Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 15 of 205
Found at i:4696820 original size:21 final size:21
Alignment explanation
Indices: 4696773--4696820 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
4696763 AGTTAAAAAG
* * *
4696773 TTAATATTAAAGTTTCGTTAA
1 TTAATTTTAAAGTTCCGATAA
**
4696794 GAAATTTTAAAGTTCCGATAA
1 TTAATTTTAAAGTTCCGATAA
4696815 TTAATT
1 TTAATT
4696821 GAATAAAAAG
Statistics
Matches: 20, Mismatches: 7, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.44
Consensus pattern (21 bp):
TTAATTTTAAAGTTCCGATAA
Found at i:4697050 original size:333 final size:333
Alignment explanation
Indices: 4696438--4697091 Score: 1166
Period size: 333 Copynumber: 2.0 Consensus size: 333
4696428 TTAAAAAGTT
*
4696438 AGTTAGTATTAAAGTTTCGTTAAGAAATTTTAAAGTTCCGATAATTAATTGAACAAAAAGGACTA
1 AGTTAATATTAAAGTTTCGTTAAGAAATTTTAAAGTTCCGATAATTAATTGAACAAAAAGGACTA
4696503 AATTGTAACAAATGCAAAATTTTGGGAAATGATTAAATAGCTTAAATGATAAAAGGAAGAGGGCT
66 AATTGTAACAAATGCAAAATTTTGGGAAATGATTAAATAGCTTAAATGATAAAAGGAAGAGGGCT
4696568 TAAAAGGCAAATAGACCCAAGGTCTATTTGGGCTGGACGGCAAAGGCATGAAATCAACAACAAAG
131 TAAAAGGCAAATAGACCCAAGGTCTATTTGGGCTGGACGGCAAAGGCATGAAATCAACAACAAAG
*
4696633 TAAGGAGAAATAAGGGTAAAATTGAAATATTGCAAAATTTACTTAATAAAGTTAGGACCAAAGTG
196 TAAGGAGAAATAAGGGCAAAATTGAAATATTGCAAAATTTACTTAATAAAGTTAGGACCAAAGTG
* *
4696698 GAATTATCTAGATTTCTCTTTATTTTTCTGCATTCTCATCAGAAAAAACACCATAGAAGGGTTTG
261 GAATTATCTAGATTTCTCTTCATTTTTCTGAATTCTCATCAGAAAAAACACCATAGAAGGGTTTG
4696763 AGTTAAAA
326 AGTTAAAA
*
4696771 AGTTAATATTAAAGTTTCGTTAAGAAATTTTAAAGTTCCGATAATTAATTGAATAAAAAGGACTA
1 AGTTAATATTAAAGTTTCGTTAAGAAATTTTAAAGTTCCGATAATTAATTGAACAAAAAGGACTA
4696836 AATTGTAACAAATGCAAAATTTTGGGAAATGATTAAATAGCTTAAATGATAAAAGGAAGAGGGCT
66 AATTGTAACAAATGCAAAATTTTGGGAAATGATTAAATAGCTTAAATGATAAAAGGAAGAGGGCT
* * *
4696901 TAAAAGGCAAATAGACCCAAGGTCTATTTGGGCTGGACGGCAGAGGCATGAAATCAGCAAGAAAG
131 TAAAAGGCAAATAGACCCAAGGTCTATTTGGGCTGGACGGCAAAGGCATGAAATCAACAACAAAG
* * *
4696966 TAAGGAGAATTAAGGGCAAAATTGGAAA-ATTGCAAAATTTGCTTAATAAAGTTAGGACCCAAGT
196 TAAGGAGAAATAAGGGCAAAATT-GAAATATTGCAAAATTTACTTAATAAAGTTAGGACCAAAGT
** *
4697030 GGAATTATCTAGATTTCTCTTCATTTTTCTGAATTCTCATCAGCTAAAACACCATGGAAGGG
260 GGAATTATCTAGATTTCTCTTCATTTTTCTGAATTCTCATCAGAAAAAACACCATAGAAGGG
4697092 CTTCTTCAAG
Statistics
Matches: 306, Mismatches: 14, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
333 302 0.99
334 4 0.01
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.28
Consensus pattern (333 bp):
AGTTAATATTAAAGTTTCGTTAAGAAATTTTAAAGTTCCGATAATTAATTGAACAAAAAGGACTA
AATTGTAACAAATGCAAAATTTTGGGAAATGATTAAATAGCTTAAATGATAAAAGGAAGAGGGCT
TAAAAGGCAAATAGACCCAAGGTCTATTTGGGCTGGACGGCAAAGGCATGAAATCAACAACAAAG
TAAGGAGAAATAAGGGCAAAATTGAAATATTGCAAAATTTACTTAATAAAGTTAGGACCAAAGTG
GAATTATCTAGATTTCTCTTCATTTTTCTGAATTCTCATCAGAAAAAACACCATAGAAGGGTTTG
AGTTAAAA
Found at i:4698988 original size:46 final size:46
Alignment explanation
Indices: 4698921--4699221 Score: 525
Period size: 46 Copynumber: 6.6 Consensus size: 46
4698911 NNNNNNNNNN
*
4698921 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
4698967 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
4699013 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
4699059 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
4699105 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* * *
4699151 TCTGATCAAGTGACTAAGTGATAAGTGGTAGCCTTAACTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
4699197 TCTGATC-AGGGACAAA-TGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
4699222 ATCATACGTA
Statistics
Matches: 249, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
44 9 0.04
45 7 0.03
46 233 0.94
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:4703963 original size:9 final size:9
Alignment explanation
Indices: 4703914--4703978 Score: 67
Period size: 9 Copynumber: 7.0 Consensus size: 9
4703904 TTAAATCTAT
*
4703914 AAATTATTA
1 AAATTATAA
*
4703923 AAATGATATA
1 AAATTATA-A
* *
4703933 AAATTTTGA
1 AAATTATAA
*
4703942 AAATAATAGA
1 AAATTATA-A
4703952 AAATTATAA
1 AAATTATAA
4703961 AAATTATAA
1 AAATTATAA
4703970 AAATTATAA
1 AAATTATAA
4703979 GATATTAACA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
9 31 0.69
10 14 0.31
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.34
Consensus pattern (9 bp):
AAATTATAA
Found at i:4703977 original size:18 final size:19
Alignment explanation
Indices: 4703914--4703978 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 19
4703904 TTAAATCTAT
* * *
4703914 AAATTATTAAAATGATATA
1 AAATTATAAAAATAATAGA
* *
4703933 AAATTTTGAAAATAATAGA
1 AAATTATAAAAATAATAGA
*
4703952 AAATTATAAAAATTATA-A
1 AAATTATAAAAATAATAGA
4703970 AAATTATAA
1 AAATTATAA
4703979 GATATTAACA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
18 10 0.26
19 29 0.74
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.34
Consensus pattern (19 bp):
AAATTATAAAAATAATAGA
Found at i:4704135 original size:20 final size:20
Alignment explanation
Indices: 4704101--4704162 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
4704091 AAAAATATAT
*
4704101 AAAATTTATAGAAATTGTTTA
1 AAAAGTTATA-AAATTGTTTA
*
4704122 AAAAGTTATAAAATTCTATTA
1 AAAAGTTATAAAATTGT-TTA
* *
4704143 AAAGTGTTAAAAAATTGTTT
1 AAA-AGTTATAAAATTGTTT
4704163 GTTATTTTGA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 6 0.18
21 17 0.50
22 11 0.32
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (20 bp):
AAAAGTTATAAAATTGTTTA
Found at i:4704153 original size:30 final size:30
Alignment explanation
Indices: 4704098--4704156 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
4704088 TAGAAAAATA
*
4704098 TATAAAATTTATAGAAATTGTTTAAAAAGT
1 TATAAAATTTATAGAAAGTGTTTAAAAAGT
*
4704128 TATAAAATTCTATTA-AAAGTGTTAAAAAA
1 TATAAAATT-TA-TAGAAAGTGTTTAAAAA
4704157 TTGTTTGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 9 0.36
31 14 0.56
32 2 0.08
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.37
Consensus pattern (30 bp):
TATAAAATTTATAGAAAGTGTTTAAAAAGT
Found at i:4705273 original size:41 final size:41
Alignment explanation
Indices: 4705228--4705320 Score: 114
Period size: 41 Copynumber: 2.3 Consensus size: 41
4705218 AGTTAAAAAC
4705228 ACTTTCCAACTATAAAACTTGACATATCAAACATTAGAAAT
1 ACTTTCCAACTATAAAACTTGACATATCAAACATTAGAAAT
* * * * ** * *
4705269 ACTTTTCAAGTATAAAACTTGATATATTAAATGTTAGGATT
1 ACTTTCCAACTATAAAACTTGACATATCAAACATTAGAAAT
4705310 ACTTTCCAACT
1 ACTTTCCAACT
4705321 TTTCAACTGA
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.35
Consensus pattern (41 bp):
ACTTTCCAACTATAAAACTTGACATATCAAACATTAGAAAT
Found at i:4741924 original size:92 final size:91
Alignment explanation
Indices: 4741767--4741975 Score: 278
Period size: 92 Copynumber: 2.3 Consensus size: 91
4741757 TTGATTTTAG
* * *
4741767 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
4741832 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
*
4741859 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
4741923 TATGTAATAATTATTATTTTAAATTATA
64 TATGTAATAATTATTATTTTAAATTATA
* * * *
4741951 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
4741976 GTTATAATTA
Statistics
Matches: 104, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
90 1 0.01
91 29 0.28
92 71 0.68
93 3 0.03
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:4741938 original size:24 final size:25
Alignment explanation
Indices: 4741903--4741950 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
4741893 TTATGAAATT
4741903 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
4741927 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
4741951 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:4742009 original size:28 final size:27
Alignment explanation
Indices: 4741978--4742050 Score: 62
Period size: 28 Copynumber: 2.7 Consensus size: 27
4741968 ATTTATTAGT
4741978 TATAATTATTTTAAATTTTATGTAATCA
1 TATAATTATTTTAAATTTTATGTAAT-A
* * *
4742006 TAT-ATT-TTAATTAAAATATATTTAATA
1 TATAATTATT--TTAAATTTTATGTAATA
*
4742033 T-TAATTATTTCAAATTTT
1 TATAATTATTTTAAATTTT
4742051 CTTTTATAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
26 9 0.26
27 8 0.23
28 18 0.51
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (27 bp):
TATAATTATTTTAAATTTTATGTAATA
Found at i:4742182 original size:107 final size:109
Alignment explanation
Indices: 4742060--4742275 Score: 364
Period size: 107 Copynumber: 2.0 Consensus size: 109
4742050 TCTTTTATAG
* *
4742060 TATCATATATTATGATTTGAGTAAATTCATAGAAGAATTTTATTTATTAAGAATTTTATTAAATT
1 TATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTATTAAGAATTTTATTAAATT
* *
4742125 ATATATTTTAATTAAAATGTTTTTAATAATAATTATG-TTAAAT
66 ATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
*
4742168 TATC-TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 TATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTATTAAGAATTTTATTAAATT
*
4742232 ATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
66 ATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
4742276 ATGATTAAAT
Statistics
Matches: 101, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
107 91 0.90
108 10 0.10
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (109 bp):
TATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTATTAAGAATTTTATTAAATT
ATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
Found at i:4742253 original size:16 final size:16
Alignment explanation
Indices: 4742232--4742273 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
4742222 TTATTAAATT
*
4742232 ATATATTTTAATTATA
1 ATATATTTTAATAATA
4742248 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
4742263 AT-TATGTTTAA
1 ATATAT-TTTAA
4742274 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:4742258 original size:15 final size:15
Alignment explanation
Indices: 4742223--4742264 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
4742213 TTAAGAATTT
*
4742223 TATTAAATTAT-ATA
1 TATTTAATTATAATA
4742237 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
4742251 TATTTAATAATAAT
1 TATTTAATTATAAT
4742265 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:4742381 original size:157 final size:157
Alignment explanation
Indices: 4742207--4742523 Score: 571
Period size: 157 Copynumber: 2.0 Consensus size: 157
4742197 ATAAGAATAT
* *
4742207 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTA
* *
4742272 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
4742337 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
4742364 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTA
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTA
*
4742429 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAATAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
4742494 TAATCATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
4742521 TAA
1 TAA
4742524 GGGTATTCTA
Statistics
Matches: 153, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 153 1.00
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTA
AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:4742404 original size:18 final size:17
Alignment explanation
Indices: 4742376--4742410 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4742366 ATTATTAAGA
*
4742376 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
4742393 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
4742411 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:4742440 original size:26 final size:25
Alignment explanation
Indices: 4742400--4742449 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
4742390 TATATTTTAA
4742400 TTAAAATATATTTAATAATAATTATG
1 TTAAAATATATTTAA-AATAATTATG
*
4742426 TTAAAATATGA-TTAAAATATTTAT
1 TTAAAATAT-ATTTAAAATAATTAT
4742450 TATTGATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 8 0.36
26 13 0.59
27 1 0.05
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (25 bp):
TTAAAATATATTTAAAATAATTATG
Found at i:4742665 original size:16 final size:16
Alignment explanation
Indices: 4742644--4742679 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
4742634 GATTTGCTAT
4742644 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
4742660 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
4742676 TACA
1 TACA
4742680 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:4742820 original size:9 final size:9
Alignment explanation
Indices: 4742793--4742827 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
4742783 CATCATTCTT
4742793 ATCGTCCTC
1 ATCGTCCTC
* *
4742802 ATTGTGCTC
1 ATCGTCCTC
4742811 ATCGTCCTC
1 ATCGTCCTC
4742820 ATCGTCCT
1 ATCGTCCT
4742828 TTTTGCAATC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.11, C:0.37, G:0.14, T:0.37
Consensus pattern (9 bp):
ATCGTCCTC
Found at i:4758249 original size:19 final size:19
Alignment explanation
Indices: 4758206--4758250 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
4758196 TCTAAAAAAA
4758206 TTAAAAATAGAAAAATTCT
1 TTAAAAATAGAAAAATTCT
**
4758225 AGAAAAATAGAAAAA-TCAT
1 TTAAAAATAGAAAAATTC-T
4758244 TTAAAAA
1 TTAAAAA
4758251 AATTAAATGT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
18 2 0.10
19 19 0.90
ACGTcount: A:0.64, C:0.04, G:0.07, T:0.24
Consensus pattern (19 bp):
TTAAAAATAGAAAAATTCT
Found at i:4761631 original size:30 final size:27
Alignment explanation
Indices: 4761563--4761631 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 27
4761553 GTCTTTTTTC
* *
4761563 TTTTTTGGTCACCCAAGTATCAATTTT
1 TTTTTTGGTCACCCAACTATCAATGTT
4761590 TTTAATTTGGTCACCCAACTAATCGATATGTT
1 TTT--TTTGGTCACCCAACT-ATC-A-ATGTT
4761622 TTTTTTGGTC
1 TTTTTTGGTC
4761632 CCTTTCTGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
27 3 0.09
29 14 0.40
30 10 0.29
31 1 0.03
32 7 0.20
ACGTcount: A:0.22, C:0.17, G:0.13, T:0.48
Consensus pattern (27 bp):
TTTTTTGGTCACCCAACTATCAATGTT
Found at i:4767572 original size:21 final size:21
Alignment explanation
Indices: 4767546--4767588 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
4767536 GGTTCGCTGT
* *
4767546 ATTGGATTAGCGGTGTATTGG
1 ATTGGATTAGAGGTGTAATGG
4767567 ATTGGATTAGAGGTGTAATGG
1 ATTGGATTAGAGGTGTAATGG
4767588 A
1 A
4767589 ATAGAGGTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.02, G:0.37, T:0.35
Consensus pattern (21 bp):
ATTGGATTAGAGGTGTAATGG
Found at i:4767588 original size:16 final size:16
Alignment explanation
Indices: 4767569--4767601 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
4767559 TGTATTGGAT
*
4767569 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
4767585 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
4767601 T
1 T
4767602 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:4767646 original size:45 final size:44
Alignment explanation
Indices: 4767580--4767674 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
4767570 GGATTAGAGG
* *
4767580 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
4767625 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
4767669 TGTAAT
1 TGTAAT
4767675 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:4767857 original size:18 final size:17
Alignment explanation
Indices: 4767836--4767870 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4767826 TTATTATTTA
*
4767836 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
4767854 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
4767871 TCTTAATAAT
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 (17 bp):
ATATAATTTAATAAAAT
Found at i:4767864 original size:28 final size:27
Alignment explanation
Indices: 4767794--4767866 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
4767784 TTTATTATCA
*
4767794 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
4767822 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
4767849 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
4767867 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:4767983 original size:144 final size:147
Alignment explanation
Indices: 4767755--4768026 Score: 487
Period size: 144 Copynumber: 1.9 Consensus size: 147
4767745 ATGATTATTG
4767755 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
*
4767820 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
64 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
4767885 AGAAATTTGTTTTGGTAAA
129 AGAAATTTGTTTTGGTAAA
*
4767904 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
4767966 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
4768027 ATATTCTTAT
Statistics
Matches: 121, Mismatches: 2, Indels: 5
0.95 0.02 0.04
Matches are distributed among these distances:
144 92 0.76
145 1 0.01
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAG
AAATTTGTTTTGGTAAA
Found at i:4768001 original size:18 final size:17
Alignment explanation
Indices: 4767980--4768014 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4767970 TTATTATTAA
*
4767980 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
4767998 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
4768015 TCTTAATAAT
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 (17 bp):
ATATAATTTAATAAAAT
Found at i:4768058 original size:54 final size:54
Alignment explanation
Indices: 4768000--4768178 Score: 128
Period size: 55 Copynumber: 3.1 Consensus size: 54
4767990 ATTAAAATAT
*
4768000 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
** * * * * *
4768054 ATAATATATGATACTGTAAAATAT-AAAATAACATAATTATTATTAAATAT-AATATAATTAAAA
1 ATAAT-T-T-A-A---TAAAAT-TCTTAATAA-TTAA-TATTCTT--ATATGAAT-TTACTCAAA
*
4768117 TAT
53 -AC
*
4768120 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
4768174 ATAAT
1 ATAAT
4768179 ATATGATTAT
Statistics
Matches: 91, Mismatches: 18, Indels: 32
0.65 0.13 0.23
Matches are distributed among these distances:
54 10 0.11
55 11 0.12
56 4 0.04
57 7 0.08
58 5 0.05
59 11 0.12
61 11 0.12
62 5 0.05
63 7 0.08
64 4 0.04
65 11 0.12
66 5 0.05
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (54 bp):
ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
Found at i:4768060 original size:61 final size:61
Alignment explanation
Indices: 4767995--4768182 Score: 190
Period size: 61 Copynumber: 3.1 Consensus size: 61
4767985 TTTTAATTAA
*
4767995 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * * *
4768056 AATATATGATACT-GTAAAA-T-ATAA-AATAACATAATTATTAT-TAAATATAAT-ATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAATAATTA-AT-ATTCTTATATGAATTTACTCA-AATCAT
4768115 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
4768176 AATATAT
1 AATATAT
4768183 GATTATAACT
Statistics
Matches: 94, Mismatches: 23, Indels: 20
0.69 0.17 0.15
Matches are distributed among these distances:
58 6 0.06
59 29 0.31
60 16 0.17
61 37 0.39
62 6 0.06
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:4768093 original size:120 final size:120
Alignment explanation
Indices: 4767963--4768185 Score: 419
Period size: 120 Copynumber: 1.9 Consensus size: 120
4767953 ATCATATTTA
* *
4767963 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
4768028 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
4768083 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
4768148 TATTCTTATATGAATTTACTCAAATCATAATATATGAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGAT
4768186 TATAACTAAT
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 100 1.00
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
Found at i:4768121 original size:18 final size:17
Alignment explanation
Indices: 4768100--4768134 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4768090 TTATTATTAA
4768100 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
4768118 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
4768135 TCTTAATAAT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:4768197 original size:17 final size:16
Alignment explanation
Indices: 4768175--4768221 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
4768165 ACTCAAATCA
4768175 TAATATATGATTATAAC
1 TAATATATGATT-TAAC
*
4768192 T-A-ATATGATTTAAT
1 TAATATATGATTTAAC
4768206 TAAATATATGATTTAA
1 T-AATATATGATTTAA
4768222 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 4 0.15
15 8 0.31
16 2 0.08
17 12 0.46
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (16 bp):
TAATATATGATTTAAC
Found at i:4768222 original size:17 final size:17
Alignment explanation
Indices: 4768194--4768227 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4768184 ATTATAACTA
*
4768194 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
4768211 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
4768228 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:4768370 original size:93 final size:92
Alignment explanation
Indices: 4768260--4768454 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
4768250 GATTATAGTT
* * *
4768260 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTAT-ATAATAATATATAATTTC
* *
4768323 ATAAAATTCTTGATAATAAAAATTTTCTTA
64 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
4768353 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
4768418 AAAATTCTTAATAATAAAATGTTCTTA
66 AAAATTCTTAATAATAAAATGTTCTTA
4768445 TATGAATTTA
1 TATGAATTTA
4768455 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 21 0.23
93 68 0.73
94 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGTTCTTA
Found at i:4769869 original size:11 final size:11
Alignment explanation
Indices: 4769855--4769881 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
4769845 AAAAATCAAT
4769855 ACAAAAGTTTC
1 ACAAAAGTTTC
4769866 ACAAAAGTTTC
1 ACAAAAGTTTC
4769877 ACAAA
1 ACAAA
4769882 CTAATTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (11 bp):
ACAAAAGTTTC
Found at i:4782612 original size:3 final size:3
Alignment explanation
Indices: 4782604--4782632 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
4782594 AGCAAGATTA
4782604 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
4782633 AGTAGATAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:4789270 original size:21 final size:21
Alignment explanation
Indices: 4789246--4789307 Score: 101
Period size: 21 Copynumber: 3.0 Consensus size: 21
4789236 TTTTTGAGGG
4789246 TATGTAATCTTAGATATGATA
1 TATGTAATCTTAGATATGATA
*
4789267 TATGCAATCTTAGATATGATA
1 TATGTAATCTTAGATATGATA
4789288 TA--TAATCTTAGATATGATA
1 TATGTAATCTTAGATATGATA
4789307 T
1 T
4789308 GCAATCTTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
19 17 0.44
21 22 0.56
ACGTcount: A:0.39, C:0.06, G:0.13, T:0.42
Consensus pattern (21 bp):
TATGTAATCTTAGATATGATA
Found at i:4789313 original size:19 final size:19
Alignment explanation
Indices: 4789246--4789316 Score: 97
Period size: 19 Copynumber: 3.6 Consensus size: 19
4789236 TTTTTGAGGG
*
4789246 TATGTAATCTTAGATATGATA
1 TATGCAATCTTAGATATG--A
4789267 TATGCAATCTTAGATATGA
1 TATGCAATCTTAGATATGA
**
4789286 TATATAATCTTAGATATGA
1 TATGCAATCTTAGATATGA
4789305 TATGCAATCTTA
1 TATGCAATCTTA
4789317 AAATATATGA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
19 28 0.62
21 17 0.38
ACGTcount: A:0.38, C:0.08, G:0.13, T:0.41
Consensus pattern (19 bp):
TATGCAATCTTAGATATGA
Found at i:4789656 original size:13 final size:13
Alignment explanation
Indices: 4789640--4789665 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4789630 GTAATTAAGT
4789640 TTTTTATTTTTTA
1 TTTTTATTTTTTA
4789653 TTTTTATTTTTTA
1 TTTTTATTTTTTA
4789666 CCCTTTTATT
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:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:4790118 original size:24 final size:26
Alignment explanation
Indices: 4790076--4790132 Score: 75
Period size: 24 Copynumber: 2.3 Consensus size: 26
4790066 TATGTACATG
4790076 TATATTATTTTAAACGAATATTTTCC
1 TATATTATTTTAAACGAATATTTTCC
* *
4790102 TATATT-TTTT-AATGAATATTTTCA
1 TATATTATTTTAAACGAATATTTTCC
4790126 TAT-TTAT
1 TATATTAT
4790133 ATGTATATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 2 0.07
24 16 0.57
25 4 0.14
26 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (26 bp):
TATATTATTTTAAACGAATATTTTCC
Found at i:4790917 original size:98 final size:98
Alignment explanation
Indices: 4790797--4790993 Score: 358
Period size: 98 Copynumber: 2.0 Consensus size: 98
4790787 AAAAAAATAA
* *
4790797 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
4790862 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
*
4790895 TAAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
*
4790960 TTAAATCTTGGATGAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
4790993 T
1 T
4790994 TTTATTGTAC
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.27, C:0.10, G:0.25, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:4795022 original size:90 final size:90
Alignment explanation
Indices: 4794910--4795090 Score: 353
Period size: 90 Copynumber: 2.0 Consensus size: 90
4794900 GTCCGCACTA
*
4794910 GAGAACTCCTTGAGAGGGACCTGGTATTGAAGAGGATCTTTCCCATACAAAAAGAATTTTATCCA
1 GAGAACTCCTTGAGAGAGACCTGGTATTGAAGAGGATCTTTCCCATACAAAAAGAATTTTATCCA
4794975 AGTTGAGAAGGACCTTATATTGAGG
66 AGTTGAGAAGGACCTTATATTGAGG
4795000 GAGAACTCCTTGAGAGAGACCTGGTATTGAAGAGGATCTTTCCCATACAAAAAGAATTTTATCCA
1 GAGAACTCCTTGAGAGAGACCTGGTATTGAAGAGGATCTTTCCCATACAAAAAGAATTTTATCCA
4795065 AGTTGAGAAGGACCTTATATTGAGG
66 AGTTGAGAAGGACCTTATATTGAGG
4795090 G
1 G
4795091 CCTTATCTGG
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 90 1.00
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (90 bp):
GAGAACTCCTTGAGAGAGACCTGGTATTGAAGAGGATCTTTCCCATACAAAAAGAATTTTATCCA
AGTTGAGAAGGACCTTATATTGAGG
Found at i:4796926 original size:5 final size:6
Alignment explanation
Indices: 4796911--4796944 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
4796901 TAAGAGTGAT
4796911 AAAAAG AAAAAG AAAAAG AAAAAG -AAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
4796945 TGGAGAGGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:4796932 original size:18 final size:17
Alignment explanation
Indices: 4796911--4796944 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
4796901 TAAGAGTGAT
4796911 AAAAAGAAAAAGAAAAAG
1 AAAAAG-AAAAGAAAAAG
4796929 AAAAAGAAAAGAAAAA
1 AAAAAGAAAAGAAAAA
4796945 TGGAGAGGCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAAGAAAAAG
Found at i:4797967 original size:44 final size:44
Alignment explanation
Indices: 4797892--4798569 Score: 176
Period size: 44 Copynumber: 15.6 Consensus size: 44
4797882 CCAAGCCTCG
* * * *
4797892 TCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTGTAGATCTTA
* ** *
4797936 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAG-CGAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTGTAG-ATCTTA
* * ** * *
4797980 TCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAG-CCGCCA-AGTCTTG
1 TC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGATTG-TAGA-TCTTA
* * * * * *
4798024 TCTCCCTGAA-CAGCAGCGGAGAAGGTTGAAAATTATAGATCTTA
1 TCTCCCT-AAGCAGTAGTGGAGCAGATTGAAGATTGTAGATCTTA
* * **
4798068 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-CGGCGAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTGTAG-ATCTTA
* * * * * ***** *
4798112 TATTCCTGAG-A-TAGTAGGAAGCATATTTAAGCCACCAG-TCCTA
1 TCTCCCTAAGCAGTAGT-GG-AGCAGATTGAAGATTGTAGATCTTA
* * * * * * *
4798155 TCTCTCTGAGCAGTAGTGGAGTAGGTTAAAGATTGTATATCTTG
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTGTAGATCTTA
* * * *
4798199 TCTCCCTAAGCAGAAGTGGAGCAGA-T---CA---CAG-CCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTGTAGATCTTA
* * * * *
4798235 TCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTATAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTGTAGATCTTA
* **
4798279 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGT-GAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTGTAG-ATCTTA
* * * *** * *
4798323 TATTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCA-CCAAG-CCTTG
1 T-CTCCCTAAGCAGTAGT-GG-AGCAGATTGAAG--ATTGTAGATCTTA
* * * * * *
4798367 TCTCCCTGAGCAGCAGCGGAGAAGGTTGAAAATTGTAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTGTAGATCTTA
* ** * *
4798411 TCTCCCTAAGCAGTAGTGGAGCAGATCGAA-AACGACAAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTG-TAGATCTTA
* * * * * * *
4798455 TCTTTCC-AAG-A-TAGTGGGAAGTAGATTTAAGCCACT-AAG-CCTTG
1 TC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAG--ATTGTAGATCTTA
* * * * *
4798499 TTTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTGTAGATCTTA
4798543 TCTCCCTAAGCAGTAGTGGAGCAGATT
1 TCTCCCTAAGCAGTAGTGGAGCAGATT
4798570 AAAGTCGACA
Statistics
Matches: 435, Mismatches: 146, Indels: 106
0.63 0.21 0.15
Matches are distributed among these distances:
36 24 0.06
37 2 0.00
40 2 0.00
42 19 0.04
43 58 0.13
44 293 0.67
45 27 0.06
46 9 0.02
47 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (44 bp):
TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTGTAGATCTTA
Found at i:4798045 original size:132 final size:132
Alignment explanation
Indices: 4797782--4798225 Score: 624
Period size: 132 Copynumber: 3.3 Consensus size: 132
4797772 AACAGATCAG
*
4797782 TGAAAATTGTAGATCTTATCTCCTTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGAATCTT
1 TGAAAATTGTAGATCTTA--T-C-TCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTT
* *
4797847 ATCTTTCCAAGATAGTAGGAAGCAGATTTAAGCCACCAAGCCTCGTCTCCCTGAGCAGCAGTGGA
62 ATCTTTCCAAGATAGTAGGAAGCAGATTTAAGCCACCAAGTCTTGTCTCCCTGAGCAGCAGTGGA
4797912 GAAGGT
127 GAAGGT
* *
4797918 TGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCGAATCTTATCT
1 TGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCT
* * * *
4797983 TTCCAAGATAGTGGGAAGCAGATTTAAGCCGCCAAGTCTTGTCTCCCTGAACAGCAGCGGAGAAG
66 TTCCAAGATAGTAGGAAGCAGATTTAAGCCACCAAGTCTTGTCTCCCTGAGCAGCAGTGGAGAAG
4798048 GT
131 GT
* *
4798050 TGAAAATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTAT-A
1 TGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCT
* * * * * * *
4798114 TTCCTGAGATAGTAGGAAGCATATTTAAGCCACC-AGTCCTATCTCTCTGAGCAGTAGTGGAGTA
66 TTCC-AAGATAGTAGGAAGCAGATTTAAGCCACCAAGTCTTGTCTCCCTGAGCAGCAGTGGAGAA
4798178 GGT
130 GGT
* * *
4798181 T-AAAGATTGTATATCTTGTCTCCCTAAGCAGAAGTGGAGCAGATC
1 TGAAA-ATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
4798226 ACAGCCTTAT
Statistics
Matches: 278, Mismatches: 28, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
130 3 0.01
131 67 0.24
132 189 0.68
133 1 0.00
134 1 0.00
136 17 0.06
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (132 bp):
TGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCT
TTCCAAGATAGTAGGAAGCAGATTTAAGCCACCAAGTCTTGTCTCCCTGAGCAGCAGTGGAGAAG
GT
Found at i:4798253 original size:80 final size:80
Alignment explanation
Indices: 4798153--4798305 Score: 234
Period size: 80 Copynumber: 1.9 Consensus size: 80
4798143 CCACCAGTCC
* * * * * *
4798153 TATCTCTCTGAGCAGTAGTGGAGTAGGTTAAAGATTGTATATCTTGTCTCCCTAAGCAGAAGTGG
1 TATCTCCCTGAGCAGCAGTGGAGAAGGTTAAAGATTATAGATCTTATCTCCCTAAGCAGAAGTGG
4798218 AGCAGATCACAGCCT
66 AGCAGATCACAGCCT
* *
4798233 TATCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTATAGATCTTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTGAGCAGCAGTGGAGAAGGTTAAAGATTATAGATCTTATCTCCCTAAGCAGAAGTGG
4798298 AGCAGATC
66 AGCAGATC
4798306 GAAGACGGTG
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
80 65 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.27
Consensus pattern (80 bp):
TATCTCCCTGAGCAGCAGTGGAGAAGGTTAAAGATTATAGATCTTATCTCCCTAAGCAGAAGTGG
AGCAGATCACAGCCT
Found at i:4798272 original size:211 final size:212
Alignment explanation
Indices: 4798024--4798437 Score: 638
Period size: 211 Copynumber: 2.0 Consensus size: 212
4798014 CCAAGTCTTG
4798024 TCTCCCTGAACAGCAGCGGAGAAGGTTGAAAATTATAGATCTTATCTCCCTAAGCAGTAGTGGAG
1 TCTCCCTGAACAGCAGCGGAGAAGGTTGAAAATTATAGATCTTATCTCCCTAAGCAGTAGTGGAG
* *
4798089 CAGATCGAAGACGGCGAATCTTATA-TTCCTGAGATAGTAGGAAGCATATTTAAGCCACC-AGTC
66 CAGATCGAAGACGGCGAATCTTATATTTCC-AAGATAGTAGGAAGCAGATTTAAGCCACCAAG-C
* * * * * *
4798152 C-TATCTCTCTGAGCAGTAGTGGAGTAGGTT-AAAGATTGTATATCTTGTCTCCCTAAGCAGAAG
129 CTTATCTCCCTGAGCAGCAGCGGAGAAGGTTGAAA-ATTGTAGATCTTATCTCCCTAAGCAGAAG
4798215 TGGAGCAGATCACAGCCTTA
193 TGGAGCAGATCACAGCCTTA
* * *
4798235 TCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAG
1 TCTCCCTGAACAGCAGCGGAGAAGGTTGAAAATTATAGATCTTATCTCCCTAAGCAGTAGTGGAG
* *
4798300 CAGATCGAAGACGGTGAATCTTATATTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCT
66 CAGATCGAAGACGGCGAATCTTATATTTCCAAGATAGTAGGAAGCAGATTTAAGCCACCAAGCCT
* *
4798365 TGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGG
131 TATCTCCCTGAGCAGCAGCGGAGAAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGAAGTGG
4798430 AGCAGATC
196 AGCAGATC
4798438 GAAAACGACA
Statistics
Matches: 184, Mismatches: 15, Indels: 7
0.89 0.07 0.03
Matches are distributed among these distances:
211 114 0.62
212 67 0.36
213 3 0.02
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (212 bp):
TCTCCCTGAACAGCAGCGGAGAAGGTTGAAAATTATAGATCTTATCTCCCTAAGCAGTAGTGGAG
CAGATCGAAGACGGCGAATCTTATATTTCCAAGATAGTAGGAAGCAGATTTAAGCCACCAAGCCT
TATCTCCCTGAGCAGCAGCGGAGAAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGAAGTGG
AGCAGATCACAGCCTTA
Found at i:4798392 original size:132 final size:132
Alignment explanation
Indices: 4798228--4798568 Score: 565
Period size: 132 Copynumber: 2.6 Consensus size: 132
4798218 AGCAGATCAC
* *
4798228 AGCCTTATCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTATAGATCTTATCTCCCTAAGCAGT
1 AGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGT
* ***
4798293 AGTGGAGCAGATCGAAGACGGTGAATCTTATATTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
66 AGTGGAGCAGATCGAAAACGACAAATCTTATATTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
4798358 CA
131 CA
* *
4798360 AGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGT
1 AGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGT
* *
4798425 AGTGGAGCAGATCGAAAACGACAAATCTTATCTTTCCAAGATAGTGGGAAGTAGATTTAAGCCAC
66 AGTGGAGCAGATCGAAAACGACAAATCTTATATTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
*
4798490 TA
131 CA
* *
4798492 AGCCTTGTTTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGT
1 AGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGT
4798557 AGTGGAGCAGAT
66 AGTGGAGCAGAT
4798569 TAAAGTCGAC
Statistics
Matches: 194, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 194 1.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (132 bp):
AGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGATCGAAAACGACAAATCTTATATTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
CA
Found at i:4798605 original size:44 final size:43
Alignment explanation
Indices: 4798557--4799131 Score: 274
Period size: 44 Copynumber: 13.3 Consensus size: 43
4798547 CCTAAGCAGT
*
4798557 AGTGGAGCAGATTAAAGTCGACAATCCTATCTTCCTGAAGTTGC
1 AGTGGAGCAGATTAAAGTC-ACAATCTTATCTTCCTGAAGTTGC
* * *
4798601 AGTGGAGCGGATTAAAATCACAGATCTTATC-CCTCTGAAGTTGC
1 AGTGGAGCAGATTAAAGTCACA-ATCTTATCTTC-CTGAAGTTGC
* *** * * *
4798645 AG-AGAGCAGATCGCA-TC-TAGTCTTATCTCCCTGAAGTTGC
1 AGTGGAGCAGATTAAAGTCACAATCTTATCTTCCTGAAGTTGC
* * * *
4798685 AGTGGAGCAGACT-AAGTAAGCAAGTCTTATCCTT-CTAAAGTTAC
1 AGTGGAGCAGATTAAAGTCA-CAA-TCTTAT-CTTCCTGAAGTTGC
* * *
4798729 AGT-GAGGCAGACTGAAGATGACAAATCTTATCTTCCTGAAGTTGC
1 AGTGGA-GCAGATTAAAG-TCAC-AATCTTATCTTCCTGAAGTTGC
* * *
4798774 AGTGGAGCAGATTAAAGCTGACAATCCTATCTCCCTGAAGTTGC
1 AGTGGAGCAGATTAAAG-TCACAATCTTATCTTCCTGAAGTTGC
* * * * *
4798818 AGTAGAGCGGATTTAAA-TTACAGATCTTATC-TCTCTGAACTTAC
1 AGTGGAGCAGA-TTAAAGTCACA-ATCTTATCTTC-CTGAAGTTGC
*** * * *
4798862 AGAT--AGCAGATCGCA-TC-TAGTCTTATCTCCCTGAAGTTGC
1 AG-TGGAGCAGATTAAAGTCACAATCTTATCTTCCTGAAGTTGC
* * * *
4798902 AGTGGAGCAGATTAAAGCCGATAATCCTATC-TCCTTGACGTTGC
1 AGTGGAGCAGATTAAAGTC-ACAATCTTATCTTCC-TGAAGTTGC
* * *
4798946 AGTAGAGCGGATTAAAATCACAGATCTTATC-TCTCTGAAGTTGC
1 AGTGGAGCAGATTAAAGTCACA-ATCTTATCTTC-CTGAAGTTGC
* *** * * *
4798990 AG-AGAGCAGATCGCA-TC-TAGTCTTATCTCCCTGAAGTTGC
1 AGTGGAGCAGATTAAAGTCACAATCTTATCTTCCTGAAGTTGC
* * * *
4799030 AGTGAAGCAGACTAAGGAAGT-A-AGTCTTATCCTCCTGAAGTTGC
1 AGTGGAGCAGA-TTA--AAGTCACAATCTTATCTTCCTGAAGTTGC
* * ** * *
4799074 AGT-GAGGCAGACTGAAGATGGCAAGTCTTATCTCCCTAAAGTTGC
1 AGTGGA-GCAGATTAAAG-TCACAA-TCTTATCTTCCTGAAGTTGC
*
4799119 AGTGGAGTAGATT
1 AGTGGAGCAGATT
4799132 GAAGCACTAA
Statistics
Matches: 404, Mismatches: 86, Indels: 81
0.71 0.15 0.14
Matches are distributed among these distances:
39 1 0.00
40 56 0.14
41 32 0.08
42 10 0.02
43 39 0.10
44 189 0.47
45 69 0.17
46 8 0.02
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (43 bp):
AGTGGAGCAGATTAAAGTCACAATCTTATCTTCCTGAAGTTGC
Found at i:4798915 original size:128 final size:128
Alignment explanation
Indices: 4798754--4799040 Score: 475
Period size: 128 Copynumber: 2.2 Consensus size: 128
4798744 AGATGACAAA
* *
4798754 TCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCTGACAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCA
* * *
4798819 GTAGAGCGGATTTAAATTACAGATCTTATCTCTCTGAACTTACAGATAGCAGATCGCATCTAG
66 GTAGAGCGGATTAAAATCACAGATCTTATCTCTCTGAACTTACAGAGAGCAGATCGCATCTAG
* * *
4798882 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCTTGACGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCA
* *
4798947 GTAGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAG
66 GTAGAGCGGATTAAAATCACAGATCTTATCTCTCTGAACTTACAGAGAGCAGATCGCATCTAG
*
4799010 TCTTATCTCCCTGAAGTTGCAGTGAAGCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
4799041 CTAAGGAAGT
Statistics
Matches: 148, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
128 148 1.00
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (128 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCA
GTAGAGCGGATTAAAATCACAGATCTTATCTCTCTGAACTTACAGAGAGCAGATCGCATCTAG
Found at i:4799073 original size:128 final size:126
Alignment explanation
Indices: 4798754--4799076 Score: 457
Period size: 128 Copynumber: 2.5 Consensus size: 126
4798744 AGATGACAAA
* * *
4798754 TCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCTGACAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAG-TAATCCTATCT-CCTGAAGTTGCA
* * *
4798819 GTAGAGCGGATTTAAATTACAGATCTTATCTCTCTGAACTTACAGATAGCAGATCGCATCTAG
64 GTAGAGCGGATTAAAATCACAGATCTTATCTCTCTGAACTTACAGAGAGCAGATCGCATCTAG
* *
4798882 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCTTGACGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAG-TAATCCTATCTCC-TGAAGTTGCA
* *
4798947 GTAGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAG
64 GTAGAGCGGATTAAAATCACAGATCTTATCTCTCTGAACTTACAGAGAGCAGATCGCATCTAG
* * * * *
4799010 TCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAGGAAGTAAGTCTTATCCTCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAGTAA-TCCTAT-CTCCTGAAGTTGCA
4799075 GT
64 GT
4799077 GAGGCAGACT
Statistics
Matches: 176, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
127 5 0.03
128 167 0.95
129 4 0.02
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (126 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAGTAATCCTATCTCCTGAAGTTGCAGT
AGAGCGGATTAAAATCACAGATCTTATCTCTCTGAACTTACAGAGAGCAGATCGCATCTAG
Found at i:4818250 original size:44 final size:44
Alignment explanation
Indices: 4818189--4818279 Score: 130
Period size: 44 Copynumber: 2.1 Consensus size: 44
4818179 NNNCATTGGT
* *
4818189 CAGCAGTGGAATAGGTTGAAGATTGT-GAATCCTATCTCCCTGAG
1 CAGCAGTAGAATAGGTTGAAGATTGTAG-ATCCTATCTCCCTAAG
* *
4818233 CAGCAGTAGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAG
1 CAGCAGTAGAATAGGTTGAAGATTGTAGATCCTATCTCCCTAAG
4818277 CAG
1 CAG
4818280 TAGTGGAGCA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 41 0.98
45 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.26
Consensus pattern (44 bp):
CAGCAGTAGAATAGGTTGAAGATTGTAGATCCTATCTCCCTAAG
Found at i:4818298 original size:44 final size:44
Alignment explanation
Indices: 4818206--4818307 Score: 107
Period size: 44 Copynumber: 2.3 Consensus size: 44
4818196 GGAATAGGTT
* * * *
4818206 GAAGATTGTGAATCCTATCTCCCTGAGCAGCAGTAGAGTAGGTT
1 GAAGATTGTGAATCCTATCTCCCTAAGCAGCAGTAGAGCAGATC
* * *
4818250 GAAGATTGT-AGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATC
1 GAAGATTGTGA-ATCCTATCTCCCTAAGCAGCAGTAGAGCAGATC
**
4818294 GAAGACGGTGAATC
1 GAAGATTGTGAATC
4818308 TTATATTTCC
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
43 1 0.02
44 45 0.96
45 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (44 bp):
GAAGATTGTGAATCCTATCTCCCTAAGCAGCAGTAGAGCAGATC
Found at i:4818460 original size:132 final size:130
Alignment explanation
Indices: 4818223--4818635 Score: 595
Period size: 132 Copynumber: 3.2 Consensus size: 130
4818213 GTGAATCCTA
** * *
4818223 TCTCCCTGAGCAGCAGTAGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAG
1 TCTCCCTGAGCAGCAGCGGAGAAGGTTGAA-ATTGTAGATCCTATCTCCCTAAGCAGTAGTGGAG
* *
4818288 CAGATCGAAGACGGTGAATCTTATATTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCT
65 CAGATCGAAGACGG-CAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCT
4818353 TG
129 TG
*
4818355 TCTCCCTGAGCAGCAGCGGAGAAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAG
1 TCTCCCTGAGCAGCAGCGGAGAAGGTTG-AAATTGTAGATCCTATCTCCCTAAGCAGTAGTGGAG
* * *
4818420 CAGATCAAAGACGGCAAGTCTTATCTTTCCAAGATAGTGGGAAGCAGTTTTAAGCCACAAAGCCT
65 CAGATCGAAGACGGCAA-TCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCT
4818485 TG
129 TG
* *
4818487 TCTCCTTGAGCAGCAGCGGAGGA-G--G---TTGTAGATCCTATCTCCCTAAGCAGTAGTGGAGC
1 TCTCCCTGAGCAGCAGCGGAGAAGGTTGAAATTGTAGATCCTATCTCCCTAAGCAGTAGTGGAGC
* * * *
4818546 AAATCGAAGACGACAAATCTTATCTTTCTAAGATAGTAGGAAGCAGATTTAAGCCACCAAGCCTT
66 AGATCGAAGACGGC-AATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTT
4818611 G
130 G
4818612 TCTCCCTGAGCAGCAGCGGAGAAG
1 TCTCCCTGAGCAGCAGCGGAGAAG
4818636 AGTAAGTAAG
Statistics
Matches: 255, Mismatches: 22, Indels: 14
0.88 0.08 0.05
Matches are distributed among these distances:
125 110 0.43
126 2 0.01
129 1 0.00
131 3 0.01
132 137 0.54
133 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.24
Consensus pattern (130 bp):
TCTCCCTGAGCAGCAGCGGAGAAGGTTGAAATTGTAGATCCTATCTCCCTAAGCAGTAGTGGAGC
AGATCGAAGACGGCAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTG
Found at i:4818758 original size:44 final size:44
Alignment explanation
Indices: 4818688--4819077 Score: 216
Period size: 44 Copynumber: 9.0 Consensus size: 44
4818678 AGACTGAAGA
*
4818688 TGACAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGC
1 TGAC-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC
* * *
4818733 TGACAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTTAAA--
1 TGACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAGC
* * * * *** *
4818776 TTACAGATCTTATCTCTCTGAACTTACAGAT--AGCAGATCGCATC
1 TGACA-ATCTTATCTCCCTGAAGTTGCAG-TGGAGCAGATTAAAGC
*
4818820 T---AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC
1 TGACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC
* * * * * * * *
4818861 CGATAATCCTATCTCCTTGACGTTGCAGTAGAGCGGATTAAA-A
1 TGACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC
* * * *** *
4818904 TCACAGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATCGCATC
1 TGACA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC
* * * * *
4818948 T---AGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAGGA
1 TGACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC
* * * * *
4818989 AGTA-AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGA
1 TG-ACAATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGATTAAAGC
* * * *
4819033 TGGCAAGTCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAGC
1 TGACAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC
4819078 ACTAATTCCT
Statistics
Matches: 260, Mismatches: 63, Indels: 44
0.71 0.17 0.12
Matches are distributed among these distances:
39 1 0.00
40 40 0.15
41 17 0.07
42 2 0.01
43 22 0.08
44 136 0.52
45 39 0.15
46 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (44 bp):
TGACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC
Found at i:4818844 original size:128 final size:128
Alignment explanation
Indices: 4818695--4818981 Score: 475
Period size: 128 Copynumber: 2.2 Consensus size: 128
4818685 AGATGACAAA
* *
4818695 TCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCTGACAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCA
* * *
4818760 GTAGAGCGGATTTAAATTACAGATCTTATCTCTCTGAACTTACAGATAGCAGATCGCATCTAG
66 GTAGAGCGGATTAAAATCACAGATCTTATCTCTCTGAACTTACAGAGAGCAGATCGCATCTAG
* * *
4818823 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCTTGACGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCA
* *
4818888 GTAGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAG
66 GTAGAGCGGATTAAAATCACAGATCTTATCTCTCTGAACTTACAGAGAGCAGATCGCATCTAG
*
4818951 TCTTATCTCCCTGAAGTTGCAGTGAAGCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
4818982 CTAAGGAAGT
Statistics
Matches: 148, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
128 148 1.00
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (128 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCA
GTAGAGCGGATTAAAATCACAGATCTTATCTCTCTGAACTTACAGAGAGCAGATCGCATCTAG
Found at i:4819014 original size:128 final size:126
Alignment explanation
Indices: 4818695--4819017 Score: 457
Period size: 128 Copynumber: 2.5 Consensus size: 126
4818685 AGATGACAAA
* * *
4818695 TCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCTGACAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAG-TAATCCTATCT-CCTGAAGTTGCA
* * *
4818760 GTAGAGCGGATTTAAATTACAGATCTTATCTCTCTGAACTTACAGATAGCAGATCGCATCTAG
64 GTAGAGCGGATTAAAATCACAGATCTTATCTCTCTGAACTTACAGAGAGCAGATCGCATCTAG
* *
4818823 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCTTGACGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAG-TAATCCTATCTCC-TGAAGTTGCA
* *
4818888 GTAGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAG
64 GTAGAGCGGATTAAAATCACAGATCTTATCTCTCTGAACTTACAGAGAGCAGATCGCATCTAG
* * * * *
4818951 TCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAGGAAGTAAGTCTTATCCTCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAGTAA-TCCTAT-CTCCTGAAGTTGCA
4819016 GT
64 GT
4819018 GAGGCAGACT
Statistics
Matches: 176, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
127 5 0.03
128 167 0.95
129 4 0.02
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (126 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAGTAATCCTATCTCCTGAAGTTGCAGT
AGAGCGGATTAAAATCACAGATCTTATCTCTCTGAACTTACAGAGAGCAGATCGCATCTAG
Found at i:4819330 original size:21 final size:19
Alignment explanation
Indices: 4819280--4819352 Score: 110
Period size: 19 Copynumber: 3.7 Consensus size: 19
4819270 AATTTTTGAG
*
4819280 GATATGCAATCTTCGATAT
1 GATATGCAATCTTAGATAT
*
4819299 GATATGAAATCTTAGATAT
1 GATATGCAATCTTAGATAT
4819318 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
4819339 GATATGCAATCTTA
1 GATATGCAATCTTA
4819353 AAATATATGA
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 31 0.63
21 18 0.37
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:4820139 original size:25 final size:26
Alignment explanation
Indices: 4820096--4820145 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
4820086 TATGTACATG
4820096 TATATTTTTTTAAACGAATATTTTCC
1 TATATTTTTTTAAACGAATATTTTCC
*
4820122 TATATTTTTTT-AATGAATATTTTC
1 TATATTTTTTTAAACGAATATTTTC
4820146 ATATTTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 12 0.52
26 11 0.48
ACGTcount: A:0.30, C:0.08, G:0.04, T:0.58
Consensus pattern (26 bp):
TATATTTTTTTAAACGAATATTTTCC
Found at i:4821266 original size:31 final size:29
Alignment explanation
Indices: 4821231--4821311 Score: 81
Period size: 31 Copynumber: 2.7 Consensus size: 29
4821221 AATCTTAAAA
* ***
4821231 TTATACATTAATTTTAATTTAATGTGTTATT
1 TTATATATTAATTTTAATTT--TGTACAATT
* *
4821262 TTATATATAAATTTTGATTTTGTACAATT
1 TTATATATTAATTTTAATTTTGTACAATT
4821291 TTATATATTAAATTTTAATTT
1 TTATATATT-AATTTTAATTT
4821312 GATCTAATTC
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
29 14 0.34
30 10 0.24
31 17 0.41
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (29 bp):
TTATATATTAATTTTAATTTTGTACAATT
Found at i:4836725 original size:14 final size:15
Alignment explanation
Indices: 4836701--4836729 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4836691 AGCACAATGT
4836701 AAATCATTTTTTAAA
1 AAATCATTTTTTAAA
4836716 AAAT-ATTTTTTAAA
1 AAATCATTTTTTAAA
4836730 TTGATTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (15 bp):
AAATCATTTTTTAAA
Found at i:4836745 original size:21 final size:20
Alignment explanation
Indices: 4836719--4836778 Score: 68
Period size: 19 Copynumber: 3.0 Consensus size: 20
4836709 TTTTAAAAAA
4836719 TATTTTTTAAATTGATTTTTT
1 TATTTTTTAAATT-ATTTTTT
* * *
4836740 TATTTTCTGAA-TATTTTTA
1 TATTTTTTAAATTATTTTTT
*
4836759 TAGTTTTTAAATTATTTTTT
1 TATTTTTTAAATTATTTTTT
4836779 GATGTGACAT
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
19 14 0.45
20 8 0.26
21 9 0.29
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.68
Consensus pattern (20 bp):
TATTTTTTAAATTATTTTTT
Found at i:4839575 original size:21 final size:21
Alignment explanation
Indices: 4839537--4839581 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
4839527 AGAGAAACAT
4839537 AAAATAGAGAAAACAAATATG
1 AAAATAGAGAAAACAAATATG
*
4839558 AAAATGGA-AAAACAAA-AT-
1 AAAATAGAGAAAACAAATATG
4839576 AAAATA
1 AAAATA
4839582 AAAACTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 5 0.23
19 2 0.09
20 8 0.36
21 7 0.32
ACGTcount: A:0.71, C:0.04, G:0.11, T:0.13
Consensus pattern (21 bp):
AAAATAGAGAAAACAAATATG
Found at i:4845293 original size:94 final size:94
Alignment explanation
Indices: 4845127--4845312 Score: 354
Period size: 94 Copynumber: 2.0 Consensus size: 94
4845117 GTGGAGAAAG
*
4845127 CATTAAAGGATGCAAATTGGTCAAGCCCATAATGCTTCATTTGTTTTTCTTTTTGGACCACTAAA
1 CATTAAAGGATGCAAATTGGTCAAGCCCATAATGCTTCATTTGTTTTTCTTTTTAGACCACTAAA
4845192 CTCCTTTTACATATGAAAAGTCAAATTAT
66 CTCCTTTTACATATGAAAAGTCAAATTAT
*
4845221 CATTGAAGGATGCAAATTGGTCAAGCCCATAATGCTTCATTTGTTTTTCTTTTTAGACCACTAAA
1 CATTAAAGGATGCAAATTGGTCAAGCCCATAATGCTTCATTTGTTTTTCTTTTTAGACCACTAAA
4845286 CTCCTTTTACATATGAAAAGTCAAATT
66 CTCCTTTTACATATGAAAAGTCAAATT
4845313 GACTTGATTA
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
94 90 1.00
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (94 bp):
CATTAAAGGATGCAAATTGGTCAAGCCCATAATGCTTCATTTGTTTTTCTTTTTAGACCACTAAA
CTCCTTTTACATATGAAAAGTCAAATTAT
Found at i:4850169 original size:23 final size:23
Alignment explanation
Indices: 4850127--4850199 Score: 74
Period size: 23 Copynumber: 3.2 Consensus size: 23
4850117 TTGGTGGGAG
**
4850127 CATTTTGACACTTCAATGCAATT
1 CATTTTGACACTTCGGTGCAATT
*
4850150 CATTTTGACACTTTGGTGCAATT
1 CATTTTGACACTTCGGTGCAATT
* * ** *
4850173 TATTCTGGTACTACGGTGCAATT
1 CATTTTGACACTTCGGTGCAATT
4850196 CATT
1 CATT
4850200 CTAGCACTTC
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.41
Consensus pattern (23 bp):
CATTTTGACACTTCGGTGCAATT
Found at i:4850214 original size:23 final size:23
Alignment explanation
Indices: 4850135--4850224 Score: 67
Period size: 23 Copynumber: 3.9 Consensus size: 23
4850125 AGCATTTTGA
* *
4850135 CACTTCAATGCAATTCATT-TTG
1 CACTTCAGTGCAATTCATTCTAG
** * *
4850157 ACACTTTGGTGCAATTTATTCTGG
1 -CACTTCAGTGCAATTCATTCTAG
* * *
4850181 TACTACGGTGCAATTCATTCTAG
1 CACTTCAGTGCAATTCATTCTAG
4850204 CACTTCAGTGC-ATTACATTCT
1 CACTTCAGTGCAATT-CATTCT
4850225 GTGGAATGTA
Statistics
Matches: 52, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
22 3 0.06
23 47 0.90
24 2 0.04
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.39
Consensus pattern (23 bp):
CACTTCAGTGCAATTCATTCTAG
Found at i:4851091 original size:21 final size:21
Alignment explanation
Indices: 4851067--4851172 Score: 112
Period size: 21 Copynumber: 5.1 Consensus size: 21
4851057 TAATGTTGTG
*
4851067 ACATTGGCTTCTGATGTCCCA
1 ACATTGGCTTCTGATGTCGCA
*
4851088 ACATTGGCTTCT-AGTGT-GCG
1 ACATTGGCTTCTGA-TGTCGCA
* *
4851108 ACATTGGCTTATGATGTCCCA
1 ACATTGGCTTCTGATGTCGCA
*
4851129 ACATTGGCTTCT-AGTGT-GCG
1 ACATTGGCTTCTGA-TGTCGCA
*
4851149 ACATTGGCTTTTGATGTCGCA
1 ACATTGGCTTCTGATGTCGCA
4851170 ACA
1 ACA
4851173 CTAGGGGCAA
Statistics
Matches: 69, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
20 32 0.46
21 37 0.54
ACGTcount: A:0.20, C:0.23, G:0.24, T:0.34
Consensus pattern (21 bp):
ACATTGGCTTCTGATGTCGCA
Found at i:4851113 original size:20 final size:21
Alignment explanation
Indices: 4851066--4851166 Score: 102
Period size: 20 Copynumber: 4.9 Consensus size: 21
4851056 CTAATGTTGT
4851066 GACATTGGCTTCTGATGTCCC
1 GACATTGGCTTCTGATGTCCC
* *
4851087 AACATTGGCTTCT-AGTGT-GC
1 GACATTGGCTTCTGA-TGTCCC
*
4851107 GACATTGGCTTATGATGTCCC
1 GACATTGGCTTCTGATGTCCC
* *
4851128 AACATTGGCTTCT-AGTGT-GC
1 GACATTGGCTTCTGA-TGTCCC
*
4851148 GACATTGGCTTTTGATGTC
1 GACATTGGCTTCTGATGTC
4851167 GCAACACTAG
Statistics
Matches: 64, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
20 32 0.50
21 32 0.50
ACGTcount: A:0.18, C:0.22, G:0.25, T:0.36
Consensus pattern (21 bp):
GACATTGGCTTCTGATGTCCC
Found at i:4851123 original size:41 final size:41
Alignment explanation
Indices: 4851066--4851172 Score: 187
Period size: 41 Copynumber: 2.6 Consensus size: 41
4851056 CTAATGTTGT
*
4851066 GACATTGGCTTCTGATGTCCCAACATTGGCTTCTAGTGTGC
1 GACATTGGCTTATGATGTCCCAACATTGGCTTCTAGTGTGC
4851107 GACATTGGCTTATGATGTCCCAACATTGGCTTCTAGTGTGC
1 GACATTGGCTTATGATGTCCCAACATTGGCTTCTAGTGTGC
* *
4851148 GACATTGGCTTTTGATGTCGCAACA
1 GACATTGGCTTATGATGTCCCAACA
4851173 CTAGGGGCAA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 63 1.00
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.34
Consensus pattern (41 bp):
GACATTGGCTTATGATGTCCCAACATTGGCTTCTAGTGTGC
Found at i:4852356 original size:15 final size:15
Alignment explanation
Indices: 4852336--4852366 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
4852326 TATTAGTCCC
4852336 TAGGGTTTTTTGGTT
1 TAGGGTTTTTTGGTT
4852351 TAGGGTTTTTTGGTT
1 TAGGGTTTTTTGGTT
4852366 T
1 T
4852367 TTGGTAGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.00, G:0.32, T:0.61
Consensus pattern (15 bp):
TAGGGTTTTTTGGTT
Found at i:4852439 original size:34 final size:33
Alignment explanation
Indices: 4852395--4852485 Score: 103
Period size: 34 Copynumber: 2.7 Consensus size: 33
4852385 AGGTTTTTTT
**
4852395 AAAATAAATTAAATTAGGTTTTTGGAATTTTAA-
1 AAAATAAATTAAATTAGGTTTAAGG-ATTTTAAG
*
4852428 ATAAATAAATTAAATTAAGGTTTAAGGTTTTTAAG
1 A-AAATAAATTAAATT-AGGTTTAAGGATTTTAAG
*
4852463 AAAATTAATTAAATTATGGTTTA
1 AAAATAAATTAAATTA-GGTTTA
4852486 GTTTTTAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
33 2 0.04
34 39 0.78
35 9 0.18
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.42
Consensus pattern (33 bp):
AAAATAAATTAAATTAGGTTTAAGGATTTTAAG
Found at i:4852719 original size:125 final size:125
Alignment explanation
Indices: 4852553--4852826 Score: 368
Period size: 125 Copynumber: 2.2 Consensus size: 125
4852543 AAAAACTTTT
* * *
4852553 GTTTTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAATATAA
1 GTTTTTTTCTACAGTAGTTCCTGAAAAAATAATTTTAAGAAGACGATTCTGAAAAAATAATATAA
* * *
4852618 AAAACGCTTCAAGCAGGATGCACTGTCAATAAAATTACTGAAAAAAGCTTCCACGTAGAC
66 AAAACGCTTCAAGCAGGATGCAATGTCAACAAAATTACTGAAAAAAGCTCCCACGTAGAC
* * * * * * *
4852678 GTTTTTTTCTACAGTAGTTCCTGAAAAAATATTTTTAAGAAGATGATTTTGAACAAATAGTGTCA
1 GTTTTTTTCTACAGTAGTTCCTGAAAAAATAATTTTAAGAAGACGATTCTGAAAAAATAATATAA
** * * *
4852743 AAATTGCTTCAAGCAGGATGCAATGTCAGCAAAATTACTGAAAAAAGGTCCCACGTGGAC
66 AAAACGCTTCAAGCAGGATGCAATGTCAACAAAATTACTGAAAAAAGCTCCCACGTAGAC
*
4852803 GCTCTTTTTCTACAGTAGTTCCTG
1 G-TTTTTTTCTACAGTAGTTCCTG
4852827 TTTGGTCTTA
Statistics
Matches: 129, Mismatches: 19, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
125 108 0.84
126 21 0.16
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.31
Consensus pattern (125 bp):
GTTTTTTTCTACAGTAGTTCCTGAAAAAATAATTTTAAGAAGACGATTCTGAAAAAATAATATAA
AAAACGCTTCAAGCAGGATGCAATGTCAACAAAATTACTGAAAAAAGCTCCCACGTAGAC
Found at i:4856330 original size:18 final size:18
Alignment explanation
Indices: 4856307--4856345 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
4856297 GGAAAGGGAA
*
4856307 ACATATAAGGGTTAGGAT
1 ACATATAAGGGCTAGGAT
4856325 ACATATAAGGGCTAGGAT
1 ACATATAAGGGCTAGGAT
4856343 ACA
1 ACA
4856346 CACCTGACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.41, C:0.10, G:0.26, T:0.23
Consensus pattern (18 bp):
ACATATAAGGGCTAGGAT
Found at i:4858121 original size:11 final size:11
Alignment explanation
Indices: 4858095--4858134 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
4858085 AGAGAGCTTT
4858095 GAGAAATTTAGA
1 GAGAAATTT-GA
4858107 GAGAAATTTGA
1 GAGAAATTTGA
*
4858118 GAGAAAATTGA
1 GAGAAATTTGA
4858129 -AGAAAT
1 GAGAAAT
4858135 AATGTGTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 5 0.19
11 12 0.46
12 9 0.35
ACGTcount: A:0.53, C:0.00, G:0.25, T:0.23
Consensus pattern (11 bp):
GAGAAATTTGA
Found at i:4859289 original size:13 final size:13
Alignment explanation
Indices: 4859242--4859296 Score: 51
Period size: 13 Copynumber: 4.3 Consensus size: 13
4859232 TCATCTTTCT
*
4859242 TAATATAATAT-C
1 TAATATAATATAA
*
4859254 TAAT-TAAAATAA
1 TAATATAATATAA
* *
4859266 TAAATAAAATATAC
1 T-AATATAATATAA
4859280 TAATATAATATAA
1 TAATATAATATAA
4859293 TAAT
1 TAAT
4859297 CTAACTTTAA
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
11 5 0.15
12 5 0.15
13 17 0.52
14 6 0.18
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (13 bp):
TAATATAATATAA
Found at i:4861885 original size:17 final size:18
Alignment explanation
Indices: 4861863--4861899 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
4861853 TTATTCTTTT
4861863 ATTCTTTCATCCA-AATC
1 ATTCTTTCATCCATAATC
*
4861880 ATTCTTTCATTCATAATC
1 ATTCTTTCATCCATAATC
4861898 AT
1 AT
4861900 ACTGTGCCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.30, C:0.24, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTCTTTCATCCATAATC
Found at i:4862616 original size:10 final size:9
Alignment explanation
Indices: 4862601--4862691 Score: 72
Period size: 9 Copynumber: 10.6 Consensus size: 9
4862591 GAGTTCAGAC
4862601 TCAAAAAAA
1 TCAAAAAAA
4862610 TTC-AAAAAA
1 -TCAAAAAAA
4862619 TCAAAAAAA
1 TCAAAAAAA
*
4862628 TAAAAAAAA
1 TCAAAAAAA
*
4862637 TAAAAAAAAA
1 T-CAAAAAAA
4862647 TC-AAAAAA
1 TCAAAAAAA
4862655 TCAAAAGAAA
1 TCAAAA-AAA
4862665 --AACAAAAA
1 TCAA-AAAAA
4862673 T---AAAAA
1 TCAAAAAAA
4862679 T-AAAAAAA
1 TCAAAAAAA
4862687 TCAAA
1 TCAAA
4862692 GTCAAAAATA
Statistics
Matches: 70, Mismatches: 2, Indels: 19
0.77 0.02 0.21
Matches are distributed among these distances:
6 6 0.09
8 21 0.30
9 29 0.41
10 14 0.20
ACGTcount: A:0.79, C:0.08, G:0.01, T:0.12
Consensus pattern (9 bp):
TCAAAAAAA
Found at i:4862622 original size:8 final size:8
Alignment explanation
Indices: 4862604--4862691 Score: 55
Period size: 8 Copynumber: 11.4 Consensus size: 8
4862594 TTCAGACTCA
4862604 AAAAAATTC
1 AAAAAA-TC
4862613 AAAAAATC
1 AAAAAATC
4862621 AAAAAAAT-
1 -AAAAAATC
4862629 AAAAAA--
1 AAAAAATC
*
4862635 AATAAA--
1 AAAAAATC
4862641 AAAAAATC
1 AAAAAATC
4862649 AAAAAATC
1 AAAAAATC
**
4862657 AAAAGAAAA
1 AAAA-AATC
4862666 ACAAAAAT-
1 A-AAAAATC
*
4862674 -AAAAATA
1 AAAAAATC
4862681 AAAAAATC
1 AAAAAATC
4862689 AAA
1 AAA
4862692 GTCAAAAATA
Statistics
Matches: 66, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
6 16 0.24
7 6 0.09
8 23 0.35
9 18 0.27
10 3 0.05
ACGTcount: A:0.81, C:0.07, G:0.01, T:0.11
Consensus pattern (8 bp):
AAAAAATC
Found at i:4862651 original size:36 final size:36
Alignment explanation
Indices: 4862603--4862683 Score: 119
Period size: 36 Copynumber: 2.2 Consensus size: 36
4862593 GTTCAGACTC
*
4862603 AAAAAAATTCAAAAAATCAAAA-AAATAAAAAAAATA
1 AAAAAAAATCAAAAAATCAAAAGAAA-AAAAAAAATA
*
4862639 AAAAAAAATCAAAAAATCAAAAGAAAAACAAAAATA
1 AAAAAAAATCAAAAAATCAAAAGAAAAAAAAAAATA
4862675 AAAATAAAA
1 AAAA-AAAA
4862684 AAATCAAAGT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
36 34 0.83
37 7 0.17
ACGTcount: A:0.81, C:0.06, G:0.01, T:0.11
Consensus pattern (36 bp):
AAAAAAAATCAAAAAATCAAAAGAAAAAAAAAAATA
Found at i:4862670 original size:19 final size:18
Alignment explanation
Indices: 4862601--4862672 Score: 85
Period size: 18 Copynumber: 3.9 Consensus size: 18
4862591 GAGTTCAGAC
**
4862601 TCAAAAAAATTCAAAAAA
1 TCAAAAAAAAACAAAAAA
4862619 TCAAAAAAATAA-AAAAAA
1 TCAAAAAAA-AACAAAAAA
4862637 T-AAAAAAAAATCAAAAAA
1 TCAAAAAAAAA-CAAAAAA
4862655 TCAAAAGAAAAACAAAAA
1 TCAAAA-AAAAACAAAAA
4862673 TAAAAATAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
16 2 0.04
17 7 0.15
18 23 0.49
19 10 0.21
20 5 0.11
ACGTcount: A:0.79, C:0.08, G:0.01, T:0.11
Consensus pattern (18 bp):
TCAAAAAAAAACAAAAAA
Found at i:4862677 original size:5 final size:6
Alignment explanation
Indices: 4862623--4862684 Score: 52
Period size: 6 Copynumber: 9.8 Consensus size: 6
4862613 AAAAAATCAA
* * * * *
4862623 AAAAAT AAAAAA AATAAAA AAAAAT CAAAAAAT CAAAAG AAAAAC AAAAAT
1 AAAAAT AAAAAT AA-AAAT AAAAAT --AAAAAT AAAAAT AAAAAT AAAAAT
4862674 AAAAAT AAAAA
1 AAAAAT AAAAA
4862685 AATCAAAGTC
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
6 34 0.74
7 6 0.13
8 6 0.13
ACGTcount: A:0.84, C:0.05, G:0.02, T:0.10
Consensus pattern (6 bp):
AAAAAT
Found at i:4862710 original size:47 final size:45
Alignment explanation
Indices: 4862623--4862720 Score: 117
Period size: 47 Copynumber: 2.1 Consensus size: 45
4862613 AAAAAATCAA
*
4862623 AAAAATAAAAAAAATAAAAAAAAATCAAAAAATCAAAAGAAAAAC
1 AAAAATAAAAAAAATAAAAAAAAATCAAAAAAGCAAAAGAAAAAC
* * * *
4862668 AAAAATAAAAATAAA-AAAATCAAAGTCAAAAATAGGAAAAGAAAAAG
1 AAAAATAAAAA-AAATAAAA-AAAAATCAAAAA-AGCAAAAGAAAAAC
4862715 AAAAAT
1 AAAAAT
4862721 GAGAGGTCAA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
45 15 0.33
46 13 0.29
47 17 0.38
ACGTcount: A:0.79, C:0.05, G:0.06, T:0.10
Consensus pattern (45 bp):
AAAAATAAAAAAAATAAAAAAAAATCAAAAAAGCAAAAGAAAAAC
Found at i:4863552 original size:8 final size:8
Alignment explanation
Indices: 4863539--4863582 Score: 81
Period size: 8 Copynumber: 5.6 Consensus size: 8
4863529 TTTGAGTCAA
4863539 AAAAAATG
1 AAAAAATG
4863547 AAAAAATG
1 AAAAAATG
4863555 -AAAAATG
1 AAAAAATG
4863562 AAAAAATG
1 AAAAAATG
4863570 AAAAAATG
1 AAAAAATG
4863578 AAAAA
1 AAAAA
4863583 GTAAAAATTG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
7 7 0.20
8 28 0.80
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (8 bp):
AAAAAATG
Found at i:4863560 original size:15 final size:16
Alignment explanation
Indices: 4863539--4863582 Score: 81
Period size: 15 Copynumber: 2.8 Consensus size: 16
4863529 TTTGAGTCAA
4863539 AAAAAATGAAAAAATG
1 AAAAAATGAAAAAATG
4863555 -AAAAATGAAAAAATG
1 AAAAAATGAAAAAATG
4863570 AAAAAATGAAAAA
1 AAAAAATGAAAAA
4863583 GTAAAAATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 15 0.56
16 12 0.44
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (16 bp):
AAAAAATGAAAAAATG
Found at i:4863588 original size:15 final size:15
Alignment explanation
Indices: 4863539--4863589 Score: 75
Period size: 15 Copynumber: 3.3 Consensus size: 15
4863529 TTTGAGTCAA
4863539 AAAAAATGAAAAAAT
1 AAAAAATGAAAAAAT
*
4863554 GAAAAATGAAAAAAT
1 AAAAAATGAAAAAAT
*
4863569 GAAAAAATGAAAAAGT
1 -AAAAAATGAAAAAAT
4863585 AAAAA
1 AAAAA
4863590 TTGAGAGGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
15 19 0.59
16 13 0.41
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (15 bp):
AAAAAATGAAAAAAT
Found at i:4863588 original size:23 final size:23
Alignment explanation
Indices: 4863539--4863590 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
4863529 TTTGAGTCAA
4863539 AAAAAATGAAAAAATGAAAAATG
1 AAAAAATGAAAAAATGAAAAATG
4863562 AAAAAATGAAAAAATGAAAAA-G
1 AAAAAATGAAAAAATGAAAAATG
*
4863584 TAAAAAT
1 AAAAAAT
4863591 TGAGAGGCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 7 0.25
23 21 0.75
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.13
Consensus pattern (23 bp):
AAAAAATGAAAAAATGAAAAATG
Found at i:4865161 original size:44 final size:44
Alignment explanation
Indices: 4865051--4866001 Score: 473
Period size: 44 Copynumber: 21.8 Consensus size: 44
4865041 ATCGCGTCAG
* ** *
4865051 ATCTTATCT-CCTCGAGATTACAGTGGAACAGACCGAAGA-ATTTCA
1 ATCTTATCTCCCT-GAGATTACAGTGGAGCAGATTGAAGATA-GT-A
* *
4865096 GATCTTATCTCCCTGATATTACAGCGGAGCAGATTGAAGATAGTA
1 -ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAGTA
* * * * * *
4865141 ATCCTATCTCCCTGTGATTACAGTGGAGCGGATT-AAAATAAATG
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGAT-AGTA
* * * * * *
4865185 ATCTTATCTCTCTGA-AGTTACAGTAGAGTATATCG-TG-TCAG--
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGAT-AGTA
* *
4865226 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAGTA
* ** * *
4865270 ATCCTATCTCCCTGAGATTACAGTGGAGTGGATT-AAAATGAAG-G
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGAT--AGTA
* ** * * *
4865314 ATCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCG-CG-TCAG--
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGAT-AGTA
* * * * *
4865355 GTCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAGA-ATTTCA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATA-GT-A
* * * *
4865400 GATTTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGTTAGTA
1 -ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAGTA
* ** * *
4865445 ATCCTATCTCCCTGAGATTACAGTGGAGTGGATT-AAAATGAAG-G
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGAT--AGTA
* ** * * *
4865489 ATCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCG-CG-TCAG--
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGAT-AGTA
* * * * * *
4865530 GTCTTATTTCCCTAAGATTACAGTGGAACAGACTGAAGA-ATTTCA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATA-GT-A
* *
4865575 GATATTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTA
1 -ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAGTA
* *
4865620 ATCCTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAGTA
* * * **
4865664 ATCCTATCTCCCTGTGATTACAGTGGAGCAGATT-AAAATAAAA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAGTA
* * * * * *
4865707 GATTTTATCTCTCTGA-AGTTACAGTAGAGTAGATCG-TG-TCAG--
1 -ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGAT-AGTA
* *
4865749 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAGTA
* ** * *
4865793 ATCCTATCTCCCTGAGATTACAGTGGAGTGGATT-AAAATGAAG-G
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGAT--AGTA
* * * ** * * *
4865837 ATCTTATCTCTCTGAGGTTATAGCAGAGTAGATCG-CG-TCAG--
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGAT-AGTA
* * * * *
4865878 GTCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAGA-ATTTCA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATA-GT-A
* * * * *
4865923 GATATTATCTTCCTGAGATTACAGCGGAACAGATTGAAGCTAGTA
1 -ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAGTA
* * *
4865968 ATCCTATCTCCCTGTGATTACAGTGGAGCGGATT
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATT
4866002 AAAACAAAAG
Statistics
Matches: 674, Mismatches: 175, Indels: 114
0.70 0.18 0.12
Matches are distributed among these distances:
41 128 0.19
42 19 0.03
43 31 0.05
44 350 0.52
45 10 0.01
46 129 0.19
47 7 0.01
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (44 bp):
ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAGTA
Found at i:4865239 original size:129 final size:129
Alignment explanation
Indices: 4865093--4865916 Score: 772
Period size: 129 Copynumber: 6.3 Consensus size: 129
4865083 CCGAAGAATT
* *
4865093 TCAGATCTTATCTCCCTGATATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGTGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA
* * * *
4865158 TTACAGTGGAGCGGATTAAAATAAATGATCTTATCTCTCTGAAGTTACAGTAGAGTATATCGTG
66 TTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGTG
*
4865222 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA
** * *
4865287 TTACAGTGGAGTGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCG
66 TTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGTG
* * * * * * **
4865351 TCAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAGA-ATTTCAGATTTTATCTCCCTG
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATA-GT-A-ATCCTATCTCCCTG
* * * * * * * * ** *
4865415 AGATTACAGCGGAGTAGATTGAAGT-TAGTAATCCTATCTCCCTG-AGATTACAGTGGAGTGGAT
63 AGATTACAGTGGAGCAGATTAAAATAAAG-GATCTTATCTCTCTGAAG-TTACAGCAGAGTAGA-
**
4865478 TAAAATG
125 T--CGTG
* * * * * * * * * *
4865485 -AAGGATCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCG-CG-TCAG--GTCTTATTTCCCTA
1 TCA-GATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATTGAAGAT-AGTAATCCTATCTCCCTG
* * ** * * * *
4865544 AGATTACAGTGGAACAGACTGAAGAATTTCA-GATATTATCTCCCTG-AGATTACAGCGGAGCAG
63 AGATTACAGTGGAGCAGA-TTAA-AA-TAAAGGATCTTATCTCTCTGAAG-TTACAGCAGAGTAG
* *
4865607 ATTGAAG
124 ATCG-TG
*
4865614 AT-AGTAATCCTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTG
1 -TCAG--ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTG
* * * *
4865678 TGATTACAGTGGAGCAGATTAAAATAAAAGATTTTATCTCTCTGAAGTTACAGTAGAGTAGATCG
63 AGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCG
4865743 TG
128 TG
*
4865745 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA
** * * * *
4865810 TTACAGTGGAGTGGATTAAAATGAAGGATCTTATCTCTCTGAGGTTATAGCAGAGTAGATCGCG
66 TTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGTG
* * * * *
4865874 TCAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGA
4865917 ATTTCAGATA
Statistics
Matches: 562, Mismatches: 104, Indels: 58
0.78 0.14 0.08
Matches are distributed among these distances:
128 1 0.00
129 335 0.60
130 10 0.02
131 118 0.21
132 35 0.06
133 10 0.02
134 53 0.09
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (129 bp):
TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA
TTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGTG
Found at i:4865378 original size:304 final size:304
Alignment explanation
Indices: 4865010--4865567 Score: 920
Period size: 304 Copynumber: 1.8 Consensus size: 304
4865000 TGAAGAAAGT
4865010 ATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGTCAGATCTTATCTCCTCGAGATTACAGT
1 ATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGTCAGATCTTATCTCCTCGAGATTACAGT
*
4865075 GGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGATATTACAGCGGAGCAGATTGAAGATAGT
66 GGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGT
* *
4865140 AATCCTATCTCCCTGTGATTACAGTGGAGCGGATTAAAATAAATGATCTTATCTCTCTGAAGTTA
131 AATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTA
* * * * * *
4865205 CAGTAGAGTATATCGTGTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTA
196 CAGCAGAGTAGATCGCGTCAGATCTTATCTCCCTAAGATTACAGCGGAACAGACTGAAGTTAGTA
4865270 ATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATGAAGG
261 ATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATGAAGG
* *
4865314 ATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGTCAGGTCTTATTTCC-CTGAGATTACAG
1 ATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGTCAGATCTTATCTCCTC-GAGATTACAG
* * * *
4865378 TGGAACAGACTGAAGAATTTCAGATTTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGTTAG
65 TGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAG
* *
4865443 TAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATGAAGGATCTTATCTCTCTGAAGTT
130 TAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTT
* * *
4865508 ACAGCAGAGTAGATCGCGTCAGGTCTTATTTCCCTAAGATTACAGTGGAACAGACTGAAG
195 ACAGCAGAGTAGATCGCGTCAGATCTTATCTCCCTAAGATTACAGCGGAACAGACTGAAG
4865568 AATTTCAGAT
Statistics
Matches: 233, Mismatches: 20, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
303 1 0.00
304 232 1.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (304 bp):
ATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGTCAGATCTTATCTCCTCGAGATTACAGT
GGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGT
AATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTA
CAGCAGAGTAGATCGCGTCAGATCTTATCTCCCTAAGATTACAGCGGAACAGACTGAAGTTAGTA
ATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATGAAGG
Found at i:4865410 original size:175 final size:175
Alignment explanation
Indices: 4865222--4866079 Score: 1151
Period size: 175 Copynumber: 4.9 Consensus size: 175
4865212 GTATATCGTG
*
4865222 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGA
1 TCAGATATTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGA
4865287 TTACAGTGGAGTGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGT
66 TTACAGTGGAGTGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGT
4865352 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAGAATT
131 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAGAATT
* *
4865397 TCAGATTTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGTTAGTAATCCTATCTCCCTGAGA
1 TCAGATATTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGA
4865462 TTACAGTGGAGTGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGT
66 TTACAGTGGAGTGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGT
*
4865527 CAGGTCTTATTTCCCTAAGATTACAGTGGAACAGACTGAAGAATT
131 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAGAATT
*
4865572 TCAGATATTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA
1 TCAGATATTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGA
* ** * * * * * ** * *
4865637 TTACAGCGGAGCAGATT-GAA-GATAGTAATCCTATCTCCCTG-TGATTACAGTGGAGCAGATTA
66 TTACAGTGGAGTGGATTAAAATGA-AG-GATCTTATCTCTCTGAAG-TTACAGCAGAGTAGA-TC
*** * * * * * * ** * *
4865699 AAATAAAAGATTTTATCTCTCTGA-AGTTACAGTAGAGTAGA-T--CG--TG
127 GCGT--CAGGTCTTATTTCCCTGAGA-TTACAGTGGAACAGACTGAAGAATT
*
4865745 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGA
1 TCAGATATTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGA
* *
4865810 TTACAGTGGAGTGGATTAAAATGAAGGATCTTATCTCTCTGAGGTTATAGCAGAGTAGATCGCGT
66 TTACAGTGGAGTGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGT
4865875 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAGAATT
131 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAGAATT
* * * *
4865920 TCAGATATTATCTTCCTGAGATTACAGCGGAACAGATTGAAGCTAGTAATCCTATCTCCCTGTGA
1 TCAGATATTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGA
* ** * * *
4865985 TTACAGTGGAGCGGATTAAAACAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
66 TTACAGTGGAGTGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGT
** * *
4866050 CAGG-CTTTACCTCCCTGTGGTTACAGTGGA
131 CAGGTC-TTATTTCCCTGAGATTACAGTGGA
4866080 GTACATTGAA
Statistics
Matches: 589, Mismatches: 77, Indels: 34
0.84 0.11 0.05
Matches are distributed among these distances:
170 25 0.04
171 2 0.00
172 2 0.00
173 104 0.18
174 11 0.02
175 417 0.71
176 2 0.00
177 2 0.00
178 24 0.04
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (175 bp):
TCAGATATTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGA
TTACAGTGGAGTGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGT
CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAGAATT
Found at i:4866107 original size:348 final size:346
Alignment explanation
Indices: 4865222--4866107 Score: 1172
Period size: 348 Copynumber: 2.5 Consensus size: 346
4865212 GTATATCGTG
* *
4865222 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGA
1 TCAGATATTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA
* * * * *
4865287 TTACAGTGGAGTGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGT
66 TTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
* * ** * *
4865352 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAGA-ATTTCAGATTTTATCTCCCTGA
131 CAGGT-TTATCTCCCTGAGGTTACAGTGGAGTAGATTGAAGACA--T-A-ATTCTATCTCCCTGA
*
4865416 GATTACAGCGGAGTAGATTGAAGTTAGTAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAA
191 GATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAA
4865481 AATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGTCAGGTCTTATTTCCCTAAG
256 AATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGTCAGGTCTTATTTCCCTAAG
4865546 ATTACAGTGGAACAGACTGAAGAATT
321 ATTACAGTGGAACAGACTGAAGAATT
4865572 TCAGATATTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA
1 TCAGATATTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA
* * * ** * * * * * **
4865637 TTACAGCGGAGCAGATTGAAGATAGTA-ATCCTATCTCCCTG-TGATTACAGTGGAGCAGATTAA
66 TTACAGTGGAGCGGATT-AAAATAAAAGATCTTATCTCTCTGAAG-TTACAGTAGAGTAGA-TCG
* * * * * * * * * *
4865700 AATAAAAGATTTTATCTCTCTGAAGTTACAGTAGAGTAGATCG-TGTCA-GA-TCTTATCTCCCT
128 CAT--CAG-GTTTATCTCCCTGAGGTTACAGTGGAGTAGATTGAAGACATAATTC-TATCTCCCT
4865762 GAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGATTACAGTGGAGTGGATT
189 GAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGATTACAGTGGAGTGGATT
* * *
4865827 AAAATGAAGGATCTTATCTCTCTGAGGTTATAGCAGAGTAGATCGCGTCAGGTCTTATTTCCCTG
254 AAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGTCAGGTCTTATTTCCCTA
4865892 AGATTACAGTGGAACAGACTGAAGAATT
319 AGATTACAGTGGAACAGACTGAAGAATT
* * * *
4865920 TCAGATATTATCTTCCTGAGATTACAGCGGAACAGATTGAAGCTAGTAATCCTATCTCCCTGTGA
1 TCAGATATTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA
*
4865985 TTACAGTGGAGCGGATTAAAACAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
66 TTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
* * * *
4866050 CAGGCTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCC
131 CAGG-TTTATCTCCCTGAGGTTACAGTGGAGTAGATTGAAGAC-ATAATTCTATCTCC
4866108 TTGGTTGGCA
Statistics
Matches: 452, Mismatches: 69, Indels: 32
0.82 0.12 0.06
Matches are distributed among these distances:
345 28 0.06
346 2 0.00
347 10 0.02
348 273 0.60
349 4 0.01
350 101 0.22
351 6 0.01
352 1 0.00
353 26 0.06
354 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (346 bp):
TCAGATATTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA
TTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
CAGGTTTATCTCCCTGAGGTTACAGTGGAGTAGATTGAAGACATAATTCTATCTCCCTGAGATTA
CAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATGA
AGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGTCAGGTCTTATTTCCCTAAGATTAC
AGTGGAACAGACTGAAGAATT
Found at i:4867706 original size:3 final size:3
Alignment explanation
Indices: 4867700--4867729 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
4867690 TAATGTTACC
4867700 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4867730 GTCATTTACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:4868680 original size:102 final size:105
Alignment explanation
Indices: 4868475--4868682 Score: 251
Period size: 102 Copynumber: 2.0 Consensus size: 105
4868465 ATTTTTTCTA
* * *
4868475 AAAAATTTCAAAATATGACAATGTTTTTGCATTTGGAAATTCGAGAAACATGCCCTAAGGTGCTA
1 AAAAATTTCAAAATAAGACAATGTTTTTGCATTTGAAAATTCGAG--A-ATACCCTAAGGTGCTA
*
4868540 GGTATCGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTC
63 GGTATCGA-TTTTCTCGTTCAACCAAATAGCCAAATATCCTTTC
* * * *
4868584 AAAAATTTCAAAATAAGGCAATG-TTTTGCGTTTGAAAATTCGAG-GTACCCTAAGGTGCTGGGT
1 AAAAATTTCAAAATAAGACAATGTTTTTGCATTTGAAAATTCGAGAATACCCTAAGGTGCTAGGT
* * * *
4868647 TTTGA-TTTCTCGTTTAACCAAATTGCCAAATATCCT
66 ATCGATTTTCTCGTTCAACCAAATAGCCAAATATCCT
4868683 CTTGAATTTT
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
102 28 0.32
104 19 0.22
108 19 0.22
109 21 0.24
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (105 bp):
AAAAATTTCAAAATAAGACAATGTTTTTGCATTTGAAAATTCGAGAATACCCTAAGGTGCTAGGT
ATCGATTTTCTCGTTCAACCAAATAGCCAAATATCCTTTC
Found at i:4869890 original size:2 final size:2
Alignment explanation
Indices: 4869883--4870004 Score: 244
Period size: 2 Copynumber: 61.0 Consensus size: 2
4869873 ATCTCTATCG
4869883 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
4869925 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
4869967 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
4870005 TTTGGGGGAA
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 120 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:4871026 original size:252 final size:253
Alignment explanation
Indices: 4870536--4871033 Score: 793
Period size: 253 Copynumber: 2.0 Consensus size: 253
4870526 TTTCTTGATT
* * *
4870536 TTTTTAGTATTTCGAATTTGATTCAATTGCTTTGGGTCTGAACTGAACAAGTTGGGTAGGATGAA
1 TTTTTAATATTTCGAATTTGATTCAATCGCTTTGGGTCTGAACCGAACAAGTTGGGTAGGATGAA
* * ** *
4870601 TTTTGCAATGTAGCAGCTAGGTTGTGGTATCAGCTTTAGGTTGAAGGATGGGGCCAAATATTTGT
66 TTTTGCAAAGTACCAGCTAGAATGCGGTATCAGCTTTAGGTTGAAGGATGGGGCCAAATATTTGT
*
4870666 AGAAGGCCTTTGGAAGTTGAGTGGAAAGTAGTTTGACCAAATTCTTCAGGTTGAGGATTACATTT
131 AGAAGGCCTTTGGAAGTTGAGTAGAAAGTAGTTTGACCAAATTCTTCAGGTTGAGGATTACATTT
*
4870731 TAAAGGAATAGTAACTTAAAACTGGGGTTCTGTGACTAGAACAAAAATCTCAAATTTG
196 TAAAGGAAAAGTAACTTAAAACTGGGGTTCTGTGACTAGAACAAAAATCTCAAATTTG
* * **
4870789 TTTTTAATATTTTGAATTTGATTCAATCGCTTTGGGTCTGAACCGAACCAGTTTTGTAGGATGAA
1 TTTTTAATATTTCGAATTTGATTCAATCGCTTTGGGTCTGAACCGAACAAGTTGGGTAGGATGAA
4870854 TTTTGCAAAGTACCAGCTAGAATGCGGTATCAGCTTTAGGTTGAAGGATGGGGCCAAATATTTGT
66 TTTTGCAAAGTACCAGCTAGAATGCGGTATCAGCTTTAGGTTGAAGGATGGGGCCAAATATTTGT
* **
4870919 A-AGGGCCTTTGGAAGTTGAGTAGAAAGTAGTTTGACTGAATTCTTCAGGTTGAGGATTACATTT
131 AGAAGGCCTTTGGAAGTTGAGTAGAAAGTAGTTTGACCAAATTCTTCAGGTTGAGGATTACATTT
***
4870983 TAAAGGAAAAGTAACTTAGGCCTGGGGTTCTGTGA-TGAGAACAAAAATCTC
196 TAAAGGAAAAGTAACTTAAAACTGGGGTTCTGTGACT-AGAACAAAAATCTC
4871034 TCATTCTATA
Statistics
Matches: 224, Mismatches: 20, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
251 1 0.00
252 104 0.46
253 119 0.53
ACGTcount: A:0.30, C:0.11, G:0.26, T:0.34
Consensus pattern (253 bp):
TTTTTAATATTTCGAATTTGATTCAATCGCTTTGGGTCTGAACCGAACAAGTTGGGTAGGATGAA
TTTTGCAAAGTACCAGCTAGAATGCGGTATCAGCTTTAGGTTGAAGGATGGGGCCAAATATTTGT
AGAAGGCCTTTGGAAGTTGAGTAGAAAGTAGTTTGACCAAATTCTTCAGGTTGAGGATTACATTT
TAAAGGAAAAGTAACTTAAAACTGGGGTTCTGTGACTAGAACAAAAATCTCAAATTTG
Found at i:4873641 original size:32 final size:31
Alignment explanation
Indices: 4873571--4873670 Score: 92
Period size: 32 Copynumber: 3.0 Consensus size: 31
4873561 ATAATAGCTT
* * *
4873571 TTATTTAGAACAAAATTATATTTTAAGAAGAGTCA
1 TTATTTAGAAC--AATT-T-TTTTAAGAACAATTA
*
4873606 TTATTTAGAACAATCTTTTTTAAGAATAATTA
1 TTATTTAGAACAAT-TTTTTTAAGAACAATTA
* *
4873638 TTATTTGGAACAATTTTTATCAAGAACAATTA
1 TTATTTAGAACAATTTTT-TTAAGAACAATTA
4873670 T
1 T
4873671 GTTGAGAATA
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
31 4 0.07
32 37 0.65
33 4 0.07
34 1 0.02
35 11 0.19
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42
Consensus pattern (31 bp):
TTATTTAGAACAATTTTTTTAAGAACAATTA
Found at i:4873657 original size:16 final size:16
Alignment explanation
Indices: 4873606--4873668 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 16
4873596 AGAAGAGTCA
4873606 TTATTTAGAACAATCTT
1 TTATTTAGAACAAT-TT
* * *
4873623 TT-TTAAGAATAATTA
1 TTATTTAGAACAATTT
*
4873638 TTATTTGGAACAATTT
1 TTATTTAGAACAATTT
**
4873654 TTATCAAGAACAATT
1 TTATTTAGAACAATT
4873669 ATGTTGAGAA
Statistics
Matches: 35, Mismatches: 10, Indels: 3
0.73 0.21 0.06
Matches are distributed among these distances:
15 3 0.09
16 30 0.86
17 2 0.06
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (16 bp):
TTATTTAGAACAATTT
Found at i:4879101 original size:18 final size:18
Alignment explanation
Indices: 4879080--4879114 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
4879070 TAAGTATTCA
4879080 ACCCAACCCAACCCAATT
1 ACCCAACCCAACCCAATT
*
4879098 ACCCAACCCAACTCAAT
1 ACCCAACCCAACCCAAT
4879115 CATAAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.49, G:0.00, T:0.11
Consensus pattern (18 bp):
ACCCAACCCAACCCAATT
Found at i:4879231 original size:9 final size:9
Alignment explanation
Indices: 4879217--4879256 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
4879207 GTAGTGATTC
*
4879217 AATTCGATT
1 AATTCGGTT
*
4879226 AATTCGGGT
1 AATTCGGTT
4879235 AATTCGGTT
1 AATTCGGTT
4879244 AATTCGGTT
1 AATTCGGTT
4879253 AATT
1 AATT
4879257 TTTAACCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:4882928 original size:70 final size:73
Alignment explanation
Indices: 4882689--4882949 Score: 248
Period size: 70 Copynumber: 3.5 Consensus size: 73
4882679 AAATATTTTC
* ***
4882689 TATTGTATTTTACATCAA-CA-ATATACTTATTTACAATTTATGAAAAATTTTTAAAAAAATTGT
1 TATTGTATTTTACATCAATAATATATACTTATTTACAA-TTA--AAAAA-AAAT-AAAAAATTGT
* *
4882752 TTGTTTTGTATTC
61 TTGTATTGTATTT
* * *
4882765 TATTGTATTTTATATTAATAATATATACTTATTTACAATCTAAGAAAAAAATAAAAAATTATTTG
1 TATTGTATTTTACATCAATAATATATACTTATTTACAAT-TAA-AAAAAAATAAAAAATTGTTTG
4882830 TATTGTATTT
64 TATTGTATTT
* * * * *
4882840 TATCGCATGTCTT-C-TCAAT-A-ATATACTTATTTACAA-TAAAAAAACATGAAAAATTGTTTA
1 TATTGTAT-T-TTACATCAATAATATATACTTATTTACAATTAAAAAAAAATAAAAAATTGTTTG
4882900 TATTGTATTT
64 TATTGTATTT
* *
4882910 TATTGTACTTTACATCAATGATATATACTTATTTACAATT
1 TATTGTATTTTACATCAATAATATATACTTATTTACAATT
4882950 TACCAAAAAA
Statistics
Matches: 154, Mismatches: 20, Indels: 25
0.77 0.10 0.13
Matches are distributed among these distances:
68 2 0.01
69 2 0.01
70 37 0.24
71 4 0.03
72 16 0.10
73 17 0.11
74 1 0.01
75 30 0.19
76 19 0.12
77 8 0.05
78 18 0.12
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.46
Consensus pattern (73 bp):
TATTGTATTTTACATCAATAATATATACTTATTTACAATTAAAAAAAAATAAAAAATTGTTTGTA
TTGTATTT
Found at i:4902661 original size:21 final size:21
Alignment explanation
Indices: 4902620--4902663 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
4902610 AAATTGTATT
4902620 TTAAAACTATTTTAATAAAAA
1 TTAAAACTATTTTAATAAAAA
* *
4902641 TTAACACT-TTTTATATCAAAA
1 TTAAAACTATTTTA-ATAAAAA
4902662 TT
1 TT
4902664 TTATCATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (21 bp):
TTAAAACTATTTTAATAAAAA
Found at i:4917985 original size:33 final size:35
Alignment explanation
Indices: 4917890--4917986 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
4917880 TTAATATTTT
*
4917890 AATATATGAAATATAAATTTTAAATATTT--TTAAGC
1 AATATAT-AAAT-TATATTTTAAATATTTAATTAAGC
* *
4917925 AATAAATATTAATTAT-TTATAAA-ATTTAATT-AG-
1 AAT--ATATAAATTATATTTTAAATATTTAATTAAGC
4917958 AATATATAAATTATATTTTAAATATTTAA
1 AATATATAAATTATATTTTAAATATTTAA
4917987 ATATAACCAT
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 10 0.20
32 6 0.12
33 13 0.25
34 8 0.16
35 7 0.14
36 3 0.06
37 4 0.08
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (35 bp):
AATATATAAATTATATTTTAAATATTTAATTAAGC
Found at i:4920280 original size:46 final size:44
Alignment explanation
Indices: 4920228--4920328 Score: 125
Period size: 43 Copynumber: 2.3 Consensus size: 44
4920218 TTCTAGATCA
* * * *
4920228 TTTTCATTTTTGGAGAAAACCACATTTATTTCCAAATGGTTCTATT
1 TTTTCATTTTT-CA-AAAACCACATTCATTTCCAAATGATTCCATT
*
4920274 TTTTCA-TTTTCATAAACCACATTCATTTCCAAATGATTCCATT
1 TTTTCATTTTTCAAAAACCACATTCATTTCCAAATGATTCCATT
4920317 TTTTC-TTTTTCA
1 TTTTCATTTTTCA
4920329 TTTTTATTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
43 38 0.78
44 1 0.02
45 4 0.08
46 6 0.12
ACGTcount: A:0.27, C:0.19, G:0.06, T:0.49
Consensus pattern (44 bp):
TTTTCATTTTTCAAAAACCACATTCATTTCCAAATGATTCCATT
Found at i:4920296 original size:43 final size:43
Alignment explanation
Indices: 4920244--4920329 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
4920234 TTTTTGGAGA
* * *
4920244 AAACCACATTTATTTCCAAATGGTTCTATTTTTTCATTTTCAT
1 AAACCACATTCATTTCCAAATGATTCCATTTTTTCATTTTCAT
*
4920287 AAACCACATTCATTTCCAAATGATTCCATTTTTTCTTTTTCAT
1 AAACCACATTCATTTCCAAATGATTCCATTTTTTCATTTTCAT
4920330 TTTTATTTTG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.28, C:0.21, G:0.03, T:0.48
Consensus pattern (43 bp):
AAACCACATTCATTTCCAAATGATTCCATTTTTTCATTTTCAT
Found at i:4924934 original size:25 final size:25
Alignment explanation
Indices: 4924900--4924947 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
4924890 GTAGTCAACC
*
4924900 TGAATTTAACAAAATACTTTTAACT
1 TGAATTTAACAAAACACTTTTAACT
4924925 TGAATTTAACAAAACACTTTTAA
1 TGAATTTAACAAAACACTTTTAA
4924948 GAGTATTGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.46, C:0.12, G:0.04, T:0.38
Consensus pattern (25 bp):
TGAATTTAACAAAACACTTTTAACT
Found at i:4930456 original size:15 final size:16
Alignment explanation
Indices: 4930427--4930456 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4930417 CTCATTTTAT
4930427 TAAAATTTATAATATA
1 TAAAATTTATAATATA
4930443 TAAAATTT-TAATAT
1 TAAAATTTATAATAT
4930457 TGGCTTTCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TAAAATTTATAATATA
Found at i:4933887 original size:4 final size:4
Alignment explanation
Indices: 4933878--4933908 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
4933868 TAGAATTAGC
4933878 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
4933909 AGTTGTTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.23
Consensus pattern (4 bp):
ACAT
Found at i:4935512 original size:64 final size:64
Alignment explanation
Indices: 4935387--4935514 Score: 175
Period size: 64 Copynumber: 2.0 Consensus size: 64
4935377 AAGCATCCCA
* * * * * *
4935387 ATCGGTAGTGATCCTGCATGTGTTGCGGACATACCGCAGCTCTTTGTGAGCGTCTTATTATATG
1 ATCGGTAGTAATCCTACATGTGTTGCGGACATACCACAGCTCTTTATGAGCATCCTATTATATG
* * *
4935451 ATCGGTAGTAATCCTACATGTGTTGCGGACATGCCATAGCTCTTTATGAGCATCCTGTTATATG
1 ATCGGTAGTAATCCTACATGTGTTGCGGACATACCACAGCTCTTTATGAGCATCCTATTATATG
4935515 GCTCTCTAGA
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
64 55 1.00
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.34
Consensus pattern (64 bp):
ATCGGTAGTAATCCTACATGTGTTGCGGACATACCACAGCTCTTTATGAGCATCCTATTATATG
Found at i:4935604 original size:26 final size:26
Alignment explanation
Indices: 4935570--4935677 Score: 116
Period size: 26 Copynumber: 4.3 Consensus size: 26
4935560 TGGCTATCCG
4935570 GAGC-TCCTGATTAAAGGCTCTTCAT
1 GAGCTTCCTGATTAAAGGCTCTTCAT
*
4935595 GAGCTTCCTGTTTAAAGGCTCTTC-T
1 GAGCTTCCTGATTAAAGGCTCTTCAT
* * **
4935620 GAGCTTCCTGATTAAAAGTTCTTTGT
1 GAGCTTCCTGATTAAAGGCTCTTCAT
* *
4935646 GAACTTCCTGATTATA-GCTCTT-AT
1 GAGCTTCCTGATTAAAGGCTCTTCAT
*
4935670 GGGCTTCC
1 GAGCTTCC
4935678 CATAATATAG
Statistics
Matches: 70, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
24 7 0.10
25 30 0.43
26 33 0.47
ACGTcount: A:0.20, C:0.22, G:0.19, T:0.38
Consensus pattern (26 bp):
GAGCTTCCTGATTAAAGGCTCTTCAT
Found at i:4935653 original size:51 final size:50
Alignment explanation
Indices: 4935570--4935677 Score: 119
Period size: 51 Copynumber: 2.2 Consensus size: 50
4935560 TGGCTATCCG
* * * *
4935570 GAGC-TCCTGATTAAAGGCTCTTCATGAGCTTCCTGTTTAAAGGCTCTTCT
1 GAGCTTCCTGATTAAAAGCTCTTCATGAACTTCCTGATTAAA-GCTCTTAT
* ** *
4935620 GAGCTTCCTGATTAAAAGTTCTTTGTGAACTTCCTGATTATAGCTCTTAT
1 GAGCTTCCTGATTAAAAGCTCTTCATGAACTTCCTGATTAAAGCTCTTAT
*
4935670 GGGCTTCC
1 GAGCTTCC
4935678 CATAATATAG
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
50 18 0.38
51 30 0.62
ACGTcount: A:0.20, C:0.22, G:0.19, T:0.38
Consensus pattern (50 bp):
GAGCTTCCTGATTAAAAGCTCTTCATGAACTTCCTGATTAAAGCTCTTAT
Found at i:4935959 original size:23 final size:20
Alignment explanation
Indices: 4935929--4935976 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 20
4935919 CCTGAAATAC
4935929 ATGAAAATGATGGTACATGATAT
1 ATGAAAAT-AT-G-ACATGATAT
*
4935952 ATGAAAATATGAGATGATAT
1 ATGAAAATATGACATGATAT
4935972 ATGAA
1 ATGAA
4935977 CATGGAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 13 0.54
21 1 0.04
22 2 0.08
23 8 0.33
ACGTcount: A:0.48, C:0.02, G:0.21, T:0.29
Consensus pattern (20 bp):
ATGAAAATATGACATGATAT
Found at i:4938300 original size:32 final size:30
Alignment explanation
Indices: 4938251--4938309 Score: 82
Period size: 32 Copynumber: 1.9 Consensus size: 30
4938241 TATTTAGATA
*
4938251 ATTAAAATATTCATATTTATATTACATTTATT
1 ATTAAAACATTCATATTTA-ATTA-ATTTATT
*
4938283 ATTAAAACATTCGTATTTAATTAATTT
1 ATTAAAACATTCATATTTAATTAATTT
4938310 CTAATTGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 4 0.16
31 4 0.16
32 17 0.68
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.51
Consensus pattern (30 bp):
ATTAAAACATTCATATTTAATTAATTTATT
Found at i:4942887 original size:33 final size:32
Alignment explanation
Indices: 4942821--4942883 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
4942811 CACTAACAAC
* *
4942821 TTTTATAAATTTTTTTTAATTATTTTTATGGT
1 TTTTATAAATTTTTTTTAATAAATTTTATGGT
4942853 TTTTAGTAAA-TTTTTTTAATAAATTTTATGG
1 TTTTA-TAAATTTTTTTTAATAAATTTTATGG
4942884 GTTTAATTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 24 0.86
33 4 0.14
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (32 bp):
TTTTATAAATTTTTTTTAATAAATTTTATGGT
Found at i:4947734 original size:33 final size:32
Alignment explanation
Indices: 4947668--4947730 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
4947658 CACTAACAAC
* *
4947668 TTTTATAAATTTTTTTTAATTATTTTTATGGT
1 TTTTATAAATTTTTTTTAATAAATTTTATGGT
4947700 TTTTAGTAAA-TTTTTTTAATAAATTTTATGG
1 TTTTA-TAAATTTTTTTTAATAAATTTTATGG
4947731 GTTTAATTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 24 0.86
33 4 0.14
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (32 bp):
TTTTATAAATTTTTTTTAATAAATTTTATGGT
Found at i:4952927 original size:64 final size:64
Alignment explanation
Indices: 4952802--4952929 Score: 166
Period size: 64 Copynumber: 2.0 Consensus size: 64
4952792 AAGCATCCCA
* * * * * *
4952802 ATCGGTAGTGATCCTGCATGTGTTGCGGACATACCGCAACTCTTTGTGAGCGTCTTATTATATG
1 ATCGGTAGTAATCCTACATGTGTTGCGGACATACCACAACTCTTTATGAGCATCCTATTATATG
* * * *
4952866 ATCGGTAGTAATCCTACATGTGTTGCGGACATGCCATAGCTCTTTATGAGCATCCTGTTATATG
1 ATCGGTAGTAATCCTACATGTGTTGCGGACATACCACAACTCTTTATGAGCATCCTATTATATG
4952930 GCTCTCTAGA
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 54 1.00
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.34
Consensus pattern (64 bp):
ATCGGTAGTAATCCTACATGTGTTGCGGACATACCACAACTCTTTATGAGCATCCTATTATATG
Found at i:4953019 original size:26 final size:26
Alignment explanation
Indices: 4952985--4953092 Score: 116
Period size: 26 Copynumber: 4.3 Consensus size: 26
4952975 TGGCTATCCG
4952985 GAGC-TCCTGATTAAAGGCTCTTCAT
1 GAGCTTCCTGATTAAAGGCTCTTCAT
*
4953010 GAGCTTCCTGTTTAAAGGCTCTTC-T
1 GAGCTTCCTGATTAAAGGCTCTTCAT
* * **
4953035 GAGCTTCCTGATTAAAAGTTCTTTGT
1 GAGCTTCCTGATTAAAGGCTCTTCAT
* *
4953061 GAACTTCCTGATTATA-GCTCTT-AT
1 GAGCTTCCTGATTAAAGGCTCTTCAT
*
4953085 GGGCTTCC
1 GAGCTTCC
4953093 CATAATATAG
Statistics
Matches: 70, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
24 7 0.10
25 30 0.43
26 33 0.47
ACGTcount: A:0.20, C:0.22, G:0.19, T:0.38
Consensus pattern (26 bp):
GAGCTTCCTGATTAAAGGCTCTTCAT
Found at i:4953068 original size:51 final size:50
Alignment explanation
Indices: 4952985--4953092 Score: 119
Period size: 51 Copynumber: 2.2 Consensus size: 50
4952975 TGGCTATCCG
* * * *
4952985 GAGC-TCCTGATTAAAGGCTCTTCATGAGCTTCCTGTTTAAAGGCTCTTCT
1 GAGCTTCCTGATTAAAAGCTCTTCATGAACTTCCTGATTAAA-GCTCTTAT
* ** *
4953035 GAGCTTCCTGATTAAAAGTTCTTTGTGAACTTCCTGATTATAGCTCTTAT
1 GAGCTTCCTGATTAAAAGCTCTTCATGAACTTCCTGATTAAAGCTCTTAT
*
4953085 GGGCTTCC
1 GAGCTTCC
4953093 CATAATATAG
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
50 18 0.38
51 30 0.62
ACGTcount: A:0.20, C:0.22, G:0.19, T:0.38
Consensus pattern (50 bp):
GAGCTTCCTGATTAAAAGCTCTTCATGAACTTCCTGATTAAAGCTCTTAT
Found at i:4953592 original size:22 final size:21
Alignment explanation
Indices: 4953562--4953619 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 21
4953552 ATACAATCGT
*
4953562 AGATTTGATATGTAATCTTAG
1 AGATTTGATTTGTAATCTTAG
* *
4953583 AAGATATGATTTTGTTATCTTAG
1 -AGATTTGA-TTTGTAATCTTAG
4953606 AGATTTGATTTGTA
1 AGATTTGATTTGTA
4953620 GATACCATTC
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 5 0.17
22 14 0.47
23 11 0.37
ACGTcount: A:0.31, C:0.03, G:0.19, T:0.47
Consensus pattern (21 bp):
AGATTTGATTTGTAATCTTAG
Done.