Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
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: 16962412
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 40 of 73
Found at i:9748098 original size:43 final size:38
Alignment explanation
Indices: 9748006--9748102 Score: 95
Period size: 43 Copynumber: 2.4 Consensus size: 38
9747996 ACTATTTAAA
* *
9748006 AAGGGGTTTTGAAACCAGATAGGGGGATTAAACCAATC
1 AAGGGGTTTTGAAACAAGATAGGGGGATTAAACCAAGC
* * *
9748044 ATGGGGGTTTTGAAACAAGGTATAGGGGGTTTTTAAACCAGGC
1 A-AGGGGTTTTGAAACAA-G-ATAGGGGG--ATTAAACCAAGC
9748087 AAGGGGATTTTGAAAC
1 AAGGGG-TTTTGAAAC
9748103 CATGCTGAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
38 1 0.02
39 14 0.30
40 1 0.02
41 8 0.17
42 4 0.09
43 19 0.40
ACGTcount: A:0.33, C:0.10, G:0.32, T:0.25
Consensus pattern (38 bp):
AAGGGGTTTTGAAACAAGATAGGGGGATTAAACCAAGC
Found at i:9748103 original size:21 final size:22
Alignment explanation
Indices: 9748008--9748104 Score: 89
Period size: 21 Copynumber: 4.7 Consensus size: 22
9747998 TATTTAAAAA
9748008 GGGGTTTTGAAACCA-G-ATAG
1 GGGGTTTTGAAACCAGGCATAG
* **
9748028 GGGG-ATT-AAACCAATCAT-G
1 GGGGTTTTGAAACCAGGCATAG
* *
9748047 GGGGTTTTGAAACAAGGTATAG
1 GGGGTTTTGAAACCAGGCATAG
*
9748069 GGGGTTTTTAAACCAGGCA-AG
1 GGGGTTTTGAAACCAGGCATAG
*
9748090 GGGATTTTGAAACCA
1 GGGGTTTTGAAACCA
9748105 TGCTGAAATT
Statistics
Matches: 60, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
18 6 0.10
19 7 0.12
20 8 0.13
21 22 0.37
22 17 0.28
ACGTcount: A:0.32, C:0.11, G:0.32, T:0.25
Consensus pattern (22 bp):
GGGGTTTTGAAACCAGGCATAG
Found at i:9753532 original size:2 final size:2
Alignment explanation
Indices: 9753520--9753581 Score: 97
Period size: 2 Copynumber: 31.0 Consensus size: 2
9753510 AAATTAATGC
*
9753520 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
**
9753562 TA TA TA TA TA CG TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
9753582 ATAATGGTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:9754123 original size:56 final size:55
Alignment explanation
Indices: 9753918--9754680 Score: 519
Period size: 56 Copynumber: 13.9 Consensus size: 55
9753908 CCAATTTCTG
* * *
9753918 AAGACGGGTCTGCTCTACTCTTCTTAT-AGGGAGATAAGACTCGAAAAATCTTCG-G
1 AAGACGGGTCTGCTCCACTCTTCTT-TCAGGGAGATAAGACTCGAAAAAACTT-GAT
* * ** * * * *
9753973 AATAGGGGTCCACTTCACTCTTCTTTAAGGGAGTATAAGACTCAAAAAAACTTCA-
1 AAGACGGGTCTGCTCCACTCTTCTTTCAGGGAG-ATAAGACTCGAAAAAACTTGAT
* ** * * * *
9754028 AAAATCGAATCCGCTCCACTATTTTTTCAAGGAGTATAAGACTCGAGAAAAACTTGAT
1 AAGA-CGGGTCTGCTCCACTCTTCTTTCAGGGAG-ATAAGACTCGA-AAAAACTTGAT
** * * *
9754086 AAGACGGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAAGGATCTTCAG
1 AAGACGGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAAAAAACTTGAT
* * * *
9754141 AAGAAGGGTCCGCTCC-CTCTTCTTTCAGGGAGTATAGGACTCAAGAAAAACTTGAT
1 AAGACGGGTCTGCTCCACTCTTCTTTCAGGGAG-ATAAGACTCGA-AAAAACTTGAT
* * * *
9754197 AAGATGGGTCTGTTCCACTCTTTTTTTCAGAGAGATAAGACTC-AAAAAATCTTCGA-
1 AAGACGGGTCTGCTCCACTC-TTCTTTCAGGGAGATAAGACTCGAAAAAA-CTT-GAT
* ** * *
9754253 AAGACAGGT-TCGCT-TTCTCTTTTTTCA-GGAG-TACAGGACTCGAGAAAAACATGAT
1 AAGACGGGTCT-GCTCCACTCTTCTTTCAGGGAGATA-A-GACTCGA-AAAAACTTGAT
* * * * *
9754308 AAGACGGGTCTGCTCTACTCTTCTTTTAGTGAGATAAGACTC-AAAAAATCTTCAA
1 AAGACGGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAAAAAA-CTTGAT
* * * * *
9754363 AAGATGGGTCCGCTCC-CTCTT-TCTTCAGTGAGTATAGGATTCGAGAAAAACTTGAT
1 AAGACGGGTCTGCTCCACTCTTCT-TTCAGGGAG-ATAAGACTCGA-AAAAACTTGAT
* * * * *
9754419 AAGACGGGTCTACTCTACTATTCTTTCAGGGAGATAAGACT--AAAAAATCTTCAG
1 AAGACGGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAAAAAA-CTTGAT
* * * *
9754473 AAGACGGGTTTGCT-C-C-C-TC-TTCAGGGAGTATAGGACTCAAAAAAATTTGAT
1 AAGACGGGTCTGCTCCACTCTTCTTTCAGGGAG-ATAAGACTCGAAAAAACTTGAT
* * * * *
9754524 AAGACGGGTTTTCTCCACTCTTCTTTCAAGGAGATAAGACTC-AAAAATCTTTG-G
1 AAGACGGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAAAAAAC-TTGAT
* * * * * *
9754578 AAGATGGGTCCGCTCC-TTCTTATTTCAAGGAGTATAGGACTCGAGAAAAACTTGAT
1 AAGACGGGTCTGCTCCACTCTTCTTTCAGGGAG-ATAAGACTCGA-AAAAACTTGAT
* ** *
9754634 AAGACGGGTATGCAGCAATCTTCTTTCAGGGAGATAAGACTCGAAAA
1 AAGACGGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAAAA
9754681 TCTTTGAAAG
Statistics
Matches: 551, Mismatches: 113, Indels: 88
0.73 0.15 0.12
Matches are distributed among these distances:
49 9 0.02
50 9 0.02
51 16 0.03
52 10 0.02
53 25 0.05
54 93 0.17
55 124 0.23
56 169 0.31
57 79 0.14
58 17 0.03
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (55 bp):
AAGACGGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAAAAAACTTGAT
Found at i:9754188 original size:111 final size:111
Alignment explanation
Indices: 9753988--9754736 Score: 808
Period size: 111 Copynumber: 6.8 Consensus size: 111
9753978 GGGTCCACTT
* * ** *
9753988 CACTCTTCTTTAAGGGAGTATAAGACTCAAAAAAACTTCA-AA-AATCGAATCCGCTCCACTATT
1 CACTCTTCTTTCAGGGAG-ATAAGACTCAAAAAATCTTCAGAAGAA--GGGTCCGCTCC-CTCTT
* *
9754051 TTTTCAAGGAGTATAAGACTCGAGAAAAACTTGATAAGACGGGTCTGCTC
62 TTTTCAGGGAGTATAGGACTCGAGAAAAACTTGATAAGACGGGTCTGCTC
* ** *
9754101 CACTCTTCTTTCAGGGAGATAAGACTCGAAGGATCTTCAGAAGAAGGGTCCGCTCCCTCTTCTTT
1 CACTCTTCTTTCAGGGAGATAAGACTCAAAAAATCTTCAGAAGAAGGGTCCGCTCCCTCTTTTTT
* * *
9754166 CAGGGAGTATAGGACTCAAGAAAAACTTGATAAGATGGGTCTGTTC
66 CAGGGAGTATAGGACTCGAGAAAAACTTGATAAGACGGGTCTGCTC
* * * **
9754212 CACTCTTTTTTTCAGAGAGATAAGACTCAAAAAATCTTC-GAAAGACA-GGTTCGCTTTCTCTTT
1 CACTC-TTCTTTCAGGGAGATAAGACTCAAAAAATCTTCAG-AAGA-AGGGTCCGCTCCCTCTTT
* *
9754275 TTTCA-GGAGTACAGGACTCGAGAAAAACATGATAAGACGGGTCTGCTC
63 TTTCAGGGAGTATAGGACTCGAGAAAAACTTGATAAGACGGGTCTGCTC
* * * * * *
9754323 TACTCTTCTTTTAGTGAGATAAGACTCAAAAAATCTTCAAAAGATGGGTCCGCTCCCTCTTTCTT
1 CACTCTTCTTTCAGGGAGATAAGACTCAAAAAATCTTCAGAAGAAGGGTCCGCTCCCTCTTTTTT
* * *
9754388 CAGTGAGTATAGGATTCGAGAAAAACTTGATAAGACGGGTCTACTC
66 CAGGGAGTATAGGACTCGAGAAAAACTTGATAAGACGGGTCTGCTC
* * * **
9754434 TACTATTCTTTCAGGGAGATAAGACT-AAAAAATCTTCAGAAGACGGGTTTGCTCCCTC----TT
1 CACTCTTCTTTCAGGGAGATAAGACTCAAAAAATCTTCAGAAGAAGGGTCCGCTCCCTCTTTTTT
* * * *
9754494 CAGGGAGTATAGGACTC-AAAAAAATTTGATAAGACGGGTTTTCTC
66 CAGGGAGTATAGGACTCGAGAAAAACTTGATAAGACGGGTCTGCTC
* ** * * *
9754539 CACTCTTCTTTCAAGGAGATAAGACTC-AAAAATCTTTGGAAGATGGGTCCGCTCCTTCTTATTT
1 CACTCTTCTTTCAGGGAGATAAGACTCAAAAAATCTTCAGAAGAAGGGTCCGCTCCCTCTTTTTT
* * **
9754603 CAAGGAGTATAGGACTCGAGAAAAACTTGATAAGACGGGTATGCAG
66 CAGGGAGTATAGGACTCGAGAAAAACTTGATAAGACGGGTCTGCTC
* * * * * * *
9754649 CAATCTTCTTTCAGGGAGATAAGACTC-GAAAATCTT-TGAAAGACGAGTCCAC-ACCTCTTTTT
1 CACTCTTCTTTCAGGGAGATAAGACTCAAAAAATCTTCAG-AAGAAGGGTCCGCTCCCTCTTTTT
*
9754711 TCAGGGAGTATAGGACTCAAGAAAAA
65 TCAGGGAGTATAGGACTCGAGAAAAA
9754737 ATTTTGATTC
Statistics
Matches: 537, Mismatches: 84, Indels: 34
0.82 0.13 0.05
Matches are distributed among these distances:
105 72 0.13
106 17 0.03
109 50 0.09
110 144 0.27
111 157 0.29
112 75 0.14
113 20 0.04
114 2 0.00
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.28
Consensus pattern (111 bp):
CACTCTTCTTTCAGGGAGATAAGACTCAAAAAATCTTCAGAAGAAGGGTCCGCTCCCTCTTTTTT
CAGGGAGTATAGGACTCGAGAAAAACTTGATAAGACGGGTCTGCTC
Found at i:9754528 original size:51 final size:52
Alignment explanation
Indices: 9754384--9754546 Score: 145
Period size: 51 Copynumber: 3.1 Consensus size: 52
9754374 GCTCCCTCTT
* * * * * *
9754384 TCTTCAGTGAGTATAGGATTCGAGAAAAACTTGATAAGACGGGTCTACTCTACTAT
1 TCTTCAGGGAGTATAGGACTC-AAAAAAATTTGATAAGACGGGTTTACTC--C-AC
* * * *
9754440 TCTTTCAGGGAG-ATAAGACT--AAAAAATCTTCAGAAGACGGGTTTGCTCC-C
1 TC-TTCAGGGAGTATAGGACTCAAAAAAAT-TTGATAAGACGGGTTTACTCCAC
*
9754490 TCTTCAGGGAGTATAGGACTCAAAAAAATTTGATAAGACGGGTTTTCTCCAC
1 TCTTCAGGGAGTATAGGACTCAAAAAAATTTGATAAGACGGGTTTACTCCAC
9754542 TCTTC
1 TCTTC
9754547 TTTCAAGGAG
Statistics
Matches: 87, Mismatches: 14, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
49 9 0.10
50 9 0.10
51 18 0.21
52 14 0.16
53 5 0.06
54 16 0.18
56 8 0.09
57 8 0.09
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (52 bp):
TCTTCAGGGAGTATAGGACTCAAAAAAATTTGATAAGACGGGTTTACTCCAC
Found at i:9755208 original size:45 final size:45
Alignment explanation
Indices: 9755078--9755230 Score: 143
Period size: 45 Copynumber: 3.4 Consensus size: 45
9755068 AGTCAAATTG
* * * * *
9755078 AGAATGACATCACTAAAAGGTCTAC-TCCTCTTTCTGAGAAAGTCA
1 AGAATGACAACACTAAAAGATCAACTTCTTCTTAC-GAGAAAGTCA
* * * *
9755123 AGAATCACAACACTGAAAGATTAACTTCTTTTTACGAGAAAGTCA
1 AGAATGACAACACTAAAAGATCAACTTCTTCTTACGAGAAAGTCA
* *
9755168 ATAATGACAACACTAAAATATCAAC-TCTTCTT-CGCTAGAAAGTCA
1 AGAATGACAACACTAAAAGATCAACTTCTTCTTACG--AGAAAGTCA
9755213 AGGAA-GACAACACTAAAA
1 A-GAATGACAACACTAAAA
9755231 ATTGACTCCT
Statistics
Matches: 88, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
43 2 0.02
44 6 0.07
45 72 0.82
46 8 0.09
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.24
Consensus pattern (45 bp):
AGAATGACAACACTAAAAGATCAACTTCTTCTTACGAGAAAGTCA
Found at i:9756625 original size:14 final size:15
Alignment explanation
Indices: 9756606--9756635 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
9756596 ATTCACCTAC
9756606 CGTAACTTCTT-TAT
1 CGTAACTTCTTATAT
9756620 CGTAACTTCTTATAT
1 CGTAACTTCTTATAT
9756635 C
1 C
9756636 TATTTTAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.23, C:0.23, G:0.07, T:0.47
Consensus pattern (15 bp):
CGTAACTTCTTATAT
Found at i:9756842 original size:2 final size:2
Alignment explanation
Indices: 9756835--9756892 Score: 109
Period size: 2 Copynumber: 29.5 Consensus size: 2
9756825 TCAAGCTTTA
9756835 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9756877 AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT A
9756893 ATCATCTTTA
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 54 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9758532 original size:20 final size:21
Alignment explanation
Indices: 9758496--9758537 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
9758486 GCACAAATTT
*
9758496 AAAATGCATTTCTAAAA-GTA
1 AAAATGCATTGCTAAAATGTA
9758516 AAAATGCATATGC-AAAATGTA
1 AAAATGCAT-TGCTAAAATGTA
9758537 A
1 A
9758538 GGTGTTGATC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.52, C:0.10, G:0.12, T:0.26
Consensus pattern (21 bp):
AAAATGCATTGCTAAAATGTA
Found at i:9764790 original size:32 final size:32
Alignment explanation
Indices: 9764753--9764837 Score: 152
Period size: 32 Copynumber: 2.6 Consensus size: 32
9764743 CAACGTGACA
9764753 AAAAAATTATATACATATATTTATTAATTAATT
1 AAAAAATTATA-ACATATATTTATTAATTAATT
9764786 AAAAAATTATAACATATATTTATTAATTAATT
1 AAAAAATTATAACATATATTTATTAATTAATT
9764818 AAAAAATTATAACCATATAT
1 AAAAAATTATAA-CATATAT
9764838 ATTAACATAT
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
32 33 0.65
33 18 0.35
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (32 bp):
AAAAAATTATAACATATATTTATTAATTAATT
Found at i:9766789 original size:164 final size:165
Alignment explanation
Indices: 9766564--9766868 Score: 450
Period size: 164 Copynumber: 1.9 Consensus size: 165
9766554 AACGGGTCCA
** * * *
9766564 CTCCCTATTCTTTCAGGGGGTATAAGACTCGAACAATCTTCAACAAACGTGTCCGCTCCCTATTC
1 CTCCCTATTCTTTCAAAGAGTATAAGACTCGAACAATCTTCAACAAACATGTCCACTCCCTATTC
* * * *
9766629 CTTAAGAGAGTATAAGACTCGAACAATCTTCAACAAATGCGTCTGCTCTCTACTCCTTCATAGAG
66 CTTAAGAGAGTATAAGACTCGAACAATCTTCAACAAACGCGTATGCTCCCTACTCCTTCAAAGAG
9766694 TATAGGACTCGAACAATTTTTAACAAACGTTTCCG
131 TATAGGACTCGAACAATTTTTAACAAACGTTTCCG
* *
9766729 CTCCCTATTCTTTCAAAGAGT-TAGGACTCGAACAATCTTTAACAAACATGTCCACTCCCTATTC
1 CTCCCTATTCTTTCAAAGAGTATAAGACTCGAACAATCTTCAACAAACATGTCCACTCCCTATTC
* * * * * *
9766793 CTTCAGAGAGTGTAGGACTCGAACGATCTTCAACAAACGTGTATGCTCCCTATTCCTTCAAAGAG
66 CTTAAGAGAGTATAAGACTCGAACAATCTTCAACAAACGCGTATGCTCCCTACTCCTTCAAAGAG
9766858 TATAGGACTCG
131 TATAGGACTCG
9766869 GTCATCATAA
Statistics
Matches: 123, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
164 105 0.85
165 18 0.15
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (165 bp):
CTCCCTATTCTTTCAAAGAGTATAAGACTCGAACAATCTTCAACAAACATGTCCACTCCCTATTC
CTTAAGAGAGTATAAGACTCGAACAATCTTCAACAAACGCGTATGCTCCCTACTCCTTCAAAGAG
TATAGGACTCGAACAATTTTTAACAAACGTTTCCG
Found at i:9766868 original size:55 final size:55
Alignment explanation
Indices: 9766488--9766868 Score: 399
Period size: 55 Copynumber: 6.9 Consensus size: 55
9766478 AGACTTAAAA
* * * * * * * * *
9766488 AATCTTCAGCAAACATGACTGCACCCTATTCGTTC-AAGTAATATAAGACTCAAAC
1 AATCTTCAACAAACGTGTCCGCTCCCTATTCCTTCAAAG-AGTATAGGACTCGAAC
* * * * ** * *
9766543 AATCTTCAGCAAACGGGTCCACTCCCTATTCTTTCAGGGGGTATAAGACTCGAAC
1 AATCTTCAACAAACGTGTCCGCTCCCTATTCCTTCAAAGAGTATAGGACTCGAAC
*
9766598 AATCTTCAACAAACGTGTCCGCTCCCTATTCCTT-AAGAGAGTATAAGACTCGAAC
1 AATCTTCAACAAACGTGTCCGCTCCCTATTCCTTCAA-AGAGTATAGGACTCGAAC
* * * * * *
9766653 AATCTTCAACAAATGCGTCTGCTCTCTACTCCTTCATAGAGTATAGGACTCGAAC
1 AATCTTCAACAAACGTGTCCGCTCCCTATTCCTTCAAAGAGTATAGGACTCGAAC
* * * *
9766708 AATTTTTAACAAACGTTTCCGCTCCCTATTCTTTCAAAGAGT-TAGGACTCGAAC
1 AATCTTCAACAAACGTGTCCGCTCCCTATTCCTTCAAAGAGTATAGGACTCGAAC
* * * * *
9766762 AATCTTTAACAAACATGTCCACTCCCTATTCCTTCAGAGAGTGTAGGACTCGAAC
1 AATCTTCAACAAACGTGTCCGCTCCCTATTCCTTCAAAGAGTATAGGACTCGAAC
* **
9766817 GATCTTCAACAAACGTGTATGCTCCCTATTCCTTCAAAGAGTATAGGACTCG
1 AATCTTCAACAAACGTGTCCGCTCCCTATTCCTTCAAAGAGTATAGGACTCG
9766869 GTCATCATAA
Statistics
Matches: 272, Mismatches: 50, Indels: 8
0.82 0.15 0.02
Matches are distributed among these distances:
54 49 0.18
55 221 0.81
56 2 0.01
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (55 bp):
AATCTTCAACAAACGTGTCCGCTCCCTATTCCTTCAAAGAGTATAGGACTCGAAC
Found at i:9766948 original size:37 final size:37
Alignment explanation
Indices: 9766890--9766995 Score: 106
Period size: 37 Copynumber: 2.9 Consensus size: 37
9766880 ATGAGTCTGT
* * * *
9766890 TTCACTACTCTTCCGTGAAGGCTTATAGA-TGATTTTC
1 TTCACTACTATTCCGTAAAGGCTTA-AGATTGAATTGC
*
9766927 TTCACTACTATTCTGTAAAGGCTTAAGATTGAATTGC
1 TTCACTACTATTCCGTAAAGGCTTAAGATTGAATTGC
* * * * *
9766964 TTCACTGCTGTTTCGTGAAGGCTTATGATTGA
1 TTCACTACTATTCCGTAAAGGCTTAAGATTGA
9766996 CTCATTTCGA
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
36 3 0.05
37 54 0.95
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.40
Consensus pattern (37 bp):
TTCACTACTATTCCGTAAAGGCTTAAGATTGAATTGC
Found at i:9768212 original size:11 final size:11
Alignment explanation
Indices: 9768196--9768239 Score: 61
Period size: 11 Copynumber: 3.8 Consensus size: 11
9768186 TGAGGCCTCC
9768196 TTTTATTTTCT
1 TTTTATTTTCT
9768207 TTTTATTTTTCT
1 TTTTA-TTTTCT
*
9768219 TTTTCTTTTCT
1 TTTTATTTTCT
9768230 TTTTCATTTT
1 TTTT-ATTTT
9768240 TTCATTTCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 15 0.52
12 14 0.48
ACGTcount: A:0.07, C:0.11, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTATTTTCT
Found at i:9768242 original size:8 final size:8
Alignment explanation
Indices: 9768229--9768445 Score: 50
Period size: 8 Copynumber: 26.2 Consensus size: 8
9768219 TTTTCTTTTC
9768229 TTTTTCAT
1 TTTTTCAT
9768237 TTTTTCATT
1 TTTTTCA-T
9768246 TCTTCTTCCAT
1 T-TT-TT-CAT
* *
9768257 TCTTCCAT
1 TTTTTCAT
* *
9768265 TCTTCCAT
1 TTTTTCAT
* *
9768273 TCTTCCA-
1 TTTTTCAT
9768280 TTTTTC--
1 TTTTTCAT
9768286 TTT-TCAT
1 TTTTTCAT
9768293 TTTTCATCAT
1 TTTT--TCAT
9768303 TTTTTCAT
1 TTTTTCAT
9768311 TTTTCATCAATT
1 TTTT--TC-A-T
9768323 TTTTTCA-
1 TTTTTCAT
*
9768330 TTTTTCTGT
1 TTTTTC-AT
9768339 TTTTTCA-
1 TTTTTCAT
9768346 -TTTTCAT
1 TTTTTCAT
9768353 TTTCCTT--T
1 TTT--TTCAT
9768361 TCATTTTCATT
1 T--TTTTCA-T
*
9768372 TTTTTCTTT
1 TTTTTC-AT
9768381 TTTTTCAT
1 TTTTTCAT
9768389 TTTTCTC-T
1 TTTT-TCAT
9768397 CTTTTTC--
1 -TTTTTCAT
9768404 -TTTTCAT
1 TTTTTCAT
9768411 TTTTCTCA-
1 TTTT-TCAT
9768419 TTTTTCTAT
1 TTTTTC-AT
9768428 TTTTCTC-T
1 TTTT-TCAT
*
9768436 GTTTTCAT
1 TTTTTCAT
9768444 TT
1 TT
9768446 CTTCTTCAAG
Statistics
Matches: 164, Mismatches: 10, Indels: 70
0.67 0.04 0.29
Matches are distributed among these distances:
5 7 0.04
6 9 0.05
7 17 0.10
8 61 0.37
9 35 0.21
10 21 0.13
11 7 0.04
12 7 0.04
ACGTcount: A:0.11, C:0.20, G:0.01, T:0.69
Consensus pattern (8 bp):
TTTTTCAT
Found at i:9768247 original size:24 final size:23
Alignment explanation
Indices: 9768201--9768249 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
9768191 CCTCCTTTTA
*
9768201 TTTTCTTTTTATTTTTCTTTTTC
1 TTTTCTTTTTATTTTTCTATTTC
9768224 TTTTCTTTTTCATTTTT-TCATTTC
1 TTTTCTTTTT-ATTTTTCT-ATTTC
9768248 TT
1 TT
9768250 CTTCCATTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 11 0.48
24 12 0.52
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (23 bp):
TTTTCTTTTTATTTTTCTATTTC
Found at i:9768269 original size:16 final size:16
Alignment explanation
Indices: 9768248--9768281 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
9768238 TTTTCATTTC
9768248 TTCTTCCATTCTTCCA
1 TTCTTCCATTCTTCCA
9768264 TTCTTCCATTCTTCCA
1 TTCTTCCATTCTTCCA
9768280 TT
1 TT
9768282 TTTCTTTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.12, C:0.35, G:0.00, T:0.53
Consensus pattern (16 bp):
TTCTTCCATTCTTCCA
Found at i:9768309 original size:18 final size:18
Alignment explanation
Indices: 9768286--9768349 Score: 87
Period size: 18 Copynumber: 3.6 Consensus size: 18
9768276 TCCATTTTTC
9768286 TTTTCATTTTTCATCATT
1 TTTTCATTTTTCATCATT
9768304 TTTTCATTTTTCATCAATTT
1 TTTTCATTTTTCATC-A-TT
*
9768324 TTTTCATTTTTC-T-GTT
1 TTTTCATTTTTCATCATT
9768340 TTTTCATTTT
1 TTTTCATTTT
9768350 CATTTTCCTT
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
16 12 0.28
18 15 0.35
19 2 0.05
20 14 0.33
ACGTcount: A:0.14, C:0.14, G:0.02, T:0.70
Consensus pattern (18 bp):
TTTTCATTTTTCATCATT
Found at i:9768323 original size:11 final size:10
Alignment explanation
Indices: 9768289--9768335 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
9768279 ATTTTTCTTT
9768289 TCATTTTTCA
1 TCATTTTTCA
9768299 TCATTTTT--
1 TCATTTTTCA
9768307 TCATTTTTCA
1 TCATTTTTCA
*
9768317 TCAATTTTT-T
1 TC-ATTTTTCA
9768327 TCATTTTTC
1 TCATTTTTC
9768336 TGTTTTTTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
8 8 0.25
9 6 0.19
10 12 0.38
11 6 0.19
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.66
Consensus pattern (10 bp):
TCATTTTTCA
Found at i:9768349 original size:6 final size:6
Alignment explanation
Indices: 9768340--9768373 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
9768330 TTTTTCTGTT
*
9768340 TTTTCA TTTTCA TTTTCC TTTTCA TTTTCA TTTT
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTT
9768374 TTTCTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.12, C:0.18, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTCA
Found at i:9768382 original size:40 final size:38
Alignment explanation
Indices: 9768281--9768435 Score: 145
Period size: 38 Copynumber: 3.9 Consensus size: 38
9768271 ATTCTTCCAT
* *
9768281 TTTTCTTTTCATTTTTCATCATTTTTTCATTTTTC-ATCA
1 TTTTCTTTTCATTTTTC-TC-TTTTTTCATTTTTCTCTCC
* * *
9768320 ATTT-TTTTCATTTTTCTGTTTTTTCA-TTTTCATTTTCC
1 TTTTCTTTTCATTTTTCTCTTTTTTCATTTTTC--TCTCC
* *
9768358 TTTTCATTTTCATTTTTTTCTTTTTTTTCATTTTTCTCTCT
1 TTTTC-TTTTCA--TTTTTCTCTTTTTTCATTTTTCTCTCC
*
9768399 TTTTCTTTTCATTTTTCTCATTTTTCTATTTTTCTCT
1 TTTTCTTTTCATTTTTCTCTTTTTTC-ATTTTTCTCT
9768436 GTTTTCATTT
Statistics
Matches: 97, Mismatches: 10, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
35 5 0.05
36 8 0.08
37 1 0.01
38 30 0.31
39 13 0.13
40 12 0.12
41 8 0.08
42 15 0.15
43 5 0.05
ACGTcount: A:0.10, C:0.17, G:0.01, T:0.72
Consensus pattern (38 bp):
TTTTCTTTTCATTTTTCTCTTTTTTCATTTTTCTCTCC
Found at i:9768385 original size:18 final size:18
Alignment explanation
Indices: 9768302--9768414 Score: 77
Period size: 20 Copynumber: 5.7 Consensus size: 18
9768292 TTTTTCATCA
* *
9768302 TTTTTTCATTTTTCATCAAT
1 TTTTTTCATTTTT-TTC-TT
*
9768322 TTTTTTCA--TTTTTCTG
1 TTTTTTCATTTTTTTCTT
9768338 TTTTTTCATTTTCATTTTCCTT
1 TTTTTTCA-TTT--TTTT-CTT
9768360 TTCATTTTCATTTTTTTCTT
1 TT--TTTTCATTTTTTTCTT
9768380 TTTTTTCATTTTTCTCTCTTT
1 TTTTTTCATTTTT-T-TC-TT
9768401 TTCTTTTCATTTTT
1 TT-TTTTCATTTTT
9768415 CTCATTTTTC
Statistics
Matches: 77, Mismatches: 4, Indels: 22
0.75 0.04 0.21
Matches are distributed among these distances:
16 8 0.10
17 2 0.03
18 14 0.18
19 2 0.03
20 15 0.19
21 12 0.16
22 15 0.19
23 3 0.04
24 6 0.08
ACGTcount: A:0.10, C:0.16, G:0.01, T:0.73
Consensus pattern (18 bp):
TTTTTTCATTTTTTTCTT
Found at i:9768401 original size:17 final size:17
Alignment explanation
Indices: 9768364--9768450 Score: 59
Period size: 17 Copynumber: 4.8 Consensus size: 17
9768354 TTCCTTTTCA
* *
9768364 TTTTCATTTTTTTCTTTT
1 TTTTCATTTTTCTC-TCT
9768382 TTTTCATTTTTCTCTCT
1 TTTTCATTTTTCTCTCT
* *
9768399 TTTTCTTTTCATTTTTCTCAT
1 TTTTC-ATT--TTTCTCTC-T
*
9768420 TTTTCTATTTTTCTCT-G
1 TTTTC-ATTTTTCTCTCT
9768437 TTTTCATTTCTTCT
1 TTTTCATTT-TTCT
9768451 TCAAGCAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 11
0.76 0.09 0.15
Matches are distributed among these distances:
16 4 0.07
17 16 0.28
18 15 0.26
19 6 0.11
20 7 0.12
21 9 0.16
ACGTcount: A:0.07, C:0.18, G:0.01, T:0.74
Consensus pattern (17 bp):
TTTTCATTTTTCTCTCT
Found at i:9771168 original size:21 final size:21
Alignment explanation
Indices: 9771142--9771184 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
9771132 GTTCTTCAAT
9771142 CCAAACAGTATTACTTTATAA
1 CCAAACAGTATTACTTTATAA
9771163 CCAAACAGTATTACTTTATAA
1 CCAAACAGTATTACTTTATAA
9771184 C
1 C
9771185 AAAGCGTTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.33
Consensus pattern (21 bp):
CCAAACAGTATTACTTTATAA
Found at i:9778087 original size:47 final size:45
Alignment explanation
Indices: 9778036--9778129 Score: 116
Period size: 45 Copynumber: 2.0 Consensus size: 45
9778026 CCCCCATTCT
* *
9778036 TTGTTTGAACATTAAAACCCTAACCACATGATATCTAATTCGCATGC
1 TTGTTTGAAAAAT-AAA-CCTAACCACATGATATCTAATTCGCATGC
* * * *
9778083 TTGTTTGAAAAATAAATCTAACCGCATTATTTCTAATTCGCATGC
1 TTGTTTGAAAAATAAACCTAACCACATGATATCTAATTCGCATGC
9778128 TT
1 TT
9778130 TTATTCGAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
45 27 0.66
46 3 0.07
47 11 0.27
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (45 bp):
TTGTTTGAAAAATAAACCTAACCACATGATATCTAATTCGCATGC
Found at i:9781816 original size:2 final size:2
Alignment explanation
Indices: 9781809--9781843 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
9781799 AAACTAATGC
9781809 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9781844 TCAGCTATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9782208 original size:60 final size:60
Alignment explanation
Indices: 9782141--9782258 Score: 218
Period size: 60 Copynumber: 2.0 Consensus size: 60
9782131 TAATGGGATT
*
9782141 TCGAAACTAGGTTGAAATTTTTTAAACTTTGAGCATTATGCCTCAGAGGTTTTCGAAAAG
1 TCGAAACTAGGTTGAAATTTTTGAAACTTTGAGCATTATGCCTCAGAGGTTTTCGAAAAG
*
9782201 TCGAAACTAGGTTGAAATTTTTGAAACTTTGAGCATTCTGCCTCAGAGGTTTTCGAAA
1 TCGAAACTAGGTTGAAATTTTTGAAACTTTGAGCATTATGCCTCAGAGGTTTTCGAAA
9782259 GGGTTTTGAA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (60 bp):
TCGAAACTAGGTTGAAATTTTTGAAACTTTGAGCATTATGCCTCAGAGGTTTTCGAAAAG
Found at i:9794169 original size:14 final size:12
Alignment explanation
Indices: 9794136--9794168 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
9794126 TGAACATATT
9794136 AAAATATATTTA
1 AAAATATATTTA
9794148 AAAATATATTTA
1 AAAATATATTTA
9794160 AAAATATAT
1 AAAATATAT
9794169 AAAGCTATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
AAAATATATTTA
Found at i:9796333 original size:39 final size:42
Alignment explanation
Indices: 9796290--9796377 Score: 112
Period size: 39 Copynumber: 2.2 Consensus size: 42
9796280 AGAAGAAAAA
9796290 ATATATAAAAATAATAA-A-AATAAAA-AGTAAAAATA-ATAT
1 ATATATAAAAATAATAACATAA-AAAATAGTAAAAATATATAT
* * *
9796329 ATATATAATAATAATAACATAAAAAATTGTAAATATATATAT
1 ATATATAAAAATAATAACATAAAAAATAGTAAAAATATATAT
9796371 ATATATA
1 ATATATA
9796378 TATATATTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
39 16 0.38
40 5 0.12
41 10 0.24
42 11 0.26
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.32
Consensus pattern (42 bp):
ATATATAAAAATAATAACATAAAAAATAGTAAAAATATATAT
Found at i:9797594 original size:83 final size:84
Alignment explanation
Indices: 9797411--9797598 Score: 220
Period size: 83 Copynumber: 2.2 Consensus size: 84
9797401 GACAATTTTC
* ** * * *
9797411 GTTGACAGATAGCCCTTCTTGCCTTGAGCTATGCTGTAAATTTGATTTACCTCTGAGTTGAATGT
1 GTTGACAGATAACCCTTCTTGCCTTGAGCTATGCTACAAATTTGATGTA-CTCTGAGCTGAACGT
9797476 AATCGAACTCGAAGGTCTTT
65 AATCGAACTCGAAGGTCTTT
* * * * *
9797496 GATGATATATAACCCTTCTTGCCTTGAGTTATGCTACAAATTATG-TGT-CT-TGGAGCTGAGCG
1 GTTGACAGATAACCCTTCTTGCCTTGAGCTATGCTACAAATT-TGATGTACTCT-GAGCTGAACG
*
9797558 TAGTCGAACTCGAAGGTCTTT
64 TAATCGAACTCGAAGGTCTTT
9797579 GTTGACAGATAACCCTTCTT
1 GTTGACAGATAACCCTTCTT
9797599 TGAGTTGGAT
Statistics
Matches: 86, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
82 1 0.01
83 46 0.53
85 37 0.43
86 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (84 bp):
GTTGACAGATAACCCTTCTTGCCTTGAGCTATGCTACAAATTTGATGTACTCTGAGCTGAACGTA
ATCGAACTCGAAGGTCTTT
Found at i:9798034 original size:110 final size:108
Alignment explanation
Indices: 9797778--9798036 Score: 312
Period size: 110 Copynumber: 2.4 Consensus size: 108
9797768 AGTATTGTTC
* * *
9797778 CGAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTG--GAACTGGGAAATTGTTTGTTG
1 CGAGTCCAATAACCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAGAACTGGAAAATTGTTTGTTG
* *
9797840 ACAGCCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCT
65 ACAACCAGCCACCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCT
* **
9797884 CGAGTTCAATAACCTTCGCTGTGAAGTTGAAATTAACTCTGAATGAAACT-GAAAAGTTGTTTGT
1 CGAGTCCAATAACCTTCGCTGTGAAGTTGAAATTGGCTCTGAA-G-AACTGGAAAA-TTGTTTGT
* * *
9797948 TGACAATCAGTCACCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCT
63 TGACAACCAGCCACCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCT
* * *
9797994 TGAGTCCAATATCCCTT-GCTGTGAAGTTGAAATCGGCTCTGAA
1 CGAGTCCAATA-ACCTTCGCTGTGAAGTTGAAATTGGCTCTGAA
9798037 ACTGGGAAGC
Statistics
Matches: 129, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
106 34 0.26
107 1 0.01
109 5 0.04
110 85 0.66
111 4 0.03
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.32
Consensus pattern (108 bp):
CGAGTCCAATAACCTTCGCTGTGAAGTTGAAATTGGCTCTGAAGAACTGGAAAATTGTTTGTTGA
CAACCAGCCACCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCT
Found at i:9798869 original size:67 final size:65
Alignment explanation
Indices: 9798753--9798935 Score: 224
Period size: 65 Copynumber: 2.8 Consensus size: 65
9798743 AAGATATCTG
* * * * **
9798753 TTGTTTCATGA-AAACGGTATCAAGGGAAACAAAATTTTGTTTTAAGGGAAATAAATTTGAAGAT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTTGTTTTAAGGGAAATAAATTCAAAGA-
9798817 TT
64 TT
*
9798819 TGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGAT
1 T-TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGAT
9798884 T
65 T
* * * * *
9798885 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGAGAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAA
9798936 CTGTCTTAAG
Statistics
Matches: 102, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
65 44 0.43
66 4 0.04
67 34 0.33
68 20 0.20
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (65 bp):
TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATT
Found at i:9798936 original size:36 final size:36
Alignment explanation
Indices: 9798884--9799109 Score: 200
Period size: 36 Copynumber: 6.4 Consensus size: 36
9798874 ATTCAAAGAT
9798884 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
* * * *
9798920 TTTGTTTCAAGAGAAACTGTCTTAAGAGAGCCAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
* * * ** * * *
9798956 CATAGTTCCAAAAGAAATTGTCTCAAGGGAGATGAAA
1 -TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
*** * *
9798993 TTTGTTTCAAATAAAACATAT-TC---A-A-A--TAA
1 TTTGTTTCAAGGGAAAC-TGTCTCAAGAGAGACGAAA
9799022 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC-AACA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAA-A
9799058 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
*
9799094 TTTATTTCAAGGGAAA
1 TTTGTTTCAAGGGAAA
9799110 TGTTTTCAAT
Statistics
Matches: 150, Mismatches: 29, Indels: 22
0.75 0.14 0.11
Matches are distributed among these distances:
28 2 0.01
29 18 0.12
31 1 0.01
32 2 0.01
33 1 0.01
34 1 0.01
35 1 0.01
36 94 0.63
37 30 0.20
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.27
Consensus pattern (36 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
Found at i:9798986 original size:138 final size:138
Alignment explanation
Indices: 9798830--9799087 Score: 374
Period size: 138 Copynumber: 1.9 Consensus size: 138
9798820 GTGTTTCAAG
* ** * * *
9798830 AGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGATTTTGTTTCAAG
1 AGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAAGAAAACAAATTCAAAGAATTTGTTTCAAG
*
9798895 GGAAACTGTCTCAAGAGAGACGAA-ATTTGTTTCAAGAGAAACTGTCTTAAGAGAGCCAAAACAT
66 GGAAACTGTCTCAAGAGAGAC-AACATTTGTTTCAAGAGAAACTGTCTCAAGAGAGCCAAAACAT
9798959 AGTTCCAAA
130 AGTTCCAAA
* ** * * *
9798968 AGAAATTGTCTCAAGGGAGATGAAATTTGTTTCAAATAAAACATATTCAAATAATTTGTTTCAAG
1 AGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAAGAAAACAAATTCAAAGAATTTGTTTCAAG
*
9799033 GGAAACTGTCTCAAGAGAGACAACATTTGTTTCAAGGGAAACTGTCTCAAGAGAG
66 GGAAACTGTCTCAAGAGAGACAACATTTGTTTCAAGAGAAACTGTCTCAAGAGAG
9799088 ACGAAATTTA
Statistics
Matches: 105, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
137 2 0.02
138 103 0.98
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.27
Consensus pattern (138 bp):
AGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAAGAAAACAAATTCAAAGAATTTGTTTCAAG
GGAAACTGTCTCAAGAGAGACAACATTTGTTTCAAGAGAAACTGTCTCAAGAGAGCCAAAACATA
GTTCCAAA
Found at i:9799040 original size:102 final size:101
Alignment explanation
Indices: 9798918--9799153 Score: 251
Period size: 101 Copynumber: 2.3 Consensus size: 101
9798908 AGAGAGACGA
* *
9798918 AATTTGTTTCAAGAGAAACTGTCTTAAGAGAGCCAAAACA-TAGTTCCAAAAGAAATTGTCTCAA
1 AATTTGTTTCAAGAGAAACTGTCTCAAGAGAG--AAAACATTAGTTCCAAAAGAAACTGTCTCAA
* * *
9798982 GGGAGATGAAATTTGTTTCAAATAAAACATATTCAAAT
64 GAGAGACGAAATTTATTTCAAATAAAACATATTCAAAT
* * * * **
9799020 AATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAACATTTGTTTCAAGGGAAACTGTCTCAAGA
1 AATTTGTTTCAAGAGAAACTGTCTCAAGAGAGAAAACATTAGTTCCAAAAGAAACTGTCTCAAGA
*** ** *
9799085 GAGACGAAATTTATTTCAAGGGAAATGTTTTC-AAT
66 GAGACGAAATTTATTTCAAATAAAACATATTCAAAT
** *
9799120 GTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGA
1 AATT-TGTTTCAAGAGAAACTGTCTCAAGAGAGA
9799154 CAAAATTTTA
Statistics
Matches: 111, Mismatches: 21, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
100 10 0.09
101 71 0.64
102 30 0.27
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (101 bp):
AATTTGTTTCAAGAGAAACTGTCTCAAGAGAGAAAACATTAGTTCCAAAAGAAACTGTCTCAAGA
GAGACGAAATTTATTTCAAATAAAACATATTCAAAT
Found at i:9800610 original size:61 final size:64
Alignment explanation
Indices: 9800541--9800670 Score: 194
Period size: 69 Copynumber: 2.0 Consensus size: 64
9800531 TCTCTCTCTC
9800541 TTGATGCTCTATGATCTTC-G-AGTGG-AGTGATTCAGAAATGATTGTGCTTGATCAATCTCAT
1 TTGATGCTCTATGATCTTCGGAAGTGGTAGTGATTCAGAAATGATTGTGCTTGATCAATCTCAT
9800602 TTGATGCTCTATGATCTTCGAGTGAAGTGGTTCAGTGATTCAGAAATGATTGTGCTTGATCAATC
1 TTGATGCTCTATGATCTTC--G-GAAGTGG-T-AGTGATTCAGAAATGATTGTGCTTGATCAATC
9800667 TCAT
61 TCAT
9800671 AGTTTGAATC
Statistics
Matches: 61, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
61 19 0.31
65 1 0.02
66 5 0.08
69 36 0.59
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (64 bp):
TTGATGCTCTATGATCTTCGGAAGTGGTAGTGATTCAGAAATGATTGTGCTTGATCAATCTCAT
Found at i:9800738 original size:7 final size:7
Alignment explanation
Indices: 9800721--9800794 Score: 51
Period size: 7 Copynumber: 10.1 Consensus size: 7
9800711 TGCATATGCA
9800721 TCTTGTTT
1 TCTT-TTT
9800729 TCTTTTT
1 TCTTTTT
9800736 TCTTTAATT
1 TCTTT--TT
**
9800745 T-TCCTT
1 TCTTTTT
*
9800751 TGTTTTT
1 TCTTTTT
*
9800758 TCTCTTT
1 TCTTTTT
9800765 TCTTTTT
1 TCTTTTT
*
9800772 TCTCTTT
1 TCTTTTT
*
9800779 GCTTTTT
1 TCTTTTT
9800786 TCTCTTTT
1 TCT-TTTT
9800794 T
1 T
9800795 TGTTCTGATT
Statistics
Matches: 51, Mismatches: 11, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
6 3 0.06
7 35 0.69
8 10 0.20
9 3 0.06
ACGTcount: A:0.03, C:0.18, G:0.04, T:0.76
Consensus pattern (7 bp):
TCTTTTT
Found at i:9800772 original size:14 final size:14
Alignment explanation
Indices: 9800721--9800793 Score: 76
Period size: 14 Copynumber: 5.1 Consensus size: 14
9800711 TGCATATGCA
*
9800721 TCTTGTTTTCTTTTT
1 TCTT-TTTTCTCTTT
*
9800736 TCTTTAATTT-TCCTT
1 TCTTT--TTTCTCTTT
*
9800751 TGTTTTTTCTCTTT
1 TCTTTTTTCTCTTT
9800765 TCTTTTTTCTCTTT
1 TCTTTTTTCTCTTT
*
9800779 GCTTTTTTCTCTTT
1 TCTTTTTTCTCTTT
9800793 T
1 T
9800794 TTGTTCTGAT
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
13 3 0.06
14 31 0.65
15 11 0.23
16 3 0.06
ACGTcount: A:0.03, C:0.18, G:0.04, T:0.75
Consensus pattern (14 bp):
TCTTTTTTCTCTTT
Found at i:9802400 original size:79 final size:79
Alignment explanation
Indices: 9802269--9802426 Score: 289
Period size: 79 Copynumber: 2.0 Consensus size: 79
9802259 TCCCAAAAAG
* * *
9802269 TATCGAATGACTGCATCTCTGGCTTTCATCCTTTACTGAATCGGAAATTCCATTGAAATCCTCCA
1 TATCGAATGACTGCATCTCTGGATTTCATCCTTTACTGAATCAGAAATTCCATTAAAATCCTCCA
9802334 TCAAAGGGATTATC
66 TCAAAGGGATTATC
9802348 TATCGAATGACTGCATCTCTGGATTTCATCCTTTACTGAATCAGAAATTCCATTAAAATCCTCCA
1 TATCGAATGACTGCATCTCTGGATTTCATCCTTTACTGAATCAGAAATTCCATTAAAATCCTCCA
9802413 TCAAAGGGATTATC
66 TCAAAGGGATTATC
9802427 CGAAGTTCAT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 76 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (79 bp):
TATCGAATGACTGCATCTCTGGATTTCATCCTTTACTGAATCAGAAATTCCATTAAAATCCTCCA
TCAAAGGGATTATC
Found at i:9804002 original size:11 final size:10
Alignment explanation
Indices: 9803987--9804062 Score: 59
Period size: 11 Copynumber: 7.3 Consensus size: 10
9803977 AGTAAAATAA
9803987 ATAAAAAAAT
1 ATAAAAAAAT
9803997 ATTAAAAAAAT
1 A-TAAAAAAAT
*
9804008 A-AAGAAAAT
1 ATAAAAAAAT
9804017 A-AGAAAAATAT
1 ATA-AAAAA-AT
9804028 ATAAAAATAAT
1 ATAAAAA-AAT
9804039 AATAAAAAAAGT
1 -ATAAAAAAA-T
*
9804051 A-AAAATAAT
1 ATAAAAAAAT
9804060 ATA
1 ATA
9804063 TATATATATA
Statistics
Matches: 55, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
9 11 0.20
10 12 0.22
11 22 0.40
12 10 0.18
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (10 bp):
ATAAAAAAAT
Found at i:9804003 original size:9 final size:10
Alignment explanation
Indices: 9803980--9804137 Score: 60
Period size: 10 Copynumber: 15.4 Consensus size: 10
9803970 AATAGTAAGT
*
9803980 AAAATAAATA
1 AAAATATATA
*
9803990 AAAAAATATTA
1 AAAATATA-TA
* *
9804001 AAAAAATAAA
1 AAAATATATA
*
9804011 GAAAATA-AGA
1 -AAAATATATA
9804021 AAAATATATA
1 AAAATATATA
9804031 AAAATAATAATA
1 AAAAT-AT-ATA
9804043 AAAA-A-AGTA
1 AAAATATA-TA
9804052 AAAATA-ATA
1 AAAATATATA
* *
9804061 TATATATATA
1 AAAATATATA
* *
9804071 TATAATAAATA
1 -AAAATATATA
*
9804082 AAAACATA-A
1 AAAATATATA
9804091 AAAATAGTA-A
1 AAAATA-TATA
*
9804101 ATATATATATA
1 A-AAATATATA
*
9804112 TAAAT-TAATA
1 AAAATAT-ATA
9804122 AAACATATAATA
1 AAA-ATAT-ATA
9804134 AAAA
1 AAAA
9804138 ATAACATATA
Statistics
Matches: 113, Mismatches: 20, Indels: 29
0.70 0.12 0.18
Matches are distributed among these distances:
8 1 0.01
9 25 0.22
10 41 0.36
11 31 0.27
12 15 0.13
ACGTcount: A:0.71, C:0.01, G:0.03, T:0.25
Consensus pattern (10 bp):
AAAATATATA
Found at i:9804040 original size:31 final size:30
Alignment explanation
Indices: 9803985--9804062 Score: 92
Period size: 31 Copynumber: 2.6 Consensus size: 30
9803975 TAAGTAAAAT
9803985 AAATAA-AAAAATAT-TAAAAAAATAA-AGA
1 AAATAAGAAAAATATATAAAAAAATAATA-A
9804013 AAATAAGAAAAATATATAAAAATAATAATAA
1 AAATAAGAAAAATATATAAAAA-AATAATAA
9804044 AAA-AAGTAAAAATAATATA
1 AAATAAG-AAAAAT-ATATA
9804063 TATATATATA
Statistics
Matches: 44, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
28 6 0.14
29 8 0.18
30 9 0.20
31 15 0.34
32 6 0.14
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.21
Consensus pattern (30 bp):
AAATAAGAAAAATATATAAAAAAATAATAA
Found at i:9804055 original size:10 final size:9
Alignment explanation
Indices: 9803979--9804047 Score: 57
Period size: 9 Copynumber: 7.0 Consensus size: 9
9803969 AAATAGTAAG
*
9803979 TAAAATAAA
1 TAAAAAAAA
9803988 TAAAAAAATA
1 TAAAAAAA-A
*
9803998 TTAAAAAAA
1 TAAAAAAAA
*
9804007 TAAAGAAAA
1 TAAAAAAAA
9804016 TAAGAAAAATA
1 TAA-AAAAA-A
9804027 TATAAAAATAA
1 TA-AAAAA-AA
9804038 TAATAAAAAA
1 TAA-AAAAAA
9804048 AGTAAAAATA
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
9 18 0.37
10 15 0.31
11 14 0.29
12 2 0.04
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:9806931 original size:89 final size:89
Alignment explanation
Indices: 9806770--9806941 Score: 283
Period size: 89 Copynumber: 1.9 Consensus size: 89
9806760 TAATCCCGAA
* *
9806770 TATTTAATTTCAATTAATTAAATATAGATTTAATCAATTTGAAATAATAAAATCCCAATATGATT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATCAATTTGAAATAATAAAATCCCAATATGATT
9806835 AGGGTAACTTGGATATAAGAGGAT
66 AGGGTAACTTGGATATAAGAGGAT
* *
9806859 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTTAAATAATAAAA-CCCTAATATGAT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATCAATTTGAAATAATAAAATCCC-AATATGAT
*
9806923 TAGGGTAACTTGGCTATAA
65 TAGGGTAACTTGGATATAA
9806942 AAGGGTGTGT
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
88 3 0.04
89 74 0.96
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (89 bp):
TATTAAATTCCAATTAATTAAATATAGATTTAATCAATTTGAAATAATAAAATCCCAATATGATT
AGGGTAACTTGGATATAAGAGGAT
Found at i:9814715 original size:25 final size:25
Alignment explanation
Indices: 9814662--9814716 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
9814652 TATCAAAAAA
* *
9814662 TTTATTTTTTTAATTAATAAATTAT
1 TTTATTTTTTTAATGAATAAAATAT
9814687 TTTAGTTTTTTT-ATGAA-AAAATAT
1 TTTA-TTTTTTTAATGAATAAAATAT
9814711 GTTTAT
1 -TTTAT
9814717 AGTTATACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 7 0.27
25 12 0.46
26 7 0.27
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (25 bp):
TTTATTTTTTTAATGAATAAAATAT
Found at i:9814752 original size:3 final size:3
Alignment explanation
Indices: 9814744--9814829 Score: 154
Period size: 3 Copynumber: 28.7 Consensus size: 3
9814734 ATAATGAGAA
9814744 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
9814792 AAT ATT ATT ATT AAT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
9814830 ATAAACAAAA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 79 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:9821482 original size:29 final size:27
Alignment explanation
Indices: 9821424--9821483 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 27
9821414 ACATTTTAAG
* *
9821424 TTTATTTTAATGATATTTAATATTAGT
1 TTTATTTTAATGATATTTAAAATTACT
9821451 TTTATTGTTATATGAT-TTTAAAATATACT
1 TTTATT-TTA-ATGATATTTAAAAT-TACT
9821480 TTTA
1 TTTA
9821484 GTTATCACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 6 0.21
28 10 0.36
29 12 0.43
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.58
Consensus pattern (27 bp):
TTTATTTTAATGATATTTAAAATTACT
Found at i:9821521 original size:22 final size:22
Alignment explanation
Indices: 9821479--9821523 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
9821469 TAAAATATAC
* *
9821479 TTTTAGTTATCACAACCAATTA
1 TTTTAGTTATAACAACAAATTA
*
9821501 TTTTAGTTATAATAACAAATTA
1 TTTTAGTTATAACAACAAATTA
9821523 T
1 T
9821524 AATAAATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.11, G:0.04, T:0.44
Consensus pattern (22 bp):
TTTTAGTTATAACAACAAATTA
Found at i:9821847 original size:17 final size:17
Alignment explanation
Indices: 9821808--9821848 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
9821798 TTAGTTACAA
9821808 TAAAATAATAAATTTAG
1 TAAAATAATAAATTTAG
9821825 TCAAAATAA-AAATTTATG
1 T-AAAATAATAAATTTA-G
9821843 TAAAAT
1 TAAAAT
9821849 TTATTTTGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (17 bp):
TAAAATAATAAATTTAG
Found at i:9821891 original size:197 final size:197
Alignment explanation
Indices: 9821502--9822008 Score: 714
Period size: 197 Copynumber: 2.6 Consensus size: 197
9821492 AACCAATTAT
* * *
9821502 TTTAGTTATAATAACAAATTATAATAAATATTAATTTCTCAATATAAAAAGTTATGACAAATAAT
1 TTTAGTCATAATAACAATTTATAATAAATATTAATTTCTCAATATAAAAAATTATGACAAATAAT
* * * * *
9821567 ATTTTTCACAATAATC-AATTATAACAAATTTATTTAGGAACAATAACATATTAAATTTAGTCAA
66 ATCTTTCACAATAA-CAAATTGTAACAAATTTATTTAGTAACAATAAAATAATAAATTTAGTCAA
* * * * *
9821631 AATAAAAATTTATGTTAAATTTATTTCGTCACAATTTTTTCTCTAAATAACAACTTTTGACAAAT
130 AATAAAAATTTATGTAAAATTTATTTCGTCACAATTTTTTCTCAAAATAAAAAATTGTGACAAAT
9821696 TTA
195 TTA
9821699 TTTAGTCATAATAACAATTTATAATAAATATTAATTTCTCAATATAAAAAATTATGACAAATAAT
1 TTTAGTCATAATAACAATTTATAATAAATATTAATTTCTCAATATAAAAAATTATGACAAATAAT
*
9821764 ATGCTTTCACAATAACAAATTGTAACAAATTTATTTAGTTACAATAAAATAATAAATTTAGTCAA
66 AT-CTTTCACAATAACAAATTGTAACAAATTTATTTAGTAACAATAAAATAATAAATTTAGTCAA
* * *
9821829 AATAAAAATTTATGTAAAATTTATTTTGTCACGA-TTTTTGTCAAAATAAAAAATTGTGACAAAT
130 AATAAAAATTTATGTAAAATTTATTTCGTCACAATTTTTTCTCAAAATAAAAAATTGTGACAAAT
9821893 TTA
195 TTA
* * * * * * * *
9821896 TTTAATCAAAATAAAAATTTATAACATATTTTAATTTCTCATTGT-AAAAATTATGACAAATAAT
1 TTTAGTCATAATAACAATTTATAATAAATATTAATTTCTCAATATAAAAAATTATGACAAATAAT
* * *
9821960 ATTCTTTCACAATAACAAATTGTAACAAAATTATTTAGTCACAGTAAAA
66 A-TCTTTCACAATAACAAATTGTAACAAATTTATTTAGTAACAATAAAA
9822009 AAGTTATAAA
Statistics
Matches: 279, Mismatches: 28, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
196 63 0.23
197 131 0.47
198 85 0.30
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.39
Consensus pattern (197 bp):
TTTAGTCATAATAACAATTTATAATAAATATTAATTTCTCAATATAAAAAATTATGACAAATAAT
ATCTTTCACAATAACAAATTGTAACAAATTTATTTAGTAACAATAAAATAATAAATTTAGTCAAA
ATAAAAATTTATGTAAAATTTATTTCGTCACAATTTTTTCTCAAAATAAAAAATTGTGACAAATT
TA
Found at i:9829720 original size:12 final size:12
Alignment explanation
Indices: 9829684--9829713 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
9829674 TAAGAAGCTG
*
9829684 GTTAGCAAGTTA
1 GTTAGGAAGTTA
9829696 GTTAGGAAGTTA
1 GTTAGGAAGTTA
9829708 GTTAGG
1 GTTAGG
9829714 TTGTTAGCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.33
Consensus pattern (12 bp):
GTTAGGAAGTTA
Found at i:9830366 original size:3 final size:3
Alignment explanation
Indices: 9830358--9830397 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
9830348 GTTATAAGTA
9830358 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
9830398 TCTAATTACA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:9830468 original size:17 final size:17
Alignment explanation
Indices: 9830446--9830479 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9830436 AGATTTGACC
9830446 CAAGGCCCAATTACAAT
1 CAAGGCCCAATTACAAT
* *
9830463 CAAGGCTCTATTACAAT
1 CAAGGCCCAATTACAAT
9830480 AAAAACCTGG
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:0.38, C:0.26, G:0.12, T:0.24
Consensus pattern (17 bp):
CAAGGCCCAATTACAAT
Found at i:9831299 original size:20 final size:21
Alignment explanation
Indices: 9831274--9831312 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9831264 AAAATGAGGC
*
9831274 TTTA-GGCCTCTTTATACCGG
1 TTTAGGGCCTATTTATACCGG
9831294 TTTAGGGCCTATTTATACC
1 TTTAGGGCCTATTTATACC
9831313 ATCCTCGAAT
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:0.18, C:0.23, G:0.18, T:0.41
Consensus pattern (21 bp):
TTTAGGGCCTATTTATACCGG
Found at i:9835113 original size:15 final size:15
Alignment explanation
Indices: 9835074--9835111 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
9835064 CTTGCATCTT
* *
9835074 GCATATTTTGCATAA
1 GCATTTTTTACATAA
9835089 GCATTTTTTACATAA
1 GCATTTTTTACATAA
9835104 -CATTTTTT
1 GCATTTTTT
9835112 TATATTTATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.29, C:0.13, G:0.08, T:0.50
Consensus pattern (15 bp):
GCATTTTTTACATAA
Found at i:9843436 original size:3 final size:3
Alignment explanation
Indices: 9843423--9843539 Score: 209
Period size: 3 Copynumber: 39.3 Consensus size: 3
9843413 TTGTTATAAG
9843423 TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
9843470 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAG TAT TAT TAT TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
9843518 TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT T
9843540 TCTAATTACC
Statistics
Matches: 109, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
2 2 0.02
3 107 0.98
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:9844522 original size:2 final size:2
Alignment explanation
Indices: 9844515--9844554 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
9844505 GGTCATTACC
9844515 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9844555 GGGAAAATAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9844800 original size:23 final size:22
Alignment explanation
Indices: 9844757--9844800 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
9844747 AATATATTAG
*
9844757 GTATTTTCATTAGTAGTTTTAA
1 GTATTTTCATTAGTAGGTTTAA
* *
9844779 GTATTTTTATTTGTATGGTTTA
1 GTATTTTCATTAGTA-GGTTTA
9844801 GTGATTAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.23, C:0.02, G:0.16, T:0.59
Consensus pattern (22 bp):
GTATTTTCATTAGTAGGTTTAA
Found at i:9847115 original size:21 final size:21
Alignment explanation
Indices: 9847081--9847129 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
9847071 ACTAAATAAG
* *
9847081 AAAAAATATCTAAATTTAAAA
1 AAAAAATATATAAAATTAAAA
* *
9847102 AAAAAATCTATAAAATTAAGA
1 AAAAAATATATAAAATTAAAA
*
9847123 ATAAAAT
1 AAAAAAT
9847130 GATCAAATAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (21 bp):
AAAAAATATATAAAATTAAAA
Found at i:9854876 original size:16 final size:16
Alignment explanation
Indices: 9854855--9854893 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
9854845 CATTCTTCAA
*
9854855 ATATATACATACATAT
1 ATATATACATACATAC
9854871 ATATATACATACATAC
1 ATATATACATACATAC
9854887 ATATATA
1 ATATATA
9854894 TATATATGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (16 bp):
ATATATACATACATAC
Found at i:9854884 original size:20 final size:20
Alignment explanation
Indices: 9854859--9854897 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
9854849 CTTCAAATAT
9854859 ATACATACATATATATATAC
1 ATACATACATATATATATAC
9854879 ATACATACATATATATATA
1 ATACATACATATATATATA
9854898 TATGTCGAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (20 bp):
ATACATACATATATATATAC
Found at i:9856811 original size:23 final size:23
Alignment explanation
Indices: 9856785--9856830 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
9856775 CCAAAATTAT
9856785 AATA-AATAATAATAATAATAATA
1 AATATAATAAT-ATAATAATAATA
* *
9856808 AATATTATAATATTATAATAATA
1 AATATAATAATATAATAATAATA
9856831 TATTTATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (23 bp):
AATATAATAATATAATAATAATA
Found at i:9862170 original size:21 final size:19
Alignment explanation
Indices: 9862132--9862170 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
9862122 ATTTAAATCC
*
9862132 AATATTATCTCTTTAATTT
1 AATATTATCTCTTAAATTT
9862151 AATATTTATCTTCTTAAATT
1 AATA-TTATC-TCTTAAATT
9862171 AAGAGATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 5 0.29
21 8 0.47
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.56
Consensus pattern (19 bp):
AATATTATCTCTTAAATTT
Found at i:9864366 original size:2 final size:2
Alignment explanation
Indices: 9864354--9864477 Score: 134
Period size: 2 Copynumber: 64.0 Consensus size: 2
9864344 TTTCGACCGG
* *
9864354 AT AT TT AT AT AT AT AT AT -T CAT -T AT -T AT GGT AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT -AT AT AT AT AT AT
*
9864394 AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT GT A- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
9864434 AT AT AT AT AT AT AT AT AT GT AT AT AT GT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9864476 AT
1 AT
9864478 GTTATATTTA
Statistics
Matches: 102, Mismatches: 12, Indels: 16
0.78 0.09 0.12
Matches are distributed among these distances:
1 6 0.06
2 94 0.92
3 2 0.02
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.51
Consensus pattern (2 bp):
AT
Found at i:9864403 original size:40 final size:40
Alignment explanation
Indices: 9864354--9864477 Score: 148
Period size: 40 Copynumber: 3.1 Consensus size: 40
9864344 TTTCGACCGG
*
9864354 ATATTTATATATATATATTCAT-TAT-TATGGT-ATAATATAT
1 ATATATATATATATATATT-ATATATATAT-GTAAT-ATATAT
9864394 ATATATATATATATATATTATATATATATGTAATATATAT
1 ATATATATATATATATATTATATATATATGTAATATATAT
* * *
9864434 ATATATATATATATATATGTATATATGTATAT-ATATGTAT
1 ATATATATATATATATAT-TATATATATATGTAATATATAT
9864474 ATAT
1 ATAT
9864478 GTTATATTTA
Statistics
Matches: 76, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
39 2 0.03
40 58 0.76
41 16 0.21
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.51
Consensus pattern (40 bp):
ATATATATATATATATATTATATATATATGTAATATATAT
Found at i:9865591 original size:28 final size:28
Alignment explanation
Indices: 9865560--9865627 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 28
9865550 ATTATTTTTC
* *
9865560 ATTTTTTACTA-TTTACTTATTTAATTAT
1 ATTTTTTA-TATTTTACTTATTAAATAAT
9865588 ATTTTTTATATTTTTACTTATTAAATAAT
1 ATTTTTTATA-TTTTACTTATTAAATAAT
* *
9865617 ATATTATATAT
1 ATTTTTTATAT
9865628 ATCTTATTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
27 2 0.06
28 9 0.26
29 23 0.68
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (28 bp):
ATTTTTTATATTTTACTTATTAAATAAT
Found at i:9865603 original size:29 final size:29
Alignment explanation
Indices: 9865571--9865627 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
9865561 TTTTTTACTA
* * * *
9865571 TTTACTTATTTAATTATATTTTTTATATT
1 TTTACTTATTAAATAATATATTATATATT
9865600 TTTACTTATTAAATAATATATTATATAT
1 TTTACTTATTAAATAATATATTATATAT
9865628 ATCTTATTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (29 bp):
TTTACTTATTAAATAATATATTATATATT
Found at i:9865756 original size:10 final size:10
Alignment explanation
Indices: 9865743--9865767 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
9865733 TTTTGTTTTC
9865743 TTTTTTTCTT
1 TTTTTTTCTT
9865753 TTTTTTTCTT
1 TTTTTTTCTT
9865763 TTTTT
1 TTTTT
9865768 ATTTCTTTAA
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:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:9865759 original size:18 final size:18
Alignment explanation
Indices: 9865733--9865767 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9865723 ATAGGCTAGG
9865733 TTTTGTTTTCTTTTTTTC
1 TTTTGTTTTCTTTTTTTC
*
9865751 TTTTTTTTTCTTTTTTT
1 TTTTGTTTTCTTTTTTT
9865768 ATTTCTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.89
Consensus pattern (18 bp):
TTTTGTTTTCTTTTTTTC
Found at i:9865839 original size:21 final size:20
Alignment explanation
Indices: 9865826--9865903 Score: 68
Period size: 21 Copynumber: 3.7 Consensus size: 20
9865816 TTTTGTTTTC
9865826 TTTGATTTATTTTTATTTCTAT
1 TTTGATTTATTTTT-TTTCT-T
* *
9865848 TTTTATTTATTATATTTTT-TC
1 TTTGATTTATT-T-TTTTTCTT
*
9865869 TTTGACTTATTCTTTTTTCTT
1 TTTGATTTATT-TTTTTTCTT
*
9865890 TTTTATTTATTTTT
1 TTTGATTTATTTTT
9865904 CAATTTAATT
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
20 8 0.18
21 20 0.44
22 11 0.24
23 4 0.09
24 2 0.04
ACGTcount: A:0.15, C:0.06, G:0.03, T:0.76
Consensus pattern (20 bp):
TTTGATTTATTTTTTTTCTT
Found at i:9865991 original size:8 final size:8
Alignment explanation
Indices: 9865980--9866036 Score: 62
Period size: 8 Copynumber: 7.1 Consensus size: 8
9865970 TTTCTTTTGA
9865980 TTTATTAT
1 TTTATTAT
9865988 TTTATTAT
1 TTTATTAT
*
9865996 TCTATTAT
1 TTTATTAT
*
9866004 TTTGTTCAT
1 TTTATT-AT
*
9866013 TTTTTTA-
1 TTTATTAT
*
9866020 TTTAATAT
1 TTTATTAT
9866028 TTTATTAT
1 TTTATTAT
9866036 T
1 T
9866037 ATTTTTCTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
7 5 0.12
8 28 0.70
9 7 0.17
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.72
Consensus pattern (8 bp):
TTTATTAT
Found at i:9866023 original size:40 final size:39
Alignment explanation
Indices: 9865943--9866036 Score: 113
Period size: 40 Copynumber: 2.4 Consensus size: 39
9865933 TTATTTGTTA
*
9865943 TATTATTTTGTTATTCTTTATTATTTTTTTCTTTTGATT
1 TATTATTTTATTATTCTTTATTATTTTTTTCTTTTGATT
9865982 TATTATTTTATTATTCTATTATT-TTGTTCATTT-TTTT-ATT
1 TATTATTTTATTATTCT-TTATTATT-TT--TTTCTTTTGATT
*
9866022 TAATATTTTATTATT
1 TATTATTTTATTATT
9866037 ATTTTTCTAT
Statistics
Matches: 49, Mismatches: 2, Indels: 7
0.84 0.03 0.12
Matches are distributed among these distances:
39 18 0.37
40 24 0.49
41 4 0.08
42 3 0.06
ACGTcount: A:0.20, C:0.04, G:0.03, T:0.72
Consensus pattern (39 bp):
TATTATTTTATTATTCTTTATTATTTTTTTCTTTTGATT
Found at i:9871772 original size:169 final size:170
Alignment explanation
Indices: 9871195--9872537 Score: 1607
Period size: 169 Copynumber: 7.9 Consensus size: 170
9871185 GAAACTATTA
* * * * *
9871195 ACAGCATAGCTCAAGGCGAGAA-GGACTATATGTCAAC-CAAGACCTTCGACTTCGATTAAACTT
1 ACAGCATAGCTCAAGGCGAGAAGGGA-TATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTC
* * * * *
9871258 AGCTCAAAGGCATATCAAATTTACATCATAATTCAAGGTGAGAAGGGTTATCTGTCACCAAAAGA
65 AGCTCAAAGGCACATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAGA
* *
9871323 CCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCCAATTT
129 CCTTCGAGTTCGATTACACTCAGCTCAAAGGCACAT-CAATTT
* * * * * *
9871366 ACAGCATAACTCAAGACGAGAAGGGTTATTTGTCAGC-AAAGACCTTCGAGTTCGATTACATTCA
1 ACAGCATAGCTCAAGGCGAGAAGGGATATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTCA
* ** * * * * *
9871430 GGTCAATTGCACATCAAATTTATATCATAGCTCAAGGCGAAAAGGGTTATCTGACAACAAAAGAC
66 GCTCAAAGGCACATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAGAC
*
9871495 CTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTT
130 CTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC-AATTT
* * *
9871537 ACAGCATAGCTCAAGGCGGGAAGGGCTATCTGTCAAC--AAGACCTTCGAGTTCGATTACATTCA
1 ACAGCATAGCTCAAGGCGAGAAGGGATATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTCA
* * * * *
9871600 GCTCAAAGGCATATCAAATTGACAGCATAACTCAAGGGGAGAAGGGTTATCTGTCAGCCAAGACC
66 GCTCAAAGGCACATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACC
**
9871665 TTCGAGTTCGATTACACTCAGCTCAAAGAAACATC-ATTT
131 TTCGAGTTCGATTACACTCAGCTCAAAGGCACATCAATTT
** * * *
9871704 GTAGCATAGCTCAAGGCGAGAAGGGATATCT-ACTAACAAAAAACCTTCGAGTTCTATTACACTC
1 ACAGCATAGCTCAAGGCGAGAAGGGATATCTGTC-AACAAAAGACCTTCGAGTTCGATTACACTC
* * *
9871768 AGCTCAAAGGCACATCTAATTTACAACATAAATCAAGGCGAGAAGGGTTATCTGTCAACAAAGAC
65 AGCTCAAAGGCACATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGAC
* * * *
9871833 CTTTGAGTTTGATTACTCTCAGGTCAAAGGCACATC-ATTT
130 CTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCAATTT
** * * * *
9871873 GTAGCATAGCTCAAAGTGAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCA
1 ACAGCATAGCTCAAGGCGAGAAGGGATATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTCA
* * * * * *
9871938 GCTCAAAGGAACATCCAATTTACATCATAACTCAAAGCGAGAAGGATTATCTATCAACCAAA-AC
66 GCTCAAAGGCACATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAA-CAAAGAC
9872002 CTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC-ATTT
130 CTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCAATTT
* * * ** * *
9872042 GCAGCATAGCTCAAGGCGAGAAGGGTTATCTGCCAACAAAAGACCTTTAATTTTGATTACACTCA
1 ACAGCATAGCTCAAGGCGAGAAGGGATATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTCA
*
9872107 GCTCAAAGGCACATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACCAAGACC
66 GCTCAAAGGCACATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACC
9872172 TTCGAGTTCGATTACACTCAGCTCAAAGGCACATCAAATTT
131 TTCGAGTTCGATTACACTCAGCTCAAAGGCACATC-AATTT
* * * * *
9872213 ACAGAATAACTCAAGACGAGAA-GGACTATCTGTCCACAAAAGACCTTCGAGTTCGATTACATTC
1 ACAGCATAGCTCAAGGCGAGAAGGGA-TATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTC
** * * * *
9872277 AGCTCAAAGGCATGTC-TA-GTACAACATAACTCAAGGCGAGAAGGATTATCTGTCAACAAAAGA
65 AGCTCAAAGGCACATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAGA
* * * *
9872340 CCTTCGAGTTCTATTACATTCATCTCAAAGGCATATCAAATTT
129 CCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC-AATTT
* * * * * * *
9872383 ACAACATAGCTCAAGGTGAGAAGGGCTATCTATCAAC-CAAGACCTTCAAGTTTGATTACACTCA
1 ACAGCATAGCTCAAGGCGAGAAGGGATATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTCA
* * * * *
9872447 GGTTAAAGGCATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAATACC
66 GCTCAAAGGCACATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACC
* *
9872512 TTCGAGTTCAATTACATTCAGCTCAA
131 TTCGAGTTCGATTACACTCAGCTCAA
9872538 GGGTATGTCA
Statistics
Matches: 1013, Mismatches: 144, Indels: 31
0.85 0.12 0.03
Matches are distributed among these distances:
166 1 0.00
167 34 0.03
168 3 0.00
169 513 0.51
170 181 0.18
171 279 0.28
172 2 0.00
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.24
Consensus pattern (170 bp):
ACAGCATAGCTCAAGGCGAGAAGGGATATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTCA
GCTCAAAGGCACATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACC
TTCGAGTTCGATTACACTCAGCTCAAAGGCACATCAATTT
Found at i:9872583 original size:85 final size:85
Alignment explanation
Indices: 9871195--9872574 Score: 1585
Period size: 85 Copynumber: 16.3 Consensus size: 85
9871185 GAAACTATTA
* ** * * * * *
9871195 ACAGCATAGCTCAAGGCGAGAAGGACTATATGTCAACCAAGACCTTCGACTTCGATTAAACTTAG
1 ACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAG
*
9871260 CTCAAAGGCATATCAAATTT
66 CTCAAAGGCACATCAAATTT
* * * * *
9871280 ACATCATAATTCAAGGTGAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGATTACATTCA
1 ACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACACTCA
* *
9871345 GCTCAAAGGCATATCCAATTT
65 GCTCAAAGGCACATCAAATTT
* * * *
9871366 ACAGCATAACTCAAGACGAGAAGGGTTATTTGTCAGCAAAGACCTTCGAGTTCGATTACATTCAG
1 ACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAG
* **
9871431 GTCAATTGCACATCAAATTT
66 CTCAAAGGCACATCAAATTT
* * * * *
9871451 ATATCATAGCTCAAGGCGAAAAGGGTTATCTGACAACAAAAGACCTTCGAGTTCGATTACACTCA
1 ACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACACTCA
*
9871516 GCTCAAAGGCATATCAAATTT
65 GCTCAAAGGCACATCAAATTT
* * * *
9871537 ACAGCATAGCTCAAGGCGGGAAGGGCTATCTGTCAAC-AAGACCTTCGAGTTCGATTACATTCAG
1 ACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAG
* *
9871601 CTCAAAGGCATATCAAATTG
66 CTCAAAGGCACATCAAATTT
* * *
9871621 ACAGCATAACTCAAGGGGAGAAGGGTTATCTGTCAGCCAAGACCTTCGAGTTCGATTACACTCAG
1 ACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAG
**
9871686 CTCAAAGAAACATC--ATTT
66 CTCAAAGGCACATCAAATTT
** * * * * *
9871704 GTAGCATAGCTCAAGGCGAGAAGGGATATCT-ACTAACAAAAAACCTTCGAGTTCTATTACACTC
1 ACAGCATAACTCAAGGCGAGAAGGGTTATCTGTC-AAC-AAAGACCTTCGAGTTCGATTACACTC
*
9871768 AGCTCAAAGGCACATCTAATTT
64 AGCTCAAAGGCACATCAAATTT
* * * * *
9871790 ACAACATAAATCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTTGAGTTTGATTACTCTCAG
1 ACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAG
*
9871855 GTCAAAGGCACATC--ATTT
66 CTCAAAGGCACATCAAATTT
** * * * * *
9871873 GTAGCATAGCTCAAAGTGAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCA
1 ACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACACTCA
* *
9871938 GCTCAAAGGAACATCCAATTT
65 GCTCAAAGGCACATCAAATTT
* * * *
9871959 ACATCATAACTCAAAGCGAGAAGGATTATCTATCAACCAAA-ACCTTCGAGTTCGATTACACTCA
1 ACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAA-CAAAGACCTTCGAGTTCGATTACACTCA
9872023 GCTCAAAGGCACATC--ATTT
65 GCTCAAAGGCACATCAAATTT
* * * ** * *
9872042 GCAGCATAGCTCAAGGCGAGAAGGGTTATCTGCCAACAAAAGACCTTTAATTTTGATTACACTCA
1 ACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACACTCA
9872107 GCTCAAAGGCACATCAAATTT
65 GCTCAAAGGCACATCAAATTT
*
9872128 ACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACCAAGACCTTCGAGTTCGATTACACTCAG
1 ACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAG
9872193 CTCAAAGGCACATCAAATTT
66 CTCAAAGGCACATCAAATTT
* * ** * *
9872213 ACAGAATAACTCAAGACGAGAAGGACTATCTGTCCACAAAAGACCTTCGAGTTCGATTACATTCA
1 ACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACACTCA
** * *
9872278 GCTCAAAGGCATGTC-TA-GT
65 GCTCAAAGGCACATCAAATTT
* * * *
9872297 ACAACATAACTCAAGGCGAGAAGGATTATCTGTCAACAAAAGACCTTCGAGTTCTATTACATTCA
1 ACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACACTCA
* *
9872362 TCTCAAAGGCATATCAAATTT
65 GCTCAAAGGCACATCAAATTT
* * * * * * * *
9872383 ACAACATAGCTCAAGGTGAGAAGGGCTATCTATCAACCAAGACCTTCAAGTTTGATTACACTCAG
1 ACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAG
* * *
9872448 GTTAAAGGCATATCAAATTT
66 CTCAAAGGCACATCAAATTT
* * * *
9872468 ACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAATACCTTCGAGTTCAATTACATTCAG
1 ACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAG
* * ** *
9872533 CTCAAGGGTATGTCAAATTC
66 CTCAAAGGCACATCAAATTT
* *
9872553 ACAGCATAACTTAAGTCGAGAA
1 ACAGCATAACTCAAGGCGAGAA
9872575 AAACTATCTA
Statistics
Matches: 1099, Mismatches: 177, Indels: 38
0.84 0.13 0.03
Matches are distributed among these distances:
82 2 0.00
83 99 0.09
84 258 0.23
85 416 0.38
86 322 0.29
87 2 0.00
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.24
Consensus pattern (85 bp):
ACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAG
CTCAAAGGCACATCAAATTT
Found at i:9873344 original size:2 final size:2
Alignment explanation
Indices: 9873333--9873366 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
9873323 ATTATTATGG
*
9873333 TA TA -A TA TA TA TA TA TA TA TA TA TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9873367 GTTATATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9874672 original size:17 final size:16
Alignment explanation
Indices: 9874646--9874711 Score: 55
Period size: 17 Copynumber: 4.1 Consensus size: 16
9874636 TATATATATA
*
9874646 TATTAGTTTTTTATTT
1 TATTATTTTTTTATTT
*
9874662 CTATTATTTTTTCTGTTT
1 -TATTATTTTTT-TATTT
*
9874680 TACTATTTATTTT-TTT
1 TATTATTT-TTTTATTT
*
9874696 TA-TATTTTTATATTT
1 TATTATTTTTTTATTT
9874711 T
1 T
9874712 TTTTACTTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
14 3 0.07
15 9 0.21
16 5 0.12
17 18 0.43
18 7 0.17
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (16 bp):
TATTATTTTTTTATTT
Found at i:9874721 original size:23 final size:24
Alignment explanation
Indices: 9874677--9874721 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
9874667 ATTTTTTCTG
*
9874677 TTTTACTATTTATTTTTTTTATAT
1 TTTTACTATTTATTTTTCTTATAT
9874701 TTTTA-TATTT-TTTTTACTTAT
1 TTTTACTATTTATTTTT-CTTAT
9874722 TAGATAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 5 0.26
23 9 0.47
24 5 0.26
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (24 bp):
TTTTACTATTTATTTTTCTTATAT
Found at i:9874901 original size:21 final size:19
Alignment explanation
Indices: 9874855--9874902 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
9874845 TTTTGTTTTC
* *
9874855 TTTTTTTTATTCTTATTTT
1 TTTTTTTTATTCTTAATAT
9874874 TTATTTTTTATTTCTTTAATAT
1 TT-TTTTTTA-TTC-TTAATAT
9874896 TTTTTTT
1 TTTTTTT
9874903 AAAAATTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 2 0.08
20 7 0.29
21 8 0.33
22 7 0.29
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (19 bp):
TTTTTTTTATTCTTAATAT
Found at i:9875011 original size:12 final size:12
Alignment explanation
Indices: 9874996--9875161 Score: 101
Period size: 12 Copynumber: 13.5 Consensus size: 12
9874986 CTTATTCTTT
9874996 TTTTTTTATTTA
1 TTTTTTTATTTA
**
9875008 TTTTTCAATTTA
1 TTTTTTTATTTA
*
9875020 TTTATTTATTTA
1 TTTTTTTATTTA
*
9875032 TTTTCTCTAGTTTA
1 TTTT-TTTA-TTTA
*
9875046 -TTTTTTATCTA
1 TTTTTTTATTTA
*
9875057 TTTTATT-TTTA
1 TTTTTTTATTTA
9875068 TTTTTATTA-TTA
1 TTTTT-TTATTTA
*
9875080 TTTTATTT-TTTC
1 TTTT-TTTATTTA
9875092 TTTTGATTTA-TTA
1 TTTT--TTTATTTA
*
9875105 TTTTATTATTCTA
1 TTTTTTTATT-TA
* *
9875118 TTATTTTGTTTA
1 TTTTTTTATTTA
9875130 TTTTGTTTATTTAA
1 TTTT-TTTATTT-A
*
9875144 TATTTTT-TTTA
1 TTTTTTTATTTA
9875155 TTATTTT
1 TT-TTTT
9875162 CTATCTAATA
Statistics
Matches: 118, Mismatches: 22, Indels: 28
0.70 0.13 0.17
Matches are distributed among these distances:
11 15 0.13
12 60 0.51
13 35 0.30
14 8 0.07
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.75
Consensus pattern (12 bp):
TTTTTTTATTTA
Found at i:9875065 original size:16 final size:16
Alignment explanation
Indices: 9875032--9875066 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
9875022 TATTTATTTA
*
9875032 TTTTCTCTAGTTTATT
1 TTTTATCTAGTTTATT
*
9875048 TTTTATCTATTTTATT
1 TTTTATCTAGTTTATT
9875064 TTT
1 TTT
9875067 ATTTTTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.14, C:0.09, G:0.03, T:0.74
Consensus pattern (16 bp):
TTTTATCTAGTTTATT
Found at i:9875068 original size:6 final size:6
Alignment explanation
Indices: 9875057--9875108 Score: 54
Period size: 6 Copynumber: 8.5 Consensus size: 6
9875047 TTTTTATCTA
*
9875057 TTTTAT TTTTAT TTTTAT TATTA- TTTTAT TTTT-T CTTTTGAT TTATTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT -TTTT-AT TT-TTAT
9875106 TTT
1 TTT
9875109 ATTATTCTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
5 5 0.13
6 25 0.64
7 6 0.15
8 3 0.08
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:9875075 original size:17 final size:17
Alignment explanation
Indices: 9875042--9875108 Score: 57
Period size: 17 Copynumber: 3.8 Consensus size: 17
9875032 TTTTCTCTAG
* *
9875042 TTTATTTTT-TATCTAT
1 TTTATTTTTATTTTTAT
9875058 TTTATTTTTATTTTTAT
1 TTTATTTTTATTTTTAT
*
9875075 TATTA-TTTTATTTTTTCT
1 T-TTATTTTTA-TTTTTAT
9875093 TTTGATTTATTATTTT
1 TTT-ATTT-TTATTTT
9875109 ATTATTCTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
16 9 0.21
17 13 0.31
18 11 0.26
19 6 0.14
20 3 0.07
ACGTcount: A:0.18, C:0.03, G:0.01, T:0.78
Consensus pattern (17 bp):
TTTATTTTTATTTTTAT
Found at i:9875082 original size:56 final size:56
Alignment explanation
Indices: 9875016--9875142 Score: 131
Period size: 56 Copynumber: 2.3 Consensus size: 56
9875006 TATTTTTCAA
* *
9875016 TTTA-TTTATTTATTTATTTTCTCTAG-TTTATT-TTTTATCTATTTTATT-TTTATT
1 TTTATTTTATTTATTTATTTTCTCTAGATTTATTATTTTAT-TATTCTATTATTT-TG
* *
9875070 TTTATTATTATTT-TATT-TTTTCTTTTGATTTATTATTTTATTATTCTATTATTTTG
1 TTTATT-TTATTTAT-TTATTTTCTCTAGATTTATTATTTTATTATTCTATTATTTTG
*
9875126 TTTATTTTGTTTATTTA
1 TTTATTTTATTTATTTA
9875143 ATATTTTTTT
Statistics
Matches: 60, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
54 4 0.07
55 17 0.28
56 30 0.50
57 9 0.15
ACGTcount: A:0.19, C:0.04, G:0.03, T:0.74
Consensus pattern (56 bp):
TTTATTTTATTTATTTATTTTCTCTAGATTTATTATTTTATTATTCTATTATTTTG
Found at i:9875086 original size:28 final size:27
Alignment explanation
Indices: 9875042--9875161 Score: 97
Period size: 28 Copynumber: 4.4 Consensus size: 27
9875032 TTTTCTCTAG
9875042 TTTATT-TTTTATCTATTTTATT-TTTATT
1 TTTATTATTTT-T-TATTTTATTATTT-TT
* *
9875070 TTTATTATTATTTTATTTT-TTCTTTTGA
1 TTTATTATT-TTTTATTTTATTATTTT-T
* *
9875098 TTTATTATTTTATTATTCTATTATTTTG
1 TTTATTATTTT-TTATTTTATTATTTTT
* *
9875126 TTTATT-TTGTTTA-TTTAATATTTTT
1 TTTATTATTTTTTATTTTATTATTTTT
9875151 TTTATTATTTT
1 TTTATTATTTT
9875162 CTATCTAATA
Statistics
Matches: 76, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
25 15 0.20
26 6 0.08
27 8 0.11
28 36 0.47
29 9 0.12
30 2 0.03
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.76
Consensus pattern (27 bp):
TTTATTATTTTTTATTTTATTATTTTT
Found at i:9875102 original size:25 final size:24
Alignment explanation
Indices: 9875049--9875161 Score: 97
Period size: 25 Copynumber: 4.5 Consensus size: 24
9875039 TAGTTTATTT
9875049 TTTATCTATTTTATTTTTATTTTTA
1 TTTAT-TATTTTATTTTTATTTTTA
9875074 -TTATTATTTTATTTTT-TCTTTTGA
1 TTTATTATTTTATTTTTAT-TTTT-A
*
9875098 TTTATTATTTTATTATTCTATTATTTTG
1 TTTATTATTTTATT-TT-TA-T-TTTTA
* *
9875126 TTTATTTTGTTTATTTAATATTTTT-
1 TTTATTAT-TTTATTT-TTATTTTTA
9875151 TTTATTATTTT
1 TTTATTATTTT
9875162 CTATCTAATA
Statistics
Matches: 74, Mismatches: 5, Indels: 19
0.76 0.05 0.19
Matches are distributed among these distances:
22 1 0.01
23 16 0.22
24 8 0.11
25 20 0.27
26 6 0.08
27 2 0.03
28 10 0.14
29 11 0.15
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (24 bp):
TTTATTATTTTATTTTTATTTTTA
Found at i:9875960 original size:29 final size:28
Alignment explanation
Indices: 9875928--9876023 Score: 69
Period size: 26 Copynumber: 3.5 Consensus size: 28
9875918 GTTTAAAATT
9875928 TAAAATAAAATAATTTCAACTATATATTA
1 TAAAATAAAATAATTT-AACTATATATTA
**
9875957 T-AAATAAAAT--TTTAAAAATTATTATATA
1 TAAAATAAAATAATTTAACTA-TA-TAT-TA
* *
9875985 TAAAATATAACAATTTAAACTATA-A-TA
1 TAAAATAAAATAATTT-AACTATATATTA
9876012 -AAAATAAAATAA
1 TAAAATAAAATAA
9876024 AATAATAATT
Statistics
Matches: 52, Mismatches: 8, Indels: 17
0.68 0.10 0.22
Matches are distributed among these distances:
25 3 0.06
26 15 0.29
27 5 0.10
28 12 0.23
29 9 0.17
31 5 0.10
32 3 0.06
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.35
Consensus pattern (28 bp):
TAAAATAAAATAATTTAACTATATATTA
Found at i:9876019 original size:31 final size:33
Alignment explanation
Indices: 9875984--9876051 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 33
9875974 ATTATTATAT
*
9875984 ATAAAATATAACAAT-TTA-AACTATAATAAAA
1 ATAAAATAAAACAATATTATAACTATAATAAAA
* *
9876015 ATAAAATAAAATAATAATTATAATTATAATAAAA
1 ATAAAATAAAACAAT-ATTATAACTATAATAAAA
9876049 ATA
1 ATA
9876052 TATTTATATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 13 0.42
33 3 0.10
34 15 0.48
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (33 bp):
ATAAAATAAAACAATATTATAACTATAATAAAA
Found at i:9878611 original size:14 final size:14
Alignment explanation
Indices: 9878594--9878621 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9878584 ATTGATTAGC
9878594 GTTAAATGATCCTT
1 GTTAAATGATCCTT
9878608 GTTAAATGATCCTT
1 GTTAAATGATCCTT
9878622 TATTTTTTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (14 bp):
GTTAAATGATCCTT
Found at i:9893615 original size:54 final size:53
Alignment explanation
Indices: 9893549--9893944 Score: 519
Period size: 54 Copynumber: 7.4 Consensus size: 53
9893539 TTCATTGAGA
* ** * * * *
9893549 TGCACACGTAGTGCCTATACGGTCATTCATAAACATATTATGAATTCCTTGGT
1 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCGTGGGT
* * *
9893602 T-CACACATATAGTGCTTATATGGTTGTTCATCAATATATGATGAATTACGTGGGT
1 TGCACAC-T-TAGTGCCTATACGGTTGTTCATCAACATATGATGAATT-CGTGGGT
*
9893657 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGGTGAATTTCGTGGGT
1 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAA-TTCGTGGGT
* *
9893711 TGCACACTTAGTGCCTATACGGTTGTTCATCAATATATGATGAATT-TTGTGGT
1 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCGTG-GGT
* *
9893764 TCGCACACTTAGTGCCTATACGATTATTCATCAACATATGATGAAATAT-GTGGGT
1 T-GCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATG-AAT-TCGTGGGT
*
9893819 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTTTGTGGGT
1 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAA-TTCGTGGGT
* *
9893873 TGCACACTTAATGCCTATACGATTGTTCATCAACATATGATGAATTCGTGGGT
1 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCGTGGGT
*
9893926 TGCACACTTAATGCCTATA
1 TGCACACTTAGTGCCTATA
9893945 GTACACATTG
Statistics
Matches: 306, Mismatches: 26, Indels: 22
0.86 0.07 0.06
Matches are distributed among these distances:
52 7 0.02
53 37 0.12
54 238 0.78
55 16 0.05
56 8 0.03
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.36
Consensus pattern (53 bp):
TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCGTGGGT
Found at i:9900500 original size:54 final size:54
Alignment explanation
Indices: 9900429--9900709 Score: 365
Period size: 54 Copynumber: 5.2 Consensus size: 54
9900419 TTCCCGCATA
* *
9900429 TAGTTCCTATACGGTTGTTCATCAATATATGATGAATTCCT-TGGGTTGTACACT
1 TAGTGCCTATACGGTTGTTCATCAACATATGATGAATT-CTGTGGGTTGTACACT
* * *
9900483 TAGT-CTCTATACAGTTGTTTATCAACATATGATGAATT-TCAT-GGTTCGTACACT
1 TAGTGC-CTATACGGTTGTTCATCAACATATGATGAATTCT-GTGGGTT-GTACACT
*
9900537 TAGTGCTTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGTT-TCACACT
1 TAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGTTGT-ACACT
* * *
9900591 TAGTGCCTATACGGTTGTTCATCATCATATGATGAATTATGTGGGTTGCACACT
1 TAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGTTGTACACT
* * *
9900645 TAGTGCCTATATGGTTGTTCATCAACATATGATGAATTCTGTGGGTTGCATACT
1 TAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGTTGTACACT
*
9900699 TAGTGCATATA
1 TAGTGCCTATA
9900710 GTACACATAA
Statistics
Matches: 202, Mismatches: 16, Indels: 18
0.86 0.07 0.08
Matches are distributed among these distances:
52 1 0.00
53 6 0.03
54 189 0.94
55 6 0.03
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (54 bp):
TAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGTTGTACACT
Found at i:9905131 original size:20 final size:20
Alignment explanation
Indices: 9905106--9905203 Score: 72
Period size: 20 Copynumber: 4.9 Consensus size: 20
9905096 TCAAGACCTC
* *
9905106 TGGTCTTCATACCAAAGGGT
1 TGGTCTCCATACCAAAGGAT
**
9905126 TGGTCTCCATACTGAAGGAT
1 TGGTCTCCATACCAAAGGAT
* **
9905146 TGGTCTCCATATCGGAGGAT
1 TGGTCTCCATACCAAAGGAT
* * * *
9905166 TGGTATTCATATCGAA-GAT
1 TGGTCTCCATACCAAAGGAT
*
9905185 TGAGTATCCATACCAAAGG
1 TG-GTCTCCATACCAAAGG
9905204 CTTGATATAA
Statistics
Matches: 63, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
19 5 0.08
20 57 0.90
21 1 0.02
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (20 bp):
TGGTCTCCATACCAAAGGAT
Found at i:9906724 original size:18 final size:18
Alignment explanation
Indices: 9906695--9906753 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
9906685 ATAATATAAG
9906695 TTTATA-TATAAACTATA
1 TTTATATTATAAACTATA
9906712 TTTATATTATAAACTATA
1 TTTATATTATAAACTATA
* *
9906730 -TAATTATTATAAGCTATA
1 TTTA-TATTATAAACTATA
*
9906748 TATATA
1 TTTATA
9906754 AATTATGTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
17 8 0.23
18 26 0.74
19 1 0.03
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.47
Consensus pattern (18 bp):
TTTATATTATAAACTATA
Found at i:9906758 original size:20 final size:18
Alignment explanation
Indices: 9906701--9906759 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
9906691 TAAGTTTATA
*
9906701 TATAAACTATAT-TTATAT
1 TATAAACTATATAATA-AT
*
9906719 TATAAACTATATAATTAT
1 TATAAACTATATAATAAT
*
9906737 TATAAGCTATATATATAAAT
1 TATAAACTATATA-AT-AAT
9906757 TAT
1 TAT
9906760 GTTCATATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
18 26 0.76
19 3 0.09
20 5 0.15
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.46
Consensus pattern (18 bp):
TATAAACTATATAATAAT
Found at i:9906785 original size:13 final size:13
Alignment explanation
Indices: 9906714--9906873 Score: 54
Period size: 13 Copynumber: 11.5 Consensus size: 13
9906704 AAACTATATT
9906714 TATAT-TATAAAC
1 TATATATATAAAC
9906726 TATATAATTATTATAAGC
1 TATAT-A-TA-TA-AA-C
*
9906744 TATATATATAAAT
1 TATATATATAAAC
* *
9906757 TATGTTCATATGAAC
1 TAT-AT-ATATAAAC
*
9906772 TGTATATATAAAC
1 TATATATATAAAC
* *
9906785 TATGTATATAAAG
1 TATATATATAAAC
* * *
9906798 TTTATAAACTAAAA
1 TATATATA-TAAAC
* * *
9906812 TTTATATTAATATAG
1 TATATA-T-ATAAAC
*
9906827 TATATATATATA-
1 TATATATATAAAC
*
9906839 TATATTATATAAAT
1 TATA-TATATAAAC
*
9906853 TATATATGTATAAAA
1 TATATA--TATAAAC
9906868 TATATA
1 TATATA
9906874 GTTTATAAAT
Statistics
Matches: 113, Mismatches: 20, Indels: 27
0.71 0.12 0.17
Matches are distributed among these distances:
12 9 0.08
13 39 0.35
14 19 0.17
15 32 0.28
16 5 0.04
17 3 0.03
18 6 0.05
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.44
Consensus pattern (13 bp):
TATATATATAAAC
Found at i:9906834 original size:2 final size:2
Alignment explanation
Indices: 9906821--9906973 Score: 62
Period size: 2 Copynumber: 80.5 Consensus size: 2
9906811 ATTTATATTA
* *
9906821 AT AT AGT AT AT AT AT AT AT AT AT -T AT AT AA AT -T AT AT AT GT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
9906862 AT A- AA AT AT AT AGT TT AT AA AT -T AT A- AT TT AT AT -T A- AT
1 AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * *
9906900 AT AGT GT AT AT AT GT AT GT GT A- ACT AT AT A- AGT A- AT CT AT
1 AT A-T AT AT AT AT AT AT AT AT AT A-T AT AT AT A-T AT AT AT AT
*
9906940 AG AT -T AT AT AT AT A- AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9906974 AACACTATGC
Statistics
Matches: 112, Mismatches: 21, Indels: 36
0.66 0.12 0.21
Matches are distributed among these distances:
1 13 0.12
2 93 0.83
3 6 0.05
ACGTcount: A:0.46, C:0.01, G:0.07, T:0.46
Consensus pattern (2 bp):
AT
Found at i:9906901 original size:31 final size:32
Alignment explanation
Indices: 9906821--9906902 Score: 91
Period size: 31 Copynumber: 2.6 Consensus size: 32
9906811 ATTTATATTA
9906821 ATATA-GTATATATATATATATATTATATAAATT
1 ATATATGTATAT-TA-ATATATATTATATAAATT
*
9906854 ATATATGTATA-AAATATATAGTT-TATAAATT
1 ATATATGTATATTAATATATA-TTATATAAATT
*
9906885 ATA-ATTTATATTAATATA
1 ATATATGTATATTAATATA
9906903 GTGTATATAT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
30 6 0.14
31 24 0.56
32 3 0.07
33 5 0.12
34 5 0.12
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.48
Consensus pattern (32 bp):
ATATATGTATATTAATATATATTATATAAATT
Found at i:9906953 original size:13 final size:12
Alignment explanation
Indices: 9906924--9906973 Score: 50
Period size: 11 Copynumber: 4.2 Consensus size: 12
9906914 TATGTGTAAC
*
9906924 TATATAAGTA-A
1 TATATAATTATA
*
9906935 TCTATAGATTATA
1 TATATA-ATTATA
9906948 TATATAA-TATA
1 TATATAATTATA
9906959 TATATATATTATA
1 TATATA-ATTATA
9906972 TA
1 TA
9906974 AACACTATGC
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
11 15 0.47
12 5 0.16
13 12 0.38
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (12 bp):
TATATAATTATA
Found at i:9907260 original size:18 final size:18
Alignment explanation
Indices: 9907237--9907321 Score: 100
Period size: 18 Copynumber: 4.7 Consensus size: 18
9907227 TACATGTATG
*
9907237 TATAAACTATGTATA-ATA
1 TATAAA-TATATATATATA
*
9907255 TATAAACTATATATAGATA
1 TATAAA-TATATATATATA
*
9907274 TATATATATATATATATA
1 TATAAATATATATATATA
*
9907292 TATATATATATATATATA
1 TATAAATATATATATATA
*
9907310 TATATATATATA
1 TATAAATATATA
9907322 GAGAGAGAGA
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
18 55 0.87
19 8 0.13
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (18 bp):
TATAAATATATATATATA
Found at i:9907267 original size:2 final size:2
Alignment explanation
Indices: 9907248--9907321 Score: 114
Period size: 2 Copynumber: 37.0 Consensus size: 2
9907238 ATAAACTATG
* *
9907248 TA TA -A TA TA TA AA CTA TA TA TA GA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9907290 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9907322 GAGAGAGAGA
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.02
2 64 0.97
3 1 0.02
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (2 bp):
TA
Found at i:9907444 original size:14 final size:14
Alignment explanation
Indices: 9907421--9907458 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
9907411 TAGTTTATAG
9907421 AAACCTTAAACCCT
1 AAACCTTAAACCCT
* *
9907435 AAACCGTAAACCGT
1 AAACCTTAAACCCT
9907449 AAACCTTAAA
1 AAACCTTAAA
9907459 TACTATGCAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.47, C:0.29, G:0.05, T:0.18
Consensus pattern (14 bp):
AAACCTTAAACCCT
Found at i:9907522 original size:37 final size:36
Alignment explanation
Indices: 9907481--9907583 Score: 120
Period size: 35 Copynumber: 2.9 Consensus size: 36
9907471 ACAATAGTTA
* *
9907481 ATATATGTAACCTATAGTATATGTATACATGTAAATT
1 ATATATGTAACCTATAGTATATGTATA-ATATAAACT
** * *
9907518 ATATATGTAAATTATAGTACATGTAT-GTATAAACT
1 ATATATGTAACCTATAGTATATGTATAATATAAACT
*
9907553 ATATATATAACCTATAGTATATGTAT-ATATA
1 ATATATGTAACCTATAGTATATGTATAATATA
9907584 CAATCTATTT
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
35 32 0.58
37 23 0.42
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.41
Consensus pattern (36 bp):
ATATATGTAACCTATAGTATATGTATAATATAAACT
Found at i:9907525 original size:13 final size:13
Alignment explanation
Indices: 9907504--9907533 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
9907494 ATAGTATATG
9907504 TATACATGTAAAT
1 TATACATGTAAAT
*
9907517 TATATATGTAAAT
1 TATACATGTAAAT
9907530 TATA
1 TATA
9907534 GTACATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (13 bp):
TATACATGTAAAT
Found at i:9907611 original size:20 final size:22
Alignment explanation
Indices: 9907554--9907612 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
9907544 GTATAAACTA
*
9907554 TATATATAACCTATAGTATATG
1 TATATATAAACTATAGTATATG
*
9907576 TATATATACAATCTAT-TTATATG
1 TATATATA-AA-CTATAGTATATG
9907599 T-TATATAAACTATA
1 TATATATAAACTATA
9907613 TATGTAACCT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
20 4 0.12
21 2 0.06
22 14 0.44
23 8 0.25
24 4 0.12
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.44
Consensus pattern (22 bp):
TATATATAAACTATAGTATATG
Found at i:9907682 original size:14 final size:14
Alignment explanation
Indices: 9907672--9907710 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
9907662 GTTTATACTT
9907672 TATAATCTATAATA
1 TATAATCTATAATA
* *
9907686 TATAATTTATAAAA
1 TATAATCTATAATA
*
9907700 TATAATTTATA
1 TATAATCTATA
9907711 TTAATGTACC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (14 bp):
TATAATCTATAATA
Found at i:9907703 original size:21 final size:21
Alignment explanation
Indices: 9907665--9907710 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
9907655 CTATATAGTT
* **
9907665 TATACTTTATAATCTATAATA
1 TATAATTTATAAAATATAATA
*
9907686 TATAATTTATAAAATATAATT
1 TATAATTTATAAAATATAATA
9907707 TATA
1 TATA
9907711 TTAATGTACC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (21 bp):
TATAATTTATAAAATATAATA
Found at i:9907823 original size:41 final size:38
Alignment explanation
Indices: 9907750--9907861 Score: 119
Period size: 41 Copynumber: 3.0 Consensus size: 38
9907740 TAATTATCTT
9907750 AACTATAAT-TT-ATATTAATATAGTATATAGTTTATA
1 AACTATAATATTAATATTAATATAGTATATAGTTTATA
*
9907786 AACTATAATATTAATATTAATTATATTAACTATAGTTTATA
1 AACTATAATATTAATATTAA-TATAGT-A-TATAGTTTATA
* *
9907827 AACTATACTATATAAT-TT-ATA-A-CATATAGTTTATA
1 AACTATAATAT-TAATATTAATATAGTATATAGTTTATA
9907862 TTAATATTAA
Statistics
Matches: 67, Mismatches: 3, Indels: 13
0.81 0.04 0.16
Matches are distributed among these distances:
35 11 0.16
36 10 0.15
37 2 0.03
38 8 0.12
39 7 0.10
40 2 0.03
41 23 0.34
42 4 0.06
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.46
Consensus pattern (38 bp):
AACTATAATATTAATATTAATATAGTATATAGTTTATA
Found at i:9907870 original size:6 final size:6
Alignment explanation
Indices: 9907859--9908009 Score: 74
Period size: 6 Copynumber: 25.3 Consensus size: 6
9907849 CATATAGTTT
* *
9907859 ATATTA ATATTA ATTTTA TAGACTATA AT-TT- ATATTA ATATTA AT-TATA
1 ATATTA ATATTA ATATTA -ATA-T-TA ATATTA ATATTA ATATTA ATAT-TA
* * *
9907908 A-ATTA TAAATTA TAAATTA A-ATT- ATATTA ATA-TA A-GTTA ATATTA
1 ATATTA -ATATTA -ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA
9907953 ATATTA ATATT- A-ATT- ATATTA ATATTA A-ATATA ATATATA ATTATTTTA
1 ATATTA ATATTA ATATTA ATATTA ATATTA ATAT-TA ATAT-TA A-TA--TTA
9908002 ATATTA AT
1 ATATTA AT
9908010 TATAAATAGT
Statistics
Matches: 119, Mismatches: 6, Indels: 40
0.72 0.04 0.24
Matches are distributed among these distances:
4 7 0.06
5 24 0.20
6 58 0.49
7 18 0.15
8 6 0.05
9 5 0.04
10 1 0.01
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (6 bp):
ATATTA
Found at i:9907891 original size:31 final size:30
Alignment explanation
Indices: 9907842--9907967 Score: 105
Period size: 31 Copynumber: 4.0 Consensus size: 30
9907832 TACTATATAA
*
9907842 TTTATAACATATAGTTTATATTAATATTAAT
1 TTTATAAC-TATAATTTATATTAATATTAAT
9907873 TTTATAGACTATAATTTATATTAATATTAAT
1 TTTATA-ACTATAATTTATATTAATATTAAT
* * *
9907904 TATA-AATTATAAATTATAAATTAA-ATTATAT
1 TTTATAACTAT-AATT-TATATTAATATTA-AT
* *
9907935 TAATATAAGT-TAATATTAATATTAATATTAAT
1 T-TTATAACTATAAT-TT-ATATTAATATTAAT
9907967 T
1 T
9907968 ATATTAATAT
Statistics
Matches: 80, Mismatches: 6, Indels: 17
0.78 0.06 0.17
Matches are distributed among these distances:
29 4 0.05
30 9 0.11
31 44 0.55
32 16 0.20
33 7 0.09
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (30 bp):
TTTATAACTATAATTTATATTAATATTAAT
Found at i:9907911 original size:7 final size:7
Alignment explanation
Indices: 9907901--9907926 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
9907891 TATTAATATT
9907901 AATTATA
1 AATTATA
9907908 AATTATA
1 AATTATA
9907915 AATTATA
1 AATTATA
9907922 AATTA
1 AATTA
9907927 AATTATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
AATTATA
Found at i:9907975 original size:37 final size:42
Alignment explanation
Indices: 9907888--9908013 Score: 135
Period size: 37 Copynumber: 3.1 Consensus size: 42
9907878 AGACTATAAT
*
9907888 TTATATTAATATTAATTATAA-ATTATAA--ATTATAA-ATTAAA
1 TTATATTAATATTAAATATAATA-TATAATTATT-TAATATT-AA
*
9907929 TTATATTAATA-TAAGT-TAATAT-TAA-TA-TTAATATTAA
1 TTATATTAATATTAAATATAATATATAATTATTTAATATTAA
9907966 TTATATTAATATTAAATATAATATATAATTATTTTAATATTAA
1 TTATATTAATATTAAATATAATATATAATTA-TTTAATATTAA
9908009 TTATA
1 TTATA
9908014 AATAGTTTAT
Statistics
Matches: 74, Mismatches: 2, Indels: 16
0.80 0.02 0.17
Matches are distributed among these distances:
37 16 0.22
38 11 0.15
39 11 0.15
40 8 0.11
41 13 0.18
43 15 0.20
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (42 bp):
TTATATTAATATTAAATATAATATATAATTATTTAATATTAA
Found at i:9907983 original size:28 final size:28
Alignment explanation
Indices: 9907859--9908009 Score: 125
Period size: 28 Copynumber: 5.3 Consensus size: 28
9907849 CATATAGTTT
* * *
9907859 ATATTAATATTAATTTTATAGACTATAATTT
1 ATATTAATATTAA-TAT-TA-ATTATAATTA
*
9907890 ATATTAATATTAATTATAAATTATAAATTA
1 ATATTAATATTAA-TATTAATTAT-AATTA
*
9907920 TAAATTAA-ATT-ATATTAA-TATAAGTTA
1 -ATATTAATATTAATATTAATTATAA-TTA
9907947 ATATTAATATTAATATTAATTAT-ATTA
1 ATATTAATATTAATATTAATTATAATTA
*
9907974 ATATTAA-ATATAATATATAATTAT-TTTA
1 ATATTAATAT-TAATAT-TAATTATAATTA
9908002 ATATTAAT
1 ATATTAAT
9908010 TATAAATAGT
Statistics
Matches: 103, Mismatches: 8, Indels: 20
0.79 0.06 0.15
Matches are distributed among these distances:
26 10 0.10
27 25 0.24
28 30 0.29
29 8 0.08
30 8 0.08
31 22 0.21
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (28 bp):
ATATTAATATTAATATTAATTATAATTA
Found at i:9908011 original size:15 final size:15
Alignment explanation
Indices: 9907944--9908012 Score: 69
Period size: 15 Copynumber: 4.9 Consensus size: 15
9907934 TTAATATAAG
9907944 TTAATATTAA-TA--
1 TTAATATTAATTATT
*
9907956 TTAATATTAATTATA
1 TTAATATTAATTATT
9907971 TTAATATTAA--A-T
1 TTAATATTAATTATT
*
9907983 ATAATATATAATTATT
1 TTAATAT-TAATTATT
9907999 TTAATATTAATTAT
1 TTAATATTAATTAT
9908013 AAATAGTTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
12 16 0.34
13 6 0.13
15 18 0.38
16 7 0.15
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTAATATTAATTATT
Found at i:9908013 original size:28 final size:26
Alignment explanation
Indices: 9907857--9908029 Score: 112
Period size: 28 Copynumber: 6.5 Consensus size: 26
9907847 AACATATAGT
9907857 TTATATTAATATTAATTTTATAGACTA-TAA
1 TTATATTAATATTAA---TATA-A-TATTAA
9907887 TTTATATTAATATTAATTATAA-ATT-A
1 -TTATATTAATATTAA-TATAATATTAA
* * *
9907913 -TAAATTATAAATTAA-ATTATATTAA
1 TTATATTA-ATATTAATATAATATTAA
9907938 -TATAAGTTAATATTAATATTAATATTAA
1 TTAT-A-TTAATATTAATA-TAATATTAA
9907966 TTATATTAATATTAAATATAATATATAA
1 TTATATTAATATT-AATATAATAT-TAA
* *
9907994 TTATTTTAATATTAATTATAA-A-TAG
1 TTATATTAATATTAA-TATAATATTAA
9908019 TT-TATTAATAT
1 TTATATTAATAT
9908030 AAATTATATA
Statistics
Matches: 121, Mismatches: 9, Indels: 31
0.75 0.06 0.19
Matches are distributed among these distances:
23 3 0.02
24 17 0.14
25 13 0.11
26 9 0.07
27 22 0.18
28 34 0.28
29 8 0.07
31 15 0.12
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.50
Consensus pattern (26 bp):
TTATATTAATATTAATATAATATTAA
Found at i:9908293 original size:18 final size:19
Alignment explanation
Indices: 9908272--9908316 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
9908262 TCTCTCTCTC
9908272 TCTCTCTAACTCTCTG-AT
1 TCTCTCTAACTCTCTGTAT
* * *
9908290 TCTCTCAAATTCTCTGTCT
1 TCTCTCTAACTCTCTGTAT
9908309 TCTCTCTA
1 TCTCTCTA
9908317 GAAGTTCATC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.16, C:0.33, G:0.04, T:0.47
Consensus pattern (19 bp):
TCTCTCTAACTCTCTGTAT
Found at i:9908540 original size:103 final size:102
Alignment explanation
Indices: 9908350--9908544 Score: 223
Period size: 103 Copynumber: 1.9 Consensus size: 102
9908340 GTTCTTTGAA
* * * * *
9908350 AAAACCTTCATTTGATCTTCAAAAACATCAAATCCCAAACATTTTTATGTTGTTTTGGATCAAAC
1 AAAACCCTCATTTGATCTTCAAAAACACCAAAACCCAAACATTTCTATGTTGTTTTCGATCAAAC
** *
9908415 ACATGAAATTTCCATCCTTGTTCATCCTTGTTCATACG
66 ACACAAAATTTCCA-CCATGTTCATCCTTGTTCATACG
* ** *
9908453 AAAACCCTCATTTGATCTTCATAAACACCAAAACCCATATGATTTCT-TGTTTTTTTCGATCAAA
1 AAAACCCTCATTTGATCTTCAAAAACACCAAAACCCA-AACATTTCTATGTTGTTTTCGATCAAA
*
9908517 CACCCAAAAGTTTCTC-CCATGTTCATCC
65 CACACAAAA-TTTC-CACCATGTTCATCC
9908545 GTATTCATCC
Statistics
Matches: 76, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
103 65 0.86
104 10 0.13
105 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.08, T:0.35
Consensus pattern (102 bp):
AAAACCCTCATTTGATCTTCAAAAACACCAAAACCCAAACATTTCTATGTTGTTTTCGATCAAAC
ACACAAAATTTCCACCATGTTCATCCTTGTTCATACG
Found at i:9909074 original size:20 final size:20
Alignment explanation
Indices: 9909045--9909083 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9909035 TATCCAGTTA
*
9909045 TGTTTATTATTTTATTATTT
1 TGTTTATTATTTTAATATTT
*
9909065 TGTTTTTTATTTTAATATT
1 TGTTTATTATTTTAATATT
9909084 GTTCATTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (20 bp):
TGTTTATTATTTTAATATTT
Found at i:9910594 original size:21 final size:21
Alignment explanation
Indices: 9910543--9910595 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
9910533 AATTTTTATT
*
9910543 GATGCCTCTATTTTTTTGTAG
1 GATGCCTCTGTTTTTTTGTAG
9910564 GATGCCTCTGTTTTTTTGTAG
1 GATGCCTCTGTTTTTTTGTAG
*
9910585 GATGCTTCTGT
1 GATGCCTCTGT
9910596 CCAAAGTAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.11, C:0.15, G:0.23, T:0.51
Consensus pattern (21 bp):
GATGCCTCTGTTTTTTTGTAG
Found at i:9911802 original size:64 final size:64
Alignment explanation
Indices: 9911727--9911889 Score: 202
Period size: 65 Copynumber: 2.5 Consensus size: 64
9911717 TCGTGCACCA
* * *
9911727 AGTGTGCATCGATGCATGAAATGTATTCGATGTTTGAAAAATAGCCTGA-TGCATCGATGCATGT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCCAGAGTGCATCGATGCATGG
** * **
9911791 CTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCAGAGTGCATCGATGCATGG
* * *
9911856 AGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTT
9911890 CAATTAATTC
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
64 39 0.47
65 44 0.53
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (64 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGG
Found at i:9911861 original size:19 final size:19
Alignment explanation
Indices: 9911837--9911887 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
9911827 GAAAATATTC
9911837 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
9911856 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
9911875 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
9911888 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Done.