Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 12 of 290
Found at i:4228450 original size:22 final size:21
Alignment explanation
Indices: 4228425--4228476 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
4228415 TATGTGTTAT
*
4228425 AAATTATATAATATAATATATA
1 AAATTACATAATATAATATA-A
*
4228447 AAATAACATAATATAATATAA
1 AAATTACATAATATAATATAA
4228468 AACATTACA
1 AA-ATTACA
4228477 AACTTAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 3 0.12
22 23 0.88
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.33
Consensus pattern (21 bp):
AAATTACATAATATAATATAA
Found at i:4236004 original size:23 final size:23
Alignment explanation
Indices: 4235975--4236032 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 23
4235965 TTTATTTTTA
4235975 TATAAAATATATAAAAATATATTT
1 TATAAAATA-ATAAAAATATATTT
* *
4235999 T-TAAAATAAT-ATAATTTATTT
1 TATAAAATAATAAAAATATATTT
4236020 TATAAAATAATAA
1 TATAAAATAATAA
4236033 TATTTTAGTC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
21 10 0.33
22 11 0.37
23 8 0.27
24 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
TATAAAATAATAAAAATATATTT
Found at i:4236037 original size:22 final size:22
Alignment explanation
Indices: 4235967--4236037 Score: 67
Period size: 22 Copynumber: 3.2 Consensus size: 22
4235957 CGCTTATTTT
*
4235967 TATTT-TTATATAAAATATATAAA
1 TATTTATTTTATAAAATA-AT-AA
* *
4235990 AATATATTTT-TAAAATAAT-A
1 TATTTATTTTATAAAATAATAA
4236010 TAATTTATTTTATAAAATAATAA
1 T-ATTTATTTTATAAAATAATAA
4236033 TATTT
1 TATTT
4236038 TAGTCATTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
20 1 0.03
21 8 0.21
22 15 0.38
23 12 0.31
24 3 0.08
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TATTTATTTTATAAAATAATAA
Found at i:4239336 original size:14 final size:15
Alignment explanation
Indices: 4239304--4239336 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
4239294 TTAAGAATAT
4239304 TTATAATTTTAAGAA
1 TTATAATTTTAAGAA
*
4239319 TTATTATTTTAA-AA
1 TTATAATTTTAAGAA
4239333 TTAT
1 TTAT
4239337 GATTAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
TTATAATTTTAAGAA
Found at i:4249094 original size:25 final size:25
Alignment explanation
Indices: 4249064--4249114 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
4249054 CACAAAAGAC
4249064 ATAATAATGAAGTATTGTGAAATGA
1 ATAATAATGAAGTATTGTGAAATGA
4249089 ATAATAATGAAGTATTGTGAAATGA
1 ATAATAATGAAGTATTGTGAAATGA
4249114 A
1 A
4249115 CTTTATTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.49, C:0.00, G:0.20, T:0.31
Consensus pattern (25 bp):
ATAATAATGAAGTATTGTGAAATGA
Found at i:4250558 original size:40 final size:40
Alignment explanation
Indices: 4250510--4250642 Score: 167
Period size: 40 Copynumber: 3.3 Consensus size: 40
4250500 CTTTTCAGGT
* *
4250510 TAAATCCTATCCACCTTAAGTTACTGTAGTGAATCAGGAA
1 TAAATCCTATCCACTTTAAGTTACTATAGTGAATCAGGAA
* * * *
4250550 TAAATCCTATTCACTTTAAATTACCATAATGAATCAGGAA
1 TAAATCCTATCCACTTTAAGTTACTATAGTGAATCAGGAA
* * * *
4250590 CAAATCCTATCCACTTTGAGGTATTATAGTGAATCAGGAA
1 TAAATCCTATCCACTTTAAGTTACTATAGTGAATCAGGAA
*
4250630 TGAATCCTATCCA
1 TAAATCCTATCCA
4250643 AATTATATTC
Statistics
Matches: 77, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 77 1.00
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.31
Consensus pattern (40 bp):
TAAATCCTATCCACTTTAAGTTACTATAGTGAATCAGGAA
Found at i:4252363 original size:17 final size:18
Alignment explanation
Indices: 4252332--4252365 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
4252322 CATGTGACAT
4252332 GCCCGTGTGGGCCCACAC
1 GCCCGTGTGGGCCCACAC
4252350 GCCCGTGT-GGCCCACA
1 GCCCGTGTGGGCCCACA
4252366 TGGCCCAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.12, C:0.44, G:0.32, T:0.12
Consensus pattern (18 bp):
GCCCGTGTGGGCCCACAC
Found at i:4252371 original size:18 final size:18
Alignment explanation
Indices: 4252328--4252367 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
4252318 TGCCCATGTG
4252328 ACATGCCCGTGTGGGCCC
1 ACATGCCCGTGTGGGCCC
*
4252346 ACACGCCCGTGT-GGCCC
1 ACATGCCCGTGTGGGCCC
4252363 ACATG
1 ACATG
4252368 GCCCAAATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.15, C:0.40, G:0.30, T:0.15
Consensus pattern (18 bp):
ACATGCCCGTGTGGGCCC
Found at i:4254113 original size:20 final size:18
Alignment explanation
Indices: 4254079--4254115 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
4254069 GCAACTCATA
4254079 ATTTCAACTATTTTACAC
1 ATTTCAACTATTTTACAC
4254097 ATTTACAACTCATTTTACA
1 ATTT-CAACT-ATTTTACA
4254116 ACTTAGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTCAACTATTTTACAC
Found at i:4256862 original size:46 final size:46
Alignment explanation
Indices: 4256787--4257151 Score: 538
Period size: 46 Copynumber: 8.0 Consensus size: 46
4256777 TTATCTTTGA
* * * * * *
4256787 CATGATGCCATAGTGTCTTTCAACTATGGTATTACTCATTTTC-TAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
***
4256833 CATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
4256879 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
4256925 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTGCACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* ** *
4256971 CATGTTGCCATGGTATCTTTCAACCATGGTGTTATTC-TTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
4257016 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
4257062 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TAAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT-AT
4257108 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
4257152 TTCAGAGAGC
Statistics
Matches: 291, Mismatches: 24, Indels: 7
0.90 0.07 0.02
Matches are distributed among these distances:
45 45 0.15
46 245 0.84
47 1 0.00
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:4257071 original size:137 final size:137
Alignment explanation
Indices: 4256787--4257151 Score: 570
Period size: 137 Copynumber: 2.6 Consensus size: 137
4256777 TTATCTTTGA
* * * * * *
4256787 CATGATGCCATAGTGTCTTTCAACTATGGTATTACTCATTTTCTATCATGTTGCCATGGTATCTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCATGTTGCCATGGTATCTT
* *
4256852 TCAACCATGGTCTTGTTCATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
65 TCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
4256917 TTTCATAT
130 TTTCATAT
* *
4256925 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTGCACATTTCATATCATGTTGCCATGGTATCTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCATGTTGCCATGGTATCTT
* *
4256990 TCAACCATGGTGTTATTC-TTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
65 TCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
4257054 TTTCATAT
130 TTTCATAT
4257062 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTAATCATGTTGCCATGGTATCTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCT-ATCATGTTGCCATGGTATCTT
**
4257127 TCAACCATGGTCTTACACATTTCAT
65 TCAACCATGGTCTTATTCATTTCAT
4257152 TTCAGAGAGC
Statistics
Matches: 207, Mismatches: 17, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
136 1 0.00
137 132 0.64
138 74 0.36
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (137 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCATGTTGCCATGGTATCTTT
CAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
TTCATAT
Found at i:4257148 original size:183 final size:183
Alignment explanation
Indices: 4256787--4257151 Score: 563
Period size: 183 Copynumber: 2.0 Consensus size: 183
4256777 TTATCTTTGA
* * *
4256787 CATGATGCCATAGTGTCTTTCAACTATGGTATTACTCATTTTCTATCATGTTGCCATGGTATCTT
1 CATGATGCCATAGTATCTTTCAACCATGGTATTACTCA-TTTCTATCACGTTGCCATGGTATCTT
***
4256852 TCAACCATGGTCTTGTTCATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
65 TCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
*
4256917 TTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTGCACATTTCATAT
130 TTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* * * * *
4256971 CATGTTGCCATGGTATCTTTCAACCATGGTGTTATTC-TTTCATGTCACGTTGCCATGGTATCTT
1 CATGATGCCATAGTATCTTTCAACCATGGTATTACTCATTTC-TATCACGTTGCCATGGTATCTT
*
4257035 TCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
65 TCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
*
4257100 TTTC-TAATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
130 TTTCAT-ATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
4257152 TTCAGAGAGC
Statistics
Matches: 165, Mismatches: 14, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
182 5 0.03
183 129 0.78
184 31 0.19
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (183 bp):
CATGATGCCATAGTATCTTTCAACCATGGTATTACTCATTTCTATCACGTTGCCATGGTATCTTT
CAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
TTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:4259302 original size:3 final size:3
Alignment explanation
Indices: 4259288--4259336 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
4259278 TTTTATACTA
*
4259288 AAT AATT AAT AAT AA- AAT AAT AAT GA- AAT AAT AAT AA- AAT AAT
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4259331 AA- AAT A
1 AAT AAT A
4259337 TCTCATTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 7 0.18
3 29 0.74
4 3 0.08
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:4259310 original size:11 final size:11
Alignment explanation
Indices: 4259294--4259332 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
4259284 ACTAAATAAT
4259294 TAATAATAAAA
1 TAATAATAAAA
*
4259305 TAATAATGAAA
1 TAATAATAAAA
4259316 TAATAATAAAA
1 TAATAATAAAA
4259327 TAATAA
1 TAATAA
4259333 AATATCTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:4259319 original size:19 final size:19
Alignment explanation
Indices: 4259295--4259336 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
4259285 CTAAATAATT
*
4259295 AATAATAAAATAATAATGA
1 AATAATAAAATAATAATAA
4259314 AATAATAATAA-AATAATAA
1 AATAATAA-AATAATAATAA
4259333 AATA
1 AATA
4259337 TCTCATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (19 bp):
AATAATAAAATAATAATAA
Found at i:4259359 original size:20 final size:21
Alignment explanation
Indices: 4259306--4259381 Score: 68
Period size: 20 Copynumber: 3.7 Consensus size: 21
4259296 ATAATAAAAT
* *
4259306 AATAATGAAATA-ATAA-TAA
1 AATAATAAAATATCTAATTAA
*
4259325 AATAATAAAATATCTCATTAA
1 AATAATAAAATATCTAATTAA
*
4259346 AATAAT-ATATATCTAATTAAA
1 AATAATAAAATATCTAATT-AA
*
4259367 TAATCATAAAATATC
1 -AATAATAAAATATC
4259382 ATCAACATCA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
19 11 0.24
20 12 0.27
21 11 0.24
22 5 0.11
23 6 0.13
ACGTcount: A:0.59, C:0.07, G:0.01, T:0.33
Consensus pattern (21 bp):
AATAATAAAATATCTAATTAA
Found at i:4264681 original size:22 final size:22
Alignment explanation
Indices: 4264647--4264707 Score: 56
Period size: 24 Copynumber: 2.8 Consensus size: 22
4264637 TAAAATTTTA
*
4264647 ATATATTTT-ATTTTTAT-TTT
1 ATATTTTTTAATTTTTATGTTT
* *
4264667 -TATTTTTTATAATTTTAAGTTT
1 ATATTTTTTA-ATTTTTATGTTT
4264689 ATGATTTTTTAATTTTTAT
1 AT-ATTTTTTAATTTTTAT
4264708 AATTTTTAGC
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
19 7 0.23
21 6 0.19
22 3 0.10
23 7 0.23
24 8 0.26
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.70
Consensus pattern (22 bp):
ATATTTTTTAATTTTTATGTTT
Found at i:4267276 original size:18 final size:18
Alignment explanation
Indices: 4267232--4267279 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
4267222 CCATTAAGCC
4267232 CCCCCAAAAAAAACCTAA
1 CCCCCAAAAAAAACCTAA
**
4267250 CCCAAAAAAAAAACCTAA
1 CCCCCAAAAAAAACCTAA
4267268 CCCCCAAAAAAA
1 CCCCCAAAAAAA
4267280 CCAAGAAACC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.60, C:0.35, G:0.00, T:0.04
Consensus pattern (18 bp):
CCCCCAAAAAAAACCTAA
Found at i:4267788 original size:17 final size:17
Alignment explanation
Indices: 4267745--4267793 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
4267735 CCCATTAAGG
*
4267745 CCCCCAAAAAAACCTAA
1 CCCCAAAAAAAACCTAA
*
4267762 CCCAAAAAAAAAACCTAA
1 CCC-CAAAAAAAACCTAA
*
4267780 CCCCTAAAAAAACC
1 CCCCAAAAAAAACC
4267794 AAGAAACCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 12 0.44
18 15 0.56
ACGTcount: A:0.57, C:0.37, G:0.00, T:0.06
Consensus pattern (17 bp):
CCCCAAAAAAAACCTAA
Found at i:4268100 original size:17 final size:17
Alignment explanation
Indices: 4268078--4268116 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
4268068 CCTAAAGATG
*
4268078 ATTTTA-TCTTCTTTATT
1 ATTTTACTCTTATTT-TT
4268095 ATTTTACTCTTATTTTT
1 ATTTTACTCTTATTTTT
4268112 ATTTT
1 ATTTT
4268117 TATTTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTTACTCTTATTTTT
Found at i:4268194 original size:13 final size:13
Alignment explanation
Indices: 4268159--4268187 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
4268149 TATATACATC
4268159 ATAATAAAAATAT
1 ATAATAAAAATAT
4268172 ATAATAAAAATAT
1 ATAATAAAAATAT
4268185 ATA
1 ATA
4268188 TACAAAACAA
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
ATAATAAAAATAT
Found at i:4268201 original size:15 final size:14
Alignment explanation
Indices: 4268159--4268212 Score: 51
Period size: 15 Copynumber: 3.9 Consensus size: 14
4268149 TATATACATC
4268159 ATAAT-AAAAATAT
1 ATAATAAAAAATAT
4268172 ATAATAAAAATATAT
1 ATAATAAAAA-ATAT
4268187 ATACA-AAACAAATAT
1 ATA-ATAAA-AAATAT
*
4268202 -TAAAAAAAAAT
1 ATAATAAAAAAT
4268213 TACGCGGTGG
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
13 10 0.28
14 9 0.25
15 14 0.39
16 3 0.08
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (14 bp):
ATAATAAAAAATAT
Found at i:4268866 original size:11 final size:11
Alignment explanation
Indices: 4268842--4268886 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
4268832 TTCTAATACG
*
4268842 TATATATATAT
1 TATATATATTT
*
4268853 TATATGTATTT
1 TATATATATTT
*
4268864 TATATATATTA
1 TATATATATTT
*
4268875 TGTATATATTT
1 TATATATATTT
4268886 T
1 T
4268887 TTTAATGCCA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (11 bp):
TATATATATTT
Found at i:4276868 original size:102 final size:102
Alignment explanation
Indices: 4276692--4276900 Score: 409
Period size: 102 Copynumber: 2.0 Consensus size: 102
4276682 AACATATTTC
4276692 ACCAAAATTATTCTTCACTCATGATCTTGAGAAGAAAGGTGACATAGAAGTTCAACAAATTCGTT
1 ACCAAAATTATTCTTCACTCATGATCTTGAGAAGAAAGGTGACATAGAAGTTCAACAAATTCGTT
4276757 CTAGTGATAATTTAGCAGATCTTTTTACCAAGGCATT
66 CTAGTGATAATTTAGCAGATCTTTTTACCAAGGCATT
4276794 ACCAAAATTATTCTTCACTCATGATCTTGAGAAGAAAGGTGACATAGAAGTTCAACAAATTCGTT
1 ACCAAAATTATTCTTCACTCATGATCTTGAGAAGAAAGGTGACATAGAAGTTCAACAAATTCGTT
4276859 CTAGTGATAATTTAGCAGATCTTTTTACCAAGGCATT
66 CTAGTGATAATTTAGCAGATCTTTTTACCAAGGCATT
*
4276896 GCCAA
1 ACCAA
4276901 CTTCAACATT
Statistics
Matches: 106, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
102 106 1.00
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (102 bp):
ACCAAAATTATTCTTCACTCATGATCTTGAGAAGAAAGGTGACATAGAAGTTCAACAAATTCGTT
CTAGTGATAATTTAGCAGATCTTTTTACCAAGGCATT
Found at i:4278717 original size:12 final size:12
Alignment explanation
Indices: 4278700--4278726 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
4278690 CCTTCTTCTC
4278700 CCCTTTCCCCTT
1 CCCTTTCCCCTT
4278712 CCCTTTCCCCTT
1 CCCTTTCCCCTT
4278724 CCC
1 CCC
4278727 CTTGGGTTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.63, G:0.00, T:0.37
Consensus pattern (12 bp):
CCCTTTCCCCTT
Found at i:4278848 original size:25 final size:27
Alignment explanation
Indices: 4278788--4278848 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 27
4278778 CCAGGTAAGG
*
4278788 CTTCTTCTCCTTCATCCGTTCTTCATTC
1 CTTC-TCTTCTTCATCCGTTCTTCATTC
*
4278816 CTT-T-TTCTTCTTCCGTTCTTCA-T-
1 CTTCTCTTCTTCATCCGTTCTTCATTC
4278839 CTTCTCTTCT
1 CTTCTCTTCT
4278849 CAGCATATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
23 3 0.10
24 2 0.07
25 20 0.69
26 1 0.03
28 3 0.10
ACGTcount: A:0.05, C:0.36, G:0.03, T:0.56
Consensus pattern (27 bp):
CTTCTCTTCTTCATCCGTTCTTCATTC
Found at i:4279022 original size:15 final size:12
Alignment explanation
Indices: 4278987--4279018 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
4278977 CGTTCTCACT
*
4278987 AAAATTGGTAAA
1 AAAATCGGTAAA
4278999 AAAATCGGTAAA
1 AAAATCGGTAAA
4279011 AAAATCGG
1 AAAATCGG
4279019 CGGTTCCAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.56, C:0.06, G:0.19, T:0.19
Consensus pattern (12 bp):
AAAATCGGTAAA
Found at i:4279363 original size:12 final size:13
Alignment explanation
Indices: 4279340--4279365 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4279330 TCAATGAACC
4279340 CTTAATTTTTTTG
1 CTTAATTTTTTTG
4279353 CTTAATTTTTTTG
1 CTTAATTTTTTTG
4279366 GTACTCAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.08, T:0.69
Consensus pattern (13 bp):
CTTAATTTTTTTG
Found at i:4282774 original size:21 final size:21
Alignment explanation
Indices: 4282748--4282800 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
4282738 CGCTGTTTCT
*
4282748 AATCTCACCGCTACAATATCC
1 AATCTCACCGCTACAATAACC
* *
4282769 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAATAACC
4282790 AATCTCACCGC
1 AATCTCACCGC
4282801 CACCGCTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.32, C:0.38, G:0.08, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAATAACC
Found at i:4294246 original size:29 final size:28
Alignment explanation
Indices: 4294209--4294294 Score: 91
Period size: 31 Copynumber: 2.9 Consensus size: 28
4294199 TCTCCTTAAT
* *
4294209 TTAATTAAATCAAAATTTCGTGTATAAAA
1 TTAAATAAATCAAAATTT-ATGTATAAAA
*
4294238 TTAAATAAAATTAAAATTTATGTATAAAA
1 TTAAAT-AAATCAAAATTTATGTATAAAA
*
4294267 TTATACATTAAATCATAATTTATGTATA
1 TTA-A-A-TAAATCAAAATTTATGTATA
4294295 GTTTTGAGAT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
29 17 0.35
30 12 0.25
31 18 0.38
32 1 0.02
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.41
Consensus pattern (28 bp):
TTAAATAAATCAAAATTTATGTATAAAA
Found at i:4294290 original size:31 final size:29
Alignment explanation
Indices: 4294206--4294294 Score: 106
Period size: 30 Copynumber: 3.0 Consensus size: 29
4294196 ATTTCTCCTT
* *
4294206 AATTTAATTAAATCAAAATTTCGTGTATAA
1 AATTAAATTAAATCAAAATTT-ATGTATAA
* *
4294236 AATTAAATAAAATTAAAATTTATGTATAA
1 AATTAAATTAAATCAAAATTTATGTATAA
*
4294265 AATTATACATTAAATCATAATTTATGTATA
1 AATTA-A-ATTAAATCAAAATTTATGTATA
4294295 GTTTTGAGAT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
29 12 0.24
30 19 0.38
31 19 0.38
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.40
Consensus pattern (29 bp):
AATTAAATTAAATCAAAATTTATGTATAA
Found at i:4296189 original size:17 final size:17
Alignment explanation
Indices: 4296164--4296202 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
4296154 TGTTTGTGGG
*
4296164 TTTTTTTTA-AAAACTTA
1 TTTTATTTATAAAA-TTA
4296181 TTTTATTTATAAAATTA
1 TTTTATTTATAAAATTA
4296198 TTTTA
1 TTTTA
4296203 ATAAATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTATTTATAAAATTA
Found at i:4307182 original size:16 final size:16
Alignment explanation
Indices: 4307161--4307215 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
4307151 TGAATTACTG
4307161 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
4307177 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
4307193 ATTACAGCCCTATTCC
1 ATTACAGCTCTATTCC
4307209 ATTACAG
1 ATTACAG
4307216 TGAACCAAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.29, C:0.29, G:0.07, T:0.35
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:4310478 original size:9 final size:9
Alignment explanation
Indices: 4310445--4310488 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
4310435 TTAAAACGCA
4310445 TTCTTTCTTC
1 TTCTTT-TTC
*
4310455 TTCTTCTTC
1 TTCTTTTTC
4310464 TTCTTTTTC
1 TTCTTTTTC
4310473 TTCTTTTT-
1 TTCTTTTTC
4310481 TT-TTTTTC
1 TTCTTTTTC
4310489 CCCTTTTTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
7 5 0.16
8 2 0.06
9 19 0.61
10 5 0.16
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (9 bp):
TTCTTTTTC
Found at i:4310483 original size:12 final size:12
Alignment explanation
Indices: 4310449--4310482 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
4310439 AACGCATTCT
*
4310449 TTCTTCTTCTTC
1 TTCTTCTTTTTC
4310461 TTCTTCTTTTTC
1 TTCTTCTTTTTC
4310473 TTCTT-TTTTT
1 TTCTTCTTTTT
4310483 TTTTTCCCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTCTTCTTTTTC
Found at i:4320094 original size:7 final size:7
Alignment explanation
Indices: 4320082--4320119 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
4320072 TTTTTACTTG
4320082 TATTTAT
1 TATTTAT
4320089 TATTTAT
1 TATTTAT
4320096 TATTTAT
1 TATTTAT
4320103 TATTTAT
1 TATTTAT
4320110 TA-TTAT
1 TATTTAT
4320116 TATT
1 TATT
4320120 GGATATTCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.20
7 24 0.80
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TATTTAT
Found at i:4323654 original size:95 final size:95
Alignment explanation
Indices: 4323542--4323732 Score: 373
Period size: 95 Copynumber: 2.0 Consensus size: 95
4323532 CAATTATCCA
4323542 TATCAACTTTGTATTATTAATTTTGTAAACCTTTTAGGGTATTTTCAATAAAAAAATATTTGAAA
1 TATCAACTTTGTATTATTAATTTTGTAAACCTTTTAGGGTATTTTCAATAAAAAAATATTTGAAA
4323607 GAAAAGATAATAAGAGAAATTATTTTTATT
66 GAAAAGATAATAAGAGAAATTATTTTTATT
*
4323637 TATCAACTTTGTATTATTAATTTTGTAAACCTTTTAGGGTATTTTCAATTAAAAAATATTTGAAA
1 TATCAACTTTGTATTATTAATTTTGTAAACCTTTTAGGGTATTTTCAATAAAAAAATATTTGAAA
4323702 GAAAAGATAATAAGAGAAATTATTTTTATT
66 GAAAAGATAATAAGAGAAATTATTTTTATT
4323732 T
1 T
4323733 TAATACATAA
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 95 1.00
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.43
Consensus pattern (95 bp):
TATCAACTTTGTATTATTAATTTTGTAAACCTTTTAGGGTATTTTCAATAAAAAAATATTTGAAA
GAAAAGATAATAAGAGAAATTATTTTTATT
Found at i:4327273 original size:11 final size:12
Alignment explanation
Indices: 4327247--4327279 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
4327237 ATCAAACTAA
4327247 TATTTAATTAGT
1 TATTTAATTAGT
*
4327259 TATTTACTT-GT
1 TATTTAATTAGT
4327270 TATTTAATTA
1 TATTTAATTA
4327280 ATTTTCATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.30, C:0.03, G:0.06, T:0.61
Consensus pattern (12 bp):
TATTTAATTAGT
Found at i:4330256 original size:16 final size:18
Alignment explanation
Indices: 4330235--4330276 Score: 54
Period size: 16 Copynumber: 2.4 Consensus size: 18
4330225 TTTTTAATCT
4330235 AAAAATA-TTCAAA-TTC-
1 AAAAATACTT-AAATTTCG
4330251 AAAAATACTTAAATTTCG
1 AAAAATACTTAAATTTCG
4330269 AAAAATAC
1 AAAAATAC
4330277 AAACATGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 10 0.43
17 5 0.22
18 8 0.35
ACGTcount: A:0.57, C:0.12, G:0.02, T:0.29
Consensus pattern (18 bp):
AAAAATACTTAAATTTCG
Found at i:4344961 original size:3 final size:3
Alignment explanation
Indices: 4344953--4344984 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
4344943 TCAGAATTTG
4344953 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
4344985 TCACCTCCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:4347219 original size:91 final size:91
Alignment explanation
Indices: 4347110--4347286 Score: 225
Period size: 91 Copynumber: 1.9 Consensus size: 91
4347100 ATATTATAAA
** * *
4347110 TTTTATCACATGTGTATGTACGTAGAAATTATGTATTTA-AGACACGT-T-TTAATTTTAAAATA
1 TTTTATCACATGCATATGTACGTAGAAATTATGTACTTAGA-ACACATATGTTAATTTTAAAA-A
* **
4347172 ACATATGATAAATGATGAAGCAGATTAT
64 ACATATAATAAACAATGAAGCAGATTAT
* *
4347200 TTTTCATCACATGCATATGTATGTAGAAGTTATGTACTTAGAACACATATGTTAATTTTAAAAAA
1 TTTT-ATCACATGCATATGTACGTAGAAATTATGTACTTAGAACACATATGTTAATTTTAAAAAA
4347265 CATATAATAAACAATGAAGCAG
65 CATATAATAAACAATGAAGCAG
4347287 GTCATTTGAA
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
90 4 0.05
91 35 0.47
92 23 0.31
93 12 0.16
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.36
Consensus pattern (91 bp):
TTTTATCACATGCATATGTACGTAGAAATTATGTACTTAGAACACATATGTTAATTTTAAAAAAC
ATATAATAAACAATGAAGCAGATTAT
Found at i:4347539 original size:25 final size:25
Alignment explanation
Indices: 4347510--4347565 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
4347500 CAATTGATGA
4347510 AAAAATA-AAATATGCATAATAAAAT
1 AAAAATATAAATAT-CATAATAAAAT
* * *
4347535 TAAAATATAAATATTATATTAAAAT
1 AAAAATATAAATATCATAATAAAAT
4347560 AAAAAT
1 AAAAAT
4347566 TTAGTTTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 20 0.77
26 6 0.23
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (25 bp):
AAAAATATAAATATCATAATAAAAT
Found at i:4351583 original size:3 final size:3
Alignment explanation
Indices: 4351575--4351632 Score: 86
Period size: 3 Copynumber: 20.0 Consensus size: 3
4351565 AGATATTTAC
4351575 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4351621 TT- TTA TCTA TTA
1 TTA TTA T-TA TTA
4351633 ACTAAGATAA
Statistics
Matches: 51, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
2 6 0.12
3 42 0.82
4 3 0.06
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:4353250 original size:13 final size:13
Alignment explanation
Indices: 4353229--4353263 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
4353219 GATAGTTTGG
4353229 TATGAATTTATATA
1 TATG-ATTTATATA
*
4353243 TATGATTTATATG
1 TATGATTTATATA
4353256 TATGATTT
1 TATGATTT
4353264 GATAATTATC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.54
Consensus pattern (13 bp):
TATGATTTATATA
Found at i:4354998 original size:19 final size:19
Alignment explanation
Indices: 4354974--4355013 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
4354964 ATTAATTTTG
4354974 ATCAAATAAAATT-AAATTA
1 ATCAAAT-AAATTAAAATTA
*
4354993 ATCAAATCAATTAAAATTA
1 ATCAAATAAATTAAAATTA
4355012 AT
1 AT
4355014 ATGATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (19 bp):
ATCAAATAAATTAAAATTA
Found at i:4369614 original size:23 final size:23
Alignment explanation
Indices: 4369586--4369632 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
4369576 AGTAAAGAAC
4369586 AGTACAAATATGAAAAGAAAAAT
1 AGTACAAATATGAAAAGAAAAAT
*
4369609 AGTACAAATATGAAAAGAACAAT
1 AGTACAAATATGAAAAGAAAAAT
4369632 A
1 A
4369633 ATCCAGAGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.64, C:0.06, G:0.13, T:0.17
Consensus pattern (23 bp):
AGTACAAATATGAAAAGAAAAAT
Found at i:4374453 original size:5 final size:5
Alignment explanation
Indices: 4374443--4374467 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
4374433 TTTCTTATAC
4374443 AATTT AATTT AATTT AATTT AATTT
1 AATTT AATTT AATTT AATTT AATTT
4374468 TTTTGGGGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
AATTT
Found at i:4380492 original size:31 final size:31
Alignment explanation
Indices: 4380454--4380513 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
4380444 CATTCTAGAC
4380454 TTTTTTTTATTAATT-TTAATAATTTTTAACA
1 TTTTTTTTA-TAATTCTTAATAATTTTTAACA
*
4380485 TTTTTTTTATAATTCTTAGTAATTTTTAA
1 TTTTTTTTATAATTCTTAATAATTTTTAA
4380514 ATAAATTTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 5 0.19
31 22 0.81
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.65
Consensus pattern (31 bp):
TTTTTTTTATAATTCTTAATAATTTTTAACA
Found at i:4386815 original size:17 final size:18
Alignment explanation
Indices: 4386789--4386833 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
4386779 ACAGAATTAG
*
4386789 AATTTGATT-GAAAAAAT
1 AATTTAATTGGAAAAAAT
*
4386806 AATTTAATTGGAAAAATT
1 AATTTAATTGGAAAAAAT
4386824 AATTTGAATT
1 AATTT-AATT
4386834 AATTAACTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 8 0.33
18 12 0.50
19 4 0.17
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (18 bp):
AATTTAATTGGAAAAAAT
Found at i:4390688 original size:26 final size:25
Alignment explanation
Indices: 4390658--4390751 Score: 84
Period size: 26 Copynumber: 3.5 Consensus size: 25
4390648 ACATGTATTT
4390658 TTTA-TTTAAACGGTTTTTATACATTA
1 TTTATTTTAAAC--TTTTTATACATTA
*
4390684 TTTATTTCAAATCTCTCTTT-TACATGTTA
1 TTTATTTTAAA-CT-T-TTTATACA--TTA
*
4390713 TTTATTTTAAACTCTTTTATATATTA
1 TTTATTTTAAACT-TTTTATACATTA
4390739 TTTATTTTAAACT
1 TTTATTTTAAACT
4390752 ATTTCATTTA
Statistics
Matches: 58, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
26 21 0.36
27 13 0.22
28 11 0.19
29 13 0.22
ACGTcount: A:0.29, C:0.11, G:0.03, T:0.57
Consensus pattern (25 bp):
TTTATTTTAAACTTTTTATACATTA
Found at i:4390762 original size:30 final size:28
Alignment explanation
Indices: 4390672--4390751 Score: 92
Period size: 26 Copynumber: 2.9 Consensus size: 28
4390662 TTTAAACGGT
* * *
4390672 TTTTATACATTATTTATTTCAAATCTCTC
1 TTTTATATATTATTTATTTTAAA-CTTTC
* *
4390701 TTTTACATGTTATTTATTTTAAAC--TC
1 TTTTATATATTATTTATTTTAAACTTTC
4390727 TTTTATATATTATTTATTTTAAACT
1 TTTTATATATTATTTATTTTAAACT
4390752 ATTTCATTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
26 24 0.55
28 1 0.02
29 19 0.43
ACGTcount: A:0.29, C:0.11, G:0.01, T:0.59
Consensus pattern (28 bp):
TTTTATATATTATTTATTTTAAACTTTC
Found at i:4390763 original size:26 final size:27
Alignment explanation
Indices: 4390710--4390768 Score: 84
Period size: 26 Copynumber: 2.2 Consensus size: 27
4390700 CTTTTACATG
* *
4390710 TTATTTATTTTAAACTCTTTTATATA-
1 TTATTTATTTTAAACTATTTCATATAT
*
4390736 TTATTTATTTTAAACTATTTCATTTAT
1 TTATTTATTTTAAACTATTTCATATAT
4390763 TTATTT
1 TTATTT
4390769 TTTATATACT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 23 0.79
27 6 0.21
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (27 bp):
TTATTTATTTTAAACTATTTCATATAT
Found at i:4393489 original size:42 final size:43
Alignment explanation
Indices: 4393416--4393498 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 43
4393406 GAATTGAGTA
* **
4393416 CTTCGTTTACTCGATGTCATAGTTCAACTATGGTCTTACACAT
1 CTTCATTTACTCGATGTCATAGCCCAACTATGGTCTTACACAT
*
4393459 CTTCATTTA-TCGATGTCATAGCCCAGCTATGGTCTTACAC
1 CTTCATTTACTCGATGTCATAGCCCAACTATGGTCTTACAC
4393499 GAATCACATA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 28 0.78
43 8 0.22
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.37
Consensus pattern (43 bp):
CTTCATTTACTCGATGTCATAGCCCAACTATGGTCTTACACAT
Found at i:4393540 original size:46 final size:47
Alignment explanation
Indices: 4393475--4393588 Score: 126
Period size: 47 Copynumber: 2.4 Consensus size: 47
4393465 TTATCGATGT
* * * *
4393475 CATAGCCCAGCTATGGTCTTACACGAATCA-CATATCTCA-A-TGATAC
1 CATATCCCAGATATGGTCTTACAC-AAT-AGCATATATCATACCGATAC
* * *
4393521 CATATCCCAGATATGGTCTTATACAGTAGCATATATCATACCGATGC
1 CATATCCCAGATATGGTCTTACACAATAGCATATATCATACCGATAC
4393568 CATATCCCAGATATGGTCTTA
1 CATATCCCAGATATGGTCTTA
4393589 TACGGAAATC
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
44 1 0.02
45 10 0.17
46 22 0.38
47 25 0.43
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (47 bp):
CATATCCCAGATATGGTCTTACACAATAGCATATATCATACCGATAC
Found at i:4393645 original size:31 final size:31
Alignment explanation
Indices: 4393610--4393820 Score: 289
Period size: 31 Copynumber: 6.8 Consensus size: 31
4393600 CTTGTCACTT
* *
4393610 GTAGCCGAAGCTACCACTATTCACTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
4393641 GTAG-CTAGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGA-AGCTACCACTTTTCACTGATCAG
* * * *
4393672 GTAGTCGGAGCTACCATTTTTCACTAATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
4393703 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
4393734 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
**
4393765 GTAGCAAAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
4393796 GTAGCCGAAACTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
4393821 TGTCATTTGT
Statistics
Matches: 162, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
30 2 0.01
31 159 0.98
32 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:4393894 original size:50 final size:51
Alignment explanation
Indices: 4393796--4393924 Score: 197
Period size: 50 Copynumber: 2.5 Consensus size: 51
4393786 CACTGATCAG
* * * * *
4393796 GTAGCCGAAACTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAGT
*
4393847 GTAGCCGAAGCTATTACTTATCACTT-TCACTTATCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAGT
4393897 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
4393925 TGCTATGGTC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
50 47 0.67
51 23 0.33
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAGT
Found at i:4407902 original size:34 final size:34
Alignment explanation
Indices: 4407864--4407932 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
4407854 TAAAATACTC
*
4407864 AAGGAAGTGAGATTCTTTCGTAAATCAGGTACAT
1 AAGGAAGTGAGATTCTTTCATAAATCAGGTACAT
4407898 AAGGAAGTGAGATTCTTTCATAAATCAGGTACAT
1 AAGGAAGTGAGATTCTTTCATAAATCAGGTACAT
4407932 A
1 A
4407933 CCTGACATCT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.29
Consensus pattern (34 bp):
AAGGAAGTGAGATTCTTTCATAAATCAGGTACAT
Found at i:4411871 original size:46 final size:47
Alignment explanation
Indices: 4411810--4411928 Score: 150
Period size: 47 Copynumber: 2.6 Consensus size: 47
4411800 CTTCACATAA
* * * *
4411810 TGATGCCATAGCCCAGCTATGGTCTTACAC-GAATCACATATCTCAC
1 TGATGCCATATCCCAGATATGGTCTTACACAGAAGCACATATCACAC
* * *
4411856 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 TGATGCCATATCCCAGATATGGTCTTACACAGAAGCACATATCACAC
* *
4411903 CGATGACATATCCCAGATATGGTCTT
1 TGATGCCATATCCCAGATATGGTCTT
4411929 GTACGAAAAT
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
46 27 0.43
47 36 0.57
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (47 bp):
TGATGCCATATCCCAGATATGGTCTTACACAGAAGCACATATCACAC
Found at i:4412014 original size:31 final size:31
Alignment explanation
Indices: 4411951--4412098 Score: 228
Period size: 31 Copynumber: 4.8 Consensus size: 31
4411941 CTTGTCACTT
* * *
4411951 GTAGCCGAAGCTACCACTATTCA-TAATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
4411981 GTAGCCGGTA-CTACCACTTTTCACTGATCAG
1 GTAGCCGG-AGCTACCACTTTTCACTGATCAG
4412012 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
4412043 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
* *
4412074 GTAGCCGAAGTTACCACTTTTCACT
1 GTAGCCGGAGCTACCACTTTTCACT
4412099 TGTCATTTGT
Statistics
Matches: 110, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
30 20 0.18
31 90 0.82
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (31 bp):
GTAGCCGGAGCTACCACTTTTCACTGATCAG
Found at i:4412247 original size:50 final size:50
Alignment explanation
Indices: 4412074--4412255 Score: 240
Period size: 55 Copynumber: 3.5 Consensus size: 50
4412064 CACTGATCAG
* * * *
4412074 GTAGCCGAAGTTACCACTTTTCACTTGTCA-TTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
* *
4412125 ATAGCCGAAGCTATCACTTATCACTTTCACTTTCCCTTGATCAGATAAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATC-----AGATAAGT
4412180 GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
4412230 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
4412256 GTTGCCATGG
Statistics
Matches: 117, Mismatches: 8, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
50 44 0.38
51 25 0.21
55 48 0.41
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
Found at i:4418068 original size:30 final size:30
Alignment explanation
Indices: 4418003--4418069 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
4417993 TATAAAATAG
** * *
4418003 TTATTAAATTTTTTAAAAGTTTTCATTTAAG
1 TTATT-AATTTTTTAAAAAATTTCAATTAAA
4418034 TTATTAATTTATTTAAAAAATTT-AATTAAA
1 TTATTAATTT-TTTAAAAAATTTCAATTAAA
4418064 TTATTA
1 TTATTA
4418070 GTGAGTTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
30 16 0.52
31 15 0.48
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (30 bp):
TTATTAATTTTTTAAAAAATTTCAATTAAA
Found at i:4418797 original size:17 final size:17
Alignment explanation
Indices: 4418777--4418812 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
4418767 TGAAAAAAAT
**
4418777 AATTTTAATTTTTTTTA
1 AATTTTAAGGTTTTTTA
4418794 AATTTTAAGGTTTTTTA
1 AATTTTAAGGTTTTTTA
4418811 AA
1 AA
4418813 AATATTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (17 bp):
AATTTTAAGGTTTTTTA
Found at i:4419925 original size:57 final size:59
Alignment explanation
Indices: 4419855--4419988 Score: 191
Period size: 57 Copynumber: 2.3 Consensus size: 59
4419845 GATAAAATTG
* * * *
4419855 AATAGTTGGGTGACTATTTTATAACTTTTTAGAGTTGGGTGAC-CAAAAAAAAT-TACT
1 AATAGTTGAGTGACTATTTTATAACTTTTCAGAGTTGGATGACAAAAAAAAAATCTACT
* *
4419912 AATAGTTGAGTGACCATTTTATAACTTTTCATAGTTGGATGACAAAAAAAAAATCTACT
1 AATAGTTGAGTGACTATTTTATAACTTTTCAGAGTTGGATGACAAAAAAAAAATCTACT
*
4419971 AATAGTTGAGTGGCTATT
1 AATAGTTGAGTGACTATT
4419989 AATATAATTT
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
57 38 0.57
58 9 0.13
59 20 0.30
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.36
Consensus pattern (59 bp):
AATAGTTGAGTGACTATTTTATAACTTTTCAGAGTTGGATGACAAAAAAAAAATCTACT
Found at i:4422494 original size:12 final size:12
Alignment explanation
Indices: 4422477--4422509 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
4422467 CGGCCTGCCC
4422477 ATATTAATTTTT
1 ATATTAATTTTT
4422489 ATATT-ATTTTT
1 ATATTAATTTTT
4422500 ATA-TAATTTT
1 ATATTAATTTT
4422510 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:4422667 original size:30 final size:30
Alignment explanation
Indices: 4422631--4422691 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
4422621 CAACTTAACA
*
4422631 AGCAAATGCCTCTAAAATAATAACAAAATT
1 AGCAAATGCCTCTAAAATAATAAAAAAATT
* *
4422661 AGCAAATGTCTTTAAAATAATAAAAAAATT
1 AGCAAATGCCTCTAAAATAATAAAAAAATT
4422691 A
1 A
4422692 ATAAAAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.56, C:0.11, G:0.07, T:0.26
Consensus pattern (30 bp):
AGCAAATGCCTCTAAAATAATAAAAAAATT
Found at i:4422688 original size:11 final size:11
Alignment explanation
Indices: 4422674--4422703 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
4422664 AAATGTCTTT
4422674 AAAATAATAAA
1 AAAATAATAAA
4422685 AAAATTAATAAA
1 AAAA-TAATAAA
4422697 AAAATAA
1 AAAATAA
4422704 GTTTTATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (11 bp):
AAAATAATAAA
Found at i:4422750 original size:22 final size:22
Alignment explanation
Indices: 4422725--4422767 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
4422715 TATCCAAACA
4422725 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
4422747 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
4422768 AATAGAGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:4422771 original size:11 final size:11
Alignment explanation
Indices: 4422732--4422772 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
4422722 ACAATAACAA
4422732 CAAAATAGTAG
1 CAAAATAGTAG
* *
4422743 CAACATAATAG
1 CAAAATAGTAG
*
4422754 TAAAATAGTAG
1 CAAAATAGTAG
4422765 CAAAATAG
1 CAAAATAG
4422773 AGAGAAAATA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:4422780 original size:22 final size:22
Alignment explanation
Indices: 4422733--4422782 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
4422723 CAATAACAAC
* *
4422733 AAAATAGTAGCAACATAATAGT
1 AAAATAGTAGCAAAATAAGAGT
4422755 AAAATAGTAGCAAAATAGAGAG-
1 AAAATAGTAGCAAAATA-AGAGT
4422777 AAAATA
1 AAAATA
4422783 ATAAGAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 22 0.88
23 3 0.12
ACGTcount: A:0.60, C:0.06, G:0.16, T:0.18
Consensus pattern (22 bp):
AAAATAGTAGCAAAATAAGAGT
Found at i:4425873 original size:47 final size:47
Alignment explanation
Indices: 4425764--4425874 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
4425754 CCGGGATAAG
* *
4425764 CACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
4425811 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTTG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
4425858 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
4425875 ACTCAATGTC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 52 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:4426647 original size:4 final size:4
Alignment explanation
Indices: 4426638--4426666 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
4426628 CCCTTTTCTA
4426638 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
4426667 CACGTTTGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:4431516 original size:3 final size:3
Alignment explanation
Indices: 4431508--4431545 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
4431498 ATTCAATTGT
4431508 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4431546 TCACTTCCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4437853 original size:19 final size:19
Alignment explanation
Indices: 4437810--4437853 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
4437800 TTAACCCTCT
*
4437810 TAATATATTATATGGTATA
1 TAATATATTATATAGTATA
*
4437829 TAATATATTA-ATAGTTTA
1 TAATATATTATATAGTATA
4437847 T-ATATAT
1 TAATATAT
4437854 GCATCAATAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 6 0.26
18 7 0.30
19 10 0.43
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (19 bp):
TAATATATTATATAGTATA
Found at i:4437986 original size:23 final size:23
Alignment explanation
Indices: 4437929--4437994 Score: 66
Period size: 23 Copynumber: 2.9 Consensus size: 23
4437919 TAGTTATATA
4437929 TATATATATATATATTAATATTTT
1 TATATATAT-TATATTAATATTTT
*
4437953 TAAAATATATTATATT-ATATTTAT
1 T-ATATATATTATATTAATATTT-T
*
4437977 TATATGTATTA-A-TAATAT
1 TATATATATTATATTAATAT
4437995 ACTAATTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
21 1 0.03
22 5 0.14
23 14 0.39
24 9 0.25
25 7 0.19
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (23 bp):
TATATATATTATATTAATATTTT
Found at i:4440745 original size:26 final size:27
Alignment explanation
Indices: 4440708--4440758 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
4440698 TTTCTTTTTT
*
4440708 TTTTTGTTTTATAGATTTTTGCGTAAA
1 TTTTTGTTTTATAAATTTTTGCGTAAA
4440735 TTTTT-TTTTATAAATTTTTGCGTA
1 TTTTTGTTTTATAAATTTTTGCGTA
4440759 CAGCAATGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.22, C:0.04, G:0.12, T:0.63
Consensus pattern (27 bp):
TTTTTGTTTTATAAATTTTTGCGTAAA
Found at i:4449473 original size:18 final size:18
Alignment explanation
Indices: 4449450--4449485 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
4449440 TCTAATTCAC
4449450 TTTAATTTACCCAATCAA
1 TTTAATTTACCCAATCAA
4449468 TTTAATTTACCCAATCAA
1 TTTAATTTACCCAATCAA
4449486 AGCTTACTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.22, G:0.00, T:0.39
Consensus pattern (18 bp):
TTTAATTTACCCAATCAA
Found at i:4452300 original size:3 final size:3
Alignment explanation
Indices: 4452294--4452335 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
4452284 GCCATGAAAA
* *
4452294 AAG AAG AAG AAG AAG AAG AAG AAA AAG -AG AAA AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
4452336 GGGAGGCGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:4453114 original size:27 final size:27
Alignment explanation
Indices: 4453084--4453140 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
4453074 TGGCAGCAGC
4453084 ACCGGTGCCGCCTATGGGGTACCCTCA
1 ACCGGTGCCGCCTATGGGGTACCCTCA
4453111 ACCGGTGCCGCCTATGGGGTACCCTCA
1 ACCGGTGCCGCCTATGGGGTACCCTCA
4453138 ACC
1 ACC
4453141 TATATTTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.16, C:0.39, G:0.28, T:0.18
Consensus pattern (27 bp):
ACCGGTGCCGCCTATGGGGTACCCTCA
Found at i:4453642 original size:46 final size:46
Alignment explanation
Indices: 4453600--4453689 Score: 180
Period size: 46 Copynumber: 2.0 Consensus size: 46
4453590 CATAATAAGG
4453600 ACAAAACTACTAACATTTAACCATCTGACCAAATAAACTAATAACC
1 ACAAAACTACTAACATTTAACCATCTGACCAAATAAACTAATAACC
4453646 ACAAAACTACTAACATTTAACCATCTGACCAAATAAACTAATAA
1 ACAAAACTACTAACATTTAACCATCTGACCAAATAAACTAATAA
4453690 ACAGTTGGAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.51, C:0.24, G:0.02, T:0.22
Consensus pattern (46 bp):
ACAAAACTACTAACATTTAACCATCTGACCAAATAAACTAATAACC
Found at i:4458794 original size:80 final size:81
Alignment explanation
Indices: 4458659--4458820 Score: 272
Period size: 80 Copynumber: 2.0 Consensus size: 81
4458649 CCCTTACATG
*
4458659 TTGAGAACGAAGAAAAATGGGTTACTGATATGACTCTTGAAATTGTTACCATAAAACACTTTGAT
1 TTGAGAACGAAGAAAAATAGGTTACTGA-ATGACTCTTGAAATTGTTACCATAAAACACTTTGAT
*
4458724 CTTAGAGATGAGAAAAT
65 CTTAGAGATAAGAAAAT
* *
4458741 TTGAGAACGGAGAAAAATATGTTACTG-ATGACTCTTGAAATTGTTACCATAAAACACTTTGATC
1 TTGAGAACGAAGAAAAATAGGTTACTGAATGACTCTTGAAATTGTTACCATAAAACACTTTGATC
4458805 TTAGAGATAAGAAAAT
66 TTAGAGATAAGAAAAT
4458821 GTATAGTATA
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
80 52 0.68
82 24 0.32
ACGTcount: A:0.41, C:0.11, G:0.19, T:0.30
Consensus pattern (81 bp):
TTGAGAACGAAGAAAAATAGGTTACTGAATGACTCTTGAAATTGTTACCATAAAACACTTTGATC
TTAGAGATAAGAAAAT
Found at i:4459845 original size:3 final size:3
Alignment explanation
Indices: 4459837--4459900 Score: 128
Period size: 3 Copynumber: 21.3 Consensus size: 3
4459827 ACCAAATATG
4459837 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4459885 TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA T
4459901 GGTGGAATGC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:4467342 original size:21 final size:20
Alignment explanation
Indices: 4467316--4467363 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
4467306 AAAATTATCC
*
4467316 AAAAAAATAGAGATTA-ATAA
1 AAAAAAATA-AAATTATATAA
*
4467336 TAAAAAATTAAAATTATATAA
1 -AAAAAAATAAAATTATATAA
4467357 AAAAAAA
1 AAAAAAA
4467364 GAATGAAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (20 bp):
AAAAAAATAAAATTATATAA
Found at i:4467547 original size:19 final size:19
Alignment explanation
Indices: 4467504--4467549 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
4467494 TATGTGCTTA
4467504 AAATTTTATAAATTTATAT
1 AAATTTTATAAATTTATAT
*
4467523 ATAATTTTA-AAATTATATCT
1 A-AATTTTATAAATT-TATAT
4467543 AAATTTT
1 AAATTTT
4467550 TACGCGTGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
AAATTTTATAAATTTATAT
Found at i:4467550 original size:20 final size:20
Alignment explanation
Indices: 4467504--4467551 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 20
4467494 TATGTGCTTA
*
4467504 AAATTTTATAAATTTATATAT
1 AAATTTT-TAAAATTATATAT
*
4467525 -AA-TTTTAAAATTATATCT
1 AAATTTTTAAAATTATATAT
4467543 AAATTTTTA
1 AAATTTTTA
4467552 CGCGTGGATA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
18 11 0.48
19 5 0.22
20 7 0.30
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
AAATTTTTAAAATTATATAT
Found at i:4474003 original size:46 final size:48
Alignment explanation
Indices: 4473931--4474033 Score: 138
Period size: 46 Copynumber: 2.2 Consensus size: 48
4473921 GACAGGACAG
* * * *
4473931 GACAGAAATGAGCCATGTAAGTCCATATCA-GT-TATAGGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCATATATATAGGGCATTGGA
* *
4473977 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCATATATATAGGGCATTGGA
4474025 GACAGGAAT
1 GACAGGAAT
4474034 AATTCATGTA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
46 27 0.55
47 1 0.02
48 21 0.43
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (48 bp):
GACAGGAATGAGCCATGTAAGCCCATATCATATATATAGGGCATTGGA
Found at i:4477870 original size:46 final size:48
Alignment explanation
Indices: 4477798--4477900 Score: 147
Period size: 46 Copynumber: 2.2 Consensus size: 48
4477788 GACAGGACAG
* * * *
4477798 GACAGAAATGAGCCATGTAAGTCCATATCA-GT-TATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
*
4477844 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
4477892 GACAGGAAT
1 GACAGGAAT
4477901 AATTCATGTA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
46 27 0.54
47 1 0.02
48 22 0.44
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (48 bp):
GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
Found at i:4483719 original size:111 final size:111
Alignment explanation
Indices: 4483525--4483744 Score: 343
Period size: 111 Copynumber: 2.0 Consensus size: 111
4483515 CACATGTATA
* * *
4483525 ATTTTGGTTAAGAGTTTATTGTCATAAATATTATAAGGCTCGATTTTAAGAAACTTTTTAAACTT
1 ATTTTGGTTAAGAGTTTATTGTCATAAATATCACAAGGCTCAATTTTAAGAAACTTTTTAAACTT
* * *
4483590 TCACCGTGCTTAAAAACACTATTTTGTAAATCA-ATTTTTTCAACCG
66 TCACCATGCTTAAAAACACTATTTTATAAA-CAGATTTTTCCAACCG
* *
4483636 ATTTTGGTTAAGAGTTTATTGTTATAAATATCACAATGCTCAATTTTAAGAAACTTTTTAAACTT
1 ATTTTGGTTAAGAGTTTATTGTCATAAATATCACAAGGCTCAATTTTAAGAAACTTTTTAAACTT
*
4483701 TTACCATGCTTAAAAACACTATTTTATAAACAGATTTTTCCAAC
66 TCACCATGCTTAAAAACACTATTTTATAAACAGATTTTTCCAAC
4483745 AGTTAGGTCC
Statistics
Matches: 99, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
110 2 0.02
111 97 0.98
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (111 bp):
ATTTTGGTTAAGAGTTTATTGTCATAAATATCACAAGGCTCAATTTTAAGAAACTTTTTAAACTT
TCACCATGCTTAAAAACACTATTTTATAAACAGATTTTTCCAACCG
Found at i:4488400 original size:14 final size:13
Alignment explanation
Indices: 4488373--4488399 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4488363 TCTTTAAATC
4488373 TAAATCATTTTTT
1 TAAATCATTTTTT
4488386 TAAATCATTTTTT
1 TAAATCATTTTTT
4488399 T
1 T
4488400 TTCTTTTCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (13 bp):
TAAATCATTTTTT
Found at i:4500757 original size:120 final size:120
Alignment explanation
Indices: 4500544--4500783 Score: 462
Period size: 120 Copynumber: 2.0 Consensus size: 120
4500534 GTTTTATGAG
4500544 TCAAAGTGGTGGTTCCTTTGCTTTTTTAATTATTAATTTTTGGCTGTATCAACAGTCACAAGAAA
1 TCAAAGTGGTGGTTCCTTTGCTTTTTTAATTATTAATTTTTGGCTGTATCAACAGTCACAAGAAA
*
4500609 CTTTGACAAGAATTTTGGGAACTTTTGAAAGTTCAGTCTATGTTTTATGCTTGTT
66 CTTTGACAAGAATTTTGGGAACCTTTGAAAGTTCAGTCTATGTTTTATGCTTGTT
*
4500664 TCAAAGTGGTGGTTCCTTTGCTTTTTTAATTATTAATTTTTGGCTGTATCAACAGTTACAAGAAA
1 TCAAAGTGGTGGTTCCTTTGCTTTTTTAATTATTAATTTTTGGCTGTATCAACAGTCACAAGAAA
4500729 CTTTGACAAGAATTTTGGGAACCTTTGAAAGTTCAGTCTATGTTTTATGCTTGTT
66 CTTTGACAAGAATTTTGGGAACCTTTGAAAGTTCAGTCTATGTTTTATGCTTGTT
4500784 GCATACATGC
Statistics
Matches: 118, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 118 1.00
ACGTcount: A:0.26, C:0.12, G:0.18, T:0.43
Consensus pattern (120 bp):
TCAAAGTGGTGGTTCCTTTGCTTTTTTAATTATTAATTTTTGGCTGTATCAACAGTCACAAGAAA
CTTTGACAAGAATTTTGGGAACCTTTGAAAGTTCAGTCTATGTTTTATGCTTGTT
Found at i:4514211 original size:11 final size:11
Alignment explanation
Indices: 4514197--4514246 Score: 68
Period size: 11 Copynumber: 4.7 Consensus size: 11
4514187 TTTCAATATT
4514197 CTCTCAAATTC
1 CTCTCAAATTC
4514208 CTCTCAAA-T-
1 CTCTCAAATTC
*
4514217 CTCTCAAATTT
1 CTCTCAAATTC
*
4514228 CTCTTAAATTC
1 CTCTCAAATTC
4514239 CTCTCAAA
1 CTCTCAAA
4514247 ACTCTCGTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 8 0.24
10 2 0.06
11 24 0.71
ACGTcount: A:0.30, C:0.32, G:0.00, T:0.38
Consensus pattern (11 bp):
CTCTCAAATTC
Found at i:4514221 original size:20 final size:21
Alignment explanation
Indices: 4514189--4514246 Score: 73
Period size: 20 Copynumber: 2.7 Consensus size: 21
4514179 ATTCAATCTT
4514189 TCAATATTCTCTCAAATTCCTC
1 TCAA-ATTCTCTCAAATTCCTC
*
4514211 TCAAA-TCTCTCAAATTTCTC
1 TCAAATTCTCTCAAATTCCTC
*
4514231 TTAAATTCCTCTCAAA
1 TCAAATT-CTCTCAAA
4514247 ACTCTCGTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 18 0.56
21 2 0.06
22 12 0.38
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.40
Consensus pattern (21 bp):
TCAAATTCTCTCAAATTCCTC
Found at i:4515445 original size:42 final size:43
Alignment explanation
Indices: 4515394--4515502 Score: 139
Period size: 42 Copynumber: 2.5 Consensus size: 43
4515384 CCTGATCAGT
* * *
4515394 ATACGACACATAAAGTGCATGATACGACACACGAGGTGCCTG-
1 ATACGACACATAAAGTGCCTGATACAACACACGAGGTACCTGA
** * *
4515436 ATACGACACACGAGGTGCCTGATATAACACACGAGGTACCTGAA
1 ATACGACACATAAAGTGCCTGATACAACACACGAGGTACCTG-A
4515480 ATACGACACATAAAGTGCCTGAT
1 ATACGACACATAAAGTGCCTGAT
4515503 CAGTAAAGCC
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 35 0.64
44 20 0.36
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (43 bp):
ATACGACACATAAAGTGCCTGATACAACACACGAGGTACCTGA
Found at i:4515467 original size:23 final size:21
Alignment explanation
Indices: 4515394--4515489 Score: 111
Period size: 21 Copynumber: 4.5 Consensus size: 21
4515384 CCTGATCAGT
** * *
4515394 ATACGACACATAAAGTGCATG
1 ATACGACACACGAGGTGCCTG
4515415 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
4515436 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
** *
4515457 ATATAACACACGAGGTACCTG
1 ATACGACACACGAGGTGCCTG
4515478 AAATACGACACA
1 --ATACGACACA
4515490 TAAAGTGCCT
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
21 56 0.88
23 8 0.12
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.16
Consensus pattern (21 bp):
ATACGACACACGAGGTGCCTG
Found at i:4515897 original size:15 final size:15
Alignment explanation
Indices: 4515872--4515944 Score: 101
Period size: 15 Copynumber: 4.8 Consensus size: 15
4515862 TCATATATAT
4515872 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
4515888 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
4515903 AATAATTTCAATCAA
1 TATAAATTCAATCAA
* *
4515918 AATAATTTCAATCAA
1 TATAAATTCAATCAA
4515933 TATAAATTCAAT
1 TATAAATTCAAT
4515945 AAATTCATCG
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
15 49 0.92
16 4 0.08
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:4515964 original size:45 final size:44
Alignment explanation
Indices: 4515875--4515965 Score: 112
Period size: 45 Copynumber: 2.0 Consensus size: 44
4515865 TATATATTAT
** *
4515875 ATAATTCAATCAATATAAATTCAATCAAAATAATTTCAATCAAA
1 ATAATTCAATCAATATAAATTCAATCAAAATAATCGCAACCAAA
* *
4515919 ATAATTTCAATCAATATAAATTCAAT-AAATTCATCGCATACCAAA
1 ATAA-TTCAATCAATATAAATTCAATCAAAATAATCGCA-ACCAAA
4515964 AT
1 AT
4515966 CAATCCATTC
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
44 12 0.30
45 28 0.70
ACGTcount: A:0.52, C:0.15, G:0.01, T:0.32
Consensus pattern (44 bp):
ATAATTCAATCAATATAAATTCAATCAAAATAATCGCAACCAAA
Found at i:4517189 original size:21 final size:20
Alignment explanation
Indices: 4517165--4517208 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
4517155 TCCCCTGCTC
4517165 TCTATTTCATTTCATTCTGTT
1 TCTATTTCATTTC-TTCTGTT
* *
4517186 TCTATTTCCTTTCTTTTGTT
1 TCTATTTCATTTCTTCTGTT
4517206 TCT
1 TCT
4517209 TTAGTTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.09, C:0.20, G:0.05, T:0.66
Consensus pattern (20 bp):
TCTATTTCATTTCTTCTGTT
Found at i:4517228 original size:5 final size:5
Alignment explanation
Indices: 4517215--4517246 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
4517205 TTCTTTAGTT
4517215 TATATA TATAA TATAA TATAA TATAA TATAA T
1 TATA-A TATAA TATAA TATAA TATAA TATAA T
4517247 TAAAACATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
TATAA
Found at i:4518707 original size:7 final size:7
Alignment explanation
Indices: 4518695--4518728 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
4518685 TAGTGGATTC
4518695 GTATTTA
1 GTATTTA
4518702 GTATTTA
1 GTATTTA
4518709 GTATTTA
1 GTATTTA
4518716 GTATTTA
1 GTATTTA
4518723 GTATTT
1 GTATTT
4518729 TTTTTATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.15, T:0.59
Consensus pattern (7 bp):
GTATTTA
Found at i:4519403 original size:116 final size:116
Alignment explanation
Indices: 4519199--4519608 Score: 739
Period size: 116 Copynumber: 3.5 Consensus size: 116
4519189 CGTGGCCCTT
*
4519199 TAAAATGGAAATTATTTTAAATAAGGCAACATTTTGAATATTTTTATATTATTTCATGTAATTAG
1 TAAAATGAAAATTATTTTAAATAAGGCAACATTTTGAATATTTTTATATTATTTCATGTAATTAG
*
4519264 ATAAAAGGTTGTTTTAAACAAAGTAATTGTAATTTACTTTTATATTTTTAA
66 ATAAAAGGTTGTTTTAAATAAAGTAATTGTAATTTACTTTTATATTTTTAA
*
4519315 TAAAATGGAAATTATTTTAAATAAGGCAACATTTTGAATATTTTTATATTATTTCATGTAATTAG
1 TAAAATGAAAATTATTTTAAATAAGGCAACATTTTGAATATTTTTATATTATTTCATGTAATTAG
4519380 ATAAAAGGTTGTTTTAAATAAAGTAATTGTAATTTACTTTTATATTTTTAA
66 ATAAAAGGTTGTTTTAAATAAAGTAATTGTAATTTACTTTTATATTTTTAA
* * *
4519431 TAAAATGAAAATTATTTTAAATAAGGCAACATTTTGAATATTTTTATATTATTTCATGTGATAAT
1 TAAAATGAAAATTATTTTAAATAAGGCAACATTTTGAATATTTTTATATTATTTCATGTAATTAG
*
4519496 ATAAAAGGTTGTTTTAAATAAAGTAATTATAATTTACTTTTATATTTTTAA
66 ATAAAAGGTTGTTTTAAATAAAGTAATTGTAATTTACTTTTATATTTTTAA
* *
4519547 TAAAATGAAAATTATTTTAAATAAAGCAATATTTTGAATATTTTTATATTATTTCATGTAAT
1 TAAAATGAAAATTATTTTAAATAAGGCAACATTTTGAATATTTTTATATTATTTCATGTAAT
4519609 AAAATATAAA
Statistics
Matches: 285, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
116 285 1.00
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.46
Consensus pattern (116 bp):
TAAAATGAAAATTATTTTAAATAAGGCAACATTTTGAATATTTTTATATTATTTCATGTAATTAG
ATAAAAGGTTGTTTTAAATAAAGTAATTGTAATTTACTTTTATATTTTTAA
Found at i:4522858 original size:126 final size:126
Alignment explanation
Indices: 4522626--4523164 Score: 783
Period size: 126 Copynumber: 4.3 Consensus size: 126
4522616 GCCCAAGTTA
* * * * * * *
4522626 TTTCAGAAACCACTATAACAAAAGAGCATCCACGTGGGAACTTTTTTCAGTACTTTTGCTGAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* * * **
4522691 TGCATCCTGCTTGAAGCATTTTTGATACTATTTATGCAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACCATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * * *
4522752 TTTCAGAGACCACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTCCAGTAATTTTGCTGAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* *
4522817 TGCATCCTGCTTGAAGCGTTTTT-ACCACTATTTGCGTAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGA-CACCATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * * * *
4522878 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCATGTGGAATCTTCTTTTAGTACTTTTGCTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* *
4522943 TGCATCCTGCTTGAAGCGTTTTTTACACCATTTGCACAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACCATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * *
4523004 TTTCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTCCTTTCAGTACTTTTGCTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
*
4523069 TGCATCCTGCTTGAAGCGTTTTTGACACCATTTGCGCAGACACGTCTTCTCAAATTTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACCATTTGCGCAGACACGTCTTCTCAAAATTATTT
* *
4523130 TTTCAAAGACTACTGTAGTAAAAGAGCGTCCACGT
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGT
4523165 AGAAGCTTTT
Statistics
Matches: 375, Mismatches: 36, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
125 1 0.00
126 373 0.99
127 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (126 bp):
TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
TGCATCCTGCTTGAAGCGTTTTTGACACCATTTGCGCAGACACGTCTTCTCAAAATTATTT
Found at i:4523370 original size:97 final size:97
Alignment explanation
Indices: 4523208--4523451 Score: 264
Period size: 97 Copynumber: 2.5 Consensus size: 97
4523198 AAGTTATCCT
* * * *
4523208 AAACCCCAAACCCTAATTTATTTAATTTTTTTTCTTAAATACCCTAAAACCTAAAATCCTAATCT
1 AAACCCTAAA-CCTAATTTATTTAATTTTTTCT-TTAAAAACCATAAAACCTAAAATCCTAATCT
* *
4523273 AATTTTTTTAAAATTTA-TAATTAATTTACTCAAG
64 AATTTTTTTAAAA-TTAGTAATTAATTTAATCAAC
* * *
4523307 TAACCCTAAACTCTAATTTATTTGATTTTTTCTTTAAAAACCAT-AAACAC-GAAA-CCATAATC
1 AAACCCTAAAC-CTAATTTATTTAATTTTTTCTTTAAAAACCATAAAAC-CTAAAATCC-TAATC
*
4523369 TAATTTTTTTAAAATTAGTAATTAATTTAATTAAC
63 TAATTTTTTTAAAATTAGTAATTAATTTAATCAAC
* * *
4523404 AAACACTAAACCTTAATTTATTTAATTTTTTTCCTT-AAAACCTTAAAA
1 AAACCCTAAACC-TAATTTATTTAA-TTTTTTCTTTAAAAACCATAAAA
4523452 TTTAAAAATT
Statistics
Matches: 123, Mismatches: 15, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
96 6 0.05
97 67 0.54
98 23 0.19
99 27 0.22
ACGTcount: A:0.41, C:0.16, G:0.02, T:0.41
Consensus pattern (97 bp):
AAACCCTAAACCTAATTTATTTAATTTTTTCTTTAAAAACCATAAAACCTAAAATCCTAATCTAA
TTTTTTTAAAATTAGTAATTAATTTAATCAAC
Found at i:4530296 original size:36 final size:36
Alignment explanation
Indices: 4530249--4530320 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
4530239 GAGTGAGACA
4530249 TTGAATGTGATGGAAAAGGTGTAGTGGAGGTAGGTG
1 TTGAATGTGATGGAAAAGGTGTAGTGGAGGTAGGTG
* *
4530285 TTGAATGTGATGGGATAGGTGTAGTGGAGGTAGGTG
1 TTGAATGTGATGGAAAAGGTGTAGTGGAGGTAGGTG
4530321 GCGTATTTGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.25, C:0.00, G:0.46, T:0.29
Consensus pattern (36 bp):
TTGAATGTGATGGAAAAGGTGTAGTGGAGGTAGGTG
Found at i:4534540 original size:12 final size:13
Alignment explanation
Indices: 4534515--4534559 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
4534505 TTTTCTTAAC
*
4534515 AATAATTCTAAAA
1 AATAAATCTAAAA
4534528 AATAAAT-TAAAA
1 AATAAATCTAAAA
*
4534540 AATAAATCTTAAA
1 AATAAATCTAAAA
4534553 AATAAAT
1 AATAAAT
4534560 ACAAATTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 12 0.41
13 17 0.59
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (13 bp):
AATAAATCTAAAA
Found at i:4534869 original size:13 final size:14
Alignment explanation
Indices: 4534845--4534874 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
4534835 ATTTTAAATT
4534845 TTTAGAAATTTTTA
1 TTTAGAAATTTTTA
4534859 TTTAG-AATTTTTA
1 TTTAGAAATTTTTA
4534872 TTT
1 TTT
4534875 TTAAAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (14 bp):
TTTAGAAATTTTTA
Found at i:4535282 original size:33 final size:32
Alignment explanation
Indices: 4535212--4535285 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 32
4535202 AGGAAATTAG
* * *
4535212 ACATTAATGAAACAGTTTTTTAATTGAATTTT
1 ACATTAATGAAACAGTTTTTTAACTAAATTCT
* **
4535244 GCATTAATGAAACAGTTTTTTCCCCTAAATTCT
1 ACATTAATGAAACAGTTTTTT-AACTAAATTCT
4535277 ACATTAATG
1 ACATTAATG
4535286 CAACTGTTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
32 20 0.59
33 14 0.41
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.42
Consensus pattern (32 bp):
ACATTAATGAAACAGTTTTTTAACTAAATTCT
Found at i:4537751 original size:20 final size:20
Alignment explanation
Indices: 4537705--4537753 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
4537695 TGCCACATCG
4537705 GTATTCTTATCCTGAATTTCA
1 GTATT-TTATCCTGAATTTCA
* *
4537726 GGATTTTATCCTGAATTTTA
1 GTATTTTATCCTGAATTTCA
*
4537746 TTATTTTA
1 GTATTTTA
4537754 ATTTAGATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.24, C:0.12, G:0.10, T:0.53
Consensus pattern (20 bp):
GTATTTTATCCTGAATTTCA
Found at i:4542788 original size:9 final size:10
Alignment explanation
Indices: 4542769--4542868 Score: 97
Period size: 9 Copynumber: 10.4 Consensus size: 10
4542759 ATTAAGATTA
*
4542769 AATTTTAAAT
1 AATTTTTAAT
4542779 -ATTTTTAAT
1 AATTTTTAAT
4542788 AATTTTTAAT
1 AATTTTTAAT
*
4542798 AA-TTTTAGT
1 AATTTTTAAT
4542807 AATTTCTT-AT
1 AATTT-TTAAT
*
4542817 AATTCTTAAT
1 AATTTTTAAT
4542827 -ATTTTTAAAT
1 AATTTTT-AAT
4542837 AATTTTCT-AT
1 AATTTT-TAAT
4542847 -ATTTTTAAT
1 AATTTTTAAT
4542856 AATTTTT-AT
1 AATTTTTAAT
4542865 AATT
1 AATT
4542869 ATTTGAAAAT
Statistics
Matches: 76, Mismatches: 5, Indels: 19
0.76 0.05 0.19
Matches are distributed among these distances:
8 1 0.01
9 36 0.47
10 31 0.41
11 7 0.09
12 1 0.01
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (10 bp):
AATTTTTAAT
Found at i:4542793 original size:19 final size:18
Alignment explanation
Indices: 4542766--4542861 Score: 88
Period size: 19 Copynumber: 5.1 Consensus size: 18
4542756 TGAATTAAGA
* *
4542766 TTAA-ATTTTAAATATTT
1 TTAATATTTTTAATAATT
4542783 TTAATAATTTTTAATAATT
1 TTAAT-ATTTTTAATAATT
*
4542802 TTAGTAATTTCTT-ATAATT
1 TTAAT-ATTT-TTAATAATT
4542821 CTTAATATTTTTAAATAATT
1 -TTAATATTTTT-AATAATT
*
4542841 TTCTATATTTTTAATAATT
1 TT-AATATTTTTAATAATT
4542860 TT
1 TT
4542862 TATAATTATT
Statistics
Matches: 67, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
17 4 0.06
18 2 0.03
19 41 0.61
20 20 0.30
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.59
Consensus pattern (18 bp):
TTAATATTTTTAATAATT
Found at i:4542811 original size:29 final size:29
Alignment explanation
Indices: 4542769--4542861 Score: 111
Period size: 29 Copynumber: 3.2 Consensus size: 29
4542759 ATTAAGATTA
4542769 AATTTTAAAT-ATTTTTAATAATTTTTAAT
1 AATTTTAAATAATTTTT-ATAATTTTTAAT
* *
4542798 AATTTT-AGTAATTTCTTATAATTCTTAAT
1 AATTTTAAATAATTT-TTATAATTTTTAAT
*
4542827 ATTTTTAAATAATTTTCTAT-ATTTTTAAT
1 AATTTTAAATAATTTT-TATAATTTTTAAT
4542856 AATTTT
1 AATTTT
4542862 TATAATTATT
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
28 2 0.04
29 40 0.74
30 12 0.22
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (29 bp):
AATTTTAAATAATTTTTATAATTTTTAAT
Found at i:4542872 original size:12 final size:11
Alignment explanation
Indices: 4542780--4542872 Score: 60
Period size: 10 Copynumber: 9.2 Consensus size: 11
4542770 ATTTTAAATA
4542780 TTTTTAATAA-
1 TTTTTAATAAT
4542790 TTTTTAATAA-
1 TTTTTAATAAT
*
4542800 -TTTTAGTAAT
1 TTTTTAATAAT
*
4542810 TTCTT-ATAA-
1 TTTTTAATAAT
*
4542819 TTCTTAAT-AT
1 TTTTTAATAAT
*
4542829 TTTTAAATAAT
1 TTTTTAATAAT
*
4542840 TTTCT-AT-A-
1 TTTTTAATAAT
4542848 TTTTTAATAAT
1 TTTTTAATAAT
*
4542859 TTTTATAATTAT
1 TTTT-TAATAAT
4542871 TT
1 TT
4542873 GAAAATTCAC
Statistics
Matches: 65, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
8 4 0.06
9 17 0.26
10 24 0.37
11 12 0.18
12 8 0.12
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.61
Consensus pattern (11 bp):
TTTTTAATAAT
Found at i:4543544 original size:19 final size:19
Alignment explanation
Indices: 4543522--4543587 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 19
4543512 GTTTTCGTCG
*
4543522 GAAATGGTAATTTTTGTGA
1 GAAATGGTAATTTTTGTCA
* *
4543541 GAAATGATTAGTTTTTGTCA
1 GAAATG-GTAATTTTTGTCA
* * *
4543561 AAAACGGTAATTTGTGTCA
1 GAAATGGTAATTTTTGTCA
4543580 GAAATGGT
1 GAAATGGT
4543588 TGGAAACAAA
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
19 22 0.61
20 14 0.39
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.38
Consensus pattern (19 bp):
GAAATGGTAATTTTTGTCA
Found at i:4543553 original size:39 final size:39
Alignment explanation
Indices: 4543510--4543585 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
4543500 ATTCCCAAAC
** * * *
4543510 TAGTTTTCGTCGGAAATGGTAATTTTTGTGAGAAATGAT
1 TAGTTTTCGTCAAAAACGGTAATTTGTGTCAGAAATGAT
*
4543549 TAGTTTTTGTCAAAAACGGTAATTTGTGTCAGAAATG
1 TAGTTTTCGTCAAAAACGGTAATTTGTGTCAGAAATG
4543586 GTTGGAAACA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.30, C:0.07, G:0.24, T:0.39
Consensus pattern (39 bp):
TAGTTTTCGTCAAAAACGGTAATTTGTGTCAGAAATGAT
Found at i:4551774 original size:13 final size:13
Alignment explanation
Indices: 4551756--4551787 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
4551746 TTTCCAGCAA
4551756 TTATGAATTTATT
1 TTATGAATTTATT
4551769 TTATGAATTTATT
1 TTATGAATTTATT
*
4551782 TGATGA
1 TTATGA
4551788 TGATCCAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:4551993 original size:50 final size:50
Alignment explanation
Indices: 4551880--4552121 Score: 261
Period size: 50 Copynumber: 4.7 Consensus size: 50
4551870 ATTTGGGTAA
* * * * *
4551880 AGAGATCCCATGTAAGACAATGTCTGGGACATAGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
4551936 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
4551986 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * * * *
4552036 AGAGGGCCCCTATTAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
4552086 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
4552122 TTTGGCATGT
Statistics
Matches: 160, Mismatches: 24, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
49 1 0.01
50 89 0.56
51 27 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 37 0.23
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:4552068 original size:100 final size:103
Alignment explanation
Indices: 4551880--4552129 Score: 328
Period size: 100 Copynumber: 2.4 Consensus size: 103
4551870 ATTTGGGTAA
* * *
4551880 AGAGATCCCATGTAAGACAATGTCTGGGACATAGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGGCCC
* *
4551945 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
4551986 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGGCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGGCCCCTA
*
4552048 TTAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
4552086 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
4552130 GTTATTATCA
Statistics
Matches: 129, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
99 1 0.01
100 49 0.38
101 39 0.30
105 2 0.02
106 38 0.29
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGGCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:4559118 original size:29 final size:29
Alignment explanation
Indices: 4559060--4559116 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
4559050 TTCGAGCCTT
*
4559060 GGGGAAAAATGTAATTATGTAAAAGTTTA
1 GGGGAAAAATGTAATTATGAAAAAGTTTA
* *
4559089 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGG-AAAAATGTAATTATGAAAAAGTT
4559117 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 4 0.17
30 20 0.83
ACGTcount: A:0.42, C:0.02, G:0.25, T:0.32
Consensus pattern (29 bp):
GGGGAAAAATGTAATTATGAAAAAGTTTA
Found at i:4559593 original size:48 final size:49
Alignment explanation
Indices: 4559457--4559692 Score: 255
Period size: 48 Copynumber: 4.7 Consensus size: 49
4559447 TAAAGAGATC
*
4559457 CCATGTAAGA-CATGTCTGGGACAT-GCATTGGCATCCTTAAGATCATGAGAGGT
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAGA-C--GAGAGGT
* *
4559510 CCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACGAGAGGT
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACGAGAGGT
* *
4559559 CCATGTAAG-CCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGT
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACGAGAGGT
* * * * **
4559607 CCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACGAGAACAT
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA-GACGAG-AGGT
*
4559657 CCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 -CCATGTAAGACCATGTCTGGGACATGGCATTGGCA
4559693 TGTATTATCA
Statistics
Matches: 158, Mismatches: 19, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
48 44 0.28
49 44 0.28
50 2 0.01
51 32 0.20
52 3 0.02
53 9 0.06
54 16 0.10
55 8 0.05
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.21
Consensus pattern (49 bp):
CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACGAGAGGT
Found at i:4559625 original size:97 final size:102
Alignment explanation
Indices: 4559454--4559693 Score: 314
Period size: 97 Copynumber: 2.4 Consensus size: 102
4559444 GGGTAAAGAG
* *
4559454 ATCCCATGTAAGACATGTCTGGGACAT-GCATTGGCATCCTTAAGATCATGAGAGGTCCCTGTAA
1 ATCCCATGTAAGCCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCCTATAA
* *
4559518 GACCATGTCTGGGACATGGCATGGGCACCGA-GACGAG-AG
63 GACCATGTCTGGGACATGGCATGGGCACC-ATCACGAGAAC
* * *
4559557 GT-CCATGTAAGCCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCTATAAGAC
1 ATCCCATGTAAGCCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCTATAAGAC
4559618 CATGTCTGGGACATGGCATGGGCACCATCACGAGAAC
66 CATGTCTGGGACATGGCATGGGCACCATCACGAGAAC
*
4559655 ATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 ATCCCATGTAAG-CCATGTCTGGGACATGGCATTGGCAT
4559694 GTATTATCAG
Statistics
Matches: 122, Mismatches: 9, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
96 1 0.01
97 50 0.41
98 4 0.03
99 9 0.07
100 24 0.20
102 25 0.20
103 9 0.07
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.22
Consensus pattern (102 bp):
ATCCCATGTAAGCCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCTATAAGAC
CATGTCTGGGACATGGCATGGGCACCATCACGAGAAC
Found at i:4574637 original size:24 final size:23
Alignment explanation
Indices: 4574581--4574637 Score: 55
Period size: 24 Copynumber: 2.5 Consensus size: 23
4574571 TTAGATACAT
4574581 ATTA-TATTTTAATAATTTTTAA
1 ATTACTATTTTAATAATTTTTAA
* * *
4574603 ATTATTCTTTTATATTATTTTT-A
1 ATTACTATTTTA-ATAATTTTTAA
4574626 ATTAACTATTTT
1 ATT-ACTATTTT
4574638 TTATAATACT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
22 4 0.14
23 10 0.36
24 14 0.50
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (23 bp):
ATTACTATTTTAATAATTTTTAA
Found at i:4577818 original size:16 final size:17
Alignment explanation
Indices: 4577797--4577845 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 17
4577787 TAAATAAAAT
*
4577797 TAATATAATAAATA-GG
1 TAATATAATAAATATAG
4577813 TAATATAATAATAGTATAG
1 TAATATAATAA-A-TATAG
4577832 TAATATAATAAATA
1 TAATATAATAAATA
4577846 ATAATAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
16 11 0.38
17 3 0.10
18 3 0.10
19 12 0.41
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (17 bp):
TAATATAATAAATATAG
Done.