Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 139 of 187
Found at i:41867969 original size:17 final size:16
Alignment explanation
Indices: 41867937--41867967 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
41867927 CAATCCAGTC
41867937 GAAAAATCACATTTTG
1 GAAAAATCACATTTTG
*
41867953 GAAAAATTACATTTT
1 GAAAAATCACATTTT
41867968 TGCCCCTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (16 bp):
GAAAAATCACATTTTG
Found at i:41868864 original size:30 final size:30
Alignment explanation
Indices: 41868827--41869073 Score: 136
Period size: 30 Copynumber: 8.3 Consensus size: 30
41868817 TCATTGACAG
41868827 TGAAAAGGGATAGCTTCAGCTATCGAAATA
1 TGAAAAGGGATAGCTTCAGCTATCGAAATA
* * * * *
41868857 CGAAAAGGGAT-G-GTGACGACCATCGAATTA
1 TGAAAAGGGATAGCTTCA-G-CTATCGAAATA
*
41868887 TGAAAAAGGGATAGATTCAGCTATCGAAATA
1 TG-AAAAGGGATAGCTTCAGCTATCGAAATA
* *
41868918 TGAAAAGCGATAGCTTTAGCTATC-AAATTA
1 TGAAAAGGGATAGCTTCAGCTATCGAAA-TA
* * * * *
41868948 TGAAAAGGGAT-GGTGACAACCATC-AACTA
1 TGAAAAGGGATAGCT-TCAGCTATCGAAATA
* * * * *
41868977 TGAAAAAGGAT-G-GTGACGACAATCGAATTA
1 TGAAAAGGGATAGCTTCA-G-CTATCGAAATA
* **
41869007 TGAAAAGGAATAGCTTTGGCTATC-AAATTA
1 TGAAAAGGGATAGCTTCAGCTATCGAAA-TA
* *
41869037 TGAAAAGGGATACCTTC-GACTATCG-ATTA
1 TGAAAAGGGATAGCTTCAG-CTATCGAAATA
41869066 TGAAAAGG
1 TGAAAAGG
41869074 AATGCTGATG
Statistics
Matches: 164, Mismatches: 38, Indels: 31
0.70 0.16 0.13
Matches are distributed among these distances:
27 1 0.01
28 2 0.01
29 37 0.23
30 97 0.59
31 22 0.13
32 3 0.02
33 2 0.01
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.23
Consensus pattern (30 bp):
TGAAAAGGGATAGCTTCAGCTATCGAAATA
Found at i:41868947 original size:61 final size:60
Alignment explanation
Indices: 41868827--41869019 Score: 162
Period size: 61 Copynumber: 3.2 Consensus size: 60
41868817 TCATTGACAG
* * *
41868827 TGAAAAGGGATAGCTTCAGCTATCGAAATACGAAAAGGGATGGTGACGACCATCGAATTA
1 TGAAAAGGGATAGATTCAGCTATCGAAATACGAAAAGCGATGGTGACGACCATCAAATTA
* * * *
41868887 TGAAAAAGGGATAGATTCAGCTATCGAAATATGAAAAGCGATAGCTTTA-G-CTATCAAATTA
1 TG-AAAAGGGATAGATTCAGCTATCGAAATACGAAAAGCGAT-G-GTGACGACCATCAAATTA
* * * * * * * *
41868948 TGAAAAGGGAT-GGTGACAACCATC-AACTATGAAAAAG-GATGGTGACGACAATCGAATTA
1 TGAAAAGGGATAGAT-TCAGCTATCGAAATACG-AAAAGCGATGGTGACGACCATCAAATTA
*
41869007 TGAAAAGGAATAG
1 TGAAAAGGGATAG
41869020 CTTTGGCTAT
Statistics
Matches: 108, Mismatches: 17, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
57 2 0.02
58 2 0.02
59 30 0.28
60 23 0.21
61 47 0.44
62 2 0.02
63 2 0.02
ACGTcount: A:0.42, C:0.12, G:0.24, T:0.21
Consensus pattern (60 bp):
TGAAAAGGGATAGATTCAGCTATCGAAATACGAAAAGCGATGGTGACGACCATCAAATTA
Found at i:41869030 original size:89 final size:90
Alignment explanation
Indices: 41868827--41869047 Score: 272
Period size: 89 Copynumber: 2.4 Consensus size: 90
41868817 TCATTGACAG
* * * *
41868827 TGAAAAGGGATAGCTTCAGCTATCGAAA-TACGAAAAGGGATGGTGACGACCATCGAATTATGAA
1 TGAAAA-GGATAGCTTTAGCTATC-AAATTATGAAAAGGGATGGTGACAACCATCGAACTATGAA
* *
41868891 AAAGGGATAGATTCAGCTATCGAAATA
64 AAAGGGATAGATACAGCAATCGAAATA
41868918 TGAAAAGCGATAGCTTTAGCTATCAAATTATGAAAAGGGATGGTGACAACCATC-AACTATGAAA
1 TGAAAAG-GATAGCTTTAGCTATCAAATTATGAAAAGGGATGGTGACAACCATCGAACTATGAAA
* *
41868982 AA-GGAT-GGTGAC-GACAATCGAATTA
65 AAGGGATAGAT-ACAG-CAATCGAAATA
*
41869007 TGAAAAGGAATAGCTTTGGCTATCAAATTATGAAAAGGGAT
1 TGAAAAGG-ATAGCTTTAGCTATCAAATTATGAAAAGGGAT
41869048 ACCTTCGACT
Statistics
Matches: 116, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
88 4 0.03
89 52 0.45
90 15 0.13
91 45 0.39
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.23
Consensus pattern (90 bp):
TGAAAAGGATAGCTTTAGCTATCAAATTATGAAAAGGGATGGTGACAACCATCGAACTATGAAAA
AGGGATAGATACAGCAATCGAAATA
Found at i:41869032 original size:59 final size:58
Alignment explanation
Indices: 41868944--41869114 Score: 166
Period size: 59 Copynumber: 2.9 Consensus size: 58
41868934 TAGCTATCAA
* * ** *
41868944 ATTATGAAAAGGGATGGTGACAACCATCAACTATGAAAAAGGATGGTGACGACAATCG
1 ATTATGAAAAGGAATGCTGATGACCATCAATTATGAAAAAGGATGGTGACGACAATCG
* * * * ** * *
41869002 AATTATGAAAAGGAATAGCT-TTGGCTATCAAATTATGAAAAGGGATACCT-TCGACTATCG
1 -ATTATGAAAAGGAAT-GCTGATGACCATC-AATTATGAAAAAGGAT-GGTGACGACAATCG
*
41869062 ATTATGAAAAGGAATGCTGATGACCATCAATTATGAAAATGGATGGTGACGAC
1 ATTATGAAAAGGAATGCTGATGACCATCAATTATGAAAAAGGATGGTGACGAC
41869115 CATCTTGATA
Statistics
Matches: 87, Mismatches: 20, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
57 1 0.01
58 22 0.25
59 39 0.45
60 24 0.28
61 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.24
Consensus pattern (58 bp):
ATTATGAAAAGGAATGCTGATGACCATCAATTATGAAAAAGGATGGTGACGACAATCG
Found at i:41869068 original size:89 final size:89
Alignment explanation
Indices: 41868909--41869100 Score: 221
Period size: 89 Copynumber: 2.2 Consensus size: 89
41868899 AGATTCAGCT
* **
41868909 ATCGAAATATGAAAAGCGATAGCTTTAGCTATCAAATTATGAAAAGGGATGGTGACAACCATCAA
1 ATCGAATTATGAAAAGCGATAGCTTTAGCTATCAAATTATGAAAAGGGATCCTGACAACCATCAA
*
41868974 CTATGAAAAAGG-ATGGTGACGACA
66 CTATG-AAAAGGAATGCTGACGACA
* * * *
41868998 ATCGAATTATGAAAAG-GAATAGCTTTGGCTATCAAATTATGAAAAGGGATACCT-TCGACTATC
1 ATCGAATTATGAAAAGCG-ATAGCTTTAGCTATCAAATTATGAAAAGGGAT-CCTGACAACCATC
* * * *
41869061 GATTATGAAAAGGAATGCTGATGACC
64 AACTATGAAAAGGAATGCTGACGACA
41869087 ATC-AATTATGAAAA
1 ATCGAATTATGAAAA
41869101 TGGATGGTGA
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
88 18 0.20
89 69 0.78
90 1 0.01
ACGTcount: A:0.42, C:0.13, G:0.21, T:0.24
Consensus pattern (89 bp):
ATCGAATTATGAAAAGCGATAGCTTTAGCTATCAAATTATGAAAAGGGATCCTGACAACCATCAA
CTATGAAAAGGAATGCTGACGACA
Found at i:41869094 original size:29 final size:28
Alignment explanation
Indices: 41868943--41869118 Score: 113
Period size: 29 Copynumber: 6.0 Consensus size: 28
41868933 TTAGCTATCA
* *
41868943 AATTATGAAAAGGGATGGTGACAACCATC
1 AATTATGAAAA-GGATGCTGACGACCATC
* * *
41868972 AACTATGAAAAAGGATGGTGACGACAATC
1 AATTATG-AAAAGGATGCTGACGACCATC
** * *
41869001 GAATTATGAAAAGGAATAGCT-TTGGCTATC
1 -AATTATGAAAAGG-AT-GCTGACGACCATC
* * *
41869031 AAATTATGAAAAGGGATACCT-TCGACTATC
1 -AATTATGAAAA-GGAT-GCTGACGACCATC
* *
41869061 GATTATGAAAAGGAATGCTGATGACCATC
1 AATTATGAAAAGG-ATGCTGACGACCATC
*
41869090 AATTATGAAAATGGATGGTGACGACCATC
1 AATTATGAAAA-GGATGCTGACGACCATC
41869119 TTGATACCAC
Statistics
Matches: 118, Mismatches: 21, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
28 4 0.03
29 68 0.58
30 42 0.36
31 4 0.03
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.24
Consensus pattern (28 bp):
AATTATGAAAAGGATGCTGACGACCATC
Found at i:41872859 original size:56 final size:55
Alignment explanation
Indices: 41872797--41872908 Score: 197
Period size: 56 Copynumber: 2.0 Consensus size: 55
41872787 AACAACAAAG
*
41872797 CGTAGAGTATTATTAGTGACCTTATCATGGAAGAACGGTACACCCAAATAAGGAC
1 CGTAGAGTATTATTAGTGACCTTATAATGGAAGAACGGTACACCCAAATAAGGAC
*
41872852 NCGTAGAGTATTATTAGTGACCTTATAATGGAAGAGCGGTACACCCAAATAAGGAC
1 -CGTAGAGTATTATTAGTGACCTTATAATGGAAGAACGGTACACCCAAATAAGGAC
41872908 C
1 C
41872909 CAAATTACAC
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
55 1 0.02
56 53 0.98
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.23
Consensus pattern (55 bp):
CGTAGAGTATTATTAGTGACCTTATAATGGAAGAACGGTACACCCAAATAAGGAC
Found at i:41875109 original size:16 final size:16
Alignment explanation
Indices: 41875090--41875126 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
41875080 TGTTAATTTT
41875090 AATGTTAAAG-GACTAA
1 AATGTTAAAGTGA-TAA
41875106 AATGTTAAAGTGATAA
1 AATGTTAAAGTGATAA
41875122 AATGT
1 AATGT
41875127 AGGGACTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 18 0.90
17 2 0.10
ACGTcount: A:0.49, C:0.03, G:0.19, T:0.30
Consensus pattern (16 bp):
AATGTTAAAGTGATAA
Found at i:41875798 original size:40 final size:40
Alignment explanation
Indices: 41875730--41875831 Score: 118
Period size: 40 Copynumber: 2.5 Consensus size: 40
41875720 CAAATGAACG
* * * *
41875730 ATACCTATTGAATCTACAT-AAACGTATGCGCT-TTCGAGTC
1 ATACCTATTGAATCTA-TTGAAACATATGCGCTCTT-AAGCC
*
41875770 ATATCTATTGAATCTATTGAAACATATGCGCTCTTAAGCC
1 ATACCTATTGAATCTATTGAAACATATGCGCTCTTAAGCC
*
41875810 ATACCTACTGAATCTATTGAAA
1 ATACCTATTGAATCTATTGAAA
41875832 TGAGTGCTCT
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
39 1 0.02
40 50 0.94
41 2 0.04
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (40 bp):
ATACCTATTGAATCTATTGAAACATATGCGCTCTTAAGCC
Found at i:41875935 original size:36 final size:36
Alignment explanation
Indices: 41875856--41875942 Score: 104
Period size: 36 Copynumber: 2.4 Consensus size: 36
41875846 AGTAAAAGAC
* **
41875856 TCTACTGATATACTGAATAAATCTCATGGAATGTTA
1 TCTACTGATATACTGAAGAAATCTCATGGAATGAAA
* * *
41875892 TCCACTGATATACTGAAGAAA-CTCAATTGAGTGAAA
1 TCTACTGATATACTGAAGAAATCTC-ATGGAATGAAA
41875928 TCTACTGATATACTG
1 TCTACTGATATACTG
41875943 GGTAAAGCTC
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
35 3 0.07
36 40 0.93
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (36 bp):
TCTACTGATATACTGAAGAAATCTCATGGAATGAAA
Found at i:41877149 original size:18 final size:18
Alignment explanation
Indices: 41877111--41877155 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 18
41877101 TGAATATTAC
41877111 TTGTAATTATGGAATTGAA
1 TTGT-ATTATGGAATTGAA
*
41877130 TTG-ATTATTGAATGTGAA
1 TTGTATTATGGAAT-TGAA
41877148 TTGTATTA
1 TTGTATTA
41877156 ACTGTTCCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 9 0.39
18 7 0.30
19 7 0.30
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (18 bp):
TTGTATTATGGAATTGAA
Found at i:41880870 original size:19 final size:19
Alignment explanation
Indices: 41880848--41880885 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
41880838 TCAATCATCC
41880848 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
41880867 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
41880886 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:41883540 original size:46 final size:46
Alignment explanation
Indices: 41883466--41883604 Score: 199
Period size: 46 Copynumber: 3.0 Consensus size: 46
41883456 CATGGCAAAG
*
41883466 TGTGGAACA-TAGGTATGGTAATTCAGTAAAGAAAACCATACTGAGT
1 TGTGGAA-AGTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGT
* * *
41883512 TGTGGAATGTAGGTATGGTATTTTAGTAACGAAAACCATACTGAGT
1 TGTGGAAAGTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGT
* * *
41883558 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATATTGAGT
1 TGTGGAAAGTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGT
41883604 T
1 T
41883605 ATAGCATTGT
Statistics
Matches: 82, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
46 82 1.00
ACGTcount: A:0.36, C:0.09, G:0.25, T:0.30
Consensus pattern (46 bp):
TGTGGAAAGTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGT
Found at i:41886998 original size:8 final size:9
Alignment explanation
Indices: 41886984--41887224 Score: 86
Period size: 10 Copynumber: 25.2 Consensus size: 9
41886974 ATGAAAATCA
41886984 ATAAAAATT
1 ATAAAAATT
41886993 ATAAAAATT
1 ATAAAAATT
**
41887002 ATTAAATTTT
1 A-TAAAAATT
41887012 AATAAAAA--
1 -ATAAAAATT
41887020 AT-AAAATT
1 ATAAAAATT
41887028 ATTAAAAATT
1 A-TAAAAATT
*
41887038 ATTAAAAAAT
1 A-TAAAAATT
41887048 ATAATAAATT
1 ATAA-AAATT
*
41887058 GTAAAAAATT
1 AT-AAAAATT
*
41887068 GTAAAAAATT
1 AT-AAAAATT
41887078 ATAATAAATT
1 ATAA-AAATT
* **
41887088 GTAAATTTTT
1 ATAAA-AATT
* *
41887098 ATTAAAATC
1 ATAAAAATT
41887107 ATAAAAGATT
1 ATAAAA-ATT
41887117 AT--AAATT
1 ATAAAAATT
41887124 ATATAGAAATAT
1 ATA-A-AAAT-T
*
41887136 AGAAAAATAT
1 ATAAAAAT-T
41887146 ATATAAAATT
1 ATA-AAAATT
* * *
41887156 TTATGAAGTCGT
1 ATA-AAAAT--T
41887168 A-AGAAAATT
1 ATA-AAAATT
41887177 ATAAAAATGT
1 ATAAAAAT-T
41887187 A-AAGAAA-T
1 ATAA-AAATT
41887195 AT-AAAATT
1 ATAAAAATT
41887203 AGTAACAAATT
1 A-TAA-AAATT
41887214 ATAAAAATT
1 ATAAAAATT
41887223 AT
1 AT
41887225 CGTACCAAAA
Statistics
Matches: 178, Mismatches: 27, Indels: 54
0.69 0.10 0.21
Matches are distributed among these distances:
6 4 0.02
7 10 0.06
8 8 0.04
9 40 0.22
10 89 0.50
11 23 0.13
12 4 0.02
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.34
Consensus pattern (9 bp):
ATAAAAATT
Found at i:41887015 original size:29 final size:29
Alignment explanation
Indices: 41886983--41887158 Score: 89
Period size: 29 Copynumber: 6.0 Consensus size: 29
41886973 AATGAAAATC
41886983 AATAAAAATTATAAAAATTATTAAATTTT
1 AATAAAAATTATAAAAATTATTAAATTTT
**
41887012 AATAAAAA--AT-AAAATTATTAAAAATT
1 AATAAAAATTATAAAAATTATTAAATTTT
* * ** *
41887038 ATTAAAAAATATAATAAATTGTAAAAAATTGT
1 AATAAAAATTATAA-AAA-T-TATTAAATTTT
*
41887070 -A-AAAAATTATAATAAATT-GTAAATTTT
1 AATAAAAATTATAA-AAATTATTAAATTTT
* * * *
41887097 TATTAAAATCATAAAAGATTA-TAAATTAT
1 AATAAAAATTATAAAA-ATTATTAAATTTT
* *
41887126 -ATAGAAATATAGAAAAATATATATAAAATTTT
1 AATAAAAAT-TATAAAAAT-TAT-T-AAATTTT
41887158 A
1 A
41887159 TGAAGTCGTA
Statistics
Matches: 110, Mismatches: 21, Indels: 28
0.69 0.13 0.18
Matches are distributed among these distances:
26 21 0.19
27 8 0.07
28 14 0.13
29 36 0.33
30 17 0.15
31 2 0.02
32 12 0.11
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (29 bp):
AATAAAAATTATAAAAATTATTAAATTTT
Found at i:41887031 original size:26 final size:26
Alignment explanation
Indices: 41886977--41887048 Score: 81
Period size: 26 Copynumber: 2.7 Consensus size: 26
41886967 ATAAAAAATG
*
41886977 AAAATCAATAAAAATTATAAAAATTATTA
1 AAAATTAATAAAAA--AT-AAAATTATTA
**
41887006 AATTTTAATAAAAAATAAAATTATTA
1 AAAATTAATAAAAAATAAAATTATTA
*
41887032 AAAATTATTAAAAAATA
1 AAAATTAATAAAAAATA
41887049 TAATAAATTG
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
26 24 0.65
27 2 0.05
29 11 0.30
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.33
Consensus pattern (26 bp):
AAAATTAATAAAAAATAAAATTATTA
Found at i:41887065 original size:30 final size:30
Alignment explanation
Indices: 41887031--41887092 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
41887021 TAAAATTATT
*
41887031 AAAAATTATTAAAAAA-TATAATAAATTGTA
1 AAAAATT-GTAAAAAATTATAATAAATTGTA
41887061 AAAAATTGTAAAAAATTATAATAAATTGTA
1 AAAAATTGTAAAAAATTATAATAAATTGTA
41887091 AA
1 AA
41887093 TTTTTATTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 7 0.23
30 23 0.77
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (30 bp):
AAAAATTGTAAAAAATTATAATAAATTGTA
Found at i:41887188 original size:19 final size:19
Alignment explanation
Indices: 41887166--41887221 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
41887156 TTATGAAGTC
41887166 GTAAGAAAATTATAAAAAT-
1 GTAA-AAAATTATAAAAATA
*
41887185 GTAAAGAAA-TATAAAATTA
1 GTAAA-AAATTATAAAAATA
*
41887204 GTAACAAATTATAAAAAT
1 GTAAAAAATTATAAAAAT
41887222 TATCGTACCA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 12 0.39
19 19 0.61
ACGTcount: A:0.62, C:0.02, G:0.09, T:0.27
Consensus pattern (19 bp):
GTAAAAAATTATAAAAATA
Found at i:41887214 original size:11 final size:9
Alignment explanation
Indices: 41887171--41887224 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
41887161 AAGTCGTAAG
41887171 AAAATTATA
1 AAAATTATA
41887180 AAAATGTA-A
1 AAAAT-TATA
41887189 AGAAA-TAT-
1 A-AAATTATA
41887197 AAAATTAGTA
1 AAAATTA-TA
41887207 ACAAATTATA
1 A-AAATTATA
41887217 AAAATTAT
1 AAAATTAT
41887225 CGTACCAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
7 3 0.08
8 5 0.13
9 15 0.39
10 9 0.24
11 6 0.16
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.30
Consensus pattern (9 bp):
AAAATTATA
Found at i:41887281 original size:16 final size:15
Alignment explanation
Indices: 41887260--41887289 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
41887250 TTTTCTATAT
41887260 TTTTTATTGATTTTTA
1 TTTTTATT-ATTTTTA
41887276 TTTTTATTATTTTT
1 TTTTTATTATTTTT
41887290 CACCACATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (15 bp):
TTTTTATTATTTTTA
Found at i:41887421 original size:10 final size:9
Alignment explanation
Indices: 41887408--41887516 Score: 62
Period size: 9 Copynumber: 11.8 Consensus size: 9
41887398 TTTTTATGCA
41887408 TTTTATAATT
1 TTTTATAA-T
*
41887418 TTTTATGAT
1 TTTTATAAT
*
41887427 TTTTATAAAA
1 TTTTAT-AAT
41887437 TTTTAT-AT
1 TTTTATAAT
*
41887445 TTTTACAAT
1 TTTTATAAT
*
41887454 TTTTATAAA
1 TTTTATAAT
***
41887463 AAAT-TAAT
1 TTTTATAAT
41887471 TTTTAATAAT
1 TTTT-ATAAT
41887481 TTTT-TAATT
1 TTTTATAA-T
*
41887490 TTTTATTAAAA
1 TTTTA-T-AAT
*
41887501 TTTAATAAT
1 TTTTATAAT
41887510 TTTTATA
1 TTTTATA
41887517 TCTTTTATTG
Statistics
Matches: 73, Mismatches: 18, Indels: 17
0.68 0.17 0.16
Matches are distributed among these distances:
8 13 0.18
9 30 0.41
10 23 0.32
11 5 0.07
12 2 0.03
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.61
Consensus pattern (9 bp):
TTTTATAAT
Found at i:41887421 original size:19 final size:19
Alignment explanation
Indices: 41887397--41887457 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 19
41887387 TTAAAGGGTC
41887397 TTTTTTATGCA-TTTTATAA
1 TTTTTTATG-ATTTTTATAA
41887416 TTTTTTATGATTTTTATAA
1 TTTTTTATGATTTTTATAA
** *
41887435 AATTTTAT-ATTTTTACAA
1 TTTTTTATGATTTTTATAA
41887453 TTTTT
1 TTTTT
41887458 ATAAAAAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
18 13 0.36
19 23 0.64
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (19 bp):
TTTTTTATGATTTTTATAA
Found at i:41887467 original size:29 final size:29
Alignment explanation
Indices: 41887407--41887463 Score: 82
Period size: 27 Copynumber: 2.0 Consensus size: 29
41887397 TTTTTTATGC
**
41887407 ATTTTATAATTTTTTATGATTTTTATAAA
1 ATTTTATAATTTTTTACAATTTTTATAAA
41887436 ATTTTAT-A-TTTTTACAATTTTTATAAA
1 ATTTTATAATTTTTTACAATTTTTATAAA
41887463 A
1 A
41887464 AATTAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 18 0.69
28 1 0.04
29 7 0.27
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (29 bp):
ATTTTATAATTTTTTACAATTTTTATAAA
Found at i:41887474 original size:27 final size:26
Alignment explanation
Indices: 41887413--41887484 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 26
41887403 ATGCATTTTA
* *
41887413 TAATTTTTTATGATTTTTATAAAATT
1 TAATTTTTTATAATTTTTATAAAAAT
* *
41887439 TTATATTTTTACAATTTTTATAAAAAAT
1 TAAT-TTTTTATAATTTTTAT-AAAAAT
*
41887467 TAATTTTTAATAATTTTT
1 TAATTTTTTATAATTTTT
41887485 TAATTTTTTA
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
26 3 0.08
27 26 0.70
28 8 0.22
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (26 bp):
TAATTTTTTATAATTTTTATAAAAAT
Found at i:41887821 original size:89 final size:87
Alignment explanation
Indices: 41887671--41887895 Score: 328
Period size: 89 Copynumber: 2.5 Consensus size: 87
41887661 ATGCATTTTG
* * * *
41887671 AAGTACCCAATTAAGTGAAAAAAAAGCATGGCCTTAATTGTTTTTTCTGAAAAAGTTTGAGGGTC
1 AAGTACCCAATTAAGTGAAAAAAAAGCAGGGGCTTAATTGTTTTTT-TGAAAAAATTTGAGGGCC
41887736 TTTTTGATGCATTTTGAAAGTTC
65 TTTTTGATGCATTTTGAAAGTTC
41887759 AAGTACCCAATTAAGTGAAAAAAAAAGCAGGGGCTTAA-TGACTTTTTTTGAAAAAATTTGAGGG
1 AAGTACCCAATTAAGTG-AAAAAAAAGCAGGGGCTTAATTG--TTTTTTTGAAAAAATTTGAGGG
*
41887823 CCTTTTTGATGCATTTTGAAAGTTT
63 CCTTTTTGATGCATTTTGAAAGTTC
*
41887848 AAGTACCCAATTAAGTGTAACAAAAAGC-GGGGACTTAATTGTTTTTTT
1 AAGTACCCAATTAAGTG-AAAAAAAAGCAGGGG-CTTAATTGTTTTTTT
41887896 TTTCAAAAAA
Statistics
Matches: 125, Mismatches: 7, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
88 30 0.24
89 87 0.70
90 8 0.06
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.35
Consensus pattern (87 bp):
AAGTACCCAATTAAGTGAAAAAAAAGCAGGGGCTTAATTGTTTTTTTGAAAAAATTTGAGGGCCT
TTTTGATGCATTTTGAAAGTTC
Found at i:41889157 original size:31 final size:31
Alignment explanation
Indices: 41889082--41889145 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
41889072 TCATTCAATT
41889082 TTTAAAATTTACATAATGATTATTAATATTA
1 TTTAAAATTTACATAATGATTATTAATATTA
*
41889113 TTTAAAATTTACATAATGATTATTTATATTA
1 TTTAAAATTTACATAATGATTATTAATATTA
41889144 TT
1 TT
41889146 GAATTCTTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (31 bp):
TTTAAAATTTACATAATGATTATTAATATTA
Found at i:41893009 original size:93 final size:93
Alignment explanation
Indices: 41892851--41893125 Score: 354
Period size: 93 Copynumber: 3.0 Consensus size: 93
41892841 GTATATGTTT
* * * * * *
41892851 TATACATTGTC-AAATTGATTTGTCTAGAGATATACATTTTCGAATTTGATTTGTTTATAGATAT
1 TATACATTGTCGAATTTGATTTGTATATAGATATACATTGTCGAATTTGATTTGTTTATGGTTAT
* * *
41892915 ACATTGCCGAAATTAATTTGTTTATAGA
66 ACATTGCCGAATTTGATTTGTATATAGA
* * *
41892943 TATACATTGTCGAATTTGAATTGTTTATAGATATACATTGCCGAATTTGATTTGTTTATGGTTAT
1 TATACATTGTCGAATTTGATTTGTATATAGATATACATTGTCGAATTTGATTTGTTTATGGTTAT
* *
41893008 ACATTGCCGAATTTGATTTGTATATGGT
66 ACATTGCCGAATTTGATTTGTATATAGA
** * * * *
41893036 TATACATTACCGATTTTGATTTGTATATAGATATACATTGTTGAATTTGATTTATATATGGTTAT
1 TATACATTGTCGAATTTGATTTGTATATAGATATACATTGTCGAATTTGATTTGTTTATGGTTAT
*
41893101 ACATTACCGAATTTGATTTGTATAT
66 ACATTGCCGAATTTGATTTGTATAT
41893126 GGTACCGAAT
Statistics
Matches: 159, Mismatches: 23, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
92 11 0.07
93 148 0.93
ACGTcount: A:0.30, C:0.08, G:0.15, T:0.46
Consensus pattern (93 bp):
TATACATTGTCGAATTTGATTTGTATATAGATATACATTGTCGAATTTGATTTGTTTATGGTTAT
ACATTGCCGAATTTGATTTGTATATAGA
Found at i:41893124 original size:23 final size:23
Alignment explanation
Indices: 41893098--41893147 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
41893088 TATATATGGT
* *
41893098 TATACATTACCGAATTTGATTTG
1 TATACAGTACCGAATTTGATTCG
**
41893121 TATATGGTACCGAATTTGATTCG
1 TATACAGTACCGAATTTGATTCG
41893144 TATA
1 TATA
41893148 TGGATATATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.42
Consensus pattern (23 bp):
TATACAGTACCGAATTTGATTCG
Found at i:41893128 original size:31 final size:31
Alignment explanation
Indices: 41892851--41893125 Score: 309
Period size: 31 Copynumber: 8.9 Consensus size: 31
41892841 GTATATGTTT
* * * *
41892851 TATACATTGTC-AAATTGATTTGTCTAGAGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
** *
41892881 TATACATTTTCGAATTTGATTTGTTTATAGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* * *
41892912 TATACATTGCCGAAATTAATTTGTTTATAGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* * *
41892943 TATACATTGTCGAATTTGAATTGTTTATAGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* * *
41892974 TATACATTGCCGAATTTGATTTGTTTATGGT
1 TATACATTGCCGAATTTGATTTGTATATAGA
* *
41893005 TATACATTGCCGAATTTGATTTGTATATGGT
1 TATACATTGCCGAATTTGATTTGTATATAGA
* *
41893036 TATACATTACCGATTTTGATTTGTATATAGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
** * * *
41893067 TATACATTGTTGAATTTGATTTATATATGGT
1 TATACATTGCCGAATTTGATTTGTATATAGA
*
41893098 TATACATTACCGAATTTGATTTGTATAT
1 TATACATTGCCGAATTTGATTTGTATAT
41893126 GGTACCGAAT
Statistics
Matches: 212, Mismatches: 32, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
30 10 0.05
31 202 0.95
ACGTcount: A:0.30, C:0.08, G:0.15, T:0.46
Consensus pattern (31 bp):
TATACATTGCCGAATTTGATTTGTATATAGA
Found at i:41893148 original size:23 final size:23
Alignment explanation
Indices: 41893105--41893150 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
41893095 GGTTATACAT
*
41893105 TACCGAATTTGATTTGTATATGG
1 TACCGAATTTGATTCGTATATGG
41893128 TACCGAATTTGATTCGTATATGG
1 TACCGAATTTGATTCGTATATGG
41893151 ATATATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.26, C:0.11, G:0.22, T:0.41
Consensus pattern (23 bp):
TACCGAATTTGATTCGTATATGG
Found at i:41897221 original size:20 final size:20
Alignment explanation
Indices: 41897196--41897233 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
41897186 TTGTACGGGA
41897196 TTGCACTTACGTGCCTCTGT
1 TTGCACTTACGTGCCTCTGT
**
41897216 TTGCACTTTGGTGCCTCT
1 TTGCACTTACGTGCCTCT
41897234 ATATTTGTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.08, C:0.29, G:0.21, T:0.42
Consensus pattern (20 bp):
TTGCACTTACGTGCCTCTGT
Found at i:41899462 original size:20 final size:20
Alignment explanation
Indices: 41899425--41899486 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 20
41899415 TTATTTAGAA
*
41899425 TTTTTATTATATTT-TTAATAC
1 TTTTTA-TA-ATTTATTAAAAC
*
41899446 TTTTTATAATTTATTAAAAT
1 TTTTTATAATTTATTAAAAC
*
41899466 TTTTTAGAATTATTATTAAAA
1 TTTTTATAA-T-TTATTAAAA
41899487 ATAAATTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 4 0.11
20 15 0.43
21 7 0.20
22 9 0.26
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (20 bp):
TTTTTATAATTTATTAAAAC
Found at i:41900102 original size:22 final size:22
Alignment explanation
Indices: 41900061--41900102 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
41900051 TTTTTTAAAA
*
41900061 GTTAGGGTTATTGGTTTTTAGG
1 GTTAGGGTTATTGGTATTTAGG
41900083 GTTAGGGTT-TTGGGTATTTA
1 GTTAGGGTTATT-GGTATTTA
41900103 AAATAGAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.14, C:0.00, G:0.36, T:0.50
Consensus pattern (22 bp):
GTTAGGGTTATTGGTATTTAGG
Found at i:41902084 original size:53 final size:53
Alignment explanation
Indices: 41901991--41902100 Score: 150
Period size: 53 Copynumber: 2.1 Consensus size: 53
41901981 GAAGTGGGGA
* * * *
41901991 AAGAGTTTTCCAATAAAGATGGTTTTCTCGCAGTATTGAAGCGATACAGCATN
1 AAGAGTTTTCCAATAAAGATGGTTTTATCGCAGTAGTGAAGCGATACAACATT
* *
41902044 AAGAGTTTT-CAACTATAGATGGTTTTATCGCTGTAGTGAAGCGATACAACATT
1 AAGAGTTTTCCAA-TAAAGATGGTTTTATCGCAGTAGTGAAGCGATACAACATT
41902097 AAGA
1 AAGA
41902101 ACGGGGTAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
52 3 0.06
53 47 0.94
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (53 bp):
AAGAGTTTTCCAATAAAGATGGTTTTATCGCAGTAGTGAAGCGATACAACATT
Found at i:41909542 original size:33 final size:33
Alignment explanation
Indices: 41909505--41909816 Score: 170
Period size: 33 Copynumber: 8.8 Consensus size: 33
41909495 TCCTCCAAGG
41909505 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* * *
41909538 GGTTGCTAAGTGCTGATTCCACTGTATTTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-T---GGT
*
41909580 GGTTGCTAAGTGCTGATTCCCC----CA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
*
41909607 GGTTGCTATGTGCTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* * *
41909640 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-TG---GT
* *
41909682 GGTTGCTAAGTACTGATTCCCTGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
41909715 GGTTGCTAAGTGCTGATTCCACCG-TATCATTGAATGT
1 GGTTGCTAAGTGCTGATTCC-CCGAT-TCATTG---GT
* * * *
41909752 GAAAGGGGTTGCTAAGTGTTGATTCCCTGAATCACTGGT
1 ------GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
*
41909791 GGTTGCTAAGTGCTGAATCCACCGAT
1 GGTTGCTAAGTGCTGATTCC-CCGAT
41909817 AACGGATAAC
Statistics
Matches: 215, Mismatches: 27, Indels: 73
0.68 0.09 0.23
Matches are distributed among these distances:
27 21 0.10
28 2 0.01
31 2 0.01
32 2 0.01
33 78 0.36
34 16 0.07
35 2 0.01
36 2 0.01
37 8 0.04
38 6 0.03
39 5 0.02
40 1 0.00
41 3 0.01
42 48 0.22
43 19 0.09
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
Found at i:41909649 original size:102 final size:102
Alignment explanation
Indices: 41909473--41909702 Score: 388
Period size: 102 Copynumber: 2.3 Consensus size: 102
41909463 ATTGAATATA
* *
41909473 AAGGGGGTTGCTAAGTGTTGATTCCTCCAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* * *
41909538 GGTTGCTAAGTGCTGATTCCACTGTATTTTAAATGTG
66 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTG
*
41909575 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTATGTGCTGATTCCCCGATTCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
41909640 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTG
66 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTG
* *
41909677 AAAGGGGTTGCTAAGTACTGATTCCC
1 AAGGGGGTTGCTAAGTGCTGATTCCC
41909703 TGATTCATTG
Statistics
Matches: 120, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 120 1.00
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.33
Consensus pattern (102 bp):
AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTG
Found at i:41909791 original size:76 final size:75
Alignment explanation
Indices: 41909603--41909814 Score: 334
Period size: 76 Copynumber: 2.8 Consensus size: 75
41909593 TGATTCCCCC
* * *
41909603 AAGGGGTTGCTATGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCTGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
41909668 TTAAATGTGA
66 TTAAATGTGA
*
41909678 AAGGGGTTGCTAAGTACTGATTCCCTGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCTGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
*
41909743 ATTGAATGTGA
66 -TTAAATGTGA
* * * *
41909754 AAGGGGTTGCTAAGTGTTGATTCCCTGAATCACTGGTGGTTGCTAAGTGCTGAATCCACCG
1 AAGGGGTTGCTAAGTGCTGATTCCCTGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCG
41909815 ATAACGGATA
Statistics
Matches: 126, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
75 61 0.48
76 65 0.52
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (75 bp):
AAGGGGTTGCTAAGTGCTGATTCCCTGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
TTAAATGTGA
Found at i:41913251 original size:20 final size:22
Alignment explanation
Indices: 41913222--41913271 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
41913212 AAAGAAAGAA
*
41913222 AAAAAAAGAAATCAAAAA-AG-
1 AAAAAGAGAAATCAAAAAGAGC
*
41913242 AAAAAGAG-AATGAAAAAGAGC
1 AAAAAGAGAAATCAAAAAGAGC
41913263 AAAAAGAGA
1 AAAAAGAGA
41913272 TTGAGAGTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 8 0.32
20 9 0.36
21 8 0.32
ACGTcount: A:0.74, C:0.04, G:0.18, T:0.04
Consensus pattern (22 bp):
AAAAAGAGAAATCAAAAAGAGC
Found at i:41913257 original size:19 final size:19
Alignment explanation
Indices: 41913220--41913271 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 19
41913210 TGAAAGAAAG
41913220 AAAA-AAAAAGA-AATCAA
1 AAAAGAAAAAGAGAATCAA
*
41913237 AAAAGAAAAAGAGAATGAA
1 AAAAGAAAAAGAGAATCAA
41913256 AAAGAGCAAAAAGAGA
1 AAA-AG-AAAAAGAGA
41913272 TTGAGAGTGG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 4 0.13
18 7 0.23
19 8 0.27
20 2 0.07
21 9 0.30
ACGTcount: A:0.75, C:0.04, G:0.17, T:0.04
Consensus pattern (19 bp):
AAAAGAAAAAGAGAATCAA
Found at i:41925732 original size:1 final size:1
Alignment explanation
Indices: 41925728--41925802 Score: 51
Period size: 1 Copynumber: 75.0 Consensus size: 1
41925718 AGAACAGAGC
* * * * * * *****
41925728 AAAAAAAAAAAAAAAAAAAAAGAAAGAAAGAAAGAAAGAAAGAAAGTTGTAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
41925793 AAAAAAAAAA
1 AAAAAAAAAA
41925803 GAAGAAAGAA
Statistics
Matches: 57, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 57 1.00
ACGTcount: A:0.85, C:0.00, G:0.11, T:0.04
Consensus pattern (1 bp):
A
Found at i:41925811 original size:4 final size:4
Alignment explanation
Indices: 41925800--41925834 Score: 63
Period size: 4 Copynumber: 9.0 Consensus size: 4
41925790 AAAAAAAAAA
41925800 AAAG -AAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
41925835 TTGTTTGAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.10
4 27 0.90
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:41925819 original size:12 final size:12
Alignment explanation
Indices: 41925746--41925834 Score: 87
Period size: 12 Copynumber: 7.7 Consensus size: 12
41925736 AAAAAAAAAA
41925746 AAAGAAAGAAAG
1 AAAGAAAGAAAG
41925758 AAAGAAAGAAAG
1 AAAGAAAGAAAG
**
41925770 AAAG-TTGTAAA-
1 AAAGAAAG-AAAG
* *
41925781 AAA-AAAAAAAA
1 AAAGAAAGAAAG
* *
41925792 AAAAAAAAAAAG
1 AAAGAAAGAAAG
41925804 -AAGAAAGAAAG
1 AAAGAAAGAAAG
41925815 AAAGAAAGAAAG
1 AAAGAAAGAAAG
41925827 AAAGAAAG
1 AAAGAAAG
41925835 TTGTTTGAAG
Statistics
Matches: 64, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
10 3 0.05
11 16 0.25
12 45 0.70
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (12 bp):
AAAGAAAGAAAG
Found at i:41931411 original size:34 final size:35
Alignment explanation
Indices: 41931367--41931433 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
41931357 CAGTAAAATA
*
41931367 TTTTCCGTAAAATGA-TTTCTGGAAAATATTTTAT
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTTAT
*
41931401 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTT
41931434 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 14 0.47
35 16 0.53
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACTGGAAAATATTTTAT
Found at i:41935396 original size:22 final size:22
Alignment explanation
Indices: 41935371--41935417 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
41935361 GAGCCGTGGA
41935371 GGACCGAAGATGGATCGGTGCC
1 GGACCGAAGATGGATCGGTGCC
* * *
41935393 GGACCGGAGGTGGATTGGTGCC
1 GGACCGAAGATGGATCGGTGCC
41935415 GGA
1 GGA
41935418 GGTGAAGGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.19, C:0.19, G:0.47, T:0.15
Consensus pattern (22 bp):
GGACCGAAGATGGATCGGTGCC
Found at i:41935546 original size:22 final size:22
Alignment explanation
Indices: 41935521--41935567 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
41935511 GAGCCGTGGA
*
41935521 GGACCGGAGGTGGATTGGTGCC
1 GGACCGGAGGTGGATCGGTGCC
*
41935543 GGACTGGAGGTGGATCGGTGCC
1 GGACCGGAGGTGGATCGGTGCC
41935565 GGA
1 GGA
41935568 GGTGAAGGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.15, C:0.17, G:0.51, T:0.17
Consensus pattern (22 bp):
GGACCGGAGGTGGATCGGTGCC
Found at i:41935637 original size:8 final size:8
Alignment explanation
Indices: 41935626--41935656 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
41935616 TTCTGGAAGA
41935626 GGGGAAAT
1 GGGGAAAT
41935634 GGGGAAAT
1 GGGGAAAT
41935642 GGGGGAAAT
1 -GGGGAAAT
41935651 GGGGAA
1 GGGGAA
41935657 GAAATGTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.35, C:0.00, G:0.55, T:0.10
Consensus pattern (8 bp):
GGGGAAAT
Found at i:41935648 original size:9 final size:9
Alignment explanation
Indices: 41935626--41935654 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
41935616 TTCTGGAAGA
41935626 GGGGAAAT-
1 GGGGAAATG
41935634 GGGGAAATG
1 GGGGAAATG
41935643 GGGGAAATG
1 GGGGAAATG
41935652 GGG
1 GGG
41935655 AAGAAATGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.31, C:0.00, G:0.59, T:0.10
Consensus pattern (9 bp):
GGGGAAATG
Found at i:41936230 original size:18 final size:18
Alignment explanation
Indices: 41936207--41936246 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
41936197 TATTATTTTG
41936207 AAAAATATATAAAAT-TAT
1 AAAAATAT-TAAAATATAT
*
41936225 AAAAATATTTAAATATAT
1 AAAAATATTAAAATATAT
41936243 AAAA
1 AAAA
41936247 GCCTATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAAATATTAAAATATAT
Found at i:41936677 original size:16 final size:16
Alignment explanation
Indices: 41936644--41936673 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
41936634 CGTATAAACT
41936644 TATAAAAAATATATAG
1 TATAAAAAATATATAG
41936660 TATAAAAAAT-TATA
1 TATAAAAAATATATA
41936674 AGTAGATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (16 bp):
TATAAAAAATATATAG
Found at i:41939413 original size:35 final size:35
Alignment explanation
Indices: 41939367--41939492 Score: 180
Period size: 35 Copynumber: 3.6 Consensus size: 35
41939357 GTTGATATTC
41939367 TGATTTGCATGTTAAGCATGCTATTATTCTGATTT
1 TGATTTGCATGTTAAGCATGCTATTATTCTGATTT
*
41939402 TGATTTACATGTTAAGCATGCTATTATTCTGATTT
1 TGATTTGCATGTTAAGCATGCTATTATTCTGATTT
* ** *
41939437 TGATTCGCATGTTAAGCATGCTGCTATACTGATTT
1 TGATTTGCATGTTAAGCATGCTATTATTCTGATTT
* * *
41939472 TGATTCGCATGTAAAGTATGC
1 TGATTTGCATGTTAAGCATGC
41939493 CTACTAAAAA
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 83 1.00
ACGTcount: A:0.25, C:0.13, G:0.18, T:0.44
Consensus pattern (35 bp):
TGATTTGCATGTTAAGCATGCTATTATTCTGATTT
Found at i:41939678 original size:49 final size:49
Alignment explanation
Indices: 41939590--41939689 Score: 130
Period size: 49 Copynumber: 2.0 Consensus size: 49
41939580 AATATACCCG
* *
41939590 CAATATTCTGTATTTGGCAGCTTGACGACAATATATGGTGGCTTGACCA
1 CAATATTCTGTATCTGGCAGCTTGACGACAATATATGGTGACTTGACCA
* * * *
41939639 CAATATTCTGTATCTGGCAGCTTTACTG-CATTATCTGGTGACTTGTCCA
1 CAATATTCTGTATCTGGCAGCTTGAC-GACAATATATGGTGACTTGACCA
41939688 CA
1 CA
41939690 TAATTGGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
49 43 0.98
50 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (49 bp):
CAATATTCTGTATCTGGCAGCTTGACGACAATATATGGTGACTTGACCA
Found at i:41942967 original size:10 final size:10
Alignment explanation
Indices: 41942952--41942976 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
41942942 TCATCTCTCT
41942952 CTTTCACTCA
1 CTTTCACTCA
41942962 CTTTCACTCA
1 CTTTCACTCA
41942972 CTTTC
1 CTTTC
41942977 TCTCTTCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.16, C:0.40, G:0.00, T:0.44
Consensus pattern (10 bp):
CTTTCACTCA
Found at i:41945284 original size:3 final size:3
Alignment explanation
Indices: 41945276--41945304 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
41945266 CAATACAATT
41945276 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
41945305 TATAGATAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:41945315 original size:4 final size:4
Alignment explanation
Indices: 41945306--41945361 Score: 103
Period size: 4 Copynumber: 14.0 Consensus size: 4
41945296 AATAATAATT
*
41945306 ATAG ATAG ATAG ATAG ATAG ATAG ATGG ATAG ATAG ATAG ATAG ATAG
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG
41945354 ATAG ATAG
1 ATAG ATAG
41945362 TTTTTTAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 50 1.00
ACGTcount: A:0.48, C:0.00, G:0.27, T:0.25
Consensus pattern (4 bp):
ATAG
Found at i:41950467 original size:25 final size:25
Alignment explanation
Indices: 41950403--41950468 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 25
41950393 GTGCTTGGAT
41950403 TGTAATTAAGTAATAAGTTAGTAGA
1 TGTAATTAAGTAATAAGTTAGTAGA
* * *
41950428 TTTACATATCA--AATAAGTTAGTAGG
1 TGTA-AT-TAAGTAATAAGTTAGTAGA
41950453 TGTAATTAAGTAATAA
1 TGTAATTAAGTAATAA
41950469 TTAATTTTGA
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
23 2 0.06
24 2 0.06
25 24 0.75
26 2 0.06
27 2 0.06
ACGTcount: A:0.44, C:0.03, G:0.17, T:0.36
Consensus pattern (25 bp):
TGTAATTAAGTAATAAGTTAGTAGA
Found at i:41956563 original size:18 final size:18
Alignment explanation
Indices: 41956540--41956575 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
41956530 CACAACATAA
41956540 TATAACAATTAAGTTTAG
1 TATAACAATTAAGTTTAG
41956558 TATAACAATTAAGTTTAG
1 TATAACAATTAAGTTTAG
41956576 CCCATGAGTT
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:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (18 bp):
TATAACAATTAAGTTTAG
Found at i:41959105 original size:18 final size:18
Alignment explanation
Indices: 41959082--41959118 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
41959072 CTTTGAATGG
*
41959082 AAAACTAATGAGCTAGCA
1 AAAACTAATGAACTAGCA
41959100 AAAACTAATGAACTAGCA
1 AAAACTAATGAACTAGCA
41959118 A
1 A
41959119 GCAAAGTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.54, C:0.16, G:0.14, T:0.16
Consensus pattern (18 bp):
AAAACTAATGAACTAGCA
Found at i:41959326 original size:18 final size:16
Alignment explanation
Indices: 41959293--41959343 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 16
41959283 CTAAAAGAGA
41959293 TTTAGGGGTTTT-AAAG
1 TTTA-GGGTTTTAAAAG
41959309 ATTCTAGGGTTTTAAAAG
1 -TT-TAGGGTTTTAAAAG
41959327 TTTAGAGGATTTTAAAA
1 TTTAG-GG-TTTTAAAA
41959344 TAATTAGAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
16 3 0.10
17 13 0.43
18 14 0.47
ACGTcount: A:0.33, C:0.02, G:0.24, T:0.41
Consensus pattern (16 bp):
TTTAGGGTTTTAAAAG
Found at i:41960524 original size:43 final size:43
Alignment explanation
Indices: 41960451--41960739 Score: 257
Period size: 43 Copynumber: 6.7 Consensus size: 43
41960441 GCCGCTAACA
*
41960451 TAGCGGCGCTTTT-TTCACAAACGCCGCTAAAGACCAAGACCTT
1 TAGCGGCGCTTTTCCT-ACAAACGCCGCTAAAGACCAAGACCTT
* * * * *
41960494 TAGCGGCGCTTTTCCTACAAGCACCACTAAAGACTATGACCTT
1 TAGCGGCGCTTTTCCTACAAACGCCGCTAAAGACCAAGACCTT
* * * *
41960537 TAGCGGCGC-TTTCCCACAATCGCCGCTAAAGACTAGGACCTT
1 TAGCGGCGCTTTTCCTACAAACGCCGCTAAAGACCAAGACCTT
* * * *
41960579 TAGCGGCGCTTTTTCCCACAAAAGTCGCTAAA-AACAATGACCTT
1 TAGCGGCGC-TTTTCCTACAAACGCCGCTAAAGACCAA-GACCTT
* * *
41960623 TAGCGACACTTTT-CTCACAAACGCCGCTAAAGACCATGACCTT
1 TAGCGGCGCTTTTCCT-ACAAACGCCGCTAAAGACCAAGACCTT
** * * * *
41960666 TAGCGGCGCTTTTTATCACAAATGCCGCTATAGATCAA-ATCTT
1 TAGCGGCGCTTTTCCT-ACAAACGCCGCTAAAGACCAAGACCTT
* *
41960709 TAGCGGCGCTTCTTGC-AAAAACGCCGCTAAA
1 TAGCGGCGCTT-TTCCTACAAACGCCGCTAAA
41960740 AACATAACCT
Statistics
Matches: 201, Mismatches: 37, Indels: 17
0.79 0.15 0.07
Matches are distributed among these distances:
42 50 0.25
43 95 0.47
44 56 0.28
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (43 bp):
TAGCGGCGCTTTTCCTACAAACGCCGCTAAAGACCAAGACCTT
Found at i:41960695 original size:87 final size:87
Alignment explanation
Indices: 41960459--41960695 Score: 291
Period size: 87 Copynumber: 2.7 Consensus size: 87
41960449 CATAGCGGCG
* * * *
41960459 CTTTTTTCACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCT-ACAAGCA-CCACT
1 CTTTTCTCACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTCTCACAA-AAGCCGCT
* * * *
41960522 AAAGACTATGACCTTTAGCGGCG
65 AAAAACAATGACCTTTAGCGACA
* * * * * *
41960545 C-TTTCCCACAATCGCCGCTAAAGACTAGGACCTTTAGCGGCGCTTTTTCCCACAAAAGTCGCTA
1 CTTTTCTCACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTCTCACAAAAGCCGCTA
41960609 AAAACAATGACCTTTAGCGACA
66 AAAACAATGACCTTTAGCGACA
* * *
41960631 CTTTTCTCACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTATCACAAATGCCGCTA
1 CTTTTCTCACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTCTCACAAAAGCCGCTA
41960696 TAGATCAAAT
Statistics
Matches: 126, Mismatches: 22, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
85 43 0.34
86 28 0.22
87 55 0.44
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.25
Consensus pattern (87 bp):
CTTTTCTCACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTCTCACAAAAGCCGCTA
AAAACAATGACCTTTAGCGACA
Found at i:41960737 original size:129 final size:128
Alignment explanation
Indices: 41960451--41960751 Score: 319
Period size: 129 Copynumber: 2.3 Consensus size: 128
41960441 GCCGCTAACA
* * * * * *
41960451 TAGCGGCGCTTTTTTCACAAACGCCGCTAAAGACCAA-GACCTTTAGCGGCGCTTTTCCTACAAG
1 TAGCGGCGCTTTTTCCAAAAACGCCGCTAAA-AACAATGACCTTTAGCGACACTTTTCCTACAAA
* * *
41960515 CACCACTAAAGACTATGACCTTTAGCGGCGCTTTCCCACAATCGCCGCTAAAGACTAGGACCTT
65 CACCACTAAAGACCATGACCTTTAGCGGCGCTTTACCACAATCGCCGCTAAAGACTAGAACCTT
*
41960579 TAGCGGCGCTTTTTCCCACAAAA-GTCGCTAAAAACAATGACCTTTAGCGACACTTTT-CTCACA
1 TAGCGGCGCTTTTT-CCA-AAAACGCCGCTAAAAACAATGACCTTTAGCGACACTTTTCCT-ACA
* * * *
41960642 AACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTATCACAAAT-GCCGCTATAGA-TCA-A
63 AACACCACTAAAGACCATGACCTTTAGCGGCGC--TTTACCAC-AATCGCCGCTAAAGACT-AGA
*
41960704 ATCTT
124 ACCTT
* * *
41960709 TAGCGGCGCTTCTTGCAAAAACGCCGCTAAAAAC-ATAACCTTT
1 TAGCGGCGCTTTTTCCAAAAACGCCGCTAAAAACAATGACCTTT
41960752 TAAAAAAATT
Statistics
Matches: 145, Mismatches: 19, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
128 32 0.22
129 72 0.50
130 21 0.14
131 17 0.12
132 3 0.02
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (128 bp):
TAGCGGCGCTTTTTCCAAAAACGCCGCTAAAAACAATGACCTTTAGCGACACTTTTCCTACAAAC
ACCACTAAAGACCATGACCTTTAGCGGCGCTTTACCACAATCGCCGCTAAAGACTAGAACCTT
Found at i:41963313 original size:14 final size:15
Alignment explanation
Indices: 41963285--41963314 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
41963275 AAAACAAATG
41963285 CAATTTATATATTCA
1 CAATTTATATATTCA
41963300 CAATTTAT-TATTCA
1 CAATTTATATATTCA
41963314 C
1 C
41963315 CTCATAATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.47
Consensus pattern (15 bp):
CAATTTATATATTCA
Found at i:41964809 original size:37 final size:38
Alignment explanation
Indices: 41964714--41964840 Score: 123
Period size: 37 Copynumber: 3.3 Consensus size: 38
41964704 TAGGTTTTTT
* * *
41964714 GCGGCGCTTTTTGAAAATCGCCGCTAATGCT-AATTTTTA
1 GCGGCG-TTTTT-AAAAGCGCCGCTAATACTCAATCTTTA
* *
41964753 GCGGCGTTTTCCAAAAAGCGTCGCTAATACTCAATCTTTA
1 GCGGCGTTTT--TAAAAGCGCCGCTAATACTCAATCTTTA
* * * *
41964793 GTGGC-TTTTTAAAAGCGCCGCTAATGCTTAATTTTTA
1 GCGGCGTTTTTAAAAGCGCCGCTAATACTCAATCTTTA
41964830 GCGGCGTTTTT
1 GCGGCGTTTTT
41964841 TTATCCAAAC
Statistics
Matches: 72, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
37 27 0.38
38 9 0.12
39 25 0.35
40 11 0.15
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.36
Consensus pattern (38 bp):
GCGGCGTTTTTAAAAGCGCCGCTAATACTCAATCTTTA
Found at i:41967381 original size:14 final size:14
Alignment explanation
Indices: 41967359--41967389 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
41967349 CAAAAAAAAG
41967359 AAAGGAAATAAATA
1 AAAGGAAATAAATA
*
41967373 AAAGTAAATAAATA
1 AAAGGAAATAAATA
41967387 AAA
1 AAA
41967390 CTCCAGAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.16
Consensus pattern (14 bp):
AAAGGAAATAAATA
Found at i:42012502 original size:20 final size:20
Alignment explanation
Indices: 42012454--42012502 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
42012444 TTTAACTTAG
42012454 TTCAGCTCACTCGAGCTCAA
1 TTCAGCTCACTCGAGCTCAA
* * *
42012474 GTCAACTCATTCGAGCTCAA
1 TTCAGCTCACTCGAGCTCAA
42012494 TTCAGCTCA
1 TTCAGCTCA
42012503 ACCTTAACCC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.27, C:0.33, G:0.14, T:0.27
Consensus pattern (20 bp):
TTCAGCTCACTCGAGCTCAA
Found at i:42022179 original size:125 final size:125
Alignment explanation
Indices: 42021985--42022500 Score: 917
Period size: 125 Copynumber: 4.1 Consensus size: 125
42021975 CGCTTTCACT
* *
42021985 ACAGTAGGTCCT-GAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTC
1 ACAGTAGGTCTTGGAAAAAGTAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTC
42022049 TAGCAGGATGTTGTTTGATAAGAATTTGTGAAATCGCGGCCTCATGGACGCGCTTTTGCA
66 TAGCAGGATGTTGTTTGATAAGAATTTGTGAAATCGCGGCCTCATGGACGCGCTTTTGCA
42022109 ACAGTAGGTCTTGGAAAAAGTAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTC
1 ACAGTAGGTCTTGGAAAAAGTAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTC
42022174 TAGCAGGATGTTGTTTGATAAGAATTTGTGAAATCGCGGCCTCATGGACGCGCTTTTGCA
66 TAGCAGGATGTTGTTTGATAAGAATTTGTGAAATCGCGGCCTCATGGACGCGCTTTTGCA
42022234 ACAGTAGGTCTTGGAAAAAGTAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTC
1 ACAGTAGGTCTTGGAAAAAGTAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTC
42022299 TAGCAGGATGTTGTTTGATAAGAATTTGTGAAATCGCGGCCTCATGGACGCGCTTTTGCA
66 TAGCAGGATGTTGTTTGATAAGAATTTGTGAAATCGCGGCCTCATGGACGCGCTTTTGCA
42022359 ACAGTAGGTCTTGGAAAAAGTAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTC
1 ACAGTAGGTCTTGGAAAAAGTAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTC
* * * * * * * *
42022424 TAGCAGAATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACACGCTTTTGCT
66 TAGCAGGATGTTGTTTGATAAGAATTTGTGAAATCGCGGCCTCATGGACGCGCTTTTGCA
* *
42022484 ATAGTAGGTCCTGGAAA
1 ACAGTAGGTCTTGGAAA
42022501 TTGAGAGGAA
Statistics
Matches: 379, Mismatches: 12, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
124 11 0.03
125 368 0.97
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (125 bp):
ACAGTAGGTCTTGGAAAAAGTAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTC
TAGCAGGATGTTGTTTGATAAGAATTTGTGAAATCGCGGCCTCATGGACGCGCTTTTGCA
Found at i:42022800 original size:16 final size:16
Alignment explanation
Indices: 42022781--42022819 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
42022771 TCCCACGTTA
42022781 GGTTTTTGAATTTTAG
1 GGTTTTTGAATTTTAG
** *
42022797 GGTTTAGGATTTTTAG
1 GGTTTTTGAATTTTAG
42022813 GGTTTTT
1 GGTTTTT
42022820 AGGGTTTTGT
Statistics
Matches: 18, Mismatches: 5, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.28, T:0.56
Consensus pattern (16 bp):
GGTTTTTGAATTTTAG
Found at i:42022813 original size:9 final size:9
Alignment explanation
Indices: 42022791--42022827 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
42022781 GGTTTTTGAA
42022791 TTTTAGGG-
1 TTTTAGGGT
*
42022799 -TTTAGGAT
1 TTTTAGGGT
42022807 TTTTAGGGT
1 TTTTAGGGT
42022816 TTTTAGGGT
1 TTTTAGGGT
42022825 TTT
1 TTT
42022828 GTAGAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
7 6 0.24
9 19 0.76
ACGTcount: A:0.14, C:0.00, G:0.30, T:0.57
Consensus pattern (9 bp):
TTTTAGGGT
Found at i:42023119 original size:126 final size:126
Alignment explanation
Indices: 42022867--42023269 Score: 684
Period size: 126 Copynumber: 3.2 Consensus size: 126
42022857 CCACGTTTAC
* * * *
42022867 GCGCTTTCGCTATAGTAGGT-CTTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT
1 GCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT
42022931 AAAATCGCTTCTAGCAGGATGTTGTTTGATAAGAATTTGTGAAATCGCCGGCCTCGTGGAT
66 AAAATCGCTTCTAGCAGGATGTTGTTTGATAAGAATTTGTGAAATCGCCGGCCTCGTGGAT
42022992 GCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT
1 GCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT
42023057 AAAATCGCTTCTAGCAGGATGTTGTTTGATAAGAATTTGTGAAATCGCCGGCCTCGTGGAT
66 AAAATCGCTTCTAGCAGGATGTTGTTTGATAAGAATTTGTGAAATCGCCGGCCTCGTGGAT
42023118 GCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT
1 GCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT
* * * * ** * *
42023183 AAAATCGCTTCTAGCAGAATGCTATTTGAGAAGAATTTGTGAAAT-TTCGCCCTCGTGGAC
66 AAAATCGCTTCTAGCAGGATGTTGTTTGATAAGAATTTGTGAAATCGCCGGCCTCGTGGAT
42023243 GCGCTTTTGCTACAGTAGGTCCTGGAA
1 GCGCTTTTGCTACAGTAGGTCCTGGAA
42023270 ATTGAGAGGA
Statistics
Matches: 265, Mismatches: 12, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
125 56 0.21
126 209 0.79
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (126 bp):
GCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT
AAAATCGCTTCTAGCAGGATGTTGTTTGATAAGAATTTGTGAAATCGCCGGCCTCGTGGAT
Found at i:42024528 original size:25 final size:26
Alignment explanation
Indices: 42024499--42024559 Score: 79
Period size: 25 Copynumber: 2.3 Consensus size: 26
42024489 AAAATATCTT
**
42024499 TTAAAATTAAATATTTTAATTAATAA
1 TTAAAATTAAATATAATAATTAATAA
*
42024525 -TAAAATTGAATATAATAATTAATAA
1 TTAAAATTAAATATAATAATTAATAA
42024550 TTTAAAATTA
1 -TTAAAATTA
42024560 TTATTAGAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 22 0.76
27 7 0.24
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (26 bp):
TTAAAATTAAATATAATAATTAATAA
Found at i:42033659 original size:17 final size:17
Alignment explanation
Indices: 42033637--42033670 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
42033627 ATTCTTATAA
42033637 AAATATCTTTTAAATAT
1 AAATATCTTTTAAATAT
* *
42033654 AAATATTTTTTATATAT
1 AAATATCTTTTAAATAT
42033671 TTAAACCACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
AAATATCTTTTAAATAT
Found at i:42038848 original size:22 final size:21
Alignment explanation
Indices: 42038816--42038858 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
42038806 TGTTGATAAA
*
42038816 TTGATGAATTAGGCTT-GAAT
1 TTGATGAATTAAGCTTAGAAT
42038836 TTGATAGATATTAAGCTTAGAAT
1 TTGAT-GA-ATTAAGCTTAGAAT
42038859 ATGAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 5 0.26
21 2 0.11
22 8 0.42
23 4 0.21
ACGTcount: A:0.35, C:0.05, G:0.21, T:0.40
Consensus pattern (21 bp):
TTGATGAATTAAGCTTAGAAT
Found at i:42040125 original size:11 final size:11
Alignment explanation
Indices: 42040100--42040142 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
42040090 TTATGAAAAT
42040100 GAAACGGGTAA-
1 GAAAC-GGTAAC
*
42040111 GAAAAGGTAAC
1 GAAACGGTAAC
42040122 GAAACGGTAAC
1 GAAACGGTAAC
42040133 GAAACGGTAA
1 GAAACGGTAA
42040143 GTTTATAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
10 5 0.17
11 24 0.83
ACGTcount: A:0.49, C:0.12, G:0.30, T:0.09
Consensus pattern (11 bp):
GAAACGGTAAC
Found at i:42040323 original size:20 final size:20
Alignment explanation
Indices: 42040298--42040346 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
42040288 AAGCTTATGC
42040298 TAAGTAAATGAAATGGAAAG
1 TAAGTAAATGAAATGGAAAG
* * *
42040318 TAAGTAAATGGAGTGGTAAG
1 TAAGTAAATGAAATGGAAAG
*
42040338 AAAGTAAAT
1 TAAGTAAAT
42040347 AGAATGGTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.51, C:0.00, G:0.27, T:0.22
Consensus pattern (20 bp):
TAAGTAAATGAAATGGAAAG
Found at i:42040354 original size:20 final size:19
Alignment explanation
Indices: 42040299--42040354 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
42040289 AGCTTATGCT
* *
42040299 AAGTAAATGAAATGGAAAGT
1 AAGTAAATG-AATGGTAAGA
*
42040319 AAGTAAATGGAGTGGTAAGA
1 AAGTAAAT-GAATGGTAAGA
42040339 AAGTAAATAGAATGGT
1 AAGTAAAT-GAATGGT
42040355 TCATAGTCTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.50, C:0.00, G:0.29, T:0.21
Consensus pattern (19 bp):
AAGTAAATGAATGGTAAGA
Found at i:42053942 original size:39 final size:39
Alignment explanation
Indices: 42053889--42054015 Score: 202
Period size: 39 Copynumber: 3.3 Consensus size: 39
42053879 TAGATAATTG
* *
42053889 TTGTACTTCGGTACCCCTGATTGCACTTACGTTCCCCTA
1 TTGTACTTCGGTACCCCTGATTACACTTACGTGCCCCTA
*
42053928 TTGTACTTTGGTACCCCTGATTACACTTACGTGCCCCTA
1 TTGTACTTCGGTACCCCTGATTACACTTACGTGCCCCTA
*
42053967 TTGTACTTCGATACCCCT-AGTTACACTTACGTGCCCCTA
1 TTGTACTTCGGTACCCCTGA-TTACACTTACGTGCCCCTA
42054006 TTGTACTTCG
1 TTGTACTTCG
42054016 ATACACACGA
Statistics
Matches: 82, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
38 1 0.01
39 81 0.99
ACGTcount: A:0.17, C:0.31, G:0.15, T:0.36
Consensus pattern (39 bp):
TTGTACTTCGGTACCCCTGATTACACTTACGTGCCCCTA
Found at i:42055609 original size:21 final size:21
Alignment explanation
Indices: 42055580--42055621 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
42055570 CATGGCTAGT
* * *
42055580 AAATGAAATGGAATTGGATTG
1 AAATAAAATGAAATGGGATTG
42055601 AAATAAAATGAAATGGGATTG
1 AAATAAAATGAAATGGGATTG
42055622 GTGATTAACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (21 bp):
AAATAAAATGAAATGGGATTG
Found at i:42063751 original size:27 final size:28
Alignment explanation
Indices: 42063691--42063758 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 28
42063681 ATTAAGTACA
* *
42063691 CACCACAAAGGCTTTCCTTTCAGAGTCT
1 CACCACAAAGGCTATCCTTTAAGAGTCT
*
42063719 CGCCACAAAGGC-ATCCTTTAAGAGGT-T
1 CACCACAAAGGCTATCCTTTAAGA-GTCT
*
42063746 CACCACGAAGGCT
1 CACCACAAAGGCT
42063759 TACCCTTCTA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
27 20 0.61
28 13 0.39
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (28 bp):
CACCACAAAGGCTATCCTTTAAGAGTCT
Found at i:42063821 original size:28 final size:27
Alignment explanation
Indices: 42063691--42063822 Score: 72
Period size: 28 Copynumber: 4.7 Consensus size: 27
42063681 ATTAAGTACA
*
42063691 CACCACAAAGGCTTTCCTTT-CAGAGTCT
1 CACCACAAAGGCTTACCTTTACAG-GT-T
* * *
42063719 CGCCACAAAGGCAT-CCTTTAAGAGGTT
1 CACCACAAAGGCTTACCTTT-ACAGGTT
* * *
42063746 CACCACGAAGGCTTACCCTTCTAGAGTTT
1 CACCACAAAGGCTTA-CCTT-TACAGGTT
* * * *
42063775 TACCATAAATG-TTGTCCTTTAACAGGTT
1 CACCACAAAGGCTT-ACCTTT-ACAGGTT
*
42063803 CACCATAAAGGCTTACCTTT
1 CACCACAAAGGCTTACCTTT
42063823 TTGGAGTTTG
Statistics
Matches: 79, Mismatches: 17, Indels: 16
0.71 0.15 0.14
Matches are distributed among these distances:
27 18 0.23
28 39 0.49
29 21 0.27
30 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (27 bp):
CACCACAAAGGCTTACCTTTACAGGTT
Found at i:42063847 original size:57 final size:57
Alignment explanation
Indices: 42063732--42063852 Score: 145
Period size: 57 Copynumber: 2.1 Consensus size: 57
42063722 CACAAAGGCA
* * * *
42063732 TCCTTTAAGAGGTTCACCACGAAGGCTTACCCTTCTAGAGTTTTACCATAAATGTTG
1 TCCTTTAACAGGTTCACCACAAAGGCTTACCCTTCTAGAGTTTGACCACAAATGTTG
* * * * *
42063789 TCCTTTAACAGGTTCACCATAAAGGCTTACCTTTTTGGAGTTTGGCCACAAA-GCTTG
1 TCCTTTAACAGGTTCACCACAAAGGCTTACCCTTCTAGAGTTTGACCACAAATG-TTG
42063846 TCCTTTA
1 TCCTTTA
42063853 CTTGTTGTTT
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
56 1 0.02
57 53 0.98
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (57 bp):
TCCTTTAACAGGTTCACCACAAAGGCTTACCCTTCTAGAGTTTGACCACAAATGTTG
Found at i:42065283 original size:39 final size:38
Alignment explanation
Indices: 42065230--42065320 Score: 121
Period size: 39 Copynumber: 2.3 Consensus size: 38
42065220 GGCTTTTGGA
*
42065230 TAAAAACACCGCTATAGAT-AGAGCATTAGCGGCGCTTTT
1 TAAAAA-ACCGCTATAGATCA-AACATTAGCGGCGCTTTT
42065269 TAAAAAAGCCGCTATAGATCAAACATTAGCGGCGCTTTT
1 TAAAAAA-CCGCTATAGATCAAACATTAGCGGCGCTTTT
42065308 TGAAAAACACCGC
1 T-AAAAA-ACCGC
42065321 AAAAAATAAG
Statistics
Matches: 47, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
38 1 0.02
39 35 0.74
40 10 0.21
41 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (38 bp):
TAAAAAACCGCTATAGATCAAACATTAGCGGCGCTTTT
Found at i:42065887 original size:7 final size:7
Alignment explanation
Indices: 42065866--42066025 Score: 63
Period size: 7 Copynumber: 22.4 Consensus size: 7
42065856 TTAATTATCA
*
42065866 TTATAGT
1 TTATGGT
*
42065873 TTAGGGT
1 TTATGGT
42065880 TTATGGT
1 TTATGGT
* *
42065887 TGACGGT
1 TTATGGT
*
42065894 TTAAGGT
1 TTATGGT
*
42065901 TTAGGAGT
1 TTATG-GT
42065909 TACTAT--T
1 T--TATGGT
*
42065916 TTAAGGT
1 TTATGGT
*
42065923 TTATGGA
1 TTATGGT
42065930 TTATGGGT
1 TTAT-GGT
* *
42065938 TTAGGGA
1 TTATGGT
*
42065945 TTATGAT
1 TTATGGT
*
42065952 TTAAGGT
1 TTATGGT
42065959 TTATGGT
1 TTATGGT
* *
42065966 TTAAGGG
1 TTATGGT
42065973 TTATGGT
1 TTATGGT
*
42065980 TTAGGGGT
1 TTA-TGGT
*
42065988 TTAGGGT
1 TTATGGT
* * *
42065995 TCAGGGG
1 TTATGGT
*
42066002 TTATGTT
1 TTATGGT
*
42066009 TTATGAT
1 TTATGGT
*
42066016 TTAGGGT
1 TTATGGT
42066023 TTA
1 TTA
42066026 GGGAATAGAA
Statistics
Matches: 111, Mismatches: 35, Indels: 14
0.69 0.22 0.09
Matches are distributed among these distances:
5 2 0.02
7 93 0.84
8 14 0.13
10 2 0.02
ACGTcount: A:0.21, C:0.02, G:0.31, T:0.46
Consensus pattern (7 bp):
TTATGGT
Found at i:42065964 original size:29 final size:28
Alignment explanation
Indices: 42065934--42066055 Score: 104
Period size: 29 Copynumber: 4.3 Consensus size: 28
42065924 TATGGATTAT
42065934 GGGTTTAGGGATTATGATTTAAGGTTTA
1 GGGTTTAGGGATTATGATTTAAGGTTTA
* * *
42065962 TGGTTTAAGGG-TTATGGTTTAGGGGTTTA
1 GGGTTT-AGGGATTATGATTTA-AGGTTTA
* * * * *
42065991 GGGTTCAGGGGTTATGTTTTATGATTTA
1 GGGTTTAGGGATTATGATTTAAGGTTTA
* *
42066019 GGGTTTAGGGAATA-GAAATTAAAGGTTTA
1 GGGTTTAGGGATTATG--ATTTAAGGTTTA
42066048 GGGTTTAG
1 GGGTTTAG
42066056 ATTAATTAGT
Statistics
Matches: 74, Mismatches: 15, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
27 1 0.01
28 34 0.46
29 39 0.53
ACGTcount: A:0.24, C:0.01, G:0.34, T:0.41
Consensus pattern (28 bp):
GGGTTTAGGGATTATGATTTAAGGTTTA
Found at i:42069768 original size:23 final size:22
Alignment explanation
Indices: 42069725--42069768 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
42069715 TTCTAAGTCG
42069725 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
42069748 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
42069769 TTAGTTAATT
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:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:42069970 original size:51 final size:50
Alignment explanation
Indices: 42069903--42070098 Score: 232
Period size: 51 Copynumber: 3.9 Consensus size: 50
42069893 CAATGATGTT
* * *
42069903 CGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATC
* * * * *
42069954 CGATACACGTAGTAGCCTGCACATAGTACCACACACGTGATCGAAACTATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATC
* * * *
42070005 CGGTACGCATAGTAGCCTGCACATAGTACTACACATGTGACC-TATCATTC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TC
* *
42070055 CGGTACACGTAGTAGCCCGCATATAGTACTACACACGTGACCAT
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
42070099 CACTTTCACT
Statistics
Matches: 120, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
49 2 0.02
50 40 0.33
51 76 0.63
52 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (50 bp):
CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATACCATC
Found at i:42070118 original size:101 final size:99
Alignment explanation
Indices: 42069909--42070094 Score: 275
Period size: 101 Copynumber: 1.8 Consensus size: 99
42069899 TGTTCGGTTC
*
42069909 ACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATACACGTAGTAGCCTGC
1 ACATAGTAGCCTGCACATAGTACTACACATGTGACCA-TACCATCCGATACACGTAGTAGCCCGC
*
42069974 ACATAGTACCACACACGTGATCGAAACTATCCGGT
65 ACATAGTACCACACACGTGATCCAAACTATCCGGT
* *
42070009 ACGCATAGTAGCCTGCACATAGTACTACACATGTGACC-TATCATTCCGGTACACGTAGTAGCCC
1 A--CATAGTAGCCTGCACATAGTACTACACATGTGACCATACCA-TCCGATACACGTAGTAGCCC
* *
42070073 GCATATAGTACTACACACGTGA
63 GCACATAGTACCACACACGTGA
42070095 CCATCACTTT
Statistics
Matches: 78, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
100 5 0.06
101 38 0.49
102 35 0.45
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (99 bp):
ACATAGTAGCCTGCACATAGTACTACACATGTGACCATACCATCCGATACACGTAGTAGCCCGCA
CATAGTACCACACACGTGATCCAAACTATCCGGT
Found at i:42073802 original size:43 final size:43
Alignment explanation
Indices: 42073730--42073857 Score: 159
Period size: 43 Copynumber: 3.0 Consensus size: 43
42073720 CGCTAGTGGT
* * *
42073730 GTTTGTGATAAAAACGCCGTTAAATGTCATGTTCTTTAGCGGA
1 GTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGA
* * *
42073773 GTTTGTGATAAAAGCGTCGCTACAGGTCATGTTCTTTAGCGGC
1 GTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGA
* * *
42073816 GTTTATCGGT-AAAGCGCCGCTAAAGGTCATGTTCTTTGGCGG
1 GTTTGT-GATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGG
42073858 CATTTTCTTC
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
43 71 0.97
44 2 0.03
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (43 bp):
GTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGA
Found at i:42074479 original size:39 final size:39
Alignment explanation
Indices: 42074425--42074541 Score: 189
Period size: 39 Copynumber: 3.0 Consensus size: 39
42074415 AACGTGTTTT
* *
42074425 TGAGTATTATAATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
42074464 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
* * *
42074503 TGAGTATGGTGATATATGCTTAAATGTTATATGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
42074542 ATTGTAATGT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 73 1.00
ACGTcount: A:0.32, C:0.03, G:0.21, T:0.45
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
Found at i:42074554 original size:39 final size:39
Alignment explanation
Indices: 42074436--42074579 Score: 166
Period size: 39 Copynumber: 3.7 Consensus size: 39
42074426 GAGTATTATA
* * *
42074436 ATATATGCTTGAATGTTATGTGATTATATGAGTATTGTG
1 ATATATGCTTAAATGTTATATGATTATATGAGTAATGTG
* *
42074475 ATATATGCTTGAATGTTATGTGATTATATGAGT-ATGGTG
1 ATATATGCTTAAATGTTATATGATTATATGAGTAAT-GTG
*
42074514 ATATATGCTTAAATGTTATATGATTATAAT-TGTAATGTG
1 ATATATGCTTAAATGTTATATGATTAT-ATGAGTAATGTG
* * *
42074553 ATATGTGCTTAAAAGTGAATATGATTA
1 ATATATGCTTAAATGT-TATATGATTA
42074580 CCATGTAAGT
Statistics
Matches: 94, Mismatches: 7, Indels: 7
0.87 0.06 0.06
Matches are distributed among these distances:
38 1 0.01
39 80 0.85
40 13 0.14
ACGTcount: A:0.33, C:0.03, G:0.21, T:0.44
Consensus pattern (39 bp):
ATATATGCTTAAATGTTATATGATTATATGAGTAATGTG
Found at i:42074587 original size:39 final size:38
Alignment explanation
Indices: 42074511--42074591 Score: 92
Period size: 39 Copynumber: 2.1 Consensus size: 38
42074501 TATGAGTATG
* * *
42074511 GTGATATATGCTTAAATGTTATATGATTATAATTGTAA
1 GTGATATATGCTTAAAAGTAATATGATTACAATTGTAA
* *
42074549 TGTGATATGTGCTTAAAAGTGAATATGATTACCA-TGTAA
1 -GTGATATATGCTTAAAAGT-AATATGATTACAATTGTAA
42074588 GTGA
1 GTGA
42074592 ACTAGTAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
38 4 0.11
39 22 0.61
40 10 0.28
ACGTcount: A:0.36, C:0.05, G:0.20, T:0.40
Consensus pattern (38 bp):
GTGATATATGCTTAAAAGTAATATGATTACAATTGTAA
Found at i:42078180 original size:40 final size:40
Alignment explanation
Indices: 42078082--42079064 Score: 1765
Period size: 40 Copynumber: 24.6 Consensus size: 40
42078072 TCCTCGTTCA
* * * * *
42078082 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
42078121 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
42078161 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
42078201 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
42078241 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
42078281 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
42078321 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
42078361 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
42078401 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
42078441 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
42078481 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
42078521 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
42078561 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
42078601 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
42078641 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
42078681 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
42078721 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
42078761 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
42078801 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
42078841 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
42078881 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
42078921 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
42078961 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
42079001 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
42079041 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
42079065 CAGCATTCAA
Statistics
Matches: 920, Mismatches: 20, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
39 37 0.04
40 875 0.95
41 8 0.01
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:42080736 original size:53 final size:53
Alignment explanation
Indices: 42080644--42080772 Score: 186
Period size: 53 Copynumber: 2.4 Consensus size: 53
42080634 TCCTTAAAAT
* * *
42080644 TTCCTATATGATGCCATAACCCACTAGTTACAGTTTTACACAATATGGTCTTC
1 TTCCAATATGATGCCATAACCCAATAGTTACAGTCTTACACAATATGGTCTTC
* * *
42080697 TTCCCATATGATGTCATAACCCAATAGTTACGGTCTTACACAATATGGTCTTC
1 TTCCAATATGATGCCATAACCCAATAGTTACAGTCTTACACAATATGGTCTTC
* *
42080750 TTTCAATATGAGGCCATAACCCA
1 TTCCAATATGATGCCATAACCCA
42080773 CCAATTATGG
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 67 1.00
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.33
Consensus pattern (53 bp):
TTCCAATATGATGCCATAACCCAATAGTTACAGTCTTACACAATATGGTCTTC
Found at i:42080790 original size:53 final size:53
Alignment explanation
Indices: 42080644--42080798 Score: 150
Period size: 53 Copynumber: 2.9 Consensus size: 53
42080634 TCCTTAAAAT
* * * * **
42080644 TTCCTATATGATGCCATAACCC-ACTAGTTACAGTTTTACACAATATGGTCTTC
1 TTCCAATATGAGGCCATAACCCAAC-AATTACGGTCATACACAATATGGTCTTC
* * * * * *
42080697 TTCCCATATGATGTCATAACCCAATAGTTACGGTCTTACACAATATGGTCTTC
1 TTCCAATATGAGGCCATAACCCAACAATTACGGTCATACACAATATGGTCTTC
* * * *
42080750 TTTCAATATGAGGCCATAACCCACCAATTATGGTCATACACGATATGGT
1 TTCCAATATGAGGCCATAACCCAACAATTACGGTCATACACAATATGGT
42080799 TTTTCAGCGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
53 85 0.99
54 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.33
Consensus pattern (53 bp):
TTCCAATATGAGGCCATAACCCAACAATTACGGTCATACACAATATGGTCTTC
Found at i:42081868 original size:30 final size:30
Alignment explanation
Indices: 42081832--42081893 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
42081822 CCAATCGTTG
*
42081832 TCTATGCGCCCTATGAGTGCATTAGAAACA
1 TCTATGCGCCCTACGAGTGCATTAGAAACA
42081862 TCTATGCGCCCTACGAGTGCATTAGAAACA
1 TCTATGCGCCCTACGAGTGCATTAGAAACA
42081892 TC
1 TC
42081894 ATTCGGGTGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (30 bp):
TCTATGCGCCCTACGAGTGCATTAGAAACA
Found at i:42087012 original size:19 final size:20
Alignment explanation
Indices: 42086973--42087019 Score: 78
Period size: 19 Copynumber: 2.4 Consensus size: 20
42086963 AGGAGCAGTT
*
42086973 TTTCAATCGATTTATAAAAG
1 TTTCAATCGAGTTATAAAAG
42086993 TTTCAATCGAGTTA-AAAAG
1 TTTCAATCGAGTTATAAAAG
42087012 TTTCAATC
1 TTTCAATC
42087020 ATTTTTGAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (20 bp):
TTTCAATCGAGTTATAAAAG
Found at i:42096511 original size:17 final size:18
Alignment explanation
Indices: 42096491--42096575 Score: 63
Period size: 17 Copynumber: 4.8 Consensus size: 18
42096481 ATGATACATA
*
42096491 AAATATTTTAAA-AATTT
1 AAATATTATAAATAATTT
*
42096508 AAATATAATAAATAATTT
1 AAATATTATAAATAATTT
* *
42096526 -AATATTACTATAT-A-TG
1 AAATATTA-TAAATAATTT
42096542 AAATATT-TAAATAATTT
1 AAATATTATAAATAATTT
*
42096559 AATATAATGATAAATAA
1 AA-AT-ATTATAAATAA
42096576 ATTTTAATTT
Statistics
Matches: 52, Mismatches: 8, Indels: 13
0.71 0.11 0.18
Matches are distributed among these distances:
15 4 0.08
16 2 0.04
17 26 0.50
18 11 0.21
19 2 0.04
20 7 0.13
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.41
Consensus pattern (18 bp):
AAATATTATAAATAATTT
Found at i:42096520 original size:26 final size:26
Alignment explanation
Indices: 42096461--42096527 Score: 66
Period size: 27 Copynumber: 2.5 Consensus size: 26
42096451 AGTAATTAAT
*
42096461 ATAAATTATTTGAAAAATTAATGATAC
1 ATAAA-TATTTTAAAAATTAATGATAC
42096488 ATAAAATATTTTAAAAATTTAAAT-ATA-
1 AT-AAATATTTTAAAAA-TT-AATGATAC
*
42096515 ATAAATAATTTAA
1 ATAAATATTTTAA
42096528 TATTACTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
26 10 0.29
27 14 0.40
28 8 0.23
29 3 0.09
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (26 bp):
ATAAATATTTTAAAAATTAATGATAC
Found at i:42098417 original size:4 final size:4
Alignment explanation
Indices: 42098400--42099261 Score: 1715
Period size: 4 Copynumber: 215.5 Consensus size: 4
42098390 TACTTGTTGG
*
42098400 TACA TACG TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
42098448 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
42098496 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
42098544 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
42098592 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
42098640 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
42098688 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
42098736 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
42098784 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
42098832 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
42098880 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
42098928 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
42098976 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
42099024 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
42099072 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
42099120 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
42099168 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
42099216 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TA
42099262 TTTAAATCTG
Statistics
Matches: 856, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 856 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
TACA
Found at i:42105390 original size:76 final size:76
Alignment explanation
Indices: 42105264--42105450 Score: 374
Period size: 76 Copynumber: 2.5 Consensus size: 76
42105254 TAAGTTAGGA
42105264 AAGATACTAATATTAGGAGATATGATCCCTTAAAATAAGGGATTGTAATAAAAAAGAAAACACAT
1 AAGATACTAATATTAGGAGATATGATCCCTTAAAATAAGGGATTGTAATAAAAAAGAAAACACAT
42105329 GACTTTCCTGT
66 GACTTTCCTGT
42105340 AAGATACTAATATTAGGAGATATGATCCCTTAAAATAAGGGATTGTAATAAAAAAGAAAACACAT
1 AAGATACTAATATTAGGAGATATGATCCCTTAAAATAAGGGATTGTAATAAAAAAGAAAACACAT
42105405 GACTTTCCTGT
66 GACTTTCCTGT
42105416 AAGATACTAATATTAGGAGATATGATCCCTTAAAA
1 AAGATACTAATATTAGGAGATATGATCCCTTAAAA
42105451 AGATTAGTTG
Statistics
Matches: 111, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 111 1.00
ACGTcount: A:0.45, C:0.12, G:0.16, T:0.28
Consensus pattern (76 bp):
AAGATACTAATATTAGGAGATATGATCCCTTAAAATAAGGGATTGTAATAAAAAAGAAAACACAT
GACTTTCCTGT
Found at i:42106252 original size:15 final size:15
Alignment explanation
Indices: 42106232--42106261 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
42106222 TATTAGTATC
*
42106232 TTTCCTAACTTAGAG
1 TTTCCTAAATTAGAG
42106247 TTTCCTAAATTAGAG
1 TTTCCTAAATTAGAG
42106262 AAATAATTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (15 bp):
TTTCCTAAATTAGAG
Found at i:42114916 original size:34 final size:34
Alignment explanation
Indices: 42114873--42114940 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
42114863 CGATGGCATT
*
42114873 CATAACTCATCGACGATTGCTATTCGCCAACTTA
1 CATAACTCATCGACGATTACTATTCGCCAACTTA
* *
42114907 CATAACTCATTGACGATTACTATTCGCTAACTTA
1 CATAACTCATCGACGATTACTATTCGCCAACTTA
42114941 ACACGACACA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.32
Consensus pattern (34 bp):
CATAACTCATCGACGATTACTATTCGCCAACTTA
Found at i:42120086 original size:35 final size:36
Alignment explanation
Indices: 42120040--42120108 Score: 131
Period size: 35 Copynumber: 1.9 Consensus size: 36
42120030 TGTCAGTCGT
42120040 TTCAATATCCAACAAGCTTAAAACATAAT-AATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATCAATAAA
42120075 TTCAATATCCAACAAGCTTAAAACATAATCAATA
1 TTCAATATCCAACAAGCTTAAAACATAATCAATA
42120109 TCTAACAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 29 0.88
36 4 0.12
ACGTcount: A:0.52, C:0.19, G:0.03, T:0.26
Consensus pattern (36 bp):
TTCAATATCCAACAAGCTTAAAACATAATCAATAAA
Found at i:42121922 original size:33 final size:33
Alignment explanation
Indices: 42121885--42121951 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
42121875 TGCAATCGTT
42121885 AGGGTAAAGAGAGTGAAAAGAGGAGCTGTGGAA
1 AGGGTAAAGAGAGTGAAAAGAGGAGCTGTGGAA
* * *
42121918 AGGGTGAAGAGAGTGAAGAGATGAGCTGTGGAA
1 AGGGTAAAGAGAGTGAAAAGAGGAGCTGTGGAA
42121951 A
1 A
42121952 ATGTCTTACC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.40, C:0.03, G:0.43, T:0.13
Consensus pattern (33 bp):
AGGGTAAAGAGAGTGAAAAGAGGAGCTGTGGAA
Found at i:42129300 original size:13 final size:13
Alignment explanation
Indices: 42129282--42129312 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
42129272 AGAGAATGCG
*
42129282 TAAAACATATCTT
1 TAAAACATAACTT
42129295 TAAAACATAACTT
1 TAAAACATAACTT
42129308 TAAAA
1 TAAAA
42129313 ACGTATACTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAAACATAACTT
Found at i:42130466 original size:27 final size:27
Alignment explanation
Indices: 42130400--42130500 Score: 82
Period size: 27 Copynumber: 3.7 Consensus size: 27
42130390 AACATGTTAG
* * *
42130400 GAAA-GAAAATCCTTTATGGTGTAAAAT
1 GAAAGGAAAA-CCTTTGTGGCGTAATAT
*
42130427 GAAAGAAAAACCTTTGTGGCGTAATAT
1 GAAAGGAAAACCTTTGTGGCGTAATAT
* * *
42130454 GAAAGGAACACCTCTGTAGG-ATAATAT
1 GAAAGGAAAACCTTTGT-GGCGTAATAT
*
42130481 GAAA-GAATAGCCTTTGTGGC
1 GAAAGGAA-AACCTTTGTGGC
42130501 AAACTCTGAA
Statistics
Matches: 59, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
26 5 0.08
27 48 0.81
28 6 0.10
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.26
Consensus pattern (27 bp):
GAAAGGAAAACCTTTGTGGCGTAATAT
Found at i:42133558 original size:50 final size:50
Alignment explanation
Indices: 42133410--42133639 Score: 234
Period size: 50 Copynumber: 4.6 Consensus size: 50
42133400 GATAATAACA
* ** *
42133410 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGT-TTCATGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACATCTT-ATAT-CGG
* * * ** ** *
42133459 TG-CAATGCTATATCCCAGATGTGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACATCTTATATCGG
* * *
42133508 TGCCCACGCCATGTCCTAGACATGGTCTTACATGGGACATCTTATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACATCTTATATCGG
* * **
42133558 TGCCAACACCATGTCCCAGACATGGTCTTACATGGGACCTCTTATATCAA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACATCTTATATCGG
*
42133608 TGCCAACGCCATGTCCCAGACAAGGTCTTACA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACA
42133640 GGAGACCTCT
Statistics
Matches: 148, Mismatches: 29, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
47 1 0.01
48 33 0.22
49 5 0.03
50 109 0.74
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACATCTTATATCGG
Found at i:42137832 original size:24 final size:24
Alignment explanation
Indices: 42137804--42137853 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
42137794 ACATGCTGAA
42137804 CATTTTTCCCTTCTATGACAACAT
1 CATTTTTCCCTTCTATGACAACAT
42137828 CATTTTTCCCTTCTATGACAACAT
1 CATTTTTCCCTTCTATGACAACAT
42137852 CA
1 CA
42137854 AATTCTTACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.26, C:0.30, G:0.04, T:0.40
Consensus pattern (24 bp):
CATTTTTCCCTTCTATGACAACAT
Found at i:42140760 original size:29 final size:29
Alignment explanation
Indices: 42140718--42140788 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
42140708 AAAGAGGGGA
** * * *
42140718 AAGTATCCATCAAGCGAAGTTCGCAAATC
1 AAGTATCCGCCAAGCGAAATCCACAAATC
* *
42140747 AAGTATCCGCCAAGTGAAATCCACAAGTC
1 AAGTATCCGCCAAGCGAAATCCACAAATC
*
42140776 ACGTATCCGCCAA
1 AAGTATCCGCCAA
42140789 ATGCGCCTAT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.37, C:0.28, G:0.17, T:0.18
Consensus pattern (29 bp):
AAGTATCCGCCAAGCGAAATCCACAAATC
Found at i:42145129 original size:91 final size:91
Alignment explanation
Indices: 42144971--42145152 Score: 319
Period size: 91 Copynumber: 2.0 Consensus size: 91
42144961 TCTTTTCATT
* * *
42144971 AATTTCCATATCAAATATTAACTTTTCCTTCATAAGAATCATTTATCTAACTCATTTTTCAATTT
1 AATTTCCATATCAAATATTAACTTTGCCTTCAAAAGAATCATTTATCTAACTCATTTTTCAAATT
42145036 TCTAGTCAATTCACTATATCCGCTTC
66 TCTAGTCAATTCACTATATCCGCTTC
*
42145062 AATTTCCATATCAAATATTAACTTTGCCTTCAAAAGAATCATTTATCTAACTCATTTTTTAAATT
1 AATTTCCATATCAAATATTAACTTTGCCTTCAAAAGAATCATTTATCTAACTCATTTTTCAAATT
*
42145127 TCTAGTCAATTCACTATATCTGCTTC
66 TCTAGTCAATTCACTATATCCGCTTC
42145153 TTGAATAATG
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
91 86 1.00
ACGTcount: A:0.32, C:0.21, G:0.04, T:0.43
Consensus pattern (91 bp):
AATTTCCATATCAAATATTAACTTTGCCTTCAAAAGAATCATTTATCTAACTCATTTTTCAAATT
TCTAGTCAATTCACTATATCCGCTTC
Found at i:42157828 original size:27 final size:26
Alignment explanation
Indices: 42157761--42157858 Score: 133
Period size: 28 Copynumber: 3.6 Consensus size: 26
42157751 TAATGAGATT
42157761 AGCACTAAGTGTGCGAGTTTAATTGAA
1 AGCACTAAGTGTGCGAGTTTAATT-AA
*
42157788 ATGCACTAAGTGTGCGAGTATAATGTAA
1 A-GCACTAAGTGTGCGAGTTTAAT-TAA
*
42157816 AGCACTAAGTGTGCGAGTTTGATTATTA
1 AGCACTAAGTGTGCGAGTTTAATTA--A
42157844 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
42157859 TACTTATTAA
Statistics
Matches: 64, Mismatches: 3, Indels: 7
0.86 0.04 0.09
Matches are distributed among these distances:
26 2 0.03
27 21 0.33
28 40 0.62
29 1 0.02
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.30
Consensus pattern (26 bp):
AGCACTAAGTGTGCGAGTTTAATTAA
Found at i:42158911 original size:47 final size:47
Alignment explanation
Indices: 42158845--42159461 Score: 763
Period size: 47 Copynumber: 13.1 Consensus size: 47
42158835 CCAAATTTGA
42158845 TGTCC-ATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGC
1 TGTCCAATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGC
* *
42158891 TGTCCAATTTTGAATGTATTGATGCTGTCCATTTTAATGTATAATGC
1 TGTCCAATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGC
*
42158938 TGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGC
1 TGTCCAATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGC
* * *
42158985 TGTCCGATTATGAGTGTATTGATGCTGTCCATTTTAATGTATAATGC
1 TGTCCAATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGC
* * * * * * *
42159032 TGTCCGATTATGAGTATATTTAAGCTGTCTAATTTGATGTATAATGC
1 TGTCCAATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGC
*
42159079 TGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGC
1 TGTCCAATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGC
* * * * * * *
42159126 TGTCCGATTATGAGTATATTTAAGCTGTCTAATTTGATGTATAATGC
1 TGTCCAATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGC
*
42159173 TGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGC
1 TGTCCAATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGC
* * * * * * *
42159220 TGTCCGATTATGAGTATATTTAAGCTGTCTAATTTGATGTATAATGC
1 TGTCCAATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGC
*
42159267 TGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGC
1 TGTCCAATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGC
* * * * * * *
42159314 TGTCCGATTATGAGTATATTTAAGCTGTCTAATTTGATGTATAATGC
1 TGTCCAATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGC
* * * * *
42159361 TGTCCAATTTTGAGTATATTTAAGCTGTCTAATTTGATGTATAATGC
1 TGTCCAATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGC
* * * ** *
42159408 TGTCC-ATTTTGAGCAGATT-ATTGCTGTCCAATTTGTTGAATAATTGC
1 TGTCCAATTTTGAGTATATTGA-TGCTGTCCATTTTAATGTATAA-TGC
42159455 TGTCCAA
1 TGTCCAA
42159462 AACAGGGTTG
Statistics
Matches: 500, Mismatches: 67, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
45 1 0.00
46 35 0.07
47 463 0.93
48 1 0.00
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (47 bp):
TGTCCAATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGC
Found at i:42158958 original size:94 final size:94
Alignment explanation
Indices: 42158845--42159461 Score: 925
Period size: 94 Copynumber: 6.6 Consensus size: 94
42158835 CCAAATTTGA
* * * * * * *
42158845 TGTCC-ATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGCTGTCCAATTTTGAATGTA
1 TGTCCGATTATGAGTATATTTAAGCTGTCTAATTTGATGTATAATGCTGTCCAATTTTGAGTGTA
42158909 TTGATGCTGTCCATTTTAATGTATAATGC
66 TTGATGCTGTCCATTTTAATGTATAATGC
* * * * * * * * * *
42158938 TGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGCTGTCCGATTATGAGTGTA
1 TGTCCGATTATGAGTATATTTAAGCTGTCTAATTTGATGTATAATGCTGTCCAATTTTGAGTGTA
42159003 TTGATGCTGTCCATTTTAATGTATAATGC
66 TTGATGCTGTCCATTTTAATGTATAATGC
42159032 TGTCCGATTATGAGTATATTTAAGCTGTCTAATTTGATGTATAATGCTGTCCAATTTTGAGTGTA
1 TGTCCGATTATGAGTATATTTAAGCTGTCTAATTTGATGTATAATGCTGTCCAATTTTGAGTGTA
42159097 TTGATGCTGTCCATTTTAATGTATAATGC
66 TTGATGCTGTCCATTTTAATGTATAATGC
42159126 TGTCCGATTATGAGTATATTTAAGCTGTCTAATTTGATGTATAATGCTGTCCAATTTTGAGTGTA
1 TGTCCGATTATGAGTATATTTAAGCTGTCTAATTTGATGTATAATGCTGTCCAATTTTGAGTGTA
42159191 TTGATGCTGTCCATTTTAATGTATAATGC
66 TTGATGCTGTCCATTTTAATGTATAATGC
42159220 TGTCCGATTATGAGTATATTTAAGCTGTCTAATTTGATGTATAATGCTGTCCAATTTTGAGTGTA
1 TGTCCGATTATGAGTATATTTAAGCTGTCTAATTTGATGTATAATGCTGTCCAATTTTGAGTGTA
42159285 TTGATGCTGTCCATTTTAATGTATAATGC
66 TTGATGCTGTCCATTTTAATGTATAATGC
*
42159314 TGTCCGATTATGAGTATATTTAAGCTGTCTAATTTGATGTATAATGCTGTCCAATTTTGAGTATA
1 TGTCCGATTATGAGTATATTTAAGCTGTCTAATTTGATGTATAATGCTGTCCAATTTTGAGTGTA
* * * * *
42159379 TTTAAGCTGTCTAATTTGATGTATAATGC
66 TTGATGCTGTCCATTTTAATGTATAATGC
* * * * * * *
42159408 TGTCC-ATTTTGAGCAGA-TTATTGCTGTCCAATTTGTTGAATAATTGCTGTCCAA
1 TGTCCGATTATGAGTATATTTA-AGCTGTCTAATTTGATGTATAA-TGCTGTCCAA
42159462 AACAGGGTTG
Statistics
Matches: 494, Mismatches: 27, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
92 3 0.01
93 32 0.06
94 459 0.93
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (94 bp):
TGTCCGATTATGAGTATATTTAAGCTGTCTAATTTGATGTATAATGCTGTCCAATTTTGAGTGTA
TTGATGCTGTCCATTTTAATGTATAATGC
Found at i:42160294 original size:15 final size:14
Alignment explanation
Indices: 42160273--42160312 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 14
42160263 GAAATAGGCA
42160273 AGAAGAAGGAAAAG
1 AGAAGAAGGAAAAG
42160287 AGGAAGAAGGAAAAG
1 A-GAAGAAGGAAAAG
42160302 AGAACGAAGGA
1 AGAA-GAAGGA
42160313 GGTGAAAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.17
15 20 0.83
ACGTcount: A:0.60, C:0.03, G:0.38, T:0.00
Consensus pattern (14 bp):
AGAAGAAGGAAAAG
Found at i:42171046 original size:50 final size:50
Alignment explanation
Indices: 42170973--42171160 Score: 205
Period size: 50 Copynumber: 3.6 Consensus size: 50
42170963 TCTTATACTA
* * * **
42170973 CCAACGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
* * *
42171023 CCCATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATCTCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
** ** *
42171073 CCAACACCATGTCCCAGACATGGTCTTATGTGGGACCTCTCATAATCTCAAAGATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GGTG
42171129 CCAATGCCATGTCCCAGACATGGTCTTACATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATG
42171161 AGATCTCTTT
Statistics
Matches: 114, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
50 81 0.71
53 2 0.02
56 31 0.27
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
Found at i:42174260 original size:25 final size:25
Alignment explanation
Indices: 42174222--42174278 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
42174212 TCATGTACAT
* *
42174222 GTATGCTCATACGAGCTGTGAATCG
1 GTATGCTCATACGAGCTATAAATCG
*
42174247 GTATGCTC-TCACGAGCTATAAATTG
1 GTATGCTCAT-ACGAGCTATAAATCG
42174272 GTATGCT
1 GTATGCT
42174279 TACATGAGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 1 0.04
25 27 0.96
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (25 bp):
GTATGCTCATACGAGCTATAAATCG
Found at i:42183154 original size:21 final size:21
Alignment explanation
Indices: 42183128--42183167 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
42183118 TTTAGAAACT
* *
42183128 TCTTCTTCAGCAACAACTTTC
1 TCTTCTGCAACAACAACTTTC
42183149 TCTTCTGCAACAACAACTT
1 TCTTCTGCAACAACAACTT
42183168 CTTTATTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.33, G:0.05, T:0.35
Consensus pattern (21 bp):
TCTTCTGCAACAACAACTTTC
Found at i:42193167 original size:25 final size:25
Alignment explanation
Indices: 42193115--42193209 Score: 100
Period size: 25 Copynumber: 3.8 Consensus size: 25
42193105 TCATGTACAT
* * *
42193115 GTATGCTCATACGAGCTATGAATTA
1 GTATGCTCACACGAGCTATAAATCA
* * *
42193140 GTATGCTCACTCGAGCTGTAGATCA
1 GTATGCTCACACGAGCTATAAATCA
* * *
42193165 GTATGCTCTCACGTGCTATAAATCG
1 GTATGCTCACACGAGCTATAAATCA
*
42193190 GTATGCTCACACAAGCTATA
1 GTATGCTCACACGAGCTATA
42193210 GGTCAAAGTG
Statistics
Matches: 55, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 55 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (25 bp):
GTATGCTCACACGAGCTATAAATCA
Found at i:42197722 original size:45 final size:45
Alignment explanation
Indices: 42197652--42197737 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 45
42197642 AGATACTCCA
* * *
42197652 TGGATTCAGCACATAACAACTACCTTATTAATCAATGATGTCTGG
1 TGGAATCAGCACATAACAACCACCTTACTAATCAATGATGTCTGG
*
42197697 TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
1 TGGAATCAGCACATAACAACCACCTTACTAATCAATGATGT
42197738 TCAGTTCACA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (45 bp):
TGGAATCAGCACATAACAACCACCTTACTAATCAATGATGTCTGG
Found at i:42197806 original size:51 final size:50
Alignment explanation
Indices: 42197739--42197934 Score: 223
Period size: 51 Copynumber: 3.9 Consensus size: 50
42197729 CAATGATGTT
* * *
42197739 CAGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATC
1 CAGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATC
* * * *
42197790 CAATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTATC
1 CAGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATC
* * * * * * *
42197841 CGGTACGCATAGTAGCCTACACATAGTACTACACATGCGACC-TATCATTC
1 CAGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TC
*
42197891 CAGTGCACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 CAGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
42197935 CACTTTCACT
Statistics
Matches: 117, Mismatches: 25, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
49 2 0.02
50 38 0.32
51 75 0.64
52 2 0.02
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (50 bp):
CAGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATACCATC
Done.