Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 378 of 444
Found at i:109811862 original size:85 final size:85
Alignment explanation
Indices: 109811627--109811900 Score: 298
Period size: 85 Copynumber: 3.2 Consensus size: 85
109811617 AAAGATATGT
* * * **
109811627 TCTTTAGCAGCGTTTTCGGAAAAAGCACCGCTAAAGGTCATGGTT-TTTAGCGGCGTTTGTAAGA
1 TCTTTAGCGGCGTTTTTGG-AAAAGCGCCGCTAAAGGTCAT-GTTCTTTAGCGGCGTTTGTGGGA
* *
109811691 AAAGCGCTGCTAAAGGTCATGA
64 AAAGTGCCGCTAAAGGTCATGA
* * * * * * * * *
109811713 TTTTTAACAGCGTTTGTAGGAAAAGCGTCGCTAAAAGTCATGGTCTTTAGCGGCTTTTGCGGGAA
1 TCTTTAGCGGCGTTT-TTGGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAA
* * *
109811778 AAGTACCGTTAAAGGTCATGG
65 AAGTGCCGCTAAAGGTCATGA
* *
109811799 TCTTTAGCGGCATTTTTGGGAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAA
1 TCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAA
* *
109811864 AGTGCCGCTACAGATCATGA
66 AGTGCCGCTAAAGGTCATGA
*
109811884 CCTTTAGCGGCGTTTTT
1 TCTTTAGCGGCGTTTTT
109811901 TTTCATAAAC
Statistics
Matches: 152, Mismatches: 34, Indels: 5
0.80 0.18 0.03
Matches are distributed among these distances:
85 75 0.49
86 74 0.49
87 3 0.02
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (85 bp):
TCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAA
AGTGCCGCTAAAGGTCATGA
Found at i:109818615 original size:91 final size:92
Alignment explanation
Indices: 109818506--109818675 Score: 306
Period size: 91 Copynumber: 1.9 Consensus size: 92
109818496 CGCCCATAAG
* *
109818506 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
109818571 ACGAG-TCGGATGCCTAGTTACATTCA
66 ACGAGTTCGGATGCCTAGTTACATTCA
*
109818597 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
109818662 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
109818676 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
91 67 0.89
92 8 0.11
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTCA
Found at i:109818672 original size:46 final size:46
Alignment explanation
Indices: 109818499--109818672 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
109818489 TGTAACCCGC
* * *
109818499 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
109818545 CCATAAGTGAACTCGGACTCAACTCAACGAG-TCGG--ATGC-CTAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--T
* *
109818590 ACATTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA-TAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
109818636 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
109818673 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 1 0.01
43 3 0.03
45 32 0.29
46 68 0.62
48 4 0.04
49 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:109818691 original size:46 final size:46
Alignment explanation
Indices: 109818507--109818691 Score: 136
Period size: 46 Copynumber: 4.0 Consensus size: 46
109818497 GCCCATAAGC
* ** * *
109818507 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCC-T-AGT
* *
109818553 GAACTCGGACTCAACTCAACGAG-TCGGATGC-CTAGTTA-CATTC-A-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCCTAGT
* * * *
109818598 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATCCTAGT
109818644 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
109818690 GA
1 GA
109818692 CATGTCACTT
Statistics
Matches: 112, Mismatches: 12, Indels: 30
0.73 0.08 0.19
Matches are distributed among these distances:
44 10 0.09
45 29 0.26
46 64 0.57
48 4 0.04
49 5 0.04
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
Found at i:109824585 original size:40 final size:40
Alignment explanation
Indices: 109824500--109824650 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
109824490 AATTGAATGA
* * *
109824500 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
109824540 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
109824581 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
109824620 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
109824651 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:109824664 original size:40 final size:40
Alignment explanation
Indices: 109824537--109824666 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
109824527 ATGCTGGAAA
* * * *
109824537 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
109824577 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
109824617 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
109824657 TTATATCCGG
1 TTATATCCGG
109824667 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:109832139 original size:38 final size:38
Alignment explanation
Indices: 109832097--109832173 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
109832087 CTAGAGTCCT
109832097 AGTTTAATTTCATCCATTTGGATTATTCCTAAACGCCA
1 AGTTTAATTTCATCCATTTGGATTATTCCTAAACGCCA
109832135 AGTTTAATTTCATCCATTTGGATTATTCCTAAACGCCA
1 AGTTTAATTTCATCCATTTGGATTATTCCTAAACGCCA
109832173 A
1 A
109832174 ATTTTGTGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.39
Consensus pattern (38 bp):
AGTTTAATTTCATCCATTTGGATTATTCCTAAACGCCA
Found at i:109835295 original size:8 final size:8
Alignment explanation
Indices: 109835287--109835316 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
109835277 CTCTGATTCT
*
109835287 CTCTCTCT
1 CTCTCTCC
109835295 CTCTCTCC
1 CTCTCTCC
109835303 CTCTCTCC
1 CTCTCTCC
109835311 CTCTCT
1 CTCTCT
109835317 TCCCCATCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (8 bp):
CTCTCTCC
Found at i:109836043 original size:4 final size:4
Alignment explanation
Indices: 109836034--109836078 Score: 90
Period size: 4 Copynumber: 11.2 Consensus size: 4
109836024 TCATATATAG
109836034 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT A
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT A
109836079 CAAGTGAGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.24, T:0.24
Consensus pattern (4 bp):
AGAT
Found at i:109837283 original size:13 final size:13
Alignment explanation
Indices: 109837265--109837290 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
109837255 ATCCCAAATT
109837265 TAAAAAATAAAAA
1 TAAAAAATAAAAA
109837278 TAAAAAATAAAAA
1 TAAAAAATAAAAA
109837291 CATGAAAAGA
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
TAAAAAATAAAAA
Found at i:109843212 original size:25 final size:26
Alignment explanation
Indices: 109843172--109843222 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
109843162 CTTTAAAAAA
*
109843172 TATTTTTTATTCATTCCTT-TTCTTTT
1 TATTTTTTATTAATT-CTTCTTCTTTT
109843198 TATTTTTTA-TAATTCTTCTTCTTTT
1 TATTTTTTATTAATTCTTCTTCTTTT
109843223 GTTCAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 3 0.13
25 11 0.48
26 9 0.39
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.73
Consensus pattern (26 bp):
TATTTTTTATTAATTCTTCTTCTTTT
Found at i:109844150 original size:21 final size:21
Alignment explanation
Indices: 109844124--109844164 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
109844114 TAACGGAATC
109844124 GCTGATGTGACAAGTTAACTA
1 GCTGATGTGACAAGTTAACTA
* *
109844145 GCTGATGTGGCCAGTTAACT
1 GCTGATGTGACAAGTTAACT
109844165 TGTCACGTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (21 bp):
GCTGATGTGACAAGTTAACTA
Found at i:109847399 original size:18 final size:16
Alignment explanation
Indices: 109847370--109847404 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
109847360 TGTATTTGAT
109847370 AAATTAAATAAATTTA
1 AAATTAAATAAATTTA
109847386 AAATTAACACTAAATTTA
1 AAATTAA-A-TAAATTTA
109847404 A
1 A
109847405 TCTATTAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 1 0.06
18 9 0.53
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (16 bp):
AAATTAAATAAATTTA
Found at i:109852958 original size:22 final size:22
Alignment explanation
Indices: 109852943--109852984 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
109852933 TTATATGTGT
109852943 ATATA-TA-TACTTTTATATAT
1 ATATAGTATTACTTTTATATAT
*
109852963 ATATAGTATTATTTTTATATAT
1 ATATAGTATTACTTTTATATAT
109852985 TATTATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 2 0.11
22 12 0.63
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
ATATAGTATTACTTTTATATAT
Found at i:109852999 original size:12 final size:12
Alignment explanation
Indices: 109852982--109853012 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
109852972 TATTTTTATA
109852982 TATTATTATATT
1 TATTATTATATT
109852994 TATTATTATATT
1 TATTATTATATT
109853006 TATTATT
1 TATTATT
109853013 TTCACTATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TATTATTATATT
Found at i:109853009 original size:16 final size:16
Alignment explanation
Indices: 109852946--109853002 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
109852936 TATGTGTATA
*
109852946 TATATACTT-TTATATA
1 TATATA-TTATTATATT
* *
109852962 TATATAGTATTATTTT
1 TATATATTATTATATT
109852978 TATATATTATTATATT
1 TATATATTATTATATT
109852994 TAT-TATTAT
1 TATATATTAT
109853003 ATTTATTATT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
15 7 0.20
16 28 0.80
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (16 bp):
TATATATTATTATATT
Found at i:109865269 original size:14 final size:14
Alignment explanation
Indices: 109865245--109865281 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
109865235 CACGCTGAGG
109865245 TATTTTT-AATTTC
1 TATTTTTCAATTTC
*
109865258 TGTTTTTCAATTTC
1 TATTTTTCAATTTC
109865272 TATTTTTCAA
1 TATTTTTCAA
109865282 AAAATCAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 6 0.29
14 15 0.71
ACGTcount: A:0.22, C:0.11, G:0.03, T:0.65
Consensus pattern (14 bp):
TATTTTTCAATTTC
Found at i:109865278 original size:106 final size:105
Alignment explanation
Indices: 109865086--109865278 Score: 271
Period size: 106 Copynumber: 1.8 Consensus size: 105
109865076 TTTTTGTTTT
* * * * * *
109865086 AAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGCCACATGCCGAGGTCTTTTCAAA
1 AAAAAATCAAATCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACACGCCGAGGTATTTTCAAA
109865151 TTCTGTTTTTAATTTCTTTTTTTTCAATTTTTGTGTTTCAA
65 TTCTGTTTTTAATTTCTTTTTTTTCAATTTTTGTGTTTCAA
* * *
109865192 AAAAAATCAAATCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTATTTTTAATT
1 AAAAAATCAAATCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACGCCGAGGTATTTTCAAAT
*
109865256 TCTGTTTTTCAATTTCTATTTTT
66 TCTGTTTTT-AATTTCTTTTTTT
109865279 CAAAAAATCA
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
104 26 0.34
105 12 0.16
106 38 0.50
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (105 bp):
AAAAAATCAAATCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACGCCGAGGTATTTTCAAAT
TCTGTTTTTAATTTCTTTTTTTTCAATTTTTGTGTTTCAA
Found at i:109865308 original size:88 final size:91
Alignment explanation
Indices: 109865156--109865340 Score: 250
Period size: 88 Copynumber: 2.0 Consensus size: 91
109865146 TCAAATTCTG
* * *
109865156 TTTTTAATTTCTTTTTTTTCAATTTTTGTGTTTCAAAAAAAATCAAATCATATTGCGAGAGGTGA
1 TTTTTAATTTCTTGTTTTTCAATTTCTATGTTTC-AAAAAAATCAAATCATATTGCGAGAGGTGA
109865221 GTTGAGCCTCAG-GACACGCTGAGGTA
65 GTTGAGCCTCAGTGACACGCTGAGGTA
* * *
109865247 TTTTTAATTTC-TGTTTTTCAATTTCTATTTTTC-AAAAAATCAACTCATATTGTGAGAGGTGAG
1 TTTTTAATTTCTTGTTTTTCAATTTCTATGTTTCAAAAAAATCAAATCATATTGCGAGAGGTGAG
** *
109865310 TTGAGCCTTGGTTGACATGCTGAGGTA
66 TTGAGCCTCAG-TGACACGCTGAGGTA
109865337 TTTT
1 TTTT
109865341 CTGTTCGTCA
Statistics
Matches: 83, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
88 37 0.45
90 35 0.42
91 11 0.13
ACGTcount: A:0.26, C:0.12, G:0.18, T:0.43
Consensus pattern (91 bp):
TTTTTAATTTCTTGTTTTTCAATTTCTATGTTTCAAAAAAATCAAATCATATTGCGAGAGGTGAG
TTGAGCCTCAGTGACACGCTGAGGTA
Found at i:109865397 original size:69 final size:69
Alignment explanation
Indices: 109865281--109865410 Score: 179
Period size: 69 Copynumber: 1.9 Consensus size: 69
109865271 CTATTTTTCA
* * * *** *
109865281 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTTGGTTGACATGCTGAGGTATTTTCTGTT
1 AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGCCACATGCCGAGGTATTTTCTGTT
109865346 CGTC
66 CGTC
* *
109865350 AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGTCTCGGGCCACATGCCGAGGTCTTTTC
1 AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGCCACATGCCGAGGTATTTTC
109865411 AAATTCTGTT
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
69 52 1.00
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (69 bp):
AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGCCACATGCCGAGGTATTTTCTGTT
CGTC
Found at i:109865549 original size:74 final size:74
Alignment explanation
Indices: 109865427--109865588 Score: 288
Period size: 74 Copynumber: 2.2 Consensus size: 74
109865417 TGTTTTTAAG
*
109865427 TTTTGTTTTTCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAAG
1 TTTTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAAG
109865492 TATTTTCAAT
65 TATTTTCAAT
* *
109865502 TTTTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
1 TTTTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAAGT
109865567 ATTTTCAAT
66 ATTTTCAAT
109865576 TTTTGTTTTTCAA
1 TTTTGTTTTTCAA
109865589 TTTCTGCTTT
Statistics
Matches: 83, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
74 73 0.88
75 10 0.12
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.36
Consensus pattern (74 bp):
TTTTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAAGT
ATTTTCAAT
Found at i:109865619 original size:162 final size:162
Alignment explanation
Indices: 109865171--109865873 Score: 879
Period size: 162 Copynumber: 4.3 Consensus size: 162
109865161 AATTTCTTTT
*
109865171 TTTTCAATTTTTG-TGTTTCAAAAAAAATCAAATCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
1 TTTTCAATTTTTGCT-TTTC--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
* * * *
109865235 CACGCTGAGGTATTTTTAATTTCTGTTTTTCAATTTCTATTTTTCAAAAAATCAACTCATATTGT
63 CACGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTCTGTTTTTAAAAAAATCAACTCATATTGC
** * *
109865300 GAGAGGTGAGTTGAGCCTTGGTTGACATGCTGAGGTA
128 GAGAGGTGAGTTGAGCCTCAG--GACACGCTGAAGTA
* * * * *
109865337 TTTTC---TGTT-C--GTC-AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGTCTCGGGCCAC
1 TTTTCAATTTTTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--AC
* * * * *
109865395 ATGCCGAGGTCTTTTCAAATTCTGTTTTT-AAGTTT-TGTTTTTCAAAAAAATTAACTCATATTG
64 ACGCTGAGGTATTTTCAATTTCTGTTTTTCAA-TTTCTGTTTTT-AAAAAAATCAACTCATATTG
109865458 CGAGAGGTGAGTTGAGCCTCAGGACACGCTGAAGTA
127 CGAGAGGTGAGTTGAGCCTCAGGACACGCTGAAGTA
109865494 TTTTCAATTTTTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
1 TTTTCAATTTTTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
* * *
109865559 GCTGAGGTATTTTCAATTTTTGTTTTTCAATTTCTGCTTTTAAAAAAATCAACTCATATTGCAAG
66 GCTGAGGTATTTTCAATTTCTGTTTTTCAATTTCTGTTTTTAAAAAAATCAACTCATATTGCGAG
* *
109865624 AGGTGAGTTGAGCCTCAGGACACACTGAAGAA
131 AGGTGAGTTGAGCCTCAGGACACGCTGAAGTA
* * *
109865656 TTTTCAATTTCTGCTTTTCAAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCAGGACAT
1 TTTTCAATTTTTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
* * * * *
109865721 GCTGAGGTATTTTCAATTTCTGCTATTCAATTTATGTGTTT-CAAAAATCAACTCATATTGCGAG
66 GCTGAGGTATTTTCAATTTCTGTTTTTCAATTTCTGTTTTTAAAAAAATCAACTCATATTGCGAG
* * *
109865785 AGGTGAGTTGAACCTCAGGTCACACGCCGAGGTA
131 AGGTGAGTTGAGCCTCAGG--ACACGCTGAAGTA
* * *
109865819 TTTCCAATTTTAGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
1 TTTTCAATTTTTGCTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
109865874 TCCTAGGTCA
Statistics
Matches: 465, Mismatches: 55, Indels: 36
0.84 0.10 0.06
Matches are distributed among these distances:
157 54 0.12
158 8 0.02
159 66 0.14
160 5 0.01
161 40 0.09
162 178 0.38
163 37 0.08
164 72 0.15
166 5 0.01
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (162 bp):
TTTTCAATTTTTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
GCTGAGGTATTTTCAATTTCTGTTTTTCAATTTCTGTTTTTAAAAAAATCAACTCATATTGCGAG
AGGTGAGTTGAGCCTCAGGACACGCTGAAGTA
Found at i:109865643 original size:88 final size:88
Alignment explanation
Indices: 109865494--109865676 Score: 294
Period size: 88 Copynumber: 2.1 Consensus size: 88
109865484 CGCTGAAGTA
* * *
109865494 TTTTCAATTTTTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
1 TTTTCAATTTCTGCTTTTAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACAC
* * * * *
109865559 GCTGAGGTATTTTCAATTTTTGT
66 ACTGAAGAATTTTCAATTTCTGC
109865582 TTTTCAATTTCTGCTTTTAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACAC
1 TTTTCAATTTCTGCTTTTAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACAC
109865647 ACTGAAGAATTTTCAATTTCTGC
66 ACTGAAGAATTTTCAATTTCTGC
109865670 TTTTCAA
1 TTTTCAA
109865677 AAAATCAACT
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 87 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (88 bp):
TTTTCAATTTCTGCTTTTAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACAC
ACTGAAGAATTTTCAATTTCTGC
Found at i:109865703 original size:74 final size:74
Alignment explanation
Indices: 109865582--109865750 Score: 268
Period size: 74 Copynumber: 2.3 Consensus size: 74
109865572 CAATTTTTGT
*
109865582 TTTTCAATTTCTGCTTTTAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACAC
1 TTTTCAATTTCTGCTTTTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACAC
109865647 ACTGAAGAA
66 ACTGAAGAA
109865656 TTTTCAATTTCTGCTTTTCAAAAAATCAACTCATATTG-AGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGCTTTTCAAAAAATCAACTCATATTGCA-AGAGGTGAGTTGAGCCTCAGGACA
** * *
109865720 TGCTGAGGTA
65 CACTGAAGAA
*
109865730 TTTTCAATTTCTGCTATTCAA
1 TTTTCAATTTCTGCTTTTCAA
109865751 TTTATGTGTT
Statistics
Matches: 88, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
73 1 0.01
74 87 0.99
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (74 bp):
TTTTCAATTTCTGCTTTTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACAC
ACTGAAGAA
Found at i:109867699 original size:20 final size:20
Alignment explanation
Indices: 109867656--109867693 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
109867646 CTATTATCGT
*
109867656 TTTTATTATTATTAGTATAC
1 TTTTACTATTATTAGTATAC
109867676 TTTTACTATTATTAGTAT
1 TTTTACTATTATTAGTAT
109867694 TATTTTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (20 bp):
TTTTACTATTATTAGTATAC
Found at i:109867920 original size:14 final size:14
Alignment explanation
Indices: 109867903--109867963 Score: 61
Period size: 14 Copynumber: 4.4 Consensus size: 14
109867893 ATTATATGTG
*
109867903 TATATATATAGTTT
1 TATATATATAGTAT
109867917 TATATATATAGTAT
1 TATATATATAGTAT
* *
109867931 TATTTTTATA-TAT
1 TATATATATAGTAT
* *
109867944 TATTATATTTATTAT
1 TA-TATATATAGTAT
109867959 TATAT
1 TATAT
109867964 TTATTATTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
13 5 0.13
14 29 0.74
15 5 0.13
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (14 bp):
TATATATATAGTAT
Found at i:109867940 original size:16 final size:16
Alignment explanation
Indices: 109867907--109867955 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
109867897 TATGTGTATA
*
109867907 TATATAGT-TT-TATA
1 TATATAGTATTATATT
*
109867921 TATATAGTATTATTTT
1 TATATAGTATTATATT
*
109867937 TATATATTATTATATT
1 TATATAGTATTATATT
109867953 TAT
1 TAT
109867956 TATTATATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 8 0.28
15 2 0.07
16 19 0.66
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (16 bp):
TATATAGTATTATATT
Found at i:109867947 original size:3 final size:3
Alignment explanation
Indices: 109867928--109868011 Score: 50
Period size: 3 Copynumber: 28.0 Consensus size: 3
109867918 ATATATATAG
* *
109867928 TAT TAT TTT TAT ATAT TAT TA- TATT TAT TAT TA- TATT TAT TAT TTT
1 TAT TAT TAT TAT -TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT
* * * *
109867974 TAC TAT TGT TACT TAT TAT T-T TAT T-T TAA CAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
109868012 GTCAAACTTG
Statistics
Matches: 61, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
2 8 0.13
3 43 0.70
4 10 0.16
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:109867950 original size:28 final size:27
Alignment explanation
Indices: 109867891--109867971 Score: 71
Period size: 28 Copynumber: 3.1 Consensus size: 27
109867881 AGTATAAATT
* *
109867891 TTATTATATGT-GTA-TATATATAGTT-
1 TTATTATATATAGTATTATATTTA-TTA
*
109867916 TTA-TATATATAGTATTATTTTTATATA
1 TTATTATATATAGTATTATATTTAT-TA
* *
109867943 TTATTATATTTATTATTATATTTATTA
1 TTATTATATATAGTATTATATTTATTA
109867970 TT
1 TT
109867972 TTTACTATTG
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
24 6 0.13
25 7 0.16
26 7 0.16
27 7 0.16
28 18 0.40
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (27 bp):
TTATTATATATAGTATTATATTTATTA
Found at i:109867958 original size:12 final size:12
Alignment explanation
Indices: 109867941--109867971 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
109867931 TATTTTTATA
109867941 TATTATTATATT
1 TATTATTATATT
109867953 TATTATTATATT
1 TATTATTATATT
109867965 TATTATT
1 TATTATT
109867972 TTTACTATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TATTATTATATT
Found at i:109867975 original size:9 final size:9
Alignment explanation
Indices: 109867928--109868000 Score: 60
Period size: 9 Copynumber: 8.0 Consensus size: 9
109867918 ATATATATAG
109867928 TATTATTTT
1 TATTATTTT
*
109867937 TATATATTAT
1 TAT-TATTTT
109867947 TA-TATTTAT
1 TATTATTT-T
*
109867956 TATTATATT
1 TATTATTTT
109867965 TATTATTTT
1 TATTATTTT
* *
109867974 TACTATTGT
1 TATTATTTT
*
109867983 TACTTATTAT
1 TA-TTATTTT
109867993 T-TTATTTT
1 TATTATTTT
109868001 AACATTATTA
Statistics
Matches: 51, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
8 10 0.20
9 24 0.47
10 17 0.33
ACGTcount: A:0.27, C:0.03, G:0.01, T:0.68
Consensus pattern (9 bp):
TATTATTTT
Found at i:109887738 original size:40 final size:40
Alignment explanation
Indices: 109887693--109887859 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
109887683 CGGAATATAA
109887693 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
109887733 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
109887773 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
109887813 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
109887852 CCGGATAT
1 CCGGATAT
109887860 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:109895746 original size:40 final size:40
Alignment explanation
Indices: 109895701--109895867 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
109895691 CGGAATATAA
109895701 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
109895741 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
109895781 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
109895821 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
109895860 CCGGATAT
1 CCGGATAT
109895868 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:109898452 original size:14 final size:14
Alignment explanation
Indices: 109898433--109898461 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
109898423 TCGATTGTCC
109898433 CCTCTAATGAGACA
1 CCTCTAATGAGACA
109898447 CCTCTAATGAGACA
1 CCTCTAATGAGACA
109898461 C
1 C
109898462 AACGGAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.31, G:0.14, T:0.21
Consensus pattern (14 bp):
CCTCTAATGAGACA
Found at i:109898980 original size:13 final size:13
Alignment explanation
Indices: 109898941--109898993 Score: 72
Period size: 13 Copynumber: 4.1 Consensus size: 13
109898931 AGTTTGGCAA
109898941 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
109898954 TGC-TGTGAAAAAG
1 TGCTTTTG-AAAAG
*
109898967 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
109898980 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
109898993 T
1 T
109898994 TTGGTTTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
12 3 0.09
13 28 0.82
14 3 0.09
ACGTcount: A:0.30, C:0.08, G:0.26, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:109906799 original size:44 final size:44
Alignment explanation
Indices: 109906736--109907201 Score: 254
Period size: 44 Copynumber: 10.0 Consensus size: 44
109906726 CATCGTGGCG
*
109906736 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACA
* * * * * * *
109906780 AATCTTATCTACCTAAAGTTACAATGGAGCAGTTTAAAGATAGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTA-CA
* *
109906825 AATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T-----TA-AAGTTACA
* * * *
109906876 AATCTTATTTCCCTAAAGTTGGAGTGGAACAGATTAAAGATTGAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG--T-----TACA
* *
109906927 AATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACA
* * * ** * * * **
109906971 AATCTTATCTTCCTGAACTTACAACGGAGTAAATTGAAGCGACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACA
* * ***
109907015 AATCCTATAC-CTCTGAAGTTGCAGTGGATTGGATTAAA-TCTACCATAA
1 AATCTTAT-CTCCCTGAAGTTGCAGTGGAGCAGATTAAAGT-TA-C---A
* * * * *
109907063 CAAGTCTTATTTCCCTAAAGTTGCAGTGAAATAGACTAAAGTTACAAGCTACA
1 -AA-TCTTATCTCCCTGAAGTTGCAGTG---GAG-C-AGA-TTA-AAGTTACA
* * * *
109907116 AACCTTATCTCCCTGAAGTTACAGTGGAGTAGACTGAAA-TTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAGTTACA
* *
109907160 AGTCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGTTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTA
109907202 TAAAATCCTT
Statistics
Matches: 317, Mismatches: 72, Indels: 66
0.70 0.16 0.15
Matches are distributed among these distances:
43 4 0.01
44 138 0.44
45 34 0.11
46 6 0.02
48 3 0.01
49 3 0.01
50 20 0.06
51 91 0.29
52 7 0.02
53 2 0.01
55 1 0.00
56 4 0.01
57 4 0.01
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACA
Found at i:109906844 original size:45 final size:45
Alignment explanation
Indices: 109906733--109906987 Score: 208
Period size: 51 Copynumber: 5.4 Consensus size: 45
109906723 AGTCATCGTG
*
109906733 GCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTA
1 GCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATA
* * * * *
109906778 -CGAATCTTATCTACCTAAAGTTACAATGGAGCAGTTTAAAGATA
1 GCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATA
* * *
109906822 GCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAA
1 GCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG--A-TA
* * * * *
109906870 GTTACAAATCTTATTTCCCTAAAGTTGGAGTGGAACAGATTAAAGATTGAA
1 G---CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGA-T--A
* * * *
109906921 GCTACAAATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGTTA
1 G---CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATA
* *
109906969 -CAAATCTTATCTTCCTGAA
1 GCGAATCTTATCTCCCTGAA
109906988 CTTACAACGG
Statistics
Matches: 172, Mismatches: 29, Indels: 19
0.78 0.13 0.09
Matches are distributed among these distances:
44 55 0.32
45 34 0.20
47 1 0.01
48 3 0.02
49 1 0.01
50 1 0.01
51 77 0.45
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (45 bp):
GCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATA
Found at i:109907143 original size:189 final size:191
Alignment explanation
Indices: 109906739--109907176 Score: 515
Period size: 189 Copynumber: 2.3 Consensus size: 191
109906729 CGTGGCGAAT
* * * *
109906739 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACGAATCTTATCTACCTAAAGTTACAA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTACCTGAACTTACAA
* ** * * * *
109906804 TGGAGCAGTTTAAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACA
66 CGGAGCAAATTAAAGAGAGCAAATCCTATTACCCTGAAGTTGCAGTGGAACAGATTAAAGCTACA
* * * * * *
109906869 AGTTACAAATCTTATTTCCCTAAAGTTGGAGTGGAACAGATTAAAGATTGAAGCTACAAAT
131 AGTAACAAATCTTATTTCCCTAAAGTTGCAGTGAAACAGACTAAAGATTCAAGCTACAAAC
* *
109906930 CTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTTCCTGAACTTACAA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTACCTGAACTTACAA
* * * *** *
109906995 CGGAGTAAATTGAAGCGA-CAAATCCTA-TACCTCTGAAGTTGCAGTGGATTGGATTAAATCTAC
66 CGGAGCAAATTAAAGAGAGCAAATCCTATTACC-CTGAAGTTGCAGTGGAACAGATTAAAGCTAC
* * *
109907058 CA-TAACAAGTCTTATTTCCCTAAAGTTGCAGTGAAATAGACTAAAG-TTACAAGCTACAAAC
130 AAGTAACAAATCTTATTTCCCTAAAGTTGCAGTGAAACAGACTAAAGATT-CAAGCTACAAAC
* * * * * *
109907119 CTTATCTCCCTGAAGTTACAGTGGAGTAGACTGAAATTACAAGTCTTATCTCCCTGAA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTACCTGAA
109907177 GTTGCAGTGG
Statistics
Matches: 209, Mismatches: 36, Indels: 6
0.83 0.14 0.02
Matches are distributed among these distances:
188 2 0.01
189 102 0.49
190 35 0.17
191 70 0.33
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.29
Consensus pattern (191 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTACCTGAACTTACAA
CGGAGCAAATTAAAGAGAGCAAATCCTATTACCCTGAAGTTGCAGTGGAACAGATTAAAGCTACA
AGTAACAAATCTTATTTCCCTAAAGTTGCAGTGAAACAGACTAAAGATTCAAGCTACAAAC
Found at i:109907607 original size:8 final size:8
Alignment explanation
Indices: 109907594--109907623 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
109907584 ATGATGGGGA
109907594 AGAGAGGG
1 AGAGAGGG
109907602 AGAGAGGG
1 AGAGAGGG
*
109907610 AGAGAGAG
1 AGAGAGGG
109907618 AGAGAG
1 AGAGAG
109907624 AGAATCAGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (8 bp):
AGAGAGGG
Found at i:109910781 original size:38 final size:38
Alignment explanation
Indices: 109910730--109910806 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
109910720 AACACAAAAT
109910730 TTGGCGTTTAGGAATAATCCAAATGGATGAAATTAAAC
1 TTGGCGTTTAGGAATAATCCAAATGGATGAAATTAAAC
109910768 TTGGCGTTTAGGAATAATCCAAATGGATGAAATTAAAC
1 TTGGCGTTTAGGAATAATCCAAATGGATGAAATTAAAC
109910806 T
1 T
109910807 AGGACTCTAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.30
Consensus pattern (38 bp):
TTGGCGTTTAGGAATAATCCAAATGGATGAAATTAAAC
Found at i:109910818 original size:38 final size:38
Alignment explanation
Indices: 109910732--109910818 Score: 131
Period size: 38 Copynumber: 2.3 Consensus size: 38
109910722 CACAAAATTT
* *
109910732 GGCGTTTAGGAATAATCCAAATGGATGAAATTAAACTT
1 GGCGTCTAGGAATAATCCAAATGGATGAAATTAAACTA
*
109910770 GGCGTTTAGGAATAATCCAAATGGATGAAATTAAACTA
1 GGCGTCTAGGAATAATCCAAATGGATGAAATTAAACTA
109910808 GGAC-TCTAGGA
1 GG-CGTCTAGGA
109910819 GACAGTGGAA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
38 45 0.98
39 1 0.02
ACGTcount: A:0.39, C:0.11, G:0.23, T:0.26
Consensus pattern (38 bp):
GGCGTCTAGGAATAATCCAAATGGATGAAATTAAACTA
Found at i:109918292 original size:40 final size:39
Alignment explanation
Indices: 109918247--109918376 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
109918237 CGGAATATAA
109918247 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
109918287 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
109918327 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
109918367 CCGGATATAA
1 CCGGATATAA
109918377 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:109918391 original size:40 final size:40
Alignment explanation
Indices: 109918263--109918414 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
109918253 ATAACCATGT
* * *
109918263 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
109918303 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
109918343 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
109918383 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
109918415 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:109918397 original size:80 final size:80
Alignment explanation
Indices: 109918263--109918412 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
109918253 ATAACCATGT
*
109918263 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
109918327 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
109918343 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
109918406 CCCGGAT
64 CCCGGAT
109918413 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:109925478 original size:24 final size:24
Alignment explanation
Indices: 109925450--109925501 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
109925440 TTTGCAGGTC
*
109925450 AAATAAATTATG-CTAATAAATGCT
1 AAATAAATTA-GACTAATAAATACT
*
109925474 AAATATATTAGACTAATAAATACT
1 AAATAAATTAGACTAATAAATACT
109925498 AAAT
1 AAAT
109925502 CAAGAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 1 0.04
24 24 0.96
ACGTcount: A:0.54, C:0.08, G:0.06, T:0.33
Consensus pattern (24 bp):
AAATAAATTAGACTAATAAATACT
Found at i:109926756 original size:12 final size:12
Alignment explanation
Indices: 109926741--109926765 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
109926731 ATACCAATAG
109926741 GGTTAATTGCGT
1 GGTTAATTGCGT
109926753 GGTTAATTGCGT
1 GGTTAATTGCGT
109926765 G
1 G
109926766 CTAGTATAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.36, T:0.40
Consensus pattern (12 bp):
GGTTAATTGCGT
Found at i:109937720 original size:20 final size:20
Alignment explanation
Indices: 109937692--109937753 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 20
109937682 ACCGGAGTAA
*
109937692 AAATAGGGGCACGGAAGTGC
1 AAATAGGGGCACAGAAGTGC
* ** * *
109937712 AATTAGGGGTGCCGAAGTAC
1 AAATAGGGGCACAGAAGTGC
*
109937732 AAATAGGGGCACATAAGTGC
1 AAATAGGGGCACAGAAGTGC
109937752 AA
1 AA
109937754 CCAGGGGTAC
Statistics
Matches: 31, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.37, C:0.15, G:0.34, T:0.15
Consensus pattern (20 bp):
AAATAGGGGCACAGAAGTGC
Found at i:109937750 original size:40 final size:40
Alignment explanation
Indices: 109937681--109937892 Score: 210
Period size: 40 Copynumber: 5.3 Consensus size: 40
109937671 GATTTAGAGT
* * * * *
109937681 TACCGGAGTAAAAATAGGGGCACGGAAGTGCAATTAGGGG
1 TACCGAAGTACAAATAGGGGCACGTATGTGCAATCAGGGG
* * * *
109937721 TGCCGAAGTACAAATAGGGGCACATAAGTGCAACCAGGGG
1 TACCGAAGTACAAATAGGGGCACGTATGTGCAATCAGGGG
* *
109937761 TACCAAAGTACAAACAGGGGCACGTATGTGCAATCAGGGG
1 TACCGAAGTACAAATAGGGGCACGTATGTGCAATCAGGGG
* * * * * *
109937801 TACTGAAGTATAAACAAGGGCATGTATGTGTAATCAGGGG
1 TACCGAAGTACAAATAGGGGCACGTATGTGCAATCAGGGG
* * * *
109937841 TACCTAAGTAC-AATAGGGGCACATATGTGCAATTAAGGG
1 TACCGAAGTACAAATAGGGGCACGTATGTGCAATCAGGGG
* *
109937880 TATCAAAGTACAA
1 TACCGAAGTACAA
109937893 TAAATTTCTA
Statistics
Matches: 140, Mismatches: 31, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
39 30 0.21
40 110 0.79
ACGTcount: A:0.36, C:0.16, G:0.30, T:0.18
Consensus pattern (40 bp):
TACCGAAGTACAAATAGGGGCACGTATGTGCAATCAGGGG
Found at i:109937759 original size:20 final size:20
Alignment explanation
Indices: 109937726--109937800 Score: 62
Period size: 20 Copynumber: 3.8 Consensus size: 20
109937716 AGGGGTGCCG
* *
109937726 AAGTACAAATAGGGGCACAT
1 AAGTGCAAACAGGGGCACAT
* *
109937746 AAGTGCAACCAGGGGTACCA-
1 AAGTGCAAACAGGGGCA-CAT
* *
109937766 AAGTACAAACAGGGGCACGT
1 AAGTGCAAACAGGGGCACAT
* *
109937786 ATGTGCAATCAGGGG
1 AAGTGCAAACAGGGG
109937801 TACTGAAGTA
Statistics
Matches: 42, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
19 1 0.02
20 39 0.93
21 2 0.05
ACGTcount: A:0.37, C:0.19, G:0.31, T:0.13
Consensus pattern (20 bp):
AAGTGCAAACAGGGGCACAT
Found at i:109939253 original size:13 final size:13
Alignment explanation
Indices: 109939231--109939260 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
109939221 TGGGTTCATT
109939231 ATTA-GAGCTACA
1 ATTATGAGCTACA
109939243 ATTATGAGCTACA
1 ATTATGAGCTACA
109939256 ATTAT
1 ATTAT
109939261 CCACTGTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (13 bp):
ATTATGAGCTACA
Found at i:109947191 original size:27 final size:29
Alignment explanation
Indices: 109947158--109947218 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 29
109947148 TGTTGGTTTA
*
109947158 ATTTAAA-TCATTTGTTTAT-TTATTATT
1 ATTTAAACTCATTAGTTTATATTATTATT
* *
109947185 ATTTAAACTTTATTAGTTTTTATTATTATT
1 ATTTAAAC-TCATTAGTTTATATTATTATT
109947215 ATTT
1 ATTT
109947219 CTTTATTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 7 0.25
29 9 0.32
30 12 0.43
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (29 bp):
ATTTAAACTCATTAGTTTATATTATTATT
Found at i:109947222 original size:27 final size:29
Alignment explanation
Indices: 109947172--109947236 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 29
109947162 AAATCATTTG
109947172 TTTATTTATTATTATTTAAACTTTATTAGTT-
1 TTTA-TTATTATTATTT--ACTTTATTAGTTC
*
109947203 TTTATTATTATTATTT-CTTTATTATTTC
1 TTTATTATTATTATTTACTTTATTAGTTC
109947231 TTTATT
1 TTTATT
109947237 TGCTTATTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
27 10 0.31
28 6 0.19
30 12 0.38
31 4 0.12
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.69
Consensus pattern (29 bp):
TTTATTATTATTATTTACTTTATTAGTTC
Found at i:109947223 original size:17 final size:16
Alignment explanation
Indices: 109947194--109947228 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
109947184 TATTTAAACT
109947194 TTATTAGTTTTTATTA
1 TTATTAGTTTTTATTA
*
109947210 TTATTATTTCTTTATTA
1 TTATTAGTT-TTTATTA
109947227 TT
1 TT
109947229 TCTTTATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.71
Consensus pattern (16 bp):
TTATTAGTTTTTATTA
Found at i:109947226 original size:11 final size:11
Alignment explanation
Indices: 109947210--109947236 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
109947200 GTTTTTATTA
109947210 TTATTATTTCT
1 TTATTATTTCT
109947221 TTATTATTTCT
1 TTATTATTTCT
109947232 TTATT
1 TTATT
109947237 TGCTTATTAA
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:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (11 bp):
TTATTATTTCT
Found at i:109947273 original size:4 final size:4
Alignment explanation
Indices: 109947213--109947286 Score: 55
Period size: 4 Copynumber: 18.5 Consensus size: 4
109947203 TTTATTATTA
* * ** *
109947213 TTAT TTCT TTA- TTAT TTCT TTAT TTGC TTAT TAAT TCT-T TTAT TT-T
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT T-TAT TTAT TTAT
109947259 TTAATT TTAT TTAT TTAT TTAT TTAT TT
1 TT-A-T TTAT TTAT TTAT TTAT TTAT TT
109947287 TTATAATTGG
Statistics
Matches: 54, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
3 7 0.13
4 43 0.80
5 1 0.02
6 3 0.06
ACGTcount: A:0.20, C:0.05, G:0.01, T:0.73
Consensus pattern (4 bp):
TTAT
Found at i:109947406 original size:3 final size:3
Alignment explanation
Indices: 109947400--109947465 Score: 60
Period size: 3 Copynumber: 21.7 Consensus size: 3
109947390 TATTCATCAT
* * * * * * *
109947400 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT TAT TAT TAT TAT TAT TAT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
109947448 TATA TAA TAA TAA TAA TA
1 TA-A TAA TAA TAA TAA TA
109947466 TATTATTATT
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
3 58 0.97
4 2 0.03
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (3 bp):
TAA
Found at i:109947472 original size:3 final size:3
Alignment explanation
Indices: 109947466--109947497 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
109947456 AATAATAATA
109947466 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
109947498 CTGTTATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:109947478 original size:9 final size:9
Alignment explanation
Indices: 109947427--109947497 Score: 90
Period size: 9 Copynumber: 7.9 Consensus size: 9
109947417 ATAATAATAA
109947427 TATTATTAT
1 TATTATTAT
109947436 TATTATTAT
1 TATTATTAT
109947445 TATTA-TAT
1 TATTATTAT
* * *
109947453 AATAATAAT
1 TATTATTAT
*
109947462 AATATATTAT
1 TAT-TATTAT
109947472 TATTATTAT
1 TATTATTAT
109947481 TATTATTAT
1 TATTATTAT
109947490 TATTATTA
1 TATTATTA
109947498 CTGTTATTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
8 6 0.11
9 42 0.78
10 6 0.11
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
TATTATTAT
Found at i:109953206 original size:27 final size:27
Alignment explanation
Indices: 109953171--109953619 Score: 530
Period size: 27 Copynumber: 16.6 Consensus size: 27
109953161 CCAAAGTACT
*
109953171 CTCGATTTACAGAATTACTGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
**
109953198 CTC-AGTTTACAGAATTACTATTTTACC
1 CTCGA-TTTACAGAATTACCGTTTTACC
*
109953225 CTAGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* ***
109953252 CTC-AGTTTATAGAATTATTATTTTACC
1 CTCGA-TTTACAGAATTACCGTTTTACC
* *
109953279 CTTGATTTACAGAATTACTGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* *
109953306 CTTGATTTATAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* *
109953333 CTCGATTTATAAAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* *
109953360 C-CTAATTTACATAATTACCGTTTTACC
1 CTC-GATTTACAGAATTACCGTTTTACC
* * *
109953387 C-CTGATTTACATAATTATCATTTTACC
1 CTC-GATTTACAGAATTACCGTTTTACC
*
109953414 CTCGACTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* * *
109953441 CACAATTTACATAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* *
109953468 C-CTGATTTACATAATTATCGTTTTACC
1 CTC-GATTTACAGAATTACCGTTTTACC
*
109953495 CTCGACTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
109953522 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* *
109953549 CTCGATTTATAGAATTACTGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* **
109953576 CTTGATTTACAGAATTACTATTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
*
109953603 CTCGATTTACAAAATTA
1 CTCGATTTACAGAATTA
109953620 TCGAAATACC
Statistics
Matches: 370, Mismatches: 44, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
26 4 0.01
27 362 0.98
28 4 0.01
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (27 bp):
CTCGATTTACAGAATTACCGTTTTACC
Found at i:109953629 original size:27 final size:26
Alignment explanation
Indices: 109953171--109953685 Score: 135
Period size: 27 Copynumber: 19.1 Consensus size: 26
109953161 CCAAAGTACT
* **
109953171 CTCGATTTACAGAATTACTGTTTTACC
1 CTCGATTTACAAAATTAC-GAATTACC
* * *
109953198 CTC-AGTTTACAGAATTACTATTTTACC
1 CTCGA-TTTACAAAATTACGA-ATTACC
* * **
109953225 CTAGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAAAATTA-CGAATTACC
* * ** *
109953252 CTC-AGTTTATAGAATTATTATTTTACC
1 CTCGA-TTTACAAAATTACGA-ATTACC
* * **
109953279 CTTGATTTACAGAATTACTGTTTTACC
1 CTCGATTTACAAAATTAC-GAATTACC
* * * **
109953306 CTTGATTTATAGAATTACCGTTTTACC
1 CTCGATTTACAAAATTA-CGAATTACC
* **
109953333 CTCGATTTATAAAATTACCGTTTTACC
1 CTCGATTTACAAAATTA-CGAATTACC
* * **
109953360 C-CTAATTTACATAATTACCGTTTTACC
1 CTC-GATTTACAAAATTA-CGAATTACC
* *
109953387 C-CTGATTTACATAATTATC-ATTTTACC
1 CTC-GATTTACAAAATTA-CGA-ATTACC
* * **
109953414 CTCGACTTACAGAATTACCGTTTTACC
1 CTCGATTTACAAAATTA-CGAATTACC
* * * **
109953441 CACAATTTACATAATTACCGTTTTACC
1 CTCGATTTACAAAATTA-CGAATTACC
* **
109953468 C-CTGATTTACATAATTATCGTTTTACC
1 CTC-GATTTACAAAATTA-CGAATTACC
* * **
109953495 CTCGACTTACAGAATTACCGTTTTACC
1 CTCGATTTACAAAATTA-CGAATTACC
* **
109953522 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAAAATTA-CGAATTACC
* * **
109953549 CTCGATTTATAGAATTACTGTTTTACC
1 CTCGATTTACAAAATTAC-GAATTACC
* * * *
109953576 CTTGATTTACAGAATTACTATTTTACC
1 CTCGATTTACAAAATTACGA-ATTACC
*
109953603 CTCGATTTACAAAATTATCGAAATACC
1 CTCGATTTACAAAATTA-CGAATTACC
* ** * *
109953630 CTCAATTTGTAAAATTACCAAAATACC
1 CTCGATTTACAAAATTA-CGAATTACC
* *
109953657 C-CTGATTTACAAAGTTACAGAAATACC
1 CTC-GATTTACAAAATTAC-GAATTACC
109953684 CT
1 CT
109953686 TGACTTTTTA
Statistics
Matches: 409, Mismatches: 58, Indels: 41
0.81 0.11 0.08
Matches are distributed among these distances:
26 7 0.02
27 394 0.96
28 8 0.02
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (26 bp):
CTCGATTTACAAAATTACGAATTACC
Found at i:109953657 original size:81 final size:81
Alignment explanation
Indices: 109953491--109953667 Score: 192
Period size: 81 Copynumber: 2.2 Consensus size: 81
109953481 ATTATCGTTT
* * * * *** *
109953491 TACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
1 TACCCTTGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCGAAATACCCTCAATT
* *****
109953556 TATAGAATTACTGTTT
66 TATAAAATTACCAAAA
* *
109953572 TACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTATCGAAATACCCTCAATT
1 TACCCTTGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCGAAATACCCTCAATT
*
109953637 TGTAAAATTACCAAAA
66 TATAAAATTACCAAAA
*
109953653 TACCCCTGATTTACA
1 TACCCTTGATTTACA
109953668 AAGTTACAGA
Statistics
Matches: 78, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
81 78 1.00
ACGTcount: A:0.32, C:0.24, G:0.08, T:0.36
Consensus pattern (81 bp):
TACCCTTGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCGAAATACCCTCAATT
TATAAAATTACCAAAA
Found at i:109953739 original size:27 final size:26
Alignment explanation
Indices: 109953692--109953747 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
109953682 CCCTTGACTT
*
109953692 TTTAAAAATTATAGAAGTACCATTGG
1 TTTAAAAATTATAGAAATACCATTGG
*
109953718 TTTACAAAATTACT-GAAATACCTTTGG
1 TTTA-AAAATTA-TAGAAATACCATTGG
109953745 TTT
1 TTT
109953748 GTTGATTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 4 0.15
27 21 0.81
28 1 0.04
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (26 bp):
TTTAAAAATTATAGAAATACCATTGG
Found at i:109953865 original size:27 final size:26
Alignment explanation
Indices: 109953800--109953865 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 26
109953790 TACCCCTAAA
*
109953800 AGGTAAAAAGACCGTAAAGCCCCTGT
1 AGGTAAAATGACCGTAAAGCCCCTGT
*
109953826 AGGATAAAGTGACCGTAATA-CCCCTGT
1 AGG-TAAAATGACCGTAA-AGCCCCTGT
109953853 ATGGTAAAATGAC
1 A-GGTAAAATGAC
109953866 GAATATGCCC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 3 0.09
27 28 0.82
28 3 0.09
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.20
Consensus pattern (26 bp):
AGGTAAAATGACCGTAAAGCCCCTGT
Found at i:109955220 original size:20 final size:20
Alignment explanation
Indices: 109955110--109955212 Score: 188
Period size: 20 Copynumber: 5.2 Consensus size: 20
109955100 ATTTTGATAA
109955110 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
109955130 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
109955150 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
109955170 GCATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
109955190 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
109955210 ACA
1 ACA
109955213 CGAGATGTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 79 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:109955298 original size:23 final size:23
Alignment explanation
Indices: 109955268--109955434 Score: 253
Period size: 23 Copynumber: 7.1 Consensus size: 23
109955258 AGGAAGTGAA
109955268 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
109955291 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
109955314 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
* *
109955338 AAAGGGCTTACGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
109955362 AAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
109955385 AAAGGGCTTATGCCCCAGTTATAA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
109955409 AAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
109955432 AAA
1 AAA
109955435 AGAGGCTAGG
Statistics
Matches: 135, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
23 69 0.51
24 66 0.49
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:109955346 original size:24 final size:23
Alignment explanation
Indices: 109955267--109955456 Score: 256
Period size: 24 Copynumber: 8.0 Consensus size: 23
109955257 GAGGAAGTGA
109955267 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
109955290 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
109955313 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
109955336 CAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
109955360 CAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
109955384 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
109955407 AAAAAGGGCTTTTGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
*
109955432 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
109955456 A
1 A
109955457 TGATAAAGCA
Statistics
Matches: 153, Mismatches: 9, Indels: 9
0.89 0.05 0.05
Matches are distributed among these distances:
23 66 0.43
24 76 0.50
25 11 0.07
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:109955384 original size:71 final size:70
Alignment explanation
Indices: 109955266--109955455 Score: 283
Period size: 71 Copynumber: 2.7 Consensus size: 70
109955256 GGAGGAAGTG
* *
109955266 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCA
1 AAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCA
109955331 GTTAT
66 GTTAT
* *
109955336 CAAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCC
1 AAAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCC
109955401 AGTTAT
65 AGTTAT
* *
109955407 AAAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTACGCC-CCAGTTAT
109955456 ATGATAAAGC
Statistics
Matches: 108, Mismatches: 8, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
70 22 0.20
71 74 0.69
72 12 0.11
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (70 bp):
AAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCA
GTTAT
Found at i:109955389 original size:47 final size:46
Alignment explanation
Indices: 109955267--109955456 Score: 265
Period size: 47 Copynumber: 4.0 Consensus size: 46
109955257 GAGGAAGTGA
109955267 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* * *
109955313 TAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
*
109955360 CAAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
109955407 AAAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATT-AAAG-GGCTTATGCC-CCAGTTAT
109955456 A
1 A
109955457 TGATAAAGCA
Statistics
Matches: 128, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
46 22 0.17
47 64 0.50
48 31 0.24
49 11 0.09
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (46 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:109955687 original size:31 final size:31
Alignment explanation
Indices: 109955649--109955712 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
109955639 CGTTTATCGT
109955649 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
109955680 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
109955711 AA
1 AA
109955713 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:109960413 original size:17 final size:17
Alignment explanation
Indices: 109960391--109960427 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
109960381 AAATAACCTA
109960391 ATTAACTGAATTAAAGT
1 ATTAACTGAATTAAAGT
109960408 ATTAACTGAATTAAAGT
1 ATTAACTGAATTAAAGT
109960425 ATT
1 ATT
109960428 GAATCGCTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (17 bp):
ATTAACTGAATTAAAGT
Found at i:109964286 original size:43 final size:43
Alignment explanation
Indices: 109964178--109964344 Score: 151
Period size: 43 Copynumber: 3.9 Consensus size: 43
109964168 AGCTCGTACA
* * * *
109964178 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCAATATCCCAGACATGGTCTTACACGTAATCACATAACG
* * * * * *
109964220 ATGCCACTATCCCAAATAGGGTCTTACACGAAATTA-ATTAACG
1 ATGCCAATATCCCAGACATGGTCTTACACGTAATCACA-TAACG
* *
109964263 ATGCCAATATCCCAGACATGGTCTTATACGTAATCACA-ATACA
1 ATGCCAATATCCCAGACATGGTCTTACACGTAATCACATA-ACG
* * * *
109964306 ATGCCAATGTCCCAGACACGGTCTTGCATGTAATCACAT
1 ATGCCAATATCCCAGACATGGTCTTACACGTAATCACAT
109964345 CTCGGTAACC
Statistics
Matches: 99, Mismatches: 21, Indels: 8
0.77 0.16 0.06
Matches are distributed among these distances:
42 7 0.07
43 91 0.92
44 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (43 bp):
ATGCCAATATCCCAGACATGGTCTTACACGTAATCACATAACG
Found at i:109970139 original size:42 final size:42
Alignment explanation
Indices: 109970079--109970236 Score: 156
Period size: 42 Copynumber: 3.7 Consensus size: 42
109970069 AATCTTCAAC
* * * *
109970079 CTACTCCACTATTTCTTAGAGAGATAGGATGGTGGCTTAAAT
1 CTACTCCACTACTGCTTAGAGAGACAAGATGGTGGCTTAAAT
* * * ** ** **
109970121 CTACTCCACTACTACTTAGGGAAACAAGATTTTCCATCTTCGAT
1 CTACTCCACTACTGCTTAGAGAGACAAGATGGT--GGCTTAAAT
*
109970165 CTATTCCACTACTGCTTAGAGAGACAAGATGGTGGCTTAAAT
1 CTACTCCACTACTGCTTAGAGAGACAAGATGGTGGCTTAAAT
109970207 CTACTCCACTACTGCTTA-AGGAGACAAGAT
1 CTACTCCACTACTGCTTAGA-GAGACAAGAT
109970237 TTGCCATCTT
Statistics
Matches: 90, Mismatches: 23, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
41 1 0.01
42 57 0.63
44 32 0.36
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (42 bp):
CTACTCCACTACTGCTTAGAGAGACAAGATGGTGGCTTAAAT
Found at i:109970262 original size:130 final size:130
Alignment explanation
Indices: 109970119--109970621 Score: 614
Period size: 130 Copynumber: 3.9 Consensus size: 130
109970109 GGTGGCTTAA
* * * * * * *
109970119 ATCTACTCCACTACTACTTAGGGAAACAAGATTTTCCATCTTCGATCTATTCCACTACTGCTTAG
1 ATCTACTCCACTACTGCTTAGGGAAACAAGATCTACAATCTTCAACCTACTCCACTACTGCTTAG
* * *
109970184 AGAGACAAGATGGTGGCTTAAATCTACTCCACTACTGCTTAAGGAGACAAGATTTGCCATCTTTG
66 AGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAAGGAGACAAGATTTGCCATCTTTG
* * * * * *
109970249 ATCTGCTCTACTACTGTTTAGGGAGACAAGATCTACAATCTTCAACCTACTTCACTATTGCTTAG
1 ATCTACTCCACTACTGCTTAGGGAAACAAGATCTACAATCTTCAACCTACTCCACTACTGCTTAG
* * * *
109970314 AGAGATAGGATGGTGGCTTAAATATGCTCTACTACTACTT-AGGAAGACAAGATTTTCCATCTTC
66 AGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAAGG-AGACAAGATTTGCCATCTT-
109970378 T-
129 TG
* * * * *
109970379 ATCTGCTCCACTACTGCTTAGGGGAAATAGGATCTACAATTTTCAACCTACTCCACTACTACTTA
1 ATCTACTCCACTACTGCTTA-GGGAAACAAGATCTACAATCTTCAACCTACTCCACTACTGCTTA
* * * * *
109970444 GGGAGATAGGATGGAGGCTTAAATCTGCTCCACTACTGCTTAGGGAGACAAGATTTGCCATATTC
65 GAGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAAGGAGACAAGATTTGCCATCTTT
109970509 G
130 G
* * * * * *
109970510 ATCTATTCCACTACTGCTTAGGGAGATAGGATCTGCAATCTTCAACCTACTCCACTATTGCTTAG
1 ATCTACTCCACTACTGCTTAGGGAAACAAGATCTACAATCTTCAACCTACTCCACTACTGCTTAG
* * *
109970575 GGAGATAGGATGGTGGCTTAAATCTGCTCCACTGCTGCTTAGGGAGA
66 AGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAAGGAGA
109970622 TAGGATCTGT
Statistics
Matches: 321, Mismatches: 47, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
129 3 0.01
130 207 0.64
131 109 0.34
132 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (130 bp):
ATCTACTCCACTACTGCTTAGGGAAACAAGATCTACAATCTTCAACCTACTCCACTACTGCTTAG
AGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAAGGAGACAAGATTTGCCATCTTTG
Found at i:109970391 original size:216 final size:216
Alignment explanation
Indices: 109970010--109970399 Score: 638
Period size: 216 Copynumber: 1.8 Consensus size: 216
109970000 CACGTATCAG
* *
109970010 GGAGACAATATTTGCCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAATCTT
1 GGAGACAAGATTTGCCATCTTCGATCTGCTCCACTACTACTTAGGGAGACAAGATCTACAATCTT
* *
109970075 CAACCTACTCCACTATTTCTTAGAGAGATAGGATGGTGGCTTAAATCTACTCCACTACTACTTAG
66 CAACCTACTCCACTATTGCTTAGAGAGATAGGATGGTGGCTTAAATATACTCCACTACTACTTAG
*
109970140 GGAAACAAGATTTTCCATCTTCGATCTATTCCACTACTGCTTAGAGAGACAAGATGGTGGCTTAA
131 GGAAACAAGATTTTCCATCTTCGATCTACTCCACTACTGCTTAGAGAGACAAGATGGTGGCTTAA
109970205 ATCTACTCCACTACTGCTTAA
196 ATCTACTCCACTACTGCTTAA
* * **
109970226 GGAGACAAGATTTGCCATCTTTGATCTGCTCTACTACTGTTTAGGGAGACAAGATCTACAATCTT
1 GGAGACAAGATTTGCCATCTTCGATCTGCTCCACTACTACTTAGGGAGACAAGATCTACAATCTT
* * *
109970291 CAACCTACTTCACTATTGCTTAGAGAGATAGGATGGTGGCTTAAATATGCTCTACTACTACTTA-
66 CAACCTACTCCACTATTGCTTAGAGAGATAGGATGGTGGCTTAAATATACTCCACTACTACTTAG
* *
109970355 GGAAGACAAGATTTTCCATCTTCTATCTGCTCCACTACTGCTTAG
131 GGAA-ACAAGATTTTCCATCTTCGATCTACTCCACTACTGCTTAG
109970400 GGGAAATAGG
Statistics
Matches: 159, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
215 4 0.03
216 155 0.97
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.32
Consensus pattern (216 bp):
GGAGACAAGATTTGCCATCTTCGATCTGCTCCACTACTACTTAGGGAGACAAGATCTACAATCTT
CAACCTACTCCACTATTGCTTAGAGAGATAGGATGGTGGCTTAAATATACTCCACTACTACTTAG
GGAAACAAGATTTTCCATCTTCGATCTACTCCACTACTGCTTAGAGAGACAAGATGGTGGCTTAA
ATCTACTCCACTACTGCTTAA
Found at i:109970541 original size:86 final size:86
Alignment explanation
Indices: 109970033--109970535 Score: 323
Period size: 86 Copynumber: 5.8 Consensus size: 86
109970023 GCCATCTTCG
* * * * * * * * *
109970033 ATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTATTTCTTAG
1 ATCTACTCCACTACTGCTTAGGGAGACAAGATTTGCCATCTTCAATCTACTCCACTACTGCTTAG
* * * *
109970098 AGAGATAGGATGGTGGCTTAA
66 GGAGACAAGATGGAGGCTTAA
* * * * *
109970119 ATCTACTCCACTACTACTTAGGGAAACAAGATTTTCCATCTTCGATCTATTCCACTACTGCTTAG
1 ATCTACTCCACTACTGCTTAGGGAGACAAGATTTGCCATCTTCAATCTACTCCACTACTGCTTAG
* *
109970184 AGAGACAAGATGGTGGCTTAA
66 GGAGACAAGATGGAGGCTTAA
* ** * * *
109970205 ATCTACTCCACTACTGCTTAAGGAGACAAGATTTGCCATCTTTGATCTGCTCTACTACTGTTTAG
1 ATCTACTCCACTACTGCTTAGGGAGACAAGATTTGCCATCTTCAATCTACTCCACTACTGCTTAG
** ** *
109970270 GGAGACAAGATCTACAATCTTCA
66 GGAGACAAGA--TGGAGGCTTAA
* * * * * * * * * * * * *
109970293 ACCTACTTCACTATTGCTTAGAGAGATAGGATGGTG---GCTTAAATATGCTCTACTACTACTTA
1 ATCTACTCCACTACTGCTTAGGGAGACAAGAT-TTGCCATCTTCAATCTACTCCACTACTGCTTA
* ** * **
109970355 GGAAGACAAGATTTTCCA-TCTTCT
65 GGGAGACAAGA---TGGAGGCTTAA
* * * * * * * *
109970379 ATCTGCTCCACTACTGCTTAGGG-GAAATAGGATCTACAATTTTCAACCTACTCCACTACTACTT
1 ATCTACTCCACTACTGCTTAGGGAGACA-A-GATTTGCCATCTTCAATCTACTCCACTACTGCTT
* *
109970443 AGGGAGATAGGATGGAGGCTTAA
64 AGGGAGACAAGATGGAGGCTTAA
* * * *
109970466 ATCTGCTCCACTACTGCTTAGGGAGACAAGATTTGCCATATTCGATCTATTCCACTACTGCTTAG
1 ATCTACTCCACTACTGCTTAGGGAGACAAGATTTGCCATCTTCAATCTACTCCACTACTGCTTAG
109970531 GGAGA
66 GGAGA
109970536 TAGGATCTGC
Statistics
Matches: 326, Mismatches: 80, Indels: 22
0.76 0.19 0.05
Matches are distributed among these distances:
85 3 0.01
86 227 0.70
87 34 0.10
88 33 0.10
89 29 0.09
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (86 bp):
ATCTACTCCACTACTGCTTAGGGAGACAAGATTTGCCATCTTCAATCTACTCCACTACTGCTTAG
GGAGACAAGATGGAGGCTTAA
Found at i:109970564 original size:44 final size:44
Alignment explanation
Indices: 109970008--109970630 Score: 320
Period size: 44 Copynumber: 14.4 Consensus size: 44
109969998 ATCACGTATC
* * * * * * *
109970008 AGGGAGACAATATTTGCCATCTTCGATCTGCTCCACTACTACTT
1 AGGGAGATAAGATCTGCAATCTTCAATCTACTCCACTACTGCTT
* * * *
109970052 AGGGAGATAAGATCTACAATCTTCAACCTACTCCACTATTTCTT
1 AGGGAGATAAGATCTGCAATCTTCAATCTACTCCACTACTGCTT
* * * * * *
109970096 AGAGAGATAGGATGGTG---GCTTAAATCTACTCCACTACTACTT
1 AGGGAGATAAGAT-CTGCAATCTTCAATCTACTCCACTACTGCTT
* * * * * * *
109970138 AGGGAAACAAGATTTTCCATCTTCGATCTATTCCACTACTGCTT
1 AGGGAGATAAGATCTGCAATCTTCAATCTACTCCACTACTGCTT
* * * * *
109970182 AGAGAGACAAGATGGTG---GCTTAAATCTACTCCACTACTGCTT
1 AGGGAGATAAGAT-CTGCAATCTTCAATCTACTCCACTACTGCTT
* * * * ** * * *
109970224 AAGGAGACAAGATTTGCCATCTTTGATCTGCTCTACTACTGTTT
1 AGGGAGATAAGATCTGCAATCTTCAATCTACTCCACTACTGCTT
* * * * *
109970268 AGGGAGACAAGATCTACAATCTTCAACCTACTTCACTATTGCTT
1 AGGGAGATAAGATCTGCAATCTTCAATCTACTCCACTACTGCTT
* * * * * * * * *
109970312 AGAGAGATAGGATGGTG---GCTTAAATATGCTCTACTACTACTT
1 AGGGAGATAAGAT-CTGCAATCTTCAATCTACTCCACTACTGCTT
* * * * * * *
109970354 AGGAAGACAAGATTTTCCATCTTCTATCTGCTCCACTACTGCTT
1 AGGGAGATAAGATCTGCAATCTTCAATCTACTCCACTACTGCTT
* * * * * *
109970398 AGGGGAAATAGGATCTACAATTTTCAACCTACTCCACTACTACTT
1 A-GGGAGATAAGATCTGCAATCTTCAATCTACTCCACTACTGCTT
* * ** * *
109970443 AGGGAGATAGGA--TGGAGGCTTAAATCTGCTCCACTACTGCTT
1 AGGGAGATAAGATCTGCAATCTTCAATCTACTCCACTACTGCTT
* * * * * *
109970485 AGGGAGACAAGATTTGCCATATTCGATCTATTCCACTACTGCTT
1 AGGGAGATAAGATCTGCAATCTTCAATCTACTCCACTACTGCTT
* * *
109970529 AGGGAGATAGGATCTGCAATCTTCAACCTACTCCACTATTGCTT
1 AGGGAGATAAGATCTGCAATCTTCAATCTACTCCACTACTGCTT
* * * * * *
109970573 AGGGAGATAGGATGGTG---GCTTAAATCTGCTCCACTGCTGCTT
1 AGGGAGATAAGAT-CTGCAATCTTCAATCTACTCCACTACTGCTT
*
109970615 AGGGAGATAGGATCTG
1 AGGGAGATAAGATCTG
109970631 TGAATTTACC
Statistics
Matches: 428, Mismatches: 135, Indels: 35
0.72 0.23 0.06
Matches are distributed among these distances:
41 6 0.01
42 149 0.35
44 236 0.55
45 37 0.09
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (44 bp):
AGGGAGATAAGATCTGCAATCTTCAATCTACTCCACTACTGCTT
Found at i:109970606 original size:86 final size:86
Alignment explanation
Indices: 109970207--109970630 Score: 273
Period size: 86 Copynumber: 4.9 Consensus size: 86
109970197 TGGCTTAAAT
* * * * * ** * *
109970207 CTACTCCACTACTGCTTAAGGAGACAAGATTTGCCATCTTTGATCTGCTCTACTACTGTTTAGGG
1 CTACTCCACTACTGCTTAGGGAGATAGGATGTGGCA--TTAAATCTGCTCCACTACTGCTTAGGG
* * *
109970272 AGACAAGATCTACAATCTTCAAC
64 AGATAGGATCTGCAATCTTCAAC
* * * * * * *
109970295 CTACTTCACTATTGCTTAGAGAGATAGGATGGTGGC-TTAAATATGCTCTACTACTACTTAGGAA
1 CTACTCCACTACTGCTTAGGGAGATAGGAT-GTGGCATTAAATCTGCTCCACTACTGCTTAGGGA
* * * * * * *
109970359 GACAAGATTTTCCATCTTCTAT
65 GATAGGATCTGCAATCTTCAAC
* * * * * * * *
109970381 CTGCTCCACTACTGCTTAGGGGAAATAGGATCT-ACAATTTTCAACCTACTCCACTACTACTTAG
1 CTACTCCACTACTGCTTA-GGGAGATAGGATGTGGC-A--TTAAATCTGCTCCACTACTGCTTAG
* ** * *
109970445 GGAGATAGGA--TGGAGGCTTAAAT
62 GGAGATAGGATCTGCAATCTTCAAC
* * * * * ** **
109970468 CTGCTCCACTACTGCTTAGGGAGACAAGATTTGCCATATTCGATCTATTCCACTACTGCTTAGGG
1 CTACTCCACTACTGCTTAGGGAGATAGGATGTGGC--ATTAAATCTGCTCCACTACTGCTTAGGG
109970533 AGATAGGATCTGCAATCTTCAAC
64 AGATAGGATCTGCAATCTTCAAC
* *
109970556 CTACTCCACTATTGCTTAGGGAGATAGGATGGTGGC-TTAAATCTGCTCCACTGCTGCTTAGGGA
1 CTACTCCACTACTGCTTAGGGAGATAGGAT-GTGGCATTAAATCTGCTCCACTACTGCTTAGGGA
109970620 GATAGGATCTG
65 GATAGGATCTG
109970631 TGAATTTACC
Statistics
Matches: 258, Mismatches: 67, Indels: 24
0.74 0.19 0.07
Matches are distributed among these distances:
85 1 0.00
86 130 0.50
87 35 0.14
88 59 0.23
89 33 0.13
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (86 bp):
CTACTCCACTACTGCTTAGGGAGATAGGATGTGGCATTAAATCTGCTCCACTACTGCTTAGGGAG
ATAGGATCTGCAATCTTCAAC
Found at i:109972005 original size:10 final size:10
Alignment explanation
Indices: 109971990--109972014 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
109971980 GCGTACACTT
109971990 TCCTTTGAAG
1 TCCTTTGAAG
109972000 TCCTTTGAAG
1 TCCTTTGAAG
109972010 TCCTT
1 TCCTT
109972015 CTTGTATAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.16, C:0.24, G:0.16, T:0.44
Consensus pattern (10 bp):
TCCTTTGAAG
Found at i:109976993 original size:21 final size:20
Alignment explanation
Indices: 109976948--109976986 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
109976938 CATTAATAAT
*
109976948 AAAA-AATAAAATAATGATG
1 AAAATAATAAAAAAATGATG
109976967 AAAATAATAATAAAAATGAT
1 AAAATAATAA-AAAAATGAT
109976987 ACAAATACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 5 0.29
21 8 0.47
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (20 bp):
AAAATAATAAAAAAATGATG
Found at i:109977149 original size:3 final size:3
Alignment explanation
Indices: 109977143--109977209 Score: 59
Period size: 3 Copynumber: 22.3 Consensus size: 3
109977133 GTGGAAGATA
* * *
109977143 AAT AAT AAT ACATT AAG AAT AAT AAT AAT -AT ATT AAT AAT AAC AAT
1 AAT AAT AAT A-A-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
109977189 AAT AGA- AA- AAT AAT AAT AAT A
1 AAT A-AT AAT AAT AAT AAT AAT A
109977210 CAAAAAAATA
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
2 5 0.09
3 43 0.81
4 3 0.06
5 2 0.04
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:109977166 original size:20 final size:19
Alignment explanation
Indices: 109977143--109977211 Score: 79
Period size: 20 Copynumber: 3.6 Consensus size: 19
109977133 GTGGAAGATA
109977143 AATAATAATACATTAAGAAT
1 AATAATAATACATTAA-AAT
*
109977163 AATAATAATATATTAATAAT
1 AATAATAATACATTAA-AAT
* *
109977183 AACAATAATAGA--AAAAT
1 AATAATAATACATTAAAAT
109977200 AATAATAATACA
1 AATAATAATACA
109977212 AAAAAATATT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
17 13 0.30
18 2 0.05
20 28 0.65
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.29
Consensus pattern (19 bp):
AATAATAATACATTAAAAT
Found at i:109977200 original size:17 final size:17
Alignment explanation
Indices: 109977180--109977215 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
109977170 ATATATTAAT
*
109977180 AATAACAATAATAGAAA
1 AATAACAATAATACAAA
*
109977197 AATAATAATAATACAAA
1 AATAACAATAATACAAA
109977214 AA
1 AA
109977216 AATATTGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.72, C:0.06, G:0.03, T:0.19
Consensus pattern (17 bp):
AATAACAATAATACAAA
Found at i:109978156 original size:16 final size:16
Alignment explanation
Indices: 109978137--109978171 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
109978127 AAAATAAATC
*
109978137 AAAAAAAGAAAAGAGA
1 AAAAAAACAAAAGAGA
*
109978153 AAAAAAACAGAAGAGA
1 AAAAAAACAAAAGAGA
109978169 AAA
1 AAA
109978172 TTAAAATCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (16 bp):
AAAAAAACAAAAGAGA
Found at i:109979434 original size:25 final size:25
Alignment explanation
Indices: 109979406--109979454 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
109979396 GGGAAAACCG
109979406 ATTGAATTAAGACAATACCTAAGGT
1 ATTGAATTAAGACAATACCTAAGGT
109979431 ATTGAATTAAGACAATACCTAAGG
1 ATTGAATTAAGACAATACCTAAGG
109979455 AAAAATCCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.45, C:0.12, G:0.16, T:0.27
Consensus pattern (25 bp):
ATTGAATTAAGACAATACCTAAGGT
Found at i:109989712 original size:12 final size:12
Alignment explanation
Indices: 109989695--109989720 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
109989685 CGTTCATATT
109989695 TTATTCTCGTAA
1 TTATTCTCGTAA
109989707 TTATTCTCGTAA
1 TTATTCTCGTAA
109989719 TT
1 TT
109989721 TCCATTTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.15, G:0.08, T:0.54
Consensus pattern (12 bp):
TTATTCTCGTAA
Found at i:109990419 original size:49 final size:49
Alignment explanation
Indices: 109990341--109990437 Score: 149
Period size: 49 Copynumber: 2.0 Consensus size: 49
109990331 TTATGCTATG
* * *
109990341 CATTTCTAAACTTGGTTTTCCACTATCTACACTCTTATAACTATTTATA
1 CATTGCTAAACTTAGTCTTCCACTATCTACACTCTTATAACTATTTATA
* *
109990390 CATTGCTAAACTTAGTCTTCCACTTTCTACACTCTTATCACTATTTAT
1 CATTGCTAAACTTAGTCTTCCACTATCTACACTCTTATAACTATTTAT
109990438 CCCTTCTAGA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.27, C:0.25, G:0.04, T:0.44
Consensus pattern (49 bp):
CATTGCTAAACTTAGTCTTCCACTATCTACACTCTTATAACTATTTATA
Found at i:109991604 original size:43 final size:43
Alignment explanation
Indices: 109991542--109991624 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
109991532 TCATATTTCA
* **
109991542 TTTCTCATCACATAATCATTTCTCATATTTTTCATTTCAATAT
1 TTTCTCATCACATAATCATTTATCATATTTGCCATTTCAATAT
* * * *
109991585 TTTCTTATCTCATATTCATTTATCATCTTTGCCATTTCAA
1 TTTCTCATCACATAATCATTTATCATATTTGCCATTTCAA
109991625 AATCAATCAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.25, C:0.22, G:0.01, T:0.52
Consensus pattern (43 bp):
TTTCTCATCACATAATCATTTATCATATTTGCCATTTCAATAT
Found at i:109994903 original size:20 final size:20
Alignment explanation
Indices: 109994878--109994917 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
109994868 AGATGGATCC
109994878 TGGTTGATATAAAGAGAATT
1 TGGTTGATATAAAGAGAATT
*
109994898 TGGTTGATATAAAGGGAATT
1 TGGTTGATATAAAGAGAATT
109994918 ATCCCTACCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.28, T:0.35
Consensus pattern (20 bp):
TGGTTGATATAAAGAGAATT
Found at i:109999803 original size:39 final size:40
Alignment explanation
Indices: 109999760--109999836 Score: 138
Period size: 40 Copynumber: 1.9 Consensus size: 40
109999750 AAATTTTGTG
*
109999760 ACATGCTAAAT-CCCTATTATAGTAATATTATATGAAAAA
1 ACATGCTAAATCCCCTATTATAATAATATTATATGAAAAA
109999799 ACATGCTAAATCCCCTATTATAATAATATTATATGAAA
1 ACATGCTAAATCCCCTATTATAATAATATTATATGAAA
109999837 CAAAAACACA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 11 0.31
40 25 0.69
ACGTcount: A:0.45, C:0.14, G:0.06, T:0.34
Consensus pattern (40 bp):
ACATGCTAAATCCCCTATTATAATAATATTATATGAAAAA
Found at i:110000825 original size:141 final size:141
Alignment explanation
Indices: 110000545--110000829 Score: 428
Period size: 141 Copynumber: 2.0 Consensus size: 141
110000535 AAAAAGGAGA
* * *
110000545 AGATATCATAGGCTATTTGGATTTACCCTAGGGAAAAATATTATAAAAATCCAAAAGAGGAAACC
1 AGATATCATAGGCTAGTTGGATTTACCCTAAGGAAAAATATTATAAAAAACCAAAAGAGGAAACC
* *
110000610 CTAAAGGGGGCAAACAAAAAAAGAGGAGAGATCCTTAGGCAAACACAAAAAAGTGTGGAGATCCG
66 CTAAAGGGGACAAACAAAAAAAGAGGAGAGATCCTTAGGCAAACACAAAAAAGTATGGAGATCCG
110000675 GACGCAACAAT
131 GACGCAACAAT
* *
110000686 AGATATCAT-GGGTAGTTGGATTTACCCTAAGGAAAAATATTATAAAAAACCAAAGGAGGAAACC
1 AGATATCATAGGCTAGTTGGATTTACCCTAAGGAAAAATATTATAAAAAACCAAAAGAGGAAACC
* * * * *
110000750 CTAAAGGGGACGAACAAAAAAAATAGGAGAGATCCTTAGGCGAACGCAAAAGAGTATGGAGATCC
66 CTAAAGGGGACAAAC-AAAAAAAGAGGAGAGATCCTTAGGCAAACACAAAAAAGTATGGAGATCC
* *
110000815 GGAGGTAACAAT
130 GGACGCAACAAT
110000827 AGA
1 AGA
110000830 GGGTAGCAGC
Statistics
Matches: 129, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
140 63 0.49
141 66 0.51
ACGTcount: A:0.45, C:0.14, G:0.24, T:0.17
Consensus pattern (141 bp):
AGATATCATAGGCTAGTTGGATTTACCCTAAGGAAAAATATTATAAAAAACCAAAAGAGGAAACC
CTAAAGGGGACAAACAAAAAAAGAGGAGAGATCCTTAGGCAAACACAAAAAAGTATGGAGATCCG
GACGCAACAAT
Found at i:110004708 original size:2 final size:2
Alignment explanation
Indices: 110004703--110004754 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
110004693 ACACACACAC
110004703 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
110004745 AT AT AT AT AT
1 AT AT AT AT AT
110004755 GATGTTATTA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:110011310 original size:15 final size:15
Alignment explanation
Indices: 110011290--110011321 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
110011280 AATAAAAAAG
110011290 AAAGAAAAGAAACAA
1 AAAGAAAAGAAACAA
110011305 AAAGAAAAGAAACAA
1 AAAGAAAAGAAACAA
110011320 AA
1 AA
110011322 CCTTCAAGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.81, C:0.06, G:0.12, T:0.00
Consensus pattern (15 bp):
AAAGAAAAGAAACAA
Found at i:110012329 original size:55 final size:56
Alignment explanation
Indices: 110012162--110012352 Score: 285
Period size: 56 Copynumber: 3.4 Consensus size: 56
110012152 ACCATGGCAT
* *
110012162 CGATATATGTGTGCAAGTAAGACCACATTTAATACGTTGGCATCGATATGTGATTT
1 CGATATATGTGTGCGAGTAAGACCACATTTAATACGTTGGCATCGATATGTGATTC
* ** * * *
110012218 CGATATATTTGAACGAGTAAGACCACTTTTAATATGTTGACATCGATATGTGATTC
1 CGATATATGTGTGCGAGTAAGACCACATTTAATACGTTGGCATCGATATGTGATTC
110012274 CGATATATGTGTGCGAGTAAGACCAC-TTTAATACGTTGGCATCGATATGTGATTC
1 CGATATATGTGTGCGAGTAAGACCACATTTAATACGTTGGCATCGATATGTGATTC
* *
110012329 CGATCTACGTGTGCGAGTAAGACC
1 CGATATATGTGTGCGAGTAAGACC
110012353 CTGTTTGGGA
Statistics
Matches: 120, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
55 49 0.41
56 71 0.59
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.32
Consensus pattern (56 bp):
CGATATATGTGTGCGAGTAAGACCACATTTAATACGTTGGCATCGATATGTGATTC
Found at i:110020877 original size:47 final size:47
Alignment explanation
Indices: 110020808--110020903 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 47
110020798 TAGATAAGTT
*
110020808 AGAAATTTGTAAGTGAAAAAGTAATAAAGGAATGAAATGGTAACAAG
1 AGAAATTTGTAAGTGAAAAAGTAATAAAGAAATGAAATGGTAACAAG
110020855 AGAAATTTGTAAGTGAAAAAGTAATAAAGAAATGAAATGGTAACAAG
1 AGAAATTTGTAAGTGAAAAAGTAATAAAGAAATGAAATGGTAACAAG
110020902 AG
1 AG
110020904 GTGTGTGGAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.54, C:0.02, G:0.23, T:0.21
Consensus pattern (47 bp):
AGAAATTTGTAAGTGAAAAAGTAATAAAGAAATGAAATGGTAACAAG
Found at i:110022728 original size:20 final size:20
Alignment explanation
Indices: 110022705--110022742 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
110022695 TAGAAATTAA
110022705 AAAAAATACATAA-AAATTTT
1 AAAAAATA-ATAATAAATTTT
110022725 AAAAAATAATAATAAATT
1 AAAAAATAATAATAAATT
110022743 AAAAATAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAAAATAATAATAAATTTT
Found at i:110022894 original size:3 final size:3
Alignment explanation
Indices: 110022886--110022919 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
110022876 AAAGTAATTC
110022886 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
110022920 AAAAGAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:110023363 original size:15 final size:16
Alignment explanation
Indices: 110023343--110023374 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
110023333 ATATAAATTA
110023343 AAAAATTAAA-AAAAG
1 AAAAATTAAATAAAAG
110023358 AAAAATTAAATAAAAG
1 AAAAATTAAATAAAAG
110023374 A
1 A
110023375 TTAAAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (16 bp):
AAAAATTAAATAAAAG
Found at i:110025172 original size:22 final size:22
Alignment explanation
Indices: 110025126--110025179 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
110025116 AATGCACCAT
*
110025126 AGTGCCAGAATGAATCACACTGA
1 AGTGCCA-AATGAATCACACCGA
* *
110025149 AGTGCCAAATGAGTCGCACCGA
1 AGTGCCAAATGAATCACACCGA
110025171 AGTGCCAAA
1 AGTGCCAAA
110025180 ATGCTCCCAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 21 0.75
23 7 0.25
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (22 bp):
AGTGCCAAATGAATCACACCGA
Found at i:110027179 original size:23 final size:23
Alignment explanation
Indices: 110027135--110027180 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
110027125 GAAATTAACT
*
110027135 AGCTAACAACTAAAACCAAAAAA
1 AGCTAACAACCAAAACCAAAAAA
* * *
110027158 AGCTAAGAACCAAACCCTAAAAA
1 AGCTAACAACCAAAACCAAAAAA
110027181 TGGTGAATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.61, C:0.24, G:0.07, T:0.09
Consensus pattern (23 bp):
AGCTAACAACCAAAACCAAAAAA
Found at i:110055634 original size:10 final size:10
Alignment explanation
Indices: 110055619--110055649 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
110055609 CAATTGATGG
110055619 ATGTCCATTA
1 ATGTCCATTA
110055629 ATGTCCATTA
1 ATGTCCATTA
110055639 ATGTCCATTA
1 ATGTCCATTA
110055649 A
1 A
110055650 CACTACCTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.39
Consensus pattern (10 bp):
ATGTCCATTA
Found at i:110058042 original size:40 final size:40
Alignment explanation
Indices: 110057998--110058073 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
110057988 TATTGCCTCA
* * *
110057998 TATAGCCGAAGGTATTCCAATTCGCACACTTAGTGCTATT
1 TATAGCCGAAGCTATTCCAAATCACACACTTAGTGCTATT
* *
110058038 TATAGCCGGAGCTATTTCAAATCACACACTTAGTGC
1 TATAGCCGAAGCTATTCCAAATCACACACTTAGTGC
110058074 CGAACATAGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (40 bp):
TATAGCCGAAGCTATTCCAAATCACACACTTAGTGCTATT
Found at i:110065579 original size:40 final size:39
Alignment explanation
Indices: 110065531--110065624 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 39
110065521 CTATCTCGAT
110065531 ATCGCACACTTAGTGCCTCA-TATAGCCGAACCTA-TTCTAA
1 ATCGCACACTTAGTG-CT-ATTATAGCCGAACCTATTTC-AA
* *
110065571 TTCGCACACTTAGTGCTATTTATAGCCGAAGCTATTTCAA
1 ATCGCACACTTAGTGCTA-TTATAGCCGAACCTATTTCAA
*
110065611 ATCGAACACTTAGT
1 ATCGCACACTTAGT
110065625 ATTGAACATA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
38 1 0.02
39 2 0.04
40 41 0.87
41 3 0.06
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.31
Consensus pattern (39 bp):
ATCGCACACTTAGTGCTATTATAGCCGAACCTATTTCAA
Found at i:110067787 original size:19 final size:18
Alignment explanation
Indices: 110067759--110067794 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
110067749 ACTGCTGGTA
*
110067759 AATCATTCAAATCATCTG
1 AATCATTCAAATAATCTG
110067777 AATCAATTCAAATAATCT
1 AATC-ATTCAAATAATCT
110067795 CATTATTCTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.44, C:0.19, G:0.03, T:0.33
Consensus pattern (18 bp):
AATCATTCAAATAATCTG
Found at i:110071178 original size:47 final size:47
Alignment explanation
Indices: 110071107--110071372 Score: 260
Period size: 47 Copynumber: 5.8 Consensus size: 47
110071097 ATAATCAATA
*
110071107 AGTACCTATACCATGGCCCATAGCCAAATCAAAGTAACTTATCCCGG
1 AGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTTATCCCGG
* * ** * **
110071154 AGTACCTATACCATGGCCCGTAGCCAAACCAAGGTAACTCCTCTCAA
1 AGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTTATCCCGG
* * **
110071201 AATACTTATTTCATGG----T---CAAATCAAGGTAACTTATCCCGG
1 AGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTTATCCCGG
* * * * * **
110071241 AGTACCCATACCATGGCCCGTAGCCAAATCAATGTAACTCATCTCAA
1 AGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTTATCCCGG
* ** *
110071288 AATACCTATTTCATGGCCAATAGCCAAATCAAGGTAACTTATCCCGG
1 AGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTTATCCCGG
*
110071335 AGTACCTATACCATGG-CCATAGACAAATCAAGGTAACT
1 AGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACT
110071373 CCTCTCAAAA
Statistics
Matches: 168, Mismatches: 44, Indels: 15
0.74 0.19 0.07
Matches are distributed among these distances:
40 28 0.17
43 1 0.01
44 1 0.01
46 20 0.12
47 118 0.70
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.23
Consensus pattern (47 bp):
AGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTTATCCCGG
Found at i:110071278 original size:87 final size:89
Alignment explanation
Indices: 110071131--110071396 Score: 385
Period size: 87 Copynumber: 3.0 Consensus size: 89
110071121 GGCCCATAGC
* *
110071131 CAAATCAAAGTAACTTATCCCGGAGTACCTATACCATGGCCCGTAGCCAAACCAAGGTAACTCCT
1 CAAATCAAGGTAACTTATCCCGGAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCCT
110071196 CTCAAAATACTTATTTCATGG-T-
66 CTCAAAATACTTATTTCATGGATA
* * *
110071218 CAAATCAAGGTAACTTATCCCGGAGTACCCATACCATGGCCCGTAGCCAAATCAATGTAACTCAT
1 CAAATCAAGGTAACTTATCCCGGAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCCT
*
110071283 CTCAAAATACCTATTTCATGGCCAATA
66 CTCAAAATACTTATTTCATGG---ATA
* *
110071310 GCCAAATCAAGGTAACTTATCCCGGAGTACCTATACCATGG-CCATAGACAAATCAAGGTAACTC
1 --CAAATCAAGGTAACTTATCCCGGAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTC
*
110071374 CTCTCAAAATACTTGTTTCATGG
64 CTCTCAAAATACTTATTTCATGG
110071397 CCCGTATCCA
Statistics
Matches: 159, Mismatches: 13, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
87 80 0.50
91 1 0.01
93 40 0.25
94 38 0.24
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (89 bp):
CAAATCAAGGTAACTTATCCCGGAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCCT
CTCAAAATACTTATTTCATGGATA
Found at i:110071350 original size:134 final size:134
Alignment explanation
Indices: 110071107--110071350 Score: 290
Period size: 134 Copynumber: 1.8 Consensus size: 134
110071097 ATAATCAATA
* * ** *
110071107 AGTACCTATACCATGGCCCATAGCCAAATCAAAGTAACTTATCCCGGAGTACCTATACCATGGCC
1 AGTACCCATACCATGGCCCATAGCCAAATCAAAGTAACTCATCCCAAAATACCTATACCATGGCC
** * * * **
110071172 CGTAGCCAAACCAAGGTAACTCCTCTCAAAATACTTATTTCATGGTCAAATCAAGGTAACTTATC
66 AATAGCCAAACCAAGGTAACTCATCCCAAAATACCTATACCATGGTCAAATCAAGGTAACTTATC
110071237 CCGG
131 CCGG
* * * **
110071241 AGTACCCATACCATGGCCCGTAGCCAAATCAATGTAACTCATCTCAAAATACCTATTTCATGGCC
1 AGTACCCATACCATGGCCCATAGCCAAATCAAAGTAACTCATCCCAAAATACCTATACCATGGCC
* * ** *
110071306 AATAGCCAAATCAAGGTAACTTATCCCGGAGTACCTATACCATGG
66 AATAGCCAAACCAAGGTAACTCATCCCAAAATACCTATACCATGG
110071351 CCATAGACAA
Statistics
Matches: 88, Mismatches: 22, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
134 88 1.00
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (134 bp):
AGTACCCATACCATGGCCCATAGCCAAATCAAAGTAACTCATCCCAAAATACCTATACCATGGCC
AATAGCCAAACCAAGGTAACTCATCCCAAAATACCTATACCATGGTCAAATCAAGGTAACTTATC
CCGG
Found at i:110071396 original size:46 final size:47
Alignment explanation
Indices: 110071265--110071398 Score: 153
Period size: 46 Copynumber: 2.9 Consensus size: 47
110071255 GGCCCGTAGC
* *
110071265 CAAATCAATGTAACTCATCTCAAAATACCTATTTCATGGCCAATAGC
1 CAAATCAAGGTAACTCATCTCAAAATACCTATTTCATGGCCAATAGA
* * ** * **
110071312 CAAATCAAGGTAACTTATCCCGGAGTACCTATACCATGGCC-ATAGA
1 CAAATCAAGGTAACTCATCTCAAAATACCTATTTCATGGCCAATAGA
* * *
110071358 CAAATCAAGGTAACTCCTCTCAAAATACTTGTTTCATGGCC
1 CAAATCAAGGTAACTCATCTCAAAATACCTATTTCATGGCC
110071399 CGTATCCAAT
Statistics
Matches: 68, Mismatches: 19, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
46 35 0.51
47 33 0.49
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (47 bp):
CAAATCAAGGTAACTCATCTCAAAATACCTATTTCATGGCCAATAGA
Found at i:110083855 original size:32 final size:32
Alignment explanation
Indices: 110083814--110083877 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
110083804 TATTCTCTAC
*
110083814 ATAGTTAACCTCTATTTGGTTACTTTTATTAG
1 ATAGTTAACCTCTATTTGGTTACTTTCATTAG
110083846 ATAGTTAACCTCTATTTGGTTACTTTCATTAG
1 ATAGTTAACCTCTATTTGGTTACTTTCATTAG
110083878 CATTGCCTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.25, C:0.14, G:0.12, T:0.48
Consensus pattern (32 bp):
ATAGTTAACCTCTATTTGGTTACTTTCATTAG
Found at i:110087180 original size:23 final size:23
Alignment explanation
Indices: 110087138--110087196 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
110087128 TACGCTATAA
*
110087138 ATATCGCGATA-CAAAGAAGAGG
1 ATATCGCGATACCAAAAAAGAGG
110087160 ATATCGCGATACCAAAAAAGAGG
1 ATATCGCGATACCAAAAAAGAGG
110087183 ATATCGCGATACCA
1 ATATCGCGATACCA
110087197 CTAAAGGGTG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
22 11 0.31
23 24 0.69
ACGTcount: A:0.44, C:0.19, G:0.22, T:0.15
Consensus pattern (23 bp):
ATATCGCGATACCAAAAAAGAGG
Found at i:110089179 original size:31 final size:29
Alignment explanation
Indices: 110089129--110089186 Score: 89
Period size: 31 Copynumber: 1.9 Consensus size: 29
110089119 CAGATTTTTT
110089129 TTTTAACATTAAGTAGGTATAAGAAAAAA
1 TTTTAACATTAAGTAGGTATAAGAAAAAA
*
110089158 TTTTAACATTATTTGTAGGTATAAGAAAA
1 TTTTAACATTA--AGTAGGTATAAGAAAA
110089187 TTGATAAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 11 0.42
31 15 0.58
ACGTcount: A:0.47, C:0.03, G:0.14, T:0.36
Consensus pattern (29 bp):
TTTTAACATTAAGTAGGTATAAGAAAAAA
Found at i:110089188 original size:29 final size:28
Alignment explanation
Indices: 110089129--110089186 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 28
110089119 CAGATTTTTT
110089129 TTTTAACATTAAGTAGGTATAAGAAAAAA
1 TTTTAACATTAAGTAGGTATAAG-AAAAA
*
110089158 TTTTAACATTATTTGTAGGTATAAGAAAA
1 TTTTAACATTA--AGTAGGTATAAGAAAA
110089187 TTGATAAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 11 0.42
30 4 0.15
31 11 0.42
ACGTcount: A:0.47, C:0.03, G:0.14, T:0.36
Consensus pattern (28 bp):
TTTTAACATTAAGTAGGTATAAGAAAAA
Found at i:110097927 original size:29 final size:29
Alignment explanation
Indices: 110097894--110097957 Score: 128
Period size: 29 Copynumber: 2.2 Consensus size: 29
110097884 ATTTATAAAA
110097894 ATTTATATAAAAAATTATGAATGTAACTT
1 ATTTATATAAAAAATTATGAATGTAACTT
110097923 ATTTATATAAAAAATTATGAATGTAACTT
1 ATTTATATAAAAAATTATGAATGTAACTT
110097952 ATTTAT
1 ATTTAT
110097958 GTGTTAATGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (29 bp):
ATTTATATAAAAAATTATGAATGTAACTT
Found at i:110110255 original size:45 final size:45
Alignment explanation
Indices: 110110206--110110322 Score: 110
Period size: 45 Copynumber: 2.6 Consensus size: 45
110110196 AACACTAATG
* ** *
110110206 ATGAGTAAGACCATAGCTGAAAGATGTTATGGTATCATGATATAA-
1 ATGAGTAAGACCATAGCTGAAAGACGCCATGATATCATGATA-AAC
* * * * *
110110251 ATGAGTACGATCATAACTGGAAGACGCCATGATATCATGGTAAAC
1 ATGAGTAAGACCATAGCTGAAAGACGCCATGATATCATGATAAAC
* * *
110110296 AAGATTAAGACCATAGTTGAAAGACGC
1 ATGAGTAAGACCATAGCTGAAAGACGC
110110323 TGTGACATCC
Statistics
Matches: 55, Mismatches: 16, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
44 2 0.04
45 53 0.96
ACGTcount: A:0.40, C:0.14, G:0.22, T:0.24
Consensus pattern (45 bp):
ATGAGTAAGACCATAGCTGAAAGACGCCATGATATCATGATAAAC
Found at i:110110581 original size:27 final size:27
Alignment explanation
Indices: 110110551--110110616 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
110110541 TTAGTAGGAA
* *
110110551 GTTAAACATGGGATAGTCCAACAAGAT
1 GTTAAACATGGGATAGCCCAACAAGAC
* * **
110110578 GTTAAACATAGGATAGCCCGACGGGAC
1 GTTAAACATGGGATAGCCCAACAAGAC
110110605 GTTAAACATGGG
1 GTTAAACATGGG
110110617 GTAATCTGTC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.36, C:0.17, G:0.27, T:0.20
Consensus pattern (27 bp):
GTTAAACATGGGATAGCCCAACAAGAC
Found at i:110113423 original size:42 final size:43
Alignment explanation
Indices: 110113322--110113483 Score: 159
Period size: 43 Copynumber: 3.7 Consensus size: 43
110113312 AGCATATACA
* * *
110113322 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAACATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAAACATCG
* * * *
110113365 ATGCCACTATCCCAGACAG-GGTCTTACACGAAATCAGATAT-G
1 ATGCCAATGTCCCAGAC-GTGGTCTTACACGAAATCAAACATCG
* *
110113407 ATGCCAATGTCCCAGACGTGGTCTTACACGCAAAAAGCAGAA-GTCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACG---AAATCA-AACATCG
* *
110113453 ATGCCAACGTCCTAGACGTGGTCTTACACGA
1 ATGCCAATGTCCCAGACGTGGTCTTACACGA
110113484 TAACACATAT
Statistics
Matches: 98, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
41 1 0.01
42 27 0.28
43 33 0.34
44 1 0.01
45 6 0.06
46 30 0.31
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAAACATCG
Found at i:110117322 original size:31 final size:31
Alignment explanation
Indices: 110117284--110117342 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
110117274 GCAAGAAAAG
110117284 GGTTTGTAAATGATTAGCCATTGGAATGGCC
1 GGTTTGTAAATGATTAGCCATTGGAATGGCC
110117315 GGTTTGTAAATGATTAGCCATTGGAATG
1 GGTTTGTAAATGATTAGCCATTGGAATG
110117343 ACCAATCTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.27, C:0.10, G:0.29, T:0.34
Consensus pattern (31 bp):
GGTTTGTAAATGATTAGCCATTGGAATGGCC
Found at i:110118363 original size:18 final size:18
Alignment explanation
Indices: 110118340--110118374 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
110118330 AATCAGTAAT
* *
110118340 CAGTAACGGTAGCAGTAG
1 CAGTAACAGTAACAGTAG
110118358 CAGTAACAGTAACAGTA
1 CAGTAACAGTAACAGTA
110118375 TTCAACACAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.17, G:0.26, T:0.17
Consensus pattern (18 bp):
CAGTAACAGTAACAGTAG
Found at i:110118422 original size:45 final size:45
Alignment explanation
Indices: 110118358--110118461 Score: 156
Period size: 45 Copynumber: 2.3 Consensus size: 45
110118348 GTAGCAGTAG
**
110118358 CAGTAACAGTAACAGTATTCAACACACAAAGTG-CTGAATTTGTAA
1 CAGTAACAGTAACAGTATTCAACACACAAAGTGTC-GAATCGGTAA
* *
110118403 CAGTAACGGTAACAGTATTCGACACACAAAGTGTCGAATCGGTAA
1 CAGTAACAGTAACAGTATTCAACACACAAAGTGTCGAATCGGTAA
110118448 CAGTAACAGTAACA
1 CAGTAACAGTAACA
110118462 ATAACAGTAG
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
45 52 0.98
46 1 0.02
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.21
Consensus pattern (45 bp):
CAGTAACAGTAACAGTATTCAACACACAAAGTGTCGAATCGGTAA
Found at i:110118454 original size:51 final size:50
Alignment explanation
Indices: 110118346--110118479 Score: 136
Period size: 45 Copynumber: 2.7 Consensus size: 50
110118336 TAATCAGTAA
* *
110118346 CGGTAGCAGTAGCAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAAT
1 CGGTA-CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCTGAAT
* *
110118397 ---T--TGTAACAGTAACGGTAACAGTATTCGACACACAAAGTG-TCGAAT
1 CGGTACAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCT-GAAT
* * *
110118442 CGGTAACAGTAACAGTAACAATAACAGTAGTCGGCACA
1 CGGT-ACAGTAACAGTAACAGTAACAGTATTCGACACA
110118480 TAAGTGCCTG
Statistics
Matches: 67, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
44 1 0.01
45 38 0.57
48 2 0.03
51 26 0.39
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.20
Consensus pattern (50 bp):
CGGTACAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCTGAAT
Found at i:110119476 original size:12 final size:12
Alignment explanation
Indices: 110119459--110119488 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
110119449 TCTAGTTTTT
110119459 CCTTTTTCTTTC
1 CCTTTTTCTTTC
110119471 CCTTTTTCTTTC
1 CCTTTTTCTTTC
*
110119483 TCTTTT
1 CCTTTT
110119489 CGAATGCTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (12 bp):
CCTTTTTCTTTC
Done.