TTTTTTTAGC
* *
44905019 ATTATTATTTCTGTT
1 ATTATTATTACTATT
* * *
44905034 ATTACTGTTACTACT
1 ATTATTATTACTATT
* *
44905049 ATTTTTATTAGTATT
1 ATTATTATTACTATT
* * *
44905064 GTTCTTATTATTATT
1 ATTATTATTACTATT
** * *
44905079 ATTACCACTATTATT
1 ATTATTATTACTATT
*
44905094 ATT-TTATCACTACTGT
1 ATTATTATTACTA-T-T
*
44905110 CATTATTATTCTAGTATT
1 -ATTATTA-T-TACTATT
* * *
44905128 ATTAGTATTATTAGT
1 ATTATTATTACTATT
*
44905143 ATTATTATTACTACT
1 ATTATTATTACTATT
*
44905158 ATTTTTATTA
1 ATTATTATTA
44905168 TCATTATTTT
Statistics
Matches: 96, Mismatches: 32, Indels: 12
0.69 0.23 0.09
Matches are distributed among these distances:
14 4 0.04
15 72 0.75
16 2 0.02
17 9 0.09
18 4 0.04
19 2 0.02
20 3 0.03
ACGTcount: A:0.28, C:0.10, G:0.05, T:0.57
Consensus pattern (15 bp):
ATTATTATTACTATT
Found at i:44905325 original size:15 final size:14
Alignment explanation
Indices: 44905316--44905354 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
44905306 TTTATTCTTG
44905316 TCTTCATTATTATTA
1 TCTT-ATTATTATTA
44905331 TCTTATTATATATTA
1 TCTTATTAT-TATTA
*
44905346 TCCTATTAT
1 TCTTATTAT
44905355 GTACCTATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.28, C:0.13, G:0.00, T:0.59
Consensus pattern (14 bp):
TCTTATTATTATTA
Found at i:44905329 original size:23 final size:20
Alignment explanation
Indices: 44905266--44905311 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
44905256 TAGAATTTCC
44905266 TTTA-TTATTTCATTAATTAT
1 TTTATTTATTTCATT-ATTAT
*
44905286 TTTATTTATTTCATTTTTAT
1 TTTATTTATTTCATTATTAT
44905306 TTTATT
1 TTTATT
44905312 CTTGTCTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTATTTATTTCATTATTAT
Found at i:44907145 original size:19 final size:20
Alignment explanation
Indices: 44907102--44907146 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
44907092 CGTCTCCTTT
*
44907102 TGCATT-CATTTCATGCATC
1 TGCATTGCATTTCATGCATA
*
44907121 TACATTGCATTTCAT-CATA
1 TGCATTGCATTTCATGCATA
44907140 TGCATTG
1 TGCATTG
44907147 AATGTCACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.24, C:0.22, G:0.11, T:0.42
Consensus pattern (20 bp):
TGCATTGCATTTCATGCATA
Found at i:44909084 original size:19 final size:19
Alignment explanation
Indices: 44909060--44909096 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
44909050 TTTTGAGAAA
44909060 ATATTCTTTTATTCTTTAT
1 ATATTCTTTTATTCTTTAT
*
44909079 ATATTCTTTTGTTCTTTA
1 ATATTCTTTTATTCTTTA
44909097 GACTCTCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.03, T:0.68
Consensus pattern (19 bp):
ATATTCTTTTATTCTTTAT
Found at i:44912096 original size:134 final size:134
Alignment explanation
Indices: 44911958--44912265 Score: 474
Period size: 134 Copynumber: 2.3 Consensus size: 134
44911948 CAAACTGAAT
* *
44911958 ATTGTAGATTTTATCTCCCTGAGATAGAAGTGGAGCAGATCAAAGACGACAAATCTTATCTTCCC
1 ATTGTAGATCTTATCTCCCTGAGATAGCAGTGGAGCAGATCAAAGACGACAAATCTTATCTTCCC
* *
44912023 AAAGTAGCAGGGGAGCAGATTTAAGTCACCAGCCTTATCTCCTTGAGGTAGCAAAGGAGTAGGCT
66 AAAGTAGCAGGGGAGCAGATTTAAGCCACAAGCCTTATCTCCTTGAGGTAGCAAAGGAGTAGGCT
44912088 AAAG
131 AAAG
* *
44912092 ATTGTAGATCTTATCTCCCTGAGATAGCAGTGGAGCATATCAAAGACGATAAATCTTATCTTCCC
1 ATTGTAGATCTTATCTCCCTGAGATAGCAGTGGAGCAGATCAAAGACGACAAATCTTATCTTCCC
* * * *
44912157 GAGGTAGCAGGGGAGTAGATTTAAGCCACAAGCCTTATCTCCTTGAGGTAGCAAAGGAGTAGGTT
66 AAAGTAGCAGGGGAGCAGATTTAAGCCACAAGCCTTATCTCCTTGAGGTAGCAAAGGAGTAGGCT
*
44912222 GAAG
131 AAAG
* * *
44912226 ATTGTATATCATATCTCCTTGA-AGTAGCAGTGGAGCAGAT
1 ATTGTAGATCTTATCTCCCTGAGA-TAGCAGTGGAGCAGAT
44912266 TGAAGATGGT
Statistics
Matches: 158, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
133 1 0.01
134 157 0.99
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.26
Consensus pattern (134 bp):
ATTGTAGATCTTATCTCCCTGAGATAGCAGTGGAGCAGATCAAAGACGACAAATCTTATCTTCCC
AAAGTAGCAGGGGAGCAGATTTAAGCCACAAGCCTTATCTCCTTGAGGTAGCAAAGGAGTAGGCT
AAAG
Found at i:44912633 original size:89 final size:88
Alignment explanation
Indices: 44912417--44912633 Score: 211
Period size: 89 Copynumber: 2.4 Consensus size: 88
44912407 AAGATTTTAT
* * * ** * *
44912417 CTCCCTAAAGTTGCAGCGGAATAGATCGAAGATAGCAAACCTTATCTCTTTGAAGTTGTAGTAGA
1 CTCCCTAAAGTTACAGCGGAGTAGATCGAAGCTA-CAAACCTTATCTCCCTGAAGTTGCAATAGA
* * *
44912482 GCAGGTTGAAGTAGCAAGTCTTAT
65 GCAAGTTGAAGTAGCAACTCTTAC
* * * * *
44912506 CTCCCTGAAGTTACAGTGGAGCA-AACTGAAGACCACAAACCTTATCTCCCTGAAGTTGCAATAG
1 CTCCCTAAAGTTACAGCGGAGTAGATC-GAAG-CTACAAACCTTATCTCCCTGAAGTTGCAATAG
* *
44912570 AGCAAGTTGAAATTATCAACTCTTAC
64 AGCAAGTTG-AAGTAGCAACTCTTAC
* * *
44912596 CTCCTTAAAGTTCCAGCAGAGTAGATCGAAGCTACAAA
1 CTCCCTAAAGTTACAGCGGAGTAGATCGAAGCTACAAA
44912634 TCTCTTTTCC
Statistics
Matches: 99, Mismatches: 25, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
88 2 0.02
89 61 0.62
90 34 0.34
91 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (88 bp):
CTCCCTAAAGTTACAGCGGAGTAGATCGAAGCTACAAACCTTATCTCCCTGAAGTTGCAATAGAG
CAAGTTGAAGTAGCAACTCTTAC
Found at i:44913046 original size:4 final size:5
Alignment explanation
Indices: 44913027--44913061 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
44913017 TAGGAAGATA
44913027 TTATT TTATT TT-TAT TTATT TTATT TTATT TTATT
1 TTATT TTATT TTAT-T TTATT TTATT TTATT TTATT
44913062 AAATTAGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 1 0.04
5 26 0.93
6 1 0.04
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:44913061 original size:15 final size:15
Alignment explanation
Indices: 44913027--44913057 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
44913017 TAGGAAGATA
44913027 TTATTTTATTTTTAT
1 TTATTTTATTTTTAT
44913042 TTATTTTA-TTTTAT
1 TTATTTTATTTTTAT
44913056 TT
1 TT
44913058 TATTAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (15 bp):
TTATTTTATTTTTAT
Found at i:44913578 original size:3 final size:3
Alignment explanation
Indices: 44913565--44913727 Score: 66
Period size: 3 Copynumber: 54.3 Consensus size: 3
44913555 TTGAGTTTTA
* *
44913565 TAT TCAT TAT TAT TA- TATT TATT TAT T-T TTT TAG TAT TAT TAT T-T
1 TAT T-AT TAT TAT TAT TA-T TA-T TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
44913610 ATGT TAT TAC TGT TAC TACT AAT T-T TAT TAG TAT TGT TAT TAT TAT
1 -TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
44913656 TAT TAC CAC TAT TAT TAT TAT TAT TA- TAG TAT TGT TAG TAT TGT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
44913703 TAC TAT TGT TTT TAT TAT CAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
44913728 TTTTTTAAAA
Statistics
Matches: 117, Mismatches: 34, Indels: 18
0.69 0.20 0.11
Matches are distributed among these distances:
2 9 0.08
3 97 0.83
4 11 0.09
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:44913842 original size:20 final size:19
Alignment explanation
Indices: 44913817--44913862 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 19
44913807 TAGAATTTCC
44913817 TTTATTATTTCATTAATTAT
1 TTTATTATTTCATT-ATTAT
*
44913837 TTTATTTATTTCATTTTTAT
1 TTTA-TTATTTCATTATTAT
44913857 TTTATT
1 TTTATT
44913863 CTTGTCCCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 2 0.08
20 12 0.50
21 10 0.42
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTATTATTTCATTATTAT
Found at i:44918880 original size:43 final size:43
Alignment explanation
Indices: 44918791--44918897 Score: 135
Period size: 43 Copynumber: 2.5 Consensus size: 43
44918781 AACACTAAGG
** **
44918791 GACACACGGCCGTGTAACAAGACTGTGTGTCACACACGGTTAA
1 GACACACGGCCGTGTAACAAGACCATGTGTCACACACGACTAA
* *
44918834 GACACACGGCCGTGTAACAAGACCATGTGTCACATACGACTGA
1 GACACACGGCCGTGTAACAAGACCATGTGTCACACACGACTAA
44918877 GACACAC-GCCTGTGTAGACAA
1 GACACACGGCC-GTGTA-ACAA
44918898 AAATAGGCTA
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
42 3 0.05
43 49 0.88
44 4 0.07
ACGTcount: A:0.32, C:0.27, G:0.24, T:0.17
Consensus pattern (43 bp):
GACACACGGCCGTGTAACAAGACCATGTGTCACACACGACTAA
Found at i:44919865 original size:40 final size:40
Alignment explanation
Indices: 44919766--44920116 Score: 497
Period size: 40 Copynumber: 8.7 Consensus size: 40
44919756 ACTCGAATTC
* * **
44919766 TCGCACACTAAGTGCCAATACAGAGCCGGAGCTAT-TTTAA
1 TCGCACACTAAGTGCC-ATACATAGCCGAAGCTATCTCAAA
44919806 TCTTGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAA
1 TC--GCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAA
* ** *
44919848 TCGCACACTAAGTGCCATACATAGCCGTAGCTATCTTGAG
1 TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAA
*
44919888 TCGCACACTAAGTGCAATACATAGCCGAAGCTATCTCAAA
1 TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAA
* ** *
44919928 TCGCACACTAAGTGCCATACATAGCCGTAGCTATCTTGAG
1 TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAA
*
44919968 TCGCACACTAAGTGCAATACATAGCCGAAGCTATCTCAAA
1 TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAA
* ** *
44920008 TCGCACACTAAGTGCCATACATAGCCGTAGCTATCTTGAG
1 TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAA
*
44920048 TCGCACACTAAGTGCAATACATAGCCGAAGCTATCTCAAA
1 TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAA
44920088 TCGCACACTAAGTGCCATACATAGCCGAA
1 TCGCACACTAAGTGCCATACATAGCCGAA
44920117 TTGTCATTAA
Statistics
Matches: 274, Mismatches: 34, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
40 239 0.87
41 16 0.06
42 19 0.07
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAA
Found at i:44919908 original size:80 final size:80
Alignment explanation
Indices: 44919766--44920114 Score: 619
Period size: 80 Copynumber: 4.3 Consensus size: 80
44919756 ACTCGAATTC
* * * * *
44919766 TCGCACACTAAGTGCCAATACAGAGCCGGAGCTAT-TTTAATCTTGCACACTAAGTGCCATACAT
1 TCGCACACTAAGTGCC-ATACATAGCCGTAGCTATCTTGAGTC--GCACACTAAGTGCAATACAT
44919830 AGCCGAAGCTATCTCAAA
63 AGCCGAAGCTATCTCAAA
44919848 TCGCACACTAAGTGCCATACATAGCCGTAGCTATCTTGAGTCGCACACTAAGTGCAATACATAGC
1 TCGCACACTAAGTGCCATACATAGCCGTAGCTATCTTGAGTCGCACACTAAGTGCAATACATAGC
44919913 CGAAGCTATCTCAAA
66 CGAAGCTATCTCAAA
44919928 TCGCACACTAAGTGCCATACATAGCCGTAGCTATCTTGAGTCGCACACTAAGTGCAATACATAGC
1 TCGCACACTAAGTGCCATACATAGCCGTAGCTATCTTGAGTCGCACACTAAGTGCAATACATAGC
44919993 CGAAGCTATCTCAAA
66 CGAAGCTATCTCAAA
44920008 TCGCACACTAAGTGCCATACATAGCCGTAGCTATCTTGAGTCGCACACTAAGTGCAATACATAGC
1 TCGCACACTAAGTGCCATACATAGCCGTAGCTATCTTGAGTCGCACACTAAGTGCAATACATAGC
44920073 CGAAGCTATCTCAAA
66 CGAAGCTATCTCAAA
44920088 TCGCACACTAAGTGCCATACATAGCCG
1 TCGCACACTAAGTGCCATACATAGCCG
44920115 AATTGTCATT
Statistics
Matches: 261, Mismatches: 5, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
80 224 0.86
81 16 0.06
82 21 0.08
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.22
Consensus pattern (80 bp):
TCGCACACTAAGTGCCATACATAGCCGTAGCTATCTTGAGTCGCACACTAAGTGCAATACATAGC
CGAAGCTATCTCAAA
Found at i:44920908 original size:12 final size:12
Alignment explanation
Indices: 44920891--44920918 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
44920881 GTTTTGTTTT
44920891 ATTTTAATTATC
1 ATTTTAATTATC
44920903 ATTTTAATTATC
1 ATTTTAATTATC
44920915 ATTT
1 ATTT
44920919 ACAATATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (12 bp):
ATTTTAATTATC
Found at i:44924610 original size:19 final size:21
Alignment explanation
Indices: 44924586--44924628 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
44924576 TTTAACCAAT
*
44924586 TAATTTTTAT-AATTA-ATTA
1 TAATTTTTATCAATAATATTA
44924605 TAATTTTTATCAATAATATTA
1 TAATTTTTATCAATAATATTA
44924626 TAA
1 TAA
44924629 AAATAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.48
20 4 0.19
21 7 0.33
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (21 bp):
TAATTTTTATCAATAATATTA
Found at i:44942954 original size:22 final size:21
Alignment explanation
Indices: 44942929--44942984 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
44942919 ATATTAGAAT
44942929 GAATTATAATAAATAACTAAAG
1 GAATTATAATAAAT-ACTAAAG
*
44942951 GAATAATATAA-AAATACTAATG
1 GAAT--TATAATAAATACTAAAG
*
44942973 TAATTATAATAA
1 GAATTATAATAA
44942985 CAATAATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
20 5 0.17
21 2 0.07
22 13 0.45
23 4 0.14
24 5 0.17
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (21 bp):
GAATTATAATAAATACTAAAG
Found at i:44943060 original size:13 final size:13
Alignment explanation
Indices: 44943042--44943066 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44943032 AAGGTAACTT
44943042 AAAATAAAAAATA
1 AAAATAAAAAATA
44943055 AAAATAAAAAAT
1 AAAATAAAAAAT
44943067 GCATAATTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAATAAAAAATA
Found at i:44943290 original size:61 final size:60
Alignment explanation
Indices: 44943217--44943415 Score: 252
Period size: 61 Copynumber: 3.4 Consensus size: 60
44943207 AGGCAACAAT
44943217 AAATAAATAAGTAAATAATAGTAAAATAAAAAAATTCATGAAAGACTGAAATTGCAATAAA
1 AAATAAATAAGTAAATAATA-TAAAATAAAAAAATTCATGAAAGACTGAAATTGCAATAAA
* * *
44943278 AAATAAATAAGTAAATAATAAAAAATATAAAAAATTCATGAAAGGCTAAAATTGCAATAAA
1 AAATAAATAAGTAAATAATATAAAATA-AAAAAATTCATGAAAGACTGAAATTGCAATAAA
* * * *
44943339 AAATAAATAAG----TAA-AT--AATAAAAAAATT-ATGAAAGTCTGGAGTTGCAATAAT
1 AAATAAATAAGTAAATAATATAAAATAAAAAAATTCATGAAAGACTGAAATTGCAATAAA
*
44943391 AAATAAATAAGTAAATAATAAAAAA
1 AAATAAATAAGTAAATAATATAAAA
44943416 ATCATGAAAT
Statistics
Matches: 120, Mismatches: 10, Indels: 18
0.81 0.07 0.12
Matches are distributed among these distances:
52 30 0.25
53 8 0.07
54 4 0.03
56 4 0.03
57 4 0.03
59 2 0.02
60 6 0.05
61 62 0.52
ACGTcount: A:0.63, C:0.04, G:0.10, T:0.24
Consensus pattern (60 bp):
AAATAAATAAGTAAATAATATAAAATAAAAAAATTCATGAAAGACTGAAATTGCAATAAA
Found at i:44943447 original size:104 final size:102
Alignment explanation
Indices: 44943283--44943474 Score: 255
Period size: 100 Copynumber: 1.9 Consensus size: 102
44943273 ATAAAAAATA
*
44943283 AATAAGTAAATAATAAAAAATATAAAAAATTCATGAAAGGCTAAAATTGCAATAAAAAATAAATA
1 AATAAATAAATAATAAAAAATATAAAAAATTCATGAAAGGCTAAAATTG---T-AAAAATAAATA
*
44943348 AGTAAATAAT-AAAAAAATTATGAAAGTCTGGAGTTGCAAT
62 AGTAAATAATAAAAAAAATCATGAAAGTCTGGAGTTGCAAT
* * * * *
44943388 AATAAATAAATAAGTAAATAATA-AAAAAA-TCATGAAATGCTGAAGTTGTAATAATAAATAAGT
1 AATAAATAAATAA-TAAAAAATATAAAAAATTCATGAAAGGCTAAAATTGTAAAAATAAATAAGT
44943451 AAATAATAAAAAAAATCATGAAAG
65 AAATAATAAAAAAAATCATGAAAG
44943475 GCTAAAATTA
Statistics
Matches: 78, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
100 20 0.26
101 16 0.21
104 16 0.21
105 18 0.23
106 8 0.10
ACGTcount: A:0.60, C:0.04, G:0.11, T:0.24
Consensus pattern (102 bp):
AATAAATAAATAATAAAAAATATAAAAAATTCATGAAAGGCTAAAATTGTAAAAATAAATAAGTA
AATAATAAAAAAAATCATGAAAGTCTGGAGTTGCAAT
Found at i:44943493 original size:52 final size:52
Alignment explanation
Indices: 44943278--44943494 Score: 232
Period size: 52 Copynumber: 4.2 Consensus size: 52
44943268 TTGCAATAAA
*
44943278 AAATAAATAAGTAAATAA-TAAAAAATATAAAAAATTCATGAAAGGCTAAAATTG
1 AAATAAATAA-TAAATAAGTAAATAATA-AAAAAA-TCATGAAAGGCTAAAATTG
* * * * ** *
44943332 CAATAAAAAATAAATAAGTAAATAATAAAAAAATTATGAAAGTCTGGAGTTG
1 AAATAAATAATAAATAAGTAAATAATAAAAAAATCATGAAAGGCTAAAATTG
* * * *
44943384 CAAT-AATAAATAAATAAGTAAATAATAAAAAAATCATGAAATGCTGAAGTTG
1 AAATAAAT-AATAAATAAGTAAATAATAAAAAAATCATGAAAGGCTAAAATTG
44943436 ---T-AATAATAAATAAGTAAATAATAAAAAAAATCATGAAAGGCTAAAATT-
1 AAATAAATAATAAATAAGTAAATAAT-AAAAAAATCATGAAAGGCTAAAATTG
44943484 AAATAAATAAT
1 AAATAAATAAT
44943495 GGACTGAATC
Statistics
Matches: 140, Mismatches: 16, Indels: 16
0.81 0.09 0.09
Matches are distributed among these distances:
48 18 0.13
49 26 0.19
51 3 0.02
52 64 0.46
53 13 0.09
54 16 0.11
ACGTcount: A:0.61, C:0.04, G:0.10, T:0.25
Consensus pattern (52 bp):
AAATAAATAATAAATAAGTAAATAATAAAAAAATCATGAAAGGCTAAAATTG
Found at i:44943493 original size:104 final size:102
Alignment explanation
Indices: 44943278--44943494 Score: 228
Period size: 100 Copynumber: 2.1 Consensus size: 102
44943268 TTGCAATAAA
*
44943278 AAATAAATAAGTAAATAATAAAAAATATAAAAAATTCATGAAAGGCTAAAATTGCAATAAAAAAT
1 AAATAAATAA-TAAATAATAAAAAATATAAAAAAATCATGAAAGGCTAAAATTG--ATAAAAAAT
* * ** *
44943343 AAATAAGTAAATAATAAAAAAATTATGAAAGTCTGGAGTT
63 AAATAAGTAAATAATAAAAAAATCATGAAAGGCTAAAATT
* * * * * *
44943383 GCAAT-AATAAATAAATAAGT-AAATA-ATAAAAAAATCATGAAATGCTGAAGTTG-T-AATAAT
1 -AAATAAAT-AATAAATAA-TAAAAAATATAAAAAAATCATGAAAGGCTAAAATTGATAAAAAAT
44943443 AAATAAGTAAATAATAAAAAAAATCATGAAAGGCTAAAATT
63 AAATAAGTAAATAAT-AAAAAAATCATGAAAGGCTAAAATT
44943484 AAATAAATAAT
1 AAATAAATAAT
44943495 GGACTGAATC
Statistics
Matches: 94, Mismatches: 13, Indels: 14
0.78 0.11 0.12
Matches are distributed among these distances:
100 26 0.28
101 24 0.26
104 24 0.26
105 14 0.15
106 6 0.06
ACGTcount: A:0.61, C:0.04, G:0.10, T:0.25
Consensus pattern (102 bp):
AAATAAATAATAAATAATAAAAAATATAAAAAAATCATGAAAGGCTAAAATTGATAAAAAATAAA
TAAGTAAATAATAAAAAAATCATGAAAGGCTAAAATT
Found at i:44944608 original size:11 final size:11
Alignment explanation
Indices: 44944592--44944618 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
44944582 ACGGTGGGAA
44944592 GAGGCGCTCCC
1 GAGGCGCTCCC
44944603 GAGGCGCTCCC
1 GAGGCGCTCCC
44944614 GAGGC
1 GAGGC
44944619 ATCAAACCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.11, C:0.41, G:0.41, T:0.07
Consensus pattern (11 bp):
GAGGCGCTCCC
Found at i:44972371 original size:21 final size:21
Alignment explanation
Indices: 44972301--44972372 Score: 83
Period size: 21 Copynumber: 3.4 Consensus size: 21
44972291 TTTTTTGAGC
*
44972301 TTCTGTTTAACCCTTATGGGT
1 TTCTGTTTAACTCTTATGGGT
* * * *
44972322 TTTTGTTCAGCTCTTATGAGCT
1 TTCTGTTTAACTCTTATG-GGT
44972344 TT-TGTTTAACTCTTATGGGT
1 TTCTGTTTAACTCTTATGGGT
44972364 TTCTGTTTA
1 TTCTGTTTA
44972373 GCATTTATGT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
20 4 0.10
21 33 0.80
22 4 0.10
ACGTcount: A:0.14, C:0.15, G:0.18, T:0.53
Consensus pattern (21 bp):
TTCTGTTTAACTCTTATGGGT
Found at i:44972381 original size:42 final size:42
Alignment explanation
Indices: 44972236--44972366 Score: 154
Period size: 42 Copynumber: 3.1 Consensus size: 42
44972226 TCATGTTTAC
* * *
44972236 TTTCCGTTTAGCTCTTATGAGCTTCTGTTTTAACTCATATGAG
1 TTTCCGTTCAGCTCTTATGAGCTTCTG-TTTAACTCTTATGGG
* * * * *
44972279 TTTCCCTTCCGCTTTTTTGAGCTTCTGTTTAACCCTTATGGG
1 TTTCCGTTCAGCTCTTATGAGCTTCTGTTTAACTCTTATGGG
** *
44972321 TTTTTGTTCAGCTCTTATGAGCTTTTGTTTAACTCTTATGGG
1 TTTCCGTTCAGCTCTTATGAGCTTCTGTTTAACTCTTATGGG
44972363 TTTC
1 TTTC
44972367 TGTTTAGCAT
Statistics
Matches: 71, Mismatches: 17, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
42 49 0.69
43 22 0.31
ACGTcount: A:0.14, C:0.20, G:0.17, T:0.50
Consensus pattern (42 bp):
TTTCCGTTCAGCTCTTATGAGCTTCTGTTTAACTCTTATGGG
Found at i:44974539 original size:44 final size:45
Alignment explanation
Indices: 44974451--44974577 Score: 148
Period size: 44 Copynumber: 2.8 Consensus size: 45
44974441 AGAACAGAAG
* *
44974451 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGAT
1 TGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGGAA
*
44974497 TGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGGAA
1 TGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGAA
* ** * * *
44974541 TAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 TGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
44974578 CAGGATATTG
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
44 36 0.52
45 1 0.01
46 32 0.46
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
TGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGAA
Found at i:44983440 original size:62 final size:62
Alignment explanation
Indices: 44983343--44983464 Score: 190
Period size: 62 Copynumber: 2.0 Consensus size: 62
44983333 AAACCGATAG
* * * *
44983343 CATTCGCAAACTTTGAAATACATAGAAAATTTTTCCAACATTTCAGGGTCATACGCCCGTAA
1 CATTCGCAAACTTTGAAATACATAAAAAAATTTTCCAACATTTCAGGGTCACACACCCGTAA
* *
44983405 CATTCGTAAACTTTGAAATACATAAAAAAATTTTCCAACATTTTAGGGTCACACACCCGT
1 CATTCGCAAACTTTGAAATACATAAAAAAATTTTCCAACATTTCAGGGTCACACACCCGT
44983465 GTGAACAAGC
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 54 1.00
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.30
Consensus pattern (62 bp):
CATTCGCAAACTTTGAAATACATAAAAAAATTTTCCAACATTTCAGGGTCACACACCCGTAA
Found at i:44984822 original size:43 final size:43
Alignment explanation
Indices: 44984757--44984929 Score: 172
Period size: 43 Copynumber: 4.0 Consensus size: 43
44984747 AGCTCATACA
* * *
44984757 ATGCC-ATATCCCAGATATGGTCTTACACGTTATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
* * * * *
44984799 ATGCCACTGTCCCAGACAGGGTCTTACACGAAATCGA-TTAACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATC-ACATATCG
* * * * *
44984842 ATGTCAATGTCCTAGACATGGTCTTACATGTAATCTCA-ATACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATAT-CG
* *
44984885 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATCTCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
44984928 AT
1 AT
44984930 AACCTCATGC
Statistics
Matches: 103, Mismatches: 23, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
42 6 0.06
43 95 0.92
44 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.28
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
Found at i:44986919 original size:21 final size:21
Alignment explanation
Indices: 44986895--44986938 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
44986885 ATACCTATCA
44986895 ACTTAAACCATGCAAATTTCT
1 ACTTAAACCATGCAAATTTCT
44986916 ACTTAAACCATGCAAATTTCT
1 ACTTAAACCATGCAAATTTCT
44986937 AC
1 AC
44986939 ATCCATGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.25, G:0.05, T:0.32
Consensus pattern (21 bp):
ACTTAAACCATGCAAATTTCT
Found at i:44987652 original size:42 final size:42
Alignment explanation
Indices: 44987540--44987692 Score: 168
Period size: 42 Copynumber: 3.6 Consensus size: 42
44987530 AATACAATAA
* * * *
44987540 CCTAGATATGGTCTTACA-TATAATCTCGTATCGATGCCAATAG
1 CCTAGATATGGTCTTACACGA-AGTCTCATATCGATGCC-ATAT
* * *
44987583 CCCAGCTATGGTCTTACACGAAATCTCATATCGATGCCATAT
1 CCTAGATATGGTCTTACACGAAGTCTCATATCGATGCCATAT
*
44987625 CCTAGATATGGTCTTATACGAAGTCTCATA-CTGATGCCATAT
1 CCTAGATATGGTCTTACACGAAGTCTCATATC-GATGCCATAT
*
44987667 -CTCAGATATGGTCTTACACGTAGTCT
1 CCT-AGATATGGTCTTACACGAAGTCT
44987693 TAGTAACACC
Statistics
Matches: 96, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
41 3 0.03
42 60 0.62
43 32 0.33
44 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (42 bp):
CCTAGATATGGTCTTACACGAAGTCTCATATCGATGCCATAT
Found at i:44989801 original size:19 final size:20
Alignment explanation
Indices: 44989772--44989812 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
44989762 GTGTCAAAAG
44989772 ATAGTTTTTTTTATACTTTA
1 ATAGTTTTTTTTATACTTTA
44989792 ATAG-TTTTTTTATACTTTA
1 ATAGTTTTTTTTATACTTTA
44989811 AT
1 AT
44989813 TATTAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.63
Consensus pattern (20 bp):
ATAGTTTTTTTTATACTTTA
Found at i:44990381 original size:9 final size:9
Alignment explanation
Indices: 44990367--44990406 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
44990357 TGCAAATTAA
44990367 AAAAGAAAG
1 AAAAGAAAG
44990376 AAAAGAAA-
1 AAAAGAAAG
44990384 AGAAAGAAAG
1 A-AAAGAAAG
*
44990394 AAAAGAAGG
1 AAAAGAAAG
44990403 AAAA
1 AAAA
44990407 ACGCACGTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 1 0.04
9 26 0.93
10 1 0.04
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:44993488 original size:28 final size:27
Alignment explanation
Indices: 44993444--44993511 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 27
44993434 TCTTAATTTT
44993444 TATTATTTATTTCATTTTATTAGTATC
1 TATTATTTATTTCATTTTATTAGTATC
* *
44993471 TATTATTTCATTTTATTTTATTAGTATT
1 TATTATTT-ATTTCATTTTATTAGTATC
44993499 TATTATTTTATTT
1 TATTA-TTTATTT
44993512 AATTATTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 8 0.22
28 26 0.70
29 3 0.08
ACGTcount: A:0.25, C:0.04, G:0.03, T:0.68
Consensus pattern (27 bp):
TATTATTTATTTCATTTTATTAGTATC
Found at i:44993506 original size:23 final size:23
Alignment explanation
Indices: 44993450--44993531 Score: 73
Period size: 28 Copynumber: 3.5 Consensus size: 23
44993440 TTTTTATTAT
*
44993450 TTATTTCATTTTATTAGTATCTATTA
1 TTATTTTATTTTATTAGTA--T-TTA
44993476 TTTCATTTTATTTTATTAGTATTTA
1 -TT-ATTTTATTTTATTAGTATTTA
*
44993501 TTATTTTA-TTTA--ATTATTTA
1 TTATTTTATTTTATTAGTATTTA
44993521 TTA-TTTATTTT
1 TTATTTTATTTT
44993532 GGATATTAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
19 4 0.08
20 13 0.25
22 4 0.08
23 6 0.12
24 2 0.04
25 3 0.06
26 1 0.02
27 2 0.04
28 16 0.31
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (23 bp):
TTATTTTATTTTATTAGTATTTA
Found at i:44994807 original size:96 final size:97
Alignment explanation
Indices: 44994643--44994822 Score: 242
Period size: 96 Copynumber: 1.9 Consensus size: 97
44994633 TTTTTAAGAA
* * **
44994643 TATGTTAGGCTGAGTAATCGGGGTGAGGAGTTTGGCTGTCATCTTTCTTCGTGTCGAAAAGTTCA
1 TATGTTAGGCTGAGTAACCGGGGTGAGGAGTTTGGCTGTCATCTCTCTTCACGTCGAAAAGTTCA
* *
44994708 ATATGTTCTTAAG-AAAAATAAAAATTAGGAG
66 ATATATTCCTAAGTAAAAATAAAAATTAGGAG
*
44994739 TATGTTGGGCTGAGTAACCGGGGT-AGG-GTGCTTGGCTGTCATCTCTCTTCACGTC-AAAAGGT
1 TATGTTAGGCTGAGTAACCGGGGTGAGGAGT--TTGGCTGTCATCTCTCTTCACGTCGAAAA-GT
44994801 TCAATATATTCCTAAGTAAAAA
63 TCAATATATTCCTAAGTAAAAA
44994823 AAATTCATTA
Statistics
Matches: 73, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
94 2 0.03
95 7 0.10
96 59 0.81
97 5 0.07
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (97 bp):
TATGTTAGGCTGAGTAACCGGGGTGAGGAGTTTGGCTGTCATCTCTCTTCACGTCGAAAAGTTCA
ATATATTCCTAAGTAAAAATAAAAATTAGGAG
Found at i:44995529 original size:20 final size:20
Alignment explanation
Indices: 44995493--44995531 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
44995483 TAATTTTAGG
*
44995493 ATTTATCTTTATTTATTTAT
1 ATTTATCTTTATGTATTTAT
44995513 ATTTATCTTT-TAGTATTTA
1 ATTTATCTTTAT-GTATTTA
44995532 ATTAGGAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.67
Consensus pattern (20 bp):
ATTTATCTTTATGTATTTAT
Found at i:44998153 original size:101 final size:101
Alignment explanation
Indices: 44998025--44998955 Score: 1712
Period size: 101 Copynumber: 9.3 Consensus size: 101
44998015 AATTTCTGTA
44998025 TAAGACCATAGCTGGGCTATGGCATCGGAGAGATGTGATTATGTGCTACTGTATAAGACCATAGC
1 TAAGACCATAGCTGGGCTATGGCATCGGAGAGATGTGATTATGTGCTACTGTATAAGACCATAGC
44998090 TGTGCTATGGCATCAATATGTGATATGTGATCCGTG
66 TGTGCTATGGCATCAATATGTGATATGTGATCCGTG
44998126 TAAGACCATAGCTGGGCTATGGCATCGGAGAGATGTGATTATGTGCTACTGTATAAGACCATAGC
1 TAAGACCATAGCTGGGCTATGGCATCGGAGAGATGTGATTATGTGCTACTGTATAAGACCATAGC
44998191 TGTGCTATGGCATCAATATGTGATATGTGATCCGTG
66 TGTGCTATGGCATCAATATGTGATATGTGATCCGTG
44998227 TAAGACCATAGCTGGGCTATGGCATCGGAGAGATGTGATTATGTGCTACTGTATAAGACCATAGC
1 TAAGACCATAGCTGGGCTATGGCATCGGAGAGATGTGATTATGTGCTACTGTATAAGACCATAGC
44998292 TGTGCTATGGCATCAATATGTGATATGTGATCCGTG
66 TGTGCTATGGCATCAATATGTGATATGTGATCCGTG
44998328 TAAGACCATAGCTGGGCTATGGCATCGGAGAGATGTGATTATGTGCTACTGTATAAGACCATAGC
1 TAAGACCATAGCTGGGCTATGGCATCGGAGAGATGTGATTATGTGCTACTGTATAAGACCATAGC
44998393 TGTGCTATGGCATCAATATGTGATATGTGATCCGTG
66 TGTGCTATGGCATCAATATGTGATATGTGATCCGTG
44998429 TAAGACCATAGCTGGGCTATGGCATCGGAGAGATGTGATTATGTGCTACTGTATAAGACCATAGC
1 TAAGACCATAGCTGGGCTATGGCATCGGAGAGATGTGATTATGTGCTACTGTATAAGACCATAGC
44998494 TGTGCTATGGCATCAATATGTGATATGTGATCCGTG
66 TGTGCTATGGCATCAATATGTGATATGTGATCCGTG
44998530 TAAGACCATAGCTGGGCTATGGCATCGGAGAGATGTGATTATGTGCTACTGTATAAGACCATAGC
1 TAAGACCATAGCTGGGCTATGGCATCGGAGAGATGTGATTATGTGCTACTGTATAAGACCATAGC
44998595 TGTGCTATGGCATCAATATGTGATATGTGATCCGTG
66 TGTGCTATGGCATCAATATGTGATATGTGATCCGTG
44998631 TAAGACCATAGCTGGGCTATGGCATCGGAGAGATGTGATTATGTGCTACTGTATAAGACCATAGC
1 TAAGACCATAGCTGGGCTATGGCATCGGAGAGATGTGATTATGTGCTACTGTATAAGACCATAGC
44998696 TGTGCTATGGCATCAATATGTGATATGTGATCCGTG
66 TGTGCTATGGCATCAATATGTGATATGTGATCCGTG
44998732 TAAGACCATAGCTGGGCTATGGCATCGGAGAGATGTGATTATGTGCTACTGTATAAGACCATAGC
1 TAAGACCATAGCTGGGCTATGGCATCGGAGAGATGTGATTATGTGCTACTGTATAAGACCATAGC
44998797 TGTGCTATGGCATCAATATGTGATATGTGATCCGTG
66 TGTGCTATGGCATCAATATGTGATATGTGATCCGTG
* * * * *
44998833 TAAGACCATAGCTGGGCTATGGCATC---GATATGTGA-TATGTGAT-CCGTGTCAGACCATAGC
1 TAAGACCATAGCTGGGCTATGGCATCGGAGAGATGTGATTATGTGCTACTGTATAAGACCATAGC
* * *
44998893 TAG-GCTATGACATCGATATGTGATATGTGATTACGTG
66 T-GTGCTATGGCATCAATATGTGATATGTGA-TCCGTG
* *
44998930 TAAAACCATAACTGGGCTATGGCATC
1 TAAGACCATAGCTGGGCTATGGCATC
44998956 CATATGTGAA
Statistics
Matches: 818, Mismatches: 10, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
96 40 0.05
97 37 0.05
98 8 0.01
101 733 0.90
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (101 bp):
TAAGACCATAGCTGGGCTATGGCATCGGAGAGATGTGATTATGTGCTACTGTATAAGACCATAGC
TGTGCTATGGCATCAATATGTGATATGTGATCCGTG
Found at i:44998974 original size:42 final size:41
Alignment explanation
Indices: 44998915--44999023 Score: 146
Period size: 42 Copynumber: 2.6 Consensus size: 41
44998905 TCGATATGTG
* * *
44998915 ATATGTGATTACGTGTAAAACCATAACTGGGCTATGGCATCC
1 ATATGTGAATATGTGTAAGACCATAACTGGGCTATGGCAT-C
**
44998957 ATATGTGAATATGTGTAAGACCATAGTTGGGCTATGGCATC
1 ATATGTGAATATGTGTAAGACCATAACTGGGCTATGGCATC
*
44998998 ATTATGTGAAGATGTGTAAGACCATA
1 A-TATGTGAATATGTGTAAGACCATA
44999024 GTTGAACTAT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
41 2 0.03
42 58 0.97
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (41 bp):
ATATGTGAATATGTGTAAGACCATAACTGGGCTATGGCATC
Found at i:44999024 original size:42 final size:42
Alignment explanation
Indices: 44998927--44999037 Score: 152
Period size: 42 Copynumber: 2.6 Consensus size: 42
44998917 ATGTGATTAC
* ** *
44998927 GTGTAAAACCATAACTGGGCTATGGCATCCATATGTGAATAT
1 GTGTAAGACCATAGTTGGGCTATGGCATCCATATGTGAAGAT
44998969 GTGTAAGACCATAGTTGGGCTATGGCAT-CATTATGTGAAGAT
1 GTGTAAGACCATAGTTGGGCTATGGCATCCA-TATGTGAAGAT
**
44999011 GTGTAAGACCATAGTTGAACTATGGCA
1 GTGTAAGACCATAGTTGGGCTATGGCA
44999038 ACGAGAAAAC
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
41 2 0.03
42 60 0.97
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATAGTTGGGCTATGGCATCCATATGTGAAGAT
Found at i:45001522 original size:18 final size:18
Alignment explanation
Indices: 45001484--45001532 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
45001474 TGTTCTATAT
*
45001484 TGAAATG-ACATG-GTTG
1 TGAAATGAAAATGAGTTG
*
45001500 AGAAATGAAAATGAGTTG
1 TGAAATGAAAATGAGTTG
45001518 TGAAATGAAATATGA
1 TGAAATGAAA-ATGA
45001533 AATGGTATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 6 0.22
17 4 0.15
18 13 0.48
19 4 0.15
ACGTcount: A:0.45, C:0.02, G:0.27, T:0.27
Consensus pattern (18 bp):
TGAAATGAAAATGAGTTG
Found at i:45002887 original size:48 final size:48
Alignment explanation
Indices: 45002831--45002922 Score: 175
Period size: 48 Copynumber: 1.9 Consensus size: 48
45002821 TTCAAGAAGG
45002831 GATAAATAGTGATAAGAGTGTACACAGTGGAAAACCAAGTTTAGTAAT
1 GATAAATAGTGATAAGAGTGTACACAGTGGAAAACCAAGTTTAGTAAT
*
45002879 GATAAATAGTGATAAGAGTGTAGACAGTGGAAAACCAAGTTTAG
1 GATAAATAGTGATAAGAGTGTACACAGTGGAAAACCAAGTTTAG
45002923 CATTGCATAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.43, C:0.08, G:0.25, T:0.24
Consensus pattern (48 bp):
GATAAATAGTGATAAGAGTGTACACAGTGGAAAACCAAGTTTAGTAAT
Found at i:45013708 original size:19 final size:19
Alignment explanation
Indices: 45013681--45013734 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
45013671 CAAAACAGTA
*
45013681 ATCCTTCAATTCATATAAT
1 ATCCATCAATTCATATAAT
45013700 ATCCATCAATTCATATAAT
1 ATCCATCAATTCATATAAT
45013719 ATCCATCAATTCATAT
1 ATCCATCAATTCATAT
45013735 TCAAGAATGC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.39, C:0.22, G:0.00, T:0.39
Consensus pattern (19 bp):
ATCCATCAATTCATATAAT
Found at i:45013855 original size:24 final size:24
Alignment explanation
Indices: 45013825--45013906 Score: 103
Period size: 24 Copynumber: 3.4 Consensus size: 24
45013815 GAAGCCTATA
45013825 AGAGCCATAATCGGGAAGCTCAA-
1 AGAGCCATAATCGGGAAGCTCAAG
* *
45013848 ACGGGCCATAAACGGGAAGCTCAAG
1 A-GAGCCATAATCGGGAAGCTCAAG
**
45013873 AGAGCCATAAATCGGGAAGCTCGTG
1 AGAGCCAT-AATCGGGAAGCTCAAG
45013898 AGAGCCATA
1 AGAGCCATA
45013907 TAATGGGATG
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
23 1 0.02
24 27 0.54
25 22 0.44
ACGTcount: A:0.37, C:0.22, G:0.29, T:0.12
Consensus pattern (24 bp):
AGAGCCATAATCGGGAAGCTCAAG
Found at i:45013909 original size:27 final size:24
Alignment explanation
Indices: 45013790--45013920 Score: 106
Period size: 25 Copynumber: 5.3 Consensus size: 24
45013780 CATACAACAT
* * *
45013790 GAAGCTCATGTGAGCCATGTAACGG
1 GAAGCTCAAGAGAGCCAT-AAACGG
*
45013815 GAAGC-CTATA-AGAGCCATAATCGG
1 GAAGCTC-A-AGAGAGCCATAAACGG
*
45013839 GAAGCTCAA-ACGGGCCATAAACGG
1 GAAGCTCAAGA-GAGCCATAAACGG
45013863 GAAGCTCAAGAGAGCCATAAATCGG
1 GAAGCTCAAGAGAGCCATAAA-CGG
** *
45013888 GAAGCTCGTGAGAGCCATATAATGG
1 GAAGCTCAAGAGAGCCATA-AACGG
*
45013913 GATGCTCA
1 GAAGCTCA
45013921 TAAGAGCTAA
Statistics
Matches: 87, Mismatches: 12, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
23 2 0.02
24 40 0.46
25 43 0.49
26 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.29, T:0.16
Consensus pattern (24 bp):
GAAGCTCAAGAGAGCCATAAACGG
Found at i:45025774 original size:39 final size:38
Alignment explanation
Indices: 45025720--45025796 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 38
45025710 TGGATATGAG
45025720 ATTGTTGTGGACTATGAGTAAAGGTTGTTTTTTTAGACT
1 ATTGTTGTGGACTATGAGTAAAGGTTG-TTTTTTAGACT
45025759 ATTGTTGTGGACTATGAGTAAAGGTTGTTTTTTAGACT
1 ATTGTTGTGGACTATGAGTAAAGGTTGTTTTTTAGACT
45025797 TTCAGTTTAC
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
38 11 0.29
39 27 0.71
ACGTcount: A:0.23, C:0.05, G:0.26, T:0.45
Consensus pattern (38 bp):
ATTGTTGTGGACTATGAGTAAAGGTTGTTTTTTAGACT
Found at i:45028283 original size:93 final size:93
Alignment explanation
Indices: 45028091--45028377 Score: 312
Period size: 93 Copynumber: 3.1 Consensus size: 93
45028081 TACGACCACG
* *
45028091 ACCTTTTACTTACAGGATTTTATGAATCTCGCGGTCCGCTGATTTACGA-TACGACCTTTGGCTT
1 ACCTTTTACTTAC-GGATTTTATGAATCTCGTGGTCCGCTGATTTACGATTACGACATTTGGCTT
* *
45028155 TTTTATGATCCGCTAATTTATGATCACAA
65 TCTTATGGTCCGCTAATTTATGATCACAA
* * * * *
45028184 ATCTTTTACTTACGGTATTTTATGAATCTCGTTGTCTGTTGATTTACGATTACGACATTTGACTT
1 ACCTTTTACTTACGG-ATTTTATGAATCTCGTGGTCCGCTGATTTACGATTACGACATTTGGCTT
* * **
45028249 TCTTATGGTCCGTTGATTTATGATCA-TT
65 TCTTATGGTCCGCTAATTTATGATCACAA
* * * * *
45028277 ACCTTTTACTTACGGGATTTTACGAATCTCGTGGTCCACTGATTTACAATCACGACTTTTGGCTT
1 ACCTTTTACTTAC-GGATTTTATGAATCTCGTGGTCCGCTGATTTACGATTACGACATTTGGCTT
* *
45028342 TCTTACGGTCTCTGCTGATTTACT-ATCAC-A
65 TCTTATGGTC-C-GCTAATTTA-TGATCACAA
45028372 ACCTTT
1 ACCTTT
45028378 GGCTTTCTCA
Statistics
Matches: 161, Mismatches: 26, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
92 2 0.01
93 102 0.63
94 38 0.24
95 18 0.11
96 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.42
Consensus pattern (93 bp):
ACCTTTTACTTACGGATTTTATGAATCTCGTGGTCCGCTGATTTACGATTACGACATTTGGCTTT
CTTATGGTCCGCTAATTTATGATCACAA
Found at i:45028360 original size:41 final size:41
Alignment explanation
Indices: 45028315--45028392 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
45028305 TCGTGGTCCA
* * *
45028315 CTGATTTACAATCACGACTTTTGGCTTTCTTACGGTCTCTG
1 CTGATTTACAATCACAACCTTTGGCTTTCTCACGGTCTCTG
*
45028356 CTGATTTACTATCACAACCTTTGGCTTTCTCACGGTC
1 CTGATTTACAATCACAACCTTTGGCTTTCTCACGGTC
45028393 CGTTGATTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.18, C:0.27, G:0.15, T:0.40
Consensus pattern (41 bp):
CTGATTTACAATCACAACCTTTGGCTTTCTCACGGTCTCTG
Found at i:45029627 original size:30 final size:29
Alignment explanation
Indices: 45029572--45029628 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 29
45029562 TATACTGAAC
45029572 AATTTTATAATATAAAATTAATATTTATA
1 AATTTTATAATATAAAATTAATATTTATA
*
45029601 AATTTCTATACTA-AAAATTCAATATTTA
1 AATTT-TATAATATAAAATT-AATATTTA
45029629 ATTTTTCATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (29 bp):
AATTTTATAATATAAAATTAATATTTATA
Found at i:45031626 original size:3 final size:3
Alignment explanation
Indices: 45031545--45031615 Score: 52
Period size: 3 Copynumber: 22.3 Consensus size: 3
45031535 TAGTGAATAC
* * * *
45031545 AAT AAT AAGA AAT AAT AAT AAC AAT AAT AAT ATT CAATT AAT AAT ACT
1 AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT -AA-T AAT AAT AAT
* *
45031593 ATAT GAT AAT AAT GAT AAT AAT A
1 A-AT AAT AAT AAT AAT AAT AAT A
45031616 GAGAAATAAT
Statistics
Matches: 52, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
3 45 0.87
4 6 0.12
5 1 0.02
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:45032852 original size:17 final size:18
Alignment explanation
Indices: 45032830--45032866 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
45032820 TGGACTAAAA
*
45032830 TTTTATTT-GTTTTTGTT
1 TTTTATTTGGTTTTGGTT
45032847 TTTTATTTGGTTTTGGTT
1 TTTTATTTGGTTTTGGTT
45032865 TT
1 TT
45032867 GTTTTGTCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.05, C:0.00, G:0.16, T:0.78
Consensus pattern (18 bp):
TTTTATTTGGTTTTGGTT
Found at i:45033277 original size:91 final size:93
Alignment explanation
Indices: 45033161--45033343 Score: 262
Period size: 94 Copynumber: 2.0 Consensus size: 93
45033151 GTTTTAATTC
* * * *
45033161 GACCTACTGCAACTTCAGAGGTATAGGATTTGTAGC-T-TCTTGCTCCACTATAACTTTAGGGAG
1 GACCTACTACAACTTCAGAGGTATAGGATTTGTAGCTTATCTTGCTCCACTACAACTTCAAGGAG
* **
45033224 ATAATACTCGCTATGGTAGATTCAATCT
66 ATAAGACTCGCTATAATAGATTCAATCT
* *
45033252 GACCTACTACAACTTTAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTCAAGGA
1 GACCTACTACAACTTCAGAGGTATAGGATTTGTAGCTT-ATCTTGCTCCACTACAACTTCAAGGA
45033317 GATAAGACTCGCTATAATAGATTCAAT
65 GATAAGACTCGCTATAATAGATTCAAT
45033344 TCGGCCCATT
Statistics
Matches: 80, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
91 33 0.41
92 1 0.01
94 46 0.57
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.32
Consensus pattern (93 bp):
GACCTACTACAACTTCAGAGGTATAGGATTTGTAGCTTATCTTGCTCCACTACAACTTCAAGGAG
ATAAGACTCGCTATAATAGATTCAATCT
Found at i:45033360 original size:94 final size:93
Alignment explanation
Indices: 45033161--45033389 Score: 248
Period size: 94 Copynumber: 2.5 Consensus size: 93
45033151 GTTTTAATTC
* * * * *
45033161 GACCTACTGCAACTTCAGAGGTATAGGATTTGTAGC-T-TCTTGCTCCACTATAACTTTAGGGAG
1 GACCCACTACAACTTCAGAGGTATAGGATTTGTAGCTTATCTTGCTCCACTACAACTTCAAGGAG
* **
45033224 ATAATACTCGCTATGGTAGATTCAATCT
66 ATAAGACTCGCTATAATAGATTCAATCT
* * *
45033252 GACCTACTACAACTTTAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTCAAGGA
1 GACCCACTACAACTTCAGAGGTATAGGATTTGTAGCTT-ATCTTGCTCCACTACAACTTCAAGGA
45033317 GATAAGACTCGCTATAATAGATTCAAT-T
65 GATAAGACTCGCTATAATAGATTCAATCT
* * ** * * *
45033345 CGGCCCATTGTAACTTCAGCGGTTTATGATTTGTAGCTTTATCTT
1 -GACCCACTACAACTTCAGAGGTATAGGATTTGTAGC-TTATCTT
45033390 ACTTCGCTGT
Statistics
Matches: 115, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
91 33 0.29
92 1 0.01
93 1 0.01
94 78 0.68
95 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (93 bp):
GACCCACTACAACTTCAGAGGTATAGGATTTGTAGCTTATCTTGCTCCACTACAACTTCAAGGAG
ATAAGACTCGCTATAATAGATTCAATCT
Found at i:45033514 original size:138 final size:138
Alignment explanation
Indices: 45033261--45033547 Score: 317
Period size: 138 Copynumber: 2.1 Consensus size: 138
45033251 TGACCTACTA
* *
45033261 CAACTTTAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTCAAGGAGATAAGACT
1 CAACTTCAGGGGTATAGGATTGGTAGCTTCATCTTGCTCCACTACAACTTCAAGGAGATAAGACT
* ** * * ** * * *
45033326 CGCTATAATAGATTCAATTCGGCCCATTGTAACTTCAGCGGTTTATGATTTGTAGCTTTATCTTA
66 CACTATAATAGATTCAACCCGACCCACTACAACTTCAGCGGTATAGGATTTGTAGCTTCATCTTA
* *
45033391 CTTCGCTG
131 CTCCACTG
* * * * ** *
45033399 TAACTTCAGGGGTATAGGATTGGTAGCTTCATCTTGCTCTACTGCAATTTCTGGGAGATAAGATT
1 CAACTTCAGGGGTATAGGATTGGTAGCTTCATCTTGCTCCACTACAACTTCAAGGAGATAAGACT
** *
45033464 CACTATGGTA-ACTTTAACCCGACCCACTACAACTTCAAG-GGTATAGGATTTGTAGCTTCATCT
66 CACTATAATAGA-TTCAACCCGACCCACTACAACTTC-AGCGGTATAGGATTTGTAGCTTCATCT
*
45033527 TGCTCCACTG
129 TACTCCACTG
45033537 CAACTTCAGGG
1 CAACTTCAGGG
45033548 AAATAAGATT
Statistics
Matches: 121, Mismatches: 26, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
137 1 0.01
138 118 0.98
139 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.33
Consensus pattern (138 bp):
CAACTTCAGGGGTATAGGATTGGTAGCTTCATCTTGCTCCACTACAACTTCAAGGAGATAAGACT
CACTATAATAGATTCAACCCGACCCACTACAACTTCAGCGGTATAGGATTTGTAGCTTCATCTTA
CTCCACTG
Found at i:45033611 original size:232 final size:229
Alignment explanation
Indices: 45033171--45033624 Score: 545
Period size: 232 Copynumber: 2.0 Consensus size: 229
45033161 GACCTACTGC
* * * *
45033171 AACTTCAGAGGTATAGGATTTGTAGCTTCTTGCTCCACTATAACTTTAGGGAGATAATACTCGCT
1 AACTTCAGAGGTATAGGATTGGTAGCTTCTTGCTCCACTACAACTTTAGGGAGATAAGACTCACT
* * * * *
45033236 ATGGTAGATTCAATCTGACCTACTACAACTTTAGGGGTATAGGATTTGTAGCTTCATCTTGCTCC
66 ATGGTAGATTCAACCCGACCCACTACAACTTCAAGGGTATAGGATTTGTAGCTTCATCTTGCTCC
* * * * * * *
45033301 ACTACAACTTCAAGGAGATAAGACTCGCTATAATAGATTCAATTCGGCCCATTGTAACTTCAGCG
131 ACTACAACTTCAAGGAAATAAGACTCACTATAATAAATTCAATCCGACCCACTGCAACTTCAGCG
* **
45033366 GTTTATGATTTGTAGCTTT-ATCTTACTTCGCTGT
196 GTGTAAAATTTGTAG-TTTCATCTTACTTCGCTGT
* * * * *
45033400 AACTTCAGGGGTATAGGATTGGTAGCTTCATCTTGCTCTACTGCAA-TTTCTGGGAGATAAGATT
1 AACTTCAGAGGTATAGGATTGGTAGC-T--TCTTGCTCCACTACAACTTT-AGGGAGATAAGACT
*
45033464 CACTATGGTA-ACTTTAACCCGACCCACTACAACTTCAAGGGTATAGGATTTGTAGCTTCATCTT
62 CACTATGGTAGA-TTCAACCCGACCCACTACAACTTCAAGGGTATAGGATTTGTAGCTTCATCTT
* * * * *
45033528 GCTCCACTGCAACTTCAGGGAAATAAGATTCACTATGATAAATTCAATCCGATCCACTGCAACTT
126 GCTCCACTACAACTTCAAGGAAATAAGACTCACTATAATAAATTCAATCCGACCCACTGCAACTT
* *
45033593 TAGGGGTGTAAAATTTGTAGTTTCATCTTACT
191 CAGCGGTGTAAAATTTGTAGTTTCATCTTACT
45033625 CTACTGCAAC
Statistics
Matches: 187, Mismatches: 32, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
229 24 0.13
230 1 0.01
231 7 0.04
232 155 0.83
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.34
Consensus pattern (229 bp):
AACTTCAGAGGTATAGGATTGGTAGCTTCTTGCTCCACTACAACTTTAGGGAGATAAGACTCACT
ATGGTAGATTCAACCCGACCCACTACAACTTCAAGGGTATAGGATTTGTAGCTTCATCTTGCTCC
ACTACAACTTCAAGGAAATAAGACTCACTATAATAAATTCAATCCGACCCACTGCAACTTCAGCG
GTGTAAAATTTGTAGTTTCATCTTACTTCGCTGT
Found at i:45034499 original size:94 final size:94
Alignment explanation
Indices: 45033400--45034498 Score: 1114
Period size: 94 Copynumber: 11.7 Consensus size: 94
45033390 ACTTCGCTGT
* * * * *
45033400 AACTTCAGGGGTATAGGATTGGTAGCTTCATCTTGCTCTACTGCAATTTCTGGGAGATAAGATTC
1 AACTTCAGGGGTATAGGATTTGTAGCTTCATCTTACTCCACTGCAACTTCAGGGAGATAAGATTC
* * * *
45033465 ACTATGGTAACTTTAACCCGACCCACTAC
66 GCTATGGTAACTTCAATCCGACCCACTGC
* * *
45033494 AACTTCAAGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAAATAAGATTC
1 AACTTCAGGGGTATAGGATTTGTAGCTTCATCTTACTCCACTGCAACTTCAGGGAGATAAGATTC
* * * *
45033559 ACTATGATAAATTCAATCCGATCCACTGC
66 GCTATGGTAACTTCAATCCGACCCACTGC
* * ** * * * *
45033588 AACTTTAGGGGTGTAAAATTTGTAGTTTCATCTTACTCTACTGCAACTTTAGAGAGATAAGATTC
1 AACTTCAGGGGTATAGGATTTGTAGCTTCATCTTACTCCACTGCAACTTCAGGGAGATAAGATTC
* * *
45033653 GTTATGGTAACTTTAATCCGACCCACAGC
66 GCTATGGTAACTTCAATCCGACCCACTGC
* * * * * * *
45033682 AACTTCAGAGGTATAAGATTTGTAGCTTCATCTTGCTCCACTGCAAATTTAGGAAGATAAGACTC
1 AACTTCAGGGGTATAGGATTTGTAGCTTCATCTTACTCCACTGCAACTTCAGGGAGATAAGATTC
*
45033747 GCTATGGTAGA-TTCAATCCAACCCACTGC
66 GCTATGGTA-ACTTCAATCCGACCCACTGC
* * * * * *
45033776 AACTTCAGGGGTATAGGATTTGTAGCTTCATTTTACTCTACTACAAATTCAAGGAGATAAGTTTC
1 AACTTCAGGGGTATAGGATTTGTAGCTTCATCTTACTCCACTGCAACTTCAGGGAGATAAGATTC
* *
45033841 GCTATGGTAACTTCAATCTGACGCACTGC
66 GCTATGGTAACTTCAATCCGACCCACTGC
* * *
45033870 AACTTCAAGGGTATAGGATTTGTAGCTTCATC-TAGCTCCATTGCAACTTCTA-GAAGATAAGAT
1 AACTTCAGGGGTATAGGATTTGTAGCTTCATCTTA-CTCCACTGCAACTTC-AGGGAGATAAGAT
45033933 TCGCTATGGTAACTTCAATCCGACCCACTGC
64 TCGCTATGGTAACTTCAATCCGACCCACTGC
* * * * * * * *
45033964 AACTTCAAGGGTAGA-GAATTGTAGCTTCATCTTGCTCCATTGCAATTTTAGGGAGATAAGACTC
1 AACTTCAGGGGTATAGGATTTGTAGCTTCATCTTACTCCACTGCAACTTCAGGGAGATAAGATTC
* ** *
45034028 GCTATGATAGA-TTCAATGTGACCCAATGC
66 GCTATGGTA-ACTTCAATCCGACCCACTGC
* * * * * * * *
45034057 AACTTTAGGGGTATCGGATTTGTAACTTCATCTTGCTCCACTACAATTTTAAGGAGATAAGACTT
1 AACTTCAGGGGTATAGGATTTGTAGCTTCATCTTACTCCACTGCAACTTCAGGGAGATAAGA-TT
* * *
45034122 -GCTATAGTAGA-TTCAATCTGACCCAGTGC
65 CGCTATGGTA-ACTTCAATCCGACCCACTGC
* * * * * * * *
45034151 AACTTTAAGGGTATGGGATTTGTAGCTTCATCTTGCTCTACTGCAACTTCAAGGAGTTAAGATTT
1 AACTTCAGGGGTATAGGATTTGTAGCTTCATCTTACTCCACTGCAACTTCAGGGAGATAAGATTC
* * *
45034216 GTTATGGTAACTTCAATCCGACCCAGTGA
66 GCTATGGTAACTTCAATCCGACCCACTGC
** * * * *
45034245 AACTTCATAGGAATAGGATTTGTAGCTTTATCTTACACTCCACTGCAACTTTAGAGAGATAAGAT
1 AACTTCAGGGGTATAGGATTTGTAGCTTCATCTT--ACTCCACTGCAACTTCAGGGAGATAAGAT
* * * **
45034310 TTGCTATGGTAGCTTTAATTTGACCCACTGC
64 TCGCTATGGTAACTTCAATCCGACCCACTGC
* * * * * * *
45034341 AAATTCAGGGGTATATGATTTGTAACTTCATCTTACTCCACTACAACTTTAGGGAGATAGGATTT
1 AACTTCAGGGGTATAGGATTTGTAGCTTCATCTTACTCCACTGCAACTTCAGGGAGATAAGATTC
* * * * * *
45034406 ACTATTGTAGCTTCAATCTGACCCATTAC
66 GCTATGGTAACTTCAATCCGACCCACTGC
* * *
45034435 AACTTCAGGGGTATAGGGTTTGTAGTTTCATCTTACTCTACTGCAACTTCAGGGAGATAAGATT
1 AACTTCAGGGGTATAGGATTTGTAGCTTCATCTTACTCCACTGCAACTTCAGGGAGATAAGATT
45034499 TGAGGTTTCA
Statistics
Matches: 842, Mismatches: 150, Indels: 26
0.83 0.15 0.03
Matches are distributed among these distances:
92 1 0.00
93 79 0.09
94 685 0.81
95 3 0.00
96 74 0.09
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (94 bp):
AACTTCAGGGGTATAGGATTTGTAGCTTCATCTTACTCCACTGCAACTTCAGGGAGATAAGATTC
GCTATGGTAACTTCAATCCGACCCACTGC
Found at i:45037887 original size:52 final size:52
Alignment explanation
Indices: 45037810--45037912 Score: 138
Period size: 52 Copynumber: 2.0 Consensus size: 52
45037800 GGAATAGATA
* * *
45037810 TGATATGTGCACCCGTATAAGACCATAGCT-GGCTATGGCATCGGTATGATG
1 TGATATGTGCACCCGTATAAGACCATAGATGGGATATGGCATCGATATGATG
*
45037861 TGATAATGTGC-CTCCGTATAAGACCATATATGGGATATGGCATCGATATGAT
1 TGAT-ATGTGCAC-CCGTATAAGACCATAGATGGGATATGGCATCGATATGAT
45037913 ATGTGATCCG
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
51 5 0.11
52 22 0.49
53 18 0.40
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.29
Consensus pattern (52 bp):
TGATATGTGCACCCGTATAAGACCATAGATGGGATATGGCATCGATATGATG
Found at i:45037923 original size:46 final size:47
Alignment explanation
Indices: 45037806--45037933 Score: 134
Period size: 52 Copynumber: 2.6 Consensus size: 47
45037796 TGACGGAATA
* * *
45037806 GATATGATATGTGCACCCGTATAAGACCATAGCTGGCTATGGCATCG
1 GATATGATATGTGCATCCGTATAAGACCATAGATGGATATGGCATCG
* *
45037853 GTATGATGTGATAATGTGCCTCCGTATAAGACCATATATGGGATATGGCATC-
1 G-AT-A--TGAT-ATGTGCATCCGTATAAGACCATAGAT-GGATATGGCATCG
*
45037905 GATATGATATGTG-ATCCGTGTAAGACCAT
1 GATATGATATGTGCATCCGTATAAGACCAT
45037934 GGCAGAGCTA
Statistics
Matches: 68, Mismatches: 7, Indels: 13
0.77 0.08 0.15
Matches are distributed among these distances:
46 14 0.21
47 6 0.09
48 6 0.09
49 1 0.01
50 1 0.01
51 6 0.09
52 23 0.34
53 11 0.16
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (47 bp):
GATATGATATGTGCATCCGTATAAGACCATAGATGGATATGGCATCG
Found at i:45043285 original size:3 final size:3
Alignment explanation
Indices: 45043204--45043274 Score: 52
Period size: 3 Copynumber: 22.3 Consensus size: 3
45043194 TAGTGAATAC
* * * *
45043204 AAT AAT AAGA AAT AAT AAT AAC AAT AAT AAT ATT CAATT AAT AAT ACT
1 AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT -AA-T AAT AAT AAT
* *
45043252 ATAT GAT AAT AAT GAT AAT AAT A
1 A-AT AAT AAT AAT AAT AAT AAT A
45043275 GTGAAATAAT
Statistics
Matches: 52, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
3 45 0.87
4 6 0.12
5 1 0.02
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:45043305 original size:21 final size:19
Alignment explanation
Indices: 45043252--45043309 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 19
45043242 TAATAATACT
*
45043252 ATATGATAATAATGATAATA
1 ATATGATAATAAT-ATAAAA
45043272 ATAGTGA-AATAATATAAAA
1 ATA-TGATAATAATATAAAA
45043291 ATGTATGATAATAATATAA
1 A--TATGATAATAATATAA
45043310 TTACATAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
19 6 0.18
20 12 0.36
21 15 0.45
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (19 bp):
ATATGATAATAATATAAAA
Found at i:45044879 original size:43 final size:43
Alignment explanation
Indices: 45044595--45044867 Score: 289
Period size: 43 Copynumber: 6.3 Consensus size: 43
45044585 AAAATTAAAA
* * *
45044595 AAACGCCGCTAAAGACCATGACCTTTAACGGCACTTTTTTCGC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCAC
* * ** *
45044638 AAACGCTGCTAAAGACCATGACCTTTAGCGGCACTTTTCCCGC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCAC
* * *
45044681 AAACGCCGCTAAAAACCATGACCTTTAGTGGCGCTTTTGTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCAC
* * *
45044724 AAACGCTGCTAAAGACCATGACTTTTAGCGGCGTTTTTTTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCAC
** * * * *
45044767 AAACGCCATTAAGGACCATGACATTTAGCAGCGCTTTTTTTCAA
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGC-TTTTTTCAC
* * * * *
45044811 AAACACCGCT-ATGTAACA-AACCTTTAGTGGCGCTTTTTTCAC
1 AAACGCCGCTAAAG-ACCATGACCTTTAGCGGCGCTTTTTTCAC
45044853 AAACGCCGCTAAAGA
1 AAACGCCGCTAAAGA
45044868 ATATAACCTT
Statistics
Matches: 190, Mismatches: 37, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
42 18 0.09
43 154 0.81
44 18 0.09
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCAC
Found at i:45057699 original size:42 final size:41
Alignment explanation
Indices: 45057613--45057710 Score: 115
Period size: 42 Copynumber: 2.4 Consensus size: 41
45057603 AATAATGATA
* ** *
45057613 TTTTGCGGCGTTTTCAATAAAAATGTTATTATAGCTCAATT
1 TTTTGCGGCGTTTTTAATAAAAATGCCATTATAGCTCAAGT
* *
45057654 TTTTGCGGCGTTTTTACTAAAAAGTGCCATTATAGCTTAAGT
1 TTTTGCGGCGTTTTTAATAAAAA-TGCCATTATAGCTCAAGT
**
45057696 TTTTGTAGCGTTTTT
1 TTTTGCGGCGTTTTT
45057711 GGGAAAATCG
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
41 21 0.44
42 27 0.56
ACGTcount: A:0.24, C:0.12, G:0.17, T:0.46
Consensus pattern (41 bp):
TTTTGCGGCGTTTTTAATAAAAATGCCATTATAGCTCAAGT
Found at i:45057883 original size:8 final size:8
Alignment explanation
Indices: 45057872--45057967 Score: 101
Period size: 8 Copynumber: 11.9 Consensus size: 8
45057862 ATATTAAATA
45057872 TTAAATTT
1 TTAAATTT
*
45057880 TTAAGTTT
1 TTAAATTT
*
45057888 TT-TATTT
1 TTAAATTT
45057895 TTAAA-TT
1 TTAAATTT
45057902 TTAAA-TT
1 TTAAATTT
45057909 TTAAA-TT
1 TTAAATTT
45057916 TTAAATTT
1 TTAAATTT
45057924 TTAAATTT
1 TTAAATTT
45057932 TTAAATTTTT
1 TTAAA--TTT
45057942 TTGAAGATTT
1 TT-AA-ATTT
45057952 TTATAATTT
1 TTA-AATTT
45057961 TTAAATT
1 TTAAATT
45057968 ATCATATAAA
Statistics
Matches: 77, Mismatches: 4, Indels: 14
0.81 0.04 0.15
Matches are distributed among these distances:
7 26 0.34
8 29 0.38
9 8 0.10
10 11 0.14
11 2 0.03
12 1 0.01
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (8 bp):
TTAAATTT
Found at i:45057883 original size:15 final size:15
Alignment explanation
Indices: 45057865--45057941 Score: 102
Period size: 15 Copynumber: 5.1 Consensus size: 15
45057855 GACTAAAATA
*
45057865 TTAAATATTAAATTT
1 TTAAATTTTAAATTT
* **
45057880 TTAAGTTTTTTATTT
1 TTAAATTTTAAATTT
45057895 TTAAATTTTAAA-TT
1 TTAAATTTTAAATTT
45057909 TTAAATTTTAAATTT
1 TTAAATTTTAAATTT
45057924 TTAAATTTTTAAATTT
1 TTAAA-TTTTAAATTT
45057940 TT
1 TT
45057942 TTGAAGATTT
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
14 14 0.26
15 27 0.51
16 12 0.23
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (15 bp):
TTAAATTTTAAATTT
Found at i:45057888 original size:7 final size:7
Alignment explanation
Indices: 45057860--45057940 Score: 81
Period size: 7 Copynumber: 11.0 Consensus size: 7
45057850 ATATGGACTA
*
45057860 AAATATT
1 AAATTTT
*
45057867 AAATATT
1 AAATTTT
45057874 AAATTTTT
1 AAA-TTTT
*
45057882 AAGTTTTT
1 AA-ATTTT
* *
45057890 TATTTTT
1 AAATTTT
45057897 AAATTTT
1 AAATTTT
45057904 AAATTTT
1 AAATTTT
45057911 AAATTTT
1 AAATTTT
45057918 AAATTTTT
1 AAA-TTTT
45057926 AAATTTTT
1 AAA-TTTT
45057934 AAATTTT
1 AAATTTT
45057941 TTTGAAGATT
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
7 41 0.62
8 25 0.38
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (7 bp):
AAATTTT
Found at i:45057913 original size:37 final size:37
Alignment explanation
Indices: 45057860--45057940 Score: 110
Period size: 37 Copynumber: 2.2 Consensus size: 37
45057850 ATATGGACTA
* * *
45057860 AAATATTAAATATTAAATTTTTAAGTTTTT-TATTTTT
1 AAATTTTAAATATTAAA-TTTTAAATTTTTAAATTTTT
*
45057897 AAATTTTAAATTTTAAATTTTAAATTTTTAAATTTTT
1 AAATTTTAAATATTAAATTTTAAATTTTTAAATTTTT
45057934 AAATTTT
1 AAATTTT
45057941 TTTGAAGATT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
36 11 0.28
37 28 0.72
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (37 bp):
AAATTTTAAATATTAAATTTTAAATTTTTAAATTTTT
Found at i:45058972 original size:17 final size:16
Alignment explanation
Indices: 45058950--45058993 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 16
45058940 GGACTAAATT
*
45058950 TTTATTTGTTTTTGTTG
1 TTTATTTGTTTTTG-GG
*
45058967 TTTATTTATTTTTGGG
1 TTTATTTGTTTTTGGG
45058983 TTT-TTTGTTTT
1 TTTATTTGTTTT
45058994 GTTTTGTCTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 7 0.29
16 4 0.17
17 13 0.54
ACGTcount: A:0.07, C:0.00, G:0.16, T:0.77
Consensus pattern (16 bp):
TTTATTTGTTTTTGGG
Found at i:45069446 original size:30 final size:30
Alignment explanation
Indices: 45069410--45069469 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
45069400 ACTTATCGAT
45069410 TTCTTTGTGGTGAAAGAGTGTACTCTGTCG
1 TTCTTTGTGGTGAAAGAGTGTACTCTGTCG
*
45069440 TTCTTTGTGGTTAAAGAGTGTACTCTGTCG
1 TTCTTTGTGGTGAAAGAGTGTACTCTGTCG
45069470 CTAGACTTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.17, C:0.13, G:0.28, T:0.42
Consensus pattern (30 bp):
TTCTTTGTGGTGAAAGAGTGTACTCTGTCG
Found at i:45071917 original size:42 final size:42
Alignment explanation
Indices: 45071856--45071970 Score: 153
Period size: 42 Copynumber: 2.7 Consensus size: 42
45071846 CTTCGTTTTC
** *
45071856 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCA-CATAA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCATC-T-A
*
45071899 T-GATGCCATAGCCCAACTATGGTCTTGCACATATTCATCTA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCATCTA
*
45071940 TCGATGCCATAGCCCAGCTATGGTCTTACAC
1 TCGATGCCATAGCCCAACTATGGTCTTACAC
45071971 GAATCACATA
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
41 2 0.03
42 60 0.94
43 2 0.03
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAACTATGGTCTTACACATATTCATCTA
Found at i:45072077 original size:31 final size:31
Alignment explanation
Indices: 45072042--45072252 Score: 314
Period size: 31 Copynumber: 6.8 Consensus size: 31
45072032 CTTGTCACTT
* *
45072042 GTAGCCGGAGCTACCACTATTCACTGATCAG
1 GTAGCCGGAGCTACCAATTTTCACTGATCAG
*
45072073 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGGAGCTACCAATTTTCACTGATCAG
45072104 GTAGCCGGAGCTACCAATTTTCACTGATCAG
1 GTAGCCGGAGCTACCAATTTTCACTGATCAG
*
45072135 GTAGCCGGAGCTACCAATTTTCATTGATCAG
1 GTAGCCGGAGCTACCAATTTTCACTGATCAG
*
45072166 GTAGCCGGAACTACCAATTTTCACTGATCAG
1 GTAGCCGGAGCTACCAATTTTCACTGATCAG
* * * *
45072197 GTAGCAGAAGCTACCACTTTTCACTGATTAG
1 GTAGCCGGAGCTACCAATTTTCACTGATCAG
* * *
45072228 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGGAGCTACCAATTTTCACT
45072253 TGTCATTTGT
Statistics
Matches: 168, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 168 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (31 bp):
GTAGCCGGAGCTACCAATTTTCACTGATCAG
Found at i:45072334 original size:50 final size:51
Alignment explanation
Indices: 45072228--45072356 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
45072218 CACTGATTAG
* * * *
45072228 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTTATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
*
45072279 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
45072329 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
45072357 TGCCATGGTC
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 44 0.62
51 27 0.38
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:45092632 original size:12 final size:12
Alignment explanation
Indices: 45092615--45092639 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45092605 TCCACATCCT
45092615 CGACCATGACCA
1 CGACCATGACCA
45092627 CGACCATGACCA
1 CGACCATGACCA
45092639 C
1 C
45092640 AATCATTTCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.44, G:0.16, T:0.08
Consensus pattern (12 bp):
CGACCATGACCA
Found at i:45110337 original size:12 final size:12
Alignment explanation
Indices: 45110322--45110358 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
45110312 ATCATAAGGA
*
45110322 TAACAATAATAG
1 TAACAGTAATAG
*
45110334 TAACAGTAACAG
1 TAACAGTAATAG
45110346 TAACAGTAATAG
1 TAACAGTAATAG
45110358 T
1 T
45110359 CAGGTACAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.51, C:0.11, G:0.14, T:0.24
Consensus pattern (12 bp):
TAACAGTAATAG
Found at i:45112452 original size:8 final size:8
Alignment explanation
Indices: 45112441--45112490 Score: 59
Period size: 8 Copynumber: 6.4 Consensus size: 8
45112431 TATTATATGC
*
45112441 TTATTTTA
1 TTATTATA
45112449 TTATTATA
1 TTATTATA
45112457 TTA-TAT-
1 TTATTATA
45112463 TATATTATA
1 T-TATTATA
*
45112472 TTAATATA
1 TTATTATA
45112480 TTATTATA
1 TTATTATA
45112488 TTA
1 TTA
45112491 ATTTCTTAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
6 1 0.03
7 5 0.14
8 29 0.81
9 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TTATTATA
Found at i:45112458 original size:5 final size:5
Alignment explanation
Indices: 45112450--45112490 Score: 57
Period size: 5 Copynumber: 8.0 Consensus size: 5
45112440 CTTATTTTAT
45112450 TATTA TATTA TATTA TATTA TATTA -ATATA TTATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TAT-TA -TATTA TATTA
45112491 ATTTCTTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
4 2 0.06
5 27 0.82
6 2 0.06
7 2 0.06
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:45112460 original size:16 final size:16
Alignment explanation
Indices: 45112428--45112490 Score: 67
Period size: 16 Copynumber: 4.0 Consensus size: 16
45112418 TTTCTTTATG
*
45112428 TTTTATTA-TATGCTTA
1 TTTTATTATTAT-ATTA
45112444 TTTTATTATTATATTA
1 TTTTATTATTATATTA
*
45112460 TATTA-TATTATATTA
1 TTTTATTATTATATTA
* *
45112475 ATATATTATTATATTA
1 TTTTATTATTATATTA
45112491 ATTTCTTAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
15 12 0.30
16 25 0.62
17 3 0.08
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (16 bp):
TTTTATTATTATATTA
Found at i:45129044 original size:40 final size:41
Alignment explanation
Indices: 45128996--45129126 Score: 221
Period size: 40 Copynumber: 3.2 Consensus size: 41
45128986 AGTAAATATA
*
45128996 TGCAAACACTCATCTTACCAATGTCAATATGCATATCTGAT
1 TGCAAACACTCATCTCACCAATGTCAATATGCATATCTGAT
*
45129037 TGC-AACACTCATCTCACCAATGTCAATATGCACATCTGAT
1 TGCAAACACTCATCTCACCAATGTCAATATGCATATCTGAT
45129077 TGCAAACACTCATCTCACCAATGTCAATATGCATATCTG-T
1 TGCAAACACTCATCTCACCAATGTCAATATGCATATCTGAT
*
45129117 CGCAAACACT
1 TGCAAACACT
45129127 AGAGTTCCGT
Statistics
Matches: 85, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
40 48 0.56
41 37 0.44
ACGTcount: A:0.34, C:0.28, G:0.10, T:0.28
Consensus pattern (41 bp):
TGCAAACACTCATCTCACCAATGTCAATATGCATATCTGAT
Found at i:45132683 original size:16 final size:16
Alignment explanation
Indices: 45132657--45132707 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
45132647 GACATAGCTC
*
45132657 TTCTCAAACAACGGTTG
1 TTCT-AAACAACAGTTG
* *
45132674 TTCTAAACAACAATTA
1 TTCTAAACAACAGTTG
*
45132690 TTCCAAACAACAGTTG
1 TTCTAAACAACAGTTG
45132706 TT
1 TT
45132708 TTTCCGGAAG
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
16 24 0.86
17 4 0.14
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (16 bp):
TTCTAAACAACAGTTG
Found at i:45133483 original size:16 final size:16
Alignment explanation
Indices: 45133459--45133489 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45133449 TTTGTTGAGT
*
45133459 ATTGTCAAGACAAGAC
1 ATTGACAAGACAAGAC
45133475 ATTGACAAGACAAGA
1 ATTGACAAGACAAGA
45133490 GACTAGTACA
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:0.48, C:0.16, G:0.19, T:0.16
Consensus pattern (16 bp):
ATTGACAAGACAAGAC
Found at i:45143450 original size:20 final size:20
Alignment explanation
Indices: 45143425--45143465 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
45143415 CTAGAGATAT
*
45143425 AGATAGTATGTGCTTTGATC
1 AGATAGTATGTGCATTGATC
45143445 AGATAGTATGTGCATTGATC
1 AGATAGTATGTGCATTGATC
45143465 A
1 A
45143466 AATTATAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.37
Consensus pattern (20 bp):
AGATAGTATGTGCATTGATC
Found at i:45146616 original size:14 final size:13
Alignment explanation
Indices: 45146563--45146632 Score: 54
Period size: 14 Copynumber: 4.9 Consensus size: 13
45146553 TTATTATGTT
45146563 TCTATTTATATTTA
1 TCTATTT-TATTTA
45146577 T-T-TTGTTATTCTAA
1 TCTATT-TTATT-T-A
45146591 TACTATTATTATTTA
1 T-CTATT-TTATTTA
45146606 TCTAATTTTATTTA
1 TCT-ATTTTATTTA
45146620 TCTATTTATATTT
1 TCTATTT-TATTT
45146633 CTACTATTAT
Statistics
Matches: 47, Mismatches: 1, Indels: 16
0.73 0.02 0.25
Matches are distributed among these distances:
12 6 0.13
13 7 0.15
14 20 0.43
15 5 0.11
16 2 0.04
17 7 0.15
ACGTcount: A:0.27, C:0.07, G:0.01, T:0.64
Consensus pattern (13 bp):
TCTATTTTATTTA
Found at i:45158748 original size:54 final size:54
Alignment explanation
Indices: 45158679--45158785 Score: 171
Period size: 54 Copynumber: 2.0 Consensus size: 54
45158669 CGAAGTCTAG
*
45158679 CTGAAGCACATAAGTGCTAAACAGAAGCCCGAAGGATAACTGAAGTACACAAGA
1 CTGAAGCACATAAGTGCTAAACAGAAGCCCGAAGGATAACTGAAGCACACAAGA
* *
45158733 CTGAAGCAC-TCAAGTGCTAAACGGAAGCCCGAAGGCTAACTGAAGCACACAAG
1 CTGAAGCACAT-AAGTGCTAAACAGAAGCCCGAAGGATAACTGAAGCACACAAG
45158786 TGCCCTAAGG
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
53 1 0.02
54 48 0.98
ACGTcount: A:0.41, C:0.23, G:0.23, T:0.12
Consensus pattern (54 bp):
CTGAAGCACATAAGTGCTAAACAGAAGCCCGAAGGATAACTGAAGCACACAAGA
Found at i:45165211 original size:36 final size:36
Alignment explanation
Indices: 45165100--45165253 Score: 152
Period size: 36 Copynumber: 4.3 Consensus size: 36
45165090 ACTATTTGTT
* * * *
45165100 TGGTGTGTTTTGGAGGGACTAGCTCTTTTGAGCAT-
1 TGGTGTGTTTTGGAGGGATTGGCTCGTGTGAGCATC
* * * * * * *
45165135 TGGTGTG-TTTCGATTGGACTAGCTCTTATGGGCAT-
1 TGGTGTGTTTTGGA-GGGATTGGCTCGTGTGAGCATC
*
45165170 TGGTGTATTTTGGAGGGATTGGCTCGTGTGAGCATC
1 TGGTGTGTTTTGGAGGGATTGGCTCGTGTGAGCATC
*
45165206 TGGTGTGTCTTGGAGGGATTGGCTCGTGTGAGCATC
1 TGGTGTGTTTTGGAGGGATTGGCTCGTGTGAGCATC
*
45165242 TAGTGTGTTTTG
1 TGGTGTGTTTTG
45165254 ATTGGACTGA
Statistics
Matches: 100, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
34 5 0.05
35 46 0.46
36 49 0.49
ACGTcount: A:0.13, C:0.12, G:0.36, T:0.39
Consensus pattern (36 bp):
TGGTGTGTTTTGGAGGGATTGGCTCGTGTGAGCATC
Found at i:45166092 original size:20 final size:20
Alignment explanation
Indices: 45166043--45166098 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
45166033 AGTTTATGCT
* * *
45166043 AAGTAAATGAAATGGAAAGT
1 AAGTAAATGGAATGGTAAGA
45166063 AAGTAAATGGAATGGTAAGA
1 AAGTAAATGGAATGGTAAGA
*
45166083 AAGTAAATGGAGTGGT
1 AAGTAAATGGAATGGT
45166099 TCATAGTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.48, C:0.00, G:0.30, T:0.21
Consensus pattern (20 bp):
AAGTAAATGGAATGGTAAGA
Found at i:45168846 original size:13 final size:13
Alignment explanation
Indices: 45168828--45168852 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45168818 CATTAAAGCC
45168828 AAGGCAACCTTAT
1 AAGGCAACCTTAT
45168841 AAGGCAACCTTA
1 AAGGCAACCTTA
45168853 GCTTCATAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.16, T:0.20
Consensus pattern (13 bp):
AAGGCAACCTTAT
Found at i:45168895 original size:113 final size:114
Alignment explanation
Indices: 45168720--45168945 Score: 418
Period size: 113 Copynumber: 2.0 Consensus size: 114
45168710 TTTCGTGTAC
*
45168720 ACCTATATAAGGCAACCTTAGCTTCATAAGTAAGTTCTATACTTTATTTGATAATTCTTATTTCC
1 ACCTATATAAGGCAACCTTAGCTTCATAAGTAAGTTCTATACTTTATTTGATAATTCATATTTCC
*
45168785 TTTCAGTAATTCTCTATGCGTTTTCCGGGAAAGCATTAAAGCCAAGGCA
66 TTTCAGTAATTATCTATGCGTTTTCCGGGAAAGCATTAAAGCCAAGGCA
*
45168834 ACCT-TATAAGGCAACCTTAGCTTCATAAGTAAGTTCTATACTTTCTTTGATAATTCATATTTCC
1 ACCTATATAAGGCAACCTTAGCTTCATAAGTAAGTTCTATACTTTATTTGATAATTCATATTTCC
45168898 TTTCAGTAATTATCTATGCGTTTTCCGGGAAAGCATTAAAGCCAAGGC
66 TTTCAGTAATTATCTATGCGTTTTCCGGGAAAGCATTAAAGCCAAGGC
45168946 CTGTTTGAAG
Statistics
Matches: 109, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
113 105 0.96
114 4 0.04
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (114 bp):
ACCTATATAAGGCAACCTTAGCTTCATAAGTAAGTTCTATACTTTATTTGATAATTCATATTTCC
TTTCAGTAATTATCTATGCGTTTTCCGGGAAAGCATTAAAGCCAAGGCA
Found at i:45169363 original size:22 final size:22
Alignment explanation
Indices: 45169338--45169381 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
45169328 GTGAAAGGTC
45169338 TGGCTTTGAATGTTGAGGTAAG
1 TGGCTTTGAATGTTGAGGTAAG
*
45169360 TGGCTTTGAATGTTGATGTAAG
1 TGGCTTTGAATGTTGAGGTAAG
45169382 AAATGAAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.05, G:0.34, T:0.39
Consensus pattern (22 bp):
TGGCTTTGAATGTTGAGGTAAG
Found at i:45173983 original size:24 final size:24
Alignment explanation
Indices: 45173944--45174013 Score: 104
Period size: 24 Copynumber: 2.9 Consensus size: 24
45173934 TATTGACATC
*
45173944 CAAATCAGCACACATAGTGCCATT
1 CAAATCCGCACACATAGTGCCATT
*
45173968 CAATTCCGCACACATAGTGCCATT
1 CAAATCCGCACACATAGTGCCATT
* *
45173992 CAAATCCACACACTTAGTGCCA
1 CAAATCCGCACACATAGTGCCA
45174014 ATGTTGACCC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.34, C:0.33, G:0.11, T:0.21
Consensus pattern (24 bp):
CAAATCCGCACACATAGTGCCATT
Done.