Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 8 of 141
Found at i:2056158 original size:38 final size:38
Alignment explanation
Indices: 2056106--2056214 Score: 164
Period size: 38 Copynumber: 2.9 Consensus size: 38
2056096 CTAAATTCCA
*
2056106 AAATAATACATGACTCGTATTTACGAGTAGCAGGTCCC
1 AAATAATACATGACTCGTGTTTACGAGTAGCAGGTCCC
* **
2056144 AAATAATACTTGACTCGTGTTTACGAGTAGCAATTCCC
1 AAATAATACATGACTCGTGTTTACGAGTAGCAGGTCCC
* *
2056182 AAATAATACATAACTCATGTTTACGAGTAGCAG
1 AAATAATACATGACTCGTGTTTACGAGTAGCAG
2056215 TTTCATACAC
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 63 1.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (38 bp):
AAATAATACATGACTCGTGTTTACGAGTAGCAGGTCCC
Found at i:2060606 original size:57 final size:58
Alignment explanation
Indices: 2060502--2060622 Score: 149
Period size: 57 Copynumber: 2.1 Consensus size: 58
2060492 ATGAAGATGG
* *
2060502 TGAAAATGGAGAAATGGAAAACATTTAGAAACTATTATGGTTTTCTCCAAAATGGAAAA
1 TGAAAATGGAGAAATGGAAAACATTTAGAAAATATTATGGTTGTCTCCAAAAT-GAAAA
* * * *
2060561 -GAAAATGGAGAAATTG-AATCATTT-GAAAATAATTGTGGTTGTCTCCACAATGAAAA
1 TGAAAATGGAGAAATGGAAAACATTTAGAAAAT-ATTATGGTTGTCTCCAAAATGAAAA
2060617 TGAAAA
1 TGAAAA
2060623 ATGAAAATGA
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
56 10 0.19
57 29 0.54
58 15 0.28
ACGTcount: A:0.45, C:0.08, G:0.19, T:0.27
Consensus pattern (58 bp):
TGAAAATGGAGAAATGGAAAACATTTAGAAAATATTATGGTTGTCTCCAAAATGAAAA
Found at i:2063638 original size:23 final size:22
Alignment explanation
Indices: 2063612--2063655 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
2063602 AATTGACTAA
2063612 GTGT-AATTGAATAATGAATATAG
1 GTGTGAATTGAAT--TGAATATAG
2063635 GTGTGGAATTGAATTGAATAT
1 GTGT-GAATTGAATTGAATAT
2063656 CGACTTAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (22 bp):
GTGTGAATTGAATTGAATATAG
Found at i:2069897 original size:4 final size:4
Alignment explanation
Indices: 2069888--2069916 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
2069878 CTTTTGAACT
2069888 TTAA TTAA TTAA TTAA TTAA TTAA -TAA TT
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TT
2069917 CAAAAAACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:2074097 original size:12 final size:12
Alignment explanation
Indices: 2074080--2074104 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2074070 TGAATTATGT
2074080 AAGAATGCACTA
1 AAGAATGCACTA
2074092 AAGAATGCACTA
1 AAGAATGCACTA
2074104 A
1 A
2074105 CTTATGTATT
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:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (12 bp):
AAGAATGCACTA
Found at i:2090905 original size:27 final size:27
Alignment explanation
Indices: 2090888--2091367 Score: 474
Period size: 27 Copynumber: 17.6 Consensus size: 27
2090878 ATATTAAGTC
2090888 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
2090915 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
2090943 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
2090970 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
2090997 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
2091025 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
2091053 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
2091081 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
2091109 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
2091136 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
2091163 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
2091191 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
2091218 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
2091245 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
2091272 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
2091299 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * * *
2091326 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
*
2091353 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
2091368 GCACAATTTA
Statistics
Matches: 444, Mismatches: 6, Indels: 6
0.97 0.01 0.01
Matches are distributed among these distances:
27 281 0.63
28 163 0.37
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:2091018 original size:54 final size:54
Alignment explanation
Indices: 2090888--2091367 Score: 852
Period size: 54 Copynumber: 8.8 Consensus size: 54
2090878 ATATTAAGTC
* * * *
2090888 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTC-AACT
2090943 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
2090997 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAGTC-AACT
2091053 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAGTC-AACT
2091109 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
*
2091163 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAGTCAACT
2091218 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
2091272 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
*
2091326 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
2091368 GCACAATTTA
Statistics
Matches: 415, Mismatches: 7, Indels: 7
0.97 0.02 0.02
Matches are distributed among these distances:
54 179 0.43
55 153 0.37
56 83 0.20
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
Found at i:2091025 original size:82 final size:82
Alignment explanation
Indices: 2090888--2091367 Score: 874
Period size: 82 Copynumber: 5.9 Consensus size: 82
2090878 ATATTAAGTC
* * * *
2090888 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
2090953 GTGCTACATAGTCAACT
66 GTGCTACATAGTCAACT
2090970 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
2091035 GTGCTACATAGTCAAACT
66 GTGCTACATAGTC-AACT
2091053 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
2091118 AGTGCTACATAGTCAACT
65 AGTGCTACATAGTCAACT
*
2091136 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
2091201 GTGCTACATAGTCAACT
66 GTGCTACATAGTCAACT
2091218 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTC-AACTCGCACACTTA
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
2091282 GTGCTACATAGTCAACT
66 GTGCTACATAGTCAACT
*
2091299 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTC-AATTCGCACACTTA
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
2091363 GTGCT
66 GTGCT
2091368 GCACAATTTA
Statistics
Matches: 389, Mismatches: 7, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
81 99 0.25
82 181 0.47
83 54 0.14
84 55 0.14
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (82 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
GTGCTACATAGTCAACT
Found at i:2111973 original size:29 final size:29
Alignment explanation
Indices: 2111933--2112123 Score: 95
Period size: 29 Copynumber: 6.6 Consensus size: 29
2111923 TTATCGATCA
*
2111933 ATGAAAAAGGATGGTTTTCACCATCGATT
1 ATGAAAAGGGATGGTTTTCACCATCGATT
* * * **
2111962 ATTAAAAGGGATAGTTTTGAGTATCGATT
1 ATGAAAAGGGATGGTTTTCACCATCGATT
** *
2111991 ATGAAAAGGGATGG-TGACGACCATCG-TAA
1 ATGAAAAGGGATGGTTTTC-ACCATCGAT-T
* * * *
2112020 ATGAAATGGGATAG-TTTCGACTATCGACT
1 ATGAAAAGGGATGGTTTTC-ACCATCGATT
* ** * *
2112049 ATGAAAAGGGAAGG-TGACGATCATCAATT
1 ATGAAAAGGGATGGTTTTC-ACCATCGATT
** *
2112078 AATGAAAAGGGATGG-TGACGACCATCGAAT
1 -ATGAAAAGGGATGGTTTTC-ACCATCGATT
*
2112108 ATGAAAAGGGGTGGTT
1 ATGAAAAGGGATGGTT
2112124 ACGACCATCA
Statistics
Matches: 122, Mismatches: 35, Indels: 9
0.73 0.21 0.05
Matches are distributed among these distances:
28 2 0.02
29 94 0.77
30 26 0.21
ACGTcount: A:0.36, C:0.10, G:0.28, T:0.26
Consensus pattern (29 bp):
ATGAAAAGGGATGGTTTTCACCATCGATT
Found at i:2112015 original size:58 final size:58
Alignment explanation
Indices: 2111952--2112136 Score: 194
Period size: 58 Copynumber: 3.2 Consensus size: 58
2111942 GATGGTTTTC
* * * *
2111952 ACCATCGATTATTAAAAGGGATAGTTTTGAGTATCGATTATGAAAAGGGATGGTGACG
1 ACCATCGATTATGAAAAGGGATAGTTTCGACTATCGAATATGAAAAGGGATGGTGACG
* * * *
2112010 ACCATCG-TAAATGAAATGGGATAGTTTCGACTATCGACTATGAAAAGGGAAGGTGACG
1 ACCATCGAT-TATGAAAAGGGATAGTTTCGACTATCGAATATGAAAAGGGATGGTGACG
* * * ** * * *
2112068 ATCATCAATTAATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGGGGTGGTTACG
1 ACCATCGATT-ATGAAAAGGGATAGTTTCGACTATCGAATATGAAAAGGGATGGTGACG
2112127 ACCATC-ATTA
1 ACCATCGATTA
2112137 ACACACTTCG
Statistics
Matches: 104, Mismatches: 20, Indels: 7
0.79 0.15 0.05
Matches are distributed among these distances:
57 2 0.02
58 57 0.55
59 45 0.43
ACGTcount: A:0.36, C:0.12, G:0.26, T:0.25
Consensus pattern (58 bp):
ACCATCGATTATGAAAAGGGATAGTTTCGACTATCGAATATGAAAAGGGATGGTGACG
Found at i:2112111 original size:59 final size:58
Alignment explanation
Indices: 2111984--2112134 Score: 167
Period size: 59 Copynumber: 2.6 Consensus size: 58
2111974 AGTTTTGAGT
* * * * ** *
2111984 ATCGATTATGAAAAGGGATGGTGACGACCATCGTAAATGAAATGGGATAGTTTCGACT
1 ATCGAATATGAAAAGGGAAGGTGACGACCATCATAAATGAAAAGGGATAGTGACGACC
* * * *
2112042 ATCGACTATGAAAAGGGAAGGTGACGATCATCAATTAATGAAAAGGGATGGTGACGACC
1 ATCGAATATGAAAAGGGAAGGTGACGACCATC-ATAAATGAAAAGGGATAGTGACGACC
** *
2112101 ATCGAATATGAAAAGGGGTGGTTACGACCATCAT
1 ATCGAATATGAAAAGGGAAGGTGACGACCATCAT
2112135 TAACACACTT
Statistics
Matches: 77, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
58 31 0.40
59 46 0.60
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.23
Consensus pattern (58 bp):
ATCGAATATGAAAAGGGAAGGTGACGACCATCATAAATGAAAAGGGATAGTGACGACC
Found at i:2112127 original size:29 final size:29
Alignment explanation
Indices: 2111984--2112132 Score: 158
Period size: 29 Copynumber: 5.1 Consensus size: 29
2111974 AGTTTTGAGT
*
2111984 ATCGATTATGAAAAGGGATGGTGACGACC
1 ATCGAATATGAAAAGGGATGGTGACGACC
* * ** *
2112013 ATCGTAA-ATGAAATGGGATAGTTTCGACT
1 ATCG-AATATGAAAAGGGATGGTGACGACC
* * *
2112042 ATCGACTATGAAAAGGGAAGGTGACGATC
1 ATCGAATATGAAAAGGGATGGTGACGACC
2112071 ATC-AATTAATGAAAAGGGATGGTGACGACC
1 ATCGAA-T-ATGAAAAGGGATGGTGACGACC
* *
2112101 ATCGAATATGAAAAGGGGTGGTTACGACC
1 ATCGAATATGAAAAGGGATGGTGACGACC
2112130 ATC
1 ATC
2112133 ATTAACACAC
Statistics
Matches: 96, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
28 2 0.02
29 67 0.70
30 25 0.26
31 2 0.02
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.22
Consensus pattern (29 bp):
ATCGAATATGAAAAGGGATGGTGACGACC
Found at i:2113306 original size:30 final size:30
Alignment explanation
Indices: 2113270--2113334 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
2113260 ACGGCTTAAG
2113270 ACACGGTCGTGTGTCTCAGCCGTGTGAGTC
1 ACACGGTCGTGTGTCTCAGCCGTGTGAGTC
* **
2113300 ACACGGTCGTGTGTTTCAGTTGTGTGAGTC
1 ACACGGTCGTGTGTCTCAGCCGTGTGAGTC
2113330 ACACG
1 ACACG
2113335 TGTTGGGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.15, C:0.23, G:0.32, T:0.29
Consensus pattern (30 bp):
ACACGGTCGTGTGTCTCAGCCGTGTGAGTC
Found at i:2116089 original size:195 final size:195
Alignment explanation
Indices: 2115757--2116146 Score: 780
Period size: 195 Copynumber: 2.0 Consensus size: 195
2115747 TCAATCCACA
2115757 ATCTTTTCTTTTCCCCGATCAAGGTCGATTCCACATCTTTCTTGATCTATAATAGAAAATTTAGC
1 ATCTTTTCTTTTCCCCGATCAAGGTCGATTCCACATCTTTCTTGATCTATAATAGAAAATTTAGC
2115822 TTATTTAATATTCAAATTCATCAAAACAGTCATTGACTCAAACTTTGGAAAAATTATGATTTTGC
66 TTATTTAATATTCAAATTCATCAAAACAGTCATTGACTCAAACTTTGGAAAAATTATGATTTTGC
2115887 CCCTAAACTTTTGCATATTTACACTTTTGCCCCAAAGCTCAGAAATTAAACTTTATCTCTTATTG
131 CCCTAAACTTTTGCATATTTACACTTTTGCCCCAAAGCTCAGAAATTAAACTTTATCTCTTATTG
2115952 ATCTTTTCTTTTCCCCGATCAAGGTCGATTCCACATCTTTCTTGATCTATAATAGAAAATTTAGC
1 ATCTTTTCTTTTCCCCGATCAAGGTCGATTCCACATCTTTCTTGATCTATAATAGAAAATTTAGC
2116017 TTATTTAATATTCAAATTCATCAAAACAGTCATTGACTCAAACTTTGGAAAAATTATGATTTTGC
66 TTATTTAATATTCAAATTCATCAAAACAGTCATTGACTCAAACTTTGGAAAAATTATGATTTTGC
2116082 CCCTAAACTTTTGCATATTTACACTTTTGCCCCAAAGCTCAGAAATTAAACTTTATCTCTTATTG
131 CCCTAAACTTTTGCATATTTACACTTTTGCCCCAAAGCTCAGAAATTAAACTTTATCTCTTATTG
2116147 TTATGTTTTA
Statistics
Matches: 195, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
195 195 1.00
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.39
Consensus pattern (195 bp):
ATCTTTTCTTTTCCCCGATCAAGGTCGATTCCACATCTTTCTTGATCTATAATAGAAAATTTAGC
TTATTTAATATTCAAATTCATCAAAACAGTCATTGACTCAAACTTTGGAAAAATTATGATTTTGC
CCCTAAACTTTTGCATATTTACACTTTTGCCCCAAAGCTCAGAAATTAAACTTTATCTCTTATTG
Found at i:2120304 original size:77 final size:75
Alignment explanation
Indices: 2120184--2120333 Score: 210
Period size: 76 Copynumber: 2.0 Consensus size: 75
2120174 GGAAAACCAA
* * * *
2120184 GATTATTCCCTCATTAATAGAGAAGACAAATGGAAAGTTAGAAAAAAAAAGTTATATTCTTTCCA
1 GATTATTCCATCATTAATAGAAAAAACAAATGAAAAGTTAGAAAAAAAAA-TTATATTCTTTCCA
2120249 AAAGAATATAG
65 AAAGAATATAG
* ** *
2120260 GATTATTCCATTATTAATAGAAAAAAACAAATGAAAAGTTAGAAAAAGGAATTATTTTCTTTCCA
1 GATTATTCCATCATTAATAG-AAAAAACAAATGAAAAGTTAGAAAAAAAAATTATATTCTTTCCA
2120325 AAAGAATAT
65 AAAGAATAT
2120334 TAATTTCTAT
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
76 40 0.62
77 25 0.38
ACGTcount: A:0.49, C:0.09, G:0.13, T:0.29
Consensus pattern (75 bp):
GATTATTCCATCATTAATAGAAAAAACAAATGAAAAGTTAGAAAAAAAAATTATATTCTTTCCAA
AAGAATATAG
Found at i:2120532 original size:125 final size:125
Alignment explanation
Indices: 2120309--2120671 Score: 405
Period size: 125 Copynumber: 2.8 Consensus size: 125
2120299 TAGAAAAAGG
* * * *
2120309 AATTATTTTCTTTCCAAAAGAATATTAA-TTTCTATGTATTTTATATTTTGACCAAAATTAAATA
1 AATTATATTCTTTCCAAAAGAATATTAATTTTC-ATGTCTTTTATATTTTGACCGAAATTAATTA
* * *
2120373 ATATAATTATTTATATTAATAAATTTAGTCAAATAT-T-TTGTA-TGAATCAAATTCATATATT
65 ATATAACTATTTATATTAATAAATTCAGTAAAATATATATTGTATTGAATCAAATTC--ATA-T
2120434 AATTATATTCTTTCCAAATA-AATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTA
1 AATTATATTCTTTCCAAA-AGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTA
* *
2120498 ATATAACTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTATTTGAATCAAAT
65 ATATAACTATTTATATTAATAAATTCAGT--AA-A-AT---A-T-ATATTGTA-TTGAATCAAAT
2120563 TCATAT
120 TCATAT
* **
2120569 -ATTAATTATATCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGAATGAAATTAAT
1 AATT-A-TAT-TCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAAT
*
2120633 TAATATAACCATTTATATTAATAAATTCAGTAAAATATA
63 TAATATAACTATTTATATTAATAAATTCAGTAAAATATA
2120672 AACAATAAAT
Statistics
Matches: 205, Mismatches: 14, Indels: 35
0.81 0.06 0.14
Matches are distributed among these distances:
125 79 0.39
126 5 0.02
127 1 0.00
128 2 0.01
129 3 0.01
130 1 0.00
132 1 0.00
133 3 0.01
134 4 0.02
135 5 0.02
136 11 0.05
137 78 0.38
138 12 0.06
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (125 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
TATAACTATTTATATTAATAAATTCAGTAAAATATATATTGTATTGAATCAAATTCATAT
Found at i:2120651 original size:137 final size:137
Alignment explanation
Indices: 2120403--2120718 Score: 499
Period size: 137 Copynumber: 2.3 Consensus size: 137
2120393 AAATTTAGTC
*
2120403 AAATATTTTGTATGAATCAAATTCATATATTAATTATATTCTTTCCAAATAAATATTAATTTTCA
1 AAATATTTTGTATGAATCAAATTCATATATTAATTATA-TCTTTCCAAATAAATATTAATTTCCA
* * *
2120468 TGTCTTTTATATTTTGACCGAAATTAATTAATATAACTATTTATATTAATAAATTCGGTAAAATA
65 TGTCTTTTATATTTTGAACGAAATTAATTAATATAACCATTTATATTAATAAATTCAGTAAAATA
*
2120533 TATACAAT
130 TAAACAAT
* * *
2120541 TAATATTTTATTTGAATCAAATTCATATATTAATTATATCTTTCCAAA-AGAATATTAATTTCCA
1 AAATATTTTGTATGAATCAAATTCATATATTAATTATATCTTTCCAAATA-AATATTAATTTCCA
*
2120605 TGTCTTTTATATTTTGAATGAAATTAATTAATATAACCATTTATATTAATAAATTCAGTAAAATA
65 TGTCTTTTATATTTTGAACGAAATTAATTAATATAACCATTTATATTAATAAATTCAGTAAAATA
2120670 TAAACAAT
130 TAAACAAT
* * *
2120678 AAATATTTTGCATAAATCAAATTCATATATTAATTTTATCT
1 AAATATTTTGTATGAATCAAATTCATATATTAATTATATCT
2120719 ATGTTCTCTA
Statistics
Matches: 162, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
136 1 0.01
137 126 0.78
138 35 0.22
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.45
Consensus pattern (137 bp):
AAATATTTTGTATGAATCAAATTCATATATTAATTATATCTTTCCAAATAAATATTAATTTCCAT
GTCTTTTATATTTTGAACGAAATTAATTAATATAACCATTTATATTAATAAATTCAGTAAAATAT
AAACAAT
Found at i:2120806 original size:17 final size:18
Alignment explanation
Indices: 2120767--2120810 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
2120757 TGTGTTTAAT
*
2120767 ATTTAATT-ATCAAATTA
1 ATTTAATTCAACAAATTA
*
2120784 AATTAATTCAACAAA-TA
1 ATTTAATTCAACAAATTA
2120801 ATTTAATTCA
1 ATTTAATTCA
2120811 TGTGACAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (18 bp):
ATTTAATTCAACAAATTA
Found at i:2125899 original size:49 final size:47
Alignment explanation
Indices: 2125748--2126109 Score: 519
Period size: 49 Copynumber: 7.6 Consensus size: 47
2125738 CCCTTCGGGA
* * * * * *
2125748 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
2125795 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
2125842 CTTATCACATATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
2125890 CCTATTCACATATATACACTTTCACATTCATCACATTGGCCATTAAGC
1 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
2125938 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
2125987 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
2126036 CCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
2126084 CTTATCACATATATACACTTTCACAT
1 CTTATCACATATATACACTTTCACAT
2126110 ATGGGTTTAA
Statistics
Matches: 289, Mismatches: 19, Indels: 14
0.90 0.06 0.04
Matches are distributed among these distances:
47 92 0.32
48 79 0.27
49 114 0.39
50 4 0.01
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:2125910 original size:96 final size:96
Alignment explanation
Indices: 2125748--2126109 Score: 536
Period size: 96 Copynumber: 3.8 Consensus size: 96
2125738 CCCTTCGGGA
* * * * ** *
2125748 CTTATCACAT-T-TATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAAGCCCTATCACATATATAC
2125811 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
2125842 CTTATCACATATATATACACTTTCACATTCA-CACATCGGCCATTAGGCCCTATTCACATATATA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAAGCCCTA-TCACATATATA
* *
2125906 CACTTTCACATTCATCACATTGGCCATTAAGC
65 CACTTTCACATTCATCACATCGGCCATTAGGC
*
2125938 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAAGCCCTATCAC--ATATAT
2126003 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
* *
2126036 CCTATTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATA
1 CTTA-TCACATATATATACACTTTCACATTCATCACATCGGCCATTAAGCCCTATCACATATATA
2126099 CACTTTCACAT
65 CACTTTCACAT
2126110 ATGGGTTTAA
Statistics
Matches: 248, Mismatches: 13, Indels: 13
0.91 0.05 0.05
Matches are distributed among these distances:
94 10 0.04
95 36 0.15
96 92 0.37
97 66 0.27
98 40 0.16
99 4 0.02
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAAGCCCTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:2136783 original size:41 final size:41
Alignment explanation
Indices: 2136722--2136830 Score: 166
Period size: 41 Copynumber: 2.7 Consensus size: 41
2136712 GAATGTAAAA
* **
2136722 AAGGGCACGTATGTGTAATTCTGGGGTACCGAAGTACAAAC
1 AAGGGCACGTATGTGCAATTCAAGGGTACCGAAGTACAAAC
*
2136763 AAGGGCACGTATGTGCAATTCAAGGGTACCGAAGTACAAAT
1 AAGGGCACGTATGTGCAATTCAAGGGTACCGAAGTACAAAC
*
2136804 AAGGGCATGTATGTGCAATTC-AGGGTA
1 AAGGGCACGTATGTGCAATTCAAGGGTA
2136831 TAATTAATTA
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
40 6 0.10
41 57 0.90
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.22
Consensus pattern (41 bp):
AAGGGCACGTATGTGCAATTCAAGGGTACCGAAGTACAAAC
Found at i:2136788 original size:21 final size:21
Alignment explanation
Indices: 2136762--2136825 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
2136752 GAAGTACAAA
2136762 CAAGGGCACGTATGTGCAATT
1 CAAGGGCACGTATGTGCAATT
* * * *
2136783 CAAGGGTACCG-AAGTACAAAT
1 CAAGGGCA-CGTATGTGCAATT
*
2136804 -AAGGGCATGTATGTGCAATT
1 CAAGGGCACGTATGTGCAATT
2136824 CA
1 CA
2136826 GGGTATAATT
Statistics
Matches: 31, Mismatches: 9, Indels: 6
0.67 0.20 0.13
Matches are distributed among these distances:
19 1 0.03
20 13 0.42
21 15 0.48
22 2 0.06
ACGTcount: A:0.34, C:0.17, G:0.27, T:0.22
Consensus pattern (21 bp):
CAAGGGCACGTATGTGCAATT
Found at i:2142046 original size:41 final size:41
Alignment explanation
Indices: 2141988--2142081 Score: 102
Period size: 41 Copynumber: 2.3 Consensus size: 41
2141978 ACCAAAATGT
* * * *
2141988 AAACAGTG-GCACGTATGTGCCATTCAGGGGTA-TCGAAGTAC
1 AAACAG-GAGCACATATGTGCAAATCAGGGGTACT-AAAGTAC
*
2142029 AAACAGGAGCACATATGTGTAAATCAGGGGTACTAAAGTAC
1 AAACAGGAGCACATATGTGCAAATCAGGGGTACTAAAGTAC
*
2142070 AAAAAGGAGCAC
1 AAACAGGAGCAC
2142082 GTATTTGTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
40 1 0.02
41 43 0.96
42 1 0.02
ACGTcount: A:0.38, C:0.17, G:0.27, T:0.18
Consensus pattern (41 bp):
AAACAGGAGCACATATGTGCAAATCAGGGGTACTAAAGTAC
Found at i:2142111 original size:41 final size:41
Alignment explanation
Indices: 2142023--2142113 Score: 101
Period size: 41 Copynumber: 2.2 Consensus size: 41
2142013 AGGGGTATCG
* * *
2142023 AAGTACAAACAGGAGCACATATGTGTAAATCAGGGGTACTA
1 AAGTACAAAAAGGAGCACATATGTGTAAATCAAGGCTACTA
* * * * *
2142064 AAGTACAAAAAGGAGCACGTATTTGTAATTTAAGGCTACTG
1 AAGTACAAAAAGGAGCACATATGTGTAAATCAAGGCTACTA
*
2142105 ACGTACAAA
1 AAGTACAAA
2142114 CAGGGGCATG
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.22
Consensus pattern (41 bp):
AAGTACAAAAAGGAGCACATATGTGTAAATCAAGGCTACTA
Found at i:2149630 original size:50 final size:50
Alignment explanation
Indices: 2149572--2149675 Score: 147
Period size: 52 Copynumber: 2.1 Consensus size: 50
2149562 TCCTCTAGAG
* *
2149572 AACATATGGAAAGCATT-AAACATGTTATATTCTTTCCAAAAAAGAATTAT
1 AACATATGGAAAGCATTAAAAAATGTTATATGCTTTCC-AAAAAGAATTAT
* *
2149622 AACATATGGAAAGTATTAAAAAAATGTTATATGCTTTCCAAAAATAATTAT
1 AACATATGGAAAGCATT-AAAAAATGTTATATGCTTTCCAAAAAGAATTAT
2149673 AAC
1 AAC
2149676 TAACATGTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
50 16 0.33
51 14 0.29
52 18 0.38
ACGTcount: A:0.48, C:0.11, G:0.10, T:0.32
Consensus pattern (50 bp):
AACATATGGAAAGCATTAAAAAATGTTATATGCTTTCCAAAAAGAATTAT
Found at i:2152746 original size:28 final size:28
Alignment explanation
Indices: 2152666--2152930 Score: 399
Period size: 28 Copynumber: 9.5 Consensus size: 28
2152656 ATATTGAGTC
*
2152666 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
2152693 CGCACAGTT-GTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
** *
2152720 CGCACACTTAGTGAAACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
2152748 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
2152776 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
2152804 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
2152832 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
2152860 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
2152888 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
2152917 CGCACACTTAGTGC
1 CGCACACTTAGTGC
2152931 CAATCTCATG
Statistics
Matches: 216, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
26 13 0.06
27 19 0.09
28 166 0.77
29 18 0.08
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:2166786 original size:16 final size:16
Alignment explanation
Indices: 2166765--2166809 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 16
2166755 AATTACGGAA
2166765 ACGTTATTAACAAATT
1 ACGTTATTAACAAATT
2166781 ACGTTATTAAC-AA--
1 ACGTTATTAACAAATT
2166794 ACGTTATTAACAAATT
1 ACGTTATTAACAAATT
2166810 CCCAATTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 11 0.42
14 2 0.08
15 2 0.08
16 11 0.42
ACGTcount: A:0.44, C:0.13, G:0.07, T:0.36
Consensus pattern (16 bp):
ACGTTATTAACAAATT
Found at i:2168428 original size:16 final size:17
Alignment explanation
Indices: 2168397--2168429 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
2168387 TAATATTTTA
2168397 AAAATATTAATTTAATAT
1 AAAATATT-ATTTAATAT
2168415 AAAATATT-TTTAATA
1 AAAATATTATTTAATA
2168430 CTATAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AAAATATTATTTAATAT
Found at i:2168556 original size:17 final size:17
Alignment explanation
Indices: 2168505--2168589 Score: 59
Period size: 17 Copynumber: 4.9 Consensus size: 17
2168495 TTCAATGGTA
*
2168505 ATAT-AATATATAGTAAT
1 ATATAAATAT-TACTAAT
*
2168522 ACTATAATATAATA-TAAT
1 A-TATAA-ATATTACTAAT
*
2168540 ATATAACTATTACTAAT
1 ATATAAATATTACTAAT
* *
2168557 ACATAAAATAATA-TAAT
1 ATAT-AAATATTACTAAT
*
2168574 ATATAATTATTACTAA
1 ATATAAATATTACTAA
2168590 AAATATAATA
Statistics
Matches: 53, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
16 10 0.19
17 23 0.43
18 14 0.26
19 3 0.06
20 3 0.06
ACGTcount: A:0.54, C:0.06, G:0.01, T:0.39
Consensus pattern (17 bp):
ATATAAATATTACTAAT
Found at i:2168573 original size:34 final size:33
Alignment explanation
Indices: 2168505--2168607 Score: 118
Period size: 34 Copynumber: 3.0 Consensus size: 33
2168495 TTCAATGGTA
* *
2168505 ATATAATATATAGTAATACTATAATATAATATAAT
1 ATATAATAT-TACTAATAC-ATAAAATAATATAAT
2168540 ATATAACTATTACTAATACATAAAATAATATAAT
1 ATATAA-TATTACTAATACATAAAATAATATAAT
* *
2168574 ATATAATTATTACTAA-AAATATAATATATATAAT
1 ATATAA-TATTACTAATACATAAAATA-ATATAAT
2168608 TATTATTACA
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
33 8 0.13
34 36 0.59
35 14 0.23
36 3 0.05
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.39
Consensus pattern (33 bp):
ATATAATATTACTAATACATAAAATAATATAAT
Found at i:2168888 original size:244 final size:251
Alignment explanation
Indices: 2168598--2169109 Score: 626
Period size: 249 Copynumber: 2.1 Consensus size: 251
2168588 AAAAATATAA
*
2168598 TATATATAATTATTATTACAATATAAATTATAACAAAAGATATAGTATTACATGATATTATAATG
1 TATATATAATTATTATTA-AATATAAATTACAACAAAAGATATAGTATTACATGATATTATAATG
* * * *
2168663 TTTAATCATTTATGCATATATATAAACT-AT-TA-AT-ATATTATATGATGTGATATAGCATTAT
65 TTTAATCATTGATGCATATATATAAACTAATATATATGATATGATATGATATGATATAGCATTAC
* * * * * *
2168724 ATAATATAGTAGGATGACTAACTTTCAAATGTATGAAAAACATAAGGACTTTGAGCA-TATTTCA
130 ATAATACAGTAGAAAGACTAACTTTCAAATGTAAGAAAAACATAAGGACTTGGAGCACAATTT-A
* *
2168788 ACTAGTACAATAATAAA-ATTAATATATAAAAATAAGTAATAGACAATGTACTACTAT
194 ACTAGTACAATAATAAACAATAATATATAAAAATAAGCAATAGACAATGTACTACTAT
* * * * *
2168845 TATATATAATTATTA-T-AATATACATTACAATAAAAGATATAGTATTGCATGGTATTTTAATGT
1 TATATATAATTATTATTAAATATAAATTACAACAAAAGATATAGTATTACATGATATTATAATGT
* *
2168908 TTAATCATTGATGCATATATATAAATTAATAATATATGATATGATATGATATGATATATCATTAC
66 TTAATCATTGATGCATATATATAAACTAAT-ATATATGATATGATATGATATGATATAGCATTAC
* * ** *
2168973 ATAATACAGTAGAAAGGCTAACTTTCAGATGTAAGAAAAGTATAAGGACTTGGTGCACAATTTAA
130 ATAATACAGTAGAAAGACTAACTTTCAAATGTAAGAAAAACATAAGGACTTGGAGCACAATTTAA
* * * * * * * *
2169038 CTAGTATAATGATAAACAATAATATATAATAATATGCAATATATATTGTGCTACTAT
195 CTAGTACAATAATAAACAATAATATATAAAAATAAGCAATAGACAATGTACTACTAT
2169095 TATATTATAGATTAT
1 TATA-TATA-ATTAT
2169110 AGTAAAAGAT
Statistics
Matches: 223, Mismatches: 33, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
244 66 0.30
245 2 0.01
246 1 0.00
247 17 0.08
248 2 0.01
249 86 0.39
250 40 0.18
251 4 0.02
252 5 0.02
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (251 bp):
TATATATAATTATTATTAAATATAAATTACAACAAAAGATATAGTATTACATGATATTATAATGT
TTAATCATTGATGCATATATATAAACTAATATATATGATATGATATGATATGATATAGCATTACA
TAATACAGTAGAAAGACTAACTTTCAAATGTAAGAAAAACATAAGGACTTGGAGCACAATTTAAC
TAGTACAATAATAAACAATAATATATAAAAATAAGCAATAGACAATGTACTACTAT
Found at i:2169162 original size:237 final size:241
Alignment explanation
Indices: 2168611--2169168 Score: 580
Period size: 249 Copynumber: 2.3 Consensus size: 241
2168601 ATATAATTAT
* * * * *
2168611 TATTACAATATAAATTATAACAAAAGATATAGTATTACATGATATTATAATGTTTAATCATTTAT
1 TATTATAATATACATTACAATAAAAGATATAGTATTACATGATATTATAATGTTTAATCATTGAT
* * * * * *
2168676 GCATATATATAAACTATTAATATATTATATGATGTGATATAGCATTATATAATATAGTAGGATGA
66 GCATATATATAAACTATTAATATATGATATGATATGATATAGCATTACATAATACAGTAGAAAGA
* * *
2168741 CTAACTTTCAAATGTATGAAAAACATAAGGACTTTGAGCATATTTCAACTAGTACAATAATAAAA
131 CTAACTTTCAAATGTAAGAAAAACATAAGGACTTGGAGCAAATTTCAACTAGTACAATAATAAAA
* * *
2168806 TTAATATATAAAAATAAGTAATAGACAATGTACTACTATTATATATAAT
196 ATAATATAT--AAATAAGTAATAGACAA-GTACTACTATTATAGATAAC
* * *
2168855 TATTATAATATACATTACAATAAAAGATATAGTATTGCATGGTATTTTAATGTTTAATCATTGAT
1 TATTATAATATACATTACAATAAAAGATATAGTATTACATGATATTATAATGTTTAATCATTGAT
* *
2168920 GCATATATATAAATTAATAATATATGATATGATATGATATGATATATCATTACATAATACAGTAG
66 GCATATATATAAACT-AT--TA-AT-ATATGATATGATATGATATAGCATTACATAATACAGTAG
* * ** * * *
2168985 AAAGGCTAACTTTCAGATGTAAGAAAAGTATAAGGACTTGGTGCACAATTT-AACTAGTATAATG
126 AAAGACTAACTTTCAAATGTAAGAAAAACATAAGGACTTGGAGCA-AATTTCAACTAGTACAATA
* *
2169049 ATAAACAATAATATAT-AATAA-T-AT-G-CAA-TA-TA-TATTGT-GCT-AC
190 ATAAA-AATAATATATAAATAAGTAATAGACAAGTACTACTATTATAGATAAC
* * * * * * * * * *
2169092 TATTATATTATAGATTATAGTAAAAGATACAATATTATATGATATTATAATATTTTATCATTGGT
1 TATTATAATATACATTACAATAAAAGATATAGTATTACATGATATTATAATGTTTAATCATTGAT
2169157 GCATATATATAA
66 GCATATATATAA
2169169 TGTAACGCCC
Statistics
Matches: 263, Mismatches: 44, Indels: 21
0.80 0.13 0.06
Matches are distributed among these distances:
237 65 0.25
238 1 0.00
239 5 0.02
240 2 0.01
241 2 0.01
243 3 0.01
244 72 0.27
245 4 0.02
246 1 0.00
247 7 0.03
248 2 0.01
249 86 0.33
250 13 0.05
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (241 bp):
TATTATAATATACATTACAATAAAAGATATAGTATTACATGATATTATAATGTTTAATCATTGAT
GCATATATATAAACTATTAATATATGATATGATATGATATAGCATTACATAATACAGTAGAAAGA
CTAACTTTCAAATGTAAGAAAAACATAAGGACTTGGAGCAAATTTCAACTAGTACAATAATAAAA
ATAATATATAAATAAGTAATAGACAAGTACTACTATTATAGATAAC
Found at i:2171856 original size:13 final size:13
Alignment explanation
Indices: 2171838--2171864 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2171828 TTGTCCTCAA
2171838 GCAAATAATGTAT
1 GCAAATAATGTAT
2171851 GCAAATAATGTAT
1 GCAAATAATGTAT
2171864 G
1 G
2171865 AATATGCATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.07, G:0.19, T:0.30
Consensus pattern (13 bp):
GCAAATAATGTAT
Found at i:2175329 original size:41 final size:41
Alignment explanation
Indices: 2175263--2175368 Score: 158
Period size: 41 Copynumber: 2.6 Consensus size: 41
2175253 AATGAGATAA
* * * *
2175263 TTCAAACTTTACGTCTAGCAAGCTTGATGTCGGTGAAATGT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATAT
*
2175304 TTCAGACTTTACGTCTTGCAGGCTTGATGCCGGTGAAATAT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATAT
*
2175345 TTTAGACTTTACGTCTAGCAGGCT
1 TTCAGACTTTACGTCTAGCAGGCT
2175369 AATTGTTGGT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.35
Consensus pattern (41 bp):
TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATAT
Found at i:2175902 original size:68 final size:70
Alignment explanation
Indices: 2175822--2175972 Score: 189
Period size: 71 Copynumber: 2.2 Consensus size: 70
2175812 CAGGTACACT
* * *
2175822 TTTGGTTATAATATTTGTTAAGC-ATATGTATATATGCATTCGGCTAAT-ATGTTTAAAGTGTAT
1 TTTGGTTATAATATTTGTCAAGCAATATGTATATATGCATTCGGCGAATCATGTTTAAAGAGTAT
2175885 ATACA
66 ATACA
* * * *
2175890 TTTGGTTCTAATATTTGTCATGCATATATGTATATATGCATTCGGCGATTCATGTTTATAGAGTA
1 TTTGGTTATAATATTTGTCAAGCA-ATATGTATATATGCATTCGGCGAATCATGTTTAAAGAGTA
*
2175955 TATGCA
65 TATACA
* *
2175961 TTCGGTTTTAAT
1 TTTGGTTATAAT
2175973 TCTTGACAAT
Statistics
Matches: 70, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
68 20 0.29
70 23 0.33
71 27 0.39
ACGTcount: A:0.28, C:0.09, G:0.17, T:0.45
Consensus pattern (70 bp):
TTTGGTTATAATATTTGTCAAGCAATATGTATATATGCATTCGGCGAATCATGTTTAAAGAGTAT
ATACA
Found at i:2182637 original size:42 final size:43
Alignment explanation
Indices: 2182578--2182669 Score: 159
Period size: 42 Copynumber: 2.2 Consensus size: 43
2182568 GAACCTGGAT
*
2182578 GTTTATACTTCTATAGGTAATTGAACTTAGCTAAAGTGTG-AG
1 GTTTATACTTATATAGGTAATTGAACTTAGCTAAAGTGTGAAG
2182620 GTTTATACTTATATAGGTAATTGAACTTAGCTAAAGTGTGAAG
1 GTTTATACTTATATAGGTAATTGAACTTAGCTAAAGTGTGAAG
*
2182663 GTATATA
1 GTTTATA
2182670 AGTATATACA
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
42 39 0.83
43 8 0.17
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.38
Consensus pattern (43 bp):
GTTTATACTTATATAGGTAATTGAACTTAGCTAAAGTGTGAAG
Found at i:2182966 original size:41 final size:41
Alignment explanation
Indices: 2182835--2182951 Score: 198
Period size: 41 Copynumber: 2.9 Consensus size: 41
2182825 ATAGATATAT
*
2182835 ATGCTGGTGAAATGTTTCAGACTTTATGTCTAGCAGGCTTG
1 ATGCCGGTGAAATGTTTCAGACTTTATGTCTAGCAGGCTTG
*
2182876 ATGCCGGTGAAATGTTTCAGACTTTACGTCTAGCAGGCTTG
1 ATGCCGGTGAAATGTTTCAGACTTTATGTCTAGCAGGCTTG
* *
2182917 ATGCCGGTGAAATATTTCACACTTTATGTCTAGCA
1 ATGCCGGTGAAATGTTTCAGACTTTATGTCTAGCA
2182952 AGCTAATTGC
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 71 1.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (41 bp):
ATGCCGGTGAAATGTTTCAGACTTTATGTCTAGCAGGCTTG
Found at i:2182991 original size:82 final size:81
Alignment explanation
Indices: 2182835--2183009 Score: 190
Period size: 82 Copynumber: 2.1 Consensus size: 81
2182825 ATAGATATAT
* * * * * **
2182835 ATGCTGGTGAAATGTTTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAAATGTTTCAGACTT
1 ATGCCGGTGAAATATTTCACACTTTATGTCTAGCAAGCTTAATGCCGGTGAAATGAATCAGACTT
* * *
2182900 TACGTCTAGCAGGCTTG
66 TAAGCCTAGCAGGC-TA
* * **
2182917 ATGCCGGTGAAATATTTCACACTTTATGTCTAGCAAGC-TAATTGCCGGTGTATTGAATCAGGTT
1 ATGCCGGTGAAATATTTCACACTTTATGTCTAGCAAGCTTAA-TGCCGGTGAAATGAATCAGACT
2182981 TTAAGCCTAGCAGGCTA
65 TTAAGCCTAGCAGGCTA
2182998 AGTGCCGGTGAA
1 A-TGCCGGTGAA
2183010 TCTGTTGAAA
Statistics
Matches: 77, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
81 4 0.05
82 73 0.95
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (81 bp):
ATGCCGGTGAAATATTTCACACTTTATGTCTAGCAAGCTTAATGCCGGTGAAATGAATCAGACTT
TAAGCCTAGCAGGCTA
Found at i:2183459 original size:70 final size:69
Alignment explanation
Indices: 2183385--2183519 Score: 157
Period size: 70 Copynumber: 1.9 Consensus size: 69
2183375 TGGATATATG
* *
2183385 TATGTGGTAAA-TACATGTACATATTTGGTTATAATATTTGTTAAGC-ATATGTATATATGCATT
1 TATGT-GTAAAGTACATATAC--ATTTGGTTATAATATTTGTCAAGCAATATGTATATATGCATT
2183448 CGGCTAA
63 CGGCTAA
* ** * *
2183455 TATGTTTAAAGTGTATATACATTTGGTTCTAATATTTGTCATGCATATATGTATATATGCATTCG
1 TATGTGTAAAGTACATATACATTTGGTTATAATATTTGTCAAGCA-ATATGTATATATGCATTCG
2183520 AGGATTCATG
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
68 21 0.38
69 4 0.07
70 30 0.55
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (69 bp):
TATGTGTAAAGTACATATACATTTGGTTATAATATTTGTCAAGCAATATGTATATATGCATTCGG
CTAA
Found at i:2196575 original size:27 final size:27
Alignment explanation
Indices: 2196545--2196722 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
2196535 ATATTGAGTC
* * * *
2196545 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
2196572 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
2196599 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
2196627 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
2196654 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
2196681 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
2196708 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
2196723 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:2196684 original size:82 final size:81
Alignment explanation
Indices: 2196566--2196721 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
2196556 TGCTATATAA
* *
2196566 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
2196631 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
2196648 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
2196712 CACTTAGTGC
65 CACTTAGTGC
2196722 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:2212037 original size:2 final size:2
Alignment explanation
Indices: 2212030--2212056 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2212020 TCGAAAATAT
2212030 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
2212057 GCAAAACCTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:2214028 original size:22 final size:22
Alignment explanation
Indices: 2214003--2214047 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
2213993 ATAATACGTA
2214003 TTAATTCATAATACAA-TTAATT
1 TTAATTCAT-ATACAATTTAATT
* *
2214025 TTAATTTATATCCAATTTAATT
1 TTAATTCATATACAATTTAATT
2214047 T
1 T
2214048 GGGTTAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (22 bp):
TTAATTCATATACAATTTAATT
Found at i:2222019 original size:20 final size:20
Alignment explanation
Indices: 2221991--2222029 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2221981 CAATTTAAAA
*
2221991 TATAAAAATTTATTAATATG
1 TATAAAAATTCATTAATATG
*
2222011 TATATAAATTCATTAATAT
1 TATAAAAATTCATTAATAT
2222030 ATGTAAAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (20 bp):
TATAAAAATTCATTAATATG
Found at i:2222166 original size:20 final size:20
Alignment explanation
Indices: 2222127--2222167 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
2222117 AAATATTTTC
*
2222127 AGTAAATCATTTTCTAGAAA
1 AGTAAATCATTTTCCAGAAA
*
2222147 AGTAAATCATTTTCCGGAAA
1 AGTAAATCATTTTCCAGAAA
2222167 A
1 A
2222168 CATTTTACTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (20 bp):
AGTAAATCATTTTCCAGAAA
Found at i:2223423 original size:46 final size:46
Alignment explanation
Indices: 2223351--2223444 Score: 152
Period size: 46 Copynumber: 2.0 Consensus size: 46
2223341 ACAATACTAT
* *
2223351 AACTCGGTATGGTTTCCTTCACTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTCCTTCACTGAAACACCATACCTACTTTTCAC
* *
2223397 AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTCCTTCACTGAAACACCATACCTACTTTTCAC
2223443 AA
1 AA
2223445 TTTGCCATGG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.29, C:0.27, G:0.10, T:0.35
Consensus pattern (46 bp):
AACTCAGTATGGTTTCCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:2226009 original size:50 final size:50
Alignment explanation
Indices: 2225885--2226126 Score: 220
Period size: 50 Copynumber: 4.7 Consensus size: 50
2225875 GATAATAACA
* * * ** *
2225885 TGCCAAAGTCATGTCCCAGACATAGTCTTACATGGGATGTTTCATGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATAT-CGG
* * * * * *
2225934 TACCAGTGCCATATCCCATATATGGTCTTACATGGGA-GTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTT-TCATATCGG
* *
2225984 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATATCGG
* * *
2226034 TGCCAACGCCATGTCCCAGACGTGGTCTTACATGGGACCTTTCATGATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTCAT-A--TC---GG
* *
2226090 TGCCAATGCCATGTCCCAAACATTGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
2226127 TCTCTTTACC
Statistics
Matches: 157, Mismatches: 26, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
48 4 0.03
49 34 0.22
50 82 0.52
51 1 0.01
53 2 0.01
56 34 0.22
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.29
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATATCGG
Found at i:2229981 original size:28 final size:28
Alignment explanation
Indices: 2229916--2230013 Score: 137
Period size: 27 Copynumber: 3.5 Consensus size: 28
2229906 CATGAGATTG
* *
2229916 GCACTAAGTGTGCG-GGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGGTT--GATTATATA
2229945 GCACTAAGTGTGCGAGGTTGATTATATA
1 GCACTAAGTGTGCGAGGTTGATTATATA
2229973 GCACTAAGTGTGCGA-GTTGATTATATA
1 GCACTAAGTGTGCGAGGTTGATTATATA
*
2230000 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
2230014 GACTAATTCG
Statistics
Matches: 65, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
27 25 0.38
28 22 0.34
29 14 0.22
30 4 0.06
ACGTcount: A:0.27, C:0.13, G:0.30, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGGTTGATTATATA
Found at i:2235864 original size:46 final size:46
Alignment explanation
Indices: 2235791--2235923 Score: 187
Period size: 46 Copynumber: 2.9 Consensus size: 46
2235781 TATAACTCAG
* * * *
2235791 TATGGTTTCCTTCACTGAAATATCATACCTACTTTTCACAACTAAA
1 TATGATTTTCTTCACTGAAACACCATACCTACTTTTCACAACTAAA
* * *
2235837 TATGGTTTT-TCTCATTGAAACACCATACCTACTTTTCACAACTCAA
1 TATGATTTTCT-TCACTGAAACACCATACCTACTTTTCACAACTAAA
2235883 TATGATTTTCTTCACTGAAACACCATACCTACTTTTCACAA
1 TATGATTTTCTTCACTGAAACACCATACCTACTTTTCACAA
2235924 TTTGCCATGA
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
45 1 0.01
46 76 0.97
47 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.37
Consensus pattern (46 bp):
TATGATTTTCTTCACTGAAACACCATACCTACTTTTCACAACTAAA
Found at i:2239001 original size:926 final size:925
Alignment explanation
Indices: 2237209--2239060 Score: 3677
Period size: 926 Copynumber: 2.0 Consensus size: 925
2237199 AAGCCACAAA
2237209 AAACACTGAATTTGATTCTTTTTCCCTATCTCTTTAATTTCTGTTGTTGTTATGCTAAGCATATC
1 AAACACTGAATTTGATTCTTTTTCCCTATCTCTTTAATTTCTGTTGTTGTTATGCTAAGCATATC
2237274 TATAAATATTTATGTTGTTGAAATGGTTAATTTAATCAATTTAGCTTGAATTTAATTCGTGTTAG
66 TATAAATATTTATGTTGTTGAAATGGTTAATTTAATCAATTTAGCTTGAATTTAATTCGTGTTAG
2237339 GTTGATTGCATTTTGTTTGTTAAAATTATTGAAATTGTGTTTATGTTGTTATAGGCCTCTGTAAG
131 GTTGATTGCATTTTGTTTGTTAAAATTATTGAAATTGTGTTTATGTTGTTATAGGCCTCTGTAAG
2237404 ATGCTTGATTAAGTAAAATCATGACTAAGTTATTCTTGCATTACAATTGTTAGGTAACTAATGAA
196 ATGCTTGATTAAGTAAAATCATGACTAAGTTATTCTTGCATTACAATTGTTAGGTAACTAATGAA
2237469 TTAATTATTTAAACGGATTGAAATTGTAATTAATGGACACAGTACTTAATCAATGCATGTTTAAT
261 TTAATTATTTAAACGGATTGAAATTGTAATTAATGGACACAGTACTTAATCAATGCATGTTTAAT
2237534 CATCTAAGGTAGCTGAGAGTTAGATTAGCAACGGTATCTGACGATACATTTGCCTTGCATAACTT
326 CATCTAAGGTAGCTGAGAGTTAGATTAGCAACGGTATCTGACGATACATTTGCCTTGCATAACTT
2237599 GCAAGATTATTGTGATTAAACTTTTTCAAGGTAAGGATACTTTGTTACCTCATATAGTCTTTTAT
391 GCAAGATTATTGTGATTAAACTTTTTCAAGGTAAGGATACTTTGTTACCTCATATAGTCTTTTAT
2237664 GTGCTTATTAAATCGAGTTATTTTTTTGAATTGACATAGGTAAATGTACAGGAGATTATTTTGAT
456 GTGCTTATTAAATCGAGTTATTTTTTTGAATTGACATAGGTAAATGTACAGGAGATTATTTTGAT
2237729 TTAATAAGTACGTATGTGCAACAATATATTTTCCTATTAAGATTTGTTTAATCGGTTGAATTAAC
521 TTAATAAGTACGTATGTGCAACAATATATTTTCCTATTAAGATTTGTTTAATCGGTTGAATTAAC
2237794 ATAAGGATATAGTCAAAAGATAAATGGATTTTGGTACGTGAGTATGTTCATAAGTTAGCAAATTA
586 ATAAGGATATAGTCAAAAGATAAATGGATTTTGGTACGTGAGTATGTTCATAAGTTAGCAAATTA
2237859 CTGAGTTGCCGTGAACTTATTTGTAACAATATAAACATGAGTTTAATAAATCCTAAGTTAAGAAA
651 CTGAGTTGCCGTGAACTTATTTGTAACAATATAAACATGAGTTTAATAAATCCTAAGTTAAGAAA
2237924 TGTAATTAATCTAACACAATTATGTTATCTTGATTAAAATCGTAGTTTGAAATCGTGCATTTGAG
716 TGTAATTAATCTAACACAATTATGTTATCTTGATTAAAATCGTAGTTTGAAATCGTGCATTTGAG
2237989 ATTTATTTATTTAGTTCACTTAGTTTAAAATCTTAGTTTTTAGTCACCCTCTTCAAATAAAATAT
781 ATTTATTTATTTAGTTCACTTAGTTTAAAATCTTAGTTTTTAGTCACCCTCTTCAAATAAAATAT
2238054 TTTTCTTTACCAAAGTGTTTTAAATAGTATTCATAAATAATTCTTTTCACAGTCCCTGTGGGTAC
846 TTTTCTTTACCAAAGTGTTTTAAATAGTATTCATAAATAATTCTTTTCACAGTCCCTGTGGGTAC
2238119 GATAACTCGACATTT
911 GATAACTCGACATTT
2238134 ANAACACTGAATTTGATTCTTTTTCCCTATCTCTTTAATTTCTGTTGTTGTTATGCTAAGCATAT
1 A-AACACTGAATTTGATTCTTTTTCCCTATCTCTTTAATTTCTGTTGTTGTTATGCTAAGCATAT
2238199 CTATAAATATTTATGTTGTTGAAATGGTTAATTTAATCAATTTAGCTTGAATTTAATTCGTGTTA
65 CTATAAATATTTATGTTGTTGAAATGGTTAATTTAATCAATTTAGCTTGAATTTAATTCGTGTTA
2238264 GGTTGATTGCATTTTGTTTGTTAAAATTATTGAAATTGTGTTTATGTTGTTATAGGCCTCTGTAA
130 GGTTGATTGCATTTTGTTTGTTAAAATTATTGAAATTGTGTTTATGTTGTTATAGGCCTCTGTAA
2238329 GATGCTTGATTAAGTAAAATCATGACTAAGTTATTCTTGCATTACAATTGTTAGGTAACTAATGA
195 GATGCTTGATTAAGTAAAATCATGACTAAGTTATTCTTGCATTACAATTGTTAGGTAACTAATGA
*
2238394 ATTAATTATTTAAACGGATTGAAATTGTAATTAATGGACACAGTACTTAATCAGTGCATGTTTAA
260 ATTAATTATTTAAACGGATTGAAATTGTAATTAATGGACACAGTACTTAATCAATGCATGTTTAA
*
2238459 TCATCTAAGGTAGCTGAGGGTTAGATTAGCAACGGTATCTGACGATACATTTGCCTTGCATAACT
325 TCATCTAAGGTAGCTGAGAGTTAGATTAGCAACGGTATCTGACGATACATTTGCCTTGCATAACT
2238524 TGCAAGATTATTGTGATTAAACTTTTTCAAGGTAAGGATACTTTGTTACCTCATATAGTCTTTTA
390 TGCAAGATTATTGTGATTAAACTTTTTCAAGGTAAGGATACTTTGTTACCTCATATAGTCTTTTA
2238589 TGTGCTTATTAAATCGAGTTATTTTTTTGAATTGACATAGGTAAATGTACAGGAGATTATTTTGA
455 TGTGCTTATTAAATCGAGTTATTTTTTTGAATTGACATAGGTAAATGTACAGGAGATTATTTTGA
2238654 TTTAATAAGTACGTATGTGCAACAATATATTTTCCTATTAAGATTTGTTTAATCGGTTGAATTAA
520 TTTAATAAGTACGTATGTGCAACAATATATTTTCCTATTAAGATTTGTTTAATCGGTTGAATTAA
2238719 CATAAGGATATAGTCAAAAGATAAATGGATTTTGGTACGTGAGTATGTTCATAAGTTAGCAAATT
585 CATAAGGATATAGTCAAAAGATAAATGGATTTTGGTACGTGAGTATGTTCATAAGTTAGCAAATT
2238784 ACTGAGTTGCCGTGAACTTATTTGTAACAATATAAACATGAGTTTAATAAATCCTAAGTTAAGAA
650 ACTGAGTTGCCGTGAACTTATTTGTAACAATATAAACATGAGTTTAATAAATCCTAAGTTAAGAA
2238849 ATGTAATTAATCTAACACAATTATGTTATCTTGATTAAAATCGTAGTTTGAAATCGTGCATTTGA
715 ATGTAATTAATCTAACACAATTATGTTATCTTGATTAAAATCGTAGTTTGAAATCGTGCATTTGA
2238914 GATTTATTTATTTAGTTCACTTAGTTTAAAATCTTAGTTTTTAGTCACCCTCTTCAAATAAAATA
780 GATTTATTTATTTAGTTCACTTAGTTTAAAATCTTAGTTTTTAGTCACCCTCTTCAAATAAAATA
2238979 TTTTTCTTTACCAAAGTGTTTTAAATAGTATTCATAAATAATTCTTTTCACAGTCCCTGTGGGTA
845 TTTTTCTTTACCAAAGTGTTTTAAATAGTATTCATAAATAATTCTTTTCACAGTCCCTGTGGGTA
2239044 CGATAACTCGACATTT
910 CGATAACTCGACATTT
2239060 A
1 A
2239061 TTTGTCACTT
Statistics
Matches: 924, Mismatches: 2, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
925 1 0.00
926 923 1.00
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (925 bp):
AAACACTGAATTTGATTCTTTTTCCCTATCTCTTTAATTTCTGTTGTTGTTATGCTAAGCATATC
TATAAATATTTATGTTGTTGAAATGGTTAATTTAATCAATTTAGCTTGAATTTAATTCGTGTTAG
GTTGATTGCATTTTGTTTGTTAAAATTATTGAAATTGTGTTTATGTTGTTATAGGCCTCTGTAAG
ATGCTTGATTAAGTAAAATCATGACTAAGTTATTCTTGCATTACAATTGTTAGGTAACTAATGAA
TTAATTATTTAAACGGATTGAAATTGTAATTAATGGACACAGTACTTAATCAATGCATGTTTAAT
CATCTAAGGTAGCTGAGAGTTAGATTAGCAACGGTATCTGACGATACATTTGCCTTGCATAACTT
GCAAGATTATTGTGATTAAACTTTTTCAAGGTAAGGATACTTTGTTACCTCATATAGTCTTTTAT
GTGCTTATTAAATCGAGTTATTTTTTTGAATTGACATAGGTAAATGTACAGGAGATTATTTTGAT
TTAATAAGTACGTATGTGCAACAATATATTTTCCTATTAAGATTTGTTTAATCGGTTGAATTAAC
ATAAGGATATAGTCAAAAGATAAATGGATTTTGGTACGTGAGTATGTTCATAAGTTAGCAAATTA
CTGAGTTGCCGTGAACTTATTTGTAACAATATAAACATGAGTTTAATAAATCCTAAGTTAAGAAA
TGTAATTAATCTAACACAATTATGTTATCTTGATTAAAATCGTAGTTTGAAATCGTGCATTTGAG
ATTTATTTATTTAGTTCACTTAGTTTAAAATCTTAGTTTTTAGTCACCCTCTTCAAATAAAATAT
TTTTCTTTACCAAAGTGTTTTAAATAGTATTCATAAATAATTCTTTTCACAGTCCCTGTGGGTAC
GATAACTCGACATTT
Found at i:2245578 original size:24 final size:24
Alignment explanation
Indices: 2245546--2245594 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
2245536 TAACATATAA
2245546 TGATAATTAAATAATGCAAATAGG
1 TGATAATTAAATAATGCAAATAGG
2245570 TGATAATTAAATAATGCAAATAGG
1 TGATAATTAAATAATGCAAATAGG
2245594 T
1 T
2245595 CTTTATGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.49, C:0.04, G:0.16, T:0.31
Consensus pattern (24 bp):
TGATAATTAAATAATGCAAATAGG
Found at i:2247466 original size:19 final size:19
Alignment explanation
Indices: 2247426--2247482 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
2247416 AAAATCAGAG
* *
2247426 TAATTTTCAAAATTTGAAAA
1 TAATTTTTAAAA-TTCAAAA
2247446 TAATTTTTAAAATTCAAAA
1 TAATTTTTAAAATTCAAAA
*
2247465 T-ATTTATAGAAATTCAAA
1 TAATTTTTA-AAATTCAAA
2247483 TATTTATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.18
19 16 0.48
20 11 0.33
ACGTcount: A:0.51, C:0.05, G:0.04, T:0.40
Consensus pattern (19 bp):
TAATTTTTAAAATTCAAAA
Found at i:2247483 original size:18 final size:19
Alignment explanation
Indices: 2247442--2247490 Score: 66
Period size: 18 Copynumber: 2.6 Consensus size: 19
2247432 TCAAAATTTG
*
2247442 AAAATAATTTTTA-AAATTC
1 AAAAT-ATTTATAGAAATTC
2247461 AAAATATTTATAGAAATTC
1 AAAATATTTATAGAAATTC
2247480 -AAATATTTATA
1 AAAATATTTATA
2247491 TATTTAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 17 0.61
19 11 0.39
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (19 bp):
AAAATATTTATAGAAATTC
Found at i:2247875 original size:21 final size:21
Alignment explanation
Indices: 2247851--2247890 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2247841 ACCTTTTCTA
2247851 AAGTTAAAAGTCAAAACTATC
1 AAGTTAAAAGTCAAAACTATC
*
2247872 AAGTTAAAAGTCAAGACTA
1 AAGTTAAAAGTCAAAACTA
2247891 CATTATTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.23
Consensus pattern (21 bp):
AAGTTAAAAGTCAAAACTATC
Found at i:2251800 original size:27 final size:27
Alignment explanation
Indices: 2251770--2251947 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
2251760 ATATTGAGTC
* * * *
2251770 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
2251797 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
2251824 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
2251852 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
2251879 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
2251906 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
2251933 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
2251948 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:2251909 original size:82 final size:81
Alignment explanation
Indices: 2251791--2251946 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
2251781 TGCTATATAA
* *
2251791 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
2251856 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
2251873 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
2251937 CACTTAGTGC
65 CACTTAGTGC
2251947 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:2262551 original size:74 final size:74
Alignment explanation
Indices: 2262455--2262604 Score: 264
Period size: 74 Copynumber: 2.0 Consensus size: 74
2262445 AAATTGTAAT
*
2262455 TTTGTAAAACTTTAGGGGCAAAAACATAATTTTTCCAAAGTATGATTTTTGGACTGGAATGAATA
1 TTTGTAAAACTTTAAGGGCAAAAACATAATTTTTCCAAAGTATGATTTTTGGACTGGAATGAATA
2262520 GTGTGAAGG
66 GTGTGAAGG
* **
2262529 TTTGTGAAACTTTAAGGGCAAAAATGTAATTTTTCCAAAGTATGATTTTTGGACTGGAATGAATA
1 TTTGTAAAACTTTAAGGGCAAAAACATAATTTTTCCAAAGTATGATTTTTGGACTGGAATGAATA
2262594 GTGTGAAGG
66 GTGTGAAGG
2262603 TT
1 TT
2262605 ATATAAGTTA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
74 72 1.00
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.35
Consensus pattern (74 bp):
TTTGTAAAACTTTAAGGGCAAAAACATAATTTTTCCAAAGTATGATTTTTGGACTGGAATGAATA
GTGTGAAGG
Found at i:2262930 original size:51 final size:49
Alignment explanation
Indices: 2262789--2262931 Score: 171
Period size: 50 Copynumber: 2.8 Consensus size: 49
2262779 ATGTAAAAGT
*
2262789 GAAAGTGATGGTCACGTGTGTAGTACTATGTGTAGGCTACTACATGTACC
1 GAAA-TGATGGTCACATGTGTAGTACTATGTGTAGGCTACTACATGTACC
* * * *
2262839 GGAATGATAGGTCGCATGTGTAGTACTATGTGTAGGCTACTACGTGTATC
1 GAAATGAT-GGTCACATGTGTAGTACTATGTGTAGGCTACTACATGTACC
* *
2262889 -AAATTGTAATGGTCATATGTGTAGTACTATGTGCAGGCTACTA
1 GAAA-TG--ATGGTCACATGTGTAGTACTATGTGTAGGCTACTA
2262932 TGTGAACCGA
Statistics
Matches: 80, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
49 6 0.08
50 42 0.52
51 30 0.38
52 2 0.03
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (49 bp):
GAAATGATGGTCACATGTGTAGTACTATGTGTAGGCTACTACATGTACC
Found at i:2267086 original size:46 final size:46
Alignment explanation
Indices: 2266992--2267120 Score: 141
Period size: 46 Copynumber: 2.8 Consensus size: 46
2266982 TATCTCTGGT
** * * ** * *
2266992 TTCTCGAGTCTATAACAAATGCAGGAGCTTAGAAAATATTTTTATA
1 TTCTCGAGTCTGCAACATATGCAGGAGCTCAGAACCTAGTCTTATA
*
2267038 TTCTCGAGTCTGCAACATATGCAGGAGCTCAGAACCTAGTCTTGTA
1 TTCTCGAGTCTGCAACATATGCAGGAGCTCAGAACCTAGTCTTATA
* ** *
2267084 TTCTCGAGTTTGCAATGTATGCACGAGCTCAGAACCT
1 TTCTCGAGTCTGCAACATATGCAGGAGCTCAGAACCT
2267121 GGGCAAACTC
Statistics
Matches: 70, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 70 1.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.31
Consensus pattern (46 bp):
TTCTCGAGTCTGCAACATATGCAGGAGCTCAGAACCTAGTCTTATA
Found at i:2272743 original size:46 final size:45
Alignment explanation
Indices: 2272691--2272788 Score: 115
Period size: 46 Copynumber: 2.2 Consensus size: 45
2272681 CAAAATTTCA
**
2272691 AAACCTAATCCTGTATTCTTGAGTCCGCAACATATGAAGGAACTC
1 AAACCTAATCCTGTATTCTCAAGTCCGCAACATATGAAGGAACTC
* * ** * *
2272736 AGAACCTATTCTTGTATTCTCAAGTGTGCAACATATGCAGGAGCTC
1 A-AACCTAATCCTGTATTCTCAAGTCCGCAACATATGAAGGAACTC
2272782 AAACCTA
1 AAACCTA
2272789 GGTAAACTTA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
45 7 0.16
46 37 0.84
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (45 bp):
AAACCTAATCCTGTATTCTCAAGTCCGCAACATATGAAGGAACTC
Found at i:2273591 original size:6 final size:6
Alignment explanation
Indices: 2273574--2273611 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
2273564 ACCCTTCTTC
*
2273574 TCCCCTT TCCCCT TCCCCT TCCCTT TCCCCT TCCCCT T
1 TCCCC-T TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT T
2273612 GGTTTGCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
6 24 0.83
7 5 0.17
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (6 bp):
TCCCCT
Found at i:2273611 original size:18 final size:18
Alignment explanation
Indices: 2273576--2273611 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
2273566 CCTTCTTCTC
2273576 CCCTTTCCCCTTCCCCTT
1 CCCTTTCCCCTTCCCCTT
2273594 CCCTTTCCCCTTCCCCTT
1 CCCTTTCCCCTTCCCCTT
2273612 GGTTTGCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (18 bp):
CCCTTTCCCCTTCCCCTT
Found at i:2274520 original size:29 final size:29
Alignment explanation
Indices: 2274487--2274543 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
2274477 ATGTACTACC
2274487 TCAGAAATGTTCTTTGAGCTATTGATGTG
1 TCAGAAATGTTCTTTGAGCTATTGATGTG
* *
2274516 TCAGAAATGTTTTTTGAGCTGTTGATGT
1 TCAGAAATGTTCTTTGAGCTATTGATGT
2274544 ATAAACATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.23, C:0.09, G:0.25, T:0.44
Consensus pattern (29 bp):
TCAGAAATGTTCTTTGAGCTATTGATGTG
Found at i:2276798 original size:59 final size:58
Alignment explanation
Indices: 2276725--2276923 Score: 195
Period size: 59 Copynumber: 3.3 Consensus size: 58
2276715 AATACTAAGA
*
2276725 ATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTAAAATTAT
1 ATTTTA-TATATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTAAAATTAT
* ** * * * * * * *
2276784 ATTTTATAGTATTATATA-TTATGATTTTAGTAAATTCATATAAGAA-TATTTAATACTAAGA
1 ATTTTATA-TATTATATATTTTTG-TTAAATTATATTTA-ATAATAATTATTTAA-AATTA-T
* *
2276845 ATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTTAAATTAT
1 ATTTTA-TATATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTAAAATTAT
2276904 ATTTTATAATATTATATATT
1 ATTTTAT-ATATTATATATT
2276924 ATAAATTTAG
Statistics
Matches: 107, Mismatches: 24, Indels: 18
0.72 0.16 0.12
Matches are distributed among these distances:
58 7 0.07
59 47 0.44
60 18 0.17
61 29 0.27
62 6 0.06
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.54
Consensus pattern (58 bp):
ATTTTATATATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTAAAATTAT
Found at i:2276849 original size:120 final size:120
Alignment explanation
Indices: 2276703--2276945 Score: 450
Period size: 120 Copynumber: 2.0 Consensus size: 120
2276693 TGATACAATC
2276703 ATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
1 ATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
* * *
2276768 AATTATTTAAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCAT
66 AATTATTTAAAATTATATTTTATAATATTATATATTATAAATTTAGTAAATTCAT
2276823 ATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
1 ATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
*
2276888 AATTATTTTAAATTATATTTTATAATATTATATATTATAAATTTAGTAAATTCAT
66 AATTATTTAAAATTATATTTTATAATATTATATATTATAAATTTAGTAAATTCAT
2276943 ATA
1 ATA
2276946 TTTTAGTAAA
Statistics
Matches: 119, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 119 1.00
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.51
Consensus pattern (120 bp):
ATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
AATTATTTAAAATTATATTTTATAATATTATATATTATAAATTTAGTAAATTCAT
Found at i:2276859 original size:61 final size:59
Alignment explanation
Indices: 2276703--2276873 Score: 159
Period size: 59 Copynumber: 2.8 Consensus size: 59
2276693 TGATACAATC
* * * *
2276703 ATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTA
1 ATAAGAATATTTAATACTAAGAATTTTATTAAATTATATA-TTATGTTAAAGTAAATTCA
* * * * * **
2276763 ATAATAATTATTTAA-AATTA-TATTTTA-TAGTATTATATATTATGATTTTAGTAAATTCA
1 ATAAGAA-TATTTAATACTAAGAATTTTATTA-AATTATATATTATG-TTAAAGTAAATTCA
*
2276822 TATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAA
1 -ATAAGAATATTTAATACTAAGAATTTTATTAAATTATATA-TTATGTTAAA
2276874 TTATATTTAA
Statistics
Matches: 84, Mismatches: 19, Indels: 15
0.71 0.16 0.13
Matches are distributed among these distances:
58 6 0.07
59 30 0.36
60 18 0.21
61 24 0.29
62 6 0.07
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (59 bp):
ATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTATGTTAAAGTAAATTCA
Found at i:2276867 original size:18 final size:17
Alignment explanation
Indices: 2276845--2276979 Score: 77
Period size: 18 Copynumber: 8.0 Consensus size: 17
2276835 AATACTAAGA
2276845 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
2276862 ATTTTTGTTAAA-T-TAT
1 A-TTTTATTAAATTATAT
* *
2276878 A-TTTAAT-AATAAT-T
1 ATTTTATTAAATTATAT
* *
2276892 ATTTTAAATTATATTTTAT
1 ATTTT--ATTAAATTATAT
* *
2276911 AATATTA-TATATTATA-
1 -ATTTTATTAAATTATAT
* *
2276927 AATTTAGTAAATTCATAT
1 ATTTTATTAAATT-ATAT
*
2276945 ATTTTAGTAAATTATAT
1 ATTTTATTAAATTATAT
2276962 ATTTTTATTAAATTATAT
1 A-TTTTATTAAATTATAT
2276980 TTAATAATAA
Statistics
Matches: 90, Mismatches: 15, Indels: 25
0.69 0.12 0.19
Matches are distributed among these distances:
13 2 0.02
14 6 0.07
15 8 0.09
16 9 0.10
17 20 0.22
18 40 0.44
19 1 0.01
20 4 0.04
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.56
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:2276898 original size:26 final size:25
Alignment explanation
Indices: 2276860--2276918 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
2276850 ATTAAATTAT
*
2276860 ATATTTTTGTTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
2276886 ATAATTATTTTAAATTATATTTTATA
1 AT-ATTATTTTAAATTATATTTAATA
2276912 ATATTAT
1 ATATTAT
2276919 ATATTATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 5 0.17
26 20 0.67
27 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (25 bp):
ATATTATTTTAAATTATATTTAATA
Found at i:2276917 original size:15 final size:15
Alignment explanation
Indices: 2276873--2276927 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 15
2276863 TTTTTGTTAA
*
2276873 ATTATATTTAATAAT
1 ATTATATTTTATAAT
*
2276888 AAT-TA-TTT-TAA-
1 ATTATATTTTATAAT
2276899 ATTATATTTTATAAT
1 ATTATATTTTATAAT
*
2276914 ATTATATATTATAA
1 ATTATATTTTATAA
2276928 ATTTAGTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
11 2 0.06
12 5 0.16
13 5 0.16
14 5 0.16
15 15 0.47
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATATTTTATAAT
Found at i:2277193 original size:21 final size:22
Alignment explanation
Indices: 2277143--2277196 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
2277133 ACCGCTGTTT
* *
2277143 CTAATCTCACTGCTACAGTATC
1 CTAATCTCACCGATACAGTATC
*
2277165 C-AAACTCACCGATACAGTA-C
1 CTAATCTCACCGATACAGTATC
2277185 CTAATCTCACCG
1 CTAATCTCACCG
2277197 CCACCACTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 2 0.07
21 24 0.89
22 1 0.04
ACGTcount: A:0.31, C:0.35, G:0.09, T:0.24
Consensus pattern (22 bp):
CTAATCTCACCGATACAGTATC
Found at i:2277610 original size:26 final size:26
Alignment explanation
Indices: 2277574--2277639 Score: 114
Period size: 26 Copynumber: 2.5 Consensus size: 26
2277564 TCCGACCCAC
*
2277574 AGCTCGTGTGAGCAGGCCCATTCTAT
1 AGCTCGTGTGAGCAGGCCCATTCCAT
2277600 AGCTCGTGTGAGCAGGCCCATTCCAT
1 AGCTCGTGTGAGCAGGCCCATTCCAT
*
2277626 AGCTCATGTGAGCA
1 AGCTCGTGTGAGCA
2277640 ATAATGTAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.21, C:0.27, G:0.27, T:0.24
Consensus pattern (26 bp):
AGCTCGTGTGAGCAGGCCCATTCCAT
Found at i:2291750 original size:5 final size:5
Alignment explanation
Indices: 2291740--2291768 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
2291730 ATATACTAAG
2291740 TAAAA TAAAA TAAAA TAAAA TAAAA TAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAA
2291769 TTTCCAATGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:2297063 original size:29 final size:30
Alignment explanation
Indices: 2297005--2297063 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
2296995 TGCCATTGAA
* * * *
2297005 AATATTTACCAAAAGAGACATCTAATTTTT
1 AATATTTACAAAAAGAGACAACCAAATTTT
2297035 AATATTTACAAAAAGA-ACAACCAAATTTT
1 AATATTTACAAAAAGAGACAACCAAATTTT
2297064 GCAAATAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 10 0.40
30 15 0.60
ACGTcount: A:0.49, C:0.14, G:0.05, T:0.32
Consensus pattern (30 bp):
AATATTTACAAAAAGAGACAACCAAATTTT
Found at i:2302016 original size:12 final size:12
Alignment explanation
Indices: 2301999--2302026 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
2301989 GCTTTTTTAA
2301999 ACTCTCTATTTC
1 ACTCTCTATTTC
2302011 ACTCTCTATTTC
1 ACTCTCTATTTC
2302023 ACTC
1 ACTC
2302027 CATTCCCTAT
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:0.18, C:0.36, G:0.00, T:0.46
Consensus pattern (12 bp):
ACTCTCTATTTC
Found at i:2303167 original size:26 final size:26
Alignment explanation
Indices: 2303131--2303200 Score: 131
Period size: 26 Copynumber: 2.7 Consensus size: 26
2303121 CACAATTCAG
2303131 TCATTTACCCTCAAGGGGTAAAATAA
1 TCATTTACCCTCAAGGGGTAAAATAA
2303157 TCATTTACCCTCAAGGGGTAAAATAA
1 TCATTTACCCTCAAGGGGTAAAATAA
*
2303183 TCATTTACCCTCCAGGGG
1 TCATTTACCCTCAAGGGG
2303201 CTTTATGGTC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (26 bp):
TCATTTACCCTCAAGGGGTAAAATAA
Found at i:2320538 original size:25 final size:25
Alignment explanation
Indices: 2320504--2320607 Score: 102
Period size: 25 Copynumber: 4.2 Consensus size: 25
2320494 TGATGTAAAC
* *
2320504 GGTAAGCTCCTCCGAGCTGAATAAT
1 GGTAAACTCATCCGAGCTGAATAAT
*
2320529 GGTAAACTCCTCCGAGCTGAATAAT
1 GGTAAACTCATCCGAGCTGAATAAT
* * * ** *
2320554 GGTAAGCTAATGCGAGCTGTGTATT
1 GGTAAACTCATCCGAGCTGAATAAT
* *
2320579 GGTAAACTCATACGAGCTGAA-ATT
1 GGTAAACTCATCCGAGCTGAATAAT
2320603 GGTAA
1 GGTAA
2320608 CCCTAATGAC
Statistics
Matches: 66, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
24 8 0.12
25 58 0.88
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (25 bp):
GGTAAACTCATCCGAGCTGAATAAT
Found at i:2322697 original size:51 final size:50
Alignment explanation
Indices: 2322639--2322816 Score: 182
Period size: 51 Copynumber: 3.5 Consensus size: 50
2322629 CCGGTTCACA
* **
2322639 TAGTAGCCTGCACATAGTACTACACATGTAACCATTTTCATCTAATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTAACCA-TATCATCTGGTACACG
* * * * * *
2322690 TAGTAGCCTGCACATAGTACTACACACGTGATCGA-AGCTAT-TCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACATGT-AACCATATC-ATCT-GGTACACG
* * *
2322741 TAGTAGCCTGAACATAGTACTACACATGTGA-CATATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTAACCATATCA-TCTGGTACACG
2322791 TAGTAGCCTGCACATAGTACTACACA
1 TAGTAGCCTGCACATAGTACTACACA
2322817 AGTGACCTAG
Statistics
Matches: 102, Mismatches: 19, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
49 2 0.02
50 36 0.35
51 61 0.60
52 3 0.03
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACATGTAACCATATCATCTGGTACACG
Found at i:2322814 original size:101 final size:102
Alignment explanation
Indices: 2322637--2322821 Score: 284
Period size: 101 Copynumber: 1.8 Consensus size: 102
2322627 ACCCGGTTCA
* * *
2322637 CATAGTAGCCTGCACATAGTACTACACATGTAACCATTTTCATCTAATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGAACATAGTACTACACATGTAACCATTATCATCCAATACACGTAGTAGCCTGCA
*
2322702 CATAGTACTACACACGTGATCGAAGCTATTCGGTACG
66 CATAGTACTACACAAGTGATCGAAGCTATTCGGTACG
* **
2322739 CATAGTAGCCTGAACATAGTACTACACATGTGA-CA-TATCATTCCGGTACACGTAGTAGCCTGC
1 CATAGTAGCCTGAACATAGTACTACACATGTAACCATTATCA-TCCAATACACGTAGTAGCCTGC
2322802 ACATAGTACTACACAAGTGA
65 ACATAGTACTACACAAGTGA
2322822 CCTAGCAACT
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
100 4 0.05
101 40 0.53
102 31 0.41
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (102 bp):
CATAGTAGCCTGAACATAGTACTACACATGTAACCATTATCATCCAATACACGTAGTAGCCTGCA
CATAGTACTACACAAGTGATCGAAGCTATTCGGTACG
Found at i:2325448 original size:42 final size:42
Alignment explanation
Indices: 2325386--2325471 Score: 111
Period size: 42 Copynumber: 2.0 Consensus size: 42
2325376 AAATTATTTT
* ** *
2325386 ATAAGTTTGGTATCAGTGAAGCTCCTTACATGAGCTTAAGTG
1 ATAAGTTTGGTATCAATGAAGCTCCCCACAAGAGCTTAAGTG
*
2325428 ATAAG-TTGTGTATCAATGAAGCTCCCCATAAGAGCTTAAGTG
1 ATAAGTTTG-GTATCAATGAAGCTCCCCACAAGAGCTTAAGTG
2325470 AT
1 AT
2325472 TGTGCTCCTT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
41 3 0.08
42 35 0.92
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.31
Consensus pattern (42 bp):
ATAAGTTTGGTATCAATGAAGCTCCCCACAAGAGCTTAAGTG
Found at i:2336057 original size:25 final size:25
Alignment explanation
Indices: 2336029--2336103 Score: 61
Period size: 25 Copynumber: 3.2 Consensus size: 25
2336019 TTAACGTCTG
2336029 ATTAAAATCCAATTCACATTCTTCC
1 ATTAAAATCCAATTCACATTCTTCC
** * * *
2336054 ATTAGGGACCCTA-T-AC--T-TTCT
1 ATTA-AAATCCAATTCACATTCTTCC
2336075 ATTAAAATCCAATTCACATTCTTCC
1 ATTAAAATCCAATTCACATTCTTCC
2336100 ATTA
1 ATTA
2336104 GGGACCCTAT
Statistics
Matches: 34, Mismatches: 10, Indels: 12
0.61 0.18 0.21
Matches are distributed among these distances:
20 4 0.12
21 8 0.24
22 3 0.09
24 3 0.09
25 12 0.35
26 4 0.12
ACGTcount: A:0.33, C:0.25, G:0.04, T:0.37
Consensus pattern (25 bp):
ATTAAAATCCAATTCACATTCTTCC
Found at i:2336096 original size:46 final size:46
Alignment explanation
Indices: 2336029--2336122 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
2336019 TTAACGTCTG
2336029 ATTAAAATCCAATTCACATTCTTCCATTAGGGACCCTATACTTTCT
1 ATTAAAATCCAATTCACATTCTTCCATTAGGGACCCTATACTTTCT
2336075 ATTAAAATCCAATTCACATTCTTCCATTAGGGACCCTATACTTTCT
1 ATTAAAATCCAATTCACATTCTTCCATTAGGGACCCTATACTTTCT
2336121 AT
1 AT
2336123 CAATAGCATA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.37
Consensus pattern (46 bp):
ATTAAAATCCAATTCACATTCTTCCATTAGGGACCCTATACTTTCT
Found at i:2345533 original size:22 final size:22
Alignment explanation
Indices: 2345505--2345548 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
2345495 TTTTGAACCA
2345505 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
2345527 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
2345549 AAATACCAAA
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:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:2355752 original size:23 final size:24
Alignment explanation
Indices: 2355721--2355765 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
2355711 GTGTTATCGG
*
2355721 AAATGAAGAAAAGAACATACACGA
1 AAATGAAGAAAAGAAAATACACGA
2355745 AAAT-AAGAAAAGAAAATACAC
1 AAATGAAGAAAAGAAAATACAC
2355766 TGATGAAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.67, C:0.11, G:0.13, T:0.09
Consensus pattern (24 bp):
AAATGAAGAAAAGAAAATACACGA
Found at i:2357199 original size:29 final size:29
Alignment explanation
Indices: 2357132--2357202 Score: 108
Period size: 29 Copynumber: 2.4 Consensus size: 29
2357122 CTGCGATCAA
* *
2357132 AAAGAGAAGAAAAAGAGAGCAGCAGCTAG
1 AAAGAGAAGGAAAAGAAAGCAGCAGCTAG
2357161 AAAGAGAAGGAAAAGAAAGCAGCAGC-AGG
1 AAAGAGAAGGAAAAGAAAGCAGCAGCTA-G
2357190 AAAGAGAAGGAAA
1 AAAGAGAAGGAAA
2357203 GAAGCAAGGG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 1 0.03
29 38 0.97
ACGTcount: A:0.58, C:0.08, G:0.32, T:0.01
Consensus pattern (29 bp):
AAAGAGAAGGAAAAGAAAGCAGCAGCTAG
Found at i:2357482 original size:7 final size:7
Alignment explanation
Indices: 2357429--2357504 Score: 57
Period size: 7 Copynumber: 10.3 Consensus size: 7
2357419 TAAAATACAA
*
2357429 ATATATA
1 ATATATT
2357436 ATATATT
1 ATATATT
2357443 ATATATT
1 ATATATT
2357450 ATAATATTT
1 AT-ATA-TT
2357459 AATATAATT
1 -ATAT-ATT
*
2357468 AAAT-TT
1 ATATATT
2357474 ATATATT
1 ATATATT
2357481 ATATA-T
1 ATATATT
2357487 ATAATATT
1 AT-ATATT
*
2357495 TTATAATT
1 ATAT-ATT
2357503 AT
1 AT
2357505 TATAGATAAT
Statistics
Matches: 56, Mismatches: 5, Indels: 15
0.74 0.07 0.20
Matches are distributed among these distances:
6 8 0.14
7 27 0.48
8 12 0.21
9 6 0.11
10 3 0.05
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (7 bp):
ATATATT
Found at i:2357513 original size:23 final size:23
Alignment explanation
Indices: 2357471--2357514 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
2357461 TATAATTAAA
*
2357471 TTTATATATTATATATATAATAT
1 TTTATATATTATATAGATAATAT
2357494 TTTATA-ATTATTATAGATAAT
1 TTTATATATTA-TATAGATAAT
2357515 CTACAAGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (23 bp):
TTTATATATTATATAGATAATAT
Found at i:2367198 original size:29 final size:29
Alignment explanation
Indices: 2367152--2367220 Score: 111
Period size: 29 Copynumber: 2.4 Consensus size: 29
2367142 AGCTTGATTG
*
2367152 AAAGATTGAAGATTCAAGGATGACGGGAT
1 AAAGATTGAATATTCAAGGATGACGGGAT
* *
2367181 AAATATTGAATATTCAAGGATGACTGGAT
1 AAAGATTGAATATTCAAGGATGACGGGAT
2367210 AAAGATTGAAT
1 AAAGATTGAAT
2367221 GATTTTTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.43, C:0.06, G:0.25, T:0.26
Consensus pattern (29 bp):
AAAGATTGAATATTCAAGGATGACGGGAT
Found at i:2367315 original size:23 final size:23
Alignment explanation
Indices: 2367295--2367342 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
2367285 TTAAATTTTG
2367295 AATTATTTAGTGATAATATTTAA
1 AATTATTTAGTGATAATATTTAA
2367318 AATTATTTAGTGATAATATTTAA
1 AATTATTTAGTGATAATATTTAA
2367341 AA
1 AA
2367343 AAATCTAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (23 bp):
AATTATTTAGTGATAATATTTAA
Found at i:2368577 original size:21 final size:22
Alignment explanation
Indices: 2368553--2368593 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
2368543 CAAATTATTT
2368553 AATAT-ATAGAAATAAAGATTG
1 AATATAATAGAAATAAAGATTG
**
2368574 AATATAATAGACCTAAAGAT
1 AATATAATAGAAATAAAGAT
2368594 AAATTTAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.56, C:0.05, G:0.12, T:0.27
Consensus pattern (22 bp):
AATATAATAGAAATAAAGATTG
Found at i:2368858 original size:21 final size:21
Alignment explanation
Indices: 2368783--2368867 Score: 74
Period size: 21 Copynumber: 4.2 Consensus size: 21
2368773 CTGTTGGATA
2368783 AATTTTTTAAA-AGTTTTTATG
1 AATTTTTTAAATA-TTTTTATG
* *
2368804 AACTTTTTTTAA-ATTTGT-TG
1 AA-TTTTTTAAATATTTTTATG
*
2368824 -A-TTTTTAAATATTTTTATT
1 AATTTTTTAAATATTTTTATG
2368843 AATTTTTCTAAA-ATTTTTATG
1 AATTTTT-TAAATATTTTTATG
2368864 AATT
1 AATT
2368868 ACATGTGGAC
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
17 7 0.13
18 5 0.10
19 2 0.04
20 3 0.06
21 22 0.42
22 13 0.25
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (21 bp):
AATTTTTTAAATATTTTTATG
Found at i:2369905 original size:31 final size:31
Alignment explanation
Indices: 2369856--2369927 Score: 126
Period size: 31 Copynumber: 2.3 Consensus size: 31
2369846 ATTAATCATA
2369856 TTATTATTTATTTATGATTAATTATATAAAAT
1 TTATTA-TTATTTATGATTAATTATATAAAAT
*
2369888 TTATTATTATTTGTGATTAATTATATAAAAT
1 TTATTATTATTTATGATTAATTATATAAAAT
2369919 TTATTATTA
1 TTATTATTA
2369928 ATTGGTTAAG
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
31 33 0.85
32 6 0.15
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (31 bp):
TTATTATTATTTATGATTAATTATATAAAAT
Found at i:2374155 original size:40 final size:41
Alignment explanation
Indices: 2374135--2374250 Score: 153
Period size: 41 Copynumber: 2.8 Consensus size: 41
2374125 CTAGACTTTC
*
2374135 GTCCGAATTATTTCACCGGCACAAAGCCTGCTAGACATAAA
1 GTCCGAATTATTTCACCGGCACAAAGCCTACTAGACATAAA
* *
2374176 GTCCGAATTATTTCACCGACACAAAGCCTGCTAGACATAAA
1 GTCCGAATTATTTCACCGGCACAAAGCCTACTAGACATAAA
* * * *
2374217 GTCCGAATAACTTCACTGGC-CTTAAGCCTACTAG
1 GTCCGAATTATTTCACCGGCAC-AAAGCCTACTAG
2374251 GTTTTAAACC
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
40 1 0.01
41 66 0.99
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (41 bp):
GTCCGAATTATTTCACCGGCACAAAGCCTACTAGACATAAA
Found at i:2374232 original size:41 final size:41
Alignment explanation
Indices: 2374135--2374224 Score: 171
Period size: 41 Copynumber: 2.2 Consensus size: 41
2374125 CTAGACTTTC
*
2374135 GTCCGAATTATTTCACCGGCACAAAGCCTGCTAGACATAAA
1 GTCCGAATTATTTCACCGACACAAAGCCTGCTAGACATAAA
2374176 GTCCGAATTATTTCACCGACACAAAGCCTGCTAGACATAAA
1 GTCCGAATTATTTCACCGACACAAAGCCTGCTAGACATAAA
2374217 GTCCGAAT
1 GTCCGAAT
2374225 AACTTCACTG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (41 bp):
GTCCGAATTATTTCACCGACACAAAGCCTGCTAGACATAAA
Found at i:2379006 original size:85 final size:86
Alignment explanation
Indices: 2378847--2379059 Score: 277
Period size: 85 Copynumber: 2.5 Consensus size: 86
2378837 GTGAAAAAAA
* * * *
2378847 GCCGCTATAGAACATGACCTTTAGTGACACTTTTATAAAAAATGCCGCTAAAGAACATAACCTTT
1 GCCGCTAAAGAACATGACCTTTAGCGACACTTTTATCACAAATGCCGCTAAAGAACATAACCTTT
* *
2378912 AGCGGCGC-TTTACCCACAAAC
66 AACGCCGCTTTTA-CCACAAAC
* * *
2378933 GCCGCTAAAGAACATGACCTTTAGCGACAC-TTTATCACAAATGCCGTTAAGGAACATGACCTTT
1 GCCGCTAAAGAACATGACCTTTAGCGACACTTTTATCACAAATGCCGCTAAAGAACATAACCTTT
*
2378997 AACGCCGCTTTTATCACAAAC
66 AACGCCGCTTTTACCACAAAC
* * * *
2379018 ACCGCTAAAGAGCATGACCTTTAGCGGCGCTTTTATCACAAA
1 GCCGCTAAAGAACATGACCTTTAGCGACACTTTTATCACAAA
2379060 CGCCATTATA
Statistics
Matches: 111, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
85 68 0.61
86 43 0.39
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.24
Consensus pattern (86 bp):
GCCGCTAAAGAACATGACCTTTAGCGACACTTTTATCACAAATGCCGCTAAAGAACATAACCTTT
AACGCCGCTTTTACCACAAAC
Found at i:2379049 original size:43 final size:43
Alignment explanation
Indices: 2378847--2379063 Score: 249
Period size: 43 Copynumber: 5.1 Consensus size: 43
2378837 GTGAAAAAAA
* * * * * *
2378847 GCCGCTATAGAACATGACCTTTAGTGACACTTTTATAAAAAAT
1 GCCGCTAAAGAACATGACCTTTAGCGACGCTTTTATCACAAAC
* * *
2378890 GCCGCTAAAGAACATAACCTTTAGCGGCGC-TTTACCCACAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGACGCTTTTA-TCACAAAC
* *
2378933 GCCGCTAAAGAACATGACCTTTAGCGACAC-TTTATCACAAAT
1 GCCGCTAAAGAACATGACCTTTAGCGACGCTTTTATCACAAAC
* * * *
2378975 GCCGTTAAGGAACATGACCTTTAACGCCGCTTTTATCACAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGACGCTTTTATCACAAAC
* * *
2379018 ACCGCTAAAGAGCATGACCTTTAGCGGCGCTTTTATCACAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGACGCTTTTATCACAAAC
2379061 GCC
1 GCC
2379064 ATTATAGAAA
Statistics
Matches: 145, Mismatches: 27, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
42 35 0.24
43 110 0.76
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (43 bp):
GCCGCTAAAGAACATGACCTTTAGCGACGCTTTTATCACAAAC
Found at i:2379102 original size:86 final size:85
Alignment explanation
Indices: 2378847--2379112 Score: 230
Period size: 86 Copynumber: 3.1 Consensus size: 85
2378837 GTGAAAAAAA
* * * * * ** * *
2378847 GCCGCTATAGAACATGACCTTTAGTGACACTTTTATAAAAAATGCCGCTAAAGAACATAACCTTT
1 GCCGCTAAAGAACATGACCTTTAGCGACAC-TTTATCACAAACGCCATTAAGGAAAATAACCTTT
* ** *
2378912 AGCGGCGC-TTTACCCACAAAC
65 AACAACGCTTTTA-TCACAAAC
* * * *
2378933 GCCGCTAAAGAACATGACCTTTAGCGACACTTTATCACAAATGCCGTTAAGGAACATGACCTTTA
1 GCCGCTAAAGAACATGACCTTTAGCGACACTTTATCACAAACGCCATTAAGGAAAATAACCTTTA
**
2378998 ACGCCGCTTTTATCACAAAC
66 ACAACGCTTTTATCACAAAC
* * * * *
2379018 ACCGCTAAAGAGCATGACCTTTAGCGGCGCTTTTATCACAAACGCCATTATA-GAAAATAACTTT
1 GCCGCTAAAGAACATGACCTTTAGCGACAC-TTTATCACAAACGCCATTA-AGGAAAATAACCTT
** *
2379082 TAACAACTTTTTTTTCACAAAC
64 TAACAACGCTTTTATCACAAAC
*
2379104 GCTGCTAAA
1 GCCGCTAAA
2379113 AGTACCGTTC
Statistics
Matches: 151, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
85 68 0.45
86 82 0.54
87 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.26
Consensus pattern (85 bp):
GCCGCTAAAGAACATGACCTTTAGCGACACTTTATCACAAACGCCATTAAGGAAAATAACCTTTA
ACAACGCTTTTATCACAAAC
Found at i:2381491 original size:241 final size:241
Alignment explanation
Indices: 2381068--2381549 Score: 964
Period size: 241 Copynumber: 2.0 Consensus size: 241
2381058 TAATCGACCA
2381068 TTTCTCTATGCTTATCTCTTCTACTATATAACCATAAACTGCAAGCCAACTAAATGCATCAACAA
1 TTTCTCTATGCTTATCTCTTCTACTATATAACCATAAACTGCAAGCCAACTAAATGCATCAACAA
2381133 GTATAATGTCGCAGCTCCTGCACATTAATAGACAAATAGAAAATTAGTGAAGGCCCTAACATCAT
66 GTATAATGTCGCAGCTCCTGCACATTAATAGACAAATAGAAAATTAGTGAAGGCCCTAACATCAT
2381198 AGATTACAGCAAAAAGACCAGATAATCAACAATGGTTAAGAATATTTATAAAATACAATTTACAG
131 AGATTACAGCAAAAAGACCAGATAATCAACAATGGTTAAGAATATTTATAAAATACAATTTACAG
2381263 GGTATTTTCGATTTCGTTAACTCCTCTAAAAAAGACGAGACATGAT
196 GGTATTTTCGATTTCGTTAACTCCTCTAAAAAAGACGAGACATGAT
2381309 TTTCTCTATGCTTATCTCTTCTACTATATAACCATAAACTGCAAGCCAACTAAATGCATCAACAA
1 TTTCTCTATGCTTATCTCTTCTACTATATAACCATAAACTGCAAGCCAACTAAATGCATCAACAA
2381374 GTATAATGTCGCAGCTCCTGCACATTAATAGACAAATAGAAAATTAGTGAAGGCCCTAACATCAT
66 GTATAATGTCGCAGCTCCTGCACATTAATAGACAAATAGAAAATTAGTGAAGGCCCTAACATCAT
2381439 AGATTACAGCAAAAAGACCAGATAATCAACAATGGTTAAGAATATTTATAAAATACAATTTACAG
131 AGATTACAGCAAAAAGACCAGATAATCAACAATGGTTAAGAATATTTATAAAATACAATTTACAG
2381504 GGTATTTTCGATTTCGTTAACTCCTCTAAAAAAGACGAGACATGAT
196 GGTATTTTCGATTTCGTTAACTCCTCTAAAAAAGACGAGACATGAT
2381550 GCAGGAAAAA
Statistics
Matches: 241, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
241 241 1.00
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (241 bp):
TTTCTCTATGCTTATCTCTTCTACTATATAACCATAAACTGCAAGCCAACTAAATGCATCAACAA
GTATAATGTCGCAGCTCCTGCACATTAATAGACAAATAGAAAATTAGTGAAGGCCCTAACATCAT
AGATTACAGCAAAAAGACCAGATAATCAACAATGGTTAAGAATATTTATAAAATACAATTTACAG
GGTATTTTCGATTTCGTTAACTCCTCTAAAAAAGACGAGACATGAT
Found at i:2383522 original size:16 final size:17
Alignment explanation
Indices: 2383497--2383529 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2383487 ATGTTTTTAC
2383497 TTTCA-ATTTTTCTATG
1 TTTCATATTTTTCTATG
*
2383513 TTTCATTTTTTTCTATG
1 TTTCATATTTTTCTATG
2383530 GTACCATCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.15, C:0.12, G:0.06, T:0.67
Consensus pattern (17 bp):
TTTCATATTTTTCTATG
Found at i:2383561 original size:7 final size:7
Alignment explanation
Indices: 2383538--2383715 Score: 90
Period size: 7 Copynumber: 25.3 Consensus size: 7
2383528 TGGTACCATC
2383538 AACCCTA
1 AACCCTA
*
2383545 AGCCCTTA
1 AACCC-TA
2383553 AACCCTA
1 AACCCTA
**
2383560 AACTATA
1 AACCCTA
**
2383567 AACTTTA
1 AACCCTA
2383574 AACCCTA
1 AACCCTA
*
2383581 AATCCTA
1 AACCCTA
* *
2383588 AGCAC-A
1 AACCCTA
2383594 TAACCCATA
1 -AACCC-TA
**
2383603 AACTATA
1 AACCCTA
**
2383610 AACTATA
1 AACCCTA
*
2383617 AACACTA
1 AACCCTA
*
2383624 AACCATA
1 AACCCTA
2383631 AA-CCTA
1 AACCCTA
*
2383637 TACCCTA
1 AACCCTA
*
2383644 AACCGTA
1 AACCCTA
**
2383651 AATACTA
1 AACCCTA
* *
2383658 AACTCTT
1 AACCCTA
*
2383665 AACACTA
1 AACCCTA
* *
2383672 AATCATA
1 AACCCTA
*
2383679 AACTCTA
1 AACCCTA
2383686 AACCCTA
1 AACCCTA
2383693 AACCCTA
1 AACCCTA
2383700 AACCCTA
1 AACCCTA
*
2383707 AATCCTA
1 AACCCTA
2383714 AA
1 AA
2383716 ATTATAATCC
Statistics
Matches: 127, Mismatches: 39, Indels: 10
0.72 0.22 0.06
Matches are distributed among these distances:
6 5 0.04
7 112 0.88
8 9 0.07
9 1 0.01
ACGTcount: A:0.47, C:0.30, G:0.02, T:0.22
Consensus pattern (7 bp):
AACCCTA
Found at i:2383932 original size:21 final size:21
Alignment explanation
Indices: 2383908--2383954 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
2383898 TATAAAATAA
*
2383908 TAAACCCCAAACCCTAAACTC
1 TAAACCACAAACCCTAAACTC
*
2383929 TAAACCATAAACCCTAAACTC
1 TAAACCACAAACCCTAAACTC
*
2383950 AAAAC
1 TAAAC
2383955 TCTAATCCCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.49, C:0.36, G:0.00, T:0.15
Consensus pattern (21 bp):
TAAACCACAAACCCTAAACTC
Found at i:2383933 original size:14 final size:14
Alignment explanation
Indices: 2383916--2383959 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
2383906 AATAAACCCC
2383916 AAACCCTAAACTCT
1 AAACCCTAAACTCT
* *
2383930 AAACCATAAACCCT
1 AAACCCTAAACTCT
* *
2383944 AAACTCAAAACTCT
1 AAACCCTAAACTCT
2383958 AA
1 AA
2383960 TCCCAAATAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.50, C:0.32, G:0.00, T:0.18
Consensus pattern (14 bp):
AAACCCTAAACTCT
Found at i:2384097 original size:41 final size:39
Alignment explanation
Indices: 2384048--2384156 Score: 112
Period size: 40 Copynumber: 2.7 Consensus size: 39
2384038 ACTTTTTTGT
*
2384048 GGCATTTTCCGAAAAGCGCTGCTAATGCTCGATCTATAGC
1 GGCATTTTTC-AAAAGCGCTGCTAATGCTCGATCTATAGC
** *
2384088 GGTGTTTTTCAAATAGCG-TCGCTAATGCTCGATCTATTGC
1 GGCATTTTTCAAA-AGCGCT-GCTAATGCTCGATCTATAGC
* *
2384128 GGCATTTTTTTAAAAAGCGCCGCTAATGC
1 GGCA--TTTTTCAAAAGCGCTGCTAATGC
2384157 CACTTAATCA
Statistics
Matches: 56, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
39 4 0.07
40 32 0.57
41 12 0.21
42 8 0.14
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (39 bp):
GGCATTTTTCAAAAGCGCTGCTAATGCTCGATCTATAGC
Found at i:2384117 original size:40 final size:40
Alignment explanation
Indices: 2384059--2384156 Score: 126
Period size: 40 Copynumber: 2.4 Consensus size: 40
2384049 GCATTTTCCG
*
2384059 AAAAGCGCTGCTAATGCTCGATCTATAGCGG-TGTTTTTCA
1 AAAAGCGCCGCTAATGCTCGATCTATAGCGGAT-TTTTTCA
* * * *
2384099 AATAGCGTCGCTAATGCTCGATCTATTGCGGCATTTTTTTA
1 AAAAGCGCCGCTAATGCTCGATCTATAGCGG-ATTTTTTCA
2384140 AAAAGCGCCGCTAATGC
1 AAAAGCGCCGCTAATGC
2384157 CACTTAATCA
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
40 27 0.55
41 21 0.43
42 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (40 bp):
AAAAGCGCCGCTAATGCTCGATCTATAGCGGATTTTTTCA
Found at i:2384269 original size:40 final size:41
Alignment explanation
Indices: 2384225--2384301 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
2384215 AATGCTATAT
*
2384225 CTATAGC-GACATTT-TTCGAGAAGCGCTGCTAATGCTCGGC
1 CTATAGCGGA-ATTTGTTCGAGAAACGCTGCTAATGCTCGGC
**
2384265 CTATAGCGGAATTTGTTTTAGAAACGCTGCTAATGCT
1 CTATAGCGGAATTTGTTCGAGAAACGCTGCTAATGCT
2384302 TGACCTTTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
40 11 0.34
41 21 0.66
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (41 bp):
CTATAGCGGAATTTGTTCGAGAAACGCTGCTAATGCTCGGC
Found at i:2386757 original size:13 final size:13
Alignment explanation
Indices: 2386725--2386760 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
2386715 TCAAGTATCA
* *
2386725 ATTTCAAATGACC
1 ATTTCATATAACC
2386738 ATTTCATATAACC
1 ATTTCATATAACC
2386751 ATTTCATATA
1 ATTTCATATA
2386761 TATATTATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.39, C:0.19, G:0.03, T:0.39
Consensus pattern (13 bp):
ATTTCATATAACC
Found at i:2387287 original size:17 final size:17
Alignment explanation
Indices: 2387265--2387303 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
2387255 CGATGATTAC
2387265 TCTGCTAACTTTCCTTT
1 TCTGCTAACTTTCCTTT
*
2387282 TCTGCTAATTTTCCTTT
1 TCTGCTAACTTTCCTTT
2387299 TCTGC
1 TCTGC
2387304 GATTATTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.10, C:0.28, G:0.08, T:0.54
Consensus pattern (17 bp):
TCTGCTAACTTTCCTTT
Found at i:2401142 original size:27 final size:28
Alignment explanation
Indices: 2401112--2401167 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 28
2401102 AAGCTATCCC
*
2401112 TTCATAATT-AGCCACAAAGGTG-TTCTT
1 TTCAT-ATTGAGCCACAAAGGCGTTTCTT
*
2401139 TTCATATTGCGCCACAAAGGCGTTTCTT
1 TTCATATTGAGCCACAAAGGCGTTTCTT
2401167 T
1 T
2401168 CTTGACGTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 3 0.12
27 16 0.64
28 6 0.24
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (28 bp):
TTCATATTGAGCCACAAAGGCGTTTCTT
Found at i:2407917 original size:58 final size:57
Alignment explanation
Indices: 2407802--2408159 Score: 349
Period size: 58 Copynumber: 6.4 Consensus size: 57
2407792 GTACGTAGCA
* * * * *
2407802 TAAGACCATAGATGAAAGATCCCATGATGGATGGTACAAGGTATAAGGTATTCGGTG
1 TAAGACCATGGATGAAAGATGCCATGACGCATGGTACAAGGTATAAGGTATTTGGTG
*
2407859 TAAGACCATGGATGAAAGATGCCATGGCGACATGGTACAAGGTATAAGGTATTTGGTG
1 TAAGACCATGGATGAAAGATGCCATGACG-CATGGTACAAGGTATAAGGTATTTGGTG
* *
2407917 TAAGACCATGGATGAAAGATGCCATGGCTGCATGGTACAAGGTATAAGGTATGTGGTG
1 TAAGACCATGGATGAAAGATGCCATGAC-GCATGGTACAAGGTATAAGGTATTTGGTG
* * * * *
2407975 TAAAACCATGGATGAAAGATGTCATGACGACATGGTACAAGGTATAAGGTATATAGCG
1 TAAGACCATGGATGAAAGATGCCATGACG-CATGGTACAAGGTATAAGGTATTTGGTG
* * ** * * ** *
2408033 TAAGACTATAGATGAAAGATGTTATGA--CA--GT-C-TGGTATGAGGTACAT-ATCG
1 TAAGACCATGGATGAAAGATGCCATGACGCATGGTACAAGGTATAAGGTATTTGGT-G
* ** * *
2408084 TAAGACTATGGATGAAAGATGCCACAACGGTATGGTACAAGGTAT---GTATTCGGTG
1 TAAGACCATGGATGAAAGATGCCATGAC-GCATGGTACAAGGTATAAGGTATTTGGTG
*
2408139 TAAGACCATAGATGAAAGATG
1 TAAGACCATGGATGAAAGATG
2408160 TTATGACATC
Statistics
Matches: 254, Mismatches: 35, Indels: 26
0.81 0.11 0.08
Matches are distributed among these distances:
51 35 0.14
52 1 0.00
53 2 0.01
54 1 0.00
55 25 0.10
56 3 0.01
57 27 0.11
58 159 0.63
59 1 0.00
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.25
Consensus pattern (57 bp):
TAAGACCATGGATGAAAGATGCCATGACGCATGGTACAAGGTATAAGGTATTTGGTG
Found at i:2408120 original size:51 final size:51
Alignment explanation
Indices: 2408015--2408127 Score: 127
Period size: 51 Copynumber: 2.2 Consensus size: 51
2408005 CATGGTACAA
* ** ** *
2408015 GGTATAAGGTATATAGCGTAAGACTATAGATGAAAGATGTTATGACAGTCT
1 GGTATAAGGTACATAGCGTAAGACTATAGATGAAAGATGCCACAACAGTAT
* * * *
2408066 GGTATGAGGTACATATCGTAAGACTATGGATGAAAGATGCCACAACGGTAT
1 GGTATAAGGTACATAGCGTAAGACTATAGATGAAAGATGCCACAACAGTAT
*
2408117 GGTACAAGGTA
1 GGTATAAGGTA
2408128 TGTATTCGGT
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.36, C:0.11, G:0.27, T:0.26
Consensus pattern (51 bp):
GGTATAAGGTACATAGCGTAAGACTATAGATGAAAGATGCCACAACAGTAT
Found at i:2408321 original size:31 final size:31
Alignment explanation
Indices: 2408286--2408346 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
2408276 CTACAAAGAT
* * *
2408286 AGTCCGCTAGGACAGTAAACACAGAATAGAC
1 AGTCCACTAAGACAGTAAACACAAAATAGAC
*
2408317 AGTCCACTAAGATAGTAAACACAAAATAGA
1 AGTCCACTAAGACAGTAAACACAAAATAGA
2408347 GATAGCCCAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.48, C:0.20, G:0.18, T:0.15
Consensus pattern (31 bp):
AGTCCACTAAGACAGTAAACACAAAATAGAC
Found at i:2410332 original size:20 final size:20
Alignment explanation
Indices: 2410307--2410345 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
2410297 GCCTATGATC
2410307 AATTAAATCAA-TAATTATCT
1 AATTAAAT-AATTAATTATCT
2410327 AATTAAATAATTAATTATC
1 AATTAAATAATTAATTATC
2410346 CTCGGCTGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
AATTAAATAATTAATTATCT
Found at i:2417466 original size:32 final size:31
Alignment explanation
Indices: 2417413--2417645 Score: 168
Period size: 32 Copynumber: 7.3 Consensus size: 31
2417403 TGGAACAAAG
* *
2417413 CCATCAGTAGCAGTGATATGATCGGCACACAA
1 CCATCAGTAACAGT-AAATGATCGGCACACAA
*
2417445 CCATCAGTAACGGTAACATGATCGGCACA-AA
1 CCATCAGTAACAGTAA-ATGATCGGCACACAA
** * *
2417476 GCCATCAGTGGCAGTGATATGATCGGCACACAG
1 -CCATCAGTAACAGT-AAATGATCGGCACACAA
* *
2417509 CCATCAATAACAGTGAAATGATCGGCACACAG
1 CCATCAGTAACAGT-AAATGATCGGCACACAA
* * * *
2417541 CCGTCGGTAACGGTAATATGATCGGTACA-AA
1 CCATCAGTAACAGTAA-ATGATCGGCACACAA
* * *
2417572 GCCATTAGTAACAGTGAAATGATCGACACACAT
1 -CCATCAGTAACAGT-AAATGATCGGCACACAA
* * *
2417605 CCATCGGTAAC-GATACTATGATCGACACA-AA
1 CCATCAGTAACAG-TA-AATGATCGGCACACAA
2417636 GCCATCAGTA
1 -CCATCAGTA
2417646 GCATCGCAGC
Statistics
Matches: 160, Mismatches: 30, Indels: 22
0.75 0.14 0.10
Matches are distributed among these distances:
31 9 0.06
32 146 0.91
33 5 0.03
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.19
Consensus pattern (31 bp):
CCATCAGTAACAGTAAATGATCGGCACACAA
Found at i:2417513 original size:64 final size:64
Alignment explanation
Indices: 2417407--2417645 Score: 250
Period size: 64 Copynumber: 3.7 Consensus size: 64
2417397 TGTGATTGGA
* *
2417407 ACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAACCATCAGTAACGGT-AACATGATCGGC
1 ACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGTAACAGTGAA-ATGATCGGC
* *
2417471 ACAAAGCCATCAGTGGCAGTGATATGATCGGCACACAGCCATCAATAACAGTGAAATGATCGGC
1 ACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGTAACAGTGAAATGATCGGC
* * * * * * * * * *
2417535 ACACAGCCGTCGGTAACGGTAATATGATCGGTACAAAGCCATTAGTAACAGTGAAATGATCGAC
1 ACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGTAACAGTGAAATGATCGGC
* * * * * *
2417599 ACACATCCATCGGTAAC-GAT-ACTATGATCGACACAAAGCCATCAGTA
1 ACAAAGCCATCAGTAGCAG-TGA-TATGATCGGCACACAGCCATCAGTA
2417646 GCATCGCAGC
Statistics
Matches: 151, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
63 2 0.01
64 147 0.97
65 2 0.01
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.18
Consensus pattern (64 bp):
ACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGTAACAGTGAAATGATCGGC
Found at i:2417626 original size:96 final size:96
Alignment explanation
Indices: 2417411--2417645 Score: 276
Period size: 96 Copynumber: 2.4 Consensus size: 96
2417401 ATTGGAACAA
* * *
2417411 AGCCATCAGTAGCAGTGATATGATCGGCACACAACCATCAGTAACGGTAACATGATCGGCACAAA
1 AGCCATCAATAACAGTGATATGATCGGCACACAGCCATCAGTAACGGTAACATGATCGGCACAAA
** * *
2417476 GCCATCAGTGGCAGTGATATGATCGGCACAC
66 GCCATCAGTAACAGTGAAATGATCGACACAC
* * * * *
2417507 AGCCATCAATAACAGTGAAATGATCGGCACACAGCCGTCGGTAACGGTAATATGATCGGTACAAA
1 AGCCATCAATAACAGTGATATGATCGGCACACAGCCATCAGTAACGGTAACATGATCGGCACAAA
*
2417572 GCCATTAGTAACAGTGAAATGATCGACACAC
66 GCCATCAGTAACAGTGAAATGATCGACACAC
* ** * *
2417603 ATCCATCGGTAAC-GAT-ACTATGATCGACACAAAGCCATCAGTA
1 AGCCATCAATAACAG-TGA-TATGATCGGCACACAGCCATCAGTA
2417646 GCATCGCAGC
Statistics
Matches: 116, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
95 2 0.02
96 114 0.98
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.19
Consensus pattern (96 bp):
AGCCATCAATAACAGTGATATGATCGGCACACAGCCATCAGTAACGGTAACATGATCGGCACAAA
GCCATCAGTAACAGTGAAATGATCGACACAC
Found at i:2417843 original size:24 final size:23
Alignment explanation
Indices: 2417815--2417887 Score: 83
Period size: 24 Copynumber: 3.1 Consensus size: 23
2417805 CCATGCTCAG
*
2417815 AATCAGTCATTCAAATCATAGACA
1 AATCAGTCATTCAAA-CACAGACA
*
2417839 AATCAGTCATACCAAACACAGACA
1 AATCAGTCAT-TCAAACACAGACA
* * *
2417863 AATCAATCATTTAACCACAGACA
1 AATCAGTCATTCAAACACAGACA
2417886 AA
1 AA
2417888 ATAATCATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
23 12 0.29
24 26 0.62
25 4 0.10
ACGTcount: A:0.49, C:0.25, G:0.07, T:0.19
Consensus pattern (23 bp):
AATCAGTCATTCAAACACAGACA
Found at i:2417972 original size:27 final size:27
Alignment explanation
Indices: 2417937--2418088 Score: 259
Period size: 27 Copynumber: 5.6 Consensus size: 27
2417927 CCACCAAGGC
*
2417937 ATTATGGTCATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
*
2417964 ATTACGGTCATTTTACCCTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
*
2417991 ATTACGGTCATTTTACCTTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
*
2418018 ATTACGGTCATTTTACCCTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
*
2418045 ATTACGGTCATTTTACCTTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
2418072 ATTACGGTCATTTTACC
1 ATTACGGTCATTTTACC
2418089 ATCATATGGA
Statistics
Matches: 117, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 117 1.00
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTACAGGGGT
Found at i:2418001 original size:54 final size:54
Alignment explanation
Indices: 2417934--2418088 Score: 292
Period size: 54 Copynumber: 2.9 Consensus size: 54
2417924 TACCCACCAA
* *
2417934 GGCATTATGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTACAGG
1 GGCATTACGGTCATTTTACCTTACAGGGGTATTACGGTCATTTTACCCTACAGG
2417988 GGCATTACGGTCATTTTACCTTACAGGGGTATTACGGTCATTTTACCCTACAGG
1 GGCATTACGGTCATTTTACCTTACAGGGGTATTACGGTCATTTTACCCTACAGG
2418042 GGCATTACGGTCATTTTACCTTACAGGGGTATTACGGTCATTTTACC
1 GGCATTACGGTCATTTTACCTTACAGGGGTATTACGGTCATTTTACC
2418089 ATCATATGGA
Statistics
Matches: 99, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 99 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (54 bp):
GGCATTACGGTCATTTTACCTTACAGGGGTATTACGGTCATTTTACCCTACAGG
Found at i:2418280 original size:25 final size:26
Alignment explanation
Indices: 2418208--2418502 Score: 237
Period size: 27 Copynumber: 11.1 Consensus size: 26
2418198 TTGGGCCTAT
* *
2418208 GGTCATTTTACCCTACAGGGGTATTAC
1 GGTCATTTTACCCTA-TGGGGTATTTC
* *
2418235 GGTCATTTTGCCCTATAGGGTATTTC
1 GGTCATTTTACCCTATGGGGTATTTC
*
2418261 GGT-ATTCTACCCTATGGGGTATTTC
1 GGTCATTTTACCCTATGGGGTATTTC
* * *
2418286 GGT-ATTCTACCTTACAGGGGTATTTC
1 GGTCATTTTACCCTA-TGGGGTATTTC
* *
2418312 AGTCATTTTACCCTATGGGGACATTTC
1 GGTCATTTTACCCTATGGGG-TATTTC
*
2418339 AGTCATTTTACCC-ATCGAGGGTATTTC
1 GGTCATTTTACCCTAT-G-GGGTATTTC
* *
2418366 GGTCATTTTACCC-ATCGAGAGTATTTT
1 GGTCATTTTACCCTAT-G-GGGTATTTC
2418393 GGTCATTTTACCCT-TCGAGGGTATTTC
1 GGTCATTTTACCCTAT-G-GGGTATTTC
*
2418420 AGTCATTTTACCC-ATCGAGGGTATTTC
1 GGTCATTTTACCCTAT-G-GGGTATTTC
** *
2418447 ATTCATTTTA-CCAATCGAGGGTATTTC
1 GGTCATTTTACCCTAT-G-GGGTATTTC
*
2418474 TGTCATTTTACCC-ATTAGGGGTATTTC
1 GGTCATTTTACCCTA-T-GGGGTATTTC
2418501 GG
1 GG
2418503 GGATATCAAC
Statistics
Matches: 232, Mismatches: 26, Indels: 20
0.83 0.09 0.07
Matches are distributed among these distances:
25 32 0.14
26 31 0.13
27 162 0.70
28 7 0.03
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (26 bp):
GGTCATTTTACCCTATGGGGTATTTC
Found at i:2418371 original size:54 final size:53
Alignment explanation
Indices: 2418208--2418502 Score: 275
Period size: 54 Copynumber: 5.5 Consensus size: 53
2418198 TTGGGCCTAT
* * *
2418208 GGTCATTTTACCCTACAGGGGTATTACGGTCATTTTGCCCTAT--AGGGTATTTC
1 GGTCATTTTACCCTA-TGGGGTATTTCGGTCATTTTACCC-ATCGAGGGTATTTC
* * *
2418261 GGT-ATTCTACCCTATGGGGTATTTCGGT-ATTCTA-CCTTAC-AGGGGTATTTC
1 GGTCATTTTACCCTATGGGGTATTTCGGTCATTTTACCCAT-CGA-GGGTATTTC
* * *
2418312 AGTCATTTTACCCTATGGGGACATTTCAGTCATTTTACCCATCGAGGGTATTTC
1 GGTCATTTTACCCTATGGGG-TATTTCGGTCATTTTACCCATCGAGGGTATTTC
* * *
2418366 GGTCATTTTACCC-ATCGAGAGTATTTTGGTCATTTTACCCTTCGAGGGTATTTC
1 GGTCATTTTACCCTAT-G-GGGTATTTCGGTCATTTTACCCATCGAGGGTATTTC
* ** *
2418420 AGTCATTTTACCC-ATCGAGGGTATTTCATTCATTTTACCAATCGAGGGTATTTC
1 GGTCATTTTACCCTAT-G-GGGTATTTCGGTCATTTTACCCATCGAGGGTATTTC
*
2418474 TGTCATTTTACCC-ATTAGGGGTATTTCGG
1 GGTCATTTTACCCTA-T-GGGGTATTTCGG
2418503 GGATATCAAC
Statistics
Matches: 202, Mismatches: 29, Indels: 21
0.80 0.12 0.08
Matches are distributed among these distances:
48 1 0.00
49 2 0.01
50 5 0.02
51 23 0.11
52 25 0.12
53 12 0.06
54 126 0.62
55 8 0.04
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (53 bp):
GGTCATTTTACCCTATGGGGTATTTCGGTCATTTTACCCATCGAGGGTATTTC
Found at i:2418496 original size:81 final size:80
Alignment explanation
Indices: 2418303--2418500 Score: 274
Period size: 81 Copynumber: 2.4 Consensus size: 80
2418293 TACCTTACAG
* * *
2418303 GGGTATTTCAGTCATTTTACCC-TATGGGGACATTTCAGTCATTTTACCCATCGAGGGTATTTCG
1 GGGTATTTCTGTCATTTTACCCTTA-GGGG-TATTTCAGTCATTTTACCCATCGAGGGTATTTCA
*
2418367 GTCATTTTACCCATCGA
64 GTCATTTTACCAATCGA
* *
2418384 GAGTATTT-TGGTCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCATCGAGGGTATTTCA
1 GGGTATTTCT-GTCATTTTACCCTTAG-GGGTATTTCAGTCATTTTACCCATCGAGGGTATTTCA
*
2418448 TTCATTTTACCAATCGA
64 GTCATTTTACCAATCGA
2418465 GGGTATTTCTGTCATTTTACCCATTAGGGGTATTTC
1 GGGTATTTCTGTCATTTTACCC-TTAGGGGTATTTC
2418501 GGGGATATCA
Statistics
Matches: 103, Mismatches: 9, Indels: 10
0.84 0.07 0.08
Matches are distributed among these distances:
81 95 0.92
82 8 0.08
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.40
Consensus pattern (80 bp):
GGGTATTTCTGTCATTTTACCCTTAGGGGTATTTCAGTCATTTTACCCATCGAGGGTATTTCAGT
CATTTTACCAATCGA
Done.