Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 58 of 362
Found at i:17459199 original size:28 final size:28
Alignment explanation
Indices: 17459146--17459201 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
17459136 CCAAAAAAGA
* *
17459146 TAATGTTTCTTTAGTCTTTAATTTATTT
1 TAATGTTTCTTTAATCTTTAAATTATTT
*
17459174 TAATTTTTCTTTAAT-TTTGAAATTATTT
1 TAATGTTTCTTTAATCTTT-AAATTATTT
17459202 CTTTACCTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 3 0.12
28 21 0.88
ACGTcount: A:0.25, C:0.05, G:0.05, T:0.64
Consensus pattern (28 bp):
TAATGTTTCTTTAATCTTTAAATTATTT
Found at i:17460798 original size:20 final size:20
Alignment explanation
Indices: 17460772--17460822 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
17460762 GTTATTTTAA
*
17460772 ATAAATTTTAAATATTTTTCT
1 ATAACTTTTAAATA-TTTTCT
* *
17460793 ATAATTTTTTAATATTTTCT
1 ATAACTTTTAAATATTTTCT
17460813 ATAACTTTTA
1 ATAACTTTTA
17460823 TTGATTTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (20 bp):
ATAACTTTTAAATATTTTCT
Found at i:17465157 original size:11 final size:11
Alignment explanation
Indices: 17465141--17465182 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
17465131 GCAGCTTAGG
17465141 TTTTGTTTTGT
1 TTTTGTTTTGT
17465152 TTTTGTTTTGT
1 TTTTGTTTTGT
*
17465163 TTTT-TTTTTT
1 TTTTGTTTTGT
*
17465173 TTTTTTTTTG
1 TTTTGTTTTG
17465183 AGAAATCTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (11 bp):
TTTTGTTTTGT
Found at i:17468882 original size:209 final size:206
Alignment explanation
Indices: 17468522--17468943 Score: 537
Period size: 209 Copynumber: 2.0 Consensus size: 206
17468512 GTTATTGCAT
* * * * *
17468522 ACATTGGCTAAGTCTGGGATTGTGATGTCTTATTTTTAATTTAATTCTTTTTACTTAGATCTAGT
1 ACATTGGCCAAGTCTGGGATTGTGATATCTTATATTTAAGTTAATTCTTTTCACTTAGATCTAGT
* * * *
17468587 TGTTATTACTATTTCAAAGCCCAGTTTTCTCATTGCCTAGTTTGCTATGTTGTTGCTACTTTTTC
66 TGTTATTACTATTTCAAAGCCCAGTTTGCTCATTGACTAGTTTGCTATGTTGTTGCTACTCTCTC
*
17468652 TATTTTTAATGATGCAAGATTGTTTAAATTGCTAATATTGGTCCCATACATATAAGAGAGCATGT
131 TATTTTTAATGATGCAAGATTG-TTAAATTGCTAATATTGG-CCC-TACATATAAGAGAGCATGC
* *
17468717 AAGTAATATGTCTC
193 AAGTAATATATCAC
* *
17468731 ACATTGGCCAAGTTTGGGATTGTTG-TATCTTATATTTAAGTTAATTCTTTTCACTT-TATCTAG
1 ACATTGGCCAAGTCTGGGATTG-TGATATCTTATATTTAAGTTAATTCTTTTCACTTAGATCTAG
* ** * *
17468794 TTGTTGTTACTA-TTCATAA-CCCAGTTTGCTTGTTGACTAGTTTGTTATGTTTGTTGTTACTAC
65 TTGTTATTACTATTTCA-AAGCCCAGTTTGCTCATTGACTAGTTTGCTATG-TTGTTGCTACT-C
* * * **
17468857 TCTCTATTTTTATTGATGCAAGATTGTTAAATTGCTAATATTGGGCCTACATATGAGAGAGTGTG
127 TCTCTATTTTTAATGATGCAAGATTGTTAAATTGCTAATATTGGCCCTACATATAAGAGAGCATG
17468922 CAAGTAATATATCAC
192 CAAGTAATATATCAC
17468937 ACATTGG
1 ACATTGG
17468944 GTAAACTTGG
Statistics
Matches: 185, Mismatches: 24, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
206 34 0.18
207 31 0.17
208 47 0.25
209 71 0.38
210 2 0.01
ACGTcount: A:0.25, C:0.14, G:0.17, T:0.45
Consensus pattern (206 bp):
ACATTGGCCAAGTCTGGGATTGTGATATCTTATATTTAAGTTAATTCTTTTCACTTAGATCTAGT
TGTTATTACTATTTCAAAGCCCAGTTTGCTCATTGACTAGTTTGCTATGTTGTTGCTACTCTCTC
TATTTTTAATGATGCAAGATTGTTAAATTGCTAATATTGGCCCTACATATAAGAGAGCATGCAAG
TAATATATCAC
Found at i:17469021 original size:52 final size:52
Alignment explanation
Indices: 17468906--17469033 Score: 172
Period size: 52 Copynumber: 2.5 Consensus size: 52
17468896 ATTGGGCCTA
* * **
17468906 CATATGAGAGAGTGTGCAAGTAATATATCACACATTGGGTAAACTTGGTGTTT
1 CATATAAGAGAGAGTGCAAGTAATATAT-ACACATTCAGTAAACTTGGTGTTT
*
17468959 CATAGAAGAGAGAGTGCAAGTAATATAT-CACATGTCAGTAAACTTGGTGTTT
1 CATATAAGAGAGAGTGCAAGTAATATATACACAT-TCAGTAAACTTGGTGTTT
17469011 CATATAAGAGAGA--GCAAGTAATA
1 CATATAAGAGAGAGTGCAAGTAATA
17469034 CGTTTGGAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
50 10 0.15
51 5 0.07
52 28 0.41
53 25 0.37
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.28
Consensus pattern (52 bp):
CATATAAGAGAGAGTGCAAGTAATATATACACATTCAGTAAACTTGGTGTTT
Found at i:17477798 original size:2 final size:2
Alignment explanation
Indices: 17477793--17477818 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
17477783 TCTCTCTATA
17477793 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
17477819 CCTGCTTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:17484697 original size:21 final size:22
Alignment explanation
Indices: 17484671--17484729 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
17484661 GTTTTAAGAA
*
17484671 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
17484692 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
17484714 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
17484730 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:17484744 original size:26 final size:24
Alignment explanation
Indices: 17484700--17484749 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
17484690 ATTTGTTTTA
*
17484700 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
17484724 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
17484750 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:17484767 original size:26 final size:26
Alignment explanation
Indices: 17484715--17484767 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
17484705 TGTTTTTATG
*
17484715 TTTTTAAATATATTTGATTTATTATA
1 TTTTTAAATATATTTGATTTATAATA
* *
17484741 TTTTTAAAT-TTTTTTATTTAATAATA
1 TTTTTAAATATATTTGATTT-ATAATA
17484767 T
1 T
17484768 AAGAAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (26 bp):
TTTTTAAATATATTTGATTTATAATA
Found at i:17485385 original size:55 final size:55
Alignment explanation
Indices: 17485297--17485406 Score: 202
Period size: 55 Copynumber: 2.0 Consensus size: 55
17485287 CTAAATGTAA
* *
17485297 AAGTCGTTTTCAGTTTTGTGGTTGATTCGTGATCGTTCAAGCCTATACTCGAAGC
1 AAGTCGTTTTCAATTTTGTGGTTGATTCATGATCGTTCAAGCCTATACTCGAAGC
17485352 AAGTCGTTTTCAATTTTGTGGTTGATTCATGATCGTTCAAGCCTATACTCGAAGC
1 AAGTCGTTTTCAATTTTGTGGTTGATTCATGATCGTTCAAGCCTATACTCGAAGC
17485407 GATTCGTGAT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (55 bp):
AAGTCGTTTTCAATTTTGTGGTTGATTCATGATCGTTCAAGCCTATACTCGAAGC
Found at i:17498305 original size:25 final size:25
Alignment explanation
Indices: 17498266--17498320 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
17498256 TTAATCGGTA
* *
17498266 TAAAATATTAATAATTCAAT-AAAT
1 TAAAAAATTAATAATTAAATAAAAT
17498290 TAAAAAATTAATTAATTAAATAAAAT
1 TAAAAAATTAA-TAATTAAATAAAAT
17498316 TAAAA
1 TAAAA
17498321 TTGACGAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 10 0.37
25 8 0.30
26 9 0.33
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (25 bp):
TAAAAAATTAATAATTAAATAAAAT
Found at i:17499124 original size:30 final size:30
Alignment explanation
Indices: 17499067--17499125 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
17499057 GCCTTTTGAA
* *
17499067 AATATTTACAAAAAGAGACATCTAATTTTT
1 AATATTTACAAAAAGAGACACCAAATTTTT
17499097 AATATTTACAAAAAGAG-CAACCAAATTTT
1 AATATTTACAAAAAGAGAC-ACCAAATTTT
17499126 GAAATAATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.49, C:0.12, G:0.07, T:0.32
Consensus pattern (30 bp):
AATATTTACAAAAAGAGACACCAAATTTTT
Found at i:17502119 original size:37 final size:38
Alignment explanation
Indices: 17501973--17502161 Score: 220
Period size: 38 Copynumber: 4.9 Consensus size: 38
17501963 GAATCTAGTC
* * * * *
17501973 ACCAGCACAAAACATGCGGGACTTTAAGCTCAGATATAAT
1 ACCAGCACGAAGCCTGCGGGA-TTTAA-CCCGGATATAAT
* *
17502013 ACCAGCACTAGGCCTGCGGGATTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
*
17502051 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
17502089 ACCAGCACGAAGCCTGC-GGATTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
* * *
17502126 TCCAGCA-TATAGCCTGCGGGTCTTTAAGCCCGGATA
1 ACCAGCACGA-AGCCTGCGGG-ATTTAA-CCCGGATA
17502162 CACATCAAAT
Statistics
Matches: 132, Mismatches: 13, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
36 1 0.01
37 32 0.24
38 64 0.48
39 10 0.08
40 25 0.19
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
Found at i:17502131 original size:75 final size:77
Alignment explanation
Indices: 17501987--17502161 Score: 230
Period size: 75 Copynumber: 2.3 Consensus size: 77
17501977 GCACAAAACA
* * * *
17501987 TGCGGGACTTTAAGCTCAGATATAATACCAGCACTAGGCCTGCGGGATTTAACCCGGATATAATA
1 TGCGGGA-TTTAAGCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATA
17502052 CCAGCACGA-AGCC
65 CCAGCA-GATAGCC
* *
17502065 TGCGGGATTTAA-CCCGGATATATTACCAGCACGAAGCCTGC-GGATTTAACCCGGATATAATTC
1 TGCGGGATTTAAGCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATAC
*
17502128 CAGCATATAGCC
66 CAGCAGATAGCC
*
17502140 TGCGGGTCTTTAAGCCCGGATA
1 TGCGGG-ATTTAAGCCCGGATA
17502162 CACATCAAAT
Statistics
Matches: 86, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
74 1 0.01
75 36 0.42
76 29 0.34
77 13 0.15
78 7 0.08
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (77 bp):
TGCGGGATTTAAGCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATAC
CAGCAGATAGCC
Found at i:17506454 original size:14 final size:14
Alignment explanation
Indices: 17506435--17506464 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
17506425 CTAAGAGAAT
*
17506435 GATGATGGATGAGG
1 GATGATGAATGAGG
17506449 GATGATGAATGAGG
1 GATGATGAATGAGG
17506463 GA
1 GA
17506465 ATGAAGGGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.47, T:0.20
Consensus pattern (14 bp):
GATGATGAATGAGG
Found at i:17514763 original size:47 final size:46
Alignment explanation
Indices: 17514678--17514947 Score: 208
Period size: 47 Copynumber: 5.8 Consensus size: 46
17514668 TGATTTGTGC
** * * *
17514678 GCCAGTGTAAGATGTGTCTGGGACATGCTTCGGCCACAG-TATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-CACAGAGACGAGA
* *
17514724 GCCATTGTAAGACCATGTCTGGGACATAGCATCGGCACAGAGACGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACAGAGACGAGA
* * *
17514772 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACAGA-GATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-CAC-AGAGACGAGA
* * * * * * * *
17514819 ACCAGAGTAAGACGTGTCAGGGACACGAATCGGCTA-AGAGTC--GT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGC-ACAGAGACGAGA
* ** * *
17514863 GCTAGTGTAAGACATGTCTGGGACATGCATCAACACACGTATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCACA-G-AGACGAGA
17514911 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCA
17514948 ATATTACCAA
Statistics
Matches: 171, Mismatches: 39, Indels: 24
0.73 0.17 0.10
Matches are distributed among these distances:
43 1 0.01
44 26 0.15
45 4 0.02
46 20 0.12
47 62 0.36
48 37 0.22
49 14 0.08
50 7 0.04
ACGTcount: A:0.29, C:0.21, G:0.30, T:0.20
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCACAGAGACGAGA
Found at i:17514842 original size:94 final size:91
Alignment explanation
Indices: 17514678--17514936 Score: 231
Period size: 94 Copynumber: 2.8 Consensus size: 91
17514668 TGATTTGTGC
** * * **
17514678 GCCAGTGTAAGATGTGTCTGGGACATGCTTCGGCCACAGTATGAGAGCCATTGTAAGACCATGTC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGTATGAGAACCAGAGTAAGACCATGTC
* *
17514743 TGGGACATAGCATCGGC-ACAGAGACGAGT
66 AGGGACA-AGAATCGGCTA-AGAGAC--GT
* *
17514772 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACAG-A-GATAACCAGAGTAAGA-CGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-C-C-ACAGTATGAGAACCAGAGTAAGACCAT
* *
17514834 GTCAGGGACACGAATCGGCTAAGAGTCGT
63 GTCAGGGACAAGAATCGGCTAAGAGACGT
* ** * *
17514863 GCTAGTGTAAGACATGTCTGGGACATGCATC-AACACACGTATATGAGAGCCAGTGTAAGACCAT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-G--TATGAGAACCAGAGTAAGACCAT
*
17514927 GTCTGGGACA
63 GTCAGGGACA
17514937 TGGCATCGGC
Statistics
Matches: 135, Mismatches: 20, Indels: 21
0.77 0.11 0.12
Matches are distributed among these distances:
87 3 0.02
88 2 0.01
91 33 0.24
92 13 0.10
93 23 0.17
94 42 0.31
95 13 0.10
96 2 0.01
97 4 0.03
ACGTcount: A:0.29, C:0.21, G:0.30, T:0.20
Consensus pattern (91 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGTATGAGAACCAGAGTAAGACCATGTC
AGGGACAAGAATCGGCTAAGAGACGT
Found at i:17516411 original size:24 final size:24
Alignment explanation
Indices: 17516384--17516430 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
17516374 TATGAGTACA
**
17516384 AACAATAATCGGCTAGGCTTAGGC
1 AACAATAATCAACTAGGCTTAGGC
17516408 AACAATAATCAACTAGGCTTAGG
1 AACAATAATCAACTAGGCTTAGG
17516431 TTGTGATGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.21
Consensus pattern (24 bp):
AACAATAATCAACTAGGCTTAGGC
Found at i:17526916 original size:46 final size:46
Alignment explanation
Indices: 17526844--17527010 Score: 142
Period size: 46 Copynumber: 3.6 Consensus size: 46
17526834 ATCTCATAGC
* * * *
17526844 CGATGCATGTCCCAAACAAGTTTTACACTGGC-TTACGTCTCGAGGT
1 CGATGCATGTCCCAAACATGTCTTACACTGGCACT-CGTCTCAAGGT
* * * *
17526890 CGATGCATGTCCCAAAGATGTCTTACATTAGCACTCGTCTCAATGT
1 CGATGCATGTCCCAAACATGTCTTACACTGGCACTCGTCTCAAGGT
* * * *
17526936 CGATGCCATGTCCCAGACATGGTCTTACACTGGC-C-CTTATAATATGGT
1 CGATG-CATGTCCCAAACAT-GTCTTACACTGGCACTCGTCTCA-A-GGT
* *
17526984 TGATGCATGTCCCAGACATGTCTTACA
1 CGATGCATGTCCCAAACATGTCTTACA
17527011 TTAGCTCACA
Statistics
Matches: 99, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
46 53 0.54
47 29 0.29
48 17 0.17
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (46 bp):
CGATGCATGTCCCAAACATGTCTTACACTGGCACTCGTCTCAAGGT
Found at i:17545480 original size:35 final size:36
Alignment explanation
Indices: 17545413--17545491 Score: 108
Period size: 35 Copynumber: 2.2 Consensus size: 36
17545403 CAAATTACAT
* *
17545413 AACCCAAATTTAAAACCCAAGACATTACAAACCC-A
1 AACCCAAATTTAAAACCCAAAACAATACAAACCCTA
17545448 AACCCAAATTTAAAACCCAAAACTAATA-AAACCCTA
1 AACCCAAATTTAAAACCCAAAAC-AATACAAACCCTA
*
17545484 AGCCCAAA
1 AACCCAAA
17545492 AAGGCCCAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
35 28 0.72
36 11 0.28
ACGTcount: A:0.53, C:0.30, G:0.03, T:0.14
Consensus pattern (36 bp):
AACCCAAATTTAAAACCCAAAACAATACAAACCCTA
Found at i:17545761 original size:20 final size:20
Alignment explanation
Indices: 17545736--17545774 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
17545726 CTGAATACTA
17545736 AAAAAAAAGTAATCAAAAAT
1 AAAAAAAAGTAATCAAAAAT
* *
17545756 AAAAAAAGGTTATCAAAAA
1 AAAAAAAAGTAATCAAAAA
17545775 GGTGAATTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.72, C:0.05, G:0.08, T:0.15
Consensus pattern (20 bp):
AAAAAAAAGTAATCAAAAAT
Found at i:17560196 original size:89 final size:89
Alignment explanation
Indices: 17560103--17560573 Score: 495
Period size: 89 Copynumber: 5.3 Consensus size: 89
17560093 AGATAGTAGA
*
17560103 TCTTATCTCCCTGAAGTTGCAGTGGAATAGACCGAAGATAACAAACCTTATCTCTCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAATAGATCGAAGATAACAAACCTTATCTCTCTGAAGTTGC
17560168 AGTAGAGCAGGTTGAAG-TACCAAG
66 AGTAGAGCAGGTTGAAGATA-CAAG
* * * *
17560192 TCTTATTTCCCTGAAGTTGCAGTGTAATAGATCGAAGATAATAAACCTTATCTCTCTGAAGTTGT
1 TCTTATCTCCCTGAAGTTGCAGTGGAATAGATCGAAGATAACAAACCTTATCTCTCTGAAGTTGC
*
17560257 AGTAGAGTAGGTTGAAG-TACCAAG
66 AGTAGAGCAGGTTGAAGATA-CAAG
* * ** * * *
17560281 TCTTATTTCCCTGAAGTTGCAGTGGAACAGA-CTGAAGATAGTAGATCTTATCTCCCT-AATGTT
1 TCTTATCTCCCTGAAGTTGCAGTGGAATAGATC-GAAGATAACAAACCTTATCTCTCTGAA-GTT
* ** * * *
17560344 GCAATAGAATAGATCGAAGATAACAAA
64 GCAGTAGAGCAGGTTGAAGAT-ACAAG
* * * ** * * * ** *
17560371 CCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAG-TACCAAGTCTTATCTCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAATAGATCGAAGATAACAAACCTTATCTCTCTGAAGTTGC
* * * **
17560435 AGTGGAACAGGCTGAAGATAGTAG
66 AGTAGAGCAGGTTGAAGATACAAG
* *
17560459 ATCTTATCTCCCTGAAGTTGCAGTGGAATAGATCGAAGATAGCAAACCTTATCTCTCTGAAGTAG
1 -TCTTATCTCCCTGAAGTTGCAGTGGAATAGATCGAAGATAACAAACCTTATCTCTCTGAAGTTG
* *
17560524 CAGTGGAGCAGGTTGAAGTTA-AAG
65 CAGTAGAGCAGGTTGAAGATACAAG
17560548 TCTTATCTCCCTGAAGTTGCAGTGGA
1 TCTTATCTCCCTGAAGTTGCAGTGGA
17560574 GCAGACTAAA
Statistics
Matches: 320, Mismatches: 54, Indels: 17
0.82 0.14 0.04
Matches are distributed among these distances:
88 31 0.10
89 214 0.67
90 74 0.23
91 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (89 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAATAGATCGAAGATAACAAACCTTATCTCTCTGAAGTTGC
AGTAGAGCAGGTTGAAGATACAAG
Found at i:17560251 original size:134 final size:134
Alignment explanation
Indices: 17560010--17560570 Score: 589
Period size: 134 Copynumber: 4.2 Consensus size: 134
17560000 GTCATCATAG
* ** * * * *
17560010 CAAACCTTATCTCTCTGAAGTTGCAGTAGAGTAGGTTGAAG-TACCAAG-TCTTATTTCCTTAAA
1 CAAACCTTATCTCCCTGAAGTTGCAGTAGAACAGGCTGAAGATA-CAAGATCTTATCTCCCTGAA
* ** * * * * * ***
17560073 GTTGTAGTGGAATAGA-CTGAAGATAGTAGATCTTATCTCCCTGAAGTTGCAGTGGAATAGACCG
65 GTTGCAGTGGAATAGATC-GAAGATAACAAACCTTATCTCTCTGAAGTTGCAGTAGAGTAGGTTG
*
17560137 AAGATAA
129 AAG-TAC
* * * *
17560144 CAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAG-TACCAAG-TCTTATTTCCCTGAA
1 CAAACCTTATCTCCCTGAAGTTGCAGTAGAACAGGCTGAAGATA-CAAGATCTTATCTCCCTGAA
* * *
17560207 GTTGCAGTGTAATAGATCGAAGATAATAAACCTTATCTCTCTGAAGTTGTAGTAGAGTAGGTTGA
65 GTTGCAGTGGAATAGATCGAAGATAACAAACCTTATCTCTCTGAAGTTGCAGTAGAGTAGGTTGA
17560272 AGTAC
130 AGTAC
** * * * **
17560277 CAAGTCTTATTTCCCTGAAGTTGCAGTGGAACAGACTGAAGATAGTAGATCTTATCTCCCT-AAT
1 CAAACCTTATCTCCCTGAAGTTGCAGTAGAACAGGCTGAAGATACAAGATCTTATCTCCCTGAA-
* * *
17560341 GTTGCAATAGAATAGATCGAAGATAACAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGA
65 GTTGCAGTGGAATAGATCGAAGATAACAAACCTTATCTCTCTGAAGTTGCAGTAGAGTAGGTTGA
17560406 AGTAC
130 AGTAC
** * **
17560411 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGGCTGAAGATAGTAGATCTTATCTCCCTGAAG
1 CAAACCTTATCTCCCTGAAGTTGCAGTAGAACAGGCTGAAGATACAAGATCTTATCTCCCTGAAG
* * * *
17560476 TTGCAGTGGAATAGATCGAAGATAGCAAACCTTATCTCTCTGAAGTAGCAGTGGAGCAGGTTGAA
66 TTGCAGTGGAATAGATCGAAGATAACAAACCTTATCTCTCTGAAGTTGCAGTAGAGTAGGTTGAA
17560541 GTTA-
131 G-TAC
**
17560545 -AAGTCTTATCTCCCTGAAGTTGCAGT
1 CAAACCTTATCTCCCTGAAGTTGCAGT
17560571 GGAGCAGACT
Statistics
Matches: 381, Mismatches: 40, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
133 65 0.17
134 311 0.82
135 5 0.01
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.29
Consensus pattern (134 bp):
CAAACCTTATCTCCCTGAAGTTGCAGTAGAACAGGCTGAAGATACAAGATCTTATCTCCCTGAAG
TTGCAGTGGAATAGATCGAAGATAACAAACCTTATCTCTCTGAAGTTGCAGTAGAGTAGGTTGAA
GTAC
Found at i:17560399 original size:223 final size:223
Alignment explanation
Indices: 17560011--17560568 Score: 773
Period size: 223 Copynumber: 2.5 Consensus size: 223
17560001 TCATCATAGC
*
17560011 AAACCTTATCTCTCTGAAGTTGCAGTAGAGTAGGTTGAAGTACCAAGTCTTATTTCCTTAAAGTT
1 AAACCTTATCTCTCTGAAGTTGCAGTAGAGTAGGTTGAAGTACCAAGTCTTATTTCCCTAAAGTT
* * * *
17560076 GTAGTGGAATAGACTGAAGATAGTAGATCTTATCTCCCTGAAGTTGCAGTGGAATAGACCGAAGA
66 GCAGTGGAACAGACTGAAGATAGTAGATCTTATCTCCCTGAAGTTGCAATAGAATAGACCGAAGA
*
17560141 TAACAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGTACCAAGTCTTATTTCCCTGA
131 TAACAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGTACCAAGTCTTATCTCCCTGA
* * *
17560206 AGTTGCAGTGTAATA-GATCGAAGATAAT
196 AGTTGCAGTGGAACAGGCT-GAAGATAAT
* *
17560234 AAACCTTATCTCTCTGAAGTTGTAGTAGAGTAGGTTGAAGTACCAAGTCTTATTTCCCTGAAGTT
1 AAACCTTATCTCTCTGAAGTTGCAGTAGAGTAGGTTGAAGTACCAAGTCTTATTTCCCTAAAGTT
*
17560299 GCAGTGGAACAGACTGAAGATAGTAGATCTTATCTCCCT-AATGTTGCAATAGAATAGATCGAAG
66 GCAGTGGAACAGACTGAAGATAGTAGATCTTATCTCCCTGAA-GTTGCAATAGAATAGACCGAAG
17560363 ATAACAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGTACCAAGTCTTATCTCCCTG
130 ATAACAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGTACCAAGTCTTATCTCCCTG
*
17560428 AAGTTGCAGTGGAACAGGCTGAAGATAGT
195 AAGTTGCAGTGGAACAGGCTGAAGATAAT
* * * * * * * * ** * * *
17560457 AGATCTTATCTCCCTGAAGTTGCAGTGGAATAGATCGAAGATAGCAAACCTTATCTCTCTGAAGT
1 AAACCTTATCTCTCTGAAGTTGCAGTAGAGTAGGTTGAAG-TACCAAGTCTTATTTCCCTAAAGT
* * ** * *
17560522 AGCAGTGGAGCAGGTTGAAGTTA-AAG-TCTTATCTCCCTGAAGTTGCA
65 TGCAGTGGAACAGACTGAAGATAGTAGATCTTATCTCCCTGAAGTTGCA
17560569 GTGGAGCAGA
Statistics
Matches: 299, Mismatches: 32, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
222 20 0.07
223 240 0.80
224 39 0.13
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.29
Consensus pattern (223 bp):
AAACCTTATCTCTCTGAAGTTGCAGTAGAGTAGGTTGAAGTACCAAGTCTTATTTCCCTAAAGTT
GCAGTGGAACAGACTGAAGATAGTAGATCTTATCTCCCTGAAGTTGCAATAGAATAGACCGAAGA
TAACAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGTACCAAGTCTTATCTCCCTGA
AGTTGCAGTGGAACAGGCTGAAGATAAT
Found at i:17560648 original size:133 final size:133
Alignment explanation
Indices: 17560234--17560630 Score: 456
Period size: 134 Copynumber: 3.0 Consensus size: 133
17560224 CGAAGATAAT
* * * *
17560234 AAACCTTATCTCTCTGAAGTTGTAGTAGAGTAGGTTGAAGTACCAAGTCTTATTTCCCTGAAGTT
1 AAACCTTATCTCTCTGAAGTAGCAGTAGAGCAGGTTGAAGTA-CAAGTCTTATCTCCCTGAAGTT
* * * ** * * **
17560299 GCAGTGGAACAGACTGAAGATAGTAGATCTTATCTCCCT-AATGTTGCAATAGAATAGATCGAAG
65 GCAGTGGAACAGACTAAAGATAGCAGATCTTATCCCCCTGAA-GTCACAGTAGAACAGATAAAAG
*
17560363 ATAAC
129 ATAGC
*
17560368 AAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGTACCAAGTCTTATCTCCCTGAAGTT
1 AAACCTTATCTCTCTGAAGTAGCAGTAGAGCAGGTTGAAGTA-CAAGTCTTATCTCCCTGAAGTT
* * * * ** * * **
17560433 GCAGTGGAACAGGCTGAAGATAGTAGATCTTATCTCCCTGAAGTTGCAGTGGAATAGATCGAAGA
65 GCAGTGGAACAGACTAAAGATAGCAGATCTTATCCCCCTGAAGTCACAGTAGAACAGATAAAAGA
17560498 TAGC
130 TAGC
*
17560502 AAACCTTATCTCTCTGAAGTAGCAGTGGAGCAGGTTGAAGTTA-AAGTCTTATCTCCCTGAAGTT
1 AAACCTTATCTCTCTGAAGTAGCAGTAGAGCAGGTTGAAG-TACAAGTCTTATCTCCCTGAAGTT
* * * * *
17560566 GCAGTGGAGCAGACTAAAGATAGCAGATTTTGTCCCCCTGCAGTCACAGTAGAGCAGATTAAAAG
65 GCAGTGGAACAGACTAAAGATAGCAGATCTTATCCCCCTGAAGTCACAGTAGAACAGA-TAAAAG
17560631 CTACAAGGCT
Statistics
Matches: 236, Mismatches: 24, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
133 66 0.28
134 166 0.70
135 4 0.02
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.27
Consensus pattern (133 bp):
AAACCTTATCTCTCTGAAGTAGCAGTAGAGCAGGTTGAAGTACAAGTCTTATCTCCCTGAAGTTG
CAGTGGAACAGACTAAAGATAGCAGATCTTATCCCCCTGAAGTCACAGTAGAACAGATAAAAGAT
AGC
Found at i:17560798 original size:42 final size:42
Alignment explanation
Indices: 17560734--17560818 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
17560724 CAAAGAAGAA
*
17560734 AGAATCAAAGAAATCAAGACTCGGCGAGATCGGGCAAAATTT
1 AGAAGCAAAGAAATCAAGACTCGGCGAGATCGGGCAAAATTT
17560776 AGAAGCAAAGAAATCAAGACTCGGCGAGATCGGGCAAAATTT
1 AGAAGCAAAGAAATCAAGACTCGGCGAGATCGGGCAAAATTT
17560818 A
1 A
17560819 TCTTTCTTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.44, C:0.16, G:0.25, T:0.15
Consensus pattern (42 bp):
AGAAGCAAAGAAATCAAGACTCGGCGAGATCGGGCAAAATTT
Found at i:17563913 original size:14 final size:13
Alignment explanation
Indices: 17563893--17563924 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
17563883 AATATTTAAC
17563893 TTGTTCTTAATTA
1 TTGTTCTTAATTA
17563906 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
17563920 TTGTT
1 TTGTT
17563925 TTGATATCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:17575884 original size:55 final size:54
Alignment explanation
Indices: 17575764--17575889 Score: 135
Period size: 55 Copynumber: 2.3 Consensus size: 54
17575754 GAGCCTGCCA
* * * *
17575764 AAACAACACGGGCGTGCGACACGCCCATGTGGAAGACCCGTGGTTGAAACTGAT
1 AAACTACACGGGCGTGCGACACGCCCATGTCGAACACCCATGGTTGAAACTGAT
* * * * *
17575818 AAACTAGCACGGGCGTGCGACATGCCCGTGTCTAACACCCATGGTTGAACCTGTT
1 AAACTA-CACGGGCGTGCGACACGCCCATGTCGAACACCCATGGTTGAAACTGAT
* *
17575873 AGATTGACACGGGCGTG
1 AAACT-ACACGGGCGTG
17575890 GGGATTTCCC
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
54 5 0.08
55 53 0.90
56 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.29, T:0.18
Consensus pattern (54 bp):
AAACTACACGGGCGTGCGACACGCCCATGTCGAACACCCATGGTTGAAACTGAT
Found at i:17587420 original size:18 final size:18
Alignment explanation
Indices: 17587378--17587412 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
17587368 TTGCCTCAAA
17587378 TTCAAATCTTTTTGAGTC
1 TTCAAATCTTTTTGAGTC
*
17587396 TTTAAATCTTTTTGAGT
1 TTCAAATCTTTTTGAGT
17587413 TATCAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.11, G:0.11, T:0.54
Consensus pattern (18 bp):
TTCAAATCTTTTTGAGTC
Found at i:17591909 original size:46 final size:47
Alignment explanation
Indices: 17591805--17591923 Score: 132
Period size: 46 Copynumber: 2.5 Consensus size: 47
17591795 CTTCAACATA
** * *
17591805 GACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAATATG
1 GACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAATATG
* * *
17591855 GGCCTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGATATG
1 GACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAATATG
*
17591901 GACTTACATGGCTCATTTCTGTC
1 GACTTACATGGCTCATTCCTGTC
17591924 CTGTCAACCC
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
46 33 0.56
50 26 0.44
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.35
Consensus pattern (47 bp):
GACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAATATG
Found at i:17592283 original size:30 final size:30
Alignment explanation
Indices: 17592249--17592309 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
17592239 TCCTTTACTC
*
17592249 AAACTTTT-CAAAAATTACATTTTTGCCCCT
1 AAACTTTTGC-AAAATTACACTTTTGCCCCT
* *
17592279 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACACTTTTGCCCCT
17592309 A
1 A
17592310 GGCTCGAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.41
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACACTTTTGCCCCT
Found at i:17598296 original size:22 final size:21
Alignment explanation
Indices: 17598258--17598298 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
17598248 AAATATCATG
* *
17598258 AAATAAGTAAAAGAATGAAGA
1 AAATAAGGAAAAAAATGAAGA
17598279 AAATAGAGGAAAAAAATGAA
1 AAATA-AGGAAAAAAATGAA
17598299 CAAATGCAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.68, C:0.00, G:0.20, T:0.12
Consensus pattern (21 bp):
AAATAAGGAAAAAAATGAAGA
Found at i:17605877 original size:55 final size:53
Alignment explanation
Indices: 17605749--17605950 Score: 233
Period size: 53 Copynumber: 3.8 Consensus size: 53
17605739 ATTAGGATTT
* *
17605749 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
* * * * *
17605802 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGT-AAGTTC-ATAAGGC
* * * * * *
17605857 AAAGATCCCATGTAAAACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
* * * *
17605910 AAGGATACCACGTAAGACCATGTCACGACATGGCAATGGTA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTA
17605951 TGTTTAAAAA
Statistics
Matches: 121, Mismatches: 26, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
53 75 0.62
54 7 0.06
55 39 0.32
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.20
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:17613267 original size:53 final size:53
Alignment explanation
Indices: 17613182--17613387 Score: 223
Period size: 53 Copynumber: 3.8 Consensus size: 53
17613172 ATTAGGGTTT
* * *
17613182 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* * * * * * *
17613235 AAGGATATCATGTAAGACCTTGTCAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * * *
17613290 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGAC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* * * *
17613343 AAGGATACCACGTAAGACCATGTCAAGAGATGGAAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
17613388 TAAAAAGGAA
Statistics
Matches: 123, Mismatches: 28, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
53 77 0.63
54 7 0.06
55 39 0.32
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:17621043 original size:40 final size:40
Alignment explanation
Indices: 17620988--17621070 Score: 139
Period size: 40 Copynumber: 2.1 Consensus size: 40
17620978 ATCAACAAAG
* * *
17620988 GAGAAAGTTTCTTCACGTTGTGAAGTACTATTTCTGGGAA
1 GAGAAAGATTCTTCACGATGTGAAGTACTATTTCTAGGAA
17621028 GAGAAAGATTCTTCACGATGTGAAGTACTATTTCTAGGAA
1 GAGAAAGATTCTTCACGATGTGAAGTACTATTTCTAGGAA
17621068 GAG
1 GAG
17621071 CTATATTTGT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.31
Consensus pattern (40 bp):
GAGAAAGATTCTTCACGATGTGAAGTACTATTTCTAGGAA
Found at i:17623045 original size:15 final size:17
Alignment explanation
Indices: 17623020--17623051 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
17623010 ATTCATCTAT
17623020 CACTCAAAA-CCCAAAG
1 CACTCAAAACCCCAAAG
17623036 CACT-AAAACCCCAAAG
1 CACTCAAAACCCCAAAG
17623052 TCCCGAAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.50, C:0.38, G:0.06, T:0.06
Consensus pattern (17 bp):
CACTCAAAACCCCAAAG
Found at i:17623504 original size:25 final size:24
Alignment explanation
Indices: 17623457--17623514 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 24
17623447 TAGTTTTCTC
*
17623457 TTAATTTTTAATTTTATTCAATTA
1 TTAATTTTTAATTTCATTCAATTA
*
17623481 GTTAATTTTTCAA-TTCATTGAATTA
1 -TTAATTTTT-AATTTCATTCAATTA
17623506 TTAATTTTT
1 TTAATTTTT
17623515 TTATTAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
24 9 0.30
25 19 0.63
26 2 0.07
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.60
Consensus pattern (24 bp):
TTAATTTTTAATTTCATTCAATTA
Found at i:17623527 original size:11 final size:12
Alignment explanation
Indices: 17623503--17623528 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17623493 ATTCATTGAA
17623503 TTATTAATTTTT
1 TTATTAATTTTT
17623515 TTATTAATTTTT
1 TTATTAATTTTT
17623527 TT
1 TT
17623529 TGAGAAAATA
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:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TTATTAATTTTT
Found at i:17626102 original size:56 final size:57
Alignment explanation
Indices: 17626034--17626144 Score: 145
Period size: 57 Copynumber: 2.0 Consensus size: 57
17626024 CACCTATATA
* * * * *
17626034 TGGCCCACTAGGCTC-AATCTCTTTCATATGGCCCATTAGGCCC-ATTCACATTTATG
1 TGGCCCACTAGGCCCAAATCACATTCATATGG-CCACTAGGCCCAAATCACATTTATG
*
17626090 TGGCCCATTAGGCCCAAATCACATTCATATGGCCACTAGGCCCAAATCACATTTA
1 TGGCCCACTAGGCCCAAATCACATTCATATGGCCACTAGGCCCAAATCACATTTA
17626145 CAGTCATGCT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
56 23 0.49
57 24 0.51
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (57 bp):
TGGCCCACTAGGCCCAAATCACATTCATATGGCCACTAGGCCCAAATCACATTTATG
Found at i:17626140 original size:28 final size:28
Alignment explanation
Indices: 17626031--17626142 Score: 127
Period size: 28 Copynumber: 4.0 Consensus size: 28
17626021 ACACACCTAT
* * *
17626031 ATATGGCCCACTAGGCTCAATCTCTTTC
1 ATATGGCCCACTAGGCCCAATCACATTC
* * *
17626059 ATATGGCCCATTAGGCCCATTCACATTT
1 ATATGGCCCACTAGGCCCAATCACATTC
* *
17626087 ATGTGGCCCATTAGGCCCAAATCACATTC
1 ATATGGCCCACTAGGCCC-AATCACATTC
17626116 ATATGG-CCACTAGGCCCAAATCACATT
1 ATATGGCCCACTAGGCCC-AATCACATT
17626143 TACAGTCATG
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 59 0.82
29 13 0.18
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (28 bp):
ATATGGCCCACTAGGCCCAATCACATTC
Found at i:17627757 original size:68 final size:70
Alignment explanation
Indices: 17627607--17627764 Score: 180
Period size: 68 Copynumber: 2.3 Consensus size: 70
17627597 CTAGCCAATT
* * *
17627607 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGGATCACACATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGGATCACACATGCGACCTAGCTACA
**
17627672 TTTATC
65 CATATC
* * *
17627678 TCTCTCGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTACT
1 TATCTCGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGGATCACACATGCGACCTAGCTAC-
*
17627740 ACATA-G
64 ACATATC
17627746 TATCTCGTAGCTCTCTTGT
1 TATCTCGTAGCTCTCTTGT
17627765 ACACATGATG
Statistics
Matches: 75, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
68 40 0.53
69 3 0.04
70 2 0.03
71 30 0.40
ACGTcount: A:0.20, C:0.28, G:0.16, T:0.35
Consensus pattern (70 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGGATCACACATGCGACCTAGCTACAC
ATATC
Found at i:17630254 original size:16 final size:17
Alignment explanation
Indices: 17630226--17630262 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
17630216 AAAACAAAAA
17630226 TTTGAGATTTCGGGATT
1 TTTGAGATTTCGGGATT
17630243 TTTGAG-TTTCGGGATT
1 TTTGAGATTTCGGGATT
17630259 TTTG
1 TTTG
17630263 GGGCATTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.14, C:0.05, G:0.30, T:0.51
Consensus pattern (17 bp):
TTTGAGATTTCGGGATT
Found at i:17639424 original size:27 final size:27
Alignment explanation
Indices: 17639394--17639497 Score: 75
Period size: 27 Copynumber: 3.9 Consensus size: 27
17639384 CAGCGACGAT
* *
17639394 AATATAATCGGCACACAGCCATGGGTA
1 AATATAATCGGCACAAAGCCATAGGTA
* * * * *
17639421 AATATGATCGACACAGAGTCATCA-ATA
1 AATATAATCGGCACAAAGCCAT-AGGTA
* * * *
17639448 AATATGATAGGCACATAGCCACAGGTA
1 AATATAATCGGCACAAAGCCATAGGTA
* *
17639475 AATACAATTGGCACAAAGCCATA
1 AATATAATCGGCACAAAGCCATA
17639498 ATCAAGACAG
Statistics
Matches: 58, Mismatches: 17, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
26 1 0.02
27 57 0.98
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.19
Consensus pattern (27 bp):
AATATAATCGGCACAAAGCCATAGGTA
Found at i:17639882 original size:54 final size:54
Alignment explanation
Indices: 17639824--17639966 Score: 202
Period size: 54 Copynumber: 2.6 Consensus size: 54
17639814 CAAAACAATC
17639824 ATTTTAC-CTTACAGGGGTATTTCGGTAATTTTACACTACAAGGGTATTTAGATA
1 ATTTTACACTTACA-GGGTATTTCGGTAATTTTACACTACAAGGGTATTTAGATA
* * *
17639878 ATTTTACAC-TACACGGATATTTCGGTAATTTTACACTATAAGGGTATTTTGATA
1 ATTTTACACTTACA-GGGTATTTCGGTAATTTTACACTACAAGGGTATTTAGATA
*
17639932 ATTTTACACTATA-AGGGTATTTCGATAATTTTACA
1 ATTTTACACT-TACAGGGTATTTCGGTAATTTTACA
17639967 AACTAGGGGT
Statistics
Matches: 80, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
54 76 0.95
55 2 0.03
56 2 0.03
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (54 bp):
ATTTTACACTTACAGGGTATTTCGGTAATTTTACACTACAAGGGTATTTAGATA
Found at i:17639976 original size:27 final size:28
Alignment explanation
Indices: 17639838--17639966 Score: 176
Period size: 27 Copynumber: 4.8 Consensus size: 28
17639828 TACCTTACAG
*
17639838 GGGTATTTCGGTAATTTTACACTAC-AA
1 GGGTATTTCGATAATTTTACACTACTAA
* *
17639865 GGGTATTTAGATAATTTTACACTAC-AC
1 GGGTATTTCGATAATTTTACACTACTAA
* *
17639892 GGATATTTCGGTAATTTTACACTA-TAA
1 GGGTATTTCGATAATTTTACACTACTAA
*
17639919 GGGTATTTTGATAATTTTACACTA-TAA
1 GGGTATTTCGATAATTTTACACTACTAA
17639946 GGGTATTTCGATAATTTTACA
1 GGGTATTTCGATAATTTTACA
17639967 AACTAGGGGT
Statistics
Matches: 90, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
27 90 1.00
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (28 bp):
GGGTATTTCGATAATTTTACACTACTAA
Found at i:17644534 original size:16 final size:16
Alignment explanation
Indices: 17644513--17644544 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
17644503 AGGTACTCTC
17644513 CAACCGAGCTACACTT
1 CAACCGAGCTACACTT
17644529 CAACCGAGCTACACTT
1 CAACCGAGCTACACTT
17644545 GACCTTGTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.38, G:0.12, T:0.19
Consensus pattern (16 bp):
CAACCGAGCTACACTT
Found at i:17649165 original size:30 final size:30
Alignment explanation
Indices: 17649131--17649191 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
17649121 TCCTTAACTC
17649131 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
17649161 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
17649191 A
1 A
17649192 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:17654410 original size:14 final size:14
Alignment explanation
Indices: 17654391--17654423 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
17654381 ATTTTTACAG
17654391 AAAGAAAATAGAAA-
1 AAAGAAAA-AGAAAC
17654405 AAAGAAAAAGAAAC
1 AAAGAAAAAGAAAC
17654419 AAAGA
1 AAAGA
17654424 GGGGAAGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.79, C:0.03, G:0.15, T:0.03
Consensus pattern (14 bp):
AAAGAAAAAGAAAC
Found at i:17654496 original size:3 final size:3
Alignment explanation
Indices: 17654488--17654513 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
17654478 AGTAAAAATA
17654488 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
17654514 ACAAATAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:17656216 original size:31 final size:31
Alignment explanation
Indices: 17656178--17656256 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
17656168 TTTAACGGTT
17656178 ACTGGGCCAAAGCCTTTTCATAAATCATATC
1 ACTGGGCCAAAGCCTTTTCATAAATCATATC
*
17656209 ACTGGGCCAAAGCTTTTTCATAAATCATATC
1 ACTGGGCCAAAGCCTTTTCATAAATCATATC
*
17656240 ACTGGGCCGAAGCCTTT
1 ACTGGGCCAAAGCCTTT
17656257 ACTGTAAACG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (31 bp):
ACTGGGCCAAAGCCTTTTCATAAATCATATC
Found at i:17656327 original size:42 final size:42
Alignment explanation
Indices: 17656280--17656371 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
17656270 TGGTCCATAG
* ** *
17656280 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
17656322 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
17656364 GCCCATTT
1 GCCCATTT
17656372 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:17656547 original size:25 final size:25
Alignment explanation
Indices: 17656519--17656588 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
17656509 CTCTTTTAAT
*
17656519 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GACA
*
17656544 AACTGGGGCAAAGCCCTTTTCGGCA
1 AACTGGGGCAAAGCCCTTTTCGACA
*
17656569 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
17656589 TGCACTTCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
25 37 0.90
26 4 0.10
ACGTcount: A:0.24, C:0.26, G:0.27, T:0.23
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGACA
Found at i:17657463 original size:27 final size:27
Alignment explanation
Indices: 17657402--17657478 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 27
17657392 GGCATATTCG
17657402 TCATTTTACCATACAGGGGTATTACGA
1 TCATTTTACCATACAGGGGTATTACGA
* * *
17657429 TCACTTTACCCTACAGGGGCT-TTACGG
1 TCATTTTACCATACAGGGG-TATTACGA
* *
17657456 TCTTTTTACC-TATTAGGGGTATT
1 TCATTTTACCATA-CAGGGGTATT
17657479 TTAGTCATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
26 3 0.07
27 37 0.90
28 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.38
Consensus pattern (27 bp):
TCATTTTACCATACAGGGGTATTACGA
Found at i:17657549 original size:27 final size:27
Alignment explanation
Indices: 17657523--17657667 Score: 134
Period size: 27 Copynumber: 5.3 Consensus size: 27
17657513 ATCTACAAAC
*
17657523 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTTGTAAAT
*
17657550 CAATGGTATTTCTA-TAATTTT-TAGAAAGT
1 CAAGGGTATTTC-AGTAATTTTGT--AAA-T
*
17657579 CAAGGGTATTTCTGTAATTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
** **
17657606 C-AGAGGTATTTTGGTAATTTTACAAAT
1 CAAG-GGTATTTCAGTAATTTTGTAAAT
* *
17657633 CGAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
*
17657660 CGAGGGTA
1 CAAGGGTA
17657668 AAACGATAAT
Statistics
Matches: 99, Mismatches: 11, Indels: 16
0.79 0.09 0.13
Matches are distributed among these distances:
26 3 0.03
27 68 0.69
28 9 0.09
29 18 0.18
30 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTTTGTAAAT
Found at i:17657614 original size:56 final size:54
Alignment explanation
Indices: 17657516--17657664 Score: 171
Period size: 56 Copynumber: 2.7 Consensus size: 54
17657506 TTGGTAAATC
* * *
17657516 TACAAACCAAGGGTATTTCAGTAATTTTGTAAACCA-ATGGTATTTCT-ATAATTTT
1 TACAAATCAAGGGTATTTCTGTAATTTTGTAAATCAGA-GGTATTT-TGATAA-TTT
* *
17657571 TAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAATCAGAGGTATTTTGGTAATTT
1 TACAAA-TCAAGGGTATTTCTGTAATTTTGTAAATCAGAGGTATTTTGATAATTT
*
17657626 TACAAATCGAGGGTATTT-TAGTAATTTTGTAAATC-GAGG
1 TACAAATCAAGGGTATTTCT-GTAATTTTGTAAATCAGAGG
17657665 GTAAAACGAT
Statistics
Matches: 83, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
53 5 0.06
54 26 0.31
55 14 0.17
56 37 0.45
57 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.40
Consensus pattern (54 bp):
TACAAATCAAGGGTATTTCTGTAATTTTGTAAATCAGAGGTATTTTGATAATTT
Found at i:17657677 original size:27 final size:27
Alignment explanation
Indices: 17657647--17657802 Score: 158
Period size: 27 Copynumber: 5.8 Consensus size: 27
17657637 GGTATTTTAG
*
17657647 TAATTTTGTAAATCGAGGGTAAAACGA
1 TAATTCTGTAAATCGAGGGTAAAACGA
* * *
17657674 TAATTTTGTAAATTGAGGGTAAAACGG
1 TAATTCTGTAAATCGAGGGTAAAACGA
*
17657701 TAATTCTATAAATCGAGGGTAAAAC-A
1 TAATTCTGTAAATCGAGGGTAAAACGA
*
17657727 GTAATT-T-TAGGAATTGAGGGTAAAAC-A
1 -TAATTCTGTA--AATCGAGGGTAAAACGA
* * *
17657754 GTAATTCTATAAATCGAGGGTAAAATGG
1 -TAATTCTGTAAATCGAGGGTAAAACGA
*
17657782 TAATTCTGTAAATCTAGGGTA
1 TAATTCTGTAAATCGAGGGTA
17657803 CTTTGGTAAT
Statistics
Matches: 111, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
25 2 0.02
26 1 0.01
27 105 0.95
28 1 0.01
29 2 0.02
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (27 bp):
TAATTCTGTAAATCGAGGGTAAAACGA
Found at i:17657678 original size:54 final size:54
Alignment explanation
Indices: 17657516--17657936 Score: 206
Period size: 54 Copynumber: 7.8 Consensus size: 54
17657506 TTGGTAAATC
* * * * * * * * *
17657516 TACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCTATAATTTT
1 TACAAATCGAGGGTATTTCAGTAATTTTATAAATCGAGGGTAATACGATAA-TTT
* * * * * ** *
17657571 TAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAATC-AGAGGTATTTTGGTAATTT
1 TACAAA-TCGAGGGTATTTCAGTAATTTTATAAATCGAG-GGTAATACGATAATTT
* * *
17657626 TACAAATCGAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACGATAATTT
1 TACAAATCGAGGGTATTTCAGTAATTTTATAAATCGAGGGTAATACGATAATTT
** * *** * * *
17657680 TGTAAATTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAC-AGTAATTT
1 TACAAATCGAGGGTATTTCAGTAATTTTATAAATCGAGGGTAATACGA-TAATTT
** * *** * * * * *
17657734 TAGGAATTGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATGGTAATTC
1 TACAAATCGAGGGTATTTCAGTAATTTTATAAATCGAGGGTAATACGATAATTT
** * * * * **
17657788 TGTAAATCTAGGGTACTTT-GGTAATTTTACAAATTGAGGGCATTTTA-G-TAATTT
1 TACAAATCGAGGGTA-TTTCAGTAATTTTATAAATCGAGGG--TAATACGATAATTT
* * * * * ** *
17657842 TAC-AATCGACGGTATTTCAATAATTTTATAAACCGGGGGTACTTTGGTAATTT
1 TACAAATCGAGGGTATTTCAGTAATTTTATAAATCGAGGGTAATACGATAATTT
* * *
17657895 TACAAGTCGAAGGTATTTCAGTAATTTTACAAATCGAGGGTA
1 TACAAATCGAGGGTATTTCAGTAATTTTATAAATCGAGGGTA
17657937 TTTCAGTAAT
Statistics
Matches: 285, Mismatches: 69, Indels: 25
0.75 0.18 0.07
Matches are distributed among these distances:
51 2 0.01
52 4 0.01
53 34 0.12
54 190 0.67
55 17 0.06
56 38 0.13
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.36
Consensus pattern (54 bp):
TACAAATCGAGGGTATTTCAGTAATTTTATAAATCGAGGGTAATACGATAATTT
Found at i:17657703 original size:81 final size:81
Alignment explanation
Indices: 17657618--17657827 Score: 226
Period size: 81 Copynumber: 2.6 Consensus size: 81
17657608 GAGGTATTTT
* * * *
17657618 GGTAATTTTACAAATCGAGGGTATTTTAGTAATTTT-GTAAATCGAGGGTAAAAC-GATAATTTT
1 GGTAATTCTATAAATCGAGGGTAATTTAGTAATTTTAG-AAATCGAGGGTAAAACAG-TAATTCT
* *
17657681 GTAAATTGAGGGTAAAAC
64 ATAAATCGAGGGTAAAAC
*** * *
17657699 GGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTAGGAATTGAGGGTAAAACAGTAATTCTAT
1 GGTAATTCTATAAATCGAGGGTAATTTAGTAATTTTAGAAATCGAGGGTAAAACAGTAATTCTAT
*
17657764 AAATCGAGGGTAAAAT
66 AAATCGAGGGTAAAAC
* * * * * *
17657780 GGTAATTCTGTAAATCTAGGGTACTTTGGTAATTTTACAAATTGAGGG
1 GGTAATTCTATAAATCGAGGGTAATTTAGTAATTTTAGAAATCGAGGG
17657828 CATTTTAGTA
Statistics
Matches: 106, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
81 104 0.98
82 2 0.02
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.33
Consensus pattern (81 bp):
GGTAATTCTATAAATCGAGGGTAATTTAGTAATTTTAGAAATCGAGGGTAAAACAGTAATTCTAT
AAATCGAGGGTAAAAC
Found at i:17657813 original size:27 final size:27
Alignment explanation
Indices: 17657617--17657802 Score: 156
Period size: 27 Copynumber: 6.9 Consensus size: 27
17657607 AGAGGTATTT
* * ***
17657617 TGGTAATTTTACAAATCGAGGGTATTT
1 TGGTAATTCTATAAATCGAGGGTAAAA
* * *
17657644 TAGTAATTTTGTAAATCGAGGGTAAAA
1 TGGTAATTCTATAAATCGAGGGTAAAA
* * * * *
17657671 CGATAATTTTGTAAATTGAGGGTAAAA
1 TGGTAATTCTATAAATCGAGGGTAAAA
*
17657698 CGGTAATTCTATAAATCGAGGGTAAAA
1 TGGTAATTCTATAAATCGAGGGTAAAA
** * ** *
17657725 CAGTAATTTTAGGAATTGAGGGTAAAA
1 TGGTAATTCTATAAATCGAGGGTAAAA
**
17657752 CAGTAATTCTATAAATCGAGGGTAAAA
1 TGGTAATTCTATAAATCGAGGGTAAAA
* *
17657779 TGGTAATTCTGTAAATCTAGGGTA
1 TGGTAATTCTATAAATCGAGGGTA
17657803 CTTTGGTAAT
Statistics
Matches: 132, Mismatches: 27, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 132 1.00
ACGTcount: A:0.38, C:0.07, G:0.23, T:0.32
Consensus pattern (27 bp):
TGGTAATTCTATAAATCGAGGGTAAAA
Found at i:17657821 original size:27 final size:27
Alignment explanation
Indices: 17657791--17657950 Score: 164
Period size: 27 Copynumber: 6.0 Consensus size: 27
17657781 GTAATTCTGT
* *
17657791 AAATCTAGGGTACTTT-GGTAATTTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTAC
* * *
17657818 AAATTGAGGGCATTTTAGTAATTTTAC
1 AAATCGAGGGTATTTCAGTAATTTTAC
* * *
17657845 -AATCGACGGTATTTCAATAATTTTAT
1 AAATCGAGGGTATTTCAGTAATTTTAC
* * *
17657871 AAACCGGGGGTACTTT-GGTAATTTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTAC
* *
17657898 AAGTCGAAGGTATTTCAGTAATTTTAC
1 AAATCGAGGGTATTTCAGTAATTTTAC
17657925 AAATCGAGGGTATTTCAGTAATTTTA
1 AAATCGAGGGTATTTCAGTAATTTTA
17657951 GTAAACTAAA
Statistics
Matches: 106, Mismatches: 23, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
26 26 0.25
27 77 0.73
28 3 0.03
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.39
Consensus pattern (27 bp):
AAATCGAGGGTATTTCAGTAATTTTAC
Found at i:17657891 original size:80 final size:82
Alignment explanation
Indices: 17657798--17657956 Score: 241
Period size: 80 Copynumber: 2.0 Consensus size: 82
17657788 TGTAAATCTA
* * *
17657798 GGGTACTTTGGTAATTTTACAAATTGAGGGCATTTTAGTAATTTTAC-AATCGACGGTATTTCAA
1 GGGTACTTTGGTAATTTTACAAATCGAAGGCATTTCAGTAATTTTACAAATCGACGGTATTTCAA
17657862 TAATTTTA-TAAACCGG
66 TAATTTTAGTAAACCGG
* * * *
17657878 GGGTACTTTGGTAATTTTACAAGTCGAAGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAG
1 GGGTACTTTGGTAATTTTACAAATCGAAGGCATTTCAGTAATTTTACAAATCGACGGTATTTCAA
17657943 TAATTTTAGTAAAC
66 TAATTTTAGTAAAC
17657957 TAAAGTATTC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
80 42 0.60
81 23 0.33
82 5 0.07
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.38
Consensus pattern (82 bp):
GGGTACTTTGGTAATTTTACAAATCGAAGGCATTTCAGTAATTTTACAAATCGACGGTATTTCAA
TAATTTTAGTAAACCGG
Found at i:17661007 original size:22 final size:23
Alignment explanation
Indices: 17660974--17661016 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
17660964 AGTACTCACC
17660974 ACTTTTTGTG-TTCGAAGGGAAT
1 ACTTTTTGTGTTTCGAAGGGAAT
*
17660996 ACTTGTTT-TGTTTGGAAGGGA
1 ACTT-TTTGTGTTTCGAAGGGA
17661017 TATTGGTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.21, C:0.07, G:0.30, T:0.42
Consensus pattern (23 bp):
ACTTTTTGTGTTTCGAAGGGAAT
Found at i:17667746 original size:12 final size:12
Alignment explanation
Indices: 17667729--17667756 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
17667719 TCCTAATACA
17667729 CTCCTAAAATCC
1 CTCCTAAAATCC
17667741 CTCCTAAAATCC
1 CTCCTAAAATCC
17667753 CTCC
1 CTCC
17667757 AAGACCAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.29, C:0.46, G:0.00, T:0.25
Consensus pattern (12 bp):
CTCCTAAAATCC
Found at i:17668618 original size:28 final size:29
Alignment explanation
Indices: 17668587--17668642 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
17668577 ACAAGCATCA
*
17668587 CATATCCATCATTT-AACACAACCAAAGC
1 CATATCCACCATTTAAACACAACCAAAGC
*
17668615 CATATGCACCATTTCAAACACAACCAAA
1 CATATCCACCATTT-AAACACAACCAAA
17668643 CCAACCAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 12 0.50
30 12 0.50
ACGTcount: A:0.45, C:0.32, G:0.04, T:0.20
Consensus pattern (29 bp):
CATATCCACCATTTAAACACAACCAAAGC
Found at i:17681926 original size:27 final size:27
Alignment explanation
Indices: 17681867--17681928 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
17681857 GTGTCATAGG
17681867 AATTAAAATAGGATAAAATAAATAATT
1 AATTAAAATAGGATAAAATAAATAATT
* *
17681894 AGTTAATAATAGTA-AAAAT-AATAATT
1 AATTAA-AATAGGATAAAATAAATAATT
17681920 AAATTAAAA
1 -AATTAAAA
17681929 AATTATAGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
26 9 0.30
27 15 0.50
28 6 0.20
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (27 bp):
AATTAAAATAGGATAAAATAAATAATT
Found at i:17682489 original size:21 final size:21
Alignment explanation
Indices: 17682450--17682489 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
17682440 TTTATTTAAA
*
17682450 AATATAAATGATATAGAATAT
1 AATATAAATGAAATAGAATAT
*
17682471 AATATAAATGAAATGGAAT
1 AATATAAATGAAATAGAAT
17682490 TACTCATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.30
Consensus pattern (21 bp):
AATATAAATGAAATAGAATAT
Found at i:17682530 original size:21 final size:21
Alignment explanation
Indices: 17682497--17682537 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
17682487 AATTACTCAT
* *
17682497 AAAAGTTCTATATCTCTATAG
1 AAAAGTTCGATATATCTATAG
*
17682518 AAAAGTTGGATATATCTATA
1 AAAAGTTCGATATATCTATA
17682538 TAATCAATCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (21 bp):
AAAAGTTCGATATATCTATAG
Found at i:17683742 original size:17 final size:17
Alignment explanation
Indices: 17683720--17683752 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
17683710 ATGGGCTTCA
17683720 TTTTGTATATAGTATAC
1 TTTTGTATATAGTATAC
17683737 TTTTGTATATAGTATA
1 TTTTGTATATAGTATA
17683753 TATATTAGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.03, G:0.12, T:0.55
Consensus pattern (17 bp):
TTTTGTATATAGTATAC
Found at i:17683856 original size:14 final size:15
Alignment explanation
Indices: 17683813--17683858 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
17683803 ATATGCGTGA
17683813 ATTTTATTATATAAT
1 ATTTTATTATATAAT
*
17683828 A-TTTATGTTTATAAT
1 ATTTTAT-TATATAAT
*
17683843 -TTTTTTTATATAAT
1 ATTTTATTATATAAT
17683857 AT
1 AT
17683859 ATGATTTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (15 bp):
ATTTTATTATATAAT
Found at i:17693049 original size:24 final size:24
Alignment explanation
Indices: 17693022--17693069 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
17693012 TAGTTAAATG
*
17693022 TTGTTTCTTTATTTCAATCAAACT
1 TTGTTTATTTATTTCAATCAAACT
*
17693046 TTGTTTATTTGTTTCAATCAAACT
1 TTGTTTATTTATTTCAATCAAACT
17693070 CTGATTAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.25, C:0.15, G:0.06, T:0.54
Consensus pattern (24 bp):
TTGTTTATTTATTTCAATCAAACT
Found at i:17697272 original size:30 final size:30
Alignment explanation
Indices: 17697233--17697289 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
17697223 GCTGTCTCAC
*
17697233 TTGCCCGTGTGGGACACATTGCCGTGTCAT
1 TTGCCCGTGTGGGACACATAGCCGTGTCAT
* *
17697263 TTGCTCGTGTGTGACACATAGCCGTGT
1 TTGCCCGTGTGGGACACATAGCCGTGT
17697290 GACAGCCTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.14, C:0.25, G:0.30, T:0.32
Consensus pattern (30 bp):
TTGCCCGTGTGGGACACATAGCCGTGTCAT
Found at i:17703862 original size:40 final size:40
Alignment explanation
Indices: 17703779--17703999 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
17703769 TATTCGAATG
*
17703779 ATATCCGGGCTAAGTCCCGAAGGAATTT-TGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
17703818 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
17703858 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
17703898 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* * *
17703938 ATATCCGGACTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
* *
17703978 ATATCC-GGCTAAATCCAGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
17704000 TACTTGGGTT
Statistics
Matches: 168, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 39 0.23
40 126 0.75
41 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:17710232 original size:42 final size:42
Alignment explanation
Indices: 17710132--17710294 Score: 114
Period size: 42 Copynumber: 3.8 Consensus size: 42
17710122 CAACGCCAAT
* ** * * *
17710132 GTCCCAGACGTGGTCTTACATGTAATCACATATCGGTG-CCAC
1 GTCCCAGACATGGTCTTACA-CAAATCACAAATCGATGTCAAC
* * * * * * *
17710174 TATCCCAGAGAGGGTCTTACACAAACTCATACA-CGATGTCGAT
1 -GTCCCAGACATGGTCTTACACAAA-TCACAAATCGATGTCAAC
*
17710217 GTCCCAGACATGGTCTTATACGTAAATCACAAATCGATGTCAAC
1 GTCCCAGACATGGTCTTACAC--AAATCACAAATCGATGTCAAC
* * *
17710261 GTCCCAGACGTGGTCTTACACAGATCACATATCG
1 GTCCCAGACATGGTCTTACACAAATCACAAATCG
17710295 GAATTCTATG
Statistics
Matches: 92, Mismatches: 23, Indels: 11
0.73 0.18 0.09
Matches are distributed among these distances:
42 34 0.37
43 28 0.30
44 30 0.33
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACAAATCACAAATCGATGTCAAC
Found at i:17713538 original size:5 final size:5
Alignment explanation
Indices: 17713528--17713583 Score: 57
Period size: 5 Copynumber: 11.6 Consensus size: 5
17713518 AATAGTTTTA
*
17713528 TATAT TATAT TATA- TATAT TATAGT ATATAT T-T-T TATAT TATAT AAT-T
1 TATAT TATAT TATAT TATAT TATA-T -TATAT TATAT TATAT TATAT TATAT
17713576 TATAT TAT
1 TATAT TAT
17713584 TATATATTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
3 2 0.05
4 9 0.21
5 26 0.60
6 2 0.05
7 4 0.09
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:17713545 original size:14 final size:14
Alignment explanation
Indices: 17713526--17713591 Score: 80
Period size: 14 Copynumber: 4.6 Consensus size: 14
17713516 ATAATAGTTT
17713526 TATATATTATATTA
1 TATATATTATATTA
*
17713540 TATATATTATAGTA
1 TATATATTATATTA
*
17713554 TATATTTTTATATTA
1 TATA-TATTATATTA
17713569 TATA-ATTTATATTA
1 TATATA-TTATATTA
17713583 TTATATATT
1 -TATATATT
17713592 TTTATTTGTA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
14 25 0.57
15 18 0.41
16 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (14 bp):
TATATATTATATTA
Found at i:17713566 original size:34 final size:32
Alignment explanation
Indices: 17713523--17713596 Score: 103
Period size: 34 Copynumber: 2.2 Consensus size: 32
17713513 ATCATAATAG
*
17713523 TTTTATATATTATATTATATATATTATAGTATATA
1 TTTT-TATATTATATAATATATATTAT--TATATA
*
17713558 TTTTTATATTATATAATTTATATTATTATATA
1 TTTTTATATTATATAATATATATTATTATATA
17713590 TTTTTAT
1 TTTTTAT
17713597 TTGTAAATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
32 13 0.35
34 20 0.54
35 4 0.11
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (32 bp):
TTTTTATATTATATAATATATATTATTATATA
Found at i:17723402 original size:87 final size:87
Alignment explanation
Indices: 17723273--17724035 Score: 686
Period size: 87 Copynumber: 8.7 Consensus size: 87
17723263 GAGAGCAGAT
* * * *
17723273 ACATAGAAGATTTAACCTTT-AGATGATTT-TACTAAAGCAGATCCAAGGTGATTTGGCATCCTT
1 ACATAGCAGATTTGA-CTTTCAGATG-TTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTT
*
17723336 GTGTTCATAAGGAGAAAATCGAAG
64 GTGTTCACAAGGAGAAAATCGAAG
* * *
17723360 ACACAGCAGATTTGGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
1 ACATAGCAGATTTGACTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGT
*
17723425 GTTTACAAGGA-ACAAATCGAAG
66 GTTCACAAGGAGA-AAATCGAAG
* * * * *
17723447 ACATAGCAAATTTGACTTTCGGATGTTCTCACACTGAAGCAGATCCAAGATAACAAATCTGGCAT
1 ACATAGCAGATTTGACTTTCAGATGTT-T-ATACTGAAGCAGATCCAAGAT----GATTTGGCAT
* ** *
17723512 -CTCTAT-TTCGACAA--AGAGCA--G-AT
60 CCT-TGTGTTC-ACAAGGAGAAAATCGAAG
* * * * * *
17723535 ACATAACAGATCTAACCTTCAAATGATTT-TACTGAAGTAGATCCAAGATGATTTGGCATCCTTG
1 ACATAGCAGATTTGACTTTCAGATG-TTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTG
*
17723599 TGTTCACAAGGAGCAAATCGAAG
65 TGTTCACAAGGAGAAAATCGAAG
* * *
17723622 ACACAGCAGATTTGGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
1 ACATAGCAGATTTGACTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGT
*
17723687 GTTTACAAGGA-ACAAATCGAAG
66 GTTCACAAGGAGA-AAATCGAAG
* * *
17723709 ACATAGCAGATTTGACTTTCGGATGTTCTCACACTGAAGCAGATCCAAGATAACAGATCTGGCAT
1 ACATAGCAGATTTGACTTTCAGATGTT-T-ATACTGAAGCAGATCCAAGAT----GATTTGGCA-
* * * ** *
17723774 CTCCAT-T-TT--GATGGAGAGCA--G-AT
59 -TCCTTGTGTTCACAAGGAGAAAATCGAAG
* * *
17723797 ACATAGCAGATCTAACCTTCAGATGATTT-TACTGAAGCAGATCCAAGATGATTTGGCATCCTTG
1 ACATAGCAGATTTGACTTTCAGATG-TTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTG
*
17723861 TGTTCACAAGGAGAAAATTGAAG
65 TGTTCACAAGGAGAAAATCGAAG
* * * * * *
17723884 ACACAGCAGATTTGGCTTTCATG-TGTTTATAATGAAGCAGATCTAAGATGATTTGGCATCATCG
1 ACATAGCAGATTTGACTTTCA-GATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTG
* *
17723948 TGTTTACAAGGAGCAAATCGAAG
65 TGTTCACAAGGAGAAAATCGAAG
* ** *
17723971 ACATAGCAGATTTGACCTTCAGATGTTTACGCTGAAGCAGATCCAAGATGATTTGGCATCTTTGT
1 ACATAGCAGATTTGACTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGT
17724036 ATTGTCAGAG
Statistics
Matches: 541, Mismatches: 93, Indels: 84
0.75 0.13 0.12
Matches are distributed among these distances:
80 4 0.01
81 1 0.00
82 24 0.04
83 5 0.01
84 10 0.02
86 54 0.10
87 310 0.57
88 46 0.09
89 46 0.09
91 7 0.01
92 6 0.01
93 24 0.04
94 1 0.00
95 3 0.01
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (87 bp):
ACATAGCAGATTTGACTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGT
GTTCACAAGGAGAAAATCGAAG
Found at i:17723706 original size:262 final size:262
Alignment explanation
Indices: 17723241--17724019 Score: 1280
Period size: 262 Copynumber: 3.0 Consensus size: 262
17723231 ATCAAATCAG
* *
17723241 ATCTGGCATCTCCATTTCGATGGAGAGCAGATACATAGA-AGATTTAACCTTTAGATGATTTTAC
1 ATCTGGCATCTCCATTTCGATGGAGAGCAGATACATA-ACAGATCTAACCTTCAGATGATTTTAC
* * *
17723305 TAAAGCAGATCCAAGGTGATTTGGCATCCTTGTGTTCATAAGGAGAAAATCGAAGACACAGCAGA
65 TGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCACAAGGAGAAAATCGAAGACACAGCAGA
17723370 TTTGGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGG
130 TTTGGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGG
*
17723435 AACAAATCGAAGACATAGCAAATTTGACTTTCGGATGTTCTCACACTGAAGCAGATCCAAGATAA
195 AACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACTGAAGCAGATCCAAGATAA
17723500 CAA
260 CAA
* *** *
17723503 ATCTGGCATCTCTATTTCGACAAAGAGCAGATACATAACAGATCTAACCTTCAAATGATTTTACT
1 ATCTGGCATCTCCATTTCGATGGAGAGCAGATACATAACAGATCTAACCTTCAGATGATTTTACT
* *
17723568 GAAGTAGATCCAAGATGATTTGGCATCCTTGTGTTCACAAGGAGCAAATCGAAGACACAGCAGAT
66 GAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCACAAGGAGAAAATCGAAGACACAGCAGAT
17723633 TTGGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGA
131 TTGGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGA
17723698 ACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACTGAAGCAGATCCAAGATAAC
196 ACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACTGAAGCAGATCCAAGATAAC
*
17723763 AG
261 AA
* *
17723765 ATCTGGCATCTCCATTTTGATGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGATTTTACT
1 ATCTGGCATCTCCATTTCGATGGAGAGCAGATACATAACAGATCTAACCTTCAGATGATTTTACT
*
17723830 GAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCACAAGGAGAAAATTGAAGACACAGCAGAT
66 GAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCACAAGGAGAAAATCGAAGACACAGCAGAT
* * *
17723895 TTGGCTTTCATG-TGTTTATAATGAAGCAGATCTAAGATGATTTGGCA-TCATCGTGTTTACAAG
131 TTGGCTTTCA-GATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTC-TTGTGTTTACAAG
* * * *
17723958 GAGCAAATCGAAGACATAGCAGATTTGACCTTCAGATGTT-T-ACGCTGAAGCAGATCCAAGAT
194 GAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACTGAAGCAGATCCAAGAT
17724020 GATTTGGCAT
Statistics
Matches: 483, Mismatches: 31, Indels: 8
0.93 0.06 0.02
Matches are distributed among these distances:
260 20 0.04
261 4 0.01
262 458 0.95
263 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (262 bp):
ATCTGGCATCTCCATTTCGATGGAGAGCAGATACATAACAGATCTAACCTTCAGATGATTTTACT
GAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCACAAGGAGAAAATCGAAGACACAGCAGAT
TTGGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGA
ACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACTGAAGCAGATCCAAGATAAC
AA
Found at i:17724240 original size:87 final size:87
Alignment explanation
Indices: 17724128--17724602 Score: 534
Period size: 87 Copynumber: 5.4 Consensus size: 87
17724118 ATTCCTGTGC
* *
17724128 TTATTCTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCACAAGGAGCAAATCGAAGACAC
1 TTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCACAAGGAGCAAATCGAAGACAT
*
17724193 AGCAGATTTGGCTTTCAGATGT
66 AGCAGATTTGACTTTCAGATGT
* * *
17724215 TTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGACAT
1 TTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCACAAGGAGCAAATCGAAGACAT
*
17724280 AGCAGATTTGACTTTCGGATGT
66 AGCAGATTTGACTTTCAGATGT
* * *** * * *
17724302 TCTCACACTGAAGCAGATCCAAGATAACAGATCTGGCATCCCCAT-TTC-GATGGAG---AGC-A
1 T-T-ATACTGAAGCAGATCCAAGAT----GATTTGGCATCCTTGTGTTCACAAGGAGCAAATCGA
* * * *
17724361 GATACATAGCAGATCTAACCTTCAGATGAT
60 -AGACATAGCAGATTTGACTTTCAGATG-T
* *
17724391 TT-TACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCACAAGGAGCAAATTGAAGACAC
1 TTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCACAAGGAGCAAATCGAAGACAT
*
17724455 AGCAGATTTGGCTTTCATG-TGT
66 AGCAGATTTGACTTTCA-GATGT
* * * * *
17724477 TTATAATGAAGCAGATCTAAGATGATTTGGCATCATCGTGTTTACAAGGAGCAAATCGAAGACAT
1 TTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCACAAGGAGCAAATCGAAGACAT
*
17724542 AGCAGATTTGACCTTCAGATGT
66 AGCAGATTTGACTTTCAGATGT
** *
17724564 TTACGCTGAAGCAGATCCAAGATGATTTGGCATCTTTGT
1 TTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGT
17724603 ATTGTCAGAG
Statistics
Matches: 318, Mismatches: 53, Indels: 34
0.79 0.13 0.08
Matches are distributed among these distances:
82 12 0.04
83 3 0.01
84 5 0.02
86 23 0.07
87 208 0.65
88 28 0.09
89 22 0.07
91 4 0.01
92 2 0.01
93 11 0.03
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (87 bp):
TTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCACAAGGAGCAAATCGAAGACAT
AGCAGATTTGACTTTCAGATGT
Found at i:17724647 original size:567 final size:567
Alignment explanation
Indices: 17723566--17724807 Score: 2302
Period size: 567 Copynumber: 2.2 Consensus size: 567
17723556 AATGATTTTA
*
17723566 CTGAAGTAGATCCAAGATGATTTGGCATCCTTGTGTTCACAAGGAGCAAATCGAAGACACAGCAG
1 CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCACAAGGAGCAAATCGAAGACACAGCAG
17723631 ATTTGGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAG
66 ATTTGGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAG
17723696 GAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACTGAAGCAGATCCAAGATA
131 GAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACTGAAGCAGATCCAAGATA
* *
17723761 ACAGATCTGGCATCTCCATTTTGATGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGATTT
196 ACAGATCTGGCATCCCCATTTCGATGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGATTT
17723826 TACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCACAAGGAGAAAATTGAAGACACAGC
261 TACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCACAAGGAGAAAATTGAAGACACAGC
17723891 AGATTTGGCTTTCATGTGTTTATAATGAAGCAGATCTAAGATGATTTGGCATCATCGTGTTTACA
326 AGATTTGGCTTTCATGTGTTTATAATGAAGCAGATCTAAGATGATTTGGCATCATCGTGTTTACA
17723956 AGGAGCAAATCGAAGACATAGCAGATTTGACCTTCAGATGTTTACGCTGAAGCAGATCCAAGATG
391 AGGAGCAAATCGAAGACATAGCAGATTTGACCTTCAGATGTTTACGCTGAAGCAGATCCAAGATG
17724021 ATTTGGCATCTTTGTATTGTCAGAGAACAAATCGAAGAAATAGATTTGGCATCTCCATATTCGAT
456 ATTTGGCATCTTTGTATTGTCAGAGAACAAATCGAAGAAATAGATTTGGCATCTCCATATTCGAT
17724086 AGAGAACAGATTGAAGGCATAGTAGATCTGACATTCCTGTGCTTATT
521 AGAGAACAGATTGAAGGCATAGTAGATCTGACATTCCTGTGCTTATT
17724133 CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCACAAGGAGCAAATCGAAGACACAGCAG
1 CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCACAAGGAGCAAATCGAAGACACAGCAG
17724198 ATTTGGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAG
66 ATTTGGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAG
17724263 GAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACTGAAGCAGATCCAAGATA
131 GAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACTGAAGCAGATCCAAGATA
17724328 ACAGATCTGGCATCCCCATTTCGATGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGATTT
196 ACAGATCTGGCATCCCCATTTCGATGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGATTT
*
17724393 TACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCACAAGGAGCAAATTGAAGACACAGC
261 TACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCACAAGGAGAAAATTGAAGACACAGC
17724458 AGATTTGGCTTTCATGTGTTTATAATGAAGCAGATCTAAGATGATTTGGCATCATCGTGTTTACA
326 AGATTTGGCTTTCATGTGTTTATAATGAAGCAGATCTAAGATGATTTGGCATCATCGTGTTTACA
17724523 AGGAGCAAATCGAAGACATAGCAGATTTGACCTTCAGATGTTTACGCTGAAGCAGATCCAAGATG
391 AGGAGCAAATCGAAGACATAGCAGATTTGACCTTCAGATGTTTACGCTGAAGCAGATCCAAGATG
17724588 ATTTGGCATCTTTGTATTGTCAGAGAACAAATCGAAGAAATAGATTTGGCATCTCCATATTCGAT
456 ATTTGGCATCTTTGTATTGTCAGAGAACAAATCGAAGAAATAGATTTGGCATCTCCATATTCGAT
17724653 AGAGAACAGATTGAAGGCATAGTAGATCTGACATTCCTGTGCTTATT
521 AGAGAACAGATTGAAGGCATAGTAGATCTGACATTCCTGTGCTTATT
* * *
17724700 CTGAAGCAGATCCAAGATGATTTGGCATCCTTATGTT------TA-CAAATCGAAGACATAGCAG
1 CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCACAAGGAGCAAATCGAAGACACAGCAG
* * * * * *
17724758 ATGTGACTTTCACG-TGTTTATGCTGAAGTAAATCTAAGATGATTTGGCAT
66 ATTTGGCTTTCA-GATGTTTATACTGAAGCAGATCCAAGATGATTTGGCAT
17724808 CTCTGTATTG
Statistics
Matches: 661, Mismatches: 13, Indels: 9
0.97 0.02 0.01
Matches are distributed among these distances:
560 60 0.09
561 2 0.00
567 599 0.91
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (567 bp):
CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCACAAGGAGCAAATCGAAGACACAGCAG
ATTTGGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAG
GAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACTGAAGCAGATCCAAGATA
ACAGATCTGGCATCCCCATTTCGATGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGATTT
TACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCACAAGGAGAAAATTGAAGACACAGC
AGATTTGGCTTTCATGTGTTTATAATGAAGCAGATCTAAGATGATTTGGCATCATCGTGTTTACA
AGGAGCAAATCGAAGACATAGCAGATTTGACCTTCAGATGTTTACGCTGAAGCAGATCCAAGATG
ATTTGGCATCTTTGTATTGTCAGAGAACAAATCGAAGAAATAGATTTGGCATCTCCATATTCGAT
AGAGAACAGATTGAAGGCATAGTAGATCTGACATTCCTGTGCTTATT
Found at i:17726802 original size:5 final size:5
Alignment explanation
Indices: 17726792--17726848 Score: 55
Period size: 5 Copynumber: 11.6 Consensus size: 5
17726782 AATAGTTTTA
* * * *
17726792 TATAT TATAT TACA- TATAT TATAT TATAT AATTTT TATAT TATAT AAT-T
1 TATAT TATAT TATAT TATAT TATAT TATAT TA-TAT TATAT TATAT TATAT
17726841 TATAT TAT
1 TATAT TAT
17726849 TATATGTTTT
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
4 6 0.15
5 32 0.78
6 3 0.07
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:17726810 original size:14 final size:14
Alignment explanation
Indices: 17726791--17726817 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17726781 TAATAGTTTT
17726791 ATATATTATATTAC
1 ATATATTATATTAC
17726805 ATATATTATATTA
1 ATATATTATATTA
17726818 TATAATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (14 bp):
ATATATTATATTAC
Found at i:17726835 original size:14 final size:14
Alignment explanation
Indices: 17726796--17726848 Score: 63
Period size: 14 Copynumber: 3.6 Consensus size: 14
17726786 GTTTTATATA
*
17726796 TTATATTACAT-AT
1 TTATATTATATAAT
17726809 ATTATATTATATAATTT
1 -TTATATTATATAA--T
17726826 TTATATTATATAAT
1 TTATATTATATAAT
17726840 TTATATTAT
1 TTATATTAT
17726849 TATATGTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
14 20 0.57
15 1 0.03
16 13 0.37
17 1 0.03
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (14 bp):
TTATATTATATAAT
Found at i:17738577 original size:121 final size:121
Alignment explanation
Indices: 17738360--17738598 Score: 379
Period size: 121 Copynumber: 2.0 Consensus size: 121
17738350 ATACAAAATT
*
17738360 TTTCAAAGCTAAACAATTTTTCTAAGTTACAAAGGTCACACGCCCGTGTGAACAGGCCGTGTGCC
1 TTTCAAAGCTAAACAATTTTTCTAAGTTACAAAGGTCACACGCCAGTGTGAACAGGCCGTGTGCC
*
17738425 TCACATAGCATTAGACACGCCCGTGTCTCTAGGCCGTGGCAAAACAGGGCATAAAA
66 TCACACAGCATTAGACACGCCCGTGTCTCTAGGCCGTGGCAAAACAGGGCATAAAA
* * * *
17738481 TTTCAAAGCTAAACAATTTTTCTAAGTTATAAAGGTCACACGCCATTGTGAATAGGCTGTGTGCC
1 TTTCAAAGCTAAACAATTTTTCTAAGTTACAAAGGTCACACGCCAGTGTGAACAGGCCGTGTGCC
* * * * *
17738546 TTACACGGCATTAGACACTCCTGTGTGTCTAGGCCGTGGCAAAACAGGGCATA
66 TCACACAGCATTAGACACGCCCGTGTCTCTAGGCCGTGGCAAAACAGGGCATA
17738599 TATACTAACT
Statistics
Matches: 107, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
121 107 1.00
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (121 bp):
TTTCAAAGCTAAACAATTTTTCTAAGTTACAAAGGTCACACGCCAGTGTGAACAGGCCGTGTGCC
TCACACAGCATTAGACACGCCCGTGTCTCTAGGCCGTGGCAAAACAGGGCATAAAA
Found at i:17739826 original size:42 final size:43
Alignment explanation
Indices: 17739718--17739830 Score: 138
Period size: 43 Copynumber: 2.7 Consensus size: 43
17739708 AGCTCATACA
** * * *
17739718 ATGCCAACATCCCAAACGTGGTCCTACAAGTAATCAAATATCG
1 ATGCCAATGTCCCAAACATGGTCTTACAAGAAATCAAATATCG
* * * *
17739761 ATGCCACTGTCCCAGACAGGGTCTTACACGAAATCAAATAT-G
1 ATGCCAATGTCCCAAACATGGTCTTACAAGAAATCAAATATCG
17739803 ATGCCAATGTCCCAAACATGGTCTTACA
1 ATGCCAATGTCCCAAACATGGTCTTACA
17739831 TGTAATTATC
Statistics
Matches: 58, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
42 26 0.45
43 32 0.55
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (43 bp):
ATGCCAATGTCCCAAACATGGTCTTACAAGAAATCAAATATCG
Found at i:17760891 original size:32 final size:32
Alignment explanation
Indices: 17760851--17760943 Score: 186
Period size: 32 Copynumber: 2.9 Consensus size: 32
17760841 TATATATATA
17760851 TGTATTCGGCATGTAACTTAAATATGTATGTG
1 TGTATTCGGCATGTAACTTAAATATGTATGTG
17760883 TGTATTCGGCATGTAACTTAAATATGTATGTG
1 TGTATTCGGCATGTAACTTAAATATGTATGTG
17760915 TGTATTCGGCATGTAACTTAAATATGTAT
1 TGTATTCGGCATGTAACTTAAATATGTAT
17760944 ATGATTATTA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 61 1.00
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (32 bp):
TGTATTCGGCATGTAACTTAAATATGTATGTG
Found at i:17763320 original size:233 final size:233
Alignment explanation
Indices: 17762909--17763370 Score: 888
Period size: 233 Copynumber: 2.0 Consensus size: 233
17762899 CTCTATAATC
17762909 TCATACGGCCCAATGAACCTCGTACTAAATTTTCCTATACGACTGAACCGAAGTACTTTCTTCCA
1 TCATACGGCCCAATGAACCTCGTACTAAATTTTCCTATACGACTGAACCGAAGTACTTTCTTCCA
17762974 CGAAAATACTTTCAGAAACACTTTATCACCAATCTCAAATTAAATATTTTATTGTTTCAAATCTG
66 CGAAAATACTTTCAGAAACACTTTATCACCAATCTCAAATTAAATATTTTATTGTTTCAAATCTG
*
17763039 CATATGATTTTTGATGATCAGAAGCTACTTTCAGACTATCTGGAATTATTTTTACTTTCTATTCA
131 CATATGATTTTTGATGATCAGAAGCTACTTTCAGACTATCTCGAATTATTTTTACTTTCTATTCA
*
17763104 GTCTCTTTTATCAAGTCAATCCCATGTATTTTATCAAG
196 GTCTCTTTTATCAAGTCAACCCCATGTATTTTATCAAG
*
17763142 TCATACGGCCCAATGAACCTCGTACTAAATTTTCCTATACGACTGAACTGAAGTACTTTCTTCCA
1 TCATACGGCCCAATGAACCTCGTACTAAATTTTCCTATACGACTGAACCGAAGTACTTTCTTCCA
*
17763207 CGAAAATACTTTCAGAAACACTTTATCACCGATCTCAAATTAAATATTTTATTGTTTCAAATCTG
66 CGAAAATACTTTCAGAAACACTTTATCACCAATCTCAAATTAAATATTTTATTGTTTCAAATCTG
17763272 CATATGATTTTTGATGATCAGAAGCTACTTTCAGACTATCTCGAATTATTTTTACTTTCTATTCA
131 CATATGATTTTTGATGATCAGAAGCTACTTTCAGACTATCTCGAATTATTTTTACTTTCTATTCA
17763337 GTCTCTTTTATCAAGTCAACCCCATGTATTTTAT
196 GTCTCTTTTATCAAGTCAACCCCATGTATTTTAT
17763371 TTTCTCTGAG
Statistics
Matches: 225, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
233 225 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (233 bp):
TCATACGGCCCAATGAACCTCGTACTAAATTTTCCTATACGACTGAACCGAAGTACTTTCTTCCA
CGAAAATACTTTCAGAAACACTTTATCACCAATCTCAAATTAAATATTTTATTGTTTCAAATCTG
CATATGATTTTTGATGATCAGAAGCTACTTTCAGACTATCTCGAATTATTTTTACTTTCTATTCA
GTCTCTTTTATCAAGTCAACCCCATGTATTTTATCAAG
Found at i:17767942 original size:19 final size:21
Alignment explanation
Indices: 17767918--17767961 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
17767908 TTTGTTTTAA
17767918 TAAAAC-A-ATTTTAGTCTAC
1 TAAAACGACATTTTAGTCTAC
*
17767937 TAAAACGACATTTTGGTCTAC
1 TAAAACGACATTTTAGTCTAC
17767958 -AAAA
1 TAAAA
17767962 TCCAAGAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 6 0.27
20 5 0.23
21 11 0.50
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (21 bp):
TAAAACGACATTTTAGTCTAC
Found at i:17771254 original size:44 final size:45
Alignment explanation
Indices: 17771116--17771275 Score: 139
Period size: 44 Copynumber: 3.5 Consensus size: 45
17771106 CTTTAATGCA
*
17771116 CTCTACTGCAACTTCAGAGAGATAAGATTTGCCATGGTAGATTTGATCTG
1 CTCTACTGCAACTTCAGAGAGATAAGA-TT--C--GATAGATTTGATCTG
* * * * *
17771166 ACCCTACTGCAACTTCAGAG-GTATAGGATT-TATAGCTTTAATCTG
1 -CTCTACTGCAACTTCAGAGAG-ATAAGATTCGATAGATTTGATCTG
*
17771211 CTCTACTGCAACTTCAGAGAGATAAGATTCGCTA-ATTTGATCTG
1 CTCTACTGCAACTTCAGAGAGATAAGATTCGATAGATTTGATCTG
* *
17771255 CTCCACTACAA-TTCCAGAGAG
1 CTCTACTGCAACTT-CAGAGAG
17771276 GCAAGATCTG
Statistics
Matches: 91, Mismatches: 14, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
43 2 0.02
44 49 0.54
45 14 0.15
50 3 0.03
51 23 0.25
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (45 bp):
CTCTACTGCAACTTCAGAGAGATAAGATTCGATAGATTTGATCTG
Found at i:17779742 original size:19 final size:20
Alignment explanation
Indices: 17779718--17779761 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
17779708 GGCTCTTTTC
* *
17779718 ATGAAATTTAATGCACATG-
1 ATGAAATGTAATGCAAATGA
17779737 ATGAAATGTAATGCAAATGA
1 ATGAAATGTAATGCAAATGA
17779757 ATGAA
1 ATGAA
17779762 TGCAAAAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.48, C:0.07, G:0.18, T:0.27
Consensus pattern (20 bp):
ATGAAATGTAATGCAAATGA
Found at i:17783550 original size:21 final size:20
Alignment explanation
Indices: 17783520--17783571 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
17783510 AACTTAAAGT
*
17783520 AAATAATAATAAAAAATCTA
1 AAATCATAATAAAAAATCTA
* * *
17783540 AAATCATTAATGAAAAGTTTA
1 AAATCA-TAATAAAAAATCTA
17783561 AAATCATAATA
1 AAATCATAATA
17783572 CGTAAAAAGA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.62, C:0.06, G:0.04, T:0.29
Consensus pattern (20 bp):
AAATCATAATAAAAAATCTA
Found at i:17806163 original size:40 final size:40
Alignment explanation
Indices: 17806108--17806190 Score: 148
Period size: 40 Copynumber: 2.1 Consensus size: 40
17806098 ACACCATACT
*
17806108 GCATGTACGTTAGCTATGCTACGTACTACTATCTGATCTG
1 GCATGTACATTAGCTATGCTACGTACTACTATCTGATCTG
*
17806148 GCATGTACATTAGCTATGCTACGTACTACTATCTGATTTG
1 GCATGTACATTAGCTATGCTACGTACTACTATCTGATCTG
17806188 GCA
1 GCA
17806191 GTTCATACTG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (40 bp):
GCATGTACATTAGCTATGCTACGTACTACTATCTGATCTG
Found at i:17806621 original size:18 final size:18
Alignment explanation
Indices: 17806600--17806636 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
17806590 ACTGATATCA
17806600 TGACTGAATGTGATACTG
1 TGACTGAATGTGATACTG
*
17806618 TGACTGAATGTGTTACTG
1 TGACTGAATGTGATACTG
17806636 T
1 T
17806637 TCAACTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.11, G:0.27, T:0.38
Consensus pattern (18 bp):
TGACTGAATGTGATACTG
Found at i:17820920 original size:31 final size:31
Alignment explanation
Indices: 17820882--17820944 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
17820872 AATAGGTCAC
17820882 TTGATAAAGTGAGACTAGAAATGTATAACCA
1 TTGATAAAGTGAGACTAGAAATGTATAACCA
17820913 TTGATAAAGTGAGACTAGAAATGTATAACCA
1 TTGATAAAGTGAGACTAGAAATGTATAACCA
17820944 T
1 T
17820945 ACTCAAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.44, C:0.10, G:0.19, T:0.27
Consensus pattern (31 bp):
TTGATAAAGTGAGACTAGAAATGTATAACCA
Found at i:17824550 original size:19 final size:18
Alignment explanation
Indices: 17824528--17824567 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
17824518 TGAATAAAAC
17824528 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
17824547 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
17824565 TTA
1 TTA
17824568 AATTATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:17826608 original size:22 final size:22
Alignment explanation
Indices: 17826583--17826626 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
17826573 TCCCTCCTTG
17826583 AAGATTAGAATCAAAATAAGAT
1 AAGATTAGAATCAAAATAAGAT
17826605 AAGATTAGAATCAAAATAAGAT
1 AAGATTAGAATCAAAATAAGAT
17826627 TTTGTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.59, C:0.05, G:0.14, T:0.23
Consensus pattern (22 bp):
AAGATTAGAATCAAAATAAGAT
Found at i:17829185 original size:42 final size:42
Alignment explanation
Indices: 17829126--17829214 Score: 135
Period size: 42 Copynumber: 2.1 Consensus size: 42
17829116 TCCTAATTGG
*
17829126 GAAAATAGTTTCCTTATTTTAATAAACTACTAAAACATAAAA
1 GAAAATAGTTTCCTTATTCTAATAAACTACTAAAACATAAAA
*
17829168 GAAAATAG-TTCTCTTATTCTAATAAACTACTAAAAGATAAAA
1 GAAAATAGTTTC-CTTATTCTAATAAACTACTAAAACATAAAA
*
17829210 TAAAA
1 GAAAA
17829215 ATATTTCTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
41 3 0.07
42 40 0.93
ACGTcount: A:0.52, C:0.11, G:0.06, T:0.31
Consensus pattern (42 bp):
GAAAATAGTTTCCTTATTCTAATAAACTACTAAAACATAAAA
Found at i:17829235 original size:43 final size:42
Alignment explanation
Indices: 17829145--17829236 Score: 98
Period size: 42 Copynumber: 2.2 Consensus size: 42
17829135 TTCCTTATTT
* * * *
17829145 TAATAAACTACTAAAACATAAAAGAAAATAGTTCTCTTATTC
1 TAATAAACTACTAAAACATAAAAAAAAATAGTTCTCTAAATA
*
17829187 TAATAAACTACTAAAAGATAAAATAAAAATA-TT-TCTAAAATA
1 TAATAAACTACTAAAACATAAAA-AAAAATAGTTCTCT-AAATA
17829229 TGAATAAA
1 T-AATAAA
17829237 ACTTATCTAC
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
41 3 0.07
42 27 0.64
43 12 0.29
ACGTcount: A:0.57, C:0.10, G:0.04, T:0.29
Consensus pattern (42 bp):
TAATAAACTACTAAAACATAAAAAAAAATAGTTCTCTAAATA
Found at i:17833749 original size:97 final size:97
Alignment explanation
Indices: 17833591--17833772 Score: 319
Period size: 97 Copynumber: 1.9 Consensus size: 97
17833581 TTTATTTTCC
* *
17833591 CTATTCTTGTTTTGTTGCTATTGTTTACACCAACTGTTCTATAATAACACAATAGAAAGATCAAT
1 CTATTCTTGTTTTGTTGCTATTATTTACACCAACTGTTCTATAATAAAACAATAGAAAGATCAAT
17833656 AGAATAACGAAGTAAAACTCCTTCTATTTTTA
66 AGAATAACGAAGTAAAACTCCTTCTATTTTTA
* *
17833688 CTATTCTTGTTTTGTTGTTATTATTTACACCAACTGTTCTATAATAAAACAATAGACAGATCAAT
1 CTATTCTTGTTTTGTTGCTATTATTTACACCAACTGTTCTATAATAAAACAATAGAAAGATCAAT
*
17833753 AGAATAATGAAGTAAAACTC
66 AGAATAACGAAGTAAAACTC
17833773 TTTGTGGTTT
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
97 80 1.00
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.37
Consensus pattern (97 bp):
CTATTCTTGTTTTGTTGCTATTATTTACACCAACTGTTCTATAATAAAACAATAGAAAGATCAAT
AGAATAACGAAGTAAAACTCCTTCTATTTTTA
Found at i:17840489 original size:34 final size:34
Alignment explanation
Indices: 17840446--17840549 Score: 190
Period size: 34 Copynumber: 3.1 Consensus size: 34
17840436 GTAAAGGCAG
17840446 TCAGTCATAGTGCACCAGGTGCACATTTCTTTTC
1 TCAGTCATAGTGCACCAGGTGCACATTTCTTTTC
17840480 TCAGTCATAGTGCACCAGGTGCACATTTCTTTTC
1 TCAGTCATAGTGCACCAGGTGCACATTTCTTTTC
* *
17840514 TCAGTCATAGTGCACCAGTTGCACATTTCTTGTC
1 TCAGTCATAGTGCACCAGGTGCACATTTCTTTTC
17840548 TC
1 TC
17840550 TTGGCATTCA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 68 1.00
ACGTcount: A:0.20, C:0.27, G:0.17, T:0.36
Consensus pattern (34 bp):
TCAGTCATAGTGCACCAGGTGCACATTTCTTTTC
Found at i:17841904 original size:30 final size:30
Alignment explanation
Indices: 17841868--17841928 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
17841858 ATTGGTTGGA
17841868 GAATCAAATGGTTTATTAATGATTGCTTTC
1 GAATCAAATGGTTTATTAATGATTGCTTTC
17841898 GAATCAAATGGTTTATTAATGATTGCTTTC
1 GAATCAAATGGTTTATTAATGATTGCTTTC
17841928 G
1 G
17841929 GAGTGGCAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.43
Consensus pattern (30 bp):
GAATCAAATGGTTTATTAATGATTGCTTTC
Found at i:17844466 original size:49 final size:47
Alignment explanation
Indices: 17844407--17844516 Score: 148
Period size: 49 Copynumber: 2.3 Consensus size: 47
17844397 CTTGAGGCAT
17844407 GCCAGTGTAAGACCTGTCTGAGACATGACATCGACACAGATAAGTAAGA
1 GCCAGTGTAAGACCTGTCTGAGACATGACATCGACACAGAT--GTAAGA
* * * ** *
17844456 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACTTAGATGTGAGA
1 GCCAGTGTAAGACCTGTCTGAGACATGACATCGACACAGATGTAAGA
17844503 GCCAGTGTAAGACC
1 GCCAGTGTAAGACC
17844517 ATGTTTGGAA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
47 18 0.33
49 36 0.67
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.21
Consensus pattern (47 bp):
GCCAGTGTAAGACCTGTCTGAGACATGACATCGACACAGATGTAAGA
Found at i:17846979 original size:48 final size:49
Alignment explanation
Indices: 17846923--17847016 Score: 120
Period size: 49 Copynumber: 1.9 Consensus size: 49
17846913 CACACGCCTG
* *
17846923 TGTCTATTTAACAGA-TTGCAACACGGCCTATGCCACAC-CACACGGTCA
1 TGTCTATTTAACAGACTTGAAACACGGCCTAAGCCAC-CTCACACGGTCA
* * *
17846971 TGTCTATTTAGCATACTTTAAACACGGCCTAAGCCACCTCACACGG
1 TGTCTATTTAACAGACTTGAAACACGGCCTAAGCCACCTCACACGG
17847017 ATGTGTCACA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
48 14 0.36
49 25 0.64
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (49 bp):
TGTCTATTTAACAGACTTGAAACACGGCCTAAGCCACCTCACACGGTCA
Found at i:17847416 original size:14 final size:13
Alignment explanation
Indices: 17847396--17847432 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
17847386 AATACTTGAT
17847396 TTGTTCTTAATTA
1 TTGTTCTTAATTA
17847409 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
17847423 TTGTT-TTAAT
1 TTGTTCTTAAT
17847433 ATTCCAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.22
13 5 0.22
14 13 0.57
ACGTcount: A:0.22, C:0.05, G:0.11, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:17853681 original size:19 final size:19
Alignment explanation
Indices: 17853627--17853671 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
17853617 CGTGTCTATT
17853627 TAAGCCACACCACACGGCC
1 TAAGCCACACCACACGGCC
17853646 TAAGCCACACCACACGGCC
1 TAAGCCACACCACACGGCC
17853665 TAAGCCA
1 TAAGCCA
17853672 TCTCATACGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.33, C:0.44, G:0.16, T:0.07
Consensus pattern (19 bp):
TAAGCCACACCACACGGCC
Found at i:17853939 original size:3 final size:3
Alignment explanation
Indices: 17853931--17853956 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
17853921 TTTTGTTTTG
17853931 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
17853957 TTTCTGAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:17867391 original size:43 final size:43
Alignment explanation
Indices: 17867048--17867375 Score: 435
Period size: 43 Copynumber: 7.6 Consensus size: 43
17867038 TTATCGTACA
* *
17867048 ATGCTAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* * * *
17867091 ATGCC-ACTGTCCCAGATAG-GGTCTTACTCGTAAACATATATCG
1 ATGCCAAC-GTCCCAGA-CGTGGTCTTACACGTAATCACATATCG
* *
17867134 CTGCTAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* * *
17867177 ATGCCAACGTCCTAGATGTGCTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* * * *
17867220 ATGCCAATGACCCAAACATGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* *
17867263 ATGCCAACGTCCCAGACGTGGTCTTACATGTAGTCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* * *
17867306 ATGCCATCATCCCAGACGTGGTCTTACACGTAATCACATATTG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
*
17867349 ATGCCAACGTCCTAGACGTGGTCTTAC
1 ATGCCAACGTCCCAGACGTGGTCTTAC
17867376 TCACACACAC
Statistics
Matches: 243, Mismatches: 38, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
42 3 0.01
43 237 0.98
44 3 0.01
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.27
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
Found at i:17867424 original size:56 final size:56
Alignment explanation
Indices: 17867337--17867468 Score: 192
Period size: 56 Copynumber: 2.4 Consensus size: 56
17867327 TCTTACACGT
* * * **
17867337 AATCACATATTGATGCCAACGTCCTAGACGTGGTCTTACTCACACACACATATTGG
1 AATCACATATCGATGCCAACGTACTAAACGTGGTCTTACTCACACACACATATCAG
* * *
17867393 AATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACACGTATCAG
1 AATCACATATCGATGCCAACGTACTAAACGTGGTCTTACTCACACACACATATCAG
17867449 AATCACATATCGATGCCAAC
1 AATCACATATCGATGCCAAC
17867469 TCAAAAAATG
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 68 1.00
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (56 bp):
AATCACATATCGATGCCAACGTACTAAACGTGGTCTTACTCACACACACATATCAG
Found at i:17876712 original size:28 final size:28
Alignment explanation
Indices: 17876672--17876727 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
17876662 CAAACTAACC
17876672 AATAAGTAAGGAGAAAACATATGTTCTT
1 AATAAGTAAGGAGAAAACATATGTTCTT
*
17876700 AATAAGTAGGGAGAAAACATATGTTCTT
1 AATAAGTAAGGAGAAAACATATGTTCTT
17876728 TCTCATATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.45, C:0.07, G:0.20, T:0.29
Consensus pattern (28 bp):
AATAAGTAAGGAGAAAACATATGTTCTT
Found at i:17877551 original size:27 final size:27
Alignment explanation
Indices: 17877513--17877569 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
17877503 ATTCCCCCAA
17877513 ACTTAAAGTTTGCATTGTCTTCAATGC
1 ACTTAAAGTTTGCATTGTCTTCAATGC
17877540 ACTTAAAGTTTGCATTGTCTTCAATGC
1 ACTTAAAGTTTGCATTGTCTTCAATGC
17877567 ACT
1 ACT
17877570 AACATTTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.40
Consensus pattern (27 bp):
ACTTAAAGTTTGCATTGTCTTCAATGC
Found at i:17881340 original size:23 final size:23
Alignment explanation
Indices: 17881313--17881366 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
17881303 GTATATATAC
*
17881313 TAGCAGCTTTGCTGCGTTACTAT
1 TAGCAACTTTGCTGCGTTACTAT
*
17881336 TAGCAACTTTGTTGCGTTACTAT
1 TAGCAACTTTGCTGCGTTACTAT
17881359 TAGCAACT
1 TAGCAACT
17881367 ACGTTGCGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (23 bp):
TAGCAACTTTGCTGCGTTACTAT
Found at i:17881372 original size:23 final size:23
Alignment explanation
Indices: 17881325--17881380 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
17881315 GCAGCTTTGC
**
17881325 TGCGTTACTATTAGCAACTTTGT
1 TGCGTTACTATTAGCAACTACGT
17881348 TGCGTTACTATTAGCAACTACGT
1 TGCGTTACTATTAGCAACTACGT
*
17881371 TGCGATACTA
1 TGCGTTACTA
17881381 GTGAGCTAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.38
Consensus pattern (23 bp):
TGCGTTACTATTAGCAACTACGT
Found at i:17881456 original size:21 final size:21
Alignment explanation
Indices: 17881415--17881457 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
17881405 AATCCCCACA
* *
17881415 TGGTGAGTTGGTTGGTATGGG
1 TGGTGAGCTGGTTGATATGGG
17881436 TGGTGAGCTGGTTTGAT-TGGG
1 TGGTGAGCTGG-TTGATATGGG
17881457 T
1 T
17881458 TGGGTTGCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.09, C:0.02, G:0.49, T:0.40
Consensus pattern (21 bp):
TGGTGAGCTGGTTGATATGGG
Found at i:17884980 original size:27 final size:27
Alignment explanation
Indices: 17884932--17884990 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
17884922 ATGTGCCTAA
* * *
17884932 CATACTTATTGATGACTCTGTGTTGAT
1 CATATTTATTGAAGACTCTGTGTCGAT
* *
17884959 CATATTTATTGAAGGCTGTGTGTCGAT
1 CATATTTATTGAAGACTCTGTGTCGAT
*
17884986 TATAT
1 CATAT
17884991 AACCGTCATT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.24, C:0.12, G:0.20, T:0.44
Consensus pattern (27 bp):
CATATTTATTGAAGACTCTGTGTCGAT
Found at i:17891097 original size:34 final size:34
Alignment explanation
Indices: 17891054--17891121 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
17891044 GAATGTCGTG
*
17891054 CATGGGACAATGTCAAAGCAAAGATTTATAACGT
1 CATGGGACAACGTCAAAGCAAAGATTTATAACGT
17891088 CATGGGACAACGTCAAAGCAAAGATTTATAACGT
1 CATGGGACAACGTCAAAGCAAAGATTTATAACGT
17891122 TCTCATATGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.22
Consensus pattern (34 bp):
CATGGGACAACGTCAAAGCAAAGATTTATAACGT
Found at i:17910461 original size:43 final size:42
Alignment explanation
Indices: 17910338--17910491 Score: 186
Period size: 42 Copynumber: 3.6 Consensus size: 42
17910328 TAAGTCTATG
**
17910338 TGTAAGACCATATCTGGGATATGGCATC-A-ACATGAGATTTTG
1 TGTAAGACCATATCTGGGATATGGCATCGATACA--AGATTTCA
**
17910380 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTCA
1 TGTAAGACCATATCTGGGATATGGCATCGATACAAGATTTCA
* * * *
17910422 TATAAGACCATAGCTGGGCTATTGGCATCGATACAAGATTACA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATACAAGATTTCA
*
17910465 TGTAAGACCATATCTGGGATACGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
17910492 TGGTATGGTA
Statistics
Matches: 95, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
42 57 0.60
43 37 0.39
44 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATACAAGATTTCA
Found at i:17914330 original size:79 final size:81
Alignment explanation
Indices: 17914194--17914376 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
17914184 TCGAATGATG
* *
17914194 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTAGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
17914258 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
17914273 TTCCGGGCTAAG-CCCGAAGGCATTAGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTAGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
17914335 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
17914353 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
17914377 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTAGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:17914392 original size:40 final size:40
Alignment explanation
Indices: 17914195--17914378 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
17914185 CGAATGATGT
* * * *
17914195 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
17914235 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
17914275 CCGGGCTAAG-CCCGAAGGCATTAGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
17914313 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
17914354 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
17914379 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:17914400 original size:79 final size:79
Alignment explanation
Indices: 17914247--17914411 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
17914237 GGACTAAGAT
* **
17914247 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTAGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTAGAACGAGTTACTAA
*
17914312 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
17914326 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTAGAACGAGTTA-C
* *
17914389 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
17914405 CCGAAGG
1 CCGAAGG
17914412 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTAGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:17917350 original size:26 final size:26
Alignment explanation
Indices: 17917314--17917366 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
17917304 GTGCAAAAGG
17917314 GTAAACTTACCATGAGAGTTCAAGAT
1 GTAAACTTACCATGAGAGTTCAAGAT
17917340 GTAAACTTACCATGAGAGTTCAAGAT
1 GTAAACTTACCATGAGAGTTCAAGAT
17917366 G
1 G
17917367 ATCACGTAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (26 bp):
GTAAACTTACCATGAGAGTTCAAGAT
Done.