Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 40 of 170
Found at i:11370020 original size:15 final size:15
Alignment explanation
Indices: 11369996--11370028 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
11369986 AGCCTCTCCA
11369996 TTTTTACTTTTTCAT
1 TTTTTACTTTTTCAT
*
11370011 TTTTTCCTTTTTCAT
1 TTTTTACTTTTTCAT
11370026 TTT
1 TTT
11370029 GACTTTGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTACTTTTTCAT
Found at i:11390174 original size:48 final size:47
Alignment explanation
Indices: 11390104--11390204 Score: 150
Period size: 48 Copynumber: 2.1 Consensus size: 47
11390094 TTCAATAGGG
11390104 GATAAATAGTATAAGATCGTAGACAGTAGAAGACCAAGTTTAGCAAT
1 GATAAATAGTATAAGATCGTAGACAGTAGAAGACCAAGTTTAGCAAT
* *
11390151 GATAAATAGTGATAAGAGT-GTAGACAGTGGAAGACCAAGTTTAGTAAT
1 GATAAATAGT-ATAAGA-TCGTAGACAGTAGAAGACCAAGTTTAGCAAT
11390199 GCATAA
1 G-ATAA
11390205 CATGATTTAT
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
47 10 0.20
48 34 0.69
49 5 0.10
ACGTcount: A:0.44, C:0.09, G:0.24, T:0.24
Consensus pattern (47 bp):
GATAAATAGTATAAGATCGTAGACAGTAGAAGACCAAGTTTAGCAAT
Found at i:11391553 original size:39 final size:39
Alignment explanation
Indices: 11391499--11391576 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
11391489 TGTGGGAAAA
* *
11391499 AACACCATGGTGAATGTTGGAAGCTAACTCGAGGTTGTT
1 AACACCAAGGTGAATGTTGGAAGCTAACTCGAGCTTGTT
11391538 AACACCAAGGTGAATGTTGGAAGCTAACTCGAGCTTGTT
1 AACACCAAGGTGAATGTTGGAAGCTAACTCGAGCTTGTT
11391577 TTTGCTGTGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (39 bp):
AACACCAAGGTGAATGTTGGAAGCTAACTCGAGCTTGTT
Found at i:11392112 original size:152 final size:153
Alignment explanation
Indices: 11391835--11392131 Score: 560
Period size: 152 Copynumber: 1.9 Consensus size: 153
11391825 AATGTTGAGA
* *
11391835 TAGTTAAATCGGGAAGTTTAAAAGCCAAGACGTTTAGGGTATCAATAGTTGTGTCAAGTCCTTTG
1 TAGTTAAATCGAGAAGTTTAAAAGCCAAGACGTCTAGGGTATCAATAGTTGTGTCAAGTCCTTTG
11391900 GGGCAGTCTATAATAGTGGATCAAGTGTGTAGGTGATGCCCGTTAGATATACAGAATATAACATT
66 GGGCAGTCTATAATAGTGGATCAAGTGTGTAGGTGATGCCCGTTAGATATACAGAATATAACATT
*
11391965 CCTTGTTGATTTGTTTGCTAAGT
131 CCCTGTTGATTTGTTTGCTAAGT
11391988 TAGTTAAATCGAGAAGTTTAAAAGCCAAGACGTCTAGGG-ATCAATAGTTGTGTCAAGTCCTTTG
1 TAGTTAAATCGAGAAGTTTAAAAGCCAAGACGTCTAGGGTATCAATAGTTGTGTCAAGTCCTTTG
11392052 GGGCAGTCTATAATAGTGGATCAAGTGTGTAGGTGATGCCCGTTAGATATACAGAATATAACATT
66 GGGCAGTCTATAATAGTGGATCAAGTGTGTAGGTGATGCCCGTTAGATATACAGAATATAACATT
11392117 CCCTGTTGATTTGTT
131 CCCTGTTGATTTGTT
11392132 AATAATTCCA
Statistics
Matches: 141, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
152 104 0.74
153 37 0.26
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (153 bp):
TAGTTAAATCGAGAAGTTTAAAAGCCAAGACGTCTAGGGTATCAATAGTTGTGTCAAGTCCTTTG
GGGCAGTCTATAATAGTGGATCAAGTGTGTAGGTGATGCCCGTTAGATATACAGAATATAACATT
CCCTGTTGATTTGTTTGCTAAGT
Found at i:11394063 original size:30 final size:30
Alignment explanation
Indices: 11394028--11394084 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
11394018 TTTCCGAACC
* * *
11394028 TAGGGGCAAAATTGTAATTTTGTAAAACTT
1 TAGGGGCAAAAATGTAAATTTGGAAAACTT
11394058 TAGGGGCAAAAATGTAAATTTGGAAAA
1 TAGGGGCAAAAATGTAAATTTGGAAAA
11394085 ATGTGATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.42, C:0.05, G:0.23, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAAATTTGGAAAACTT
Found at i:11394414 original size:51 final size:51
Alignment explanation
Indices: 11394258--11394433 Score: 180
Period size: 51 Copynumber: 3.5 Consensus size: 51
11394248 CTAGGTCATG
* * * *
11394258 TGTGTAGTACTATGTGTAGGCTACTACGTGTATCGGAATG-ATA-GGTCGCA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGG-ATGAAAATGATCACA
* * * * ** *
11394308 TGTGTAATACTATGTGCAGGCTACTATGCGTA-CTGAAT-AACTTCGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATC-GGATGAAAAT-GATCACA
*
11394359 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGAAAATGCTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGAAAATGATCACA
*
11394410 TGTGTAGTACTATGTGCAGACTAC
1 TGTGTAGTACTATGTGCAGGCTAC
11394434 CATGTGAACT
Statistics
Matches: 101, Mismatches: 19, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
49 4 0.04
50 29 0.29
51 64 0.63
52 4 0.04
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (51 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGAAAATGATCACA
Found at i:11398335 original size:14 final size:13
Alignment explanation
Indices: 11398316--11398351 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
11398306 CATGAAAATT
11398316 AGAAAAGAAAGAAA
1 AGAAAAGAAAG-AA
11398330 AGAAAAGAAAGAA
1 AGAAAAGAAAGAA
*
11398343 CGAAAAGAA
1 AGAAAAGAA
11398352 GGAGAGAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.75, C:0.03, G:0.22, T:0.00
Consensus pattern (13 bp):
AGAAAAGAAAGAA
Found at i:11400441 original size:54 final size:54
Alignment explanation
Indices: 11400383--11400488 Score: 142
Period size: 54 Copynumber: 2.0 Consensus size: 54
11400373 CGTATGACCT
* * *
11400383 AAGTCAGTGAGTTACACGGGT-AGAGACACGGGCTGAGACACAACCGTGTGTCTC
1 AAGTCAATGAGTTACACAGGTAAG-GACACAGGCTGAGACACAACCGTGTGTCTC
* **
11400437 AAGTCAATGAGTTACACAGGTAAGGACACAGGCTGGGACATGACCGTGTGTC
1 AAGTCAATGAGTTACACAGGTAAGGACACAGGCTGAGACACAACCGTGTGTC
11400489 CCAACTTCAA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
54 43 0.96
55 2 0.04
ACGTcount: A:0.29, C:0.21, G:0.31, T:0.19
Consensus pattern (54 bp):
AAGTCAATGAGTTACACAGGTAAGGACACAGGCTGAGACACAACCGTGTGTCTC
Found at i:11400879 original size:48 final size:48
Alignment explanation
Indices: 11400818--11400914 Score: 140
Period size: 48 Copynumber: 2.0 Consensus size: 48
11400808 TTCAAGAAGG
* * * * *
11400818 GATAAATAGTGATAAGAGTGTAGACAGTGGAAGACCAAGTTTAGCAAT
1 GATAAATAATGATAAAAGTGCAGACAATGAAAGACCAAGTTTAGCAAT
*
11400866 GATAAATAATGATAAAAGTGCAGACAATGAAAGACCAAGTTTAGTAAT
1 GATAAATAATGATAAAAGTGCAGACAATGAAAGACCAAGTTTAGCAAT
11400914 G
1 G
11400915 CATAGCATGA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.45, C:0.08, G:0.24, T:0.23
Consensus pattern (48 bp):
GATAAATAATGATAAAAGTGCAGACAATGAAAGACCAAGTTTAGCAAT
Found at i:11402298 original size:51 final size:51
Alignment explanation
Indices: 11402165--11402300 Score: 213
Period size: 50 Copynumber: 2.7 Consensus size: 51
11402155 AGTGAAAGTG
* *
11402165 ATGGTCACGTGTGAAGTACTATGTGCAGGCTACTACGTGTATCGGAATGAT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAATGAT
* *
11402216 A-GGTCGCATGTGTAGTACTATGTGCAGGCTACTACGTGTATC-GAATGGT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAATGAT
11402265 AATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
1 -ATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
11402301 TGTGAACCAA
Statistics
Matches: 78, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
49 6 0.08
50 39 0.50
51 33 0.42
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAATGAT
Found at i:11402304 original size:26 final size:26
Alignment explanation
Indices: 11402223--11402304 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
11402213 GATAGGTCGC
11402223 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTACTATGTGCAGGCTACT
* * *
11402249 ACGTGTA-T-CGAATG-GTAATGG-TCAC-
1 ATGTGTAGTAC-TATGTG-CA-GGCT-ACT
11402274 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTACTATGTGCAGGCTACT
11402300 ATGTG
1 ATGTG
11402305 AACCAAACAT
Statistics
Matches: 41, Mismatches: 6, Indels: 18
0.63 0.09 0.28
Matches are distributed among these distances:
24 2 0.05
25 16 0.39
26 21 0.51
27 2 0.05
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (26 bp):
ATGTGTAGTACTATGTGCAGGCTACT
Found at i:11402367 original size:45 final size:45
Alignment explanation
Indices: 11402311--11402399 Score: 133
Period size: 45 Copynumber: 2.0 Consensus size: 45
11402301 TGTGAACCAA
* * * *
11402311 ACATCATTGATTAGTAAGGTGGTTGTTATGTGCTGATTCCACCGG
1 ACATCATTGATTAATAAGGCGGTTGCTATGTGCTGAATCCACCGG
*
11402356 ACATTATTGATTAATAAGGCGGTTGCTATGTGCTGAATCCACCG
1 ACATCATTGATTAATAAGGCGGTTGCTATGTGCTGAATCCACCG
11402400 AGTATCTGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.34
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGCGGTTGCTATGTGCTGAATCCACCGG
Found at i:11407730 original size:32 final size:33
Alignment explanation
Indices: 11407673--11407734 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 33
11407663 AAATAAGATA
* * *
11407673 AAAATAGAAAAGTTTGTATATGTATATATTTAC
1 AAAATAAAAAAGTATGTATAAGTATATATTTAC
11407706 AAAATAAAAAAG-ATGTATAAGTATATATT
1 AAAATAAAAAAGTATGTATAAGTATATATT
11407735 GGTAAATCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 15 0.58
33 11 0.42
ACGTcount: A:0.52, C:0.02, G:0.11, T:0.35
Consensus pattern (33 bp):
AAAATAAAAAAGTATGTATAAGTATATATTTAC
Found at i:11407978 original size:22 final size:22
Alignment explanation
Indices: 11407928--11408059 Score: 115
Period size: 22 Copynumber: 6.0 Consensus size: 22
11407918 AGGTAGACGT
* * *
11407928 ATACTATA-AAAAAAAGCATAT
1 ATACTATATAAAAAATGCGTAC
* *
11407949 ATATTATATAAAAAATGCGTGC
1 ATACTATATAAAAAATGCGTAC
* *
11407971 ATACTATATAAAAAATGCATAT
1 ATACTATATAAAAAATGCGTAC
* * *
11407993 ATATTATAT-AAAAACGCGTGC
1 ATACTATATAAAAAATGCGTAC
*
11408014 ATACTATATATAAAAATGCGTAT
1 ATACTATATA-AAAAATGCGTAC
*
11408037 ATATTATTATAAAAAAATGCGTA
1 ATACTA-TAT-AAAAAATGCGTA
11408060 TGTTTATTAT
Statistics
Matches: 87, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
21 23 0.26
22 35 0.40
23 14 0.16
24 14 0.16
25 1 0.01
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.31
Consensus pattern (22 bp):
ATACTATATAAAAAATGCGTAC
Found at i:11407991 original size:44 final size:44
Alignment explanation
Indices: 11407928--11408058 Score: 194
Period size: 44 Copynumber: 3.0 Consensus size: 44
11407918 AGGTAGACGT
*
11407928 ATACTATA-AAAAAAAGCATATATATTATATAAAAAATGCGTGC
1 ATACTATATAAAAAATGCATATATATTATATAAAAAATGCGTGC
*
11407971 ATACTATATAAAAAATGCATATATATTATAT-AAAAACGCGTGC
1 ATACTATATAAAAAATGCATATATATTATATAAAAAATGCGTGC
*
11408014 ATACTATATATAAAAATGCGTATATATTATTATAAAAAAATGCGT
1 ATACTATATA-AAAAATGCATATATATTA-TAT-AAAAAATGCGT
11408059 ATGTTTATTA
Statistics
Matches: 79, Mismatches: 4, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
43 29 0.37
44 38 0.48
45 3 0.04
47 9 0.11
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.31
Consensus pattern (44 bp):
ATACTATATAAAAAATGCATATATATTATATAAAAAATGCGTGC
Found at i:11408085 original size:27 final size:26
Alignment explanation
Indices: 11408020--11408093 Score: 107
Period size: 27 Copynumber: 2.9 Consensus size: 26
11408010 GTGCATACTA
*
11408020 TATATAAAAATGCGTA--TATATTAT
1 TATAAAAAAATGCGTATGTATATTAT
*
11408044 TATAAAAAAATGCGTATGTTTATTAT
1 TATAAAAAAATGCGTATGTATATTAT
11408070 TATAAAAAAAATGCGTATGTATAT
1 TAT-AAAAAAATGCGTATGTATAT
11408094 ATAGTAATAC
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
24 15 0.34
26 10 0.23
27 19 0.43
ACGTcount: A:0.46, C:0.04, G:0.11, T:0.39
Consensus pattern (26 bp):
TATAAAAAAATGCGTATGTATATTAT
Found at i:11408096 original size:23 final size:24
Alignment explanation
Indices: 11407926--11408096 Score: 87
Period size: 21 Copynumber: 7.4 Consensus size: 24
11407916 ATAGGTAGAC
11407926 GTATACTATAAAAAAAA-GC--AT
1 GTATACTATAAAAAAAATGCGTAT
* * *
11407947 ATATATTATATAAAAAATGCG--T
1 GTATACTATAAAAAAAATGCGTAT
* *
11407969 GCATACTATATAAAAAATGC--AT
1 GTATACTATAAAAAAAATGCGTAT
* * * *
11407991 ATATATTAT-ATAAAAACGCG--T
1 GTATACTATAAAAAAAATGCGTAT
* *
11408012 GCATACTATATATAAAAATGCGTAT
1 GTATACTATA-AAAAAAATGCGTAT
* *
11408037 ATATTATTAT-AAAAAAATGCGTAT
1 GTA-TACTATAAAAAAAATGCGTAT
*
11408061 GTTTATTATTATAAAAAAAATGCGTAT
1 G--TA-TACTATAAAAAAAATGCGTAT
11408088 GTATA-TATA
1 GTATACTATA
11408097 GTAATACTAA
Statistics
Matches: 117, Mismatches: 21, Indels: 22
0.73 0.13 0.14
Matches are distributed among these distances:
21 28 0.24
22 27 0.23
23 14 0.12
24 15 0.13
25 4 0.03
26 14 0.12
27 15 0.13
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.34
Consensus pattern (24 bp):
GTATACTATAAAAAAAATGCGTAT
Found at i:11408112 original size:3 final size:3
Alignment explanation
Indices: 11408098--11408147 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
11408088 GTATATATAG
* * *
11408098 TAA TAC TAA TAA TAA TAA CAA TAA TAA TAA TGA TAA -AA TTAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA
11408143 -AA TAA
1 TAA TAA
11408148 ACTAAAAACC
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
2 4 0.11
3 32 0.84
4 2 0.05
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:11408598 original size:23 final size:22
Alignment explanation
Indices: 11408555--11408612 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
11408545 AAAGGGTATC
* *
11408555 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
11408576 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
11408599 TACATATCATATCT
1 TACAAATCATATCT
11408613 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:11408615 original size:19 final size:19
Alignment explanation
Indices: 11408568--11408665 Score: 106
Period size: 19 Copynumber: 4.8 Consensus size: 19
11408558 AAATTAAATC
*
11408568 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
11408588 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
11408610 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
11408631 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
11408650 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
11408666 CTCGAAGATT
Statistics
Matches: 69, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
19 33 0.48
21 18 0.26
22 7 0.10
23 11 0.16
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:11408628 original size:21 final size:21
Alignment explanation
Indices: 11408602--11408664 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
11408592 CTAAGATTAC
11408602 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
11408623 ATATCATATCTAAGATTGC--
1 ATATCATATCTAAGATTGCAT
11408642 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
11408663 AT
1 AT
11408665 CCTCGAAGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
19 19 0.47
21 21 0.52
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:11409336 original size:217 final size:219
Alignment explanation
Indices: 11409016--11409486 Score: 601
Period size: 217 Copynumber: 2.2 Consensus size: 219
11409006 TTATTTAGTA
* * * * * * * *
11409016 TGCCCCACTGCTATTTCAGGGGGATAAGGCTTGCTTTCTTGAGTCTGCTCCACTGCAACTTCAGG
1 TGCCTCACTGCAACTTCAGGAGGATAAGACTTGATTACTTGAGTCCGCTCCACTGCAACTTCAGG
* * * * ***
11409081 GAGATGAGACTCGATGTGATCTACTCTACTGCAACTTCATAGAGATAAGATCTGTGGTTTTAATC
66 GAGATAAGACTAGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATC
* * * **
11409146 CGCTCCACTGCAACTTCAGGGAGACAGGATT-T-GTTTATTTAGTATGC-CACACTACAACTTCA
131 CACTCCACTGCAACTTCAGGAAGACAGGATTATCG--GATTTAACATGCTC-CACTACAACTTCA
11409208 AGGAGATAAGATTCGCCATCTTCAGTC
193 AGGAGATAAGATTCGCCATCTTCAGTC
*
11409235 TGCCTCACTGCAACTTTAGGAGGATAAGACTTGATTACTT-AGTCCGCTCCACTGCAACTTCAGG
1 TGCCTCACTGCAACTTCAGGAGGATAAGACTTGATTACTTGAGTCCGCTCCACTGCAACTTCAGG
* *
11409299 GAGATAAGACTAGATGCGATCTGCTCT-CTGTAACTTCAGAGAGATAAGATCCAAGGTTTTAATC
66 GAGATAAGACTAGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATC
* * * ** * *
11409363 CACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTCCACTGTAACTTTAGGG
131 CACTCCACTGCAACTTCAGGAAGACAGGATTATCGGATTTAACATGCTCCACTACAACTTCAAGG
*
11409428 AGATAAGATTTGCCATCTTCAGTC
196 AGATAAGATTCGCCATCTTCAGTC
11409452 TGCCTCACTGCAACTTCAGGAGGATAAGACTTGAT
1 TGCCTCACTGCAACTTCAGGAGGATAAGACTTGAT
11409487 GCGATCTGCT
Statistics
Matches: 217, Mismatches: 32, Indels: 8
0.84 0.12 0.03
Matches are distributed among these distances:
217 136 0.63
218 48 0.22
219 33 0.15
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (219 bp):
TGCCTCACTGCAACTTCAGGAGGATAAGACTTGATTACTTGAGTCCGCTCCACTGCAACTTCAGG
GAGATAAGACTAGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATC
CACTCCACTGCAACTTCAGGAAGACAGGATTATCGGATTTAACATGCTCCACTACAACTTCAAGG
AGATAAGATTCGCCATCTTCAGTC
Found at i:11409370 original size:84 final size:84
Alignment explanation
Indices: 11409281--11409553 Score: 270
Period size: 84 Copynumber: 3.2 Consensus size: 84
11409271 ACTTAGTCCG
11409281 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAA
1 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAA
11409346 GATCCAAGGTTTTAATCCA
66 GATCCAAGGTTTTAATCCA
* * * * *** * * * *
11409365 CTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTCCACTGTAACTTTAGGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGACTA---GATGCGATCTGCT-CTCTGTAACTTCAGAGAG
* *
11409430 ATAAGATTTGCC-A--TCTTCAGTCTGC-
62 ATAAGA--T-CCAAGGT-TTTAATC--CA
* *
11409455 CT-CACTGCAACTTCA-GGAGGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATA
1 CTCCACTGCAACTTCAGGGA-GATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATA
11409518 AGATCCAAGGTTTTAATCCA
65 AGATCCAAGGTTTTAATCCA
11409538 CTCCACTGCAACTTCA
1 CTCCACTGCAACTTCA
11409554 AGAAGATAGG
Statistics
Matches: 145, Mismatches: 28, Indels: 32
0.71 0.14 0.16
Matches are distributed among these distances:
82 3 0.02
83 4 0.03
84 45 0.31
85 21 0.14
86 8 0.06
87 8 0.06
88 24 0.17
89 25 0.17
90 4 0.03
91 3 0.02
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (84 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAA
GATCCAAGGTTTTAATCCA
Found at i:11409553 original size:217 final size:216
Alignment explanation
Indices: 11409108--11409993 Score: 851
Period size: 217 Copynumber: 4.1 Consensus size: 216
11409098 GATCTACTCT
* ** * * *
11409108 ACTGCAACTTCATAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGACAG
1 ACTGCAACTTCAGAGAGATAAGATCTACGGCTTTAATCCGCTCCACTGCAACTTCAGGGAGATAA
** * * * *
11409173 GATTTGTTTAT-TT-AGTATGCCACACTACAACTTCAAGGA-GATAAGA-TTCGCCAT-CTTCAG
66 GATTTG-CCATCTTCAATCTGCCTCACTGCAACTTC-AGGAGGATAAGACTT-G-CATACTT-AG
* * * * *
11409233 TCTGCCTCACTGCAACTTTA-GGAGGATAAGACTTGATTACTTAGTCCGCTCCACTGCAACTTCA
126 TCTG-CTCACTGCAACTTTAGGGA-GATAAGACTAGA-TGC-GA-TCTGCT-CTCTGCAACTTCA
* * * *** *
11409297 GGGAGATAAGA--CTA-GATGCGATCTGCT-C
185 GAGAGATAAGATCCAAGGTTTTAATCCGCTCC
* * * * * * * *
11409325 TCTGTAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAG
1 ACTGCAACTTCAGAGAGATAAGATCTACGGCTTTAATCCGCTCCACTGCAACTTCAGGGAGATAA
* * * * *
11409390 GATTATCGGC-T-TT-AACCTG-CTCCACTGTAACTTTAGG-GAGATAAGATTTGCCAT-CTTCA
66 GATT-T-GCCATCTTCAATCTGCCT-CACTGCAACTTCAGGAG-GATAAGACTTG-CATACTT-A
* *
11409449 GTCTGCCTCACTGCAACTTCA-GGAGGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAG
125 GTCTG-CTCACTGCAACTTTAGGGA-GATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAG
*
11409513 AGATAAGATCCAAGGTTTTAATCCACTCC
188 AGATAAGATCCAAGGTTTTAATCCGCTCC
*
11409542 ACTGCAACTTCA-AGAAGATAGGAT-TATCGGCTTTAA-CCTGCTCCACTGCAACTTCAGGGAGA
1 ACTGCAACTTCAGAG-AGATAAGATCTA-CGGCTTTAATCC-GCTCCACTGCAACTTCAGGGAGA
* *
11409604 TAAGATTTGCCATCTTCAATCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTGCTTAGTC
63 TAAGATTTGCCATCTTCAATCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCATACTTAGTC
* * *
11409669 TGCTCTATTACAACTTTAGGGAGATAAGACTAGATGCGATCTACTCTCTGCAACTTCAGAGAGAT
128 TGCTC-ACTGCAACTTTAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGAT
*** * *
11409734 AAGATCTGTGATTTTAATCCGTTCC
192 AAGATCCAAGGTTTTAATCCGCTCC
* * * * *
11409759 ACTGCAACTTCAGGGAGATAGGAT-TGTCGGCTTTAATCTGCTCCACTGCAACCTCAGGGAGATA
1 ACTGCAACTTCAGAGAGATAAGATCT-ACGGCTTTAATCCGCTCCACTGCAACTTCAGGGAGATA
* * *
11409823 AGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTTAGGAGGATAAGACTTGCTTACTTAGTCTG
65 AGATTTGCCATCTTCAATCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCATACTTAGTCTG
11409888 CTCCACTGCAACTTTAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
130 CT-CACTGCAACTTTAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
11409953 GATCCAAGGTTTTAATCCGCTCC
194 GATCCAAGGTTTTAATCCGCTCC
* *
11409976 ACTGCAAATTCAGGGAGA
1 ACTGCAACTTCAGAGAGA
11409994 CAAGGCTTTG
Statistics
Matches: 571, Mismatches: 73, Indels: 50
0.82 0.11 0.07
Matches are distributed among these distances:
213 22 0.04
214 5 0.01
215 5 0.01
216 23 0.04
217 472 0.83
218 40 0.07
219 4 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (216 bp):
ACTGCAACTTCAGAGAGATAAGATCTACGGCTTTAATCCGCTCCACTGCAACTTCAGGGAGATAA
GATTTGCCATCTTCAATCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCATACTTAGTCTGC
TCACTGCAACTTTAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGA
TCCAAGGTTTTAATCCGCTCC
Found at i:11409656 original size:173 final size:173
Alignment explanation
Indices: 11409284--11409657 Score: 678
Period size: 173 Copynumber: 2.2 Consensus size: 173
11409274 TAGTCCGCTC
* *
11409284 CACTGCAACTTCAGG-GAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGA
1 CACTGCAACTTCAGGAG-GATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGA
*
11409348 TCCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTCC
65 TCCAAGGTTTTAATCCACTCCACTGCAACTTCAAGAAGATAGGATTATCGGCTTTAACCTGCTCC
* * *
11409413 ACTGTAACTTTAGGGAGATAAGATTTGCCATCTTCAGTCTGCCT
130 ACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAATCTGCCT
11409457 CACTGCAACTTCAGGAGGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGAT
1 CACTGCAACTTCAGGAGGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGAT
11409522 CCAAGGTTTTAATCCACTCCACTGCAACTTCAAGAAGATAGGATTATCGGCTTTAACCTGCTCCA
66 CCAAGGTTTTAATCCACTCCACTGCAACTTCAAGAAGATAGGATTATCGGCTTTAACCTGCTCCA
11409587 CTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAATCTGCCT
131 CTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAATCTGCCT
11409630 CACTGCAACTTCAGGAGGATAAGACTTG
1 CACTGCAACTTCAGGAGGATAAGACTTG
11409658 CTTGCTTAGT
Statistics
Matches: 194, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
173 193 0.99
174 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (173 bp):
CACTGCAACTTCAGGAGGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGAT
CCAAGGTTTTAATCCACTCCACTGCAACTTCAAGAAGATAGGATTATCGGCTTTAACCTGCTCCA
CTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAATCTGCCT
Found at i:11409668 original size:390 final size:390
Alignment explanation
Indices: 11409052--11409874 Score: 1152
Period size: 390 Copynumber: 2.1 Consensus size: 390
11409042 AGGCTTGCTT
* * * *
11409052 TCTTGAGTCTG-CTCCACTGCAACTTCAGG-GAGATGAGACTCGATGTGATCTACTCTACTGCAA
1 TCTTCAGTCTGCCT-CACTGCAACTTCAGGAG-GATAAGACTTGATGCGATCTACTCTACTGCAA
* *** * * *
11409115 CTTCATAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGACAGGATTTGT
64 CTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTGCAACTTCAAGAAGACAGGATTTG-
* ** *
11409180 TTATTTAGTATGCCACACTACAACTTCAAGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTG
128 TGATTTAACATGCCACACTACAACTTCAAGGAGATAAGATTCGCCATCTTCAATCTGCCTCACTG
* *
11409245 CAACTTTAGGAGGATAAGACTTGATTACTTAGTCCGCTCCACTGCAACTTCAGGGAGATAAGACT
193 CAACTTCAGGAGGATAAGACTTGATTACTTAGTCCGCTCCACTACAACTTCAGGGAGATAAGACT
* * *
11409310 AGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTGCA
258 AGATGCGATCTACTCTCTGCAACTTCAGAGAGATAAGATCCAAGATTTTAATCCACTCCACTGCA
* * *
11409375 ACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTCCACTGTAACTTTAGGGAGATAAGATTTG
323 ACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTCCACTGCAACCTCAGGGAGATAAGATTTG
11409440 CCA
388 CCA
*
11409443 TCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGATGCGATCTGCTCT-CTGCAACT
1 TCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGATGCGATCTACTCTACTGCAACT
*
11409507 TCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTGCAACTTCAAGAAGATAGGATTATCG-
66 TCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTGCAACTTCAAGAAGACAGGATT-T-GT
* * * * *
11409571 GCTTTAACCTGCTC-CACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAATCTGCCTCACTG
129 GATTTAACATGC-CACACTACAACTTCAAGGAGATAAGATTCGCCATCTTCAATCTGCCTCACTG
* * * * * *
11409635 CAACTTCAGGAGGATAAGACTTGCTTGCTTAGTCTGCTCTATTACAACTTTAGGGAGATAAGACT
193 CAACTTCAGGAGGATAAGACTTGATTACTTAGTCCGCTCCACTACAACTTCAGGGAGATAAGACT
*** **
11409700 AGATGCGATCTACTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGTTCCACTGCA
258 AGATGCGATCTACTCTCTGCAACTTCAGAGAGATAAGATCCAAGATTTTAATCCACTCCACTGCA
* * *
11409765 ACTTCAGGGAGATAGGATTGTCGGCTTTAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTG
323 ACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTCCACTGCAACCTCAGGGAGATAAGATTTG
11409830 CCA
388 CCA
*
11409833 TCTTCAGTCTGCCTCACTGCAACTTTAGGAGGATAAGACTTG
1 TCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTG
11409875 CTTACTTAGT
Statistics
Matches: 382, Mismatches: 45, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
390 330 0.86
391 48 0.13
392 4 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (390 bp):
TCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGATGCGATCTACTCTACTGCAACT
TCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTGCAACTTCAAGAAGACAGGATTTGTGA
TTTAACATGCCACACTACAACTTCAAGGAGATAAGATTCGCCATCTTCAATCTGCCTCACTGCAA
CTTCAGGAGGATAAGACTTGATTACTTAGTCCGCTCCACTACAACTTCAGGGAGATAAGACTAGA
TGCGATCTACTCTCTGCAACTTCAGAGAGATAAGATCCAAGATTTTAATCCACTCCACTGCAACT
TCAGGAAGATAGGATTATCGGCTTTAACCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCA
Found at i:11409722 original size:173 final size:175
Alignment explanation
Indices: 11409284--11409872 Score: 570
Period size: 173 Copynumber: 3.4 Consensus size: 175
11409274 TAGTCCGCTC
* * * * *
11409284 CACTGCAACTTCAGG-GAGATAAGACTAG-ATGC-GA-TCTGCTCT-CTGTAACTTCAGAGAGAT
1 CACTGCAACTTCAGGAG-GATAAGACTTGCATGCTTAGTCTGCTCTACTGCAACTTTAGGGAGAT
* * ** *
11409344 AAGATCCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTG
65 AAGA--CTAGGATGCAATCCACTCCACTGCAACTTCAAGAAGATAGGATTATCGGCTTTAACCTG
* * *
11409409 CTCCACTGTAACTTTAGGGAGATAAGATTTGCCATCTTCAGTCTGCCT
128 CTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAATCTGCCT
* * *
11409457 CACTGCAACTTCAGGAGGATAAGACTTG-ATGC-GA-TCTGCTCT-CTGCAACTTCAGAGAGATA
1 CACTGCAACTTCAGGAGGATAAGACTTGCATGCTTAGTCTGCTCTACTGCAACTTTAGGGAGATA
* * **
11409518 AGATCCAAGGTTTTAATCCACTCCACTGCAACTTCAAGAAGATAGGATTATCGGCTTTAACCTGC
66 AGA--CTAGGATGCAATCCACTCCACTGCAACTTCAAGAAGATAGGATTATCGGCTTTAACCTGC
11409583 TCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAATCTGCCT
129 TCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAATCTGCCT
* * *
11409630 CACTGCAACTTCAGGAGGATAAGACTTGCTTGCTTAGTCTGCTCTATTACAACTTTAGGGAGATA
1 CACTGCAACTTCAGGAGGATAAGACTTGCATGCTTAGTCTGCTCTACTGCAACTTTAGGGAGATA
* * * * * **
11409695 AGACTA-GATGCGATCTACT-CTCTGCAACTTC-AGAGAGATAAGATCTGT-GATTTTAATCC-G
66 AGACTAGGATGCAATCCACTCCACTGCAACTTCAAGA-AGATAGGAT-TATCGGCTTTAA-CCTG
* * * ** *
11409755 TTCCACTGCAACTTCAGGGAGATAGGA-TTGTCGGCTTTAATCTG-CT
128 CTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAATCTGCCT
* *
11409801 CCACTGCAACCTCAGG-GAGATAAGATTTGCCAT-CTTCAGTCTGC-CTCACTGCAACTTTA-GG
1 -CACTGCAACTTCAGGAG-GATAAGACTTG-CATGCTT-AGTCTGCTCT-ACTGCAACTTTAGGG
11409862 AGGATAAGACT
61 A-GATAAGACT
11409873 TGCTTACTTA
Statistics
Matches: 368, Mismatches: 34, Indels: 28
0.86 0.08 0.07
Matches are distributed among these distances:
171 3 0.01
172 48 0.13
173 272 0.74
174 16 0.04
175 3 0.01
176 8 0.02
177 18 0.05
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (175 bp):
CACTGCAACTTCAGGAGGATAAGACTTGCATGCTTAGTCTGCTCTACTGCAACTTTAGGGAGATA
AGACTAGGATGCAATCCACTCCACTGCAACTTCAAGAAGATAGGATTATCGGCTTTAACCTGCTC
CACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAATCTGCCT
Found at i:11409901 original size:44 final size:44
Alignment explanation
Indices: 11408975--11409916 Score: 304
Period size: 44 Copynumber: 21.7 Consensus size: 44
11408965 CTCTAATCCA
* * * * * * * *
11408975 CTCCACTACAACTT-AGGGAGACAGGATTTGTTTATTTAGTATG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTACTTAATCTG
* * * * * * *
11409018 CCCCACTGCTATTTCAGGGGGATAAGGCTTGCTTTCTTGAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTACTT-AATCTG
* * * *
11409063 CTCCACTGCAACTTCAGGGAGATGAGAC-T-C-GA-TGTGATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTACT-TAATCTG
* ** * *
11409104 CTCTACTGCAACTTCATAGAGATAAGATCTGTGGTT--TTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGCTTACTTAATCTG
* * * * * * *
11409148 CTCCACTGCAACTTCAGGGAGACAGGATTTGTTTATTTAGTATG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTACTTAATCTG
* * * *
11409192 C-CACACTACAACTTCAAGGAGATAAGA-TTCGC-CATCTTCAGTCTG
1 CTC-CACTGCAACTTCAGGGAGATAAGACTT-GCTTA-CTT-AATCTG
* * * *
11409237 C-CTCACTGCAACTTTA-GGAGGATAAGACTTGATTACTTAGTCCG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCTTACTTAATCTG
* * * *
11409281 CTCCACTGCAACTTCAGGGAGATAAGACTAG-ATGC--GATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTACTTAATCTG
* * * ** * **
11409322 CT-CTCTGTAACTTCAGAGAGATAAGATCCAAGGTT--TTAATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGA--CTTGCTTACTTAATCTG
* * * *
11409365 CTCCACTGCAACTTCAGGAAGATAGGATTATCGGC-T--TTAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACT-T--GCTTACTTAATCTG
* * * * *
11409409 CTCCACTGTAACTTTAGGGAGATAAGATTTGC-CATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTA-CTT-AATCTG
* * *
11409454 C-CTCACTGCAACTTCA-GGAGGATAAGACTTG-ATGC--GATCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCTTACTTAATCTG
* * ** * **
11409495 CT-CTCTGCAACTTCAGAGAGATAAGATCCAAGGTT--TTAATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGA--CTTGCTTACTTAATCTG
* * * * *
11409538 CTCCACTGCAACTTCAAGAAGATAGGATTATCGGC-T--TTAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACT-T--GCTTACTTAATCTG
* *
11409582 CTCCACTGCAACTTCAGGGAGATAAGATTTGC-CATCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTA-CTT-AATCTG
* *
11409627 C-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTGCTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCTTACTTAATCTG
* * * * * * * * *
11409671 CTCTATTACAACTTTAGGGAGATAAGACTAG-ATGC--GATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTACTTAATCTG
* * * *
11409712 CT-CTCTGCAACTTCAGAGAGATAAGATCTGTGATT--TTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGCTTACTTAATCTG
* * **
11409755 TTCCACTGCAACTTCAGGGAGATAGGA-TTG-TCGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCT-TAC-TTAATCTG
* * * *
11409799 CTCCACTGCAACCTCAGGGAGATAAGATTTGC-CATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTA-CTT-AATCTG
* *
11409844 C-CTCACTGCAACTTTA-GGAGGATAAGACTTGCTTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCTTACTTAATCTG
*
11409888 CTCCACTGCAACTTTAGGGAGATAAGACT
1 CTCCACTGCAACTTCAGGGAGATAAGACT
11409917 AGATGCGATC
Statistics
Matches: 662, Mismatches: 163, Indels: 147
0.68 0.17 0.15
Matches are distributed among these distances:
40 59 0.09
41 52 0.08
42 13 0.02
43 40 0.06
44 329 0.50
45 165 0.25
46 4 0.01
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTACTTAATCTG
Found at i:11409939 original size:390 final size:389
Alignment explanation
Indices: 11409195--11409993 Score: 1070
Period size: 390 Copynumber: 2.0 Consensus size: 389
11409185 TAGTATGCCA
* * * *
11409195 CACTACAACTTCAAGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTGCAACTTTAGGAGGAT
1 CACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAATCTGCCTCACTGCAACTTCAGGAGGAT
* *
11409260 AAGACTTGATTACTTAGTCCGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTC
66 AAGACTTGATTACTTAGTCCGCTCCACTACAACTTCAGGGAGATAAGACTAGATGCGATCTACTC
* *
11409325 TCTGTAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAG
131 TCTGCAACTTCAGAGAGATAAGATCCAAGATTTTAATCCACTCCACTGCAACTTCAGGAAGATAG
* * *
11409390 GATTATCGGCTTTAACCTGCTCCACTGTAACTTTAGGGAGATAAGATTTGCCATCTTCAGTCTGC
196 GATTATCGGCTTTAACCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCAGTCTGC
* *
11409455 CTCACTGCAACTTCAGGAGGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAG
261 CTCACTGCAACTTCAGGAGGATAAGACTTGATACGATCTGCTCACTGCAACTTCAGAGAGATAAG
* ** * * *
11409520 ATCCAAGGTTTTAATCCACTCCACTGCAACTTCA-AGAAGATAGGAT-TATCGGCTTTAA-CCTG
326 A-CCAAGGATGCAATCCACTCCACTGCAACTTCAGAG-AGATAAGATCCA-AGGCTTTAATCC-G
11409582 CTC
387 CTC
*
11409585 CACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAATCTGCCTCACTGCAACTTCAGGAGGAT
1 CACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAATCTGCCTCACTGCAACTTCAGGAGGAT
* * * * * *
11409650 AAGACTTGCTTGCTTAGTCTGCTCTATTACAACTTTAGGGAGATAAGACTAGATGCGATCTACTC
66 AAGACTTGATTACTTAGTCCGCTCCACTACAACTTCAGGGAGATAAGACTAGATGCGATCTACTC
*** ** *
11409715 TCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGTTCCACTGCAACTTCAGGGAGATAG
131 TCTGCAACTTCAGAGAGATAAGATCCAAGATTTTAATCCACTCCACTGCAACTTCAGGAAGATAG
* *
11409780 GATTGTCGGCTTTAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCAGTCTGC
196 GATTATCGGCTTTAACCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCAGTCTGC
* * * * *
11409845 CTCACTGCAACTTTAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTTAGGGAGA
261 CTCACTGCAACTTCAGGAGGATAAGACTTG-ATAC-GA-TCTGCT-CACTGCAACTTCAGAGAGA
* * ** * *
11409910 TAAGA-CTA-GATGCGATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCG
322 TAAGACCAAGGATGCAATCCACTCCACTGCAACTTCAGAGAGATAAGATCCAAGGCTTTAATCCG
11409972 CTC
387 CTC
*
11409975 CACTGCAAATTCAGGGAGA
1 CACTGCAACTTCAGGGAGA
11409994 CAAGGCTTTG
Statistics
Matches: 356, Mismatches: 46, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
390 312 0.88
391 14 0.04
392 3 0.01
393 6 0.02
394 21 0.06
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (389 bp):
CACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAATCTGCCTCACTGCAACTTCAGGAGGAT
AAGACTTGATTACTTAGTCCGCTCCACTACAACTTCAGGGAGATAAGACTAGATGCGATCTACTC
TCTGCAACTTCAGAGAGATAAGATCCAAGATTTTAATCCACTCCACTGCAACTTCAGGAAGATAG
GATTATCGGCTTTAACCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCAGTCTGC
CTCACTGCAACTTCAGGAGGATAAGACTTGATACGATCTGCTCACTGCAACTTCAGAGAGATAAG
ACCAAGGATGCAATCCACTCCACTGCAACTTCAGAGAGATAAGATCCAAGGCTTTAATCCGCTC
Found at i:11410041 original size:217 final size:213
Alignment explanation
Indices: 11409412--11410061 Score: 806
Period size: 217 Copynumber: 3.0 Consensus size: 213
11409402 TAACCTGCTC
* * * *
11409412 CACTGTAACTTTAGG-GAGATAAGATTTGC-CATCTTCAGTCTGC-CTCACTGCAACTTCA-GGA
1 CACTGCAACTTTAGGAG-GATAAGACTTGCTTA-CTT-AGTCTGCTC-CACTGCAACTTTAGGGA
* *
11409473 GGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCA
62 -GATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCG
* * * * *
11409538 CTCCACTGCAACTTCAAGAAGATAGGATTATCGGCTTTAACCTGCTCCACTGCAACTTCAGGGAG
126 CTCCACTGCAACTTCAGGGAGATAGGTTTGT-GGCTTTAATCTGCTCCACT-CAACTT--GGGAG
11409603 ATAAGATTTGCCATCTTCAATCTGCCT
187 ATAAGATTTGCCATCTTCAATCTGCCT
* * * * *
11409630 CACTGCAACTTCAGGAGGATAAGACTTGCTTGCTTAGTCTGCTCTATTACAACTTTAGGGAGATA
1 CACTGCAACTTTAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTTAGGGAGATA
* *** * *
11409695 AGACTAGATGCGATCTACTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGTTCCA
66 AGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCA
* *
11409760 CTGCAACTTCAGGGAGATAGGATTGTCGGCTTTAATCTGCTCCACTGCAACCTCAGGGAGATAAG
131 CTGCAACTTCAGGGAGATAGGTTTGT-GGCTTTAATCTGCTCCACT-CAA-CT-TGGGAGATAAG
*
11409825 ATTTGCCATCTTCAGTCTGCCT
192 ATTTGCCATCTTCAATCTGCCT
11409847 CACTGCAACTTTAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTTAGGGAGATA
1 CACTGCAACTTTAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTTAGGGAGATA
11409912 AGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCA
66 AGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCA
* * * * *
11409977 CTGCAAATTCAGGGAGACAAGGCTTTGTGGCTTCAATCTGCTTCCCACT-ATCTTGGAAAGATAA
131 CTGCAACTTCAGGGAGA-TAGG-TTTGTGGCTTTAATCTGC-T-CCACTCAACTTGG-GAGATAA
** *
11410041 GATTTGCTGTCTTCGATCTGC
191 GATTTGCCATCTTCAATCTGC
11410062 TCCACTACTG
Statistics
Matches: 376, Mismatches: 45, Indels: 23
0.85 0.10 0.05
Matches are distributed among these distances:
216 2 0.01
217 314 0.84
218 49 0.13
219 6 0.02
220 5 0.01
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (213 bp):
CACTGCAACTTTAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTTAGGGAGATA
AGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCA
CTGCAACTTCAGGGAGATAGGTTTGTGGCTTTAATCTGCTCCACTCAACTTGGGAGATAAGATTT
GCCATCTTCAATCTGCCT
Found at i:11410083 original size:44 final size:44
Alignment explanation
Indices: 11410035--11410483 Score: 137
Period size: 44 Copynumber: 10.2 Consensus size: 44
11410025 TATCTTGGAA
*
11410035 AGATAAGATTTGCTGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCTGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * ** * * * * * *
11410079 AGATAATATCTACAATCTTCAACCTACTTCGCTGCTGCTCAGGG
1 AGATAAGATTTGCTGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** * * * *
11410123 AGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATTTGCTGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
* * * *
11410167 AGATAAGATTTG-TCATCTTCGATCAGCTCCGCTACTGCTTAGGG
1 AGATAAGATTTGCT-GTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * * ** * *
11410211 AGATAAGATCTACAATCTTCAACCTTCTCTGCTGCTGCTCAGGG
1 AGATAAGATTTGCTGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** * * * *
11410255 AGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATTTGCTGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
* ** * *
11410299 AGATAAGATTTGCCGTCTTTGATCTG-TTCATCTACTACTTAGGG
1 AGATAAGATTTGCTGTCTTCAATCTGCTCCA-CTACTGCTTAGGG
* * ** * * * * *
11410343 AGATAAGATCTACAATCTTCAACCTACTCCGCTACTGCTCAGGA
1 AGATAAGATTTGCTGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** * * * * *
11410387 AGACAAGGCTTGGTGGCTTAAATTTGCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATTTGCTGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
* * *
11410431 AGATAAGATTTGCCGTATTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCTGTCTTCAATCTGCTCCACTACTGCTTAGGG
11410475 AGATAAGAT
1 AGATAAGAT
11410484 CTACAATCTT
Statistics
Matches: 267, Mismatches: 116, Indels: 44
0.63 0.27 0.10
Matches are distributed among these distances:
41 2 0.01
42 15 0.06
43 12 0.04
44 213 0.80
45 14 0.05
46 11 0.04
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.31
Consensus pattern (44 bp):
AGATAAGATTTGCTGTCTTCAATCTGCTCCACTACTGCTTAGGG
Found at i:11410083 original size:132 final size:131
Alignment explanation
Indices: 11409985--11410533 Score: 875
Period size: 132 Copynumber: 4.2 Consensus size: 131
11409975 CACTGCAAAT
* * *
11409985 TCAGGGAGACAAGGCTTTGTGGCTTCAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCTG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
* *
11410050 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAATATCTACAATCTTCAACCTACTTCGCTGCT
66 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC-ACAATCTTCAACCTACTCCGCTGCT
11410115 GC
130 GC
* *
11410117 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCA
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
* * * *
11410182 TCTTCGATCAGCTCCGCTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCTGCTGCT
66 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC-ACAATCTTCAACCTACTCCGCTGCT
11410247 GC
130 GC
11410249 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
* * * *
11410314 TCTTTGATCTG-TTCATCTACTACTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTAC
66 TCTTCGATCTGCTCCA-CTACTGCTTAGGGAGATAAGATC-ACAATCTTCAACCTACTCCGCTGC
11410378 TGC
129 TGC
* *
11410381 TCAGGAAGACAAGGCTTGGTGGCTTAAATTTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
* *
11410446 TATTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGTTGCT
66 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC-ACAATCTTCAACCTACTCCGCTGCT
11410511 GC
130 GC
11410513 TCAGGGAGACAAGGCTTGGTG
1 TCAGGGAGACAAGGCTTGGTG
11410534 TTTCACCAGT
Statistics
Matches: 385, Mismatches: 30, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
131 2 0.01
132 380 0.99
133 3 0.01
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (131 bp):
TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCACAATCTTCAACCTACTCCGCTGCTG
C
Found at i:11414000 original size:39 final size:40
Alignment explanation
Indices: 11413957--11414219 Score: 291
Period size: 40 Copynumber: 6.6 Consensus size: 40
11413947 TCCTCGTTCA
* * * * *
11413957 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
11413996 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
11414036 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
11414076 AATGCCTTCGGGACTTAACCCGGATTTAATATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * *
11414116 AAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGG-ATTTAATAACTCGCACG
** * * * *
11414156 AATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
11414196 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
11414220 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 39 0.20
40 146 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:11414228 original size:41 final size:41
Alignment explanation
Indices: 11414151--11414228 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
11414141 TTTGTATCTC
* * *
11414151 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
11414192 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
11414229 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:11419890 original size:23 final size:23
Alignment explanation
Indices: 11419859--11420028 Score: 114
Period size: 23 Copynumber: 7.2 Consensus size: 23
11419849 TAGGTAGATG
* *
11419859 TATACTATAAAAAAAAGCATATA
1 TATATTATAAAAAAAAGCGTATA
**
11419882 TATATTATATAAAAAAATGCGTGCA
1 TATATTATA-AAAAAAA-GCGTATA
*
11419907 TACTA-TATAAAAAAATGC--ATA
1 TA-TATTATAAAAAAAAGCGTATA
* * **
11419928 TATATTATATAAAAACGCGTGCA
1 TATATTATAAAAAAAAGCGTATA
* *
11419951 TACTA-TATATAAAAATGCGTATA
1 TA-TATTATAAAAAAAAGCGTATA
*
11419974 TATTATTATAAAAAAATGCGTATGTA
1 TA-TATTATAAAAAAAAGCGTA--TA
* *
11420000 TATTATTATAAAAAAATGCGTATG
1 TA-TATTATAAAAAAAAGCGTATA
11420024 TATAT
1 TATAT
11420029 ATAGTAATAA
Statistics
Matches: 120, Mismatches: 17, Indels: 20
0.76 0.11 0.13
Matches are distributed among these distances:
20 2 0.02
21 14 0.12
23 35 0.29
24 33 0.28
25 10 0.08
26 26 0.22
ACGTcount: A:0.49, C:0.08, G:0.09, T:0.34
Consensus pattern (23 bp):
TATATTATAAAAAAAAGCGTATA
Found at i:11419930 original size:44 final size:46
Alignment explanation
Indices: 11419860--11420019 Score: 177
Period size: 44 Copynumber: 3.4 Consensus size: 46
11419850 AGGTAGATGT
11419860 ATACTATA-AAAAAAA-GC-ATATATATATTATATAAAAAAATGCGTGC
1 ATACTATATAAAAAAATGCGATATAT-TA-T-TATAAAAAAATGCGTGC
* *
11419906 ATACTATATAAAAAAATGC-ATATA-TATTATATAAAAACGCGTGC
1 ATACTATATAAAAAAATGCGATATATTATTATAAAAAAATGCGTGC
* *
11419950 ATACTATATATAAAAATGCGTATATATTATTATAAAAAAATGCGTATGT
1 ATACTATATAAAAAAATGCG-ATATATTATTATAAAAAAATGCG--TGC
*
11419999 ATATTATTATAAAAAAATGCG
1 ATACTA-TATAAAAAAATGCG
11420020 TATGTATATA
Statistics
Matches: 98, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
44 33 0.34
45 1 0.01
46 15 0.15
47 22 0.22
48 7 0.07
49 7 0.07
50 13 0.13
ACGTcount: A:0.51, C:0.08, G:0.09, T:0.32
Consensus pattern (46 bp):
ATACTATATAAAAAAATGCGATATATTATTATAAAAAAATGCGTGC
Found at i:11419983 original size:26 final size:24
Alignment explanation
Indices: 11419880--11420022 Score: 145
Period size: 23 Copynumber: 6.1 Consensus size: 24
11419870 AAAAAGCATA
11419880 TATATATTA-TATAAAAAAATGCG
1 TATATATTATTATAAAAAAATGCG
** *
11419903 TGCATACTA-TATAAAAAAATGC-
1 TATATATTATTATAAAAAAATGCG
* *
11419925 -ATATA-TATTATATAAAAACGCG
1 TATATATTATTATAAAAAAATGCG
** * *
11419947 TGCATACTA-TATATAAAAATGCG
1 TATATATTATTATAAAAAAATGCG
11419970 TATATATTATTATAAAAAAATGCG
1 TATATATTATTATAAAAAAATGCG
11419994 TATGTATATTATTATAAAAAAATGCG
1 TA--TATATTATTATAAAAAAATGCG
11420020 TAT
1 TAT
11420023 GTATATATAG
Statistics
Matches: 99, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
20 2 0.02
21 14 0.14
23 41 0.41
24 18 0.18
26 24 0.24
ACGTcount: A:0.48, C:0.08, G:0.10, T:0.34
Consensus pattern (24 bp):
TATATATTATTATAAAAAAATGCG
Found at i:11420000 original size:28 final size:28
Alignment explanation
Indices: 11419969--11420030 Score: 110
Period size: 26 Copynumber: 2.3 Consensus size: 28
11419959 ATAAAAATGC
11419969 GTATATATTATTATAAAAAAATGCGTAT
1 GTATATATTATTATAAAAAAATGCGTAT
11419997 G--TATATTATTATAAAAAAATGCGTAT
1 GTATATATTATTATAAAAAAATGCGTAT
11420023 GTATATAT
1 GTATATAT
11420031 AGTAATAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
26 26 0.81
28 6 0.19
ACGTcount: A:0.45, C:0.03, G:0.11, T:0.40
Consensus pattern (28 bp):
GTATATATTATTATAAAAAAATGCGTAT
Found at i:11420041 original size:3 final size:3
Alignment explanation
Indices: 11420033--11420079 Score: 62
Period size: 3 Copynumber: 16.0 Consensus size: 3
11420023 GTATATATAG
*
11420033 TAA TAA TAA TAA TAA CAA TAA TAA TAA TAA TAA -AA TTAA TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA
11420077 TAA
1 TAA
11420080 ACTAAAAATC
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 4 0.10
3 33 0.85
4 2 0.05
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:11420526 original size:22 final size:21
Alignment explanation
Indices: 11420491--11420567 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 21
11420481 AAAGGGTATC
* *
11420491 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
11420512 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
*
11420535 TACATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
11420554 TGCATATCATATCT
1 TACAAATCATATCT
11420568 AAGATTGCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
19 18 0.38
21 4 0.08
22 15 0.31
23 11 0.23
ACGTcount: A:0.42, C:0.17, G:0.05, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:11420534 original size:23 final size:22
Alignment explanation
Indices: 11420491--11420548 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
11420481 AAAGGGTATC
* *
11420491 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
11420512 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
11420535 TACATATCATATCT
1 TACAAATCATATCT
11420549 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:11420551 original size:19 final size:19
Alignment explanation
Indices: 11420504--11420580 Score: 91
Period size: 19 Copynumber: 3.8 Consensus size: 19
11420494 AAATTAAATC
*
11420504 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
11420524 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
11420546 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
11420565 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
11420581 CTCGAAGATT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
19 34 0.65
22 7 0.13
23 11 0.21
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:11421813 original size:11 final size:11
Alignment explanation
Indices: 11421799--11421824 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
11421789 ATTTTTTTAA
11421799 TTTTAAAATAC
1 TTTTAAAATAC
11421810 TTTTAAAATAC
1 TTTTAAAATAC
11421821 TTTT
1 TTTT
11421825 TTTATTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:11421835 original size:42 final size:38
Alignment explanation
Indices: 11421779--11421872 Score: 145
Period size: 42 Copynumber: 2.4 Consensus size: 38
11421769 TAAATATATT
11421779 TATTTTTTTAATTTTTTTAATTTTAAAATACTTTTAAAA
1 TATTTTTTTAATTTTTTTAATTTTAAAATA-TTTTAAAA
11421818 TACTTTTTTTATTATTTTTTTAATTTTAAAATATTTTAAAA
1 TA-TTTTTTTA--ATTTTTTTAATTTTAAAATATTTTAAAA
11421859 TA-TTTTTTAATTTT
1 TATTTTTTTAATTTT
11421873 AAAATATTTT
Statistics
Matches: 52, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
37 5 0.10
39 9 0.17
40 8 0.15
41 10 0.19
42 20 0.38
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (38 bp):
TATTTTTTTAATTTTTTTAATTTTAAAATATTTTAAAA
Found at i:11421865 original size:28 final size:30
Alignment explanation
Indices: 11421810--11421910 Score: 125
Period size: 28 Copynumber: 3.3 Consensus size: 30
11421800 TTTAAAATAC
** * *
11421810 TTTTAAAATACTTTTTTTATTATTTTTTTAA
1 TTTTAAAATA-TTTTTAAAATACTTTTTTAA
11421841 TTTTAAAATA-TTTTAAAATA-TTTTTTAA
1 TTTTAAAATATTTTTAAAATACTTTTTTAA
11421869 TTTTAAAATATTTTTAAAATACTTTTTTTAA
1 TTTTAAAATATTTTTAAAATAC-TTTTTTAA
11421900 TTTTTAAAATA
1 -TTTTAAAATA
11421911 AATTTTTGGT
Statistics
Matches: 63, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
28 18 0.29
29 17 0.27
31 18 0.29
32 10 0.16
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (30 bp):
TTTTAAAATATTTTTAAAATACTTTTTTAA
Found at i:11421868 original size:12 final size:10
Alignment explanation
Indices: 11421840--11421894 Score: 60
Period size: 10 Copynumber: 5.5 Consensus size: 10
11421830 TATTTTTTTA
11421840 ATTTTAAAAT
1 ATTTTAAAAT
11421850 ATTTTAAAAT
1 ATTTTAAAAT
**
11421860 ATTTT-TTA-
1 ATTTTAAAAT
11421868 ATTTTAAAAT
1 ATTTTAAAAT
11421878 ATTTTTAAAAT
1 A-TTTTAAAAT
11421889 ACTTTT
1 A-TTTT
11421895 TTTAATTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
8 5 0.14
9 2 0.05
10 16 0.43
11 14 0.38
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (10 bp):
ATTTTAAAAT
Found at i:11421916 original size:21 final size:21
Alignment explanation
Indices: 11421878--11421917 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
11421868 ATTTTAAAAT
**
11421878 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATAAATTTTTTA
11421899 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
11421918 GGTATTTATT
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:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTTAAAATAAATTTTTTA
Found at i:11421924 original size:22 final size:20
Alignment explanation
Indices: 11421877--11421931 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 20
11421867 AATTTTAAAA
* *
11421877 TATTTTTAAAATACTTTTTT
1 TATTTTTAAAATAATTTTTG
11421897 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAAT-AATTTTT-G
11421920 TATTTATTAAAA
1 TATTT-TTAAAA
11421932 AATGGGCCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 1 0.03
21 11 0.38
22 10 0.34
23 7 0.24
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (20 bp):
TATTTTTAAAATAATTTTTG
Found at i:11422958 original size:29 final size:28
Alignment explanation
Indices: 11422913--11422970 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
11422903 TCTAAATTTG
* *
11422913 AATTTTTTTTTCTTAATTTAGTACTTAA
1 AATTTTTTTTTCTTAATTTAATACATAA
11422941 AATTTTTTTTAGTC-TAATTTAATACATAA
1 AATTTTTTTT--TCTTAATTTAATACATAA
11422970 A
1 A
11422971 CTTGACACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 10 0.38
29 14 0.54
30 2 0.08
ACGTcount: A:0.34, C:0.07, G:0.03, T:0.55
Consensus pattern (28 bp):
AATTTTTTTTTCTTAATTTAATACATAA
Found at i:11423016 original size:60 final size:60
Alignment explanation
Indices: 11422920--11423068 Score: 167
Period size: 60 Copynumber: 2.5 Consensus size: 60
11422910 TTGAATTTTT
* * *
11422920 TTTTCTTAATTT-AGTACTTAAAATTTTTTTTAGTCTAATTTAATACATAAACTTGACACA
1 TTTTCCTAATTTGA-TACCTAAAATTTTTTTGAGTCTAATTTAATACATAAACTTGACACA
* * ** * **
11422980 TTTTCCTAATTTGATACCTAAACTTTTTTTGGGTCTAATTTGGTACCTAAACTTGACAGT
1 TTTTCCTAATTTGATACCTAAAATTTTTTTGAGTCTAATTTAATACATAAACTTGACACA
* *
11423040 TTTTCCTAATTTGGTACCT-AATTTTTTTT
1 TTTTCCTAATTTGATACCTAAAATTTTTTT
11423069 AGGTTCAATT
Statistics
Matches: 76, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
59 9 0.12
60 66 0.87
61 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.09, T:0.50
Consensus pattern (60 bp):
TTTTCCTAATTTGATACCTAAAATTTTTTTGAGTCTAATTTAATACATAAACTTGACACA
Found at i:11425275 original size:30 final size:30
Alignment explanation
Indices: 11425217--11425297 Score: 108
Period size: 30 Copynumber: 2.7 Consensus size: 30
11425207 AATCCCCAAA
* * *
11425217 AAGTTTAAGTACCAACTTAAGAAAAAGTGTC
1 AAGTTTAGGTACCAAATT-AGGAAAAGTGTC
* *
11425248 AAGTTTTGGTACTAAATTAGGAAAAGTGTC
1 AAGTTTAGGTACCAAATTAGGAAAAGTGTC
11425278 AAGTTTAGGTACCAAATTAG
1 AAGTTTAGGTACCAAATTAG
11425298 ACCAAAAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
30 29 0.67
31 14 0.33
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.30
Consensus pattern (30 bp):
AAGTTTAGGTACCAAATTAGGAAAAGTGTC
Found at i:11425326 original size:89 final size:91
Alignment explanation
Indices: 11425161--11425353 Score: 248
Period size: 89 Copynumber: 2.1 Consensus size: 91
11425151 AATAAAAAGA
* * ** *
11425161 TTAGGTACCAAATTAGGAAAACGAGTTAAGTTCATGTACCAAATTGAATCCCCAAAAAGTTTAAG
1 TTAGGTACCAAATTAGGAAAACGAGTCAAGTTCAGGTACCAAATTGAATCCAAAAAAAATTTAAG
* *
11425226 TACCAACTTAAGAAAAAGTGTCAAGT
66 TACCAAATTAAGAAAAAGTGTCAAAT
* * * *
11425252 TTTGGTACTAAATTAGGAAAA-GTGTCAAGTTTAGGTACCAAATT-AGA-CCAAAAAAAATTTAA
1 TTAGGTACCAAATTAGGAAAACGAGTCAAGTTCAGGTACCAAATTGA-ATCCAAAAAAAATTTAA
11425314 GTACCAAATTAAGAAAAAGTGTCAAAT
65 GTACCAAATTAAGAAAAAGTGTCAAAT
*
11425341 TTAGGTATCAAAT
1 TTAGGTACCAAAT
11425354 ATTATCCTAA
Statistics
Matches: 87, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
89 48 0.55
90 20 0.23
91 19 0.22
ACGTcount: A:0.45, C:0.12, G:0.16, T:0.27
Consensus pattern (91 bp):
TTAGGTACCAAATTAGGAAAACGAGTCAAGTTCAGGTACCAAATTGAATCCAAAAAAAATTTAAG
TACCAAATTAAGAAAAAGTGTCAAAT
Found at i:11429788 original size:11 final size:11
Alignment explanation
Indices: 11429774--11429799 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
11429764 TTAAAAATAC
11429774 ATTATTTTAAA
1 ATTATTTTAAA
11429785 ATTATTTTAAA
1 ATTATTTTAAA
11429796 ATTA
1 ATTA
11429800 AACATGTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
ATTATTTTAAA
Found at i:11431304 original size:71 final size:71
Alignment explanation
Indices: 11431172--11431304 Score: 180
Period size: 71 Copynumber: 1.9 Consensus size: 71
11431162 CTTTATATAT
* * * * *
11431172 AATATTTATGTCAAATATTTATTTTTTCCATCTATATTTTGAGTATGATGATTTCTAATATTATA
1 AATAATTATGTCAAATATTTATTTTTTCCATCTACATTGTAAGTATGATGATTTCAAATATTATA
11431237 AAATCA
66 AAATCA
*
11431243 AATAATTATTTCAAATATCATTATTTTTT-CATCTACATTGTAAGTATGAT-ATTTCAAATATT
1 AATAATTATGTCAAATAT--TTATTTTTTCCATCTACATTGTAAGTATGATGATTTCAAATATT
11431305 TTTATATGTG
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
71 27 0.50
72 18 0.33
73 9 0.17
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.49
Consensus pattern (71 bp):
AATAATTATGTCAAATATTTATTTTTTCCATCTACATTGTAAGTATGATGATTTCAAATATTATA
AAATCA
Found at i:11436476 original size:37 final size:37
Alignment explanation
Indices: 11436426--11436499 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
11436416 AGGGTTTGAT
11436426 AGATTAATTCATATTATTAACGAACAAATTAAGTACC
1 AGATTAATTCATATTATTAACGAACAAATTAAGTACC
11436463 AGATTAATTCATATTATTAACGAACAAATTAAGTACC
1 AGATTAATTCATATTATTAACGAACAAATTAAGTACC
11436500 TAGGTAGTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.46, C:0.14, G:0.08, T:0.32
Consensus pattern (37 bp):
AGATTAATTCATATTATTAACGAACAAATTAAGTACC
Found at i:11439033 original size:54 final size:54
Alignment explanation
Indices: 11438943--11439045 Score: 136
Period size: 54 Copynumber: 1.9 Consensus size: 54
11438933 CATGTCTTAA
* * * * *
11438943 ACCGTGTAACTCACTGAGTTATGTCACATGGTCGTGTCATAGGCCGTGTGCTAG
1 ACCGTGTAACTCACTGACTTATGACACAAGGCCGTGTCATAGCCCGTGTGCTAG
*
11438997 ACCGTGTAACTCACTGACTTGAT-ACACAAGGCCGTGTGATAGCCCGTGT
1 ACCGTGTAACTCACTGACTT-ATGACACAAGGCCGTGTCATAGCCCGTGT
11439046 CCCAAGCCGT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
54 40 0.95
55 2 0.05
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.27
Consensus pattern (54 bp):
ACCGTGTAACTCACTGACTTATGACACAAGGCCGTGTCATAGCCCGTGTGCTAG
Found at i:11439056 original size:54 final size:54
Alignment explanation
Indices: 11438943--11439057 Score: 126
Period size: 54 Copynumber: 2.1 Consensus size: 54
11438933 CATGTCTTAA
* * * * * * *
11438943 ACCGTGTAACTCACTGAGTTATGTCACATGGTCGTGTCATAGGCCGTGTGCTAG
1 ACCGTGTAACTCACTGACTTATGACACAAGGCCGTGTCATAGCCCGTGTCCAAG
*
11438997 ACCGTGTAACTCACTGACTTGAT-ACACAAGGCCGTGTGATAGCCCGTGTCCCAAG
1 ACCGTGTAACTCACTGACTT-ATGACACAAGGCCGTGTCATAGCCCGTGT-CCAAG
11439052 -CCGTGT
1 ACCGTGT
11439058 GCTCTATAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
54 46 0.90
55 5 0.10
ACGTcount: A:0.22, C:0.26, G:0.26, T:0.26
Consensus pattern (54 bp):
ACCGTGTAACTCACTGACTTATGACACAAGGCCGTGTCATAGCCCGTGTCCAAG
Found at i:11455201 original size:20 final size:20
Alignment explanation
Indices: 11455150--11455201 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
11455140 TTTAACTATG
*
11455150 ATTAAACTTAATCGCTTTAAT
1 ATTAAA-TTAATCACTTTAAT
*
11455171 ATTAAGA-TAATCACTTTGAT
1 ATTAA-ATTAATCACTTTAAT
11455191 ATTAAATTAAT
1 ATTAAATTAAT
11455202 AAAATGTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 1 0.04
20 20 0.74
21 5 0.19
22 1 0.04
ACGTcount: A:0.42, C:0.10, G:0.06, T:0.42
Consensus pattern (20 bp):
ATTAAATTAATCACTTTAAT
Found at i:11460108 original size:17 final size:17
Alignment explanation
Indices: 11460086--11460119 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11460076 TTCTGGGATG
11460086 ACTATTCACCACTGAAA
1 ACTATTCACCACTGAAA
*
11460103 ACTATTCACCATTGAAA
1 ACTATTCACCACTGAAA
11460120 GAGATAATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.41, C:0.26, G:0.06, T:0.26
Consensus pattern (17 bp):
ACTATTCACCACTGAAA
Found at i:11470015 original size:44 final size:43
Alignment explanation
Indices: 11469952--11470389 Score: 307
Period size: 44 Copynumber: 9.9 Consensus size: 43
11469942 GAAGATGGTG
* *
11469952 AATCTTATCTCCCTGAAGTTGCAGTAGAGCATATTAAAGCCAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAA
* * * * **
11469995 TAATCCTATCTCCCTAAAGTTTCAGTGGAAC-GAATTAAAGTTACA
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAG-ATTAAAGCCA-A
* * * * **
11470040 AGTCTTATCTCCCTGAAGTAGCAGTGGAGCAGACTGAAGAAAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAA
* * * *
11470083 CAAGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAAGATG-GAA
1 -AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-A-GCCAA
* *
11470130 AATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTAAAGCCAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAA
* * **
11470173 TAAT-TCTATCTCCCTGAGGTTGCAGTGGAGCGGATTAAAGTTACA
1 -AATCT-TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-A
* * * *
11470218 AGTCTTATCTCCTTGAAGTTGCAGTGGAGTAGACTGACGAAAG-C-A
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T---TAAAGCCAA
** * * * *
11470263 GGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAAGATG-GAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-A-GCCAA
* *
11470308 AATCTTATCTCCCTAAAGTT-TAGTGGAGCAGATTAAAGCCAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAA
*
11470350 TAAT-TCTATCTCCCTGAGGTTGCAGTGGAGCAGATTAAAG
1 -AATCT-TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG
11470390 TTACAAGTCT
Statistics
Matches: 308, Mismatches: 62, Indels: 48
0.74 0.15 0.11
Matches are distributed among these distances:
41 1 0.00
42 8 0.03
43 25 0.08
44 155 0.50
45 108 0.35
46 3 0.01
47 3 0.01
48 5 0.02
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAA
Found at i:11470099 original size:45 final size:45
Alignment explanation
Indices: 11469954--11470882 Score: 298
Period size: 45 Copynumber: 20.7 Consensus size: 45
11469944 AGATGGTGAA
* * * * ** *
11469954 TCTTATCTCCCTGAAGTTGCAGTAGAGCATATTAAAGCCAATAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAACAAG
* * * * * * **
11469998 TCCTATCTCCCTAAAGTTTCAGTGGAAC-GAATTAA-AGTTACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGA-AAACAAG
*
11470042 TCTTATCTCCCTGAAGTAGCAGTGGAGCAGACTGAAGAAAACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAACAAG
* * *
11470087 TCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGAA-AA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGA--AAACAAG
* * * * ** * *
11470132 TCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTAAAGCCAATAAT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAACAAG
* * * * **
11470177 TC-TATCTCCCTGAGGTTGCAGTGGAGCGGATTAAAG-TTACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAACAAG
* * * * *
11470220 TCTTATCTCCTTGAAGTTGCAGTGGAGTAGACTGACGAAAGCAGG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAACAAG
* * *
11470265 TCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGAA-AA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGA--AAACAAG
* * * * ** * *
11470310 TCTTATCTCCCTAAAGTT-TAGTGGAGCAGATTAAAGCCAATAAT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAACAAG
* * * **
11470354 TC-TATCTCCCTGAGGTTGCAGTGGAGCAGATTAAAG-TTACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAACAAG
** * * * * *
11470397 TCTTGCCTCCCT-AAGTTTACAGCGGAGCAGACTGACGATAGC-AG
1 TCTTATCTCCCTGAAG-TTGCAGTGGAGCAGACTGAAGAAAACAAG
* * * * * * * * * ** *
11470441 ATCTTGTCTTCTTGTACTAGCAGCGAAGTAGA-TCGAAG-GCACCAG
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-GAAGAAAACAAG
* ** * * * *
11470486 CCTTGCCTCCCTG-AGTTTGCAGCGGAGTAGACTGAAGATAA-TAG
1 TCTTATCTCCCTGAAG-TTGCAGTGGAGCAGACTGAAGAAAACAAG
* * * * * **
11470530 ATCTTGTCTTCCT-ATA-TTGGCAGCGAAGTAGA-TCGAAG-TTACAAG
1 -TCTTATCTCCCTGA-AGTT-GCAGTGGAGCAGACT-GAAGAAAACAAG
* * * *
11470575 TTTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATAGCGAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAAC-AAG
* * * * *
11470620 TCTTATTTCCCTGAAGTTGCAGAGGAACAGATTGAAGCTATAAATTACAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG--A-AAA-CA-AG
* ** * **
11470670 ATCTTATCTCTCTGAAGTTGCAGTAAAGCAGA-TCATATCAAAC---
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGA-AGAAAACAAG
* * * ** *** *
11470713 -CTTATCTCCATAAAGTTGTAGTGGAGCAGGTTGAAG-TTGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAACAAG
* * * * *
11470756 TCTTATCTCCCTGAAGTTGCAATAGAGCAGACTAAAGATAGCGAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAAC-AAG
* * ** * *
11470801 TATTATTTCTTTGAAGTTGCAGTGGAGCAGATTGAAGTTATAAATTACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG----AAA--ACAAG
11470852 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
11470883 TTAACCCTAT
Statistics
Matches: 650, Mismatches: 177, Indels: 109
0.69 0.19 0.12
Matches are distributed among these distances:
40 1 0.00
41 24 0.04
42 4 0.01
43 37 0.06
44 249 0.38
45 255 0.39
46 10 0.02
47 4 0.01
48 5 0.01
49 3 0.00
50 4 0.01
51 54 0.08
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.28
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAACAAG
Found at i:11470244 original size:178 final size:178
Alignment explanation
Indices: 11469942--11470431 Score: 750
Period size: 178 Copynumber: 2.8 Consensus size: 178
11469932 ATGGATTGAA
** * * *
11469942 GAAGATGGTGAATCTTATCTCCCTGAAGTTGCAGTAGAGCATATTAAAGCCAATAATCCTATCTC
1 GAAGATGGAAAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTAAAGCCAATAATTCTATCTC
* * * * * *
11470007 CCTAAAGTTTCAGTGGAACGAATTAAAGTTACAAGTCTTATCTCCCTGAAGTAGCAGTGGAGCAG
66 CCTGAGGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAG
11470072 ACTGAAGAAAACAAGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACT
131 ACTGAAGAAAACAAGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACT
11470120 GAAGATGGAAAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTAAAGCCAATAATTCTATCTC
1 GAAGATGGAAAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTAAAGCCAATAATTCTATCTC
* *
11470185 CCTGAGGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCTTGAAGTTGCAGTGGAGTAG
66 CCTGAGGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAG
* * *
11470250 ACTGACGAAAGCAGGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACT
131 ACTGAAGAAAACAAGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACT
* *
11470298 GAAGATGGAAAATCTTATCTCCCTAAAGTT-TAGTGGAGCAGATTAAAGCCAATAATTCTATCTC
1 GAAGATGGAAAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTAAAGCCAATAATTCTATCTC
* ** * *
11470362 CCTGAGGTTGCAGTGGAGCAGATTAAAGTTACAAGTCTTGCCTCCCT-AAGTTTACAGCGGAGCA
66 CCTGAGGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTGAAG-TTGCAGTGGAGCA
11470426 GACTGA
130 GACTGA
11470432 CGATAGCAGA
Statistics
Matches: 286, Mismatches: 25, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
176 3 0.01
177 92 0.32
178 191 0.67
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (178 bp):
GAAGATGGAAAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTAAAGCCAATAATTCTATCTC
CCTGAGGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAG
ACTGAAGAAAACAAGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACT
Found at i:11470295 original size:133 final size:134
Alignment explanation
Indices: 11470045--11470287 Score: 308
Period size: 133 Copynumber: 1.8 Consensus size: 134
11470035 TTACAAGTCT
*
11470045 TATCTCCCTGAAGTAGCAGTGGAGCAGACTGAAGAAAACAAGTCTTATCCCCCTGAAGTTGCAGT
1 TATCTCCCTGAAGTAGCAGTGGAGCAGACTAAAGAAAACAAGTCTTATCCCCCTGAAGTTGCAGT
* ** * *
11470110 GGGGCAGACTGAAGATGGAAAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTAAAGCCAATA
66 GGAGCAGACTGAAGAAAGAAAATCTTATCCCCCTGAAGTTGCAGTAGAGCAGATTAAAGCCAATA
11470175 ATTC
131 ATTC
* * * * ** * *
11470179 TATCTCCCTGAGGTTGCAGTGGAGCGGATTAAAG-TTACAAGTCTTATCTCCTTGAAGTTGCAGT
1 TATCTCCCTGAAGTAGCAGTGGAGCAGACTAAAGAAAACAAGTCTTATCCCCCTGAAGTTGCAGT
* * * **
11470243 GGAGTAGACTGACGAAAGCAGGTCTTATCCCCCTGAAGTTGCAGT
66 GGAGCAGACTGAAGAAAGAAAATCTTATCCCCCTGAAGTTGCAGT
11470288 GGGGCAGACT
Statistics
Matches: 90, Mismatches: 19, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
133 61 0.68
134 29 0.32
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (134 bp):
TATCTCCCTGAAGTAGCAGTGGAGCAGACTAAAGAAAACAAGTCTTATCCCCCTGAAGTTGCAGT
GGAGCAGACTGAAGAAAGAAAATCTTATCCCCCTGAAGTTGCAGTAGAGCAGATTAAAGCCAATA
ATTC
Found at i:11470623 original size:89 final size:90
Alignment explanation
Indices: 11470387--11470616 Score: 277
Period size: 89 Copynumber: 2.6 Consensus size: 90
11470377 GAGCAGATTA
* *
11470387 AAGTTACAAGTCTTGCCTCCCT-AAGTTTACAGCGGAGCAGACTGACGATAGCAGATCTTGTCTT
1 AAGTTACAAGTCTTGCCTCCCTGAAGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCTTGTCTT
* *
11470451 CTTGTACTAGCAGCGAAGTAGATCG
66 CCTATACTAGCAGCGAAGTAGATCG
** * * * **
11470476 AAGGCACCAGCCTTGCCTCCCTG-AGTTTGCAGCGGAGTAGACTGAAGATAATAGATCTTGTCTT
1 AAGTTACAAGTCTTGCCTCCCTGAAGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCTTGTCTT
* *
11470540 CCTATATTGGCAGCGAAGTAGATCG
66 CCTATACTAGCAGCGAAGTAGATCG
* ** * *
11470565 AAGTTACAAGTTTTATCTCCCTGAAG-TTGCAGTGGAGCAAACTGAAGATAGC
1 AAGTTACAAGTCTTGCCTCCCTGAAGTTTGCAGCGGAGCAGACTGAAGATAGC
11470617 GAATCTTATT
Statistics
Matches: 114, Mismatches: 25, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
89 112 0.98
90 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (90 bp):
AAGTTACAAGTCTTGCCTCCCTGAAGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCTTGTCTT
CCTATACTAGCAGCGAAGTAGATCG
Found at i:11470882 original size:96 final size:94
Alignment explanation
Indices: 11470568--11470882 Score: 315
Period size: 96 Copynumber: 3.4 Consensus size: 94
11470558 TAGATCGAAG
* * * * *
11470568 TTACAAGTTTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATAGCGAATCTTATTTCCCTG
1 TTACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGACT-AAGATAGCGAATCTTATTTCCATG
* *
11470633 AAGTTGCAGAGGAACAGATTGAAGCTATAAA
65 AAGTTGCAGTGGAGCAGATTGAAG-TATAAA
* * * * * * * * *
11470664 TTACAGATCTTATCTCTCTGAAGTTGCAGTAAAGCAGA-T--CATATCAAACCTTATCTCCATAA
1 TTACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAGATAGCGAATCTTATTTCCATGA
* *
11470726 AGTTGTAGTGGAGCAGGTTGAAG------
66 AGTTGCAGTGGAGCAGATTGAAGTATAAA
* * * **
11470749 TTGCAAATCTTATCTCCCTGAAGTTGCAATAGAGCAGACTAAAGATAGCGAATATTATTTCTTTG
1 TTACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGACT-AAGATAGCGAATCTTATTTCCATG
11470814 AAGTTGCAGTGGAGCAGATTGAAGTTATAAA
65 AAGTTGCAGTGGAGCAGATTGAAG-TATAAA
*
11470845 TTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 TTACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGA
11470883 TTAACCCTAT
Statistics
Matches: 171, Mismatches: 37, Indels: 22
0.74 0.16 0.10
Matches are distributed among these distances:
85 33 0.19
86 1 0.01
89 35 0.20
92 35 0.20
95 1 0.01
96 66 0.39
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.30
Consensus pattern (94 bp):
TTACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAGATAGCGAATCTTATTTCCATGA
AGTTGCAGTGGAGCAGATTGAAGTATAAA
Found at i:11471146 original size:14 final size:15
Alignment explanation
Indices: 11471127--11471155 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
11471117 AAATAAGCAC
11471127 CAAAAATAA-AAAAA
1 CAAAAATAATAAAAA
11471141 CAAAAATAATAAAAA
1 CAAAAATAATAAAAA
11471156 ACAGTCTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.83, C:0.07, G:0.00, T:0.10
Consensus pattern (15 bp):
CAAAAATAATAAAAA
Found at i:11471197 original size:13 final size:13
Alignment explanation
Indices: 11471176--11471209 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
11471166 TTCTTTTTAC
*
11471176 AAACCCAAATTTA
1 AAACCCAAATCTA
*
11471189 AAGCCCAAATCTA
1 AAACCCAAATCTA
11471202 AAACCCAA
1 AAACCCAA
11471210 TAAACAGTGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.53, C:0.29, G:0.03, T:0.15
Consensus pattern (13 bp):
AAACCCAAATCTA
Found at i:11479180 original size:30 final size:30
Alignment explanation
Indices: 11479144--11479204 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
11479134 CTATTTCCAG
11479144 GATCCACACGGGCTGGCTACACGCCCATGT
1 GATCCACACGGGCTGGCTACACGCCCATGT
* *
11479174 GATCCACACGGGTTGGCTACATGCCCATGT
1 GATCCACACGGGCTGGCTACACGCCCATGT
11479204 G
1 G
11479205 CCAGCCCGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.20, C:0.33, G:0.28, T:0.20
Consensus pattern (30 bp):
GATCCACACGGGCTGGCTACACGCCCATGT
Found at i:11480047 original size:14 final size:14
Alignment explanation
Indices: 11480028--11480057 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
11480018 ATTGTGTTCG
11480028 TAGTTAAATTAGAT
1 TAGTTAAATTAGAT
11480042 TAGTTAAATTAGAT
1 TAGTTAAATTAGAT
11480056 TA
1 TA
11480058 AAAACAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.43
Consensus pattern (14 bp):
TAGTTAAATTAGAT
Found at i:11485704 original size:14 final size:14
Alignment explanation
Indices: 11485685--11485714 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
11485675 GTTGCGTTCG
11485685 TAGTTAAATTAGAT
1 TAGTTAAATTAGAT
11485699 TAGTTAAATTAGAT
1 TAGTTAAATTAGAT
11485713 TA
1 TA
11485715 AAAACAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.43
Consensus pattern (14 bp):
TAGTTAAATTAGAT
Found at i:11498231 original size:17 final size:19
Alignment explanation
Indices: 11498209--11498244 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
11498199 TCCCAAATTA
11498209 TTTACTT-C-TTGTTATAT
1 TTTACTTACTTTGTTATAT
11498226 TTTACTTACTTTGTTATAT
1 TTTACTTACTTTGTTATAT
11498245 AATTTATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 1 0.06
19 9 0.53
ACGTcount: A:0.19, C:0.11, G:0.06, T:0.64
Consensus pattern (19 bp):
TTTACTTACTTTGTTATAT
Found at i:11502807 original size:20 final size:20
Alignment explanation
Indices: 11502782--11502826 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
11502772 AAAAAAGAAG
*
11502782 AAAAAAGCAAATAGCGCAAA
1 AAAAAAGCAAAAAGCGCAAA
* *
11502802 AAAAAAGCAAAAAGTGTAAA
1 AAAAAAGCAAAAAGCGCAAA
11502822 AAAAA
1 AAAAA
11502827 GTTGCCTACC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.71, C:0.09, G:0.13, T:0.07
Consensus pattern (20 bp):
AAAAAAGCAAAAAGCGCAAA
Found at i:11512590 original size:13 final size:13
Alignment explanation
Indices: 11512572--11512600 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
11512562 TTTCAATCCA
11512572 TATCATGCGGCAT
1 TATCATGCGGCAT
11512585 TATCATGCGGCAT
1 TATCATGCGGCAT
11512598 TAT
1 TAT
11512601 AATCATTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (13 bp):
TATCATGCGGCAT
Found at i:11515424 original size:13 final size:13
Alignment explanation
Indices: 11515406--11515430 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11515396 ACAAACGATA
11515406 AAATTTTCACACG
1 AAATTTTCACACG
11515419 AAATTTTCACAC
1 AAATTTTCACAC
11515431 ATATAAATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:11520959 original size:9 final size:9
Alignment explanation
Indices: 11520945--11521003 Score: 66
Period size: 9 Copynumber: 6.4 Consensus size: 9
11520935 TTTGGTTAAA
11520945 AATTACCCG
1 AATTACCCG
11520954 AATTACCCG
1 AATTACCCG
*
11520963 AATTAACCG
1 AATTACCCG
11520972 AATTA-CCG
1 AATTACCCG
*
11520980 AAAAATACCCG
1 --AATTACCCG
*
11520991 AATTACCGG
1 AATTACCCG
11521000 AATT
1 AATT
11521004 TTTTTTATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
8 3 0.07
9 33 0.77
10 4 0.09
11 3 0.07
ACGTcount: A:0.41, C:0.25, G:0.12, T:0.22
Consensus pattern (9 bp):
AATTACCCG
Found at i:11521120 original size:40 final size:39
Alignment explanation
Indices: 11521076--11521164 Score: 124
Period size: 39 Copynumber: 2.3 Consensus size: 39
11521066 GACTTTAGTA
*
11521076 AATTGGGTTGTCTTTTAGTTTTAATTTTATTGGATTGGGT
1 AATTGGGTTGAC-TTTAGTTTTAATTTTATTGGATTGGGT
** * *
11521116 AATTGGGTAAACTTTAGTTTTAGTTTTATTGGGTTGGGT
1 AATTGGGTTGACTTTAGTTTTAATTTTATTGGATTGGGT
11521155 AATTGGGTTG
1 AATTGGGTTG
11521165 GGTAATTGAG
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
39 33 0.79
40 9 0.21
ACGTcount: A:0.19, C:0.02, G:0.28, T:0.51
Consensus pattern (39 bp):
AATTGGGTTGACTTTAGTTTTAATTTTATTGGATTGGGT
Found at i:11521161 original size:13 final size:13
Alignment explanation
Indices: 11521143--11521172 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
11521133 TTTTAGTTTT
11521143 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
11521156 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
11521169 ATTG
1 ATTG
11521173 AGTTTGGGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.43, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:11523029 original size:41 final size:41
Alignment explanation
Indices: 11522983--11523094 Score: 134
Period size: 41 Copynumber: 2.7 Consensus size: 41
11522973 ACTTTATATT
* *
11522983 AATGTATCAAGCATTATGCCTAGCAGGCTTTATGCCGGTGA
1 AATGTATCAAGCTTTATGCCTAGCAGGCTTCATGCCGGTGA
* * * *
11523024 AATGTATTATGCTTTATGCCTAGCAGGCTACATGCCGGTGT
1 AATGTATCAAGCTTTATGCCTAGCAGGCTTCATGCCGGTGA
*** *
11523065 ACCCTATCAGGCTTTATGCCTAGCAGGCTT
1 AATGTATCAAGCTTTATGCCTAGCAGGCTT
11523095 GGTACCGGTG
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.31
Consensus pattern (41 bp):
AATGTATCAAGCTTTATGCCTAGCAGGCTTCATGCCGGTGA
Found at i:11538633 original size:22 final size:21
Alignment explanation
Indices: 11538605--11538671 Score: 64
Period size: 22 Copynumber: 3.1 Consensus size: 21
11538595 AACTGCCAAT
11538605 TAACAGAACGGCTAAAAGCCA
1 TAACAGAACGGCTAAAAGCCA
* * *
11538626 TAAGCAGAAAGGC-AGTAAGCCT
1 TAA-CAGAACGGCTA-AAAGCCA
*
11538648 TGAACAGAACGGCTACAAGCCA
1 T-AACAGAACGGCTAAAAGCCA
11538670 TA
1 TA
11538672 CACTTCCCCC
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
21 5 0.14
22 28 0.78
23 3 0.08
ACGTcount: A:0.43, C:0.22, G:0.22, T:0.12
Consensus pattern (21 bp):
TAACAGAACGGCTAAAAGCCA
Found at i:11538868 original size:27 final size:26
Alignment explanation
Indices: 11538793--11538868 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 26
11538783 AGGTAAAATA
* *
11538793 GTCATTCTACCCATTAGGGGTATATTC
1 GTCATTTTACCCA-TCGGGGTATATTC
11538820 GTCATTTTACCCATCGAGGGTAT-TTC
1 GTCATTTTACCCATCG-GGGTATATTC
11538846 GATCATTTTACCCATCGGTGGTA
1 G-TCATTTTACCCATCGG-GGTA
11538869 ATAAAATCAT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
26 7 0.16
27 37 0.84
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.37
Consensus pattern (26 bp):
GTCATTTTACCCATCGGGGTATATTC
Found at i:11538877 original size:27 final size:27
Alignment explanation
Indices: 11538821--11538882 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
11538811 GGTATATTCG
* ***
11538821 TCATTTTACCCATCGAGGGTATTTCGA
1 TCATTTTACCCATCGAGGGTAATAAAA
11538848 TCATTTTACCCATCG-GTGGTAATAAAA
1 TCATTTTACCCATCGAG-GGTAATAAAA
11538875 TCATTTTA
1 TCATTTTA
11538883 TTTTTCCCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.03
27 29 0.97
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (27 bp):
TCATTTTACCCATCGAGGGTAATAAAA
Found at i:11541099 original size:152 final size:152
Alignment explanation
Indices: 11540868--11541166 Score: 510
Period size: 152 Copynumber: 2.0 Consensus size: 152
11540858 CATACTTTTA
* * *
11540868 TGCAAAGTATCCTAACCGTTCCCTTGCTTACGGCCCAATACTTCTAGGCCCAAATTCTTGGGCGT
1 TGCAAAGTATCCTAACCGTTCCCTTGCTCAAGGCCCAATACTTCTAGGCCCAAATTCTTGGGCAT
*
11540933 TACAATTCTACCCCCTTAAAGAAATTTCGTCCTTGAAATTTTCAACTATCATAACAGTCGCACAT
66 TACAATTCTACCCCCTTAAAGAAATTTCGTCCTCGAAATTTTCAACTATCATAACAGTCGCACAT
11540998 CCTCGCCTCCCACACTACACTG
131 CCTCGCCTCCCACACTACACTG
* * *
11541020 TGCACAGTTTCCTAACTGTTCCCTTGCTCAAGGCCCAATACTTCTAGGCCCAAATT-TTGGGGCA
1 TGCAAAGTATCCTAACCGTTCCCTTGCTCAAGGCCCAATACTTCTAGGCCCAAATTCTT-GGGCA
*
11541084 TTACAATTCTACCCCCTTAAAGAAATTTCGTCCTCGAAATTTTCAACTATCATAACAGTTGCACA
65 TTACAATTCTACCCCCTTAAAGAAATTTCGTCCTCGAAATTTTCAACTATCATAACAGTCGCACA
11541149 TCCTCGCCTCCCACACTA
130 TCCTCGCCTCCCACACTA
11541167 TGCTCTCGTT
Statistics
Matches: 138, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
151 2 0.01
152 136 0.99
ACGTcount: A:0.26, C:0.32, G:0.12, T:0.29
Consensus pattern (152 bp):
TGCAAAGTATCCTAACCGTTCCCTTGCTCAAGGCCCAATACTTCTAGGCCCAAATTCTTGGGCAT
TACAATTCTACCCCCTTAAAGAAATTTCGTCCTCGAAATTTTCAACTATCATAACAGTCGCACAT
CCTCGCCTCCCACACTACACTG
Found at i:11542675 original size:27 final size:27
Alignment explanation
Indices: 11542645--11542787 Score: 178
Period size: 27 Copynumber: 5.3 Consensus size: 27
11542635 TATATCTGTT
* *
11542645 ATTTTACCCATCAAGGGTATTTCGATC
1 ATTTTACCCATCGAGGGTATTTCGATA
* * *
11542672 ATTTTACCCATCGGGGGTAATTCGATC
1 ATTTTACCCATCGAGGGTATTTCGATA
* *
11542699 ATTTTACCCTTCGAGGGTATTTCAATA
1 ATTTTACCCATCGAGGGTATTTCGATA
*
11542726 ATTTTACCCTTCGAGGGTATTTCGATA
1 ATTTTACCCATCGAGGGTATTTCGATA
* * * *
11542753 ATTTTTCCCATCGGGGGTATTTAGGTA
1 ATTTTACCCATCGAGGGTATTTCGATA
11542780 ATTTTACC
1 ATTTTACC
11542788 TTACAGGAGC
Statistics
Matches: 101, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 101 1.00
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (27 bp):
ATTTTACCCATCGAGGGTATTTCGATA
Found at i:11544505 original size:282 final size:282
Alignment explanation
Indices: 11544001--11544565 Score: 1130
Period size: 282 Copynumber: 2.0 Consensus size: 282
11543991 AATATTCAGT
11544001 CAAGCAGAAAACAAACAAAAGGGAAAAATAATACCTGAAAGGGTCTATAGCCTATTCGGCCTCCC
1 CAAGCAGAAAACAAACAAAAGGGAAAAATAATACCTGAAAGGGTCTATAGCCTATTCGGCCTCCC
11544066 AAAACCAAAAATCAGAGAAACGTAACAAAAATATGACCAAAAACAAGTTCCCTCGCACAACCTAA
66 AAAACCAAAAATCAGAGAAACGTAACAAAAATATGACCAAAAACAAGTTCCCTCGCACAACCTAA
11544131 CCCTATTTCAAAAGAAAAACACCTCAAAAACTGAATTCAAGAGTGGCCAAAGTCCCTATACGACA
131 CCCTATTTCAAAAGAAAAACACCTCAAAAACTGAATTCAAGAGTGGCCAAAGTCCCTATACGACA
11544196 TAACTCTCCCTTTCCCCTAAAAAAGCCTTGATTTCCTCCTATAATTTCTCCACAACAACAACCAA
196 TAACTCTCCCTTTCCCCTAAAAAAGCCTTGATTTCCTCCTATAATTTCTCCACAACAACAACCAA
11544261 TCGAACCCTTATCAAAATCCCC
261 TCGAACCCTTATCAAAATCCCC
11544283 CAAGCAGAAAACAAACAAAAGGGAAAAATAATACCTGAAAGGGTCTATAGCCTATTCGGCCTCCC
1 CAAGCAGAAAACAAACAAAAGGGAAAAATAATACCTGAAAGGGTCTATAGCCTATTCGGCCTCCC
11544348 AAAACCAAAAATCAGAGAAACGTAACAAAAATATGACCAAAAACAAGTTCCCTCGCACAACCTAA
66 AAAACCAAAAATCAGAGAAACGTAACAAAAATATGACCAAAAACAAGTTCCCTCGCACAACCTAA
11544413 CCCTATTTCAAAAGAAAAACACCTCAAAAACTGAATTCAAGAGTGGCCAAAGTCCCTATACGACA
131 CCCTATTTCAAAAGAAAAACACCTCAAAAACTGAATTCAAGAGTGGCCAAAGTCCCTATACGACA
11544478 TAACTCTCCCTTTCCCCTAAAAAAGCCTTGATTTCCTCCTATAATTTCTCCACAACAACAACCAA
196 TAACTCTCCCTTTCCCCTAAAAAAGCCTTGATTTCCTCCTATAATTTCTCCACAACAACAACCAA
11544543 TCGAACCCTTATCAAAATCCCC
261 TCGAACCCTTATCAAAATCCCC
11544565 C
1 C
11544566 TTTTCTCTTC
Statistics
Matches: 283, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
282 283 1.00
ACGTcount: A:0.42, C:0.28, G:0.10, T:0.19
Consensus pattern (282 bp):
CAAGCAGAAAACAAACAAAAGGGAAAAATAATACCTGAAAGGGTCTATAGCCTATTCGGCCTCCC
AAAACCAAAAATCAGAGAAACGTAACAAAAATATGACCAAAAACAAGTTCCCTCGCACAACCTAA
CCCTATTTCAAAAGAAAAACACCTCAAAAACTGAATTCAAGAGTGGCCAAAGTCCCTATACGACA
TAACTCTCCCTTTCCCCTAAAAAAGCCTTGATTTCCTCCTATAATTTCTCCACAACAACAACCAA
TCGAACCCTTATCAAAATCCCC
Found at i:11545580 original size:18 final size:18
Alignment explanation
Indices: 11545554--11545589 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
11545544 AGAATTCAAA
* *
11545554 TTCTTTTATTTATTATTT
1 TTCTCTTATTAATTATTT
11545572 TTCTCTTATTAATTATTT
1 TTCTCTTATTAATTATTT
11545590 AGAGATAAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.72
Consensus pattern (18 bp):
TTCTCTTATTAATTATTT
Found at i:11546319 original size:19 final size:19
Alignment explanation
Indices: 11546283--11546327 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
11546273 CAAAAAAAAT
*
11546283 AATATTAAATTTTATATTA
1 AATATTAAATATTATATTA
11546302 AATA-TAAATATTATTATTA
1 AATATTAAATATTA-TATTA
11546321 AAT-TTAA
1 AATATTAA
11546328 TGTTATTGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
AATATTAAATATTATATTA
Found at i:11546837 original size:21 final size:22
Alignment explanation
Indices: 11546797--11546844 Score: 80
Period size: 21 Copynumber: 2.2 Consensus size: 22
11546787 TATATAGTTT
11546797 ATAAATTTTTATATTAAATTTG
1 ATAAATTTTTATATTAAATTTG
*
11546819 ATAAATTTTTAT-TTTAATTTG
1 ATAAATTTTTATATTAAATTTG
11546840 ATAAA
1 ATAAA
11546845 CTAATACAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 13 0.52
22 12 0.48
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (22 bp):
ATAAATTTTTATATTAAATTTG
Found at i:11547012 original size:34 final size:32
Alignment explanation
Indices: 11546912--11547016 Score: 83
Period size: 34 Copynumber: 3.2 Consensus size: 32
11546902 AAACTAATAC
* *
11546912 AAAGTAGTATGTAAATATTAATTTGAT-AAAA
1 AAAGTAATATTTAAATATTAATTTGATAAAAA
* * *
11546943 AAA-TAAT-GTTAAATAATTAAAATAT-CTAAATAA
1 AAAGTAATATTTAAAT-ATT--AATTTGATAAA-AA
11546976 AAAGTAATATTTAAATATTAATTTGATAAAAGAA
1 AAAGTAATATTTAAATATTAATTTGAT-AAA-AA
11547010 AAAGTAA
1 AAAGTAA
11547017 ACTTGAATAA
Statistics
Matches: 56, Mismatches: 9, Indels: 15
0.70 0.11 0.19
Matches are distributed among these distances:
29 5 0.09
30 6 0.11
31 4 0.07
32 10 0.18
33 6 0.11
34 19 0.34
35 6 0.11
ACGTcount: A:0.57, C:0.01, G:0.09, T:0.33
Consensus pattern (32 bp):
AAAGTAATATTTAAATATTAATTTGATAAAAA
Found at i:11552671 original size:91 final size:89
Alignment explanation
Indices: 11552514--11552716 Score: 237
Period size: 91 Copynumber: 2.3 Consensus size: 89
11552504 ACACTCTAGT
* * * * * *
11552514 TTGTGGATGAACCACCAGTG-TTGCAGGTTAATACGCTGCTAGTAGTTGCAAATACACAACAGGT
1 TTGTGGATGAACCACTAGTGTTTGCAGGTTAATAAGCTACCAGTAGTTACAAATACACAACAAGT
*
11552578 TTGCAGATAAAAATTGCCAGTAAAAA
66 TTGCAAATAAAAATTGCCAGT--AAA
* ***
11552604 TTGTGGATGAACCACTAGTGTTTGTAGGTTAATAAGCTACCAGTAGTTATGGATACACAACAAGT
1 TTGTGGATGAACCACTAGTGTTTGCAGGTTAATAAGCTACCAGTAGTTACAAATACACAACAAGT
* *
11552669 TTGCAAATAAAAATTTCCAGTAAG
66 TTGCAAATAAAAATTGCCAGTAAA
* *
11552693 TTCGTGGATAAACCACTAATGTTT
1 TT-GTGGATGAACCACTAGTGTTT
11552717 ACAGATAAAC
Statistics
Matches: 96, Mismatches: 15, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
89 4 0.04
90 38 0.40
91 54 0.56
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (89 bp):
TTGTGGATGAACCACTAGTGTTTGCAGGTTAATAAGCTACCAGTAGTTACAAATACACAACAAGT
TTGCAAATAAAAATTGCCAGTAAA
Found at i:11554337 original size:9 final size:10
Alignment explanation
Indices: 11554318--11554346 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
11554308 CATTTCTCTT
11554318 TTTCTATTCA
1 TTTCTATTCA
11554328 TTTC-ATTCA
1 TTTCTATTCA
11554337 TTTCTATTCA
1 TTTCTATTCA
11554347 AACATGTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.59
Consensus pattern (10 bp):
TTTCTATTCA
Found at i:11556665 original size:20 final size:21
Alignment explanation
Indices: 11556642--11556716 Score: 54
Period size: 20 Copynumber: 3.8 Consensus size: 21
11556632 AAAATTTTCC
*
11556642 AAAAAAATCTT-GAAAATTCA
1 AAAAAAATATTAGAAAATTCA
* *
11556662 AAAAGAATATTAGAAAATTTA
1 AAAAAAATATTAGAAAATTCA
*
11556683 AGAAATAA-A-TA-AAAA--CA
1 A-AAAAAATATTAGAAAATTCA
11556700 AATAAAAATATTAGAAA
1 AA-AAAAATATTAGAAA
11556717 TATAAACATT
Statistics
Matches: 43, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
16 1 0.02
17 6 0.14
18 1 0.02
19 6 0.14
20 14 0.33
21 10 0.23
22 5 0.12
ACGTcount: A:0.67, C:0.04, G:0.07, T:0.23
Consensus pattern (21 bp):
AAAAAAATATTAGAAAATTCA
Found at i:11556679 original size:21 final size:19
Alignment explanation
Indices: 11556641--11556680 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
11556631 TAAAATTTTC
*
11556641 CAAAAAAATCTTGAAAATT
1 CAAAAAAATATTGAAAATT
11556660 CAAAAAGAATATTAGAAAATT
1 CAAAAA-AATATT-GAAAATT
11556681 TAAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 5 0.28
21 7 0.39
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.25
Consensus pattern (19 bp):
CAAAAAAATATTGAAAATT
Found at i:11557183 original size:14 final size:14
Alignment explanation
Indices: 11557164--11557200 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
11557154 TAACTTAACA
11557164 TATATTTTAATATT
1 TATATTTTAATATT
*
11557178 TATATTATAATATT
1 TATATTTTAATATT
*
11557192 AATATTTTA
1 TATATTTTA
11557201 TTTAATTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TATATTTTAATATT
Found at i:11557193 original size:20 final size:18
Alignment explanation
Indices: 11557170--11557206 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
11557160 AACATATATT
11557170 TTAATATTTATATTATAATA
1 TTAATATTT-TATT-TAATA
11557190 TTAATATTTTATTTAAT
1 TTAATATTTTATTTAAT
11557207 TTATATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 4 0.24
20 9 0.53
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTAATATTTTATTTAATA
Found at i:11557524 original size:33 final size:35
Alignment explanation
Indices: 11557480--11557547 Score: 106
Period size: 33 Copynumber: 2.0 Consensus size: 35
11557470 TCATAATGAG
11557480 AAAATATAATATATT-ATATATAAATTTTA-ATTTT
1 AAAATATAATAT-TTGATATATAAATTTTACATTTT
11557514 AAAA-ATAATATTTGATATATAAATTTTACATTTT
1 AAAATATAATATTTGATATATAAATTTTACATTTT
11557548 GAGAAAAGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
32 2 0.06
33 21 0.66
34 9 0.28
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (35 bp):
AAAATATAATATTTGATATATAAATTTTACATTTT
Found at i:11558097 original size:31 final size:32
Alignment explanation
Indices: 11558062--11558122 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
11558052 TTATATTGAG
*
11558062 AATCATTTTTATAATAATTA-ATTATGAGAGA
1 AATCATATTTATAATAATTATATTATGAGAGA
* *
11558093 AATCATATTTATATTAATTATATTTTGAGA
1 AATCATATTTATAATAATTATATTATGAGA
11558123 AAACACTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 18 0.69
32 8 0.31
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (32 bp):
AATCATATTTATAATAATTATATTATGAGAGA
Found at i:11560057 original size:62 final size:62
Alignment explanation
Indices: 11559957--11560075 Score: 157
Period size: 62 Copynumber: 1.9 Consensus size: 62
11559947 TCACACGCCT
* * *
11559957 TGTGGTTTCACACGGCCTAAAGAATTGGGCTGTATGACTCTACACGGTTTGGCCCACGCCCG
1 TGTGGTTTCACACGACCTAAAGAATTGGGCTGTATGACTCCACACGGTCTGGCCCACGCCCG
* ** * * *
11560019 TGTGGTTTCACACGACTTGGAGAATTGGTCTGTGTGACTCCACACGGTCTGGTCCAC
1 TGTGGTTTCACACGACCTAAAGAATTGGGCTGTATGACTCCACACGGTCTGGCCCAC
11560076 ACCTGTATGC
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
62 48 1.00
ACGTcount: A:0.18, C:0.26, G:0.28, T:0.28
Consensus pattern (62 bp):
TGTGGTTTCACACGACCTAAAGAATTGGGCTGTATGACTCCACACGGTCTGGCCCACGCCCG
Found at i:11565175 original size:13 final size:13
Alignment explanation
Indices: 11565157--11565186 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
11565147 TATATGTAGG
11565157 TATAATAATAATA
1 TATAATAATAATA
11565170 TATAATAATAATA
1 TATAATAATAATA
11565183 -ATAA
1 TATAA
11565187 CAAAATTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
TATAATAATAATA
Found at i:11565444 original size:19 final size:21
Alignment explanation
Indices: 11565406--11565444 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
11565396 CCCTTTTTAA
*
11565406 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
11565427 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
11565445 AAAGAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:11565643 original size:22 final size:21
Alignment explanation
Indices: 11565608--11565684 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 21
11565598 AAAGGGTATC
* *
11565608 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
11565629 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
*
11565652 TACATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
11565671 TGCATATCATATCT
1 TACAAATCATATCT
11565685 AAGATTGCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
19 18 0.38
21 4 0.08
22 15 0.31
23 11 0.23
ACGTcount: A:0.42, C:0.17, G:0.05, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:11565651 original size:23 final size:22
Alignment explanation
Indices: 11565608--11565665 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
11565598 AAAGGGTATC
* *
11565608 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
11565629 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
11565652 TACATATCATATCT
1 TACAAATCATATCT
11565666 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:11565668 original size:19 final size:19
Alignment explanation
Indices: 11565621--11565697 Score: 91
Period size: 19 Copynumber: 3.8 Consensus size: 19
11565611 AAATTAAATC
*
11565621 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
11565641 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
11565663 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
11565682 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
11565698 CTCGAAGATT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
19 34 0.65
22 7 0.13
23 11 0.21
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:11574402 original size:19 final size:20
Alignment explanation
Indices: 11574360--11574410 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
11574350 AAAAATTACA
11574360 AAAAATTTAAAATAACTTTT
1 AAAAATTTAAAATAACTTTT
11574380 -AAAATTTAAAAT-A-TTTAT
1 AAAAATTTAAAATAACTTT-T
11574398 AAAAATTTCAAAA
1 AAAAATTT-AAAA
11574411 AATATATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
17 3 0.11
18 2 0.07
19 19 0.68
20 4 0.14
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAAATTTAAAATAACTTTT
Found at i:11574418 original size:20 final size:19
Alignment explanation
Indices: 11574380--11574418 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
11574370 AATAACTTTT
* *
11574380 AAAATTTAAAATATTTATA
1 AAAATTTAAAAAATATATA
11574399 AAAATTTCAAAAAATATATA
1 AAAATTT-AAAAAATATATA
11574419 TTTTAAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAATTTAAAAAATATATA
Found at i:11574426 original size:24 final size:26
Alignment explanation
Indices: 11574390--11574442 Score: 67
Period size: 24 Copynumber: 2.1 Consensus size: 26
11574380 AAAATTTAAA
*
11574390 ATATTTATAAAAATTTC-AAAAAATAT
1 ATATTTATAAAAAATTCTAAAAAA-AT
11574416 ATATTT-T-AAAAATTCTAAAAAAAT
1 ATATTTATAAAAAATTCTAAAAAAAT
11574440 ATA
1 ATA
11574443 AAAAAGAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 12 0.48
25 7 0.28
26 6 0.24
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (26 bp):
ATATTTATAAAAAATTCTAAAAAAAT
Found at i:11577302 original size:34 final size:35
Alignment explanation
Indices: 11577259--11577343 Score: 93
Period size: 34 Copynumber: 2.5 Consensus size: 35
11577249 TTCGTATAAA
* * *
11577259 ATAACAGTTCATGCATA-ATAATAGATCATTCAAT
1 ATAATAGTTCATACATATATAACAGATCATTCAAT
* *
11577293 ATAGTAGTTCATACA-ATATAACAGTTCATTCAAT
1 ATAATAGTTCATACATATATAACAGATCATTCAAT
* *
11577327 ATAATAATTCATTCATA
1 ATAATAGTTCATACATA
11577344 CAACATCATA
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
33 1 0.02
34 39 0.95
35 1 0.02
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.35
Consensus pattern (35 bp):
ATAATAGTTCATACATATATAACAGATCATTCAAT
Found at i:11577326 original size:17 final size:17
Alignment explanation
Indices: 11577276--11577341 Score: 87
Period size: 17 Copynumber: 3.9 Consensus size: 17
11577266 TTCATGCATA
*
11577276 ATAATAGATCATTCAAT
1 ATAATAGTTCATTCAAT
* *
11577293 ATAGTAGTTCATACAAT
1 ATAATAGTTCATTCAAT
*
11577310 ATAACAGTTCATTCAAT
1 ATAATAGTTCATTCAAT
*
11577327 ATAATAATTCATTCA
1 ATAATAGTTCATTCA
11577342 TACAACATCA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 41 1.00
ACGTcount: A:0.44, C:0.14, G:0.06, T:0.36
Consensus pattern (17 bp):
ATAATAGTTCATTCAAT
Found at i:11577986 original size:18 final size:18
Alignment explanation
Indices: 11577960--11578008 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
11577950 CACAATTTGA
**
11577960 CAAATTAATACAGTTCAC
1 CAAATTAATACAAATCAC
*
11577978 CATATTAATACAAATCAC
1 CAAATTAATACAAATCAC
*
11577996 CAAATTAACACAA
1 CAAATTAATACAA
11578009 TTTGCCATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.51, C:0.22, G:0.02, T:0.24
Consensus pattern (18 bp):
CAAATTAATACAAATCAC
Found at i:11578369 original size:29 final size:29
Alignment explanation
Indices: 11578269--11578379 Score: 123
Period size: 29 Copynumber: 3.6 Consensus size: 29
11578259 TTACAAAATC
*
11578269 CATATATATTATATAAAACAAAACCCATATATG
1 CATATATATTATATATAACAAAACCC----ATG
* *
11578302 CATATATATTATATATATAATCAAGACCCACG
1 CATATATA-T-TATATATAA-CAAAACCCATG
11578334 CATATATATTATATATAACAAAACCCATG
1 CATATATATTATATATAACAAAACCCATG
*
11578363 CATATATATTGTATATA
1 CATATATATTATATATA
11578380 TACACATACC
Statistics
Matches: 69, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
29 25 0.36
30 9 0.13
31 1 0.01
32 10 0.14
33 8 0.12
34 1 0.01
35 8 0.12
36 7 0.10
ACGTcount: A:0.47, C:0.15, G:0.05, T:0.33
Consensus pattern (29 bp):
CATATATATTATATATAACAAAACCCATG
Found at i:11593257 original size:10 final size:10
Alignment explanation
Indices: 11593242--11593291 Score: 68
Period size: 10 Copynumber: 5.2 Consensus size: 10
11593232 CAACCTAATT
11593242 TTTATGTTTA
1 TTTATGTTTA
11593252 TTTATGTTTA
1 TTTATGTTTA
*
11593262 -TTATTTTTA
1 TTTATGTTTA
*
11593271 TTTATTTTTA
1 TTTATGTTTA
11593281 TTTAT-TTTA
1 TTTATGTTTA
11593290 TT
1 TT
11593292 ATTTATTATC
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
9 14 0.37
10 24 0.63
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (10 bp):
TTTATGTTTA
Found at i:11593270 original size:19 final size:20
Alignment explanation
Indices: 11593242--11593300 Score: 70
Period size: 19 Copynumber: 3.0 Consensus size: 20
11593232 CAACCTAATT
*
11593242 TTTATGTTTATTTATGTTTA
1 TTTATGTTTATTTATTTTTA
*
11593262 -TTATTTTTATTTATTTTTA
1 TTTATGTTTATTTATTTTTA
11593281 TTTAT-TTTA-TTATTTATTA
1 TTTATGTTTATTTATTT-TTA
11593300 T
1 T
11593301 CACTTTAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 6 0.17
19 25 0.71
20 4 0.11
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (20 bp):
TTTATGTTTATTTATTTTTA
Found at i:11593280 original size:25 final size:23
Alignment explanation
Indices: 11593239--11593298 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
11593229 AGGCAACCTA
* *
11593239 ATTTTTATGTTTATTTATGTTTATT
1 ATTTTTA--TTTATTTTTATTTATT
11593264 ATTTTTATTTATTTTTATTTATT
1 ATTTTTATTTATTTTTATTTATT
*
11593287 -TTATTATTTATT
1 ATTTTTATTTATT
11593299 ATCACTTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 11 0.34
23 14 0.44
25 7 0.22
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (23 bp):
ATTTTTATTTATTTTTATTTATT
Found at i:11593280 original size:29 final size:29
Alignment explanation
Indices: 11593242--11593300 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 29
11593232 CAACCTAATT
11593242 TTTATGTTTATTTATGTTTATTATTT-TTA
1 TTTATGTTTATTTAT-TTTATTATTTATTA
*
11593271 TTTATTTTTATTTATTTTATTATTTATTA
1 TTTATGTTTATTTATTTTATTATTTATTA
11593300 T
1 T
11593301 CACTTTAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
28 10 0.36
29 18 0.64
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (29 bp):
TTTATGTTTATTTATTTTATTATTTATTA
Found at i:11593311 original size:28 final size:29
Alignment explanation
Indices: 11593251--11593311 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 29
11593241 TTTTATGTTT
* * *
11593251 ATTTATGTTTATTATTTTTATTTATTTTT
1 ATTTATGTTTATTATTTTTATTCACTTTA
11593280 ATTTAT-TTTATTATTTATTA-TCACTTTA
1 ATTTATGTTTATTATTT-TTATTCACTTTA
11593308 ATTT
1 ATTT
11593312 GATACTAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 19 0.68
29 9 0.32
ACGTcount: A:0.25, C:0.03, G:0.02, T:0.70
Consensus pattern (29 bp):
ATTTATGTTTATTATTTTTATTCACTTTA
Found at i:11595985 original size:10 final size:10
Alignment explanation
Indices: 11595970--11596017 Score: 68
Period size: 9 Copynumber: 5.2 Consensus size: 10
11595960 CAGCCTAATT
11595970 TTTATGTTTA
1 TTTATGTTTA
11595980 TTTATGTTTA
1 TTTATGTTTA
11595990 -TTATGTTTA
1 TTTATGTTTA
11595999 TTTA--TTTA
1 TTTATGTTTA
11596007 TTTAT-TTTA
1 TTTATGTTTA
11596016 TT
1 TT
11596018 ATTTATTATC
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.22
9 15 0.42
10 13 0.36
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.73
Consensus pattern (10 bp):
TTTATGTTTA
Found at i:11596026 original size:23 final size:26
Alignment explanation
Indices: 11595976--11596024 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
11595966 AATTTTTATG
11595976 TTTATTTATGTTTATTATGTTTATTTA
1 TTTATTTATGTTTATTA-GTTTATTTA
11596003 TTTATTTAT-TTTATTA-TTTATT
1 TTTATTTATGTTTATTAGTTTATT
11596025 ATCACTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 6 0.27
26 7 0.32
27 9 0.41
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.73
Consensus pattern (26 bp):
TTTATTTATGTTTATTAGTTTATTTA
Found at i:11607445 original size:43 final size:43
Alignment explanation
Indices: 11607397--11607494 Score: 133
Period size: 43 Copynumber: 2.3 Consensus size: 43
11607387 GTGTGATTTT
* * * *
11607397 GTGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTAC
1 GTGTAAGACCATGCCTGGGACAGTGACATCGATATGAGATAAC
* *
11607440 GTGTAAGACCCTGCCTGGGACAGTGACATCGATATGTGATAAC
1 GTGTAAGACCATGCCTGGGACAGTGACATCGATATGAGATAAC
*
11607483 ATGTAAGACCAT
1 GTGTAAGACCAT
11607495 ATCTAGGATA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.26
Consensus pattern (43 bp):
GTGTAAGACCATGCCTGGGACAGTGACATCGATATGAGATAAC
Found at i:11618748 original size:22 final size:22
Alignment explanation
Indices: 11618706--11618751 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
11618696 AGTCAAAATG
* *
11618706 AAAATGAAAAAAGAGAGAAGAA
1 AAAAGGAAAAAAGAGAAAAGAA
11618728 AAAAGGAAAAAAG-GAAAAAGAA
1 AAAAGGAAAAAAGAG-AAAAGAA
11618750 AA
1 AA
11618752 GGAGAGGCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 20 0.95
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (22 bp):
AAAAGGAAAAAAGAGAAAAGAA
Found at i:11619610 original size:21 final size:21
Alignment explanation
Indices: 11619586--11619632 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
11619576 TTGATTTCTC
*
11619586 AAAAAAAGAAAGTGAAAAATG
1 AAAAAAAGAAAATGAAAAATG
*
11619607 AAAAAATGAAAATGAAAAATG
1 AAAAAAAGAAAATGAAAAATG
11619628 AAAAA
1 AAAAA
11619633 TGGAGAAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.11
Consensus pattern (21 bp):
AAAAAAAGAAAATGAAAAATG
Found at i:11619613 original size:8 final size:7
Alignment explanation
Indices: 11619598--11619634 Score: 58
Period size: 7 Copynumber: 5.3 Consensus size: 7
11619588 AAAAAGAAAG
11619598 TGAAAAA
1 TGAAAAA
11619605 TGAAAAAA
1 TG-AAAAA
11619613 TG-AAAA
1 TGAAAAA
11619619 TGAAAAA
1 TGAAAAA
11619626 TGAAAAA
1 TGAAAAA
11619633 TG
1 TG
11619635 GAGAAGCTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 6 0.21
7 15 0.54
8 7 0.25
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (7 bp):
TGAAAAA
Done.