Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 62 of 344
Found at i:19978007 original size:99 final size:98
Alignment explanation
Indices: 19977690--19978104 Score: 435
Period size: 99 Copynumber: 4.3 Consensus size: 98
19977680 TAATTTGTGT
* * * * * * *
19977690 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-TTGAGATGAGTGCCAGTGTAAGA-TAT
1 GCCAGTGTAAGACCATGTCTGGGACATGGAATCAGCACGTAAGATGAGAGCTAGTGTAAGACCAT
* * *
19977753 GTCCGGGACAT-GCATCGGCCTT-TA-GATG-TAA
66 GTCTGGGACATGGCATCGG-CTTCGATGAGGAT-A
* * * * * *
19977784 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACG--AGA-CA-TG-TCAGTGTAAGATC
1 GCCAGTGTAAGACCATGTCTGGGACATGGAATCAGC-ACGTAAGATGAGAGCT-AGTGTAAGACC
** * * * *
19977842 ATGTCTGGGACATGGCATAAGCATGGAT-ATGCAAGA
64 ATGTCTGGGACATGGCATCGGCTTCGATGA-G-GATA
*
19977878 GCTAGTGTAAGACCATGTCTGGGACATGGAATCAGCACGTAAGTATGAGAGCTAGTGTAAGACCA
1 GCCAGTGTAAGACCATGTCTGGGACATGGAATCAGCACGTAAG-ATGAGAGCTAGTGTAAGACCA
19977943 TGTCTGGGACATGGCATCGGCTTCGATGAGGATA
65 TGTCTGGGACATGGCATCGGCTTCGATGAGGATA
*
19977977 GCCAGTGTAAGACCATGTCTGGGACATGGAATTAGCACGTAAGTATGAGAGCTAGTGTAAGACCA
1 GCCAGTGTAAGACCATGTCTGGGACATGGAATCAGCACGTAAG-ATGAGAGCTAGTGTAAGACCA
*
19978042 TGTCTGGGACATGGCATCGGCTTCGATAAGGATA
65 TGTCTGGGACATGGCATCGGCTTCGATGAGGATA
19978076 GCCAGTGTAAGACCATGTCTGGGACATGG
1 GCCAGTGTAAGACCATGTCTGGGACATGG
19978105 CATCGGCAAC
Statistics
Matches: 275, Mismatches: 27, Indels: 33
0.82 0.08 0.10
Matches are distributed among these distances:
90 11 0.04
91 15 0.05
92 18 0.07
93 15 0.05
94 24 0.09
95 17 0.06
96 6 0.02
97 2 0.01
98 1 0.00
99 128 0.47
100 36 0.13
101 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (98 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGAATCAGCACGTAAGATGAGAGCTAGTGTAAGACCAT
GTCTGGGACATGGCATCGGCTTCGATGAGGATA
Found at i:19987700 original size:27 final size:27
Alignment explanation
Indices: 19987670--19987884 Score: 252
Period size: 27 Copynumber: 8.0 Consensus size: 27
19987660 ACAGTCATTT
* * *
19987670 TACCCCACAAGGGTATCTCGGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
*
19987697 TACCCTACAGGGGTATTTCGGTATTTC
1 TACCCTACAGGGGTATTTCGGTAATTC
* *
19987724 TACCCTACAAGGGTATTTTGGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
* * *
19987751 TACCCTATAGGGGTATTTCAGTATTTC
1 TACCCTACAGGGGTATTTCGGTAATTC
* *
19987778 TACCCTACAAGGGTATTTCGGTAACTC
1 TACCCTACAGGGGTATTTCGGTAATTC
*
19987805 TACCCTACAGGGGTATTTCAGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
* * *
19987832 TACCCTACAGGGGTATTTTGATAATTT
1 TACCCTACAGGGGTATTTCGGTAATTC
** *
19987859 TA-CAAACTAGGGGTATTTTGGTAATT
1 TACCCTAC-AGGGGTATTTCGGTAATT
19987885 TTACAAGTTG
Statistics
Matches: 160, Mismatches: 27, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 3 0.02
27 157 0.98
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
TACCCTACAGGGGTATTTCGGTAATTC
Found at i:19987752 original size:54 final size:54
Alignment explanation
Indices: 19987661--19987849 Score: 290
Period size: 54 Copynumber: 3.5 Consensus size: 54
19987651 AAGGGCAAAA
* *
19987661 CAGTCATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTT
1 CAGT-ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
* * *
19987715 CGGTATTTCTACCCTACAAGGGTATTTTGGTAATTCTACCCTATAGGGGTATTT
1 CAGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
*
19987769 CAGTATTTCTACCCTACAAGGGTATTTCGGTAACTCTACCCTACAGGGGTATTT
1 CAGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
* *
19987823 CAGTAATTCTACCCTACAGGGGTATTT
1 CAGTATTTCTACCCTACAAGGGTATTT
19987850 TGATAATTTT
Statistics
Matches: 123, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
53 4 0.03
54 119 0.97
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (54 bp):
CAGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
Found at i:19987871 original size:54 final size:55
Alignment explanation
Indices: 19987661--19987876 Score: 280
Period size: 54 Copynumber: 4.0 Consensus size: 55
19987651 AAGGGCAAAA
* * *
19987661 CAGTCATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCCTAC-AGGGGTATTT
1 CAGT-ATTTCTACCCTACAAGGGTATTTTGGTAATTCTACCCTACTAGGGGTATTT
*
19987715 CGGTATTTCTACCCTACAAGGGTATTTTGGTAATTCTACCCTA-TAGGGGTATTT
1 CAGTATTTCTACCCTACAAGGGTATTTTGGTAATTCTACCCTACTAGGGGTATTT
* *
19987769 CAGTATTTCTACCCTACAAGGGTATTTCGGTAACTCTACCCTAC-AGGGGTATTT
1 CAGTATTTCTACCCTACAAGGGTATTTTGGTAATTCTACCCTACTAGGGGTATTT
* * * * **
19987823 CAGTAATTCTACCCTACAGGGGTATTTTGATAATTTTA-CAAACTAGGGGTATTT
1 CAGTATTTCTACCCTACAAGGGTATTTTGGTAATTCTACCCTACTAGGGGTATTT
19987877 TGGTAATTTT
Statistics
Matches: 143, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
53 7 0.05
54 136 0.95
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (55 bp):
CAGTATTTCTACCCTACAAGGGTATTTTGGTAATTCTACCCTACTAGGGGTATTT
Found at i:19989251 original size:27 final size:27
Alignment explanation
Indices: 19989221--19989291 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
19989211 CTGTCCCAGC
* *
19989221 GGACTATTTTGTGTTTAATGTCTCGTT
1 GGACTATCTTGTGTTTAATGTCTCATT
* *
19989248 GGACCATCTTATGTTTAATGTCTCATT
1 GGACTATCTTGTGTTTAATGTCTCATT
*
19989275 AGACTATCTTGTGTTTA
1 GGACTATCTTGTGTTTA
19989292 GTGCCCTGAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.20, C:0.14, G:0.18, T:0.48
Consensus pattern (27 bp):
GGACTATCTTGTGTTTAATGTCTCATT
Found at i:19989528 original size:74 final size:74
Alignment explanation
Indices: 19989325--19989544 Score: 259
Period size: 74 Copynumber: 3.0 Consensus size: 74
19989315 TGTTGTAACA
* *
19989325 TCTTTCAGCTATGGTCTTACACAATATAACCCCGTGTTT-TCTGTTTC--AATGAACTATCAAAG
1 TCTTTCAGCTATGGTCTTACACAATATAACCCTGTGTTTAT-TGTCTCGGAA-G-ACTATCAAAG
*
19989387 GATGCCATAACG
63 GATGCCATAGCG
* * * * ** *
19989399 TCTTTCAACTATGGTCTTACATAATATAA-CCTAGTGTTTACTGTCCCGGTGGACTATCAAAGAA
1 TCTTTCAGCTATGGTCTTACACAATATAACCCT-GTGTTTATTGTCTCGGAAGACTATCAAAGGA
19989463 TGCCATAGCG
65 TGCCATAGCG
* *
19989473 TCTTTTAGCTATGGTCTTACACAATATAACCCTGTGTTTATTGTCTCGGCAGACTATCAAAGGAT
1 TCTTTCAGCTATGGTCTTACACAATATAACCCTGTGTTTATTGTCTCGGAAGACTATCAAAGGAT
*
19989538 GTCATAG
66 GCCATAG
19989545 TACCTTTCAG
Statistics
Matches: 122, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
73 2 0.02
74 116 0.95
75 4 0.03
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (74 bp):
TCTTTCAGCTATGGTCTTACACAATATAACCCTGTGTTTATTGTCTCGGAAGACTATCAAAGGAT
GCCATAGCG
Found at i:19992804 original size:22 final size:22
Alignment explanation
Indices: 19992757--19992806 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
19992747 CAATAACAAC
* *
19992757 AAAATAGTAGCAACATAATAGT
1 AAAATAGTAGCAAAATAAGAGT
*
19992779 AAAATGGTAGCAAAATAAGGAG-
1 AAAATAGTAGCAAAATAA-GAGT
19992801 AAAATA
1 AAAATA
19992807 ACAAGAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 21 0.91
23 2 0.09
ACGTcount: A:0.58, C:0.06, G:0.18, T:0.18
Consensus pattern (22 bp):
AAAATAGTAGCAAAATAAGAGT
Found at i:19997732 original size:47 final size:47
Alignment explanation
Indices: 19997674--19997803 Score: 138
Period size: 47 Copynumber: 2.8 Consensus size: 47
19997664 GTGTGAATAA
* * * *
19997674 TACCTTGATTTGGCTATGAG-AAGGGGTATAGGTACTCTGGGATAAGT
1 TACCTTGATTTGGCTACGAGCAA-GGGTATAGGTACTCCGAGATAAAT
* * * *
19997721 TATCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGAGATAAAT
1 TACCTTGATTTGGCTACGAGCAAGGGTATAGGTACTCCGAGATAAAT
* *
19997768 TACCTTGATTTGGCTAC-AGGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTACGA-GCAAGGGTATAGGTACT
19997804 TATCAATTGA
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
47 70 0.99
48 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGAGCAAGGGTATAGGTACTCCGAGATAAAT
Found at i:20009826 original size:17 final size:17
Alignment explanation
Indices: 20009804--20009836 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
20009794 GTTAATAATA
20009804 GTTAACAGAATTGGATG
1 GTTAACAGAATTGGATG
*
20009821 GTTAACATAATTGGAT
1 GTTAACAGAATTGGAT
20009837 AAAAATAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.06, G:0.24, T:0.33
Consensus pattern (17 bp):
GTTAACAGAATTGGATG
Found at i:20022925 original size:21 final size:21
Alignment explanation
Indices: 20022901--20022964 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
20022891 GGCCTTTAAG
20022901 CAATAAGAATAACTCTTAAAA
1 CAATAAGAATAACTCTTAAAA
** *
20022922 CAATACTCAA-AA---TT-AAG
1 CAATA-AGAATAACTCTTAAAA
20022939 CAATAAGAATAACTCTTAAAA
1 CAATAAGAATAACTCTTAAAA
20022960 CAATA
1 CAATA
20022965 CTCAAAATTT
Statistics
Matches: 31, Mismatches: 6, Indels: 12
0.63 0.12 0.24
Matches are distributed among these distances:
16 2 0.06
17 9 0.29
18 2 0.06
20 2 0.06
21 14 0.45
22 2 0.06
ACGTcount: A:0.56, C:0.16, G:0.05, T:0.23
Consensus pattern (21 bp):
CAATAAGAATAACTCTTAAAA
Found at i:20022939 original size:38 final size:38
Alignment explanation
Indices: 20022896--20022973 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
20022886 ATAGTGGCCT
20022896 TTAAGCAATAAGAATAACTCTTAAAACAATACTCAAAA
1 TTAAGCAATAAGAATAACTCTTAAAACAATACTCAAAA
20022934 TTAAGCAATAAGAATAACTCTTAAAACAATACTCAAAA
1 TTAAGCAATAAGAATAACTCTTAAAACAATACTCAAAA
20022972 TT
1 TT
20022974 TCTAATGAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.54, C:0.15, G:0.05, T:0.26
Consensus pattern (38 bp):
TTAAGCAATAAGAATAACTCTTAAAACAATACTCAAAA
Found at i:20025246 original size:33 final size:33
Alignment explanation
Indices: 20025209--20025276 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
20025199 GTCTTACTAT
20025209 TTCAGTTAATATAAAATTAACCACCCTATTAAG
1 TTCAGTTAATATAAAATTAACCACCCTATTAAG
* *
20025242 TTCAGTTAATATAAAGTTAACCACCCTGTTAAG
1 TTCAGTTAATATAAAATTAACCACCCTATTAAG
20025275 TT
1 TT
20025277 TTAGATTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.35
Consensus pattern (33 bp):
TTCAGTTAATATAAAATTAACCACCCTATTAAG
Found at i:20028896 original size:29 final size:29
Alignment explanation
Indices: 20028833--20028914 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 29
20028823 TATTGTTTTA
20028833 GAAAAAATAAATTTGACAAGATGGGATAT
1 GAAAAAATAAATTTGACAAGATGGGATAT
* ** * * *
20028862 GCAAAAATAAATTTGACGTGATGTGTTCT
1 GAAAAAATAAATTTGACAAGATGGGATAT
* * *
20028891 GAAAAAATTATTTTGATAAGATGG
1 GAAAAAATAAATTTGACAAGATGG
20028915 ATTTTATTTT
Statistics
Matches: 40, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.44, C:0.05, G:0.21, T:0.30
Consensus pattern (29 bp):
GAAAAAATAAATTTGACAAGATGGGATAT
Found at i:20030501 original size:13 final size:13
Alignment explanation
Indices: 20030483--20030508 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
20030473 GCTCAACAGG
20030483 GACACGCCCGTGT
1 GACACGCCCGTGT
20030496 GACACGCCCGTGT
1 GACACGCCCGTGT
20030509 TCAATTACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:20036073 original size:10 final size:10
Alignment explanation
Indices: 20036058--20036088 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
20036048 AAATATCTAG
20036058 ATTTCTCTTC
1 ATTTCTCTTC
20036068 ATTTCTCTTC
1 ATTTCTCTTC
20036078 ATTTCTCTTC
1 ATTTCTCTTC
20036088 A
1 A
20036089 ACTCCAGCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.13, C:0.29, G:0.00, T:0.58
Consensus pattern (10 bp):
ATTTCTCTTC
Found at i:20038368 original size:14 final size:14
Alignment explanation
Indices: 20038345--20038374 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
20038335 TTGAAAATAT
20038345 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
20038359 GTTGATTTGGATTG
1 GTTGAATTGGATTG
20038373 GT
1 GT
20038375 CTCGATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:20040674 original size:37 final size:37
Alignment explanation
Indices: 20040624--20040768 Score: 236
Period size: 37 Copynumber: 3.9 Consensus size: 37
20040614 ACCTTTAGCT
* * *
20040624 CGGACGAAATCTCCACACGAAGTTATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
20040661 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
*
20040698 CGGGCAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
* *
20040735 CGGACATACTCTCCACACGTAGTCATCGGGTCTT
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTT
20040769 TAGAGCTCAG
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 101 1.00
ACGTcount: A:0.25, C:0.32, G:0.21, T:0.23
Consensus pattern (37 bp):
CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
Found at i:20040958 original size:47 final size:47
Alignment explanation
Indices: 20040887--20041200 Score: 504
Period size: 47 Copynumber: 6.6 Consensus size: 47
20040877 CCCTTCGGGA
* * * * *
20040887 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCACTCGGTC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG-C
*
20040935 C-TATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
20040981 CTTACCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
20041028 CTTATCACATATATACACTTTCACATTCATCACATCGACTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
20041075 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20041122 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20041169 CTTATCACATATATATACACTTTCACATTCAT
1 CTTATCAC--ATATATACACTTTCACATTCAT
20041201 TCAAATATAC
Statistics
Matches: 250, Mismatches: 13, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
46 2 0.01
47 225 0.90
48 1 0.00
49 22 0.09
ACGTcount: A:0.30, C:0.29, G:0.07, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:20056245 original size:55 final size:55
Alignment explanation
Indices: 20056127--20056248 Score: 138
Period size: 55 Copynumber: 2.2 Consensus size: 55
20056117 TATGTAGGCC
* * *** * *
20056127 CACGCCCGTGTTAATTTGACAAGTTCGCCCATGGTTGCTCGGCACGGGCGTGTCG
1 CACGCCCGTGTTAATTTGACAAGTTCGCCCACGGTTGCTCGGCACAGAAATCTCA
* * *
20056182 CACACCCGTGTTAATTTGACAAGTTCGGCCACGGTTTC-CAGGCACAGAAATCTCA
1 CACGCCCGTGTTAATTTGACAAGTTCGCCCACGGTTGCTC-GGCACAGAAATCTCA
20056237 CACGCCCGTGTT
1 CACGCCCGTGTT
20056249 GTTTTGGTAG
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
54 1 0.02
55 54 0.98
ACGTcount: A:0.20, C:0.30, G:0.25, T:0.25
Consensus pattern (55 bp):
CACGCCCGTGTTAATTTGACAAGTTCGCCCACGGTTGCTCGGCACAGAAATCTCA
Found at i:20072752 original size:20 final size:20
Alignment explanation
Indices: 20072727--20072775 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
20072717 CGTAATAGTG
*
20072727 TTTTTATTATTTTATTATTA
1 TTTTTATTATTTTATTACTA
*
20072747 TTTTTACCT-TTTTATTACTA
1 TTTTTA-TTATTTTATTACTA
*
20072767 TTATTATTA
1 TTTTTATTA
20072776 ACCTACTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
19 1 0.04
20 21 0.91
21 1 0.04
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTTTATTATTTTATTACTA
Found at i:20072853 original size:3 final size:3
Alignment explanation
Indices: 20072847--20072999 Score: 61
Period size: 3 Copynumber: 50.7 Consensus size: 3
20072837 TTAGAACGTA
* * *
20072847 TAT TAT TAT TAAT GTAT CAT TGT TAT TTT CTAT T-T TAT TAT TACT T-T
1 TAT TAT TAT T-AT -TAT TAT TAT TAT TAT -TAT TAT TAT TAT TA-T TAT
* * *
20072894 TAT TAC TAT TGT T-T CTAT TAT TAT TAT T-T TCAT TACT T-C TAT TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT T-AT TA-T TAT TAT TAT
* * * * * *
20072939 TAT TAT CAT TAT TTT CTAT TAT CAT TAA TA- TGT TGT T-T GT-T TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
20072983 TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
20073000 ACACTATTAT
Statistics
Matches: 115, Mismatches: 19, Indels: 32
0.69 0.11 0.19
Matches are distributed among these distances:
2 11 0.10
3 88 0.77
4 15 0.13
5 1 0.01
ACGTcount: A:0.26, C:0.07, G:0.04, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:20072936 original size:21 final size:22
Alignment explanation
Indices: 20072912--20072965 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
20072902 TTGTTTCTAT
*
20072912 TATTATTATTTTCATTA-CTTC
1 TATTATTATTATCATTATCTTC
*
20072933 TATTATTATTATCATTATTTTC
1 TATTATTATTATCATTATCTTC
*
20072955 TATTATCATTA
1 TATTATTATTA
20072966 ATATGTTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 16 0.55
22 13 0.45
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.61
Consensus pattern (22 bp):
TATTATTATTATCATTATCTTC
Found at i:20072943 original size:30 final size:30
Alignment explanation
Indices: 20072877--20072959 Score: 84
Period size: 30 Copynumber: 2.8 Consensus size: 30
20072867 TGTTATTTTC
*
20072877 TATT-TTATTATTACTTTT-ATTACTATTGT
1 TATTATTATTATTA-TTTTCATTACTATTAT
20072906 T-TCTATTATTATTATTTTCATTACT-TCTAT
1 TAT-TATTATTATTATTTTCATTACTAT-TAT
*
20072936 TATTATTATCATTATTTTCTATTA
1 TATTATTATTATTATTTTC-ATTA
20072960 TCATTAATAT
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
28 1 0.02
29 7 0.15
30 33 0.72
31 5 0.11
ACGTcount: A:0.25, C:0.10, G:0.01, T:0.64
Consensus pattern (30 bp):
TATTATTATTATTATTTTCATTACTATTAT
Found at i:20073062 original size:22 final size:21
Alignment explanation
Indices: 20073034--20073079 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
20073024 CTTTTTTAAA
*
20073034 TATTATTACCATTATATTTTTT
1 TATTATTACCATTAT-TTTTAT
*
20073056 TATTATTACTATTATTTTTAT
1 TATTATTACCATTATTTTTAT
20073077 TAT
1 TAT
20073080 CTGTCCTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (21 bp):
TATTATTACCATTATTTTTAT
Found at i:20073075 original size:18 final size:16
Alignment explanation
Indices: 20073044--20073079 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
20073034 TATTATTACC
20073044 ATTATATTTTTTTATT
1 ATTATATTTTTTTATT
20073060 ATTACTATTATTTTTATT
1 ATTA-TATT-TTTTTATT
20073078 AT
1 AT
20073080 CTGTCCTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.22
17 4 0.22
18 10 0.56
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (16 bp):
ATTATATTTTTTTATT
Found at i:20073462 original size:125 final size:126
Alignment explanation
Indices: 20073240--20073496 Score: 279
Period size: 125 Copynumber: 2.0 Consensus size: 126
20073230 ATTTTTCAAG
* * * * *
20073240 TAAAGGCAATATTCGGTACTTGAAAATTCGAGAAATCGTGTCCTAACGTATTGGGTTTCGATTTT
1 TAAAGACAATATTCCGTACTTGAAAATTCGAGAAATCGTGCCCTAACGTACTGGGTTTCAATTTT
*
20073305 TCGTTTGATCTAAGTAACCGATTATCCTTTT-AAATTAAAATACATGAGTTTTAAATAAAA
66 TCGTTTGATCTAAATAACCGATTATCCTTTTAAAATTAAAATACATGAGTTTTAAATAAAA
* * * * *
20073365 TAAAGACAATATTCCGTA-TTTAGAAATTCGAGTAGTCGTGCCCTGATGTACTGGGTTTCAA-TT
1 TAAAGACAATATTCCGTACTTGA-AAATTCGAGAAATCGTGCCCTAACGTACTGGGTTTCAATTT
* ** * *
20073428 TTCTGTTTGATCTAAATATCCAGA-TATTTTTTTAAAAAAAATTTAAATACATGAGTTTTAAATG
65 TTC-GTTTGATCTAAATAACC-GATTATCCTTTT----AAAATTAAAATACATGAGTTTTAAATA
20073492 AAA
124 AAA
20073495 TA
1 TA
20073497 GAAGGCAAGC
Statistics
Matches: 108, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
124 8 0.07
125 69 0.64
126 2 0.02
130 29 0.27
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (126 bp):
TAAAGACAATATTCCGTACTTGAAAATTCGAGAAATCGTGCCCTAACGTACTGGGTTTCAATTTT
TCGTTTGATCTAAATAACCGATTATCCTTTTAAAATTAAAATACATGAGTTTTAAATAAAA
Found at i:20074983 original size:19 final size:19
Alignment explanation
Indices: 20074959--20075004 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
20074949 CATTCTTTCT
*
20074959 TTTGCATT-CATTCCATGCA
1 TTTGCATTGCATTACAT-CA
*
20074978 TTTGCATTGCATTACATTA
1 TTTGCATTGCATTACATCA
20074997 TTTGCATT
1 TTTGCATT
20075005 AGATTTTCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.48
Consensus pattern (19 bp):
TTTGCATTGCATTACATCA
Found at i:20086629 original size:65 final size:65
Alignment explanation
Indices: 20086527--20086648 Score: 147
Period size: 65 Copynumber: 1.9 Consensus size: 65
20086517 ATTGAATTTA
* *
20086527 CTATTTTTGATTACTTTATTCGTTTCAAGATACGCTCCTAATAAATTTCCTTCTTATTGTAGTTG
1 CTATCTTTGATTACTTTATTCGTTTCAAGATACGCTCCAAATAAATTTCCTTCTTATTGTAGTTG
* * * * * * *
20086592 CTATCTTTGATTAAC-TTATTTGTTTCGAGCTATGCTCCAAATTATTTTCTTTCTTAT
1 CTATCTTTGATT-ACTTTATTCGTTTCAAGATACGCTCCAAATAAATTTCCTTCTTAT
20086649 CCATTGTTAT
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
65 45 0.96
66 2 0.04
ACGTcount: A:0.22, C:0.17, G:0.10, T:0.51
Consensus pattern (65 bp):
CTATCTTTGATTACTTTATTCGTTTCAAGATACGCTCCAAATAAATTTCCTTCTTATTGTAGTTG
Found at i:20087085 original size:46 final size:46
Alignment explanation
Indices: 20087031--20087118 Score: 149
Period size: 46 Copynumber: 1.9 Consensus size: 46
20087021 TGAAGAAGCA
*
20087031 ACAAATCCTATACCCCTGAGTTGCAGTGGGATAGATTGAAGATGGT
1 ACAAATCCTATACCCCTGAGTTGCAGTGGGATAGATAGAAGATGGT
* *
20087077 ACAAATCCTATACCCCTTAGTTGCAGTGGGATGGATAGAAGA
1 ACAAATCCTATACCCCTGAGTTGCAGTGGGATAGATAGAAGA
20087119 AACCACAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (46 bp):
ACAAATCCTATACCCCTGAGTTGCAGTGGGATAGATAGAAGATGGT
Found at i:20087127 original size:46 final size:46
Alignment explanation
Indices: 20087022--20087128 Score: 142
Period size: 46 Copynumber: 2.3 Consensus size: 46
20087012 TCAATTGATT
*
20087022 GAAGAAGCAACAAATCCTATACCCCTGAGTTGCAGTGGGATAGATT
1 GAAGAAGCAACAAATCCTATACCCCTGAGTTGCAGTGGGATAGATA
* ** * *
20087068 GAAGATGGTACAAATCCTATACCCCTTAGTTGCAGTGGGATGGATA
1 GAAGAAGCAACAAATCCTATACCCCTGAGTTGCAGTGGGATAGATA
* *
20087114 GAAGAAACCACAAAT
1 GAAGAAGCAACAAAT
20087129 TTTATCTCAT
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 51 1.00
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.21
Consensus pattern (46 bp):
GAAGAAGCAACAAATCCTATACCCCTGAGTTGCAGTGGGATAGATA
Found at i:20087561 original size:44 final size:43
Alignment explanation
Indices: 20087513--20087630 Score: 119
Period size: 44 Copynumber: 2.7 Consensus size: 43
20087503 GATGGCAAAT
* * * * *
20087513 CTTATCTCTATGTAGTGGCAATGGAGCAGATTTAAGCCACCAGC
1 CTTATCTCT-TGAAGTTGCAATGGAGCAGATTCAAGACACAAGC
* * * *
20087557 CTTATCTACTTGAAGTTGCAGTGGAGCAGGTTCAAGATACAAGT
1 CTTATCT-CTTGAAGTTGCAATGGAGCAGATTCAAGACACAAGC
*
20087601 CTTATCTCCCTGAAGTTGCAATGGAGCAGA
1 CTTATCT-CTTGAAGTTGCAATGGAGCAGA
20087631 CTGAAAATTA
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
44 58 0.97
45 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (43 bp):
CTTATCTCTTGAAGTTGCAATGGAGCAGATTCAAGACACAAGC
Found at i:20087741 original size:88 final size:87
Alignment explanation
Indices: 20087469--20087746 Score: 263
Period size: 88 Copynumber: 3.1 Consensus size: 87
20087459 ATTCACAGAT
* *
20087469 CTTATCTCCCTAAGCAGTAGTGGAGCAAATCAAAGATGGCAAATCTTATCTCTATGTAGTGGCAA
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATC-AAGATGGAAAATCTTATCTCTATGTAGTGGCAA
*
20087534 TGGAGCAGATTTAAGCCACCAGC
65 TGGAGCAAATTTAAGCCACCAGC
* * ** * * * ** * *
20087557 CTTATCTACTTGAAGTTGCAGTGGAGCAGGTTCAAGAT--ACAAGTCTTATCTCCCTGAAGTTGC
1 CTTATCTCCCT-AAGCAGTAGTGGAGCA-GATCAAGATGGA-AAATCTTATCTCTATGTAGTGGC
* ** *** * **
20087620 AATGGAGCAGACTGAAAATTACAAAT
63 AATGGAGCA-AATTTAAGCCACCAGC
* *
20087646 CTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGATGGAAAATCTTATCTCTATGTAGCGGCAA
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATC-AAGATGGAAAATCTTATCTCTATGTAGTGGCAA
20087711 TGGAGCAAATTTAAGCCACCAGC
65 TGGAGCAAATTTAAGCCACCAGC
20087734 CTTATCTCCCTAA
1 CTTATCTCCCTAA
20087747 AGTTGCAGTG
Statistics
Matches: 138, Mismatches: 45, Indels: 14
0.70 0.23 0.07
Matches are distributed among these distances:
87 3 0.02
88 73 0.53
89 59 0.43
90 3 0.02
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (87 bp):
CTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAGATGGAAAATCTTATCTCTATGTAGTGGCAAT
GGAGCAAATTTAAGCCACCAGC
Found at i:20087805 original size:177 final size:178
Alignment explanation
Indices: 20087458--20087807 Score: 488
Period size: 177 Copynumber: 2.0 Consensus size: 178
20087448 AACATCGGTG
* * *
20087458 AATTCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCAAAGATGGCAAATCTTATCTCTA
1 AATTCACAAATCTTATCTCCCTAAGCAATAGTGGAGCAAATCAAAGATGGAAAATCTTATCTCTA
* * * * **
20087523 TGTAGTGGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTACTTGAAGTTGCAGTGGAGCAGGT
66 TGTAGCGGCAATGGAGCAAATTTAAGCCACCAGCCTTATCTACCTAAAGTTGCAGTGGAGCAGAC
* **
20087588 TCAAGATACAAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAA
131 TCAAAATACAAGTCTTATCTCCCTGAAGCAGCAATGGAGCAGACTGAA
* *
20087636 AATT-ACAAATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGATGGAAAATCTTATCTCTA
1 AATTCACAAATCTTATCTCCCTAAGCAATAGTGGAGCAAATCAAAGATGGAAAATCTTATCTCTA
*
20087700 TGTAGCGGCAATGGAGCAAATTTAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGTGGAGCAGAC
66 TGTAGCGGCAATGGAGCAAATTTAAGCCACCAGCCTTATCTACCTAAAGTTGCAGTGGAGCAGAC
* *** * *
20087765 TGAAAATTGTAGATCTTATCTCCCT-AAGCAGTAGTGGAGCAGA
131 TCAAAATACAAG-TCTTATCTCCCTGAAGCAGCAATGGAGCAGA
20087808 TCGAAGACGA
Statistics
Matches: 150, Mismatches: 21, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
177 134 0.89
178 16 0.11
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.26
Consensus pattern (178 bp):
AATTCACAAATCTTATCTCCCTAAGCAATAGTGGAGCAAATCAAAGATGGAAAATCTTATCTCTA
TGTAGCGGCAATGGAGCAAATTTAAGCCACCAGCCTTATCTACCTAAAGTTGCAGTGGAGCAGAC
TCAAAATACAAGTCTTATCTCCCTGAAGCAGCAATGGAGCAGACTGAA
Found at i:20087825 original size:44 final size:44
Alignment explanation
Indices: 20087642--20087947 Score: 122
Period size: 44 Copynumber: 6.9 Consensus size: 44
20087632 TGAAAATTAC
** **
20087642 AAATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGATGGA-
1 AAATCTTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAGA-CCAT
** * * * * ** *
20087686 AAATCTTATCTCTATGTAGCGGCAATGGAGCAAATTTAAG-CCAC
1 AAATCTTATCTCCCT-AAGCAGCAGTGGAGCAGATCGAAGACCAT
* ** ** * ***
20087730 CAGCCTTATCTCCCTAAAGTTGCAGTGGAGCAGA-CTGAAAATTGT
1 AAATCTTATCTCCCT-AAGCAGCAGTGGAGCAGATC-GAAGACCAT
* * *
20087775 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAT
1 AAATCTTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAGACCAT
* * * **
20087819 AAATCTTATCTCCATGTAGC-GACAATGGAGCAGATTTAAG-CCACT
1 AAATCTTATCTCCCT-AAGCAG-CAGTGGAGCAGATCGAAGACCA-T
** * * ** *
20087864 -AGCCTTATCTCCCTGAGCAGCAGTGGAGCAG-GCTGAAGATTAC
1 AAATCTTATCTCCCTAAGCAGCAGTGGAGCAGATC-GAAGACCAT
* ** *
20087907 AGATCTTATCTCCCTAAGCAGTGGTGGATCAGATCGAAGAC
1 AAATCTTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAGAC
20087948 AGTGAATCTC
Statistics
Matches: 180, Mismatches: 69, Indels: 26
0.65 0.25 0.09
Matches are distributed among these distances:
43 17 0.09
44 116 0.64
45 47 0.26
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.25
Consensus pattern (44 bp):
AAATCTTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAGACCAT
Found at i:20087874 original size:177 final size:176
Alignment explanation
Indices: 20087513--20087853 Score: 380
Period size: 177 Copynumber: 1.9 Consensus size: 176
20087503 GATGGCAAAT
* * * *
20087513 CTTATCTCTATGTAGTGGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTACTTGAAGTTGCAG
1 CTTATCTCTATGTAGCGGCAATGGAGCAAATTTAAGCCACCAGCCTTATCTACCTAAAGTTGCAG
** * ** **
20087578 TGGAGCAGGTTCAAGATACAAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAAATTACA
66 TGGAGCAGACTCAAAATACAAGTCTTATCTCCCTGAAGCAGCAATGGAGCAGACTGAAAACGACA
* * * ** *
20087643 AATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGATGGAAAAT
131 AATCTTATCTCCATAAGCAACAATGGAGCAGATCGAAGA-CCAAAAC
*
20087690 CTTATCTCTATGTAGCGGCAATGGAGCAAATTTAAGCCACCAGCCTTATCTCCCTAAAGTTGCAG
1 CTTATCTCTATGTAGCGGCAATGGAGCAAATTTAAGCCACCAGCCTTATCTACCTAAAGTTGCAG
* *** * * *
20087755 TGGAGCAGACTGAAAATTGTAGATCTTATCTCCCT-AAGCAGTAGTGGAGCAGA-TCGAAGACGA
66 TGGAGCAGACTCAAAATACAAG-TCTTATCTCCCTGAAGCAGCAATGGAGCAGACT-GAAAACGA
* * *
20087818 TAAATCTTATCTCCATGTAGCGACAATGGAGCAGAT
129 CAAATCTTATCTCCAT-AAGCAACAATGGAGCAGAT
20087854 TTAAGCCACT
Statistics
Matches: 136, Mismatches: 25, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
176 1 0.01
177 108 0.79
178 27 0.20
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (176 bp):
CTTATCTCTATGTAGCGGCAATGGAGCAAATTTAAGCCACCAGCCTTATCTACCTAAAGTTGCAG
TGGAGCAGACTCAAAATACAAGTCTTATCTCCCTGAAGCAGCAATGGAGCAGACTGAAAACGACA
AATCTTATCTCCATAAGCAACAATGGAGCAGATCGAAGACCAAAAC
Found at i:20087947 original size:132 final size:131
Alignment explanation
Indices: 20087601--20088339 Score: 762
Period size: 132 Copynumber: 5.6 Consensus size: 131
20087591 AGATACAAGT
** * * * * *
20087601 CTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAAATTACAAATCTTATCTCCCTAAGCAATAG
1 CTTATCTCCCTG-AGCAGCAGTGGAGCAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAG
* * * * * *
20087666 TGGAGCAGATCGAAGATGGA-AAATCTTATCT-CT-ATGTAG-CGGCAATGGAGCAAATTTAAGC
65 TGGAGCAGATCGAAGA-CGATGAATCTTATCTCCTGAGGTAGTAGG----GAAGCAGATTTAAGC
*
20087727 CACCAGC
125 CACTAGC
* ** * * **
20087734 CTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAG
1 CTTATCTCCCT-GAGCAGCAGTGGAGCAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAG
* ** *
20087799 TGGAGCAGATCGAAGACGATAAATCTTATCTCCATGTAGCG-ACAATGG-AGCAGATTTAAGCCA
65 TGGAGCAGATCGAAGACGATGAATCTTATCTCC-TG-AG-GTAGTAGGGAAGCAGATTTAAGCCA
20087862 CTAGC
127 CTAGC
*
20087867 CTTATCTCCCTGAGCAGCAGTGGAGCAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTGGT
1 CTTATCTCCCTGAGCAGCAGTGGAGCAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGT
* * * *
20087932 GGATCAGATCGAAGAC-AGTGAATCTCATCTTCCCGAGGTAGTAGGGAAGTAGATTTAAGCCACT
66 GGAGCAGATCGAAGACGA-TGAATCTTATC-TCCTGAGGTAGTAGGGAAGCAGATTTAAGCCACT
20087996 AGC
129 AGC
* * * * ** *
20087999 CTTAACTCTCTGAGTAGTAGT-GAGCAGGCTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAAT
1 CTTATCTCCCTGAGCAGCAGTGGAGCAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGT
* * *
20088063 GGAGTAGATCGAAGACGGTGAATCTTATCTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACTA
66 GGAGCAGATCGAAGACGATGAATCTTATC-TCCTGAGGTAGTAGGGAAGCAGATTTAAGCCACTA
20088128 GC
130 GC
* * *
20088130 CTTATCTCCCTGAGCAACAGTGGAGCTGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGCAGT
1 CTTATCTCCCTGAGCAGCAGTGGAGCAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGT
* * * * *
20088195 GGAACAGATCGAAGA-TAGCGAATCTTATTTTCCTGGGGTAGTAGGGAAGCAGATTTAAGCCACT
66 GGAGCAGATCGAAGACGA-TGAATCTTA-TCTCCTGAGGTAGTAGGGAAGCAGATTTAAGCCACT
20088259 AGC
129 AGC
* * * * **
20088262 TTTATCTCTCTGAGCACCAGT-GAGCAGGCCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGC
1 CTTATCTCCCTGAGCAGCAGTGGAGCAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAG-
*
20088326 T-GAGTAGATCGAAG
65 TGGAGCAGATCGAAG
20088340 CTAAAAATCT
Statistics
Matches: 519, Mismatches: 70, Indels: 36
0.83 0.11 0.06
Matches are distributed among these distances:
130 1 0.00
131 171 0.33
132 222 0.43
133 118 0.23
134 2 0.00
135 1 0.00
137 2 0.00
138 2 0.00
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (131 bp):
CTTATCTCCCTGAGCAGCAGTGGAGCAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGT
GGAGCAGATCGAAGACGATGAATCTTATCTCCTGAGGTAGTAGGGAAGCAGATTTAAGCCACTAG
C
Found at i:20088072 original size:131 final size:132
Alignment explanation
Indices: 20087714--20088339 Score: 773
Period size: 132 Copynumber: 4.8 Consensus size: 132
20087704 GCGGCAATGG
* * * ** * *
20087714 AGCAAATTTAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAAATTGTAGAT
1 AGCAGATTTAAGCCACTAGCCTTATCTCCCT-GAGCAGCAGTGGAGCAGGCTGAAGATTGTAGAT
* * *
20087779 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC-GATAAATCTTATC-TCCATGTAGCG-A
65 CTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACAG-TGAATCTTATCTTCC-CG-AG-GTA
** *
20087841 CAATGG-
126 GTAGGGA
**
20087847 AGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAGCAGTGGAGCAGGCTGAAGATTACAGATC
1 AGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAGCAGTGGAGCAGGCTGAAGATTGTAGATC
* *
20087912 TTATCTCCCTAAGCAGTGGTGGA-TCAGATCGAAGACAGTGAATCTCATCTTCCCGAGGTAGTAG
66 TTATCTCCCTAAGCAGTAGTGGAGT-AGATCGAAGACAGTGAATCTTATCTTCCCGAGGTAGTAG
20087976 GGA
130 GGA
* * * * *
20087979 AGTAGATTTAAGCCACTAGCCTTAACTCTCTGAGTAGTAGT-GAGCAGGCTGAAGATTGTAGATC
1 AGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAGCAGTGGAGCAGGCTGAAGATTGTAGATC
* *
20088043 TTATCTCCCTAAGCAGTAATGGAGTAGATCGAAGACGGTGAATCTTATCTTCCCGAGGTAGTAGG
66 TTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACAGTGAATCTTATCTTCCCGAGGTAGTAGG
20088108 GA
131 GA
* * **
20088110 AGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAACAGTGGAGCTGGCTGAAGATTACAGATC
1 AGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAGCAGTGGAGCAGGCTGAAGATTGTAGATC
* ** * * * * *
20088175 TTATCTCCCTAAGCAGCAGTGGAACAGATCGAAGATAGCGAATCTTATTTTCCTGGGGTAGTAGG
66 TTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACAGTGAATCTTATCTTCCCGAGGTAGTAGG
20088240 GA
131 GA
* * * *
20088242 AGCAGATTTAAGCCACTAGCTTTATCTCTCTGAGCACCAGT-GAGCAGGCCGAAGATTGTAGATC
1 AGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAGCAGTGGAGCAGGCTGAAGATTGTAGATC
20088306 TTATCTCCCTAAGCAGTAGCT-GAGTAGATCGAAG
66 TTATCTCCCTAAGCAGTAG-TGGAGTAGATCGAAG
20088340 CTAAAAATCT
Statistics
Matches: 428, Mismatches: 57, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
130 1 0.00
131 171 0.40
132 223 0.52
133 33 0.08
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.25
Consensus pattern (132 bp):
AGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAGCAGTGGAGCAGGCTGAAGATTGTAGATC
TTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACAGTGAATCTTATCTTCCCGAGGTAGTAGG
GA
Found at i:20088116 original size:263 final size:263
Alignment explanation
Indices: 20087714--20088339 Score: 864
Period size: 263 Copynumber: 2.4 Consensus size: 263
20087704 GCGGCAATGG
* * * * * * *
20087714 AGCAAATTTAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAAATTGTAGAT
1 AGCAGATTTAAGCCACTAGCCTTATCTCTCT-GAGTAGCAGT-GAGCAGGCTGAAGATTGTAGAT
* * *
20087779 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGATAAATCTTATCTCCATGTAGCGACAA
64 CTTATCTCCCTAAGCAGTAATGGAGTAGATCGAAGACGATAAATCTTATCTCCACGTAGCGACAA
* *
20087844 TGGAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAGCAGTGGAGCAGGCTGAAGATTACAG
129 GGGAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAACAGTGGAGCAGGCTGAAGATTACAG
** * *
20087909 ATCTTATCTCCCTAAGCAGTGGTGGATCAGATCGAAGACAGTGAATCTCATCTTCCCGAGGTAGT
194 ATCTTATCTCCCTAAGCAGCAGTGGAACAGATCGAAGACAGCGAATCTCATCTTCCCGAGGTAGT
20087974 AGGGA
259 AGGGA
* * *
20087979 AGTAGATTTAAGCCACTAGCCTTAACTCTCTGAGTAGTAGTGAGCAGGCTGAAGATTGTAGATCT
1 AGCAGATTTAAGCCACTAGCCTTATCTCTCTGAGTAGCAGTGAGCAGGCTGAAGATTGTAGATCT
* * **
20088044 TATCTCCCTAAGCAGTAATGGAGTAGATCGAAGACGGTGAATCTTATCTTCC-CG-AG-GTAGTA
66 TATCTCCCTAAGCAGTAATGGAGTAGATCGAAGACGATAAATCTTATC-TCCACGTAGCG-ACAA
*
20088106 GGGAAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAACAGTGGAGCTGGCTGAAGATTACA
129 GGG-AGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAACAGTGGAGCAGGCTGAAGATTACA
* * * * *
20088171 GATCTTATCTCCCTAAGCAGCAGTGGAACAGATCGAAGATAGCGAATCTTATTTTCCTGGGGTAG
193 GATCTTATCTCCCTAAGCAGCAGTGGAACAGATCGAAGACAGCGAATCTCATCTTCCCGAGGTAG
20088236 TAGGGA
258 TAGGGA
* * * *
20088242 AGCAGATTTAAGCCACTAGCTTTATCTCTCTGAGCACCAGTGAGCAGGCCGAAGATTGTAGATCT
1 AGCAGATTTAAGCCACTAGCCTTATCTCTCTGAGTAGCAGTGAGCAGGCTGAAGATTGTAGATCT
*
20088307 TATCTCCCTAAGCAGTAGCT-GAGTAGATCGAAG
66 TATCTCCCTAAGCAGTA-ATGGAGTAGATCGAAG
20088340 CTAAAAATCT
Statistics
Matches: 320, Mismatches: 37, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
261 1 0.00
262 6 0.02
263 276 0.86
264 11 0.03
265 26 0.08
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.25
Consensus pattern (263 bp):
AGCAGATTTAAGCCACTAGCCTTATCTCTCTGAGTAGCAGTGAGCAGGCTGAAGATTGTAGATCT
TATCTCCCTAAGCAGTAATGGAGTAGATCGAAGACGATAAATCTTATCTCCACGTAGCGACAAGG
GAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAACAGTGGAGCAGGCTGAAGATTACAGAT
CTTATCTCCCTAAGCAGCAGTGGAACAGATCGAAGACAGCGAATCTCATCTTCCCGAGGTAGTAG
GGA
Found at i:20088626 original size:25 final size:26
Alignment explanation
Indices: 20088598--20088646 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
20088588 GTCCAATTAA
20088598 CACCCCACTAAACCA-ACTACTAAAC
1 CACCCCACTAAACCACACTACTAAAC
*
20088623 CACCCCACTAAACCACCCTACTAA
1 CACCCCACTAAACCACACTACTAA
20088647 CTCCATCGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.41, C:0.47, G:0.00, T:0.12
Consensus pattern (26 bp):
CACCCCACTAAACCACACTACTAAAC
Found at i:20088634 original size:13 final size:13
Alignment explanation
Indices: 20088598--20088646 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
20088588 GTCCAATTAA
20088598 CACCCCACTAAAC
1 CACCCCACTAAAC
* *
20088611 CA-ACTACTAAAC
1 CACCCCACTAAAC
20088623 CACCCCACTAAAC
1 CACCCCACTAAAC
*
20088636 CACCCTACTAA
1 CACCCCACTAA
20088647 CTCCATCGCC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
12 10 0.33
13 20 0.67
ACGTcount: A:0.41, C:0.47, G:0.00, T:0.12
Consensus pattern (13 bp):
CACCCCACTAAAC
Found at i:20089088 original size:3 final size:3
Alignment explanation
Indices: 20089080--20089546 Score: 94
Period size: 3 Copynumber: 155.3 Consensus size: 3
20089070 GGGGAGAGTG
* * *
20089080 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA GTA CTT- TTA CTG TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
* * * * * * *
20089125 TT- CTA TATA CTA TTA CTG TT- TTC TT- TT- TTA TTA TTA GTA GTA
1 TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * *
20089167 GTAA CGTA ATA GTA TTT TTA TTA TT- TTA TTA TTA TTT TTA CCTTT TTA
1 -TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA --TTA TTA
* * * * * **
20089215 TTA CTA TTA TTA TTAA CCTA CTA TTA TTA TTT TTA TTA ATA -TA GCA
1 TTA TTA TTA TTA TT-A -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * ** *
20089261 TTA TT- TTC TT- TT- TTA -TA TTG TTA TTA TTA TTA GCA CGTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
* * *
20089302 TTA TTA TTA TTAA TGTA TCA TTG TTA TTT TCTA TT- TTA TTA TTA CTT-
1 TTA TTA TTA TT-A T-TA TTA TTA TTA TTA T-TA TTA TTA TTA TTA -TTA
* * *
20089349 TTA TTA CTA TTG TT- TCTA TTA TTA TTA TT- TTCA TTA CTT- TCA TTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TT-A TTA -TTA TTA TTA
* * * * **
20089394 TTA TTA TCA TTA TTT TCTA TTA TCA TTAA TGTG TCG TT- TGT- TTA TTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TT-A T-TA TTA TTA T-TA TTA TTA
* ** * * *
20089441 TTA CTA TTA TTA TTA TTA TTA ACA CTA TTA TCA TCA TTA -TA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
* * * ** *
20089486 CTTT TTT TTA ATA TTA TTA CCA TTA -TA TTT TTA TTA TTA TTA TTA
1 -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
20089531 CTA TTA TTT TTA TTA T
1 TTA TTA TTA TTA TTA T
20089547 CCGTCCTATT
Statistics
Matches: 339, Mismatches: 87, Indels: 76
0.68 0.17 0.15
Matches are distributed among these distances:
2 37 0.11
3 266 0.78
4 31 0.09
5 5 0.01
ACGTcount: A:0.28, C:0.08, G:0.04, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:20089204 original size:20 final size:20
Alignment explanation
Indices: 20089179--20089252 Score: 60
Period size: 20 Copynumber: 3.5 Consensus size: 20
20089169 AACGTAATAG
20089179 TATTTTTATTATTTTATTAT
1 TATTTTTATTATTTTATTAT
* *
20089199 TATTTTTACCT-TTTTATTAC
1 TATTTTTA-TTATTTTATTAT
* **
20089219 TATTATTATTAACCTACTATTAT
1 TATTTTTATT-A--TTTTATTAT
20089242 TATTTTTATTA
1 TATTTTTATTA
20089253 ATATAGCATT
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
19 1 0.02
20 23 0.56
21 1 0.02
22 1 0.02
23 15 0.37
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (20 bp):
TATTTTTATTATTTTATTAT
Found at i:20089665 original size:23 final size:23
Alignment explanation
Indices: 20089639--20089683 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
20089629 ATTCGAATTT
* *
20089639 TCTATGTTATTTCATTTTTTATC
1 TCTATATTATTTCATTTATTATC
*
20089662 TCTATATTATTTTATTTATTAT
1 TCTATATTATTTCATTTATTAT
20089684 TATCTTTGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.22, C:0.09, G:0.02, T:0.67
Consensus pattern (23 bp):
TCTATATTATTTCATTTATTATC
Found at i:20093201 original size:24 final size:24
Alignment explanation
Indices: 20093169--20093217 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
20093159 CAAAGATTGC
*
20093169 GGAGATGTTTGCATCACCCACAAG
1 GGAGATGTTTGAATCACCCACAAG
* * *
20093193 GGAGGTGTTTGAATCCCCCATAAG
1 GGAGATGTTTGAATCACCCACAAG
20093217 G
1 G
20093218 TGATGGGGAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (24 bp):
GGAGATGTTTGAATCACCCACAAG
Found at i:20095816 original size:39 final size:40
Alignment explanation
Indices: 20095748--20095837 Score: 121
Period size: 39 Copynumber: 2.2 Consensus size: 40
20095738 TAAAATGTAT
* *
20095748 TTATATTAAAAAACTCTACCATAATTATAATAAATGTTTTA
1 TTATATTAAAAAACTCTA-CATAAATATAATAAATATTTTA
20095789 TTATATTAAAAAACAT-TA-ATAAATATAATAAATATTTTA
1 TTATATTAAAAAAC-TCTACATAAATATAATAAATATTTTA
*
20095828 TTTTATTAAA
1 TTATATTAAA
20095838 TATAAATTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
39 28 0.62
41 16 0.36
42 1 0.02
ACGTcount: A:0.50, C:0.06, G:0.01, T:0.43
Consensus pattern (40 bp):
TTATATTAAAAAACTCTACATAAATATAATAAATATTTTA
Found at i:20097420 original size:37 final size:37
Alignment explanation
Indices: 20097338--20097428 Score: 119
Period size: 37 Copynumber: 2.5 Consensus size: 37
20097328 ACACAGCTAA
* *
20097338 CCTCTCAAGTCACTTAGTCGAGTAGAAACACTGGTAG
1 CCTCTTAAGTCACTTAGTCGAGTAGAAACACTAGTAG
* * * *
20097375 CTTATTAAGTCACTTAGTCGAGTAGAAATACTATTAG
1 CCTCTTAAGTCACTTAGTCGAGTAGAAACACTAGTAG
*
20097412 CCTCTTAAGTAACTTAG
1 CCTCTTAAGTCACTTAG
20097429 CTAAATATCA
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.31
Consensus pattern (37 bp):
CCTCTTAAGTCACTTAGTCGAGTAGAAACACTAGTAG
Found at i:20098509 original size:19 final size:20
Alignment explanation
Indices: 20098485--20098522 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
20098475 AAATCATACT
20098485 TTATAATAATT-AATTGTAA
1 TTATAATAATTCAATTGTAA
*
20098504 TTATAATTATTCAATTGTA
1 TTATAATAATTCAATTGTA
20098523 TTCTTTGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (20 bp):
TTATAATAATTCAATTGTAA
Found at i:20101122 original size:270 final size:263
Alignment explanation
Indices: 20100496--20101217 Score: 875
Period size: 270 Copynumber: 2.7 Consensus size: 263
20100486 CCCACTTCTA
* * * * * *
20100496 AGAATCAGCCGTTGTGCCTTCACAAATTATTGT-GAAGCTTAGAAATTCACTTTGGGTAGCCAAT
1 AGAATCTGCCATTGTGCATTCACAAATTATT-TAAAAGCTTAGAAATTCACATTGGGTAGCCTAT
* * * * * * *
20100560 TACAACTCTTCCCTATCAAATTCCCATCAAAGGTAAGAGCATAAAGCACAACGGAACCAATAAAT
65 GACAACTCTTCCCTATCAAATCCCCATCAAAGGTAAGGGCAT-AAGCACAATGGAAGCAGTAACT
* * *
20100625 CCTACTTCAGAAAATCTGTCACAGTGCATTCACAAA-TCATTGAAAACCATATTAGGAATTTATA
129 CCTACTTCAGAAAACCTGCCACAGTGCATTCACAAATTCATTGAAAAGC--A-TAGGAATTTATA
* * *
20100689 GTCTATTACGGTTCTTCCCTATCAAATCTCCACCTAATGAAAATGTGTAAAAGCACAGAAAATCC
191 GTCTATCACAGTTCTTCCCTATCAAATCTCCACCTAATGAAAAGGTGTAAAAGCACAGAAAATCC
* **
20100754 TACTTTCG
256 CACTACCG
* * * * *
20100762 AGAGTCTGACATTGTGCTTTCACAAATTATTGAAAAGCTTATG-AATTCACATTGGGTAACCTAT
1 AGAATCTGCCATTGTGCATTCACAAATTATTTAAAAGCTTA-GAAATTCACATTGGGTAGCCTAT
*
20100826 GACAACTCTTCCCTATCAAATCCCCATCAAAGGTAAGGGCATAAGCACAATGGAAGCAGCAACTC
65 GACAACTCTTCCCTATCAAATCCCCATCAAAGGTAAGGGCATAAGCACAATGGAAGCAGTAACTC
* * *
20100891 CTAATTCAGAAAACCTGCCATAGTGCATTCACAAATTC-TTGAAAAGCATAGGAATTTATAGTTT
130 CTACTTCAGAAAACCTGCCACAGTGCATTCACAAATTCATTGAAAAGCATAGGAATTTATAGTCT
* *
20100955 ATCACAGTTCTTCCCTATCAAATCTCCATCT-ATGGCAAAGGTGT-AAAGCACAATCGAACTATT
195 ATCACAGTTCTTCCCTATCAAATCTCCACCTAAT-GAAAAGGTGTAAAAGCAC-A--G----A--
20101018 AAATCCCACTACCG
250 AAATCCCACTACCG
* * * * *
20101032 AGAATCTGCCATTGTGCAGTCACAAATTATTTAAAAGGTTAGAAATTGACATCGGGTAGCTTATG
1 AGAATCTGCCATTGTGCATTCACAAATTATTTAAAAGCTTAGAAATTCACATTGGGTAGCCTATG
*
20101097 ACTACTCTTCCCTATCAAATCCCCATCAAAGGTAAGGGCATAAGCACAATGGAAGCAGTAACTCC
66 ACAACTCTTCCCTATCAAATCCCCATCAAAGGTAAGGGCATAAGCACAATGGAAGCAGTAACTCC
* *
20101162 TACTTCAGAAAACCTGCCAGAGTGCATTCAC--ATTCATTGAAAAGTATAGGAATTTA
131 TACTTCAGAAAACCTGCCACAGTGCATTCACAAATTCATTGAAAAGCATAGGAATTTA
20101218 CATTGTGTAG
Statistics
Matches: 394, Mismatches: 47, Indels: 27
0.84 0.10 0.06
Matches are distributed among these distances:
261 9 0.02
262 52 0.13
263 1 0.00
264 1 0.00
265 57 0.14
266 92 0.23
267 1 0.00
268 5 0.01
269 20 0.05
270 156 0.40
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (263 bp):
AGAATCTGCCATTGTGCATTCACAAATTATTTAAAAGCTTAGAAATTCACATTGGGTAGCCTATG
ACAACTCTTCCCTATCAAATCCCCATCAAAGGTAAGGGCATAAGCACAATGGAAGCAGTAACTCC
TACTTCAGAAAACCTGCCACAGTGCATTCACAAATTCATTGAAAAGCATAGGAATTTATAGTCTA
TCACAGTTCTTCCCTATCAAATCTCCACCTAATGAAAAGGTGTAAAAGCACAGAAAATCCCACTA
CCG
Found at i:20109422 original size:18 final size:18
Alignment explanation
Indices: 20109401--20109436 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
20109391 TTAATTTTAC
20109401 AATTTGAATAACTCGAAT
1 AATTTGAATAACTCGAAT
*
20109419 AATTTGAATAACTTGAAT
1 AATTTGAATAACTCGAAT
20109437 GGCAAACTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.36
Consensus pattern (18 bp):
AATTTGAATAACTCGAAT
Found at i:20111702 original size:8 final size:8
Alignment explanation
Indices: 20111689--20111716 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
20111679 ATATGTGAAA
20111689 AAAAAAAT
1 AAAAAAAT
20111697 AAAAAAAT
1 AAAAAAAT
20111705 AAAAAAAT
1 AAAAAAAT
20111713 AAAA
1 AAAA
20111717 TAAAGAACAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAAAAT
Found at i:20116191 original size:46 final size:46
Alignment explanation
Indices: 20116116--20116373 Score: 358
Period size: 46 Copynumber: 5.6 Consensus size: 46
20116106 TGATGTCATA
* * *
20116116 TATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACTC-ATTTCATGTCATGTTGCCATGG
* **
20116162 TATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACTCA-TTTCATGTCATGTTGCCATGG
20116209 TATCTTTCAACCATGGTCTTACTCATTTCATGTCA-GATTGCCATGG
1 TATCTTTCAACCATGGTCTTACTCATTTCATGTCATG-TTGCCATGG
* * *
20116255 TATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGG
* * *
20116301 TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGG
*
20116347 TATCTTTCAACCATGGTCTTACACATT
1 TATCTTTCAACCATGGTCTTACTCATT
20116374 CCATATCAGA
Statistics
Matches: 195, Mismatches: 13, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
45 1 0.01
46 154 0.79
47 40 0.21
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
TATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGG
Found at i:20121519 original size:21 final size:21
Alignment explanation
Indices: 20121493--20121534 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
20121483 TCAATTTTCA
20121493 ATCAATATACATTCAAATATT
1 ATCAATATACATTCAAATATT
20121514 ATCAATATACATTCAAATATT
1 ATCAATATACATTCAAATATT
20121535 CACATAATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (21 bp):
ATCAATATACATTCAAATATT
Found at i:20125942 original size:69 final size:69
Alignment explanation
Indices: 20125858--20125993 Score: 202
Period size: 69 Copynumber: 2.0 Consensus size: 69
20125848 AACATAGAGG
* **
20125858 TGCTCTGTCATAAAATCGAGATAGTTTTCTTTATTTCTTCAG-TTCTAGATGCGGTGTCGCAACA
1 TGCTCTGTCACAAAATCGAGATAGTTTTCTCAATTTCTT-AGATTCTAGATGCGGTGTCGCAACA
20125922 CGGCA
65 CGGCA
* * *
20125927 TGCTCTGTCACAAAATCGAGATAGTTTTCTCAATTTCTTTGATTCTGGATGCGGTGTTGCAACAC
1 TGCTCTGTCACAAAATCGAGATAGTTTTCTCAATTTCTTAGATTCTAGATGCGGTGTCGCAACAC
20125992 GG
66 GG
20125994 AGATGCCGTG
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
68 1 0.02
69 59 0.98
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (69 bp):
TGCTCTGTCACAAAATCGAGATAGTTTTCTCAATTTCTTAGATTCTAGATGCGGTGTCGCAACAC
GGCA
Found at i:20131646 original size:21 final size:21
Alignment explanation
Indices: 20131620--20131659 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
20131610 TCCTAAATTC
*
20131620 TCAATCCTCAATCTTCAATCT
1 TCAATCCCCAATCTTCAATCT
*
20131641 TCAATCCCCAATTTTCAAT
1 TCAATCCCCAATCTTCAAT
20131660 TTTATATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.33, G:0.00, T:0.38
Consensus pattern (21 bp):
TCAATCCCCAATCTTCAATCT
Found at i:20131659 original size:7 final size:7
Alignment explanation
Indices: 20131649--20131690 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
20131639 CTTCAATCCC
20131649 CAATTTT
1 CAATTTT
20131656 CAATTTT
1 CAATTTT
20131663 -ATATTTT
1 CA-ATTTT
*
20131670 CAATCTT
1 CAATTTT
20131677 CAAATTTT
1 C-AATTTT
20131685 CAATTT
1 CAATTT
20131691 CAAATTTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
6 1 0.03
7 22 0.73
8 7 0.23
ACGTcount: A:0.31, C:0.14, G:0.00, T:0.55
Consensus pattern (7 bp):
CAATTTT
Found at i:20131668 original size:14 final size:14
Alignment explanation
Indices: 20131650--20131697 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
20131640 TTCAATCCCC
*
20131650 AATTTTCAATTTTA
1 AATTTTCAATTTCA
*
20131664 TATTTTCAATCTTCA
1 AATTTTCAAT-TTCA
20131679 AATTTTCAATTTCA
1 AATTTTCAATTTCA
20131693 AATTT
1 AATTT
20131698 GTAATCCTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
14 18 0.60
15 12 0.40
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.54
Consensus pattern (14 bp):
AATTTTCAATTTCA
Found at i:20132978 original size:17 final size:18
Alignment explanation
Indices: 20132947--20132981 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
20132937 AAAAAAAATT
20132947 AAATTCAAAATATTTATA
1 AAATTCAAAATATTTATA
*
20132965 AAATTCCAAA-ATTTATA
1 AAATTCAAAATATTTATA
20132982 TTTTTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (18 bp):
AAATTCAAAATATTTATA
Found at i:20133168 original size:16 final size:16
Alignment explanation
Indices: 20133149--20133179 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20133139 TTAAAAAAGT
20133149 TTTCAAATATATATGG
1 TTTCAAATATATATGG
*
20133165 TTTCAAATTTATATG
1 TTTCAAATATATATG
20133180 CTCTAATATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATATGG
Found at i:20145004 original size:22 final size:23
Alignment explanation
Indices: 20144979--20145024 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
20144969 AGCATTTATT
20144979 TATTTTTTAT-ATTTTTTAAAAA
1 TATTTTTTATAATTTTTTAAAAA
*
20145001 TATTTTTTATAATTTTTTGAAAA
1 TATTTTTTATAATTTTTTAAAAA
20145024 T
1 T
20145025 TTAAATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (23 bp):
TATTTTTTATAATTTTTTAAAAA
Found at i:20149382 original size:12 final size:11
Alignment explanation
Indices: 20149365--20149407 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
20149355 TAGATAATAT
20149365 TATAAATATAAA
1 TATAAATA-AAA
20149377 TATAAATAAATA
1 TATAAATAAA-A
*
20149389 TTTAAATAAAA
1 TATAAATAAAA
20149400 TA-AAATAA
1 TATAAATAA
20149408 TAAATTATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 6 0.21
11 4 0.14
12 18 0.64
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
TATAAATAAAA
Found at i:20149385 original size:16 final size:15
Alignment explanation
Indices: 20149366--20149411 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
20149356 AGATAATATT
20149366 ATAAATATAAATATAA
1 ATAAATATAAATA-AA
20149382 ATAAATATTTAAATAAA
1 ATAAATA--TAAATAAA
20149399 ATAAA-AT-AATAAA
1 ATAAATATAAATAAA
20149412 TTATCTGATT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
13 6 0.21
14 1 0.04
16 8 0.29
17 7 0.25
18 6 0.21
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
ATAAATATAAATAAA
Found at i:20149894 original size:22 final size:23
Alignment explanation
Indices: 20149854--20149896 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
20149844 TTGAATTTTG
20149854 AAGAATTAAATGTTTTTTTAAGT
1 AAGAATTAAATGTTTTTTTAAGT
*
20149877 AAGACTTAAAT-TTTTTTTAA
1 AAGAATTAAATGTTTTTTTAA
20149897 AGAAAATGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (23 bp):
AAGAATTAAATGTTTTTTTAAGT
Found at i:20149899 original size:19 final size:20
Alignment explanation
Indices: 20149849--20149900 Score: 52
Period size: 23 Copynumber: 2.5 Consensus size: 20
20149839 TTAAGTTGAA
*
20149849 TTTTGAAGAATTAAATGTTT
1 TTTTAAAGAATTAAATGTTT
*
20149869 TTTTAAGTAAGACTTAAAT-TTT
1 TTTT-A--AAGAATTAAATGTTT
20149891 TTTTAAAGAA
1 TTTTAAAGAA
20149901 AATGAAAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
19 4 0.15
20 4 0.15
21 1 0.04
22 7 0.27
23 10 0.38
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (20 bp):
TTTTAAAGAATTAAATGTTT
Found at i:20149974 original size:5 final size:5
Alignment explanation
Indices: 20149964--20149992 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
20149954 TGTAACTTGC
20149964 TATAT TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATA
20149993 GGATAGATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:20150801 original size:26 final size:26
Alignment explanation
Indices: 20150772--20150821 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
20150762 TTATGAGTAG
20150772 AAATAAGTAT-AGTATTTTATATTTCC
1 AAAT-AGTATGAGTATTTTATATTTCC
* *
20150798 AAATATTATGATTATTTTATATTT
1 AAATAGTATGAGTATTTTATATTT
20150822 GATACTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.52
Consensus pattern (26 bp):
AAATAGTATGAGTATTTTATATTTCC
Found at i:20165136 original size:23 final size:24
Alignment explanation
Indices: 20165090--20165168 Score: 70
Period size: 23 Copynumber: 3.2 Consensus size: 24
20165080 TCGTAAGATT
* * *
20165090 TTACTGTTTTCAGCTCATTGGAGC
1 TTACCGTTTTCAGCTCAATAGAGC
20165114 TTACCGTTTT-AGCTCAATAGAGC
1 TTACCGTTTTCAGCTCAATAGAGC
* * **
20165137 TTACTGTTCATCAGCTCAGGAGGAGC
1 TTACCGTT-TTCAGCTCAATA-GAGC
20165163 TTACCG
1 TTACCG
20165169 ATTATAGCTC
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
23 18 0.41
24 10 0.23
25 7 0.16
26 9 0.20
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.34
Consensus pattern (24 bp):
TTACCGTTTTCAGCTCAATAGAGC
Found at i:20165177 original size:25 final size:24
Alignment explanation
Indices: 20165109--20165178 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 24
20165099 TCAGCTCATT
* *
20165109 GGAGCTTACCGTTTTAGCTCAATA
1 GGAGCTTACCGTTATAGCTCAAGA
* *
20165133 -GAGCTTACTGTTCATCAGCTCAGGA
1 GGAGCTTACCGTT-AT-AGCTCAAGA
20165158 GGAGCTTACCGATTATAGCTC
1 GGAGCTTACCG-TTATAGCTC
20165179 GAAAGAGCAT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
23 11 0.30
24 1 0.03
25 12 0.32
26 11 0.30
27 2 0.05
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (24 bp):
GGAGCTTACCGTTATAGCTCAAGA
Found at i:20165186 original size:50 final size:48
Alignment explanation
Indices: 20165061--20165186 Score: 121
Period size: 50 Copynumber: 2.6 Consensus size: 48
20165051 AGCTCGTATC
* * ** * **
20165061 AGCTTACCAATATATTAGCTCGTAAGATTTTACTGTTTTCAGCTCATTGG
1 AGCTTACCGAT-TA-TAGCTCGAAAGAGCTTACTGTTATCAGCTCAGAGG
*
20165111 AGCTTACCG-TTTTAGCTC-AATAGAGCTTACTGTTCATCAGCTCAGGAGG
1 AGCTTACCGATTATAGCTCGAA-AGAGCTTACTGTT-ATCAGCTCA-GAGG
20165160 AGCTTACCGATTATAGCTCGAAAGAGC
1 AGCTTACCGATTATAGCTCGAAAGAGC
20165187 ATAAATGATA
Statistics
Matches: 62, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
46 1 0.02
47 17 0.27
48 9 0.15
49 12 0.19
50 21 0.34
51 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (48 bp):
AGCTTACCGATTATAGCTCGAAAGAGCTTACTGTTATCAGCTCAGAGG
Found at i:20171395 original size:51 final size:49
Alignment explanation
Indices: 20171307--20171420 Score: 183
Period size: 51 Copynumber: 2.3 Consensus size: 49
20171297 ACTTGTTAAA
* *
20171307 TTGATTAAATAATTAAGTGTTATCAATTATGATCATTCATCAATAGGTT
1 TTGATTAAATAATTAAGTGTAATCAATTATGACCATTCATCAATAGGTT
*
20171356 TTGATTAAATAACTTAAGTGCTAATCAATTTTGACCATTCATCAATAGGTT
1 TTGATTAAATAA-TTAAGTG-TAATCAATTATGACCATTCATCAATAGGTT
20171407 TTGATTAAATAATT
1 TTGATTAAATAATT
20171421 TTGTTAAAAG
Statistics
Matches: 60, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
49 12 0.20
50 9 0.15
51 39 0.65
ACGTcount: A:0.37, C:0.10, G:0.11, T:0.42
Consensus pattern (49 bp):
TTGATTAAATAATTAAGTGTAATCAATTATGACCATTCATCAATAGGTT
Found at i:20175469 original size:63 final size:64
Alignment explanation
Indices: 20175364--20175492 Score: 170
Period size: 63 Copynumber: 2.0 Consensus size: 64
20175354 CATTAAGAGC
* * * * * *
20175364 CATATATCGGGACACTCATAAAGAGCTGCGGTATGTCTGCAATACATACAAGATCAATACC-AT
1 CATATAACAGGACACTCACAAAGAGCTGCAGTATATCCGCAATACATACAAGATCAATACCGAT
* * *
20175427 CATATAACAGGACGCTCACAAAGAGCTGCAGTATATCCGCAATACATGCAAGATCGATACCGAT
1 CATATAACAGGACACTCACAAAGAGCTGCAGTATATCCGCAATACATACAAGATCAATACCGAT
20175491 CA
1 CA
20175493 AGATGCTCGC
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
63 52 0.93
64 4 0.07
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.21
Consensus pattern (64 bp):
CATATAACAGGACACTCACAAAGAGCTGCAGTATATCCGCAATACATACAAGATCAATACCGAT
Found at i:20182292 original size:47 final size:47
Alignment explanation
Indices: 20182183--20182293 Score: 127
Period size: 47 Copynumber: 2.4 Consensus size: 47
20182173 CCGGGATAAG
* * * *
20182183 CACATAGTGCTTCATCGGAATAAATTCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
* * *
20182230 CACAAAGTACTTCATCGGAACAAATCCGAAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTA
20182277 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
20182294 ACTCAATGTC
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
46 1 0.02
47 50 0.94
48 2 0.04
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
Found at i:20183064 original size:4 final size:4
Alignment explanation
Indices: 20183055--20183079 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
20183045 CCCTTTTCTA
20183055 TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC T
20183080 CACGTTTGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:20197385 original size:27 final size:26
Alignment explanation
Indices: 20197355--20197430 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 26
20197345 ACTCTCTGTG
20197355 CAAAAG-AGCAAGCCAACAAGTGTAAGC
1 CAAAAGTA-CAAGCCAA-AAGTGTAAGC
* *
20197382 CAAAAGTAAAAGTCAAAAAGTGTAAGC
1 CAAAAGTACAAG-CCAAAAGTGTAAGC
*
20197409 CAAAAGTACAAGCTAAAAGTGT
1 CAAAAGTACAAGCCAAAAGTGT
20197431 GAGCTAACAA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
26 9 0.21
27 30 0.70
28 4 0.09
ACGTcount: A:0.51, C:0.16, G:0.20, T:0.13
Consensus pattern (26 bp):
CAAAAGTACAAGCCAAAAGTGTAAGC
Found at i:20197413 original size:13 final size:13
Alignment explanation
Indices: 20197364--20197430 Score: 62
Period size: 13 Copynumber: 5.0 Consensus size: 13
20197354 GCAAAAGAGC
20197364 AAGCCAACAAGTGT
1 AAGCCAA-AAGTGT
**
20197378 AAGCCAAAAGTAA
1 AAGCCAAAAGTGT
*
20197391 AAGTCAAAAAGTGT
1 AAG-CCAAAAGTGT
**
20197405 AAGCCAAAAGTAC
1 AAGCCAAAAGTGT
*
20197418 AAGCTAAAAGTGT
1 AAGCCAAAAGTGT
20197431 GAGCTAACAA
Statistics
Matches: 41, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
13 24 0.59
14 17 0.41
ACGTcount: A:0.51, C:0.15, G:0.19, T:0.15
Consensus pattern (13 bp):
AAGCCAAAAGTGT
Found at i:20202228 original size:18 final size:18
Alignment explanation
Indices: 20202215--20202288 Score: 89
Period size: 18 Copynumber: 4.1 Consensus size: 18
20202205 TGAAAAAGTC
20202215 TAGAAAAATAAAAATAAA
1 TAGAAAAATAAAAATAAA
20202233 TAGAAAAATAAAAATAAGA
1 TAGAAAAATAAAAATAA-A
*
20202252 -ACTAAAAATAAAAAT-AA
1 TA-GAAAAATAAAAATAAA
*
20202269 GAGAAAATATAAAAATAAA
1 TAGAAAA-ATAAAAATAAA
20202288 T
1 T
20202289 GGATTCAATG
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
17 5 0.10
18 28 0.58
19 15 0.31
ACGTcount: A:0.74, C:0.01, G:0.07, T:0.18
Consensus pattern (18 bp):
TAGAAAAATAAAAATAAA
Found at i:20202229 original size:6 final size:6
Alignment explanation
Indices: 20202218--20202287 Score: 70
Period size: 6 Copynumber: 11.5 Consensus size: 6
20202208 AAAAGTCTAG
* * *
20202218 AAAAAT AAAAAT AAATAG AAAAAT AAAAAT AAGAACT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AA-AAAT AAAAAT AAAAAT
* *
20202267 AAGAGA- AAATAT AAAAAT AAA
1 AA-AAAT AAAAAT AAAAAT AAA
20202288 TGGATTCAAT
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
5 2 0.04
6 43 0.83
7 7 0.13
ACGTcount: A:0.77, C:0.01, G:0.06, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:20207436 original size:20 final size:20
Alignment explanation
Indices: 20207411--20207451 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
20207401 AGCAGGAGCA
20207411 TTACATAATTCAAAAGTTAT
1 TTACATAATTCAAAAGTTAT
20207431 TTACATAATTCAAAAGTTAT
1 TTACATAATTCAAAAGTTAT
20207451 T
1 T
20207452 CTTCGGTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (20 bp):
TTACATAATTCAAAAGTTAT
Found at i:20211067 original size:33 final size:33
Alignment explanation
Indices: 20211021--20211164 Score: 170
Period size: 33 Copynumber: 4.4 Consensus size: 33
20211011 CTTTCTGAGT
*
20211021 GGTACACACAAAGTATATCTTTCCTTTTCATAA
1 GGTACACACAAAGTATACCTTTCCTTTTCATAA
* *
20211054 GGTATACACAAAGTATACCTTTCCTTTTCATAT
1 GGTACACACAAAGTATACCTTTCCTTTTCATAA
*
20211087 GGTATACACAAAGTATACCTTTCCTTTTC--AA
1 GGTACACACAAAGTATACCTTTCCTTTTCATAA
* * **
20211118 GTGTACACACAAAGTGTACATAACCTTTTC--AA
1 G-GTACACACAAAGTATACCTTTCCTTTTCATAA
20211150 GTGTACACACAAAGT
1 G-GTACACACAAAGT
20211165 GTACATAACC
Statistics
Matches: 101, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
31 2 0.02
32 40 0.40
33 59 0.58
ACGTcount: A:0.34, C:0.22, G:0.11, T:0.33
Consensus pattern (33 bp):
GGTACACACAAAGTATACCTTTCCTTTTCATAA
Found at i:20211145 original size:32 final size:32
Alignment explanation
Indices: 20211109--20211213 Score: 149
Period size: 32 Copynumber: 3.2 Consensus size: 32
20211099 GTATACCTTT
20211109 CCTTTTCAAGTGTACACACAAAGTGTACATAA
1 CCTTTTCAAGTGTACACACAAAGTGTACATAA
20211141 CCTTTTCAAGTGTACACACAAAGTGTACATAA
1 CCTTTTCAAGTGTACACACAAAGTGTACATAA
* * * *
20211173 CCTTTTCATGTGGTATACATAAAG-GATACCTAA
1 CCTTTTCAAGT-GTACACACAAAGTG-TACATAA
20211206 CCTTTTCA
1 CCTTTTCA
20211214 CATTCGATAG
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
32 43 0.64
33 24 0.36
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.31
Consensus pattern (32 bp):
CCTTTTCAAGTGTACACACAAAGTGTACATAA
Found at i:20211212 original size:33 final size:33
Alignment explanation
Indices: 20211019--20211213 Score: 155
Period size: 33 Copynumber: 6.0 Consensus size: 33
20211009 TTCTTTCTGA
* * * **
20211019 GTGGTACACACAAAGTATATCTTTCCTTTTCAT
1 GTGGTATACACAAAGGATACCTAACCTTTTCAT
** * **
20211052 AAGGTATACACAAAGTATACCTTTCCTTTTCAT
1 GTGGTATACACAAAGGATACCTAACCTTTTCAT
* * ** *
20211085 ATGGTATACACAAAGTATACCTTTCCTTTTCAA
1 GTGGTATACACAAAGGATACCTAACCTTTTCAT
* * *
20211118 GT-GTACACACAAAGTG-TACATAACCTTTTCAA
1 GTGGTATACACAAAG-GATACCTAACCTTTTCAT
* *
20211150 GT-GTACACACAAAGTG-TACATAACCTTTTCAT
1 GTGGTATACACAAAG-GATACCTAACCTTTTCAT
*
20211182 GTGGTATACATAAAGGATACCTAACCTTTTCA
1 GTGGTATACACAAAGGATACCTAACCTTTTCA
20211214 CATTCGATAG
Statistics
Matches: 143, Mismatches: 16, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
32 58 0.41
33 85 0.59
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (33 bp):
GTGGTATACACAAAGGATACCTAACCTTTTCAT
Found at i:20211248 original size:29 final size:29
Alignment explanation
Indices: 20211206--20211333 Score: 186
Period size: 29 Copynumber: 4.4 Consensus size: 29
20211196 GGATACCTAA
*
20211206 CCTTTTCACATTCGATAGCCAAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
20211235 CCTTTTCACATTCGATAGCCGAAGCTATCC
1 CCTTTTCACATTCGATAGCCGAAGCTAT-C
* * *
20211265 CCTTTTTAAATTCGATAGACGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
*
20211294 CCTTTTCACATTCTATAGCCGCAA-CTATC
1 CCTTTTCACATTCGATAGCCG-AAGCTATC
20211323 CCTTTTCACAT
1 CCTTTTCACAT
20211334 GGTACAGATA
Statistics
Matches: 89, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
29 61 0.69
30 28 0.31
ACGTcount: A:0.26, C:0.30, G:0.10, T:0.34
Consensus pattern (29 bp):
CCTTTTCACATTCGATAGCCGAAGCTATC
Found at i:20211278 original size:59 final size:58
Alignment explanation
Indices: 20211206--20211330 Score: 180
Period size: 59 Copynumber: 2.1 Consensus size: 58
20211196 GGATACCTAA
* *
20211206 CCTTTTCACATTCGATAGCCAAAGCTATCCCTTTTCACATTCGATAGCCG-AAGCTATCC
1 CCTTTTCAAATTCGATAGACAAAGCTATCCCTTTTCACATTCGATAGCCGCAA-CTAT-C
* * *
20211265 CCTTTTTAAATTCGATAGACGAAGCTATCCCTTTTCACATTCTATAGCCGCAACTATC
1 CCTTTTCAAATTCGATAGACAAAGCTATCCCTTTTCACATTCGATAGCCGCAACTATC
20211323 CCTTTTCA
1 CCTTTTCA
20211331 CATGGTACAG
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
58 8 0.14
59 49 0.83
60 2 0.03
ACGTcount: A:0.26, C:0.30, G:0.10, T:0.34
Consensus pattern (58 bp):
CCTTTTCAAATTCGATAGACAAAGCTATCCCTTTTCACATTCGATAGCCGCAACTATC
Found at i:20213172 original size:35 final size:35
Alignment explanation
Indices: 20213133--20213202 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
20213123 GAATAGTGTT
*
20213133 AGGTTTAAGTTCAAAATTATTTGCAGCAATAGCAC
1 AGGTTTAAGTTCAAAATTATTTGCAACAATAGCAC
20213168 AGGTTTAAGTTCAAAATTATTTGCAACAATAGCAC
1 AGGTTTAAGTTCAAAATTATTTGCAACAATAGCAC
20213203 GTCTAACAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (35 bp):
AGGTTTAAGTTCAAAATTATTTGCAACAATAGCAC
Found at i:20221167 original size:42 final size:41
Alignment explanation
Indices: 20221121--20221249 Score: 152
Period size: 42 Copynumber: 3.1 Consensus size: 41
20221111 GAGCTAAATA
20221121 GAAACCCATAAGGGTTAAACGAAAGCTCGTAAGAGCTGAACG
1 GAAACCCATAAGGGTTAAAC-AAAGCTCGTAAGAGCTGAACG
* * *
20221163 GAAACCCATAAAGGTTAAACAGAAGCTC-AAAGAGCTGAACA
1 GAAACCCATAAGGGTTAAACA-AAGCTCGTAAGAGCTGAACG
* * * * *
20221204 GACACTCATATGAGTTAAACAAAAGCTCGTAATAGCTGAACG
1 GAAACCCATAAGGGTTAAAC-AAAGCTCGTAAGAGCTGAACG
20221246 GAAA
1 GAAA
20221250 GTAAACATGA
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 33 0.46
42 39 0.54
ACGTcount: A:0.44, C:0.19, G:0.22, T:0.16
Consensus pattern (41 bp):
GAAACCCATAAGGGTTAAACAAAGCTCGTAAGAGCTGAACG
Found at i:20221740 original size:18 final size:20
Alignment explanation
Indices: 20221699--20221748 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
20221689 AATTTAGTCC
20221699 TTAACTAATTAATCTTATCAAA
1 TTAACTAATT--TCTTATCAAA
20221721 TTAACTAATTT-TTATC-AA
1 TTAACTAATTTCTTATCAAA
20221739 TTAA-TAATTT
1 TTAACTAATTT
20221749 ATCTAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.21
18 6 0.21
19 5 0.18
20 1 0.04
22 10 0.36
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (20 bp):
TTAACTAATTTCTTATCAAA
Found at i:20224732 original size:23 final size:24
Alignment explanation
Indices: 20224706--20224752 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
20224696 TTCTAACCAA
20224706 GCACAC-TCAAATTTATTTTCTTT
1 GCACACTTCAAATTTATTTTCTTT
20224729 GCACACTTCAAATTTATTTTCTTT
1 GCACACTTCAAATTTATTTTCTTT
20224753 TCACTTTTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 6 0.26
24 17 0.74
ACGTcount: A:0.26, C:0.21, G:0.04, T:0.49
Consensus pattern (24 bp):
GCACACTTCAAATTTATTTTCTTT
Found at i:20233346 original size:35 final size:35
Alignment explanation
Indices: 20233300--20233371 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
20233290 ACATTTGGTG
20233300 ATTGAGAAACTAACTTCTAGGATATCAAGAAATAA
1 ATTGAGAAACTAACTTCTAGGATATCAAGAAATAA
20233335 ATTGAGAAACTAACTTCTAGGATATCAAGAAATAA
1 ATTGAGAAACTAACTTCTAGGATATCAAGAAATAA
20233370 AT
1 AT
20233372 AAATTAGACA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.49, C:0.11, G:0.14, T:0.26
Consensus pattern (35 bp):
ATTGAGAAACTAACTTCTAGGATATCAAGAAATAA
Found at i:20244462 original size:19 final size:20
Alignment explanation
Indices: 20244438--20244479 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
20244428 AACCCAACTC
*
20244438 AATTAATTA-TCAAATATAA
1 AATTAAGTACTCAAATATAA
*
20244457 AATTAAGTACTCAAATGTAA
1 AATTAAGTACTCAAATATAA
20244477 AAT
1 AAT
20244480 AACCCAATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (20 bp):
AATTAAGTACTCAAATATAA
Found at i:20253671 original size:27 final size:27
Alignment explanation
Indices: 20253641--20253694 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
20253631 AACAACCAAG
20253641 AAGCGAAACAATACCCAAGAAAGAATT
1 AAGCGAAACAATACCCAAGAAAGAATT
20253668 AAGCGAAACAATACCCAAGAAAGAATT
1 AAGCGAAACAATACCCAAGAAAGAATT
20253695 CACCTAGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.56, C:0.19, G:0.15, T:0.11
Consensus pattern (27 bp):
AAGCGAAACAATACCCAAGAAAGAATT
Found at i:20256592 original size:38 final size:38
Alignment explanation
Indices: 20256547--20256630 Score: 123
Period size: 38 Copynumber: 2.2 Consensus size: 38
20256537 CTTGGTTTAT
* * *
20256547 TTTCTAATAAGCGGTAACGAATTTATTTTACAATCTTA
1 TTTCTAATAAGCGCTAACAAATTTATTGTACAATCTTA
*
20256585 TTTCTAATAAGTGCTAACAAATTTATTGTACAATCTTA
1 TTTCTAATAAGCGCTAACAAATTTATTGTACAATCTTA
*
20256623 TTTTTAAT
1 TTTCTAAT
20256631 TTCAACGGTT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (38 bp):
TTTCTAATAAGCGCTAACAAATTTATTGTACAATCTTA
Found at i:20257800 original size:23 final size:24
Alignment explanation
Indices: 20257755--20257804 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
20257745 ACGTGTTTAT
20257755 TTTTTAAAATTTTAAAATAATATA
1 TTTTTAAAATTTTAAAATAATATA
20257779 TTTTTAAAATTTTAAAAT-ATATA
1 TTTTTAAAATTTTAAAATAATATA
20257802 TTT
1 TTT
20257805 ACTAATTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 8 0.31
24 18 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
TTTTTAAAATTTTAAAATAATATA
Found at i:20258473 original size:30 final size:32
Alignment explanation
Indices: 20258437--20258513 Score: 90
Period size: 30 Copynumber: 2.5 Consensus size: 32
20258427 TTAATATACC
*
20258437 ATCATATTAATTAATATT-ACT-TTTATTATT
1 ATCATATTAATTAATATTAACTAATTATTATT
20258467 ATCATA-TAA-TAATATTAACTAATTATTATT
1 ATCATATTAATTAATATTAACTAATTATTATT
* *
20258497 TTAATATTAATTTAATA
1 ATCATATTAA-TTAATA
20258514 ATATATTGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
28 7 0.18
29 6 0.15
30 18 0.46
31 3 0.08
33 5 0.13
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (32 bp):
ATCATATTAATTAATATTAACTAATTATTATT
Found at i:20258484 original size:38 final size:36
Alignment explanation
Indices: 20258426--20258517 Score: 96
Period size: 38 Copynumber: 2.4 Consensus size: 36
20258416 TTAATTTCAC
* * *
20258426 ATTAATATACCATCATATTAATTAA-TATTACTTTTATT
1 ATTAATATA--ATAATATTAACTAATTATTA-TTTTAAT
20258464 ATTATCATATAATAATATTAACTAATTATTATTTTAAT
1 ATTA--ATATAATAATATTAACTAATTATTATTTTAAT
*
20258502 ATTAATTTAATAATAT
1 ATTAATATAATAATAT
20258518 ATTGAACAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
36 11 0.23
38 26 0.55
39 5 0.11
40 5 0.11
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (36 bp):
ATTAATATAATAATATTAACTAATTATTATTTTAAT
Found at i:20262172 original size:21 final size:24
Alignment explanation
Indices: 20262141--20262183 Score: 65
Period size: 21 Copynumber: 1.9 Consensus size: 24
20262131 CGATTAATAG
20262141 GGGAGGGGAAGGA-A-TGGGAGAA
1 GGGAGGGGAAGGAGACTGGGAGAA
20262163 GGGA-GGGAAGGAGACTGGGAG
1 GGGAGGGGAAGGAGACTGGGAG
20262184 TGCAGTGGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 5 0.26
23 6 0.32
ACGTcount: A:0.33, C:0.02, G:0.60, T:0.05
Consensus pattern (24 bp):
GGGAGGGGAAGGAGACTGGGAGAA
Found at i:20268289 original size:19 final size:19
Alignment explanation
Indices: 20268260--20268300 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
20268250 CTATATGAAC
*
20268260 AAATAATTTAAAATTAATAA
1 AAATAATTTAAAAATAA-AA
20268280 AAAT-ATTTAAAAATAAAA
1 AAATAATTTAAAAATAAAA
20268298 AAA
1 AAA
20268301 CCATAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 5 0.25
19 11 0.55
20 4 0.20
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (19 bp):
AAATAATTTAAAAATAAAA
Found at i:20270627 original size:5 final size:5
Alignment explanation
Indices: 20270619--20270651 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
20270609 TTCAGTTGCA
20270619 ATATT ATATT ATATTT ATATT ATATT ATATT AT
1 ATATT ATATT ATA-TT ATATT ATATT ATATT AT
20270652 GGGCAACTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
ATATT
Found at i:20270640 original size:16 final size:16
Alignment explanation
Indices: 20270619--20270649 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
20270609 TTCAGTTGCA
20270619 ATATTATATTATATTT
1 ATATTATATTATATTT
20270635 ATATTATATTATATT
1 ATATTATATTATATT
20270650 ATGGGCAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
ATATTATATTATATTT
Found at i:20274086 original size:17 final size:17
Alignment explanation
Indices: 20274053--20274095 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
20274043 TTATTTATTT
20274053 AATTAATTTACTTAATTA
1 AATTAATTTAC-TAATTA
20274071 AATTAATTTCAC-AATTA
1 AATTAATTT-ACTAATTA
20274088 AA-TAATTT
1 AATTAATTT
20274096 TTAACACAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.25
17 7 0.29
18 9 0.38
19 2 0.08
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (17 bp):
AATTAATTTACTAATTA
Found at i:20290866 original size:23 final size:24
Alignment explanation
Indices: 20290819--20290866 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
20290809 AAGCCTAAAC
* * *
20290819 CAAAACCCTATCAGCCTAAATTAT
1 CAAAACCCTATAAGCCCAAACTAT
20290843 CAAAACCCTA-AAGCCCAAACTAT
1 CAAAACCCTATAAGCCCAAACTAT
20290866 C
1 C
20290867 TTAAACATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.44, C:0.33, G:0.04, T:0.19
Consensus pattern (24 bp):
CAAAACCCTATAAGCCCAAACTAT
Found at i:20292317 original size:24 final size:25
Alignment explanation
Indices: 20292281--20292378 Score: 112
Period size: 24 Copynumber: 4.0 Consensus size: 25
20292271 TTATGATTTT
* *
20292281 TTTATATACATTATTTATTCTAAAC
1 TTTATATATATTATTTATTTTAAAC
*
20292306 TTT-TACATATTATTTATTTTAAA-
1 TTTATATATATTATTTATTTTAAAC
* * *
20292329 TTTATATACATTATGTA-GTTAAAC
1 TTTATATATATTATTTATTTTAAAC
20292353 TATTATATATATTATTTATTTTAAAC
1 T-TTATATATATTATTTATTTTAAAC
20292379 CCTCTTTATT
Statistics
Matches: 59, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
23 8 0.14
24 28 0.47
25 17 0.29
26 6 0.10
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.54
Consensus pattern (25 bp):
TTTATATATATTATTTATTTTAAAC
Found at i:20292338 original size:48 final size:49
Alignment explanation
Indices: 20292281--20292377 Score: 144
Period size: 48 Copynumber: 2.0 Consensus size: 49
20292271 TTATGATTTT
* *
20292281 TTTATATACATTATTTATTCTAAACT-TT-TACATATTATTTATTTTAAA
1 TTTATATACATTATGTAGT-TAAACTATTATACATATTATTTATTTTAAA
*
20292329 TTTATATACATTATGTAGTTAAACTATTATATATATTATTTATTTTAAA
1 TTTATATACATTATGTAGTTAAACTATTATACATATTATTTATTTTAAA
20292378 CCCTCTTTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
47 6 0.14
48 19 0.43
49 19 0.43
ACGTcount: A:0.37, C:0.06, G:0.02, T:0.55
Consensus pattern (49 bp):
TTTATATACATTATGTAGTTAAACTATTATACATATTATTTATTTTAAA
Found at i:20296614 original size:19 final size:20
Alignment explanation
Indices: 20296587--20296629 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
20296577 TCTTTTTGCA
* *
20296587 TTCATTCATTTGCATTACAT
1 TTCATTCATATGCATTAAAT
20296607 TTCA-TCATATGCATTAAAT
1 TTCATTCATATGCATTAAAT
20296626 TTCA
1 TTCA
20296630 CGAAAAGACC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.30, C:0.19, G:0.05, T:0.47
Consensus pattern (20 bp):
TTCATTCATATGCATTAAAT
Found at i:20304986 original size:134 final size:134
Alignment explanation
Indices: 20304690--20305079 Score: 629
Period size: 134 Copynumber: 2.9 Consensus size: 134
20304680 TGAAATCACA
* * *
20304690 ACGACGAATCTTGCCTTCTTGAAGTTACAGTGAAGCAGATTTAAGCCACCAAGCCTTAACCCCCT
1 ACGACGAATCTTGCCTTCCTGAAGTTGCAGTGAAGCAGATTCAAGCCACCAAGCCTTAACCCCCT
** *
20304755 AAGCAGTAGGGTAATAGGCTG-AAATTATGGATCTTGCCTTCCTGAAGTTGCAGTGGAGCAGATC
66 AAGCAGTAGGGTAATAGGCTGAAAATTACAGATCTTGCCTCCCTGAAGTTGCAGTGGAGCAGATC
20304819 AAAG
131 AAAG
* * *
20304823 ACAACGAATCTTGCCTTCCTAAAGTTGCAGTGAAGCAGATTCAAACCACCAAGCCTTAACCCCCT
1 ACGACGAATCTTGCCTTCCTGAAGTTGCAGTGAAGCAGATTCAAGCCACCAAGCCTTAACCCCCT
* * *
20304888 AAGCAGTAGTGTAATAGGCTGAAAATTACAGATCTTGCCTCCCTTAAATTGCAGTGGAGCAGATC
66 AAGCAGTAGGGTAATAGGCTGAAAATTACAGATCTTGCCTCCCTGAAGTTGCAGTGGAGCAGATC
20304953 AAAG
131 AAAG
* *
20304957 ACGACGAATCTCGCCTTCCTGAAGCTGCAGTGAAGCAGATTCAAGCCACCAAGCCTTAACCCCCT
1 ACGACGAATCTTGCCTTCCTGAAGTTGCAGTGAAGCAGATTCAAGCCACCAAGCCTTAACCCCCT
* *
20305022 AAGCAGTAGGGTAATAGGCTGAAAATTACAGATCTTGTCTCTCTGAAGTTGCAGTGGA
66 AAGCAGTAGGGTAATAGGCTGAAAATTACAGATCTTGCCTCCCTGAAGTTGCAGTGGA
20305080 ATAGACTGAA
Statistics
Matches: 234, Mismatches: 22, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
133 79 0.34
134 155 0.66
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.24
Consensus pattern (134 bp):
ACGACGAATCTTGCCTTCCTGAAGTTGCAGTGAAGCAGATTCAAGCCACCAAGCCTTAACCCCCT
AAGCAGTAGGGTAATAGGCTGAAAATTACAGATCTTGCCTCCCTGAAGTTGCAGTGGAGCAGATC
AAAG
Found at i:20307036 original size:24 final size:25
Alignment explanation
Indices: 20307000--20307097 Score: 112
Period size: 24 Copynumber: 4.0 Consensus size: 25
20306990 TTTATGATTT
* *
20307000 TTTATATACATTATTTATTCTAAAC
1 TTTATATATATTATTTATTTTAAAC
*
20307025 TTT-TACATATTATTTATTTTAAA-
1 TTTATATATATTATTTATTTTAAAC
* * *
20307048 TTTATATACATTATGTA-GTTAAAC
1 TTTATATATATTATTTATTTTAAAC
20307072 TATTATATATATTATTTATTTTAAAC
1 T-TTATATATATTATTTATTTTAAAC
20307098 CCTCTTTATT
Statistics
Matches: 59, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
23 8 0.14
24 28 0.47
25 17 0.29
26 6 0.10
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.54
Consensus pattern (25 bp):
TTTATATATATTATTTATTTTAAAC
Found at i:20307052 original size:48 final size:49
Alignment explanation
Indices: 20307000--20307096 Score: 144
Period size: 48 Copynumber: 2.0 Consensus size: 49
20306990 TTTATGATTT
* *
20307000 TTTATATACATTATTTATTCTAAACT-TT-TACATATTATTTATTTTAAA
1 TTTATATACATTATGTAGT-TAAACTATTATACATATTATTTATTTTAAA
*
20307048 TTTATATACATTATGTAGTTAAACTATTATATATATTATTTATTTTAAA
1 TTTATATACATTATGTAGTTAAACTATTATACATATTATTTATTTTAAA
20307097 CCCTCTTTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
47 6 0.14
48 19 0.43
49 19 0.43
ACGTcount: A:0.37, C:0.06, G:0.02, T:0.55
Consensus pattern (49 bp):
TTTATATACATTATGTAGTTAAACTATTATACATATTATTTATTTTAAA
Found at i:20314273 original size:38 final size:38
Alignment explanation
Indices: 20314222--20314553 Score: 250
Period size: 38 Copynumber: 8.0 Consensus size: 38
20314212 GAATGAAAAA
* *
20314222 AACGTGGTGCTAAGTGGATATACCATGGTTATACGTGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
* **
20314260 AACGTGGTGCTAAGTGGGTATACCACTATTACAAATATTGATACATGT
1 AACGTGGTGCTAAGTGGATATA-C-C----AC---GGTT-ATACATGT
* *
20314308 AACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGGTT--ATACA-TG------T
* *
20314355 AAAGTGGTGCTAAGTGGATATACCACGGTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
* * * *
20314393 AACGTGGTTCTAAGTGGATATGCCACAGTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
* *
20314431 AACGTGGTGCTAAGTGGATATGCCACGGCTATATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGG-T-TATACA-TG------T
* *
20314478 AACGTGGTGCTAAGTGGATATACCATGGTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
*
20314516 AACGTGGTGCTAAGTGGATATGCCACGGTTATACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
20314554 TAATTTGAAA
Statistics
Matches: 237, Mismatches: 30, Indels: 54
0.74 0.09 0.17
Matches are distributed among these distances:
38 118 0.50
39 4 0.02
40 9 0.04
41 4 0.02
42 2 0.01
44 5 0.02
45 7 0.03
46 2 0.01
47 59 0.25
48 27 0.11
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (38 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
Found at i:20314467 original size:123 final size:123
Alignment explanation
Indices: 20314302--20314553 Score: 441
Period size: 123 Copynumber: 2.0 Consensus size: 123
20314292 AAATATTGAT
*
20314302 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAAAGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGCTACATATATTGATTCATTAAAGTGGTGCTA
*
20314367 AGTGGATATACCACGGTTAAACATGTAACGTGGTTCTAAGTGGATATGCCACAGTTAA
66 AGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACAGTTAA
* *
20314425 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGCTATATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGCTACATATATTGATTCATTAAAGTGGTGCTA
* * *
20314490 AGTGGATATACCATGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTAT
66 AGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACAGTTAA
20314548 ACATGT
1 ACATGT
20314554 TAATTTGAAA
Statistics
Matches: 122, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
123 122 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (123 bp):
ACATGTAACGTGGTGCTAAGTGGATATGCCACGGCTACATATATTGATTCATTAAAGTGGTGCTA
AGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACAGTTAA
Found at i:20314481 original size:85 final size:85
Alignment explanation
Indices: 20314392--20314548 Score: 269
Period size: 85 Copynumber: 1.8 Consensus size: 85
20314382 GTTAAACATG
* *
20314392 TAACGTGGTTCTAAGTGGATATGCCACAGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCAC
1 TAACGTGGTGCTAAGTGGATATACCACAGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCAC
20314457 GGCTATATATATTGATTCAT
66 GGCTATATATATTGATTCAT
**
20314477 TAACGTGGTGCTAAGTGGATATACCATGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCAC
1 TAACGTGGTGCTAAGTGGATATACCACAGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCAC
*
20314542 GGTTATA
66 GGCTATA
20314549 CATGTTAATT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 67 1.00
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (85 bp):
TAACGTGGTGCTAAGTGGATATACCACAGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCAC
GGCTATATATATTGATTCAT
Found at i:20315343 original size:74 final size:74
Alignment explanation
Indices: 20315261--20315408 Score: 296
Period size: 74 Copynumber: 2.0 Consensus size: 74
20315251 TCCAAAAGTA
20315261 AGAATTTAAAATAATAAATGATGTGAATAATGACATTATGAATAAAAAATATTAACATGGGATAC
1 AGAATTTAAAATAATAAATGATGTGAATAATGACATTATGAATAAAAAATATTAACATGGGATAC
20315326 TAGAACATT
66 TAGAACATT
20315335 AGAATTTAAAATAATAAATGATGTGAATAATGACATTATGAATAAAAAATATTAACATGGGATAC
1 AGAATTTAAAATAATAAATGATGTGAATAATGACATTATGAATAAAAAATATTAACATGGGATAC
20315400 TAGAACATT
66 TAGAACATT
20315409 CAAATAACAA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.51, C:0.05, G:0.14, T:0.30
Consensus pattern (74 bp):
AGAATTTAAAATAATAAATGATGTGAATAATGACATTATGAATAAAAAATATTAACATGGGATAC
TAGAACATT
Found at i:20315345 original size:38 final size:37
Alignment explanation
Indices: 20315293--20315408 Score: 132
Period size: 37 Copynumber: 3.1 Consensus size: 37
20315283 GTGAATAATG
20315293 ACATTATGAATAAAAAATATTAACATGGGATACTAGA
1 ACATTATGAATAAAAAATATTAACATGGGATACTAGA
** * *
20315330 ACATTA-GAATTTAAAATAATAA-ATGATGTGAATAAT-G-
1 ACATTATGAATAAAAAATATTAACATG--G-G-ATACTAGA
20315367 ACATTATGAATAAAAAATATTAACATGGGATACTAGA
1 ACATTATGAATAAAAAATATTAACATGGGATACTAGA
20315404 ACATT
1 ACATT
20315409 CAAATAACAA
Statistics
Matches: 63, Mismatches: 8, Indels: 16
0.72 0.09 0.18
Matches are distributed among these distances:
35 7 0.11
36 15 0.24
37 19 0.30
38 15 0.24
39 7 0.11
ACGTcount: A:0.51, C:0.07, G:0.13, T:0.29
Consensus pattern (37 bp):
ACATTATGAATAAAAAATATTAACATGGGATACTAGA
Found at i:20319553 original size:21 final size:21
Alignment explanation
Indices: 20319528--20319567 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
20319518 ATTATCTAGA
20319528 AAACATGGAAATACATGTAGG
1 AAACATGGAAATACATGTAGG
20319549 AAACATGGAAATACATGTA
1 AAACATGGAAATACATGTA
20319568 TAAGTACACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.50, C:0.10, G:0.20, T:0.20
Consensus pattern (21 bp):
AAACATGGAAATACATGTAGG
Found at i:20320549 original size:15 final size:15
Alignment explanation
Indices: 20320529--20320570 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
20320519 GCTGTAAATG
20320529 GGATTTCCTTATCAT
1 GGATTTCCTTATCAT
* *
20320544 GGATTTCTTTATCTT
1 GGATTTCCTTATCAT
20320559 GGATTTCCTTAT
1 GGATTTCCTTAT
20320571 TCTGGGCTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.14, T:0.52
Consensus pattern (15 bp):
GGATTTCCTTATCAT
Found at i:20323429 original size:38 final size:38
Alignment explanation
Indices: 20323378--20323624 Score: 260
Period size: 38 Copynumber: 6.0 Consensus size: 38
20323368 ATTGATTCAT
20323378 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* *
20323416 TAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG
20323457 ATTCATTAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
1 ------TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* * *
20323501 TAACGTGATGCTAAGTGGATATGCCACGGTTACATATATTG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG
*
20323542 ATTCATTAATGTGGTGCTAAGTGGATATACCACGGTTAAACATG
1 ------TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* *
20323586 TAACGTGGTGCTAAGTGGATATGCCACGGTTATACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
20323624 T
1 T
20323625 TAATTTGAAA
Statistics
Matches: 177, Mismatches: 14, Indels: 36
0.78 0.06 0.16
Matches are distributed among these distances:
38 97 0.55
39 2 0.01
40 4 0.02
41 4 0.02
44 4 0.02
45 4 0.02
46 2 0.01
47 60 0.34
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
Found at i:20323469 original size:85 final size:85
Alignment explanation
Indices: 20323326--20323617 Score: 530
Period size: 85 Copynumber: 3.4 Consensus size: 85
20323316 AAATATTGAT
* * **
20323326 ACATGTAACGTGGTGTTAAGCGGATATGCCATAGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
20323391 AGTGGATATACCACGGTTAA
66 AGTGGATATACCACGGTTAA
20323411 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
20323476 AGTGGATATACCACGGTTAA
66 AGTGGATATACCACGGTTAA
* *
20323496 ACATGTAACGTGATGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAATGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
20323561 AGTGGATATACCACGGTTAA
66 AGTGGATATACCACGGTTAA
20323581 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
20323618 TACATGTTAA
Statistics
Matches: 200, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 200 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (85 bp):
ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
AGTGGATATACCACGGTTAA
Found at i:20323490 original size:47 final size:47
Alignment explanation
Indices: 20323416--20323579 Score: 220
Period size: 47 Copynumber: 3.7 Consensus size: 47
20323406 GTTAAACATG
*
20323416 TAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
*
20323463 TAACGTGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG------
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
* *
20323501 TAACGTGATGCTAAGTGGATATGCCACGGTTACATATATTGATTCAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
*
20323548 TAATGTGGTGCTAAGTGGATATACCACGGTTA
1 TAACGTGGTGCTAAGTGGATATACCACGGTTA
20323580 AACATGTAAC
Statistics
Matches: 100, Mismatches: 8, Indels: 18
0.79 0.06 0.14
Matches are distributed among these distances:
38 30 0.30
39 1 0.01
40 2 0.02
41 2 0.02
44 2 0.02
45 2 0.02
46 1 0.01
47 60 0.60
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (47 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
Found at i:20328872 original size:17 final size:16
Alignment explanation
Indices: 20328850--20328892 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
20328840 AAAAAAATAC
20328850 TAATATTTTTTGTAATT
1 TAATATTTTTT-TAATT
**
20328867 TAATATTTAATTAATT
1 TAATATTTTTTTAATT
*
20328883 TAACATTTTT
1 TAATATTTTT
20328893 AAAGTATGTT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (16 bp):
TAATATTTTTTTAATT
Found at i:20341503 original size:21 final size:21
Alignment explanation
Indices: 20341447--20341517 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
20341437 TATTTATTTT
* *
20341447 TTTAATTTAACTCAATTAAATATA
1 TTTAATTCAACTCAATT---TAAA
**
20341471 TTTAATTCAACTTTATTTAAA
1 TTTAATTCAACTCAATTTAAA
*
20341492 TTTAATAT-AACTCAATTTAAT
1 TTTAAT-TCAACTCAATTTAAA
20341513 TTTAA
1 TTTAA
20341518 AAAATTTAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
21 24 0.62
22 1 0.03
24 14 0.36
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTAATTCAACTCAATTTAAA
Found at i:20342663 original size:14 final size:14
Alignment explanation
Indices: 20342644--20342675 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
20342634 GTGGATGACA
*
20342644 GACTATGTATGTGT
1 GACTATATATGTGT
20342658 GACTATATATGTGT
1 GACTATATATGTGT
20342672 GACT
1 GACT
20342676 CATACGCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.25, C:0.09, G:0.25, T:0.41
Consensus pattern (14 bp):
GACTATATATGTGT
Found at i:20346099 original size:23 final size:23
Alignment explanation
Indices: 20346073--20346131 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
20346063 AAAACCATAT
20346073 AGAATACGCCACAAAGGCTATA-C
1 AGAATACGCCACAAAGGCT-TAGC
*
20346096 AGAATACACCACAAAGGCTTAGC
1 AGAATACGCCACAAAGGCTTAGC
* *
20346119 ATATTACGCCACA
1 AGAATACGCCACA
20346132 CAAGCAACAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 2 0.06
23 29 0.94
ACGTcount: A:0.42, C:0.27, G:0.15, T:0.15
Consensus pattern (23 bp):
AGAATACGCCACAAAGGCTTAGC
Found at i:20356352 original size:30 final size:30
Alignment explanation
Indices: 20356317--20356404 Score: 99
Period size: 30 Copynumber: 2.9 Consensus size: 30
20356307 TAGGCACTTC
20356317 CACACGGGTA-ATCCACACGCCAT-TGTGTGA
1 CACACGGGTAGA-CCACACGCC-TGTGTGTGA
*
20356347 CACACGGGTAGACTACACGCCTGTGTGTGA
1 CACACGGGTAGACCACACGCCTGTGTGTGA
* * * *
20356377 CACACGAGTAGACTACACCCCCGTGTGT
1 CACACGGGTAGACCACACGCCTGTGTGT
20356405 CATGACCATG
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
29 1 0.02
30 50 0.96
31 1 0.02
ACGTcount: A:0.25, C:0.31, G:0.25, T:0.19
Consensus pattern (30 bp):
CACACGGGTAGACCACACGCCTGTGTGTGA
Done.