Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 160 of 208
Found at i:48880210 original size:18 final size:18
Alignment explanation
Indices: 48880187--48880243 Score: 84
Period size: 18 Copynumber: 3.3 Consensus size: 18
48880177 AATTTTAGGT
*
48880187 CAATTATACATACACCAA
1 CAATTATACATAAACCAA
48880205 CAATTATACATAAACCAA
1 CAATTATACATAAACCAA
48880223 CAA-T-TA-ATAAACCAA
1 CAATTATACATAAACCAA
48880238 CAATTA
1 CAATTA
48880244 ATTTTAGGTC
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
15 12 0.33
16 3 0.08
17 1 0.03
18 20 0.56
ACGTcount: A:0.54, C:0.23, G:0.00, T:0.23
Consensus pattern (18 bp):
CAATTATACATAAACCAA
Found at i:48880234 original size:15 final size:15
Alignment explanation
Indices: 48880200--48880245 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
48880190 TTATACATAC
48880200 ACCAACAATTATACATAA
1 ACCAACAA-T-TA-ATAA
48880218 ACCAACAATTAATAA
1 ACCAACAATTAATAA
48880233 ACCAACAATTAAT
1 ACCAACAATTAAT
48880246 TTTAGGTCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 17 0.61
16 2 0.07
17 1 0.04
18 8 0.29
ACGTcount: A:0.57, C:0.22, G:0.00, T:0.22
Consensus pattern (15 bp):
ACCAACAATTAATAA
Found at i:48880358 original size:34 final size:34
Alignment explanation
Indices: 48880315--48880383 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
48880305 ATTTCTTTAT
48880315 TGTTTGGGTGATTCATAAAGAAATGAAATTAAAG
1 TGTTTGGGTGATTCATAAAGAAATGAAATTAAAG
48880349 TGTTTGGGTGATTCATAAAGAAATGAAATTAAAG
1 TGTTTGGGTGATTCATAAAGAAATGAAATTAAAG
48880383 T
1 T
48880384 TGCAACGATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.41, C:0.03, G:0.23, T:0.33
Consensus pattern (34 bp):
TGTTTGGGTGATTCATAAAGAAATGAAATTAAAG
Found at i:48884172 original size:14 final size:14
Alignment explanation
Indices: 48884153--48884183 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
48884143 AGCTTGGCAA
48884153 TTGGGAACTATTTG
1 TTGGGAACTATTTG
48884167 TTGGGAACTATTTG
1 TTGGGAACTATTTG
48884181 TTG
1 TTG
48884184 TTAATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.06, G:0.29, T:0.45
Consensus pattern (14 bp):
TTGGGAACTATTTG
Found at i:48884465 original size:12 final size:12
Alignment explanation
Indices: 48884445--48884474 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
48884435 TATGGTTAAT
*
48884445 TTCTTTAGCAGC
1 TTCTGTAGCAGC
48884457 TTCTGTAGCAGC
1 TTCTGTAGCAGC
48884469 TTCTGT
1 TTCTGT
48884475 TGTTTGTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.43
Consensus pattern (12 bp):
TTCTGTAGCAGC
Found at i:48888151 original size:91 final size:91
Alignment explanation
Indices: 48888028--48888235 Score: 292
Period size: 91 Copynumber: 2.3 Consensus size: 91
48888018 TTGATTTTAG
* * *
48888028 TAAATTCATATAATACCATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAATA-AAATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
* *
48888093 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
* * *
48888120 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAATAAAATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTATA
48888185 TGTAATAATTATTATTTTAAATTATA
66 TGTAATAATTATTATTTTAAATTATA
* * *
48888211 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAATAAAATTTATTA
48888236 GTTATAATTA
Statistics
Matches: 103, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
91 86 0.83
92 17 0.17
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAATAAAATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:48888286 original size:16 final size:16
Alignment explanation
Indices: 48888265--48888307 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
48888255 TTATTAAATC
48888265 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
48888281 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
48888296 AT-TATGTTAATT
1 ATATATTTTAATT
48888308 TATATTTTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 2 0.09
15 16 0.70
16 5 0.22
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:48888375 original size:120 final size:120
Alignment explanation
Indices: 48888251--48888904 Score: 1263
Period size: 120 Copynumber: 5.4 Consensus size: 120
48888241 AATTATTTTA
*
48888251 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
*
48888316 ACAGTATCATATATTATGGCTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAG
48888371 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
48888436 ACAGTATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
48888491 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
48888556 ACAGTATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
48888611 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
48888676 ACAAGTATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 AC-AGTATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAG
48888732 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
48888797 ACAGTATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAG
48888852 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
48888905 TAAATATGAT
Statistics
Matches: 529, Mismatches: 4, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
120 410 0.78
121 119 0.22
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:48888411 original size:15 final size:15
Alignment explanation
Indices: 48888376--48888427 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
48888366 TTAAGAATTT
*
48888376 TATTAAATTAT-ATA
1 TATTTAATTATAATA
48888390 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
48888404 TATTTAATAATAAT-
1 TATTTAATTATAATA
48888418 TATGTTAATT
1 TAT-TTAATT
48888428 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:48888520 original size:18 final size:17
Alignment explanation
Indices: 48888492--48888526 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
48888482 ATTATTAAGA
*
48888492 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
48888509 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
48888527 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:48888640 original size:18 final size:17
Alignment explanation
Indices: 48888612--48888646 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
48888602 ATTATTAAGA
*
48888612 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
48888629 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
48888647 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:48888746 original size:361 final size:360
Alignment explanation
Indices: 48888251--48888904 Score: 1263
Period size: 361 Copynumber: 1.8 Consensus size: 360
48888241 AATTATTTTA
*
48888251 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
48888316 ACAGTATCATATATTATGGCTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTA
66 ACAGTATCATATATTATGGCTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTA
48888381 AATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCAT
131 AATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCAT
48888446 ATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAT
196 ATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAT
48888511 TTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGGT
261 TTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGGT
48888576 TTGAGTAAATTCATATAAGAATATTAATTATTAAG
326 TTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
48888611 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
*
48888676 ACAAGTATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATT
66 AC-AGTATCATATATTATGGCTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATT
48888741 AAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCA
130 AAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCA
48888806 TATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATA
195 TATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATA
*
48888871 TTTTAATTATAATATATTTAATAATAATTATGTT
260 TTTTAATTAAAATATATTTAATAATAATTATGTT
48888905 TAAATATGAT
Statistics
Matches: 289, Mismatches: 4, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
360 65 0.22
361 224 0.78
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (360 bp):
AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGGCTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTA
AATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCAT
ATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAT
TTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGGT
TTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:48888772 original size:15 final size:15
Alignment explanation
Indices: 48888737--48888788 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
48888727 TTAAGAATTT
*
48888737 TATTAAATTAT-ATA
1 TATTTAATTATAATA
48888751 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
48888765 TATTTAATAATAAT-
1 TATTTAATTATAATA
48888779 TATGTTAATT
1 TAT-TTAATT
48888789 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:48888814 original size:241 final size:240
Alignment explanation
Indices: 48888251--48888904 Score: 1263
Period size: 241 Copynumber: 2.7 Consensus size: 240
48888241 AATTATTTTA
*
48888251 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
*
48888316 ACAGTATCATATATTATGGCTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTA
66 ACAGTATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTA
48888381 AATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCAT
131 AATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCAT
48888446 ATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAG
196 ATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
48888491 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
48888556 ACAGTATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTA
66 ACAGTATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTA
*
48888621 AATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAAGTATCA
131 AATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTAC-AGTATCA
48888686 TATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAG
195 TATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAG
48888732 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
48888797 ACAGTATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTA
66 ACAGTATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTA
48888862 AATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
131 AATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
48888905 TAAATATGAT
Statistics
Matches: 407, Mismatches: 6, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
240 183 0.45
241 224 0.55
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (240 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTA
AATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCAT
ATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:48888887 original size:16 final size:16
Alignment explanation
Indices: 48888866--48888907 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
48888856 TTATTAAATT
*
48888866 ATATATTTTAATTATA
1 ATATATTTTAATAATA
48888882 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
48888897 AT-TATGTTTAA
1 ATATAT-TTTAA
48888908 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:48888892 original size:15 final size:15
Alignment explanation
Indices: 48888857--48888898 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
48888847 TTAAGAATTT
*
48888857 TATTAAATTAT-ATA
1 TATTTAATTATAATA
48888871 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
48888885 TATTTAATAATAAT
1 TATTTAATTATAAT
48888899 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:48889004 original size:147 final size:147
Alignment explanation
Indices: 48888841--48889113 Score: 503
Period size: 147 Copynumber: 1.9 Consensus size: 147
48888831 ATAAGAATAT
* *
48888841 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTA
48888906 AAATATGATTAAATTATTTACTATTGATATTAATAATCTTATTAAAATTTAAATAA-AATAATTT
66 AAATATGATTAAATTATTTACTATTGATATTAATAATCTTATTAAAATTT-AATAACAATAATTT
48888970 ACCAAAACAAATTTCTGC
130 ACCAAAACAAATTTCTGC
48888988 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTA
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTA
*
48889053 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAATAACAATAA
66 AAATATGATTAAATTATTTACTATTGATATTAATAATCTTATTAAAATTTAATAACAATAA
48889114 CAATAATCAT
Statistics
Matches: 122, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
146 5 0.04
147 117 0.96
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTA
AAATATGATTAAATTATTTACTATTGATATTAATAATCTTATTAAAATTTAATAACAATAATTTA
CCAAAACAAATTTCTGC
Found at i:48889028 original size:18 final size:17
Alignment explanation
Indices: 48889000--48889034 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
48888990 ATTATTAAGA
*
48889000 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
48889017 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
48889035 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:48889233 original size:39 final size:40
Alignment explanation
Indices: 48889179--48889285 Score: 117
Period size: 44 Copynumber: 2.6 Consensus size: 40
48889169 TTTTCCATTA
48889179 TGCTATTACACCTCTATTACATTCAACCAAACACAAGA-T
1 TGCTATTACACCTCTATTACATTCAACCAAACACAAGATT
* ***
48889218 TGCTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTC---T--ATTACATTCAACCAAACACAAGATT
*
48889263 TGCTATTACACCTCTATTCCATT
1 TGCTATTACACCTCTATTACATT
48889286 ACACCTCTAA
Statistics
Matches: 56, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
39 13 0.23
40 7 0.12
42 2 0.04
44 20 0.36
45 14 0.25
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.35
Consensus pattern (40 bp):
TGCTATTACACCTCTATTACATTCAACCAAACACAAGATT
Found at i:48889280 original size:45 final size:44
Alignment explanation
Indices: 48889194--48889288 Score: 145
Period size: 45 Copynumber: 2.1 Consensus size: 44
48889184 TTACACCTCT
*
48889194 ATTACATTCAACCAAACACAAGATTGCTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACACAAGATTGCTATTACACCTCTATTCC
***
48889238 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACACAAGA-TTGCTATTACACCTCTATTCC
48889283 ATTACA
1 ATTACA
48889289 CCTCTAATCC
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
44 20 0.43
45 26 0.57
ACGTcount: A:0.34, C:0.27, G:0.06, T:0.33
Consensus pattern (44 bp):
ATTACATTCAACCAAACACAAGATTGCTATTACACCTCTATTCC
Found at i:48889288 original size:16 final size:16
Alignment explanation
Indices: 48889269--48889320 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
48889259 GATTTGCTAT
* *
48889269 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
48889285 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
48889301 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
48889317 TACA
1 TACA
48889321 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:48891764 original size:30 final size:31
Alignment explanation
Indices: 48891730--48891794 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
48891720 TTTCGTTAAA
* *
48891730 AAAAGTTATAATTT-GATCATTTAATTATTC
1 AAAAGTTATAATTTAAATCATTGAATTATTC
* *
48891760 AAAAGTTTTTATTTAAATCATTGAATTATTC
1 AAAAGTTATAATTTAAATCATTGAATTATTC
48891791 AAAA
1 AAAA
48891795 ATTTTTATCT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 12 0.40
31 18 0.60
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (31 bp):
AAAAGTTATAATTTAAATCATTGAATTATTC
Found at i:48893279 original size:54 final size:54
Alignment explanation
Indices: 48893171--48893292 Score: 144
Period size: 54 Copynumber: 2.3 Consensus size: 54
48893161 GGAAGGGTAT
*
48893171 CATAGGCGGCACCAAAAGTACCTTTCCCATAGGTAGCATCGATGGTGCTATTCC
1 CATAGGCGGCACCAAAAGTACCTTTCCCATAGGGAGCATCGATGGTGCTATTCC
* * *
48893225 CATAGGTGGCACCAAAGGTGCCTTTCCCATAGGCGA-CA-CTGAAT-GTGCCT-TTCC
1 CATAGGCGGCACCAAAAGTACCTTTCCCATAGG-GAGCATC-G-ATGGTG-CTATTCC
48893279 CATAGGCGGCACCA
1 CATAGGCGGCACCA
48893293 CTTGTGTCTT
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
53 1 0.02
54 53 0.90
55 5 0.08
ACGTcount: A:0.25, C:0.30, G:0.24, T:0.22
Consensus pattern (54 bp):
CATAGGCGGCACCAAAAGTACCTTTCCCATAGGGAGCATCGATGGTGCTATTCC
Found at i:48893298 original size:27 final size:26
Alignment explanation
Indices: 48893171--48893292 Score: 102
Period size: 27 Copynumber: 4.5 Consensus size: 26
48893161 GGAAGGGTAT
* *
48893171 CATAGGCGGCACCAAAAGTACCTTTCC
1 CATAGGCGGCACC-AATGTGCCTTTCC
** * *
48893198 CATAGGTAGCATCGATGGTG-CTATTCC
1 CATAGGCGGCACCAAT-GTGCCT-TTCC
* *
48893225 CATAGGTGGCACCAAAGGTGCCTTTCC
1 CATAGGCGGCACC-AATGTGCCTTTCC
* *
48893252 CATAGGCGACACTGAATGTGCCTTTCC
1 CATAGGCGGCAC-CAATGTGCCTTTCC
48893279 CATAGGCGGCACCA
1 CATAGGCGGCACCA
48893293 CTTGTGTCTT
Statistics
Matches: 74, Mismatches: 16, Indels: 11
0.73 0.16 0.11
Matches are distributed among these distances:
26 4 0.05
27 67 0.91
28 3 0.04
ACGTcount: A:0.25, C:0.30, G:0.24, T:0.22
Consensus pattern (26 bp):
CATAGGCGGCACCAATGTGCCTTTCC
Found at i:48893618 original size:43 final size:40
Alignment explanation
Indices: 48893559--48893673 Score: 117
Period size: 40 Copynumber: 2.8 Consensus size: 40
48893549 TAGATGTTAC
*
48893559 TTAGTATTATTGTTAGTAAAAAAACTAGTATTATTATTATT-G
1 TTAGTATTATTTTTAGT-AAAAAACTA--ATTATTATTATTAG
** *
48893601 TTAGTTATTATTTTTAGTAAAACCCTAATTATTATTGTTAG
1 TTAG-TATTATTTTTAGTAAAAAACTAATTATTATTATTAG
** *
48893642 TTAGTATTATTTTGGGTATAAAACT-ATTATTA
1 TTAGTATTATTTTTAGTAAAAAACTAATTATTA
48893674 CAGCATGTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
39 7 0.11
40 27 0.44
41 5 0.08
42 11 0.18
43 12 0.19
ACGTcount: A:0.35, C:0.04, G:0.11, T:0.50
Consensus pattern (40 bp):
TTAGTATTATTTTTAGTAAAAAACTAATTATTATTATTAG
Found at i:48893713 original size:16 final size:16
Alignment explanation
Indices: 48893692--48893760 Score: 102
Period size: 16 Copynumber: 4.3 Consensus size: 16
48893682 TTGGTTGGTT
*
48893692 GTAATGGAATAGATGC
1 GTAATGGAATAGAGGC
48893708 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
* * *
48893724 ATAATGGAATAAATGC
1 GTAATGGAATAGAGGC
48893740 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
48893756 GTAAT
1 GTAAT
48893761 AGGTAATCTT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.41, C:0.06, G:0.30, T:0.23
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:48893734 original size:32 final size:32
Alignment explanation
Indices: 48893693--48893760 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
48893683 TGGTTGGTTG
*
48893693 TAATGGAATAGATGCGTAATGGAATAGAGGCA
1 TAATGGAATAAATGCGTAATGGAATAGAGGCA
*
48893725 TAATGGAATAAATGCGTAATGGAATAGAGGCG
1 TAATGGAATAAATGCGTAATGGAATAGAGGCA
48893757 TAAT
1 TAAT
48893761 AGGTAATCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.41, C:0.06, G:0.29, T:0.24
Consensus pattern (32 bp):
TAATGGAATAAATGCGTAATGGAATAGAGGCA
Found at i:48893804 original size:45 final size:44
Alignment explanation
Indices: 48893740--48893829 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 44
48893730 GAATAAATGC
* * *
48893740 GTAATGGAATAGAGGCGTAATAGGTAATCTTTTGTTTGGTTGAAT
1 GTAATGGAATAAAAGCGTAAT-GGTAATCTTGTGTTTGGTTGAAT
* *
48893785 GTAATGGAATAAAATCGTAATGGTATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAAAAGCGTAATGGTAATCTTGTGTTTGGTTGAAT
48893829 G
1 G
48893830 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 22 0.55
45 18 0.45
ACGTcount: A:0.29, C:0.04, G:0.28, T:0.39
Consensus pattern (44 bp):
GTAATGGAATAAAAGCGTAATGGTAATCTTGTGTTTGGTTGAAT
Found at i:48893977 original size:18 final size:19
Alignment explanation
Indices: 48893954--48894017 Score: 78
Period size: 18 Copynumber: 3.4 Consensus size: 19
48893944 AATATAAATG
48893954 ATATATAATTTAATAAAA-
1 ATATATAATTTAATAAAAC
48893972 ATATATAATTTAATAAAAC
1 ATATATAATTTAATAAAAC
* *
48893991 ATAT-GAATTTACTAAAATC
1 ATATATAATTTAATAAAA-C
48894010 ATAATATA
1 AT-ATATA
48894018 TAATACTATA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
18 29 0.74
19 7 0.18
20 2 0.05
21 1 0.03
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.38
Consensus pattern (19 bp):
ATATATAATTTAATAAAAC
Found at i:48900750 original size:9 final size:9
Alignment explanation
Indices: 48900733--48900770 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
48900723 AAAATTTCGA
48900733 AGAATTGAG
1 AGAATTGAG
*
48900742 AGAACTGAG
1 AGAATTGAG
*
48900751 AGAGTTGAG
1 AGAATTGAG
48900760 AGAATTGAG
1 AGAATTGAG
48900769 AG
1 AG
48900771 TTTAGAGAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.42, C:0.03, G:0.37, T:0.18
Consensus pattern (9 bp):
AGAATTGAG
Found at i:48901677 original size:30 final size:30
Alignment explanation
Indices: 48901643--48901712 Score: 140
Period size: 30 Copynumber: 2.3 Consensus size: 30
48901633 AAAACAAACT
48901643 AAAAGGAAACCTAATCACCTAGAAAATGAA
1 AAAAGGAAACCTAATCACCTAGAAAATGAA
48901673 AAAAGGAAACCTAATCACCTAGAAAATGAA
1 AAAAGGAAACCTAATCACCTAGAAAATGAA
48901703 AAAAGGAAAC
1 AAAAGGAAAC
48901713 AATCTTTGCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.59, C:0.16, G:0.14, T:0.11
Consensus pattern (30 bp):
AAAAGGAAACCTAATCACCTAGAAAATGAA
Found at i:48901795 original size:16 final size:17
Alignment explanation
Indices: 48901774--48901807 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
48901764 AATTCAATAC
48901774 ACATCTTGTC-ACTTCA
1 ACATCTTGTCTACTTCA
*
48901790 ACATCTTTTCTACTTCA
1 ACATCTTGTCTACTTCA
48901807 A
1 A
48901808 GACGTTTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.26, C:0.29, G:0.03, T:0.41
Consensus pattern (17 bp):
ACATCTTGTCTACTTCA
Found at i:48914176 original size:21 final size:21
Alignment explanation
Indices: 48914130--48914201 Score: 74
Period size: 21 Copynumber: 3.3 Consensus size: 21
48914120 CAAAAAATGC
* *
48914130 ATAATAAAATAAAATAAAACAAA
1 ATAAAAAAAT-AAAT-AAAGAAA
* *
48914153 ATAAAAGAATAAATCCAA-AAA
1 ATAAAAAAATAAAT-AAAGAAA
48914174 ATAAAAAAATAAATAAAGAAA
1 ATAAAAAAATAAATAAAGAAA
48914195 ATAAAAA
1 ATAAAAA
48914202 TAAGGCTTCG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
20 2 0.05
21 26 0.62
22 6 0.14
23 8 0.19
ACGTcount: A:0.78, C:0.04, G:0.03, T:0.15
Consensus pattern (21 bp):
ATAAAAAAATAAATAAAGAAA
Found at i:48914250 original size:16 final size:16
Alignment explanation
Indices: 48914229--48914259 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48914219 GTAGGGAGGA
*
48914229 ACAAAAGAATAAAACG
1 ACAAAAGAAAAAAACG
48914245 ACAAAAGAAAAAAAC
1 ACAAAAGAAAAAAAC
48914260 ATCTTTAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.13, G:0.10, T:0.03
Consensus pattern (16 bp):
ACAAAAGAAAAAAACG
Found at i:48914589 original size:5 final size:5
Alignment explanation
Indices: 48914581--48914606 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
48914571 TTTTTTTCAA
48914581 TTTTC TTTTC TTTTC TTTTC TTTTC T
1 TTTTC TTTTC TTTTC TTTTC TTTTC T
48914607 AATTTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:48917004 original size:34 final size:34
Alignment explanation
Indices: 48916961--48917027 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
48916951 AAACATGTTA
*
48916961 CTTTTAGCACTTATCATGAATAGAATAATTACCC
1 CTTTTAGCACTTATCATGAATAGAAAAATTACCC
48916995 CTTTTAGCACTTATCATGAATAGAAAAATTACC
1 CTTTTAGCACTTATCATGAATAGAAAAATTACC
48917028 TTACTAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.34
Consensus pattern (34 bp):
CTTTTAGCACTTATCATGAATAGAAAAATTACCC
Found at i:48921682 original size:2 final size:2
Alignment explanation
Indices: 48921642--48921671 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
48921632 CTGGTGAGGT
48921642 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
48921672 ACACTATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:48922141 original size:18 final size:18
Alignment explanation
Indices: 48922096--48922141 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
48922086 TTCGCCTCCG
*
48922096 GCCACTTGTATTCACTGA
1 GCCACATGTATTCACTGA
* *
48922114 GCCTCTTGTATTCACTGA
1 GCCACATGTATTCACTGA
*
48922132 GTCACATGTA
1 GCCACATGTA
48922142 AGTTTTTTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (18 bp):
GCCACATGTATTCACTGA
Found at i:48922901 original size:9 final size:9
Alignment explanation
Indices: 48922883--48922917 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
48922873 TCCACTCTTC
48922883 TAAA-TTTT
1 TAAATTTTT
48922891 TAAATTTTT
1 TAAATTTTT
48922900 TAAATTTTT
1 TAAATTTTT
48922909 TAAATTTTT
1 TAAATTTTT
48922918 GTTGTAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 4 0.15
9 22 0.85
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (9 bp):
TAAATTTTT
Found at i:48925988 original size:18 final size:17
Alignment explanation
Indices: 48925965--48926011 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
48925955 TTATAAGAAG
48925965 TTAATTAAATTATATATT
1 TTAATTAAATTATATA-T
48925983 TTAATTAAA--ATATAT
1 TTAATTAAATTATATAT
48925998 TTAATTATAATTAT
1 TTAATTA-AATTAT
48926012 GTTTAAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 8 0.31
16 7 0.27
18 11 0.42
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAATTAAATTATATAT
Found at i:48925997 original size:16 final size:16
Alignment explanation
Indices: 48925965--48926017 Score: 56
Period size: 15 Copynumber: 3.2 Consensus size: 16
48925955 TTATAAGAAG
48925965 TTAATTAAATTATATATT
1 TTAATTAAA--ATATATT
48925983 TTAATTAAAATATA-T
1 TTAATTAAAATATATT
*
48925998 TTAATTATAAT-TATGT
1 TTAATTAAAATATAT-T
48926014 TTAA
1 TTAA
48926018 ATATGATTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
14 2 0.06
15 11 0.34
16 10 0.31
18 9 0.28
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
TTAATTAAAATATATT
Found at i:48926254 original size:16 final size:16
Alignment explanation
Indices: 48926233--48926268 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
48926223 GATTAGCTAT
48926233 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
48926249 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
48926265 TACA
1 TACA
48926269 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:48926476 original size:16 final size:16
Alignment explanation
Indices: 48926455--48926490 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
48926445 TTTGGTTCGC
48926455 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
48926471 TGTATTGGATTAGATG
1 TGTATTGGATTAGAGG
48926487 TGTA
1 TGTA
48926491 ATAGCAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.25, C:0.00, G:0.33, T:0.42
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:48926767 original size:17 final size:18
Alignment explanation
Indices: 48926726--48926760 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
48926716 TTATTATTAA
*
48926726 ATATATTTTAATTAAAAT
1 ATATAATTTAATTAAAAT
48926744 ATATAATTTAA-TAAAAT
1 ATATAATTTAATTAAAAT
48926761 TTTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATATAATTTAATTAAAAT
Found at i:48926969 original size:14 final size:15
Alignment explanation
Indices: 48926920--48926971 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
48926910 GTAAAATATA
48926920 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
48926935 TATTAAATATATTAT
1 AATTAAATATATTAT
48926950 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
48926963 AATTTAATA
1 AATTAAATA
48926972 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:48927107 original size:120 final size:120
Alignment explanation
Indices: 48926828--48927096 Score: 445
Period size: 120 Copynumber: 2.2 Consensus size: 120
48926818 TTTTAATAAG
48926828 ATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAA
1 ATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAA
* *
48926893 TCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATT
66 TCATAATATATGATACTATAAAATATAAATTAACATAATTAATATTAAATATATT
48926948 ATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAA
1 ATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAA
*
48927013 TCATAATATATGATACTAT-AAATGA-AAATTTGAA-ATAGTTAATATTAAATATATT
66 TCATAATATATGATACTATAAAAT-ATAAA-TT-AACATAATTAATATTAAATATATT
* *
48927068 TTAATTAAAATATATGATTTAATAAAATT
1 ATAATTAAAATATATAATTTAATAAAATT
48927097 TAAAATAATT
Statistics
Matches: 141, Mismatches: 5, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
119 7 0.05
120 132 0.94
121 2 0.01
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.42
Consensus pattern (120 bp):
ATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAA
TCATAATATATGATACTATAAAATATAAATTAACATAATTAATATTAAATATATT
Found at i:48927113 original size:54 final size:54
Alignment explanation
Indices: 48926914--48927126 Score: 162
Period size: 54 Copynumber: 3.7 Consensus size: 54
48926904 GATACTGTAA
* * *
48926914 AATATAAA-TTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTT
1 AATA-AAATTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATGATTT
* * * *
48926968 AATAAAATTCTTAATAATTAA-TATTCTTATATGA-ATTTACTCAAATCATAATATATGATACTA
1 AATAAAA-T-TTAA-AA-TAATTATTATTAAAT-ATATTT--T--AATTAAAATATATGAT--T-
48927031 T
54 T
* * *
48927032 AAATGAAAATTTGAAATAGTTAATATTAAATATATTTTAATTAAAATATATGATTT
1 -AAT-AAAATTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATGATTT
* *
48927088 AATAAAATTTAAAATAATTATTATTACATATAATTTAAT
1 AATAAAATTTAAAATAATTATTATTAAATATATTTTAAT
48927127 AATTAATATT
Statistics
Matches: 123, Mismatches: 19, Indels: 34
0.70 0.11 0.19
Matches are distributed among these distances:
53 3 0.02
54 35 0.28
55 3 0.02
56 5 0.04
57 14 0.11
58 4 0.03
59 15 0.12
61 14 0.11
62 3 0.02
63 15 0.12
64 4 0.03
65 4 0.03
66 4 0.03
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (54 bp):
AATAAAATTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATGATTT
Found at i:48927262 original size:92 final size:92
Alignment explanation
Indices: 48927084--48927280 Score: 272
Period size: 92 Copynumber: 2.1 Consensus size: 92
48927074 AAAATATATG
* * *
48927084 ATTTAATAAAATTTAAAATAATTATTATTACATATAATTTAATAATTAATATTAAATTTCATAAA
1 ATTT-ATAAAATTTAAAATAATTAATATTAAATATAATTTAATAATGAATATTAAATTTCATAAA
* *
48927149 ATTCTTGATAATAAATTTTCTTATAAGA
65 ATTCTTAATAATAAATGTTCTTATAAGA
* *
48927177 ATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAGTG-ATA-TATAATTTCATAAA
1 ATTTATAAAATTTAAAATAATTAATATTAAATATAATTTAATAATGAATATTA-AATTTCATAAA
*
48927240 ATTCTTAATAATAAAATGTTCTTATATGA
65 ATTCTTAATAAT-AAATGTTCTTATAAGA
48927269 ATTTACTAAAAT
1 ATTTA-TAAAAT
48927281 CAATATATAA
Statistics
Matches: 92, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
90 2 0.02
91 25 0.27
92 56 0.61
93 9 0.10
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (92 bp):
ATTTATAAAATTTAAAATAATTAATATTAAATATAATTTAATAATGAATATTAAATTTCATAAAA
TTCTTAATAATAAATGTTCTTATAAGA
Found at i:48941392 original size:213 final size:213
Alignment explanation
Indices: 48940988--48941416 Score: 617
Period size: 213 Copynumber: 2.0 Consensus size: 213
48940978 TAGCTATTGG
* * * *
48940988 TATAGGGGTTATTTTGAGGCCTAGAATTATTACCCATAAAGTTGACTTGTTCATACTCCATGTTA
1 TATAAGGGTTATTTTAAGGCCTAGAATTATTACCCATAAAGTTAACTTGGTCATACTCCATGTTA
* * * *
48941053 GAACTGAAGGGTAAACCTTCTGGATTGATCATCCCCGCTCTAGTTGCATCACATTGCATTATCAG
66 GAACCGAAGGGTAAACATTCTGGATTGATCATCCCCGCTCCAGTTACATCACATTGCATTATCAG
** * * * * *
48941118 ATTCATCGTATTATTGCAACTCAAACCATCAATTTTTTTCTTTAGTGCCTCTACCTGACTTGCCA
131 ATTCATCGTATTATTGCAACTCAAACCATCAATTTTGCTATTCAATGACTCTACATGACTTGCCA
*
48941183 ACATAACAAATGCATCCA
196 ACATAACAAATACATCCA
** *
48941201 TATAAGGGTTATTTTAAGGTTTAGAATTATTACCCATAAAGTTAACTTGGTCATGCTCCATGTTA
1 TATAAGGGTTATTTTAAGGCCTAGAATTATTACCCATAAAGTTAACTTGGTCATACTCCATGTTA
* *
48941266 GAACCGAAGGGTAAACATTCTGGATTGATCATCCCTGCTCCAGTTACATCACATTGCATTA-CTG
66 GAACCGAAGGGTAAACATTCTGGATTGATCATCCCCGCTCCAGTTACATCACATTGCATTATC-A
*
48941330 GATTCATCGTATTATTGCAACTCAAACCATCAATTTTGCTATTCAATGATTCTACATGACTTGCC
130 GATTCATCGTATTATTGCAACTCAAACCATCAATTTTGCTATTCAATGACTCTACATGACTTGCC
* * *
48941395 AACTTAGCAACTACATCCA
195 AACATAACAAATACATCCA
48941414 TAT
1 TAT
48941417 TAAAAACACT
Statistics
Matches: 190, Mismatches: 25, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
212 1 0.01
213 189 0.99
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (213 bp):
TATAAGGGTTATTTTAAGGCCTAGAATTATTACCCATAAAGTTAACTTGGTCATACTCCATGTTA
GAACCGAAGGGTAAACATTCTGGATTGATCATCCCCGCTCCAGTTACATCACATTGCATTATCAG
ATTCATCGTATTATTGCAACTCAAACCATCAATTTTGCTATTCAATGACTCTACATGACTTGCCA
ACATAACAAATACATCCA
Found at i:48942337 original size:19 final size:18
Alignment explanation
Indices: 48942296--48942339 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
48942286 AATTAGACTG
* *
48942296 TAAAAATTAAATTAAACA
1 TAAAAATTAAAATAAAAA
*
48942314 CAAAATATTAAAATAAAAA
1 TAAAA-ATTAAAATAAAAA
48942333 TAAAAAT
1 TAAAAAT
48942340 GGCTAAATTA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (18 bp):
TAAAAATTAAAATAAAAA
Found at i:48945142 original size:57 final size:57
Alignment explanation
Indices: 48945070--48945179 Score: 168
Period size: 57 Copynumber: 1.9 Consensus size: 57
48945060 GCCTTTGTAT
* * *
48945070 GCAAGTCAGTGAGTTACACGG-CCAGACATACAGGTGTGTGACACGGCCACGTGTGGG
1 GCAACTCAGAGAGTTACACGGCCCA-ACACACAGGTGTGTGACACGGCCACGTGTGGG
*
48945127 GCAACTCAGAGAGTTACATGGCCCAACACACAGGTGTGTGACACGGCCACGTG
1 GCAACTCAGAGAGTTACACGGCCCAACACACAGGTGTGTGACACGGCCACGTG
48945180 ACCCTACTCA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
57 45 0.94
58 3 0.06
ACGTcount: A:0.26, C:0.25, G:0.32, T:0.16
Consensus pattern (57 bp):
GCAACTCAGAGAGTTACACGGCCCAACACACAGGTGTGTGACACGGCCACGTGTGGG
Found at i:48945199 original size:55 final size:56
Alignment explanation
Indices: 48945081--48945201 Score: 138
Period size: 57 Copynumber: 2.2 Consensus size: 56
48945071 CAAGTCAGTG
* *** *
48945081 AGTTACACGGCCAGACATACAGGTGTGTGACACGGCCACGTGTGGGGCAACTCAGAG
1 AGTTACACGGCCAGACACACAGGTGTGTGACACGGCCACG-GTGACCCAACTCAGAA
* * *
48945138 AGTTACATGGCCCA-ACACACAGGTGTGTGACACGGCCAC-GTGACCCTACTCATAA
1 AGTTACACGG-CCAGACACACAGGTGTGTGACACGGCCACGGTGACCCAACTCAGAA
48945193 AGTTACACG
1 AGTTACACG
48945202 AGTGAGGACA
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
55 18 0.33
57 33 0.61
58 3 0.06
ACGTcount: A:0.28, C:0.27, G:0.27, T:0.17
Consensus pattern (56 bp):
AGTTACACGGCCAGACACACAGGTGTGTGACACGGCCACGGTGACCCAACTCAGAA
Found at i:48946841 original size:4 final size:4
Alignment explanation
Indices: 48946832--48946906 Score: 150
Period size: 4 Copynumber: 18.8 Consensus size: 4
48946822 TGAAGGATAA
48946832 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
48946880 TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TAT
48946907 ATCTACATCC
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 71 1.00
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:48947594 original size:16 final size:15
Alignment explanation
Indices: 48947554--48947607 Score: 51
Period size: 16 Copynumber: 3.6 Consensus size: 15
48947544 TCGTTATGTT
48947554 TGTTCGCCATTTGGATG
1 TGTTCGCCATTT--ATG
*
48947571 -GTTTGCCATTTATG
1 TGTTCGCCATTTATG
48947585 TTGTTCGCCA--TATG
1 -TGTTCGCCATTTATG
48947599 TGTTCGCCA
1 TGTTCGCCA
48947608 ATGCATGGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
13 9 0.27
14 7 0.21
16 17 0.52
ACGTcount: A:0.13, C:0.20, G:0.24, T:0.43
Consensus pattern (15 bp):
TGTTCGCCATTTATG
Found at i:48948227 original size:17 final size:17
Alignment explanation
Indices: 48948207--48948249 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
48948197 TTAAAATTTG
48948207 AAAATTTTAAAAAATAT
1 AAAATTTTAAAAAATAT
* **
48948224 AAAATTTGAAAATTTAT
1 AAAATTTTAAAAAATAT
48948241 AAATATTTT
1 AAA-ATTTT
48948250 CAATTTTAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (17 bp):
AAAATTTTAAAAAATAT
Found at i:48949792 original size:21 final size:22
Alignment explanation
Indices: 48949755--48949800 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
48949745 AACAAAGTTT
*
48949755 TTTTTATTTGAT-TTTTTTCTAA
1 TTTTTATTTGATATTTTGT-TAA
48949777 TTTTTATTT-ATATTTTGTTAA
1 TTTTTATTTGATATTTTGTTAA
48949798 TTT
1 TTT
48949801 GCTATTCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.74
Consensus pattern (22 bp):
TTTTTATTTGATATTTTGTTAA
Found at i:48953090 original size:9 final size:9
Alignment explanation
Indices: 48953076--48953100 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
48953066 AAAGACTATC
48953076 CATTTAGCA
1 CATTTAGCA
48953085 CATTTAGCA
1 CATTTAGCA
48953094 CATTTAG
1 CATTTAG
48953101 TCATATTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (9 bp):
CATTTAGCA
Found at i:48968618 original size:31 final size:31
Alignment explanation
Indices: 48968531--48968621 Score: 103
Period size: 31 Copynumber: 2.9 Consensus size: 31
48968521 ACGGTTTCCA
* *
48968531 TTGTTTAATAGAAC-AAAAGAAAAAAAAAAGC
1 TTGTTTAACAAAACGAAAA-AAAAAAAAAAGC
* * * * *
48968562 TTGTTTAACAAAACGAGATAGAAAAAAGAGT
1 TTGTTTAACAAAACGAAAAAAAAAAAAAAGC
48968593 TTGTTTAACAAAACGAAAAAAAAAAAAAA
1 TTGTTTAACAAAACGAAAAAAAAAAAAAA
48968622 AAGAGCTGCT
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
31 46 0.96
32 2 0.04
ACGTcount: A:0.60, C:0.07, G:0.13, T:0.20
Consensus pattern (31 bp):
TTGTTTAACAAAACGAAAAAAAAAAAAAAGC
Found at i:48976240 original size:16 final size:16
Alignment explanation
Indices: 48976221--48976251 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48976211 TGGTAATTAG
*
48976221 TAAATAAAGTAAAAAT
1 TAAATAAAATAAAAAT
48976237 TAAATAAAATAAAAA
1 TAAATAAAATAAAAA
48976252 GCAAAGTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (16 bp):
TAAATAAAATAAAAAT
Found at i:48980850 original size:36 final size:36
Alignment explanation
Indices: 48980803--48980881 Score: 140
Period size: 36 Copynumber: 2.2 Consensus size: 36
48980793 ACTGTTAGGG
*
48980803 CTAAAAACACATAACTTTGAGATATTGTTGTTTTGC
1 CTAAAAACACATAACTTTGAGATATTGTTATTTTGC
48980839 CTAAAAACACATAACTTTGAGATATTGTTATTTTGC
1 CTAAAAACACATAACTTTGAGATATTGTTATTTTGC
*
48980875 TTAAAAA
1 CTAAAAA
48980882 TAAGTCAGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (36 bp):
CTAAAAACACATAACTTTGAGATATTGTTATTTTGC
Found at i:48981874 original size:14 final size:13
Alignment explanation
Indices: 48981846--48981871 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48981836 ATGGTAAGAA
48981846 AATTTTTTTAATT
1 AATTTTTTTAATT
48981859 AATTTTTTTAATT
1 AATTTTTTTAATT
48981872 TAAACAATTT
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
AATTTTTTTAATT
Found at i:48984484 original size:42 final size:43
Alignment explanation
Indices: 48984384--48984490 Score: 135
Period size: 42 Copynumber: 2.5 Consensus size: 43
48984374 CAATACCATC
* * * * *
48984384 GTCCCAGACGTGGTCTTACATGTATTCAAATATCGATGCCACT
1 GTCCCAGACATGGTCTTACACGAAGTCAAATATCGATGCCAAT
* *
48984427 GTCCCAAACAGGGTCTTACACGAAGTCAAATA-CGATGCCAAT
1 GTCCCAGACATGGTCTTACACGAAGTCAAATATCGATGCCAAT
*
48984469 GTTCCAGACATGGTCTTACACG
1 GTCCCAGACATGGTCTTACACG
48984491 TAAATCTCAA
Statistics
Matches: 54, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 28 0.52
43 26 0.48
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGAAGTCAAATATCGATGCCAAT
Found at i:48986255 original size:28 final size:28
Alignment explanation
Indices: 48986223--48986283 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
48986213 GATGCACTTT
48986223 ACTTGAACCCGTGACCACAACATCGTCA
1 ACTTGAACCCGTGACCACAACATCGTCA
* * * *
48986251 ACTTGGAGCCGTGATCGCAACATCGTCA
1 ACTTGAACCCGTGACCACAACATCGTCA
48986279 ACTTG
1 ACTTG
48986284 GAGCCCAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.21
Consensus pattern (28 bp):
ACTTGAACCCGTGACCACAACATCGTCA
Found at i:48986284 original size:28 final size:28
Alignment explanation
Indices: 48986231--48986288 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
48986221 TTACTTGAAC
48986231 CCGTGACCACAACATCGTCAACTTGGAG
1 CCGTGACCACAACATCGTCAACTTGGAG
* *
48986259 CCGTGATCGCAACATCGTCAACTTGGAG
1 CCGTGACCACAACATCGTCAACTTGGAG
48986287 CC
1 CC
48986289 CAAGTTGCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.26, C:0.33, G:0.22, T:0.19
Consensus pattern (28 bp):
CCGTGACCACAACATCGTCAACTTGGAG
Found at i:48987049 original size:13 final size:14
Alignment explanation
Indices: 48987020--48987066 Score: 53
Period size: 13 Copynumber: 3.4 Consensus size: 14
48987010 CAAACTAAAA
*
48987020 TATAATCTTAAACAT
1 TATAATC-TAAATAT
48987035 TA-AATCTAAATAT
1 TATAATCTAAATAT
*
48987048 TATAA-ATAAATAT
1 TATAATCTAAATAT
48987061 TATAAT
1 TATAAT
48987067 ATACAAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
13 20 0.71
14 6 0.21
15 2 0.07
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.40
Consensus pattern (14 bp):
TATAATCTAAATAT
Found at i:48987201 original size:19 final size:19
Alignment explanation
Indices: 48987179--48987215 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
48987169 TCTTAAATAT
48987179 TAAATCTAAAA-ATAAACAA
1 TAAAT-TAAAATATAAACAA
48987198 TAAATTAAAATATAAACA
1 TAAATTAAAATATAAACA
48987216 TACATATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (19 bp):
TAAATTAAAATATAAACAA
Found at i:48988686 original size:28 final size:28
Alignment explanation
Indices: 48988654--48988707 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
48988644 TATAAAAATA
48988654 ATACAAAAACAATAATTACCAAAATGAT
1 ATACAAAAACAATAATTACCAAAATGAT
*
48988682 ATACAAAAACAATGATTACCAAAATG
1 ATACAAAAACAATAATTACCAAAATG
48988708 CTACTTTGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.59, C:0.15, G:0.06, T:0.20
Consensus pattern (28 bp):
ATACAAAAACAATAATTACCAAAATGAT
Found at i:49008080 original size:19 final size:19
Alignment explanation
Indices: 49008056--49008099 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
49008046 ATATCTGAAT
*
49008056 TGTGGAAGCATTCAAACTG
1 TGTGGAAGCATTCAAACTA
49008075 TGTGGAAGCATTCAAACTA
1 TGTGGAAGCATTCAAACTA
49008094 TGTGGA
1 TGTGGA
49008100 TTTGCGATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (19 bp):
TGTGGAAGCATTCAAACTA
Found at i:49008988 original size:27 final size:27
Alignment explanation
Indices: 49008958--49009046 Score: 124
Period size: 27 Copynumber: 3.3 Consensus size: 27
49008948 TTCGCATTTA
* *
49008958 AGGGTTCGCACAAGTAGGCTCGCACCT
1 AGGGTTCACACAAGTAGGCTCGCAACT
49008985 AGGGTTCACACAAGTAGGCTCGCAACT
1 AGGGTTCACACAAGTAGGCTCGCAACT
* * *
49009012 AGGGTTCACACAAGTAAGGGTTGCATCT
1 AGGGTTCACACAAGT-AGGCTCGCAACT
49009040 AGGGTTC
1 AGGGTTC
49009047 GCAGTTTGGG
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 40 0.71
28 16 0.29
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (27 bp):
AGGGTTCACACAAGTAGGCTCGCAACT
Found at i:49009163 original size:35 final size:35
Alignment explanation
Indices: 49009122--49009214 Score: 114
Period size: 35 Copynumber: 2.7 Consensus size: 35
49009112 GTTGATTCGA
* **
49009122 ATAATTTGACTCGCATGTAGTATTAAAAGGCTGGC
1 ATAATTTGACTCGCATGTAATATTAAAAGGCTCAC
* *
49009157 ATAATTTGACTCGCATATAATATTAAGAGGCTCAC
1 ATAATTTGACTCGCATGTAATATTAAAAGGCTCAC
* * *
49009192 ATAATTTGGCCCGCATGTCATAT
1 ATAATTTGACTCGCATGTAATAT
49009215 CTTAGGGTTT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 49 1.00
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Consensus pattern (35 bp):
ATAATTTGACTCGCATGTAATATTAAAAGGCTCAC
Found at i:49015247 original size:16 final size:16
Alignment explanation
Indices: 49015226--49015293 Score: 84
Period size: 16 Copynumber: 4.2 Consensus size: 16
49015216 TAAATTATTG
49015226 ATTACATCTCTATTCC
1 ATTACATCTCTATTCC
49015242 ATTACAGT-TCTATTCC
1 ATTACA-TCTCTATTCC
* * *
49015258 ATTACAGCTCTTTTCA
1 ATTACATCTCTATTCC
*
49015274 ATTACAACTCTATTCC
1 ATTACATCTCTATTCC
49015290 ATTA
1 ATTA
49015294 TAGTGAACCA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
16 43 0.98
17 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.03, T:0.43
Consensus pattern (16 bp):
ATTACATCTCTATTCC
Found at i:49023772 original size:14 final size:14
Alignment explanation
Indices: 49023737--49023774 Score: 69
Period size: 13 Copynumber: 2.8 Consensus size: 14
49023727 AATCTGGCTA
49023737 AATCCCAAAAGTCT
1 AATCCCAAAAGTCT
49023751 AA-CCCAAAAGTCT
1 AATCCCAAAAGTCT
49023764 AATCCCAAAAG
1 AATCCCAAAAG
49023775 CCACATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 13 0.57
14 10 0.43
ACGTcount: A:0.47, C:0.29, G:0.08, T:0.16
Consensus pattern (14 bp):
AATCCCAAAAGTCT
Found at i:49029210 original size:40 final size:41
Alignment explanation
Indices: 49029137--49029260 Score: 196
Period size: 40 Copynumber: 3.0 Consensus size: 41
49029127 ACCAAAAATT
49029137 TATTTTAAAAATTAAAACAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTT-AAAATT-AAA-AAAAATTAAAAAAAGTATTTTAAAAA
49029181 TATTTTAAAATTAAAAAAAATT-AAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAAATTAAAAAAAGTATTTTAAAAA
* *
49029221 TATTTTAAAATTTAAAAAATTTAAAAAAAGTATTTTAAAA
1 TATTTTAAAATTAAAAAAAATTAAAAAAAGTATTTTAAAA
49029261 TTAAAAAAAT
Statistics
Matches: 77, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
40 38 0.49
41 24 0.31
42 3 0.04
43 6 0.08
44 6 0.08
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.35
Consensus pattern (41 bp):
TATTTTAAAATTAAAAAAAATTAAAAAAAGTATTTTAAAAA
Found at i:49029231 original size:30 final size:29
Alignment explanation
Indices: 49029197--49029276 Score: 92
Period size: 29 Copynumber: 2.7 Consensus size: 29
49029187 AAAATTAAAA
**
49029197 AAAATTAAAAAAGTATTTTAAAAA-TATTTT
1 AAAATTAAAAAA-T-TTAAAAAAAGTATTTT
49029227 AAAATTTAAAAAATTTAAAAAAAGTATTTT
1 AAAA-TTAAAAAATTTAAAAAAAGTATTTT
*
49029257 AAAATTAAAAAA-ATAAAAAA
1 AAAATTAAAAAATTTAAAAAA
49029277 TAATAAAAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
28 7 0.16
29 15 0.33
30 15 0.33
31 8 0.18
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (29 bp):
AAAATTAAAAAATTTAAAAAAAGTATTTT
Found at i:49029260 original size:12 final size:11
Alignment explanation
Indices: 49029164--49029230 Score: 54
Period size: 11 Copynumber: 6.4 Consensus size: 11
49029154 CAAAAATTAA
49029164 AAAAAGTATTTT
1 AAAAA-TATTTT
49029176 AAAAATATTTT
1 AAAAATATTTT
49029187 --AAA-A--TT
1 AAAAATATTTT
* * *
49029193 AAAAAAAATTA
1 AAAAATATTTT
49029204 AAAAAGTATTTT
1 AAAAA-TATTTT
49029216 AAAAATATTTT
1 AAAAATATTTT
49029227 AAAA
1 AAAA
49029231 TTTAAAAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
6 2 0.04
8 4 0.09
9 4 0.09
11 22 0.49
12 13 0.29
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:49034278 original size:14 final size:14
Alignment explanation
Indices: 49034261--49034293 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
49034251 TATTAAATTG
49034261 TAGAACTAAAATGC
1 TAGAACTAAAATGC
49034275 TAGAACTAAAATGC
1 TAGAACTAAAATGC
*
49034289 CAGAA
1 TAGAA
49034294 ATTGTTCGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.52, C:0.15, G:0.15, T:0.18
Consensus pattern (14 bp):
TAGAACTAAAATGC
Found at i:49035399 original size:20 final size:19
Alignment explanation
Indices: 49035356--49035425 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 19
49035346 AGTCCCTGTG
**
49035356 GTATCGATATTTTTCTTACGA
1 GTATCGATA-TTTT-TTAAAA
49035377 GTATCGATATTTTTATAAAA
1 GTATCGATATTTTT-TAAAA
* *
49035397 GTATCGGTATTTTTTAAATG
1 GTATCGATATTTTTTAAA-A
49035417 GTATCGATA
1 GTATCGATA
49035426 CCAAATTACA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
19 5 0.12
20 28 0.67
21 9 0.21
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.46
Consensus pattern (19 bp):
GTATCGATATTTTTTAAAA
Found at i:49043489 original size:21 final size:21
Alignment explanation
Indices: 49043465--49043504 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
49043455 TGAAGCAATT
* *
49043465 TTGACTTGTTTAAATGATATC
1 TTGACTTGATAAAATGATATC
49043486 TTGACTTGATAAAATGATA
1 TTGACTTGATAAAATGATA
49043505 AAAGACCTTT
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:0.35, C:0.07, G:0.15, T:0.42
Consensus pattern (21 bp):
TTGACTTGATAAAATGATATC
Found at i:49049337 original size:28 final size:28
Alignment explanation
Indices: 49049297--49049566 Score: 266
Period size: 28 Copynumber: 9.8 Consensus size: 28
49049287 AACATGTCAG
* *
49049297 GAAAGAATAAGCCTTTGTGGTGAACTAC
1 GAAAGAATAAGCCTTTGTGGCGAACTAT
* *
49049325 GAAAGAATAAGCCTTTATGGTGAACTAT
1 GAAAGAATAAGCCTTTGTGGCGAACTAT
*
49049353 GAAAGAATAAGCCTTTG-GGAGAACTAT
1 GAAAGAATAAGCCTTTGTGGCGAACTAT
*
49049380 GAAAGAATAAGCCTTTGTGGTGAA-TAAT
1 GAAAGAATAAGCCTTTGTGGCGAACT-AT
*
49049408 GAAAGAATAAGCCCTTGT-GCGAA-TAAT
1 GAAAGAATAAGCCTTTGTGGCGAACT-AT
*
49049435 GAAAGAATAAGCCCTTGT-GCGAA-TAAT
1 GAAAGAATAAGCCTTTGTGGCGAACT-AT
* *
49049462 AAAAGAATAAGCCTTTGT-GCGAACAAT
1 GAAAGAATAAGCCTTTGTGGCGAACTAT
* * *
49049489 GAAAGACTAAGCCCTTGCGGCGAACTAT
1 GAAAGAATAAGCCTTTGTGGCGAACTAT
** * * *
49049517 CTAAGACTAAGCCCTTGTGGTGAACTAT
1 GAAAGAATAAGCCTTTGTGGCGAACTAT
* * * *
49049545 CAAAGACTAAGCCCTTATGGCG
1 GAAAGAATAAGCCTTTGTGGCG
49049567 GACTCCGTAT
Statistics
Matches: 216, Mismatches: 22, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
27 99 0.46
28 117 0.54
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (28 bp):
GAAAGAATAAGCCTTTGTGGCGAACTAT
Found at i:49049390 original size:55 final size:55
Alignment explanation
Indices: 49049297--49049566 Score: 260
Period size: 55 Copynumber: 4.9 Consensus size: 55
49049287 AACATGTCAG
* * * * *
49049297 GAAAGAATAAGCCTTTGTGGTGAACTACGAAAGAATAAGCCTTTATGGTGAACT-AT
1 GAAAGAATAAGCCTTTG-GGCGAACTATGAAAGAATAAGCCCTTGTGGCGAA-TAAT
* * *
49049353 GAAAGAATAAGCCTTTGGGAGAACTATGAAAGAATAAGCCTTTGTGGTGAATAAT
1 GAAAGAATAAGCCTTTGGGCGAACTATGAAAGAATAAGCCCTTGTGGCGAATAAT
* *
49049408 GAAAGAATAAGCCCTTGTGCGAA-TAATGAAAGAATAAGCCCTTGT-GCGAATAAT
1 GAAAGAATAAGCCTTTGGGCGAACT-ATGAAAGAATAAGCCCTTGTGGCGAATAAT
* * * * *
49049462 AAAAGAATAAGCCTTTGTGCGAACAATGAAAGACTAAGCCCTTGCGGCGAACT-AT
1 GAAAGAATAAGCCTTTGGGCGAACTATGAAAGAATAAGCCCTTGTGGCGAA-TAAT
** * * * * * *
49049517 CTAAGACTAAGCCCTTGTGGTGAACTATCAAAGACTAAGCCCTTATGGCG
1 GAAAGAATAAGCCTTTG-GGCGAACTATGAAAGAATAAGCCCTTGTGGCG
49049567 GACTCCGTAT
Statistics
Matches: 185, Mismatches: 23, Indels: 12
0.84 0.10 0.05
Matches are distributed among these distances:
54 49 0.26
55 92 0.50
56 44 0.24
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (55 bp):
GAAAGAATAAGCCTTTGGGCGAACTATGAAAGAATAAGCCCTTGTGGCGAATAAT
Found at i:49062858 original size:26 final size:26
Alignment explanation
Indices: 49062822--49062875 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
49062812 AAATTAGAAG
49062822 TAAGGTAAGGATGTCCTCTATCACCT
1 TAAGGTAAGGATGTCCTCTATCACCT
49062848 TAAGGTAAGGATGTCCTCTATCACCT
1 TAAGGTAAGGATGTCCTCTATCACCT
49062874 TA
1 TA
49062876 CCTGTTTGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (26 bp):
TAAGGTAAGGATGTCCTCTATCACCT
Found at i:49064987 original size:18 final size:18
Alignment explanation
Indices: 49064966--49065010 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
49064956 AAATTCAAAC
*
49064966 TAACAATAATCTAA-ATT
1 TAACAATAAACTAACATT
49064983 ATAACAATAAACTAACATT
1 -TAACAATAAACTAACATT
49065002 TAA-AATAAA
1 TAACAATAAA
49065011 AAATTTCCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 6 0.24
18 16 0.64
19 3 0.12
ACGTcount: A:0.60, C:0.11, G:0.00, T:0.29
Consensus pattern (18 bp):
TAACAATAAACTAACATT
Found at i:49065425 original size:19 final size:19
Alignment explanation
Indices: 49065401--49065441 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
49065391 GAGAAGCTCT
49065401 TGGAAGAATGAAAAGAATG
1 TGGAAGAATGAAAAGAATG
*
49065420 TGGAAGAATGGAAAGAATG
1 TGGAAGAATGAAAAGAATG
49065439 TGG
1 TGG
49065442 CTTTATATCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.46, C:0.00, G:0.37, T:0.17
Consensus pattern (19 bp):
TGGAAGAATGAAAAGAATG
Found at i:49069104 original size:27 final size:27
Alignment explanation
Indices: 49069048--49069118 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
49069038 CTAGCTTGCT
* * *
49069048 AAACAAACTGGAGAAACTCCAACTCGCC
1 AAACAGACTGGCG-AACTCCAACTCACC
*
49069076 AAACAGACTGGCGAACTCCAGCTCACC
1 AAACAGACTGGCGAACTCCAACTCACC
49069103 AAACAGACTGGCGAAC
1 AAACAGACTGGCGAAC
49069119 CCGGCTTTCA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 28 0.72
28 11 0.28
ACGTcount: A:0.39, C:0.32, G:0.18, T:0.10
Consensus pattern (27 bp):
AAACAGACTGGCGAACTCCAACTCACC
Found at i:49070149 original size:12 final size:11
Alignment explanation
Indices: 49070132--49070211 Score: 65
Period size: 12 Copynumber: 6.8 Consensus size: 11
49070122 CCAAGGTAAG
*
49070132 AAAAAAAATGA
1 AAAAAAAAAGA
49070143 AAAAAAATGAA-A
1 AAAAAAA--AAGA
*
49070155 AAAAAATAAGGA
1 AAAAAA-AAAGA
49070167 AAAATGAAAAAG-
1 AAAA--AAAAAGA
49070179 AAAAAAAAAGA
1 AAAAAAAAAGA
49070190 AAAAGAAAAAGA
1 AAAA-AAAAAGA
49070202 AAAAGAAAAA
1 AAAA-AAAAA
49070212 AGAGATACAA
Statistics
Matches: 58, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
10 6 0.10
11 12 0.21
12 33 0.57
13 5 0.09
14 2 0.03
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.05
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:49070181 original size:6 final size:6
Alignment explanation
Indices: 49070145--49070211 Score: 75
Period size: 6 Copynumber: 10.8 Consensus size: 6
49070135 AAAAATGAAA
*
49070145 AAAAATG AAAAAA AAATAAGG AAAAATG AAAAAG -AAAA- AAAAAG AAAAAG
1 AAAAA-G AAAAAG AAA-AA-G AAAAA-G AAAAAG AAAAAG AAAAAG AAAAAG
49070195 AAAAAG AAAAAG AAAAA
1 AAAAAG AAAAAG AAAAA
49070212 AGAGATACAA
Statistics
Matches: 53, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
5 8 0.15
6 27 0.51
7 15 0.28
8 3 0.06
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.04
Consensus pattern (6 bp):
AAAAAG
Found at i:49070185 original size:28 final size:28
Alignment explanation
Indices: 49070152--49070212 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
49070142 AAAAAAAATG
* *
49070152 AAAAAAAA-ATAAGGAAAAATGAAAAAGA
1 AAAAAAAAGAAAAAGAAAAA-GAAAAAGA
49070180 AAAAAAAAGAAAAAGAAAAAGAAAAAGA
1 AAAAAAAAGAAAAAGAAAAAGAAAAAGA
49070208 AAAAA
1 AAAAA
49070213 GAGATACAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 21 0.70
29 9 0.30
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (28 bp):
AAAAAAAAGAAAAAGAAAAAGAAAAAGA
Found at i:49070186 original size:10 final size:10
Alignment explanation
Indices: 49070129--49070212 Score: 69
Period size: 10 Copynumber: 7.9 Consensus size: 10
49070119 TAGCCAAGGT
49070129 AAGAAAAAAA
1 AAGAAAAAAA
*
49070139 ATGAAAAAAA
1 AAGAAAAAAA
*
49070149 ATGAAAAAAA
1 AAGAAAAAAA
* *
49070159 AATAAGGAAAA
1 AAGAA-AAAAA
*
49070170 ATGAAAAAGAA
1 AAGAAAAA-AA
*
49070181 AAAAAAAGAAA
1 AAGAAAA-AAA
49070192 AAGAAAAAGAAA
1 AAG-AAAA-AAA
49070204 AAGAAAAAA
1 AAGAAAAAA
49070213 GAGATACAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
10 26 0.43
11 22 0.37
12 12 0.20
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.05
Consensus pattern (10 bp):
AAGAAAAAAA
Found at i:49073202 original size:25 final size:25
Alignment explanation
Indices: 49073174--49073235 Score: 58
Period size: 25 Copynumber: 2.4 Consensus size: 25
49073164 ATGGTTTTTC
49073174 TTTTTAATTAT-GA-ACTTTTTATAAT
1 TTTTTAATTATGGATAC-TTTTAT-AT
*
49073199 TTTTGAA-TATTGGATACTTTTATAT
1 TTTTTAATTA-TGGATACTTTTATAT
49073224 TTTTTAAATTAT
1 TTTTT-AATTAT
49073236 TTATTAGTGC
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
24 2 0.07
25 13 0.43
26 11 0.37
27 4 0.13
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.60
Consensus pattern (25 bp):
TTTTTAATTATGGATACTTTTATAT
Found at i:49083247 original size:39 final size:39
Alignment explanation
Indices: 49083148--49083271 Score: 137
Period size: 39 Copynumber: 3.2 Consensus size: 39
49083138 AGTACTAAAA
* *
49083148 TACAACAGGGGCACGTAGGTGCG-TTCAGGGGTACCAAAG
1 TACAACAGGGGCACGTAAGTGCGATT-AGGGGTACCGAAG
*
49083187 TATAACAGGGGCACGTAAGTGCGATTAGGGGTACCGAAG
1 TACAACAGGGGCACGTAAGTGCGATTAGGGGTACCGAAG
* * * * *
49083226 TGCAACAGGGGCATG-ACAGTGCAATCA-TGGTACCGAAG
1 TACAACAGGGGCACGTA-AGTGCGATTAGGGGTACCGAAG
49083264 TACAACAG
1 TACAACAG
49083272 TTTTCTACTA
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
38 18 0.25
39 53 0.73
40 2 0.03
ACGTcount: A:0.31, C:0.19, G:0.33, T:0.16
Consensus pattern (39 bp):
TACAACAGGGGCACGTAAGTGCGATTAGGGGTACCGAAG
Found at i:49084185 original size:16 final size:17
Alignment explanation
Indices: 49084163--49084201 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
49084153 TTGATTTTAA
49084163 ATTTTATT-TTATGTTAT
1 ATTTTATTGTTA-GTTAT
49084180 -TTTTATTGTTAGTTAT
1 ATTTTATTGTTAGTTAT
49084196 ATTTTA
1 ATTTTA
49084202 GGATTTAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (17 bp):
ATTTTATTGTTAGTTAT
Found at i:49101640 original size:23 final size:23
Alignment explanation
Indices: 49101582--49101662 Score: 62
Period size: 23 Copynumber: 3.5 Consensus size: 23
49101572 ATATCGTGAT
*
49101582 AACAAATACAATAGTAATAA-ATA
1 AACAAATA-AATAGAAATAATATA
*
49101605 CAAC-AATGGAATAGAAATAATATA
1 -AACAAAT-AAATAGAAATAATATA
*
49101629 AACAAATAAAT--AAATAGATAAA
1 AACAAATAAATAGAAATA-ATATA
*
49101651 AACAAATCAATA
1 AACAAATAAATA
49101663 ACATGCAAAG
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
21 5 0.11
22 14 0.30
23 19 0.40
24 9 0.19
ACGTcount: A:0.65, C:0.09, G:0.06, T:0.20
Consensus pattern (23 bp):
AACAAATAAATAGAAATAATATA
Found at i:49101656 original size:22 final size:21
Alignment explanation
Indices: 49101619--49101663 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
49101609 AATGGAATAG
*
49101619 AAATAATATAAACAAATAAAT
1 AAATAATAAAAACAAATAAAT
*
49101640 AAATAGATAAAAACAAATCAAT
1 AAATA-ATAAAAACAAATAAAT
49101662 AA
1 AA
49101664 CATGCAAAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.71, C:0.07, G:0.02, T:0.20
Consensus pattern (21 bp):
AAATAATAAAAACAAATAAAT
Found at i:49101847 original size:28 final size:27
Alignment explanation
Indices: 49101790--49101875 Score: 75
Period size: 28 Copynumber: 3.1 Consensus size: 27
49101780 AAAAGGGTAC
* * * *
49101790 AAAATATATACATGTACATATATAAAA
1 AAAATATATACATATATATATATTATA
*
49101817 AAAATTATATACATATATATAGATTATAA
1 AAAA-TATATACATATATATATATTAT-A
*
49101846 AAAAGATAATTACATATATATATA-TATA
1 AAAATAT-A-TACATATATATATATTATA
49101874 AA
1 AA
49101876 CAACTAATAA
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
27 4 0.08
28 22 0.46
29 9 0.19
30 13 0.27
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (27 bp):
AAAATATATACATATATATATATTATA
Found at i:49101848 original size:30 final size:29
Alignment explanation
Indices: 49101790--49101875 Score: 97
Period size: 30 Copynumber: 3.0 Consensus size: 29
49101780 AAAAGGGTAC
* *
49101790 AAAA-TATATACATGTACATATATA-AAA
1 AAAATTATATACATATATATATATATAAA
*
49101817 AAAATTATATACATATATATAGATTATAAA
1 AAAATTATATACATATATATATA-TATAAA
*
49101847 AAAGATAAT-TACATATATATATATATAAA
1 AAA-ATTATATACATATATATATATATAAA
49101876 CAACTAATAA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
27 4 0.08
28 15 0.30
29 8 0.16
30 19 0.38
31 4 0.08
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (29 bp):
AAAATTATATACATATATATATATATAAA
Found at i:49102057 original size:17 final size:17
Alignment explanation
Indices: 49102035--49102078 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
49102025 TAGGAAATAA
49102035 AAAATGTATATGTATAT
1 AAAATGTATATGTATAT
*
49102052 AAAATGTAAATGTATAT
1 AAAATGTATATGTATAT
*
49102069 -ATATGTATAT
1 AAAATGTATAT
49102079 AAAAGTTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (17 bp):
AAAATGTATATGTATAT
Found at i:49102218 original size:3 final size:3
Alignment explanation
Indices: 49102210--49102251 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
49102200 GTATATATAG
* *
49102210 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA CAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
49102252 CTTAATAACA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:49102622 original size:21 final size:21
Alignment explanation
Indices: 49102573--49102670 Score: 121
Period size: 21 Copynumber: 4.7 Consensus size: 21
49102563 AAACTAAATC
*
49102573 TCTAAGATTACA-AAATCATA
1 TCTAAGATTGCATAAATCATA
49102593 TCTTCTAAGATTGCATAAATCATA
1 ---TCTAAGATTGCATAAATCATA
*
49102617 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATAAATCATA
49102638 TCTAAGATTGCAT--ATCATA
1 TCTAAGATTGCATAAATCATA
*
49102657 TCTAAGATTACATA
1 TCTAAGATTGCATA
49102671 TCCTTGAAGA
Statistics
Matches: 70, Mismatches: 3, Indels: 7
0.88 0.04 0.09
Matches are distributed among these distances:
19 18 0.26
21 33 0.47
23 11 0.16
24 8 0.11
ACGTcount: A:0.41, C:0.15, G:0.08, T:0.36
Consensus pattern (21 bp):
TCTAAGATTGCATAAATCATA
Found at i:49103610 original size:44 final size:44
Alignment explanation
Indices: 49103548--49103915 Score: 403
Period size: 44 Copynumber: 8.5 Consensus size: 44
49103538 CCACCTACTG
* * *
49103548 CACTGCTG-CTCAGAGAGATAGGGTTCACGATCTTCAACCTATTC
1 CACTGCTGAC-CAGGGAGATAGGATTCACAATCTTCAACCTATTC
* * * *
49103592 TATTGCTGACCAGGGAGATAGGA-CCTACAATCTTCAATCTATTC
1 CACTGCTGACCAGGGAGATAGGATTC-ACAATCTTCAACCTATTC
* * * * *
49103636 CAATGCTGCCCAGGGAGATAGAATTCTCAATTTTCAACCTATTC
1 CACTGCTGACCAGGGAGATAGGATTCACAATCTTCAACCTATTC
* * *
49103680 CACTGCAGACCAGGGAGATAGGATTCACAATCTTTAACCTATTA
1 CACTGCTGACCAGGGAGATAGGATTCACAATCTTCAACCTATTC
* *
49103724 CACTGCTGTCCAGGGAGATAGGATT--C--T-TT-AATCTATTC
1 CACTGCTGACCAGGGAGATAGGATTCACAATCTTCAACCTATTC
* * * *
49103762 CACTGCTG-CCTAAGGAGATAGAATTCTCAATCTTCAACATATTC
1 CACTGCTGACC-AGGGAGATAGGATTCACAATCTTCAACCTATTC
*
49103806 CACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTC
1 CACTGCTGACCAGGGAGATAGGATTCACAATCTTCAACCTATTC
* * *
49103850 CACTGCTGTCCAGAGAGATAGGATTCACAATCTTTAACCTATTC
1 CACTGCTGACCAGGGAGATAGGATTCACAATCTTCAACCTATTC
* *
49103894 CACTGTTGACCGGGGAGATAGG
1 CACTGCTGACCAGGGAGATAGG
49103916 GCTGGGGTCA
Statistics
Matches: 271, Mismatches: 42, Indels: 22
0.81 0.13 0.07
Matches are distributed among these distances:
37 2 0.01
38 27 0.10
39 2 0.01
40 2 0.01
42 2 0.01
43 3 0.01
44 229 0.85
45 4 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (44 bp):
CACTGCTGACCAGGGAGATAGGATTCACAATCTTCAACCTATTC
Found at i:49103809 original size:126 final size:125
Alignment explanation
Indices: 49103562--49103875 Score: 430
Period size: 126 Copynumber: 2.4 Consensus size: 125
49103552 GCTGCTCAGA
* * * * *
49103562 GAGATAGGGTTCACGATCTTCAACCTATTCTATTGCTGACCAGGGAGATAGGACCTACAATCTTC
1 GAGATAGGATTCACAATCTTTAACCTATTC-ACTGCTGTCCAGGGAGATAGGA--T----TCTTC
* * *
49103627 AATCTATTCCAATGCTGCCCAGGGAGATAGAATTCTCAATTTTCAACCTATTCCACTGCAGACCA
59 AATCTATTCCAATGCTGCCCAAGGAGATAGAATTCTCAATCTTCAACATATTCCACTGCAGACCA
49103692 GG
124 GG
*
49103694 GAGATAGGATTCACAATCTTTAACCTATTACACTGCTGTCCAGGGAGATAGGATTCTTTAATCTA
1 GAGATAGGATTCACAATCTTTAACCTATT-CACTGCTGTCCAGGGAGATAGGATTCTTCAATCTA
* * *
49103759 TTCCACTGCTGCCTAAGGAGATAGAATTCTCAATCTTCAACATATTCCACTGCTGACCAGG
65 TTCCAATGCTGCCCAAGGAGATAGAATTCTCAATCTTCAACATATTCCACTGCAGACCAGG
*
49103820 GAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGTCCAGAGAGATAGGATTC
1 GAGATAGGATTCACAATCTTTAACCTATT-CACTGCTGTCCAGGGAGATAGGATTC
49103876 ACAATCTTTA
Statistics
Matches: 167, Mismatches: 14, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
126 119 0.71
130 1 0.01
132 46 0.28
133 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (125 bp):
GAGATAGGATTCACAATCTTTAACCTATTCACTGCTGTCCAGGGAGATAGGATTCTTCAATCTAT
TCCAATGCTGCCCAAGGAGATAGAATTCTCAATCTTCAACATATTCCACTGCAGACCAGG
Found at i:49103974 original size:88 final size:88
Alignment explanation
Indices: 49103915--49104237 Score: 547
Period size: 88 Copynumber: 3.7 Consensus size: 88
49103905 GGGGAGATAG
* * * * *
49103915 GGCTGGGGTCATCAATCTGCTTCGCTGTCGGTGTAAGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
49103980 TCCGCTGCAACCTAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
*
49104003 GGCTGGTGTCTTCGATCTGCTTCGCTGTCTGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
49104068 TCCGCTGCAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * *
49104091 GGCTGGTATCTTCGATCTGCTTTGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGT
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
49104156 TCCGCTGCAACCCAAGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
49104179 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTA
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTA
49104238 CTGATCTGCT
Statistics
Matches: 221, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 221 1.00
ACGTcount: A:0.19, C:0.24, G:0.28, T:0.28
Consensus pattern (88 bp):
GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
TCCGCTGCAACCCAGGGAGGCAA
Found at i:49104045 original size:44 final size:44
Alignment explanation
Indices: 49103997--49104223 Score: 156
Period size: 44 Copynumber: 5.2 Consensus size: 44
49103987 CAACCTAGGG
* *
49103997 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCTGTGCAGGA
1 AGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCAGTGCAGGA
* * * ** * * *** *
49104041 AGGCAAGATCTGCTATTTTTAACCTGCTCCGCTG-CAACCCAGGG
1 AGGCAAG-GCTGGTATCTTCGATCTGCTTCGCTGTCAGTGCAGGA
* *
49104085 AGGCAAGGCTGGTATCTTCGATCTGCTTTGCTGTCGGTGCAGGA
1 AGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCAGTGCAGGA
* * * ** * ***
49104129 AGGCAAGATCTGCTATTTTTAACCTG-TTCCGCTG-CAACCCAAGG-
1 AGGCAAG-GCTGGTATCTTCGATCTGCTT-CGCTGTCAGTGC-AGGA
* *
49104173 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGA
1 AGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCAGTGCAGGA
49104217 AGGCAAG
1 AGGCAAG
49104224 ATCTGCTATT
Statistics
Matches: 127, Mismatches: 48, Indels: 16
0.66 0.25 0.08
Matches are distributed among these distances:
43 37 0.29
44 53 0.42
45 37 0.29
ACGTcount: A:0.19, C:0.24, G:0.30, T:0.27
Consensus pattern (44 bp):
AGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCAGTGCAGGA
Found at i:49111727 original size:21 final size:21
Alignment explanation
Indices: 49111648--49111726 Score: 97
Period size: 21 Copynumber: 3.7 Consensus size: 21
49111638 AAATTAAATC
49111648 TCTAAGATTACA-AAATCATA
1 TCTAAGATTACATAAATCATA
*
49111668 TCTTCTAAGATTGCATAAATCATA
1 ---TCTAAGATTACATAAATCATA
* *
49111692 TCTAAGATTGCATATATCATA
1 TCTAAGATTACATAAATCATA
49111713 TCTAAGATTACATA
1 TCTAAGATTACATA
49111727 TCCTTGAAGA
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
21 33 0.63
23 11 0.21
24 8 0.15
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (21 bp):
TCTAAGATTACATAAATCATA
Found at i:49123111 original size:18 final size:18
Alignment explanation
Indices: 49123088--49123123 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
49123078 ATTTATTTAC
49123088 TATTAACATAAATATTAA
1 TATTAACATAAATATTAA
* *
49123106 TATTAATATAAATTTTAA
1 TATTAACATAAATATTAA
49123124 ATTTATTATT
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:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
TATTAACATAAATATTAA
Found at i:49123136 original size:21 final size:20
Alignment explanation
Indices: 49123106--49123144 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
49123096 TAAATATTAA
49123106 TATTAATATAAATTTTAAATT
1 TATTAATAT-AATTTTAAATT
* *
49123127 TATTATTATATTTTTAAA
1 TATTAATATAATTTTAAA
49123145 ATATTTATGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TATTAATATAATTTTAAATT
Found at i:49127548 original size:3 final size:3
Alignment explanation
Indices: 49127540--49127572 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
49127530 TGATCTATAC
49127540 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
49127573 ATCAAATCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:49130094 original size:33 final size:33
Alignment explanation
Indices: 49130030--49130330 Score: 182
Period size: 33 Copynumber: 8.5 Consensus size: 33
49130020 ATATAAAGGG
*
49130030 GGTTGCTAAGTGCTGATTCCCC----CA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
49130057 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* *
49130090 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-TG---GT
* * *
49130132 GGCTGCTAAGTGCTGATTCCCTGACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* *
49130165 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-T---GGT
* * *
49130207 GGTTGCTAAGTGTTGATTCCCCTAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* * *
49130240 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-TG---GT
*
49130282 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
49130315 GGTTGCTAAGTGCTGA
1 GGTTGCTAAGTGCTGA
49130331 ATCCACCGGT
Statistics
Matches: 213, Mismatches: 28, Indels: 60
0.71 0.09 0.20
Matches are distributed among these distances:
27 22 0.10
31 2 0.01
32 2 0.01
33 77 0.36
34 7 0.03
35 3 0.01
36 5 0.02
37 10 0.05
38 9 0.04
39 5 0.02
40 3 0.01
41 7 0.03
42 61 0.29
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.32
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
Found at i:49130176 original size:75 final size:75
Alignment explanation
Indices: 49130053--49130338 Score: 491
Period size: 75 Copynumber: 3.8 Consensus size: 75
49130043 TGATTCCCCC
*
49130053 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
49130118 TTAAATGTGA
66 TTAAATGTGA
* *
49130128 AAGGGGCTGCTAAGTGCTGATTCCCTGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
49130193 TTAAATGTGA
66 TTAAATGTGA
* * * * *
49130203 AGGGGGTTGCTAAGTGTTGATTCCCCTAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
49130268 TTAAATGTGA
66 TTAAATGTGA
*
49130278 AAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGAATCCACCG
1 AAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCG
49130339 GTAATGGATA
Statistics
Matches: 195, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
75 195 1.00
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (75 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
TTAAATGTGA
Found at i:49130224 original size:42 final size:42
Alignment explanation
Indices: 49130165--49130301 Score: 159
Period size: 42 Copynumber: 3.5 Consensus size: 42
49130155 ACTCATTGGT
49130165 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAGGG
* *
49130207 GGTTGCTAAGTGTTGATTCC-CC-TAATC----AT-T---GGT
1 GGTTGCTAAGTGCTGATTCCACCGT-ATCTTAAATGTGAAGGG
* *
49130240 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAGGG
49130282 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
49130302 CCGACTCATT
Statistics
Matches: 77, Mismatches: 7, Indels: 22
0.73 0.07 0.21
Matches are distributed among these distances:
33 20 0.26
34 5 0.06
35 1 0.01
36 1 0.01
37 2 0.03
38 2 0.03
39 1 0.01
40 1 0.01
41 5 0.06
42 39 0.51
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAGGG
Found at i:49145040 original size:22 final size:25
Alignment explanation
Indices: 49145015--49145062 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 25
49145005 ATGTACATTG
49145015 TTTATTTCAAAT-CT-ATT-TCCAA
1 TTTATTTCAAATACTAATTATCCAA
49145037 TTTATTTCAAATACTAATTATCCAA
1 TTTATTTCAAATACTAATTATCCAA
49145062 T
1 T
49145063 GTTCTATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 12 0.52
23 2 0.09
24 3 0.13
25 6 0.26
ACGTcount: A:0.35, C:0.17, G:0.00, T:0.48
Consensus pattern (25 bp):
TTTATTTCAAATACTAATTATCCAA
Found at i:49146469 original size:17 final size:17
Alignment explanation
Indices: 49146447--49146479 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
49146437 TAGAATTGGG
49146447 TTGAGAAAATTATTTAA
1 TTGAGAAAATTATTTAA
*
49146464 TTGAGAAATTTATTTA
1 TTGAGAAAATTATTTA
49146480 TTTATTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.45
Consensus pattern (17 bp):
TTGAGAAAATTATTTAA
Found at i:49146480 original size:4 final size:4
Alignment explanation
Indices: 49146471--49146495 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
49146461 TAATTGAGAA
49146471 ATTT ATTT ATTT ATTT ATTT ATTT A
1 ATTT ATTT ATTT ATTT ATTT ATTT A
49146496 AATTAATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:49146873 original size:19 final size:22
Alignment explanation
Indices: 49146835--49146883 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
49146825 AAATAGTGAG
*
49146835 AATT-TATTTTCTAAGTAT-A-
1 AATTCTATTTTCTAAGAATAAC
49146854 AATTCTATTTTCTAA-AATAAC
1 AATTCTATTTTCTAAGAATAAC
49146875 AATTCTATT
1 AATTCTATT
49146884 GGTTTCTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 6 0.23
20 11 0.42
21 9 0.35
ACGTcount: A:0.39, C:0.10, G:0.02, T:0.49
Consensus pattern (22 bp):
AATTCTATTTTCTAAGAATAAC
Found at i:49155319 original size:25 final size:26
Alignment explanation
Indices: 49155286--49155339 Score: 101
Period size: 25 Copynumber: 2.1 Consensus size: 26
49155276 GGATGTAAGC
49155286 AAATCTTTGCTTAGTAAGTTCGTAAT
1 AAATCTTTGCTTAGTAAGTTCGTAAT
49155312 AAAT-TTTGCTTAGTAAGTTCGTAAT
1 AAATCTTTGCTTAGTAAGTTCGTAAT
49155337 AAA
1 AAA
49155340 CTTAAACTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 24 0.86
26 4 0.14
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.41
Consensus pattern (26 bp):
AAATCTTTGCTTAGTAAGTTCGTAAT
Found at i:49157029 original size:10 final size:11
Alignment explanation
Indices: 49157006--49157030 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
49156996 ACAACAATTC
49157006 AAAAACATTAA
1 AAAAACATTAA
49157017 AAAAACATTAA
1 AAAAACATTAA
49157028 AAA
1 AAA
49157031 CGGAATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAAACATTAA
Found at i:49163546 original size:101 final size:102
Alignment explanation
Indices: 49163430--49163612 Score: 271
Period size: 101 Copynumber: 1.8 Consensus size: 102
49163420 AGTGATGGTA
* *
49163430 ACGTGTGTAGTACTATTTGCAGGCTACTACGTGTACCAGA-A-TGATAGGTCGCATGTGTAGTAC
1 ACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGAT-GGTCACATGTGTAGTAC
49163493 TATGTGCAGGCTACTATGCATACCGGATAGCTTCGATC
65 TATGTGCAGGCTACTATGCATACCGGATAGCTTCGATC
* * * * *
49163531 ACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCAGATAGTGATGTTCACATGTGTTGTGCT
1 ACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTACT
*
49163596 ATGTGCATGCTACTATG
66 ATGTGCAGGCTACTATG
49163613 TGAACTGGTA
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
101 37 0.51
102 31 0.43
103 4 0.06
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.33
Consensus pattern (102 bp):
ACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTACT
ATGTGCAGGCTACTATGCATACCGGATAGCTTCGATC
Found at i:49163573 original size:51 final size:50
Alignment explanation
Indices: 49163430--49163610 Score: 159
Period size: 51 Copynumber: 3.6 Consensus size: 50
49163420 AGTGATGGTA
* *
49163430 ACGTGTGTAGTACTATTTGCAGGCTACTACGTGTACCAGA-ATGATAGGTC
1 ACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATA-GATAGATC
* * * ** * * *
49163480 GCATGTGTAGTACTATGTGCAGGCTACTATGCATACCGGATAGCTTCGATC
1 ACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAG-ATAGATC
* * *
49163531 ACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCAGATAG-TGATGTTC
1 ACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGAT-A-GATC
* * * *
49163582 ACATGTGTTGTGCTATGTGCATGCTACTA
1 ACGTGTGTAGTACTATGTGCAGGCTACTA
49163611 TGTGAACTGG
Statistics
Matches: 102, Mismatches: 25, Indels: 7
0.76 0.19 0.05
Matches are distributed among these distances:
49 1 0.01
50 34 0.33
51 67 0.66
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.33
Consensus pattern (50 bp):
ACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGATAGATC
Found at i:49163859 original size:16 final size:16
Alignment explanation
Indices: 49163838--49163869 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
49163828 TGATTGAAAG
*
49163838 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
49163854 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
49163870 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:49176200 original size:99 final size:99
Alignment explanation
Indices: 49176029--49176406 Score: 595
Period size: 99 Copynumber: 3.9 Consensus size: 99
49176019 AAAACATGTG
* * * * * *
49176029 AGGTATGAAAGTGTTAACATATCATGTTGCGTATTTGATATTCTGTATGATTAATAAAGTG-ACT
1 AGGTATGAAAATGTTAATATATCATGTTGCATACTTGATATTCTGTATGATTGATAAAGTGTTC-
49176093 GCACTTATTATGTTGAAAATGAATGGGAATGAATC
65 GCACTTATTATGTTGAAAATGAATGGGAATGAATC
49176128 AGGTATGAAAATGTTAATATATCATGTTGCATACTTGATATTCTGTATGATTGATAAAGTGTTCG
1 AGGTATGAAAATGTTAATATATCATGTTGCATACTTGATATTCTGTATGATTGATAAAGTGTTCG
* *
49176193 CACTTATTATGTTGAAAATGAATGGAAATTAATC
66 CACTTATTATGTTGAAAATGAATGGGAATGAATC
*
49176227 AGGTATGAAAATGTTAATATATCATGTTGCATACTTGATATTCTGTATGATTGATAAAGTGTTTG
1 AGGTATGAAAATGTTAATATATCATGTTGCATACTTGATATTCTGTATGATTGATAAAGTGTTCG
49176292 CACTTATTATGTTGAAAATGAATGGGAATGAATC
66 CACTTATTATGTTGAAAATGAATGGGAATGAATC
* * *
49176326 AAGTATGAAAGTGTTAATATATCATGTTGCATACTTGATATACTGTATG-TTGATAAAGTGTTCG
1 AGGTATGAAAATGTTAATATATCATGTTGCATACTTGATATTCTGTATGATTGATAAAGTGTTCG
*
49176390 --CTCATTATG-TGAAAATG
66 CACTTATTATGTTGAAAATG
49176407 CTTTTGGTTT
Statistics
Matches: 262, Mismatches: 16, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
95 8 0.03
96 8 0.03
98 14 0.05
99 231 0.88
100 1 0.00
ACGTcount: A:0.34, C:0.08, G:0.20, T:0.38
Consensus pattern (99 bp):
AGGTATGAAAATGTTAATATATCATGTTGCATACTTGATATTCTGTATGATTGATAAAGTGTTCG
CACTTATTATGTTGAAAATGAATGGGAATGAATC
Found at i:49187544 original size:42 final size:43
Alignment explanation
Indices: 49187487--49187591 Score: 142
Period size: 42 Copynumber: 2.5 Consensus size: 43
49187477 AGAAACCGTG
* *
49187487 AGGGTTGAATAGAAGCTCATA-AGAGCTGAATGGAAACCCATA
1 AGGGTTGAACAGAAGCTCATACAGAGCTAAATGGAAACCCATA
* *
49187529 AGGGTTAAACAGAAGCTCA-ACAGAGCTAAATGGAAACCCATT
1 AGGGTTGAACAGAAGCTCATACAGAGCTAAATGGAAACCCATA
* *
49187571 AGGGTTGAACGGAAACTCATA
1 AGGGTTGAACAGAAGCTCATA
49187592 TGAGTTAAAC
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
41 1 0.02
42 52 0.96
43 1 0.02
ACGTcount: A:0.41, C:0.16, G:0.25, T:0.18
Consensus pattern (43 bp):
AGGGTTGAACAGAAGCTCATACAGAGCTAAATGGAAACCCATA
Done.