Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 134 of 235
Found at i:45306863 original size:21 final size:20
Alignment explanation
Indices: 45306839--45306890 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 20
45306829 AGGTTTTTCA
45306839 AGAATTTTTTTCATAAATTTT
1 AGAATTTTTTTCAT-AATTTT
*
45306860 AGAATTTTTTTTATAATTTT
1 AGAATTTTTTTCATAATTTT
45306880 A-AATTATTTTT
1 AGAATT-TTTTT
45306891 TGACGTGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 4 0.14
20 12 0.41
21 13 0.45
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.62
Consensus pattern (20 bp):
AGAATTTTTTTCATAATTTT
Found at i:45306877 original size:20 final size:21
Alignment explanation
Indices: 45306839--45306891 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
45306829 AGGTTTTTCA
*
45306839 AGAATTTTTTTCATAAATTTT
1 AGAATTTTTTTTATAAATTTT
45306860 AGAATTTTTTTTAT-AATTTT
1 AGAATTTTTTTTATAAATTTT
45306880 A-AATTATTTTTT
1 AGAATT-TTTTTT
45306892 GACGTGAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 4 0.13
20 13 0.43
21 13 0.43
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (21 bp):
AGAATTTTTTTTATAAATTTT
Found at i:45308280 original size:20 final size:19
Alignment explanation
Indices: 45308257--45308301 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
45308247 TGAAAAATAA
45308257 ATATTATACATATAAA-AATT
1 ATATT-TAC-TATAAATAATT
45308277 ATATTTACTATAAATAATT
1 ATATTTACTATAAATAATT
*
45308296 ACATTT
1 ATATTT
45308302 GCAATAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 6 0.26
19 12 0.52
20 5 0.22
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (19 bp):
ATATTTACTATAAATAATT
Found at i:45309944 original size:42 final size:42
Alignment explanation
Indices: 45309893--45310223 Score: 355
Period size: 42 Copynumber: 7.9 Consensus size: 42
45309883 GTTTACAAAC
* *
45309893 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
45309935 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
45309977 AAAAA-GCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTGTAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG-AA
* * * *
45310018 AAAAATGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGGA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
45310060 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA-AGG
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGA-A
* * * ****
45310102 GAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTTTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-CTTAGAA
** * * * ****
45310145 CTAATCGCCGCTAAAGAACATGTTCTTTAGTGGC-ATTTTTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
* * *
45310186 ACAAACGCCGCAAAAGAACATGTTCTTTAGTGGCGCTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTT
45310224 TTATACAAAA
Statistics
Matches: 252, Mismatches: 30, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
40 3 0.01
41 71 0.28
42 144 0.57
43 34 0.13
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
Found at i:45310052 original size:125 final size:126
Alignment explanation
Indices: 45309904--45310139 Score: 411
Period size: 125 Copynumber: 1.9 Consensus size: 126
45309894 AAAACGCCGT
*
45309904 TAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGC
1 TAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGC
45309969 GCTT-AGAAAAAAAGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAAAATGCCAC
66 GCTTAAGAAAAAAAGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAAAATGCCAC
*
45310029 TAAAGACCATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGC
1 TAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGC
** * *
45310094 GCTTAAGGGAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTT
66 GCTTAAGAAAAAAAGCCGCTAAAGAACATGTTCTTTAGCGGCGTTT
45310140 TTTTTCTAAT
Statistics
Matches: 104, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
125 67 0.64
126 37 0.36
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.25
Consensus pattern (126 bp):
TAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGC
GCTTAAGAAAAAAAGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAAAATGCCAC
Found at i:45310315 original size:14 final size:14
Alignment explanation
Indices: 45310292--45310325 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
45310282 GCCCTCCTGT
*
45310292 AGCAAAATTTCAAA
1 AGCAACATTTCAAA
45310306 AGCAACATTTCAAA
1 AGCAACATTTCAAA
45310320 AGCAAC
1 AGCAAC
45310326 CAATAGCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.53, C:0.21, G:0.09, T:0.18
Consensus pattern (14 bp):
AGCAACATTTCAAA
Found at i:45310617 original size:21 final size:21
Alignment explanation
Indices: 45310550--45310619 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
45310540 TTTGCTCTGT
* *
45310550 TCTGCTTCTCTTGCTGCAGCC
1 TCTGCTTCCCTCGCTGCAGCC
* *
45310571 TCCGCTTCCCTCGCTGCAGTC
1 TCTGCTTCCCTCGCTGCAGCC
* * *
45310592 GCTGCTTCCCTCGCTTCCGCC
1 TCTGCTTCCCTCGCTGCAGCC
45310613 TCTGCTT
1 TCTGCTT
45310620 TAAGTTGTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.03, C:0.44, G:0.19, T:0.34
Consensus pattern (21 bp):
TCTGCTTCCCTCGCTGCAGCC
Found at i:45316118 original size:11 final size:9
Alignment explanation
Indices: 45316070--45316158 Score: 66
Period size: 9 Copynumber: 10.0 Consensus size: 9
45316060 AATTGCAATG
45316070 GTAAGTTAT
1 GTAAGTTAT
45316079 GTAAGTTAT
1 GTAAGTTAT
45316088 GTAAGTTAAAT
1 GTAAGTT--AT
45316099 GT-A-TTAT
1 GTAAGTTAT
45316106 GTAAGTTAAAT
1 GTAAGTT--AT
45316117 GTAAG-T-T
1 GTAAGTTAT
45316124 GTAAGTTAT
1 GTAAGTTAT
*
45316133 -TATGTATTAT
1 GTAAG--TTAT
45316143 GTAAG-T-T
1 GTAAGTTAT
45316150 GTAAGTTAT
1 GTAAGTTAT
45316159 TATGTATTGT
Statistics
Matches: 65, Mismatches: 2, Indels: 26
0.70 0.02 0.28
Matches are distributed among these distances:
7 16 0.25
8 7 0.11
9 22 0.34
10 6 0.09
11 14 0.22
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:45316149 original size:26 final size:26
Alignment explanation
Indices: 45316115--45316419 Score: 318
Period size: 26 Copynumber: 12.1 Consensus size: 26
45316105 TGTAAGTTAA
45316115 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
45316141 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
45316167 GTGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
45316193 GTGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
45316218 ATGTAAG-T-TAAATGTATAATGTATT
1 ATGTAAGTTGTAAGT-TATTATGTATT
45316243 ATGTAAG-T-T-A---A--ATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
45316261 ATGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* * *
45316286 ATGTAAGGTATTGTGTAAGTT-GTAAGT-TA
1 ATGTAA-G---T-TGTAAGTTATTATGTATT
* *
45316315 ATGT-ATTATGTAAGTTA-AATGTATT
1 ATGTAAGT-TGTAAGTTATTATGTATT
45316340 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
45316366 ATGTAAGTTGGAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
45316392 GTGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
45316418 AT
1 AT
45316420 TTATTTAATG
Statistics
Matches: 242, Mismatches: 18, Indels: 38
0.81 0.06 0.13
Matches are distributed among these distances:
18 14 0.06
19 1 0.00
20 2 0.01
21 1 0.00
23 4 0.02
24 17 0.07
25 57 0.24
26 128 0.53
28 1 0.00
29 6 0.02
30 11 0.05
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (26 bp):
ATGTAAGTTGTAAGTTATTATGTATT
Found at i:45316222 original size:18 final size:18
Alignment explanation
Indices: 45316201--45316348 Score: 102
Period size: 18 Copynumber: 7.4 Consensus size: 18
45316191 TTGTGTAAGT
45316201 TGTAAGTTAAATGTATTA
1 TGTAAGTTAAATGTATTA
45316219 TGTAAGTTAAATGTATAATGTATTA
1 TGTAAG-----T-TA-AATGTATTA
45316244 TGTAAGTTAAATGTATTATGTAA
1 TGTAAGTTAAATG---TAT-T-A
45316267 GTTGTAAGTTAAATGTATTA
1 --TGTAAGTTAAATGTATTA
* * * *
45316287 TGTAAGGT-ATTGTGTAA
1 TGTAAGTTAAATGTATTA
45316304 GTTGTAAGTT-AATGTATTA
1 --TGTAAGTTAAATGTATTA
45316323 TGTAAGTTAAATGTATTA
1 TGTAAGTTAAATGTATTA
45316341 TGTAAGTT
1 TGTAAGTT
45316349 GTAAGTTATT
Statistics
Matches: 105, Mismatches: 8, Indels: 34
0.71 0.05 0.23
Matches are distributed among these distances:
17 14 0.13
18 34 0.32
19 15 0.14
20 2 0.02
21 4 0.04
22 4 0.04
23 2 0.02
24 2 0.02
25 28 0.27
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.45
Consensus pattern (18 bp):
TGTAAGTTAAATGTATTA
Found at i:45316431 original size:68 final size:66
Alignment explanation
Indices: 45316160--45316431 Score: 213
Period size: 68 Copynumber: 4.1 Consensus size: 66
45316150 GTAAGTTATT
* * *
45316160 ATGTATTGTGTAAGTTGTAAGTTATTATGTATTGTGTAAGTTGTAAGTTAAATGTATTATGTAAG
1 ATGTATTATGTAAGTTGTAAGTTA-TATGTATTATGTAAGTTGTAAGTTAAATGTA-TAT-TTAG
*
45316225 TTAA
63 TTTA
* * * *
45316229 ATGTATAATGT-ATTATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTAAATG--TA-TTA-TG
1 ATGTATTATGTAAGT-TGTAAGTTATATGTATTATGTAAGTTGTAAGTTAAATGTATATTTAGTT
45316289 TA
65 TA
* * * *
45316291 AGGTATTGTGTAAGTTGTAAGTTA-ATGTATTATGTAAG-T-TAAATGTATTATGTA-AGTTGTA
1 ATGTATTATGTAAGTTGTAAGTTATATGTATTATGTAAGTTGTAAGT-TA-AATGTATA-TT-T-
*
45316352 AGTTATT
61 AGTT-TA
* * *
45316359 ATGTATTATGTAAGTTGGAAGTTATTATGTATTGTGTAAGTTGTAAGTTATTATGTATTATTTA-
1 ATGTATTATGTAAGTTGTAAGTTA-TATGTATTATGTAAGTTGTAAGTTA-AATGTA-TATTTAG
45316423 TTTA
63 TTTA
45316427 ATGTA
1 ATGTA
45316432 AGTTAAATGT
Statistics
Matches: 163, Mismatches: 22, Indels: 37
0.73 0.10 0.17
Matches are distributed among these distances:
59 4 0.02
60 3 0.02
61 17 0.10
62 20 0.12
63 4 0.02
64 1 0.01
65 3 0.02
66 1 0.01
67 1 0.01
68 57 0.35
69 20 0.12
70 14 0.09
71 11 0.07
72 6 0.04
73 1 0.01
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (66 bp):
ATGTATTATGTAAGTTGTAAGTTATATGTATTATGTAAGTTGTAAGTTAAATGTATATTTAGTTT
A
Found at i:45316880 original size:13 final size:13
Alignment explanation
Indices: 45316862--45316906 Score: 72
Period size: 13 Copynumber: 3.5 Consensus size: 13
45316852 ATTTATAATT
45316862 ATTTAAGTAATAA
1 ATTTAAGTAATAA
* *
45316875 ATTTAAGTAACAT
1 ATTTAAGTAATAA
45316888 ATTTAAGTAATAA
1 ATTTAAGTAATAA
45316901 ATTTAA
1 ATTTAA
45316907 ACAAATTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40
Consensus pattern (13 bp):
ATTTAAGTAATAA
Found at i:45316914 original size:23 final size:25
Alignment explanation
Indices: 45316862--45316920 Score: 77
Period size: 26 Copynumber: 2.4 Consensus size: 25
45316852 ATTTATAATT
*
45316862 ATTTAAGTAATAAATTTAAGTAACAT
1 ATTTAAGTAATAAATTTAAG-AACAA
45316888 ATTTAAGTAATAAATTT-A-AACAA
1 ATTTAAGTAATAAATTTAAGAACAA
*
45316911 ATTTTAGTAA
1 ATTTAAGTAA
45316921 GTAATGTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
23 13 0.42
25 1 0.03
26 17 0.55
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.39
Consensus pattern (25 bp):
ATTTAAGTAATAAATTTAAGAACAA
Found at i:45316931 original size:40 final size:40
Alignment explanation
Indices: 45316878--45317033 Score: 204
Period size: 44 Copynumber: 3.7 Consensus size: 40
45316868 GTAATAAATT
**
45316878 TAAGTAACATATTTAAGTAATAAATTTAAACAAATTTTAG
1 TAAGTAATGTATTTAAGTAATAAATTTAAACAAATTTTAG
*
45316918 TAAGTAATGTATTTTAGTAATAAATTAATTTAAACAAATTTTAG
1 TAAGTAATGTATTTAAGTAAT--A--AATTTAAACAAATTTTAG
45316962 TAAGTAATGTATTTAAGTAATTAATAAATTTAAACAAATTTTAG
1 TAAGTAATGTATTTAAG----TAATAAATTTAAACAAATTTTAG
*
45317006 TAAGTAATGTATTTTAGTAATAAATTTA
1 TAAGTAATGTATTTAAGTAATAAATTTA
45317034 TTTTAGTAAT
Statistics
Matches: 103, Mismatches: 5, Indels: 16
0.83 0.04 0.13
Matches are distributed among these distances:
40 29 0.28
42 1 0.01
44 68 0.66
46 1 0.01
48 4 0.04
ACGTcount: A:0.47, C:0.03, G:0.09, T:0.42
Consensus pattern (40 bp):
TAAGTAATGTATTTAAGTAATAAATTTAAACAAATTTTAG
Found at i:45316963 original size:44 final size:44
Alignment explanation
Indices: 45316900--45317036 Score: 238
Period size: 44 Copynumber: 3.1 Consensus size: 44
45316890 TTAAGTAATA
45316900 AATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAATAAATT
1 AATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAATAAATT
* * *
45316944 AATTTAAACAAATTTTAGTAAGTAATGTATTTAAGTAATTAATA
1 AATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAATAAATT
45316988 AATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAATAAATT
1 AATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAATAAATT
*
45317032 TATTT
1 AATTT
45317037 TAGTAATAAA
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 86 1.00
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.44
Consensus pattern (44 bp):
AATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAATAAATT
Found at i:45317048 original size:17 final size:17
Alignment explanation
Indices: 45316999--45317050 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 17
45316989 ATTTAAACAA
*
45316999 ATTTTAGTAAGT-AATGT
1 ATTTTAGTAA-TAAATTT
45317016 ATTTTAGTAATAAATTT
1 ATTTTAGTAATAAATTT
45317033 ATTTTAGTAATAAATTT
1 ATTTTAGTAATAAATTT
45317050 A
1 A
45317051 ACATTCAATC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
16 1 0.03
17 32 0.97
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (17 bp):
ATTTTAGTAATAAATTT
Found at i:45317110 original size:17 final size:17
Alignment explanation
Indices: 45317085--45317127 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
45317075 TTTAAACAAA
45317085 TTTATGTAAGTAATGTAT
1 TTTA-GTAAGTAATGTAT
45317103 TTTAGTAAGTAATGTAT
1 TTTAGTAAGTAATGTAT
45317120 TTTAGTAA
1 TTTAGTAA
45317128 TAAATTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 21 0.84
18 4 0.16
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (17 bp):
TTTAGTAAGTAATGTAT
Found at i:45317237 original size:109 final size:108
Alignment explanation
Indices: 45317100--45317317 Score: 359
Period size: 109 Copynumber: 2.0 Consensus size: 108
45317090 GTAAGTAATG
* *
45317100 TATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATT-TTAGTA-AAATGAGAACTAA
1 TATTTTAGTAAGTAATGTATTTTAGTAATAAATTT-AAC--ATTAATAGCATAAATGAGAACTAA
45317163 CGTCGATAATTTATTAATTGACAAGATCCTTGAAAATCGATAATTT
63 CGTCGATAATTTATTAATTGACAAGATCCTTGAAAATCGATAATTT
*
45317209 TATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAACATTCAATCGCATAAATGAGAACTAACG
1 TATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAACATT-AATAGCATAAATGAGAACTAACG
45317274 TCGATAATTTATTAATTGACAAGATCCTTGAAAATCGATAATTT
65 TCGATAATTTATTAATTGACAAGATCCTTGAAAATCGATAATTT
45317318 GTTCACTTTA
Statistics
Matches: 103, Mismatches: 3, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
106 3 0.03
108 6 0.06
109 94 0.91
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (108 bp):
TATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAACATTAATAGCATAAATGAGAACTAACGT
CGATAATTTATTAATTGACAAGATCCTTGAAAATCGATAATTT
Found at i:45320589 original size:84 final size:83
Alignment explanation
Indices: 45320482--45320682 Score: 321
Period size: 84 Copynumber: 2.4 Consensus size: 83
45320472 ATTAACACCG
45320482 TTTTGTGGCGTTTTTGGTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACAACACCGTTT
1 TTTTGTGGCGTTTTT-G-AAAAACGCCACTAAATATTACAGCTGTGAACAGAAACAACACCGTTT
*
45320547 TCGTGGTCTGGAATTGCATT
64 TCATGGTCTGGAATTGCATT
*
45320567 TTTTGTGGCGTTTTTAGAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTT
1 TTTTGTGGCGTTTTT-GAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACAACACCGTTTT
45320632 CATGGTCTGGAATTGCATT
65 CATGGTCTGGAATTGCATT
* * *
45320651 ATTTGTGGCATTTTCTTAAAAACGCCACTAAA
1 TTTTGTGGCGTTTT-TGAAAAACGCCACTAAA
45320683 AGTTTAACTA
Statistics
Matches: 109, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
84 92 0.84
85 17 0.16
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (83 bp):
TTTTGTGGCGTTTTTGAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACAACACCGTTTTC
ATGGTCTGGAATTGCATT
Found at i:45321083 original size:12 final size:12
Alignment explanation
Indices: 45321066--45321091 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
45321056 TTAAAATAGC
45321066 ACGACCTCTTTT
1 ACGACCTCTTTT
45321078 ACGACCTCTTTT
1 ACGACCTCTTTT
45321090 AC
1 AC
45321092 AATTATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.19, C:0.35, G:0.08, T:0.38
Consensus pattern (12 bp):
ACGACCTCTTTT
Found at i:45321949 original size:112 final size:112
Alignment explanation
Indices: 45321704--45322053 Score: 576
Period size: 112 Copynumber: 3.1 Consensus size: 112
45321694 AACACCTAGA
* *
45321704 TTAGCGGCGCTTTACAAAAAACGCCACTAA-TGCCCCCCCAAAGGACACAAAACGGCACCGTCTG
1 TTAGCGGCGCTTTACAATAAACGCCACTAAGT-CCCCCCCAAAGGCCACAAAACGGCACCGTCTG
* * * * * ** *
45321768 GGAGTATTATTTGCGGCATTTTTTTATAAGCGCTGCTAATGTTCACTCT
65 GGTGTATTATTTGCGGC-GTTATCTATAAACGCCACTAATGCTCACTCT
45321817 TTAGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGG
1 TTAGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGG
45321882 GTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
66 GTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
*
45321929 TTAGCGGCGCTTTACAATAAATGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGG
1 TTAGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGG
45321994 GTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
66 GTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
45322041 TTAGCGGCGCTTT
1 TTAGCGGCGCTTT
45322054 TAATTAAACG
Statistics
Matches: 225, Mismatches: 11, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
112 148 0.66
113 76 0.34
114 1 0.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (112 bp):
TTAGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGG
GTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
Found at i:45322063 original size:40 final size:40
Alignment explanation
Indices: 45322018--45322094 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
45322008 GCGTTATCTA
*
45322018 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTAAT
1 TAAACGCCACTAATGCTCACTCTTTACCGGCGCTTTTAAT
* *
45322058 TAAACGCCGCTATTGCTCACTCTTTACCGGCGCTTTT
1 TAAACGCCACTAATGCTCACTCTTTACCGGCGCTTTT
45322095 GCTCCAAACG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.21, C:0.30, G:0.16, T:0.34
Consensus pattern (40 bp):
TAAACGCCACTAATGCTCACTCTTTACCGGCGCTTTTAAT
Found at i:45326822 original size:43 final size:43
Alignment explanation
Indices: 45326774--45326859 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
45326764 TAGTTTTTCC
45326774 CTTAAACGTTTTTATGTAACCTCCAGACTTAGTCTTAACGTTT
1 CTTAAACGTTTTTATGTAACCTCCAGACTTAGTCTTAACGTTT
45326817 CTTAAACGTTTTTATGTAACCTCCAGACTTAGTCTTAACGTTT
1 CTTAAACGTTTTTATGTAACCTCCAGACTTAGTCTTAACGTTT
45326860 AGGCCGGATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.42
Consensus pattern (43 bp):
CTTAAACGTTTTTATGTAACCTCCAGACTTAGTCTTAACGTTT
Found at i:45331279 original size:18 final size:18
Alignment explanation
Indices: 45331256--45331291 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
45331246 TTGCTCACCC
45331256 CTAAGTACCAAATAGGAT
1 CTAAGTACCAAATAGGAT
45331274 CTAAGTACCAAATAGGAT
1 CTAAGTACCAAATAGGAT
45331292 AAATATTTTC
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:0.17, G:0.17, T:0.22
Consensus pattern (18 bp):
CTAAGTACCAAATAGGAT
Found at i:45334718 original size:30 final size:30
Alignment explanation
Indices: 45334682--45334748 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
45334672 ACGACGACGT
*
45334682 AGGCCCATCAACAGTG-CCCACACAATCACC
1 AGGCCCAGCAACAG-GACCCACACAATCACC
* *
45334712 AGGCCCAGCAACAGGACCTACACAGTCACC
1 AGGCCCAGCAACAGGACCCACACAATCACC
*
45334742 GGGCCCA
1 AGGCCCA
45334749 ACAGTTCAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 1 0.03
30 31 0.97
ACGTcount: A:0.31, C:0.42, G:0.19, T:0.07
Consensus pattern (30 bp):
AGGCCCAGCAACAGGACCCACACAATCACC
Found at i:45334825 original size:18 final size:18
Alignment explanation
Indices: 45334802--45334844 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
45334792 TGCCAGGTAC
*
45334802 GTATCCTAGCCCTTTTAT
1 GTATCCTAGCCCTTATAT
*
45334820 GTATCCCAGCCCTTATAT
1 GTATCCTAGCCCTTATAT
*
45334838 GTTTCCT
1 GTATCCT
45334845 TTTTCTAGTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.16, C:0.30, G:0.12, T:0.42
Consensus pattern (18 bp):
GTATCCTAGCCCTTATAT
Found at i:45335433 original size:116 final size:116
Alignment explanation
Indices: 45335229--45335611 Score: 676
Period size: 116 Copynumber: 3.3 Consensus size: 116
45335219 TATTTGTACA
*
45335229 AACATTTTGAATCTTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
45335294 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
45335345 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
45335410 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
* * * *
45335461 AACATTTTGAATATTTTTATATTATTTCATGTGATAATATAAAATGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
* ** *
45335526 TATAATTTACTTTTATATTTTTAATAAAATTAAAATTATTTTAAATAAAGC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
*
45335577 AATATTTTGAATATTTTTATATTATTTCATGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAAT
45335612 AAAATATAAA
Statistics
Matches: 256, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
116 256 1.00
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.48
Consensus pattern (116 bp):
AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
Found at i:45335616 original size:61 final size:60
Alignment explanation
Indices: 45335232--45335621 Score: 249
Period size: 58 Copynumber: 6.7 Consensus size: 60
45335222 TTGTACAAAC
* * * * *
45335232 ATTTTGAATCTTTTTATATTATTTCATGTAATTAGA-TAAAAGGTTGTTTTAAATAAAG-TA
1 ATTTTGAATATTTTTATATTATTTCATGTAATAAAATTAAAA--TTATTTTAAATAAAGCAA
* ** *
45335292 ATTGT-AAT-TTACTTT-TA-TATTT--T-TAATAAAATGGAAATTATTTTAAATAAGGCAA
1 ATTTTGAATATT--TTTATATTATTTCATGTAATAAAATTAAAATTATTTTAAATAAAGCAA
* * * *
45335347 CATTTTGAATATTTTTATATTATTTCATGTAATTAGA-TAAAAGGTTGTTTTAAATAAAG-TA
1 -ATTTTGAATATTTTTATATTATTTCATGTAATAAAATTAAAA--TTATTTTAAATAAAGCAA
* ** *
45335408 ATTGT-AAT-TTACTTT-TA-TATTT--T-TAATAAAATGGAAATTATTTTAAATAAGGCAA
1 ATTTTGAATATT--TTTATATTATTTCATGTAATAAAATTAAAATTATTTTAAATAAAGCAA
* * * *
45335463 CATTTTGAATATTTTTATATTATTTCATGTGATAATA-TAAAATGTTGTTTTAAATAAAG-TA
1 -ATTTTGAATATTTTTATATTATTTCATGTAATAAAATTAAAA--TTATTTTAAATAAAGCAA
*
45335524 ATTAT-AAT-TTACTTT-TA-TATTT--T-TAATAAAATTAAAATTATTTTAAATAAAGCAA
1 ATTTTGAATATT--TTTATATTATTTCATGTAATAAAATTAAAATTATTTTAAATAAAGCAA
45335579 TATTTTGAATATTTTTATATTATTTCATGTAATAAAATATAAA
1 -ATTTTGAATATTTTTATATTATTTCATGTAATAAAAT-TAAA
45335622 TAATACAACA
Statistics
Matches: 251, Mismatches: 38, Indels: 80
0.68 0.10 0.22
Matches are distributed among these distances:
54 40 0.16
55 21 0.08
56 35 0.14
57 15 0.06
58 42 0.17
59 15 0.06
60 30 0.12
61 23 0.09
62 30 0.12
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.48
Consensus pattern (60 bp):
ATTTTGAATATTTTTATATTATTTCATGTAATAAAATTAAAATTATTTTAAATAAAGCAA
Found at i:45338122 original size:116 final size:116
Alignment explanation
Indices: 45337918--45338173 Score: 449
Period size: 116 Copynumber: 2.2 Consensus size: 116
45337908 NNNNNNNNNN
* *
45337918 TTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAATTGTAATTTACTTT
1 TTTTTATATTATTTCATGTAATAAGATAAAAGGTTGTTTTAAATAAAGTAATTATAATTTACTTT
* *
45337983 TATATTTTTAATAAAATGGAAATTATTTTAAATAAGGCAACATTTTGAATA
66 TATATTTTTAATAAAATGAAAATTATTTTAAATAAAGCAACATTTTGAATA
* *
45338034 TTTTTATATTATTTCATGTGATAATATAAAAGGTTGTTTTAAATAAAGTAATTATAATTTACTTT
1 TTTTTATATTATTTCATGTAATAAGATAAAAGGTTGTTTTAAATAAAGTAATTATAATTTACTTT
*
45338099 TATATTTTTAATAAAATGAAAATTATTTTAAATAAAGCAATATTTTGAATA
66 TATATTTTTAATAAAATGAAAATTATTTTAAATAAAGCAACATTTTGAATA
45338150 TTTTTATATTATTTCATGTAATAA
1 TTTTTATATTATTTCATGTAATAA
45338174 AATATAAATA
Statistics
Matches: 132, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
116 132 1.00
ACGTcount: A:0.40, C:0.03, G:0.09, T:0.48
Consensus pattern (116 bp):
TTTTTATATTATTTCATGTAATAAGATAAAAGGTTGTTTTAAATAAAGTAATTATAATTTACTTT
TATATTTTTAATAAAATGAAAATTATTTTAAATAAAGCAACATTTTGAATA
Found at i:45338134 original size:54 final size:54
Alignment explanation
Indices: 45337954--45338135 Score: 172
Period size: 54 Copynumber: 3.2 Consensus size: 54
45337944 TAAAAGGTTG
* *
45337954 TTTTAAATAAAGTAATTGTAATTTACTTTTATATTTTTAATAAAATGGAAATTA
1 TTTTAAATAAAGTAATTATAATTTACTTTTATATTTTTAATAAAATGAAAATTA
* * * * * *
45338008 TTTTAAATAAGGCAACATTTTGAATATT--TTTATATTATTTCATGTGATAATAT-AAAAGGTTG
1 TTTTAAATAAAG-TA-ATTAT-AAT-TTACTTT-TA-TATTT--T-TAATAAAATGAAAA--TTA
45338070 TTTTAAATAAAGTAATTATAATTTACTTTTATATTTTTAATAAAATGAAAATTA
1 TTTTAAATAAAGTAATTATAATTTACTTTTATATTTTTAATAAAATGAAAATTA
45338124 TTTTAAATAAAG
1 TTTTAAATAAAG
45338136 CAATATTTTG
Statistics
Matches: 101, Mismatches: 13, Indels: 28
0.71 0.09 0.20
Matches are distributed among these distances:
54 25 0.25
55 8 0.08
56 12 0.12
57 5 0.05
58 14 0.14
59 5 0.05
60 11 0.11
61 8 0.08
62 13 0.13
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (54 bp):
TTTTAAATAAAGTAATTATAATTTACTTTTATATTTTTAATAAAATGAAAATTA
Found at i:45338176 original size:55 final size:54
Alignment explanation
Indices: 45338002--45338176 Score: 149
Period size: 55 Copynumber: 3.1 Consensus size: 54
45337992 AATAAAATGG
*
45338002 AAATTATTTTAAATAAGGCAACATTTTGAATATTTTTATATTATTTCATGTGATAATATA
1 AAATTATTTTAAATAAAGCAA-ATTTTGAATATTTTTATATTATTTCA--TG-T-A-ATA
* * * * * **
45338062 AAAGGTTGTTTTAAATAAAG-TAATTAT-AATTTACTTTTATATT-TTTAATAAAATGA
1 AAA--TTATTTTAAATAAAGCAAATTTTGAA--TATTTTTATATTATTTCATGTAAT-A
45338118 AAATTATTTTAAATAAAGCAATATTTTGAATATTTTTATATTATTTCATGTAATA
1 AAATTATTTTAAATAAAGCAA-ATTTTGAATATTTTTATATTATTTCATGTAATA
45338173 AAAT
1 AAAT
45338177 ATAAATAATA
Statistics
Matches: 91, Mismatches: 15, Indels: 23
0.71 0.12 0.18
Matches are distributed among these distances:
54 14 0.15
55 19 0.21
56 17 0.19
57 2 0.02
58 1 0.01
59 2 0.02
60 11 0.12
61 12 0.13
62 13 0.14
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.47
Consensus pattern (54 bp):
AAATTATTTTAAATAAAGCAAATTTTGAATATTTTTATATTATTTCATGTAATA
Found at i:45341995 original size:125 final size:126
Alignment explanation
Indices: 45341451--45341987 Score: 846
Period size: 126 Copynumber: 4.3 Consensus size: 126
45341441 GCCCAAGTTA
* * * *
45341451 TTTCAGAAACCACTGTAGCAAAAGAACGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
*
45341516 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTATGCAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTATGCAGACACGTCATCTCAAAATTATTT
* * * *
45341577 TTTCAGAGACCACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTCCAGTAATTTTGCTGAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* ** * *
45341642 TGCATCCTGTTTGAAGCGTTTTT-ACCACTATTTGCGCAGACACGGCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGA-CACTATTTATGCAGACACGTCATCTCAAAATTATTT
* * * *
45341703 TTTTAGAGACTACTGTAGCAAAAGAGCGTCCACATGGAAGCTTCTTTCAGTACTTTTGCTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
*
45341768 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTATGCAGACACGTCATCTCAAATTTA-TT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTATGCAGACACGTCATCTCAAAATTATTT
*
45341828 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* *
45341893 TACATCCTGCTTGAAGCGTTTTTGACACTATTTATGCAGACACGTCATCTCAAATTTA-TT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTATGCAGACACGTCATCTCAAAATTATTT
45341953 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGT
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGT
45341988 AGAAGCTTTT
Statistics
Matches: 381, Mismatches: 28, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
125 159 0.42
126 221 0.58
127 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.33
Consensus pattern (126 bp):
TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
TGCATCCTGCTTGAAGCGTTTTTGACACTATTTATGCAGACACGTCATCTCAAAATTATTT
Found at i:45342090 original size:15 final size:15
Alignment explanation
Indices: 45342070--45342099 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
45342060 TTTCTTAAAT
45342070 ACCCTAAAACCCTAA
1 ACCCTAAAACCCTAA
*
45342085 ACCCTAAAATCCTAA
1 ACCCTAAAACCCTAA
45342100 TCTAATTTTT
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:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (15 bp):
ACCCTAAAACCCTAA
Found at i:45342275 original size:97 final size:98
Alignment explanation
Indices: 45342074--45342281 Score: 262
Period size: 97 Copynumber: 2.1 Consensus size: 98
45342064 TTAAATACCC
* * **
45342074 TAAAACCCTAAACCCTAAAATCCTAATCTAATTTTTTTTTAAATTTATAATTAATTTACTCAAGT
1 TAAAACCCTAAACACTAAAATCCTAATCTAATTTTTTTTTAAATTTATAATTAATTTAATCAACA
* *
45342139 AACCCTAAACCCTAATTTATTTGATTTTTTCCT
66 AACACTAAACCCTAATTTATTTAATTTTTTCCT
* *
45342172 TAAAAACCATAAACACT-AAA-CCATAATCTAA-TTTTTTTTAAA-TTAGTAATTAATTTAATTA
1 T-AAAACCCTAAACACTAAAATCC-TAATCTAATTTTTTTTTAAATTTA-TAATTAATTTAATCA
* *
45342233 ACAAACATTAAACCTTAATTTATTTAATTTTTTTCCT
63 ACAAACACTAAACCCTAATTTATTTAA-TTTTTTCCT
45342270 TAAAACCCTAAA
1 TAAAACCCTAAA
45342282 ATTTAAAAAC
Statistics
Matches: 95, Mismatches: 11, Indels: 9
0.83 0.10 0.08
Matches are distributed among these distances:
96 3 0.03
97 57 0.60
98 22 0.23
99 13 0.14
ACGTcount: A:0.40, C:0.17, G:0.01, T:0.41
Consensus pattern (98 bp):
TAAAACCCTAAACACTAAAATCCTAATCTAATTTTTTTTTAAATTTATAATTAATTTAATCAACA
AACACTAAACCCTAATTTATTTAATTTTTTCCT
Found at i:45342289 original size:15 final size:15
Alignment explanation
Indices: 45342269--45342312 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
45342259 ATTTTTTTCC
45342269 TTAAAACCCTAAAAT
1 TTAAAACCCTAAAAT
* *
45342284 TTAAAAACTTAAAAT
1 TTAAAACCCTAAAAT
45342299 TCTCAAAACCCTAA
1 T-T-AAAACCCTAA
45342313 CCCTAATTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 14 0.61
16 1 0.04
17 8 0.35
ACGTcount: A:0.52, C:0.20, G:0.00, T:0.27
Consensus pattern (15 bp):
TTAAAACCCTAAAAT
Found at i:45344577 original size:17 final size:17
Alignment explanation
Indices: 45344557--45344606 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
45344547 AAAATTTAGT
45344557 TATTTTTTATATTTATA
1 TATTTTTTATATTTATA
*
45344574 TATTTTTCATAAATTTATA
1 TATTTTT--TATATTTATA
45344593 -ATTTTTTAT-TTTAT
1 TATTTTTTATATTTAT
45344607 TTATAAATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
15 5 0.17
16 2 0.07
17 7 0.24
18 6 0.21
19 9 0.31
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (17 bp):
TATTTTTTATATTTATA
Found at i:45344662 original size:10 final size:10
Alignment explanation
Indices: 45344647--45344676 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
45344637 TAATCTAGGT
45344647 TTTTTTTATA
1 TTTTTTTATA
*
45344657 TTTTTTTAAA
1 TTTTTTTATA
45344667 TTTTTTTATA
1 TTTTTTTATA
45344677 AATTTATAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTTTTTATA
Found at i:45350727 original size:37 final size:37
Alignment explanation
Indices: 45350686--45350854 Score: 173
Period size: 37 Copynumber: 4.6 Consensus size: 37
45350676 TACTACCTAT
* * *
45350686 TTTGGCGTGTTATCGGGTGGATTAACTTTTATGAGCA
1 TTTGGCGTGTTATCGGTTGGATTAGCTCTTATGAGCA
* *
45350723 TTTGGTGTGTTATCGGTTGGATTAGCTCTTATAAGCA
1 TTTGGCGTGTTATCGGTTGGATTAGCTCTTATGAGCA
* *
45350760 TTTGGCGTGTTATTGGTTGGACTAGCTCTTATGAGCGA
1 TTTGGCGTGTTATCGGTTGGATTAGCTCTTATGAGC-A
* * * * * *
45350798 -TTAGCGTGTTCTCAGATGGTTTAGCTCTTATGAACGA
1 TTTGGCGTGTTATCGGTTGGATTAGCTCTTATGAGC-A
*
45350835 -TTGGGGTGTT-TCGGTTGGAT
1 TTTGGCGTGTTATCGGTTGGAT
45350855 CATCTACTCG
Statistics
Matches: 109, Mismatches: 22, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
36 7 0.06
37 101 0.93
38 1 0.01
ACGTcount: A:0.17, C:0.12, G:0.30, T:0.41
Consensus pattern (37 bp):
TTTGGCGTGTTATCGGTTGGATTAGCTCTTATGAGCA
Found at i:45367584 original size:39 final size:39
Alignment explanation
Indices: 45367536--45367784 Score: 270
Period size: 39 Copynumber: 6.4 Consensus size: 39
45367526 ATATTCACTT
* *
45367536 TTCAA-CATATATC-CTATTACACATATAATCACCTAACA
1 TTCAAGCATATATCAC-AATACACATATAATCACATAACA
*
45367574 TTCAAGCATATATCACAATACTCATATAATCACATAACA
1 TTCAAGCATATATCACAATACACATATAATCACATAACA
* * * *
45367613 TTTAAGCATATATGACAATACTCGTATAATCACATAACA
1 TTCAAGCATATATCACAATACACATATAATCACATAACA
* * * *
45367652 TTCAAGCATATGTCACAATATACATTTAATCTCATAACA
1 TTCAAGCATATATCACAATACACATATAATCACATAACA
* * ***
45367691 TTTAAGCATATATCACAACACTTGTATAATCACATAACA
1 TTCAAGCATATATCACAATACACATATAATCACATAACA
* * * *
45367730 TTCAAGCATATATCACCATA-TCATAGAATCTCATAACA
1 TTCAAGCATATATCACAATACACATATAATCACATAACA
* *
45367768 TTTAAACATATATCACA
1 TTCAAGCATATATCACA
45367785 CTACTCAAAA
Statistics
Matches: 176, Mismatches: 33, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
38 33 0.19
39 142 0.81
40 1 0.01
ACGTcount: A:0.43, C:0.22, G:0.04, T:0.31
Consensus pattern (39 bp):
TTCAAGCATATATCACAATACACATATAATCACATAACA
Found at i:45367670 original size:78 final size:77
Alignment explanation
Indices: 45367559--45367790 Score: 347
Period size: 78 Copynumber: 3.0 Consensus size: 77
45367549 CTATTACACA
* *
45367559 TATAATCACCTAACATTCAAGCATATATCACAATACTCATATAATCACATAACATTTAAGCATAT
1 TATAATCACATAACATTCAAGCATATATCACAATA-TCATATAATCTCATAACATTTAAGCATAT
*
45367624 ATGACAATACTCG
65 ATCACAATACTCG
* *
45367637 TATAATCACATAACATTCAAGCATATGTCACAATATACATTTAATCTCATAACATTTAAGCATAT
1 TATAATCACATAACATTCAAGCATATATCACAATAT-CATATAATCTCATAACATTTAAGCATAT
* *
45367702 ATCACAACACTTG
65 ATCACAATACTCG
* * *
45367715 TATAATCACATAACATTCAAGCATATATCACCATATCATAGAATCTCATAACATTTAAACATATA
1 TATAATCACATAACATTCAAGCATATATCACAATATCATATAATCTCATAACATTTAAGCATATA
*
45367780 TCACACTACTC
66 TCACAATACTC
45367791 AAAAGCATCT
Statistics
Matches: 138, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
77 35 0.25
78 103 0.75
ACGTcount: A:0.43, C:0.22, G:0.04, T:0.31
Consensus pattern (77 bp):
TATAATCACATAACATTCAAGCATATATCACAATATCATATAATCTCATAACATTTAAGCATATA
TCACAATACTCG
Found at i:45367698 original size:117 final size:116
Alignment explanation
Indices: 45367569--45367784 Score: 306
Period size: 117 Copynumber: 1.9 Consensus size: 116
45367559 TATAATCACC
* * *
45367569 TAACATTCAAGCATATATCACAATACTCATATAATCACATAACATTTAAGCATATATGACAATAC
1 TAACATTCAAGCATATATCACAACACTCATATAATCACATAACATTCAAGCATATATCACAATA-
* * * *
45367634 TCGTATAATCACATAACATTCAAGCATATGTCACAATATACATTTAATCTCA
65 TCATAGAATCACATAACATTCAAACATATATCACAATATACATTTAATCTCA
* ** *
45367686 TAACATTTAAGCATATATCACAACACTTGTATAATCACATAACATTCAAGCATATATCACCATAT
1 TAACATTCAAGCATATATCACAACACTCATATAATCACATAACATTCAAGCATATATCACAATAT
* *
45367751 CATAGAATCTCATAACATTTAAACATATATCACA
66 CATAGAATCACATAACATTCAAACATATATCACA
45367785 CTACTCAAAA
Statistics
Matches: 86, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
116 29 0.34
117 57 0.66
ACGTcount: A:0.44, C:0.21, G:0.05, T:0.31
Consensus pattern (116 bp):
TAACATTCAAGCATATATCACAACACTCATATAATCACATAACATTCAAGCATATATCACAATAT
CATAGAATCACATAACATTCAAACATATATCACAATATACATTTAATCTCA
Found at i:45368666 original size:14 final size:15
Alignment explanation
Indices: 45368647--45368700 Score: 67
Period size: 14 Copynumber: 3.6 Consensus size: 15
45368637 ATTTAATATG
45368647 TATAATATATATGT-
1 TATAATATATATGTA
*
45368661 TATAATAATAAAATGTA
1 TATAAT-AT-ATATGTA
45368678 TATAAT-TATATGTA
1 TATAATATATATGTA
45368692 TATAATATA
1 TATAATATA
45368701 AGTTATGAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
14 18 0.53
15 5 0.15
16 5 0.15
17 6 0.18
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (15 bp):
TATAATATATATGTA
Found at i:45380677 original size:6 final size:6
Alignment explanation
Indices: 45380666--45380704 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
45380656 AGTCCATCTA
* *
45380666 TTTTAT TTTTAT TTTTAT TTTTAT CTTTAT TTTCAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
45380705 ATCTTTCTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:45380689 original size:18 final size:18
Alignment explanation
Indices: 45380666--45380719 Score: 67
Period size: 17 Copynumber: 3.1 Consensus size: 18
45380656 AGTCCATCTA
* *
45380666 TTTTATTTTTATTTTTAT
1 TTTTATCTTTATTTTCAT
45380684 TTTTATCTTTATTTTCA-
1 TTTTATCTTTATTTTCAT
*
45380701 TTTTATCTTTCTTTT-AT
1 TTTTATCTTTATTTTCAT
45380718 TT
1 TT
45380720 ATTTTTTGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
16 1 0.03
17 16 0.50
18 15 0.47
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTATCTTTATTTTCAT
Found at i:45380711 original size:12 final size:11
Alignment explanation
Indices: 45380665--45380719 Score: 58
Period size: 12 Copynumber: 4.8 Consensus size: 11
45380655 GAGTCCATCT
*
45380665 ATTTTATTTTT
1 ATTTTATTTTC
*
45380676 ATTTTTATTTTT
1 A-TTTTATTTTC
45380688 ATCTTTATTTTC
1 AT-TTTATTTTC
45380700 ATTTTATCTTTC
1 ATTTTAT-TTTC
45380712 -TTTTATTT
1 ATTTTATTT
45380720 ATTTTTTGAA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
10 2 0.05
11 13 0.32
12 25 0.62
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.76
Consensus pattern (11 bp):
ATTTTATTTTC
Found at i:45386403 original size:16 final size:16
Alignment explanation
Indices: 45386378--45386415 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
45386368 TTTAAAAAAG
*
45386378 TAAAACAAATGAA-TCT
1 TAAAAAAAAT-AAGTCT
45386394 TAAAAAAAATAAGTCT
1 TAAAAAAAATAAGTCT
45386410 TAAAAA
1 TAAAAA
45386416 CTTAATGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 2 0.10
16 18 0.90
ACGTcount: A:0.63, C:0.08, G:0.05, T:0.24
Consensus pattern (16 bp):
TAAAAAAAATAAGTCT
Found at i:45391990 original size:19 final size:19
Alignment explanation
Indices: 45391968--45392025 Score: 68
Period size: 19 Copynumber: 3.1 Consensus size: 19
45391958 TCATTTCAAT
45391968 ATTT-ATATCTCATTTCATC
1 ATTTCATATCTCATTTC-TC
*
45391987 ATTTCATAT-TCCATTTCCC
1 ATTTCATATCT-CATTTCTC
45392006 ATTTCATATC-CATTTCTC
1 ATTTCATATCTCATTTCTC
45392024 AT
1 AT
45392026 CCTTGTCATC
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
18 9 0.26
19 15 0.44
20 10 0.29
ACGTcount: A:0.24, C:0.26, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTTCATATCTCATTTCTC
Found at i:45392460 original size:15 final size:16
Alignment explanation
Indices: 45392433--45392462 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
45392423 ATTACTTACC
45392433 ATATGCAAACAATTTA
1 ATATGCAAACAATTTA
45392449 ATATGC-AACAATTT
1 ATATGCAAACAATTT
45392463 TTAAATTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.33
Consensus pattern (16 bp):
ATATGCAAACAATTTA
Found at i:45393955 original size:19 final size:18
Alignment explanation
Indices: 45393927--45393965 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
45393917 ACTTAGATTA
45393927 AATTAATAAATCTTAATT
1 AATTAATAAATCTTAATT
*
45393945 AATTAATTAAATTTTAATT
1 AATTAA-TAAATCTTAATT
45393964 AA
1 AA
45393966 CTTAGCTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
AATTAATAAATCTTAATT
Found at i:45394596 original size:28 final size:30
Alignment explanation
Indices: 45394564--45394637 Score: 73
Period size: 28 Copynumber: 2.5 Consensus size: 30
45394554 ATTTTATTAT
45394564 TATAAATATAATTTTAATTA-TTA-TTTAA
1 TATAAATATAATTTTAATTATTTATTTTAA
* *
45394592 TATAAA-ATTACTTTAAATTATTTATTTTTAA
1 TATAAATA-TAATTTTAATTATTTA-TTTTAA
* *
45394623 TATATATATGATTTT
1 TATAAATATAATTTT
45394638 TCTATTTCTA
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
27 1 0.03
28 16 0.46
29 3 0.09
31 14 0.40
32 1 0.03
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (30 bp):
TATAAATATAATTTTAATTATTTATTTTAA
Found at i:45394600 original size:24 final size:23
Alignment explanation
Indices: 45394539--45394600 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 23
45394529 ATACAATAAT
*
45394539 TTATTAAATATATAAATTTTATTA
1 TTATTTAATATA-AAATTTTATTA
*
45394563 TTA--TAA-ATATAATTTTAATTA
1 TTATTTAATATAAAATTTT-ATTA
45394584 TTATTTAATATAAAATT
1 TTATTTAATATAAAATT
45394601 ACTTTAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
20 6 0.19
21 10 0.32
22 2 0.06
23 3 0.10
24 10 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
TTATTTAATATAAAATTTTATTA
Found at i:45395376 original size:13 final size:12
Alignment explanation
Indices: 45395340--45395386 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 12
45395330 TAATTCATAA
45395340 TTAAATATTATATT
1 TTAAATATT-TA-T
45395354 TTAAA-A-TTAT
1 TTAAATATTTAT
45395364 TTAATATATTTAT
1 TTAA-ATATTTAT
45395377 TTAAATATTT
1 TTAAATATTT
45395387 TAATCAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
10 5 0.17
11 3 0.10
12 8 0.27
13 9 0.30
14 5 0.17
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
TTAAATATTTAT
Found at i:45405705 original size:14 final size:14
Alignment explanation
Indices: 45405686--45405737 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
45405676 AACAAATGGG
45405686 TAAAATAAATAAGC
1 TAAAATAAATAAGC
*
45405700 TAAAATAAAAAAG-
1 TAAAATAAATAAGC
*
45405713 AAATAATAAATAAGC
1 TAA-AATAAATAAGC
45405728 TAAAA-AAATA
1 TAAAATAAATA
45405738 TTTGAAATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
13 7 0.22
14 23 0.72
15 2 0.06
ACGTcount: A:0.71, C:0.04, G:0.06, T:0.19
Consensus pattern (14 bp):
TAAAATAAATAAGC
Found at i:45405970 original size:20 final size:20
Alignment explanation
Indices: 45405943--45406004 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 20
45405933 TGTAGATGAA
45405943 AATATAGTAGTAATAATAAT
1 AATATAGTAGTAATAATAAT
* * *
45405963 ACTATAGTAATAATGATAAT
1 AATATAGTAGTAATAATAAT
* * *
45405983 AAAAAATTAGTAATAATAAT
1 AATATAGTAGTAATAATAAT
45406003 AA
1 AA
45406005 AATAAAAAAT
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.32
Consensus pattern (20 bp):
AATATAGTAGTAATAATAAT
Found at i:45405993 original size:23 final size:24
Alignment explanation
Indices: 45405967--45406014 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
45405957 AATAATACTA
*
45405967 TAGTAATAATGAT-AATAAAAAAT
1 TAGTAATAATAATAAATAAAAAAT
45405990 TAGTAATAATAATAAAATAAAAAAT
1 TAGTAATAATAAT-AAATAAAAAAT
45406015 ATAATGGTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 12 0.55
25 10 0.45
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (24 bp):
TAGTAATAATAATAAATAAAAAAT
Found at i:45406019 original size:23 final size:25
Alignment explanation
Indices: 45405965--45406019 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
45405955 ATAATAATAC
* *
45405965 TATAGTAATAATGATAATAAAAAAT
1 TATAATAATAATGAAAATAAAAAAT
45405990 TAGTAATAATAAT-AAAATAAAAAA-
1 TA-TAATAATAATGAAAATAAAAAAT
45406014 TATAAT
1 TATAAT
45406020 GGTGACAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 4 0.15
24 2 0.07
25 12 0.44
26 9 0.33
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (25 bp):
TATAATAATAATGAAAATAAAAAAT
Found at i:45406069 original size:3 final size:3
Alignment explanation
Indices: 45406061--45406288 Score: 103
Period size: 3 Copynumber: 74.3 Consensus size: 3
45406051 AATAAGGTGG
* * * *
45406061 TAA TAA TAA TAA T-A TAT TGA TAA TAA CTAA TAA -AA GGAA TAA AAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA -TAA TAA TAA
* ** * * * *
45406106 TAA TAG TAA CGA TAA GAA TAT TAA TAA TAA CAA TAA TAA CAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
45406154 TATA TACA TGAA TAA TAA TAA TAA T-A TAAA GAA TAGGA -AA TAA TAA
1 TA-A TA-A T-AA TAA TAA TAA TAA TAA T-AA TAA TA--A TAA TAA TAA
* * * **
45406200 T-A TAC TAA TAA GAA TAA TAA TAGGT TAA TAA TAA TAGGA GGA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TA--A TAA TAA TAA TA--A TAA TAA TAA
* **
45406247 TAA TAA TAA TAA T-A TAT TAA TAA GGA TACA -AA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA T
45406289 GGTAAAATAG
Statistics
Matches: 166, Mismatches: 39, Indels: 40
0.68 0.16 0.16
Matches are distributed among these distances:
2 13 0.08
3 133 0.80
4 15 0.09
5 5 0.03
ACGTcount: A:0.60, C:0.03, G:0.08, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:45411719 original size:16 final size:16
Alignment explanation
Indices: 45411698--45411728 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45411688 ATAACCTTAG
45411698 TAATTATATTTTCATT
1 TAATTATATTTTCATT
*
45411714 TAATTATTTTTTCAT
1 TAATTATATTTTCAT
45411729 GTTCAAACAG
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:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (16 bp):
TAATTATATTTTCATT
Found at i:45415379 original size:6 final size:6
Alignment explanation
Indices: 45415370--45415414 Score: 90
Period size: 6 Copynumber: 7.5 Consensus size: 6
45415360 TCTTATATGT
45415370 TCTGCA TCTGCA TCTGCA TCTGCA TCTGCA TCTGCA TCTGCA TCT
1 TCTGCA TCTGCA TCTGCA TCTGCA TCTGCA TCTGCA TCTGCA TCT
45415415 AAGATACTCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.16, C:0.33, G:0.16, T:0.36
Consensus pattern (6 bp):
TCTGCA
Found at i:45419397 original size:12 final size:12
Alignment explanation
Indices: 45419377--45419444 Score: 57
Period size: 12 Copynumber: 5.3 Consensus size: 12
45419367 CGATACCAAT
45419377 AAATTTATTTTA
1 AAATTTATTTTA
*
45419389 AAATGTATTTT-
1 AAATTTATTTTA
45419400 AAATTTATATTTAA
1 AAATTTAT-TTT-A
45419414 AAATTTTATTTGTA
1 AAA-TTTATTT-TA
**
45419428 CAAAAATATTTTA
1 -AAATTTATTTTA
45419441 AAAT
1 AAAT
45419445 ATTTTACTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
11 7 0.16
12 16 0.36
13 2 0.04
14 11 0.24
15 9 0.20
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (12 bp):
AAATTTATTTTA
Found at i:45419447 original size:37 final size:38
Alignment explanation
Indices: 45419406--45419480 Score: 91
Period size: 38 Copynumber: 2.0 Consensus size: 38
45419396 TTTTAAATTT
*
45419406 ATATTTAAAAATTTTATTTGTA-C-AAAAATATTTTAAA
1 ATATTTAAAAA-TTTATTTGTACCAAAAAATAATTTAAA
* **
45419443 ATATTTTACTATTTATTTGTACCAAAAAATAATTTAAA
1 ATATTTAAAAATTTATTTGTACCAAAAAATAATTTAAA
45419481 TTTTGAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
36 10 0.31
37 9 0.28
38 13 0.41
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (38 bp):
ATATTTAAAAATTTATTTGTACCAAAAAATAATTTAAA
Found at i:45419491 original size:13 final size:13
Alignment explanation
Indices: 45419473--45419497 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45419463 ACCAAAAAAT
45419473 AATTTAAATTTTG
1 AATTTAAATTTTG
45419486 AATTTAAATTTT
1 AATTTAAATTTT
45419498 TTTATTATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (13 bp):
AATTTAAATTTTG
Found at i:45422899 original size:13 final size:13
Alignment explanation
Indices: 45422864--45422906 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
45422854 CTCATATTTA
*
45422864 ATTTTTTAATTAAT
1 ATTTTTTAA-AAAT
*
45422878 TTTTATTTAAAAAT
1 ATTT-TTTAAAAAT
45422892 ATTTTTTAAAAAT
1 ATTTTTTAAAAAT
45422905 AT
1 AT
45422907 AATACATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 11 0.44
14 9 0.36
15 5 0.20
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
ATTTTTTAAAAAT
Found at i:45436680 original size:14 final size:15
Alignment explanation
Indices: 45436661--45436689 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
45436651 TCCTTTCTCC
45436661 CTTTC-TTTCTTTTT
1 CTTTCTTTTCTTTTT
45436675 CTTTCTTTTCTTTTT
1 CTTTCTTTTCTTTTT
45436690 TACTTTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (15 bp):
CTTTCTTTTCTTTTT
Found at i:45436717 original size:21 final size:21
Alignment explanation
Indices: 45436693--45436743 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
45436683 TCTTTTTTAC
45436693 TTTAATTTGCATGCCCTTTCT
1 TTTAATTTGCATGCCCTTTCT
45436714 TTTAATTTGCATGCCCTTTCT
1 TTTAATTTGCATGCCCTTTCT
45436735 TTTAATTTG
1 TTTAATTTG
45436744 TTTTTGTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.16, C:0.20, G:0.10, T:0.55
Consensus pattern (21 bp):
TTTAATTTGCATGCCCTTTCT
Found at i:45439267 original size:10 final size:10
Alignment explanation
Indices: 45439252--45439286 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
45439242 AAAACGATTA
45439252 TAGTTGTTTC
1 TAGTTGTTTC
* *
45439262 TAGTTGATTA
1 TAGTTGTTTC
45439272 TAGTTGTTTC
1 TAGTTGTTTC
45439282 TAGTT
1 TAGTT
45439287 AATAGGAGAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.17, C:0.06, G:0.20, T:0.57
Consensus pattern (10 bp):
TAGTTGTTTC
Found at i:45439270 original size:20 final size:20
Alignment explanation
Indices: 45439247--45439286 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
45439237 CTTACAAAAC
45439247 GATTATAGTTGTTTCTAGTT
1 GATTATAGTTGTTTCTAGTT
45439267 GATTATAGTTGTTTCTAGTT
1 GATTATAGTTGTTTCTAGTT
45439287 AATAGGAGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.05, G:0.20, T:0.55
Consensus pattern (20 bp):
GATTATAGTTGTTTCTAGTT
Found at i:45439390 original size:18 final size:17
Alignment explanation
Indices: 45439358--45439393 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
45439348 AGTTAAAATT
45439358 TAATTTTATCATTTTAA
1 TAATTTTATCATTTTAA
*
45439375 TAATTTATATCTTTTTAA
1 TAATTT-TATCATTTTAA
45439393 T
1 T
45439394 TTTTAAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (17 bp):
TAATTTTATCATTTTAA
Found at i:45450058 original size:21 final size:21
Alignment explanation
Indices: 45450033--45450076 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
45450023 ATTGGGCTGT
* *
45450033 TACACTCCACCTGTTTTGGAG
1 TACACTCCACCTGCTGTGGAG
45450054 TACACTCCACCTGCTGTGGAG
1 TACACTCCACCTGCTGTGGAG
45450075 TA
1 TA
45450077 TTGCTCGTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (21 bp):
TACACTCCACCTGCTGTGGAG
Found at i:45456154 original size:7 final size:7
Alignment explanation
Indices: 45456142--45456182 Score: 82
Period size: 7 Copynumber: 5.9 Consensus size: 7
45456132 ATAAGACAAA
45456142 AAAAAAG
1 AAAAAAG
45456149 AAAAAAG
1 AAAAAAG
45456156 AAAAAAG
1 AAAAAAG
45456163 AAAAAAG
1 AAAAAAG
45456170 AAAAAAG
1 AAAAAAG
45456177 AAAAAA
1 AAAAAA
45456183 AGAAGGCTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:45456881 original size:20 final size:20
Alignment explanation
Indices: 45456858--45456902 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
45456848 AATTTTAGAT
*
45456858 TTTTTAT-ATTGTTTTTGTA
1 TTTTTATAATTGTTTTTCTA
* *
45456877 ATTTTATAATTTTTTTTCTA
1 TTTTTATAATTGTTTTTCTA
45456897 TTTTTA
1 TTTTTA
45456903 AATGATTTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.73
Consensus pattern (20 bp):
TTTTTATAATTGTTTTTCTA
Found at i:45470824 original size:16 final size:15
Alignment explanation
Indices: 45470784--45470839 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 15
45470774 ATTTTGAATT
*
45470784 TTTATTATTTT-TAA
1 TTTATAATTTTATAA
45470798 TTTATCCAATTTTATAGA
1 TTTAT--AATTTTATA-A
45470816 TTTATAATTTTATTAA
1 TTTATAATTTTA-TAA
*
45470832 TTAATAAT
1 TTTATAAT
45470840 ATATTATGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
14 5 0.14
16 20 0.57
17 4 0.11
18 6 0.17
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.59
Consensus pattern (15 bp):
TTTATAATTTTATAA
Found at i:45472366 original size:18 final size:18
Alignment explanation
Indices: 45472345--45472397 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
45472335 ATGATTGGGA
45472345 AACTCACCAATATTGGCG
1 AACTCACCAATATTGGCG
*
45472363 AACTTCCCCAGA-A-TGGCG
1 AAC-TCACCA-ATATTGGCG
*
45472381 AACACACCAATATTGGC
1 AACTCACCAATATTGGC
45472398 AAATCCTCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
16 1 0.04
17 5 0.18
18 15 0.54
19 6 0.21
20 1 0.04
ACGTcount: A:0.34, C:0.30, G:0.17, T:0.19
Consensus pattern (18 bp):
AACTCACCAATATTGGCG
Found at i:45494436 original size:31 final size:31
Alignment explanation
Indices: 45494398--45494460 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
45494388 GTAACTAGTT
45494398 AGTTCATCCTGATTCAATTACAACATGGTTC
1 AGTTCATCCTGATTCAATTACAACATGGTTC
45494429 AGTTCATCCTGATTCAATTACAACATGGTTC
1 AGTTCATCCTGATTCAATTACAACATGGTTC
45494460 A
1 A
45494461 CTAGAACGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (31 bp):
AGTTCATCCTGATTCAATTACAACATGGTTC
Found at i:45494901 original size:16 final size:18
Alignment explanation
Indices: 45494882--45494916 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
45494872 GTTTTTTAAA
45494882 CTTTTC-CTTTT-TTTTT
1 CTTTTCTCTTTTGTTTTT
45494898 CTTTTCTCTTTTGTTTTT
1 CTTTTCTCTTTTGTTTTT
45494916 C
1 C
45494917 CCTCTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 5 0.29
18 6 0.35
ACGTcount: A:0.00, C:0.20, G:0.03, T:0.77
Consensus pattern (18 bp):
CTTTTCTCTTTTGTTTTT
Found at i:45494908 original size:17 final size:17
Alignment explanation
Indices: 45494859--45494916 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
45494849 AGCAATTTAA
* *
45494859 TTTTTTCTTTTATGTTT
1 TTTTTTCTTTTCTCTTT
***
45494876 TTTAAACTTTTC-CTTT
1 TTTTTTCTTTTCTCTTT
45494892 TTTTTTCTTTTCTCTTT
1 TTTTTTCTTTTCTCTTT
45494909 TGTTTTTC
1 T-TTTTTC
45494917 CCTCTATTTT
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
16 12 0.39
17 13 0.42
18 6 0.19
ACGTcount: A:0.07, C:0.14, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTTTCTTTTCTCTTT
Found at i:45497496 original size:61 final size:62
Alignment explanation
Indices: 45497396--45497586 Score: 208
Period size: 68 Copynumber: 3.0 Consensus size: 62
45497386 ATTTTAATAT
* * *
45497396 TAAATTAATATAATACTTATCAAGATAAATATTAGATTAAATTTAGTATTAAATTTATTAAAG
1 TAAATTAATAAAATAC-TATCAAGATAAATATTAAATTAAATTTAATATTAAATTTATTAAAG
**
45497459 T-AA-TAGATAATTTATCTAT-AAGATAAATATTAAATTAAATTTAATATTAAAATAATTATTTT
1 TAAATTA-ATAAAATA-CTATCAAGATAAATATTAAATTAAATTTAATATT-AAAT--TTA--TT
*
45497521 AATAT
59 AA-AG
* *
45497526 TAAATTAATAAAATACTATCAATATAAGTATTAAATTAAATTTAATATTAAATTTATTAAA
1 TAAATTAATAAAATACTATCAAGATAAATATTAAATTAAATTTAATATTAAATTTATTAAA
45497587 ACAATATTAT
Statistics
Matches: 107, Mismatches: 10, Indels: 23
0.76 0.07 0.16
Matches are distributed among these distances:
61 29 0.27
62 15 0.14
63 6 0.06
64 3 0.03
65 3 0.03
66 4 0.04
67 10 0.09
68 35 0.33
69 2 0.02
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.42
Consensus pattern (62 bp):
TAAATTAATAAAATACTATCAAGATAAATATTAAATTAAATTTAATATTAAATTTATTAAAG
Found at i:45503757 original size:13 final size:14
Alignment explanation
Indices: 45503739--45503768 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
45503729 GAAAATATCT
45503739 TATATTT-TAAAAA
1 TATATTTATAAAAA
45503752 TATATTTATAAAAA
1 TATATTTATAAAAA
45503766 TAT
1 TAT
45503769 TTCAGCATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TATATTTATAAAAA
Found at i:45508026 original size:34 final size:32
Alignment explanation
Indices: 45507972--45508069 Score: 115
Period size: 34 Copynumber: 2.9 Consensus size: 32
45507962 TTTAGATTTT
* *
45507972 TTTTAAAAAATTAATTAAATTAGTTTTTAGGGG
1 TTTTAAAAAATTAATTAAATTAG-GTTTAGAGG
* *
45508005 TTTTAAATAAATAAATTAAATTAAGGTTTAGAGT
1 TTTTAAA-AAATTAATTAAATT-AGGTTTAGAGG
45508039 TTTTAAGAAAATTAATTAAATTAGGGTTTAG
1 TTTTAA-AAAATTAATTAAATTA-GGTTTAG
45508070 TTTTTAAAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
33 8 0.14
34 45 0.80
35 3 0.05
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (32 bp):
TTTTAAAAAATTAATTAAATTAGGTTTAGAGG
Found at i:45516232 original size:19 final size:20
Alignment explanation
Indices: 45516190--45516237 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
45516180 TAATTATTTG
* * *
45516190 TAAAATTTAATTTAAATATA
1 TAAAATATATTTTAAAAATA
*
45516210 TAAACTATATTTTAAAAAT-
1 TAAAATATATTTTAAAAATA
45516229 TAAAATATA
1 TAAAATATA
45516238 ACATTACAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (20 bp):
TAAAATATATTTTAAAAATA
Found at i:45520321 original size:15 final size:15
Alignment explanation
Indices: 45520267--45520331 Score: 53
Period size: 15 Copynumber: 4.4 Consensus size: 15
45520257 ACGATGTGGG
* *
45520267 TAAAAATAATTTATG
1 TAAAAATAAATTATA
* *
45520282 TGACAAATATATT-TA
1 T-AAAAATAAATTATA
45520297 TAAAAA-AAATTATA
1 TAAAAATAAATTATA
* *
45520311 TAAAAATAAATAAGA
1 TAAAAATAAATTATA
45520326 TAAAAA
1 TAAAAA
45520332 AAGGGAAAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
13 4 0.10
14 12 0.31
15 15 0.38
16 8 0.21
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.31
Consensus pattern (15 bp):
TAAAAATAAATTATA
Found at i:45523071 original size:15 final size:15
Alignment explanation
Indices: 45523053--45523092 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
45523043 TAAATTTACT
*
45523053 ACTTAATTTTTTAAC
1 ACTTAATTTTTCAAC
*
45523068 ACTTAATTTTTCAAT
1 ACTTAATTTTTCAAC
*
45523083 ATTTAATTTT
1 ACTTAATTTT
45523093 ACAGTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (15 bp):
ACTTAATTTTTCAAC
Found at i:45525819 original size:27 final size:27
Alignment explanation
Indices: 45525757--45525811 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
45525747 TAAGCCCCCC
*
45525757 CAAAAAAACCTAACCCCAAAAAAAAGA
1 CAAAAAAACCTAACCCCAAAAAAAAAA
*
45525784 GAAAAAAACCTAACCCCAAAAAAAAAA
1 CAAAAAAACCTAACCCCAAAAAAAAAA
45525811 C
1 C
45525812 TAAGAAACTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.67, C:0.25, G:0.04, T:0.04
Consensus pattern (27 bp):
CAAAAAAACCTAACCCCAAAAAAAAAA
Found at i:45526796 original size:15 final size:17
Alignment explanation
Indices: 45526768--45526799 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
45526758 TTGTATATAT
45526768 TATATTTATATTATGTA
1 TATATTTATATTATGTA
45526785 TATATTT-T-TTATGTA
1 TATATTTATATTATGTA
45526800 CGTTTCCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (17 bp):
TATATTTATATTATGTA
Found at i:45527772 original size:12 final size:12
Alignment explanation
Indices: 45527755--45527790 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
45527745 ATTCATTTAA
45527755 CATTCATGCATT
1 CATTCATGCATT
*
45527767 CATTCATGCATC
1 CATTCATGCATT
*
45527779 CATTCATTCATT
1 CATTCATGCATT
45527791 GCATATCCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.28, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:45527784 original size:16 final size:17
Alignment explanation
Indices: 45527763--45527794 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
45527753 AACATTCATG
45527763 CATTCATTCA-TGCATC
1 CATTCATTCATTGCATC
45527779 CATTCATTCATTGCAT
1 CATTCATTCATTGCAT
45527795 ATCCCATACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.25, C:0.28, G:0.06, T:0.41
Consensus pattern (17 bp):
CATTCATTCATTGCATC
Found at i:45535733 original size:70 final size:70
Alignment explanation
Indices: 45535636--45535767 Score: 210
Period size: 70 Copynumber: 1.9 Consensus size: 70
45535626 TTTTCAAGGG
* * *
45535636 AAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTACTTTTAATTTTTT
1 AAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTTTT
45535701 TTTCA
66 TTTCA
* * *
45535706 AAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
1 AAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
45535768 CTGTTNNNNN
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
70 56 1.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (70 bp):
AAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTTTT
TTTCA
Found at i:45537305 original size:22 final size:20
Alignment explanation
Indices: 45537238--45537321 Score: 75
Period size: 19 Copynumber: 4.2 Consensus size: 20
45537228 TAATATTTTC
*
45537238 TTTTATTGTAGATATTATTAT
1 TTTTA-TGTACATATTATTAT
*
45537259 TATTAT-TACATACTT-TTA-
1 TTTTATGTACATA-TTATTAT
* *
45537277 TTATATGTATATATATATGTAT
1 TTTTATGTACATAT-TAT-TAT
45537299 TTTTATGTACATATTATTAT
1 TTTTATGTACATATTATTAT
45537319 TTT
1 TTT
45537322 ATATTATTAT
Statistics
Matches: 50, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
18 5 0.10
19 14 0.28
20 10 0.20
21 9 0.18
22 12 0.24
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.60
Consensus pattern (20 bp):
TTTTATGTACATATTATTAT
Found at i:45539310 original size:78 final size:78
Alignment explanation
Indices: 45539217--45539373 Score: 287
Period size: 78 Copynumber: 2.0 Consensus size: 78
45539207 GTGCAAACAA
* *
45539217 CCTAAAATATATATAAATTAAAAAGAATGTTCCTACAATTTTATTTTTGTTACATGAAGATCAAG
1 CCTAAAATATATATAAATTAAAAAGAATGTTCCTACAATTTTATTTTTGTTACATAAAGATCAAA
45539282 TAAAATAGTCAAT
66 TAAAATAGTCAAT
*
45539295 CCTAAAATATATATAAATTAAAAAGAATGTTCCTACAATTTTATTTTTTTTACATAAAGATCAAA
1 CCTAAAATATATATAAATTAAAAAGAATGTTCCTACAATTTTATTTTTGTTACATAAAGATCAAA
45539360 TAAAATAGTCAAT
66 TAAAATAGTCAAT
45539373 C
1 C
45539374 GACTTAGATC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 76 1.00
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.36
Consensus pattern (78 bp):
CCTAAAATATATATAAATTAAAAAGAATGTTCCTACAATTTTATTTTTGTTACATAAAGATCAAA
TAAAATAGTCAAT
Found at i:45540246 original size:33 final size:33
Alignment explanation
Indices: 45540208--45540272 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
45540198 GTTTTAGATT
* *
45540208 ATTATTGTGTTTTACGGTATTGTTGTATACATA
1 ATTATTGTATTTTACGGTATTGTTGTAGACATA
*
45540241 ATTATTGTATTTTATGGTATTGTTGTAGACAT
1 ATTATTGTATTTTACGGTATTGTTGTAGACAT
45540273 GGTACATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.25, C:0.05, G:0.18, T:0.52
Consensus pattern (33 bp):
ATTATTGTATTTTACGGTATTGTTGTAGACATA
Found at i:45542192 original size:33 final size:33
Alignment explanation
Indices: 45542149--45542212 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
45542139 TTACACAAAA
45542149 TAAAAATTCATGA-ATCAAAATATACATTAAAGC
1 TAAAAATTCAT-ATATCAAAATATACATTAAAGC
* *
45542182 TAAAAGTTCATATATCAAATTATACATTAAA
1 TAAAAATTCATATATCAAAATATACATTAAA
45542213 ACAAAATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 1 0.04
33 27 0.96
ACGTcount: A:0.53, C:0.11, G:0.05, T:0.31
Consensus pattern (33 bp):
TAAAAATTCATATATCAAAATATACATTAAAGC
Found at i:45542863 original size:20 final size:19
Alignment explanation
Indices: 45542813--45542868 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 19
45542803 TAAAGTTTAG
* *
45542813 TTTTTAAAATTTACATTCCT
1 TTTTTTAAATTTA-ATTCAT
45542833 TTTTCTT-AATTTAATTCAT
1 TTTT-TTAAATTTAATTCAT
*
45542852 TATTTTTAAATTAAATT
1 T-TTTTTAAATTTAATT
45542869 AAATTTTTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 8 0.27
20 21 0.70
21 1 0.03
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTTTTAAATTTAATTCAT
Found at i:45542942 original size:57 final size:56
Alignment explanation
Indices: 45542848--45542954 Score: 144
Period size: 57 Copynumber: 1.9 Consensus size: 56
45542838 TTAATTTAAT
** *
45542848 TCATTATTTTTAAATTAAATTAAATTTTTGATCTTTAA-AAAAATGTTAAATTTGA
1 TCATTATTTTTAAAAAAAATTAAATTATTGATCTTTAATAAAAATGTTAAATTTGA
* *
45542903 TCATTAATTTTTAAAAAAAAATTAAATTATTGTTTTTTAATAAAAATGTTAA
1 TCATT-ATTTTT-AAAAAAAATTAAATTATTGATCTTTAATAAAAATGTTAA
45542955 CTAAAACATT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
55 5 0.11
56 6 0.14
57 22 0.50
58 11 0.25
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.48
Consensus pattern (56 bp):
TCATTATTTTTAAAAAAAATTAAATTATTGATCTTTAATAAAAATGTTAAATTTGA
Found at i:45542965 original size:57 final size:58
Alignment explanation
Indices: 45542864--45542975 Score: 129
Period size: 57 Copynumber: 1.9 Consensus size: 58
45542854 TTTTTAAATT
* * ** * *
45542864 AAATTAAATTTTTGATCTTTAAAAAAATGTTAAATTTGATCATT-AATTTTTAAAAAA
1 AAATTAAATTATTGATCTTTAAAAAAATGTTAAACTAAAACATTAAAATTTTAAAAAA
* *
45542921 AAATTAAATTATTGTTTTTTAATAAAAATGTT-AACTAAAACATTAAAATTTTAAA
1 AAATTAAATTATTGATCTTTAA-AAAAATGTTAAACTAAAACATTAAAATTTTAAA
45542976 CATGTCAACT
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
57 27 0.60
58 18 0.40
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (58 bp):
AAATTAAATTATTGATCTTTAAAAAAATGTTAAACTAAAACATTAAAATTTTAAAAAA
Found at i:45543061 original size:16 final size:16
Alignment explanation
Indices: 45543025--45543072 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
45543015 ATTCTTTTGA
**
45543025 ATTTTTATAAATTTTAA
1 ATTTTTAT-AATTTTTT
45543042 ATTTTT-TGAATTTTTT
1 ATTTTTAT-AATTTTTT
45543058 ATTTTTATAATTTTT
1 ATTTTTATAATTTTT
45543073 AAAATTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 20 0.74
17 7 0.26
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (16 bp):
ATTTTTATAATTTTTT
Found at i:45543078 original size:25 final size:24
Alignment explanation
Indices: 45543036--45543085 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
45543026 TTTTTATAAA
** *
45543036 TTTTAAATTTTTTGAATTTTTTAT
1 TTTTAAATTTTTAAAATTATTTAT
45543060 TTTTATAATTTTTAAAATTATTTAT
1 TTTTA-AATTTTTAAAATTATTTAT
45543085 T
1 T
45543086 ATCATAACAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (24 bp):
TTTTAAATTTTTAAAATTATTTAT
Found at i:45543092 original size:25 final size:25
Alignment explanation
Indices: 45543041--45543092 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 25
45543031 ATAAATTTTA
** * * *
45543041 AATTTTTTGAATTTTTTATTTTTAT
1 AATTTTTAAAATTATTTATTATCAT
45543066 AATTTTTAAAATTATTTATTATCAT
1 AATTTTTAAAATTATTTATTATCAT
45543091 AA
1 AA
45543093 CATATAAGAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (25 bp):
AATTTTTAAAATTATTTATTATCAT
Found at i:45544210 original size:23 final size:23
Alignment explanation
Indices: 45544179--45544222 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
45544169 TGAAAGTTTC
45544179 ATAAATATAA-ATATGGTACATTT
1 ATAAATATAATATAT-GTACATTT
*
45544202 ATAAGTATAATATATGTACAT
1 ATAAATATAATATATGTACAT
45544223 GTTGAGGCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.48, C:0.05, G:0.09, T:0.39
Consensus pattern (23 bp):
ATAAATATAATATATGTACATTT
Found at i:45546298 original size:30 final size:28
Alignment explanation
Indices: 45546263--45546327 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 28
45546253 TCTAAACTAA
*
45546263 AAAAAAACTAATCTTATTTGCTTCAAAATT
1 AAAAAAACT-ATCCTATTTGCTTCAAAA-T
**
45546293 AAAAAATGTATCCTATTTGCTTCAAAAT
1 AAAAAAACTATCCTATTTGCTTCAAAAT
45546321 AAAAAAA
1 AAAAAAA
45546328 TAAATTAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 7 0.23
29 17 0.55
30 7 0.23
ACGTcount: A:0.51, C:0.12, G:0.05, T:0.32
Consensus pattern (28 bp):
AAAAAAACTATCCTATTTGCTTCAAAAT
Found at i:45555173 original size:173 final size:173
Alignment explanation
Indices: 45554886--45555586 Score: 752
Period size: 173 Copynumber: 4.0 Consensus size: 173
45554876 TGTATTTTAT
* * * *
45554886 CTGAATTTATTGAGTCATAAGCAATACAGAACAGACTATTTGTGAAGTTAAAATTGTTTTTCAAT
1 CTGAATTTATTGAGCCATAAGCAATACAAAACAGACTATTTTTAAAGTTAAAATTGTTTTTCAAT
* * *
45554951 TCAAACCCAATAGCTATTGTGTTTG-AAAAAAAAACCACTTTTGGAGTCAAAGATATTTTTAACT
66 CCAAACCCAAAAGCTATTGTGTTTGTAAAAAAAAAACACTTTTGGAGTCAAAGATATTTTTAACT
* *
45555015 CTTATTTATAATATAATGCATTTTATATAATATTTATATTGAAT
131 CTTATTTATAATATAATG-ATTTTATATAATATTTATATTGGAC
* * *
45555059 CTGAATTTATTGAGTCATAAGCAATACAAAATAGATTATTTTTAAAGTTAAAATTG-TTTTCAAT
1 CTGAATTTATTGAGCCATAAGCAATACAAAACAGACTATTTTTAAAGTTAAAATTGTTTTTCAAT
*
45555123 CCAAACCCAAAAGCTATTATGTTTGTAAAAAAAAAACACTTTTGGAGTCAAAGATATTTTTAACT
66 CCAAACCCAAAAGCTATTGTGTTTGTAAAAAAAAAACACTTTTGGAGTCAAAGATATTTTTAACT
* * * *
45555188 CTTATTTTTAATCTAAT-ATATTATCTAATATTTATATTGGAC
131 CTTATTTATAATATAATGATTTTATATAATATTTATATTGGAC
*** * *
45555230 CTGAATTTATTGAGCCATAAGCAACGTAAAACAGACCATTTTTGAAGTTAAAATTGTTTTTCAAT
1 CTGAATTTATTGAGCCATAAGCAATACAAAACAGACTATTTTTAAAGTTAAAATTGTTTTTCAAT
* ** * *
45555295 CCAAACCCAAAAACTATTGCCTTTTTAAAAAAAAAA-ACATTTTCGGAGTCAGA-ATATTTTTAA
66 CCAAACCCAAAAGCTATTGTGTTTGTAAAAAAAAAACAC-TTTT-GGAGTCAAAGATATTTTTAA
* *
45555358 CTCTTATTTAAAATTTAATGTATTTTATATAATATTTATATTGGAC
129 CTCTTATTTATAATATAATG-ATTTTATATAATATTTATATTGGAC
* * * * * * *
45555404 CTAAATTTATTGAGCCATAAGCAATGCTAAATAGA-TAGCTTTTAAAATCAAAATTGTTTTTGAA
1 CTGAATTTATTGAGCCATAAGCAATACAAAACAGACTA-TTTTTAAAGTTAAAATTG----T---
* * * ** * * *
45555468 AAGTGTGTTGAATCTAAACACAAAAGCTATTGCATTTG--GAGAAAAAACAATTTTGGAGTCAAA
58 ---T-T-TTCAATCCAAACCCAAAAGCTATTGTGTTTGTAAAAAAAAAACACTTTTGGAGTCAAA
* * *
45555531 TGATATTTTTAACCCTCATTTATAATCTAATGTATTTTATATAATATTTATATTGG
118 -GATATTTTTAACTCTTATTTATAATATAATG-ATTTTATATAATATTTATATTGG
45555587 GTATACAATT
Statistics
Matches: 448, Mismatches: 58, Indels: 32
0.83 0.11 0.06
Matches are distributed among these distances:
171 71 0.16
172 99 0.22
173 113 0.25
174 67 0.15
178 1 0.00
183 8 0.02
184 12 0.03
185 52 0.12
186 25 0.06
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (173 bp):
CTGAATTTATTGAGCCATAAGCAATACAAAACAGACTATTTTTAAAGTTAAAATTGTTTTTCAAT
CCAAACCCAAAAGCTATTGTGTTTGTAAAAAAAAAACACTTTTGGAGTCAAAGATATTTTTAACT
CTTATTTATAATATAATGATTTTATATAATATTTATATTGGAC
Found at i:45555561 original size:345 final size:336
Alignment explanation
Indices: 45554886--45555543 Score: 743
Period size: 345 Copynumber: 1.9 Consensus size: 336
45554876 TGTATTTTAT
* *
45554886 CTGAATTTATTGAGTCATAAGCAATACAGAACAGACTATTTGTGAAGTTAAAATTGTTTTTCAAT
1 CTGAATTTATTGAGCCATAAGCAATACAGAACAGACCATTTGTGAAGTTAAAATTGTTTTTCAAT
* * * * *
45554951 TCAAACCCAATAGCTATTGTGTTTGAAAAAAAAACCACTTTTGGAGTCAAAGATATTTTTAACTC
66 CCAAACCCAAAAACTATTGTGTTTAAAAAAAAAAACACTTTTGGAGTCAAAGATATTTTTAACTC
* * * *
45555016 TTATTTATAATATAATGCATTTTATATAATATTTATATTGAATCTGAATTTATTGAGTCATAAGC
131 TTATTTAAAATATAATGCATTTTATATAATATTTATATTGAACCTAAATTTATTGAGCCATAAGC
* * * **
45555081 AATACAAAATAGATTATTTTTAAAGTTAAAATTGTTTTCAATCCAAACCCAAAAGCTATTATGTT
196 AATACAAAATAGATTATTTTTAAAGTTAAAAGTGTGTTCAATCCAAACACAAAAGCTATTACATT
* *
45555146 TGTAAAAAAAAAACACTTTTGGAGTCAAAGATATTTTTAACTCTTATTTTTAATCTAATATATTA
261 TG-AAAAAAAAAACAATTTTGGAGTCAAAGATATTTTTAACTC-----TCTAATCT-ATATA-TA
45555211 TCTAATATTTATATTGGAC
318 TCTAATATTTATATTGGAC
*
45555230 CTGAATTTATTGAGCCATAAGCAACGTA-A-AACAGACCATTTTTGAAGTTAAAATTGTTTTTCA
1 CTGAATTTATTGAGCCATAAGCAA--TACAGAACAGACCATTTGTGAAGTTAAAATTGTTTTTCA
* *
45555293 ATCCAAACCCAAAAACTATTGCCTTTTTAAAAAAAAAAACA-TTTTCGGAGTCAGA-ATATTTTT
64 ATCCAAACCCAAAAACTATTG--TGTTTAAAAAAAAAAACACTTTT-GGAGTCAAAGATATTTTT
* * *
45555356 AACTCTTATTTAAAATTTAATGTATTTTATATAATATTTATATTGGACCTAAATTTATTGAGCCA
126 AACTCTTATTTAAAATATAATGCATTTTATATAATATTTATATTGAACCTAAATTTATTGAGCCA
* * * *
45555421 TAAGCAATGCTAAATAGA-TAGCTTTTAAAATCAAAATTGTTTTTGAAAAGTGTGTTGAATCTAA
191 TAAGCAATACAAAATAGATTA--TTTT----T--AAA--G---TT-AAAAGTGTGTTCAATCCAA
* * *
45555485 ACACAAAAGCTATTGCATTTG-GAGAAAAAACAATTTTGGAGTCAAATGATATTTTTAAC
242 ACACAAAAGCTATTACATTTGAAAAAAAAAACAATTTTGGAGTCAAA-GATATTTTTAAC
45555544 CCTCATTTAT
Statistics
Matches: 264, Mismatches: 30, Indels: 27
0.82 0.09 0.08
Matches are distributed among these distances:
344 75 0.28
345 87 0.33
346 29 0.11
350 1 0.00
352 3 0.01
354 1 0.00
356 22 0.08
357 14 0.05
358 32 0.12
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (336 bp):
CTGAATTTATTGAGCCATAAGCAATACAGAACAGACCATTTGTGAAGTTAAAATTGTTTTTCAAT
CCAAACCCAAAAACTATTGTGTTTAAAAAAAAAAACACTTTTGGAGTCAAAGATATTTTTAACTC
TTATTTAAAATATAATGCATTTTATATAATATTTATATTGAACCTAAATTTATTGAGCCATAAGC
AATACAAAATAGATTATTTTTAAAGTTAAAAGTGTGTTCAATCCAAACACAAAAGCTATTACATT
TGAAAAAAAAAACAATTTTGGAGTCAAAGATATTTTTAACTCTCTAATCTATATATATCTAATAT
TTATATTGGAC
Found at i:45555703 original size:20 final size:20
Alignment explanation
Indices: 45555666--45555704 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
45555656 TGTATTTTGA
* *
45555666 TATTTAAATTATAGTTTATT
1 TATTCAAATTAAAGTTTATT
*
45555686 TATTCAAATTAAATTTTAT
1 TATTCAAATTAAAGTTTAT
45555705 AAATAATTAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (20 bp):
TATTCAAATTAAAGTTTATT
Found at i:45567088 original size:23 final size:25
Alignment explanation
Indices: 45567043--45567089 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
45567033 AACACTGGAA
45567043 CAAGTAAAATAATAAAAGCAAACAG
1 CAAGTAAAATAATAAAAGCAAACAG
45567068 CAAG-AAATATAA-AAAAG-AAACA
1 CAAGTAAA-ATAATAAAAGCAAACA
45567090 AACCAAACGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 5 0.24
24 8 0.38
25 8 0.38
ACGTcount: A:0.68, C:0.11, G:0.11, T:0.11
Consensus pattern (25 bp):
CAAGTAAAATAATAAAAGCAAACAG
Found at i:45583919 original size:14 final size:14
Alignment explanation
Indices: 45583900--45583934 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
45583890 TAATGTGAAA
45583900 ATTTATTATAAATT
1 ATTTATTATAAATT
45583914 ATTTATTATAAATT
1 ATTTATTATAAATT
*
45583928 ATATATT
1 ATTTATT
45583935 TTAATTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
ATTTATTATAAATT
Found at i:45584179 original size:44 final size:45
Alignment explanation
Indices: 45584114--45584204 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
45584104 ACCTCTATTC
* * *
45584114 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
45584158 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
45584203 CA
1 CA
45584205 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:45584219 original size:17 final size:16
Alignment explanation
Indices: 45584185--45584237 Score: 97
Period size: 16 Copynumber: 3.2 Consensus size: 16
45584175 GATTAGCTAT
45584185 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
45584201 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
45584218 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
45584234 TACA
1 TACA
45584238 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:45585872 original size:13 final size:14
Alignment explanation
Indices: 45585848--45585876 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
45585838 ACTCAAACAA
45585848 AAGAAGCCAAGCAG
1 AAGAAGCCAAGCAG
45585862 AAGAA-CCAAGCAG
1 AAGAAGCCAAGCAG
45585875 AA
1 AA
45585877 ACGACAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.55, C:0.21, G:0.24, T:0.00
Consensus pattern (14 bp):
AAGAAGCCAAGCAG
Found at i:45590251 original size:46 final size:44
Alignment explanation
Indices: 45590198--45590364 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 44
45590188 GACGAGGGCT
45590198 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAG-ATG-GAGCC
* * *
45590244 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTTAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AGATG-GAGCC
* * * * * * * *
45590290 AATGTCAGACATGTCTGGGACATGCGTCGGCTACGGGAT-GTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AGATGGAGCC
*
45590334 AGTGTAAGACATGTCTGGGACATGCGTCAGC
1 AGTGTAAGACATGTCTGGGACATGCATCAGC
45590365 ACGGTTACAT
Statistics
Matches: 104, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
44 30 0.29
46 72 0.69
47 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGATGGAGCC
Found at i:45590301 original size:92 final size:90
Alignment explanation
Indices: 45590147--45590358 Score: 235
Period size: 92 Copynumber: 2.3 Consensus size: 90
45590137 AGATTTGTGT
* * * * *
45590147 GCCAGTGTAAGACCATGTATGGGACATGGCATCGGCATTGAGACGAGGGCTAGTGTAAGACATGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGACGAGAGCCAATGTAAGACATGT
*
45590212 CTGGGACATGCATCAGCCACAGTATGAGA
64 CTGGGACATGCATCAGCCACAGGAT--GA
* * ** *
45590241 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTTAGCCAATGTCAGACATGTCT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACGAGAGCCAATGTAAGACATGTCT
* * * * *
45590306 GGGACATGCGTCGGCTACGGGATGT
66 GGGACATGCATCAGCCACAGGATGA
*
45590331 GCTAGTGTAAGACATGTCTGGGACATGC
1 GCCAGTGTAAGACATGTCTGGGACATGC
45590359 GTCAGCACGG
Statistics
Matches: 101, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
90 28 0.28
92 48 0.48
93 13 0.13
94 12 0.12
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.22
Consensus pattern (90 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACGAGAGCCAATGTAAGACATGTCT
GGGACATGCATCAGCCACAGGATGA
Found at i:45590395 original size:46 final size:44
Alignment explanation
Indices: 45590195--45590401 Score: 170
Period size: 46 Copynumber: 4.6 Consensus size: 44
45590185 TGAGACGAGG
* * * * *
45590195 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCGTCAGCTACGGCAT--GT
* * *
45590241 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAG-ATGTT
1 GCTAGTGTAAGACATGTCTGGGACATGCGTCAG-CTACG-GCATG-T
* * * * *
45590286 AGCCAATGTCAGACATGTCTGGGACATGCGTCGGCTACGGGATGT
1 -GCTAGTGTAAGACATGTCTGGGACATGCGTCAGCTACGGCATGT
45590331 GCTAGTGTAAGACATGTCTGGGACATGCGTCAGC-ACGGTTACATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCGTCAGCTACGG---CATGT
*
45590377 G-TCAGTGTAAGACCTGTCTGGGACA
1 GCT-AGTGTAAGACATGTCTGGGACA
45590402 CAGCATTGAC
Statistics
Matches: 137, Mismatches: 14, Indels: 20
0.80 0.08 0.12
Matches are distributed among these distances:
43 4 0.03
44 31 0.23
45 5 0.04
46 95 0.69
47 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.24
Consensus pattern (44 bp):
GCTAGTGTAAGACATGTCTGGGACATGCGTCAGCTACGGCATGT
Found at i:45595662 original size:25 final size:24
Alignment explanation
Indices: 45595634--45595752 Score: 89
Period size: 25 Copynumber: 4.8 Consensus size: 24
45595624 ACTATTACTC
*
45595634 ATTTTGAATTCTTCATATATTATTT
1 ATTTTGAATTATT-ATATATTATTT
** * *
45595659 ATTTCAAACTATTATATCTTATTT
1 ATTTTGAATTATTATATATTATTT
45595683 ATTTTGAAATTATTTATATATCT-TCTT
1 ATTTTG-AATTA-TTATATAT-TAT-TT
* *
45595710 ACTTTAAACTT-TTATATATTATTT
1 ATTTTGAA-TTATTATATATTATTT
*
45595734 ATTTTGGATTATTCATATA
1 ATTTTGAATTATT-ATATA
45595753 CATATATTTT
Statistics
Matches: 72, Mismatches: 14, Indels: 16
0.71 0.14 0.16
Matches are distributed among these distances:
23 2 0.03
24 24 0.33
25 27 0.38
26 10 0.14
27 9 0.12
ACGTcount: A:0.31, C:0.08, G:0.03, T:0.57
Consensus pattern (24 bp):
ATTTTGAATTATTATATATTATTT
Found at i:45595702 original size:50 final size:50
Alignment explanation
Indices: 45595634--45595752 Score: 145
Period size: 51 Copynumber: 2.4 Consensus size: 50
45595624 ACTATTACTC
* *
45595634 ATTTTGAATTCTTCATATAT-TAT-TTA-TTTCAAACTATTATATCTTATTT
1 ATTTTGAATTATTCATATATCT-TCTTACTTT-AAACTATTATATATTATTT
* *
45595683 ATTTTGAAATTATTTATATATCTTCTTACTTTAAACTTTTATATATTATTT
1 ATTTTG-AATTATTCATATATCTTCTTACTTTAAACTATTATATATTATTT
*
45595734 ATTTTGGATTATTCATATA
1 ATTTTGAATTATTCATATA
45595753 CATATATTTT
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
49 6 0.10
50 24 0.40
51 27 0.45
52 3 0.05
ACGTcount: A:0.31, C:0.08, G:0.03, T:0.57
Consensus pattern (50 bp):
ATTTTGAATTATTCATATATCTTCTTACTTTAAACTATTATATATTATTT
Found at i:45595832 original size:25 final size:26
Alignment explanation
Indices: 45595777--45595869 Score: 80
Period size: 27 Copynumber: 3.5 Consensus size: 26
45595767 ATTAAACGGT
* * *
45595777 TTTTATACATTATTTATTCCAAATTTC
1 TTTTATATATTATTTATTCTAAA-TTA
*
45595804 TTTTACATATTATTTATTCTAAA-TA
1 TTTTATATATTATTTATTCTAAATTA
** * **
45595829 TTTTATACGTTATTTATTTTAAACCA
1 TTTTATATATTATTTATTCTAAATTA
45595855 TTTTATATATATATT
1 TTTTATATAT-TATT
45595870 ATCTATTTTA
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
25 20 0.38
26 9 0.17
27 24 0.45
ACGTcount: A:0.32, C:0.10, G:0.01, T:0.57
Consensus pattern (26 bp):
TTTTATATATTATTTATTCTAAATTA
Found at i:45596052 original size:29 final size:30
Alignment explanation
Indices: 45596013--45596069 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
45596003 GATTTATATA
* *
45596013 TTTTTATATATTATTTATTTTA-AATTTAT
1 TTTTTACATATTATTCATTTTAGAATTTAT
45596042 TTTTTACATATTATTCATTTTAGAATTT
1 TTTTTACATATTATTCATTTTAGAATTT
45596070 CTATATTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (30 bp):
TTTTTACATATTATTCATTTTAGAATTTAT
Found at i:45597900 original size:20 final size:21
Alignment explanation
Indices: 45597877--45597915 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
45597867 TTTGAAGCAC
45597877 GAAA-ATTTTTTTTTAAAAAT
1 GAAAGATTTTTTTTTAAAAAT
*
45597897 GAAAGTTTTTTTTTTAAAA
1 GAAAGATTTTTTTTTAAAA
45597916 CACGAGAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (21 bp):
GAAAGATTTTTTTTTAAAAAT
Found at i:45597927 original size:21 final size:20
Alignment explanation
Indices: 45597874--45597928 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 20
45597864 AATTTTGAAG
45597874 CACGAAAATTTTTTTTTAAAA
1 CACG-AAATTTTTTTTTAAAA
*
45597895 -ATGAAAGTTTTTTTTTTAAAA
1 CACGAAA--TTTTTTTTTAAAA
45597916 CACGAGAATTTTT
1 CACGA-AATTTTT
45597929 AAACACGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
19 3 0.11
20 2 0.07
21 18 0.64
22 3 0.11
23 2 0.07
ACGTcount: A:0.38, C:0.07, G:0.09, T:0.45
Consensus pattern (20 bp):
CACGAAATTTTTTTTTAAAA
Found at i:45597932 original size:16 final size:17
Alignment explanation
Indices: 45597907--45598111 Score: 131
Period size: 17 Copynumber: 12.3 Consensus size: 17
45597897 GAAAGTTTTT
45597907 TTTTTAAAACACGAGAA
1 TTTTTAAAACACGAGAA
45597924 TTTTT-AAACACG-GAA
1 TTTTTAAAACACGAGAA
* * *
45597939 ATTTCAGAAACACGAAAA
1 TTTTTA-AAACACGAGAA
* *
45597957 TTTTTAAAACACGACAT
1 TTTTTAAAACACGAGAA
*
45597974 TTTTTGAAACACGAGAA
1 TTTTTAAAACACGAGAA
* * *
45597991 TTTTTAAAACAAGACATT
1 TTTTTAAAACACGAGA-A
* * ***
45598009 TTTTTGAAACACAATTT
1 TTTTTAAAACACGAGAA
*
45598026 TTTTCTTAAA-A--A-AA
1 TTTT-TAAAACACGAGAA
*
45598040 --TTTAAAATACGAGAA
1 TTTTTAAAACACGAGAA
*
45598055 TTTTTAAAAACACGAAAA
1 TTTTT-AAAACACGAGAA
*
45598073 TTTTTAAAACACGAAAA
1 TTTTTAAAACACGAGAA
*
45598090 TTTTTGAAACACG-GAAA
1 TTTTTAAAACACGAG-AA
45598107 TTTTT
1 TTTTT
45598112 TAGAAAACGA
Statistics
Matches: 148, Mismatches: 27, Indels: 26
0.74 0.13 0.13
Matches are distributed among these distances:
11 4 0.03
12 3 0.02
14 1 0.01
15 9 0.06
16 7 0.05
17 88 0.59
18 36 0.24
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (17 bp):
TTTTTAAAACACGAGAA
Found at i:45598081 original size:35 final size:34
Alignment explanation
Indices: 45597907--45598111 Score: 147
Period size: 34 Copynumber: 6.1 Consensus size: 34
45597897 GAAAGTTTTT
* *
45597907 TTTTTAAAACACGAGAATTTTT-AAACACGGAAA
1 TTTTTAAAACACGAAAATTTTTAAAACACGAAAA
* * *
45597940 -TTTCAGAAACACGAAAATTTTTAAAACACGACAT
1 TTTTTA-AAACACGAAAATTTTTAAAACACGAAAA
* * * **
45597974 TTTTTGAAACACGAGAATTTTTAAAACAAGACATT
1 TTTTTAAAACACGAAAATTTTTAAAACACGA-AAA
* ** **
45598009 TTTTTGAAACAC-AATTTTTTTCTTAA-A--AAAA
1 TTTTTAAAACACGAAAATTTTT-AAAACACGAAAA
* *
45598040 --TTTAAAATACGAGAATTTTTAAAAACACGAAAA
1 TTTTTAAAACACGAAAATTTTT-AAAACACGAAAA
* *
45598073 TTTTTAAAACACGAAAATTTTTGAAACACGGAAA
1 TTTTTAAAACACGAAAATTTTTAAAACACGAAAA
45598107 TTTTT
1 TTTTT
45598112 TAGAAAACGA
Statistics
Matches: 131, Mismatches: 30, Indels: 21
0.72 0.16 0.12
Matches are distributed among these distances:
29 8 0.06
30 8 0.06
31 2 0.02
32 5 0.04
33 19 0.15
34 53 0.40
35 36 0.27
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (34 bp):
TTTTTAAAACACGAAAATTTTTAAAACACGAAAA
Found at i:45609239 original size:71 final size:70
Alignment explanation
Indices: 45609091--45609266 Score: 219
Period size: 71 Copynumber: 2.5 Consensus size: 70
45609081 AAAAATTAAA
* * * * * * **
45609091 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCGGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAAAAAAAACTAAAAATACCTCAACGTG
45609155 CCCCG
66 CCCCG
*
45609160 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAAAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AAAAAAAAAACTAAAAATACCTCAACGT
* **
45609225 GTCTTG
65 GCCCCG
*
45609231 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT
45609267 CCTTGGAAAG
Statistics
Matches: 92, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
69 26 0.28
70 5 0.05
71 61 0.66
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAAAAAAAACTAAAAATACCTCAACGTG
CCCCG
Found at i:45621257 original size:29 final size:29
Alignment explanation
Indices: 45621224--45621340 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
45621214 TGTAATTTTT
*
45621224 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
45621253 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
45621283 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
45621312 GGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAA-TTTA-GGGTTAAAATGAAATTT
45621341 TTATTTTTAA
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 14 0.19
30 56 0.78
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.30
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Done.